View Alignment

This page shows all the targets hit by the same query that passed the project filter. Click a track to view the detailed alignment.

Legend
 Query
 Query hiting target  Query hiting target's complemental strand
 Query's complemental strand hiting target  Query's complemental strand hiting target's complemental strand

Alignment Overview

Query: NF9889_low_9 (Length: 422)

Name: NF9889_low_9
Description: NF9889
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF9889_low_9
NF9889_low_9
[»] chr4 (6 HSPs)
chr4 (12-407)||(33814482-33814877)
chr4 (276-338)||(11307334-11307396)
chr4 (276-338)||(47680673-47680735)
chr4 (261-307)||(38534496-38534542)
chr4 (265-338)||(20090545-20090618)
chr4 (276-304)||(47681223-47681251)
[»] chr5 (2 HSPs)
chr5 (263-335)||(28296058-28296130)
chr5 (285-357)||(27856164-27856234)
[»] chr1 (5 HSPs)
chr1 (229-381)||(11199934-11200082)
chr1 (277-339)||(26231700-26231762)
chr1 (238-357)||(38637545-38637662)
chr1 (267-357)||(11766012-11766100)
chr1 (264-303)||(48273306-48273345)
[»] chr2 (3 HSPs)
chr2 (261-340)||(14571878-14571957)
chr2 (251-349)||(8252608-8252704)
chr2 (278-338)||(19548196-19548256)
[»] chr3 (6 HSPs)
chr3 (263-349)||(43407669-43407755)
chr3 (263-328)||(54328774-54328839)
chr3 (276-338)||(40196155-40196217)
chr3 (276-338)||(43481640-43481702)
chr3 (285-338)||(43978628-43978681)
chr3 (278-338)||(23161956-23162016)
[»] chr8 (5 HSPs)
chr8 (267-326)||(42115199-42115258)
chr8 (245-350)||(5073024-5073127)
chr8 (286-351)||(11806729-11806794)
chr8 (276-357)||(5981486-5981565)
chr8 (277-317)||(12156399-12156439)
[»] chr7 (3 HSPs)
chr7 (285-338)||(11776400-11776453)
chr7 (266-338)||(33730086-33730158)
chr7 (255-298)||(33730413-33730456)
[»] scaffold0039 (1 HSPs)
scaffold0039 (276-350)||(29063-29137)


Alignment Details
Target: chr4 (Bit Score: 372; Significance: 0; HSPs: 6)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 372; E-Value: 0
Query Start/End: Original strand, 12 - 407
Target Start/End: Original strand, 33814482 - 33814877
Alignment:
Q  12 agagagggagacgtctctcttcagcccaaaatcttaaaacgttacattttactcattaataaatgatatgagacttaaccatccacacttgaatccaaag 111  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||| |||||||  ||||||||||||||||||||||| |    
T  33814482 agagagggagacgtctctcttcagcccaaaatcttaaaacgttacattttattcattaataaatggtatgagaaataaccatccacacttgaatccaatg 33814581  T
Q  112 atctctccctcaagtgtttttaacgtcctataataggatccaaaacaggatccagctcttgctcccctaccaagttgaactaggcatctgataccacttg 211  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||    
T  33814582 atctctccctcaagtgtttttaacgtcctataataggatccaaaacaggatccagctcttgctcccctaccaagttgaactagggatctgataccacttg 33814681  T
Q  212 ttggggagtctgggtaagtcgggaacaacaacagggcaaaatgttccaaggccacaagagagggagacaccatatctccacccaaaaccttaatgtatta 311  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  33814682 ttggggagtctgggtaagtcgggaacaacaacagggcaaaatgttccaaggccacaagagagggagacaccatatctccacccaaaaccttaatgtatta 33814781  T
Q  312 ggtatacgggtcacctctcttatatatatccaacattttatccattgacatgcgatgtgagacttgaccaacttacacttgtactcaacatgaagt 407  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  33814782 ggtatacgggtcacctctcttatatatatccaacattttatccattgacatgcgatgtgagacttgaccaacttacacttgtactcaacatgaagt 33814877  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr4; HSP #2
Raw Score: 35; E-Value: 0.0000000002
Query Start/End: Original strand, 276 - 338
Target Start/End: Original strand, 11307334 - 11307396
Alignment:
Q  276 agacaccatatctccacccaaaaccttaatgtattaggtatacgggtcacctctcttatatat 338  Q
    |||||||| ||||||||||||||| |||| | || ||||||||| ||| ||||||||||||||    
T  11307334 agacaccacatctccacccaaaacattaaggcatcaggtatacgtgtcccctctcttatatat 11307396  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr4; HSP #3
Raw Score: 35; E-Value: 0.0000000002
Query Start/End: Original strand, 276 - 338
Target Start/End: Complemental strand, 47680735 - 47680673
Alignment:
Q  276 agacaccatatctccacccaaaaccttaatgtattaggtatacgggtcacctctcttatatat 338  Q
    |||||||| |||||||||||||||||||| | || ||||||| ||||| |||||| |||||||    
T  47680735 agacaccacatctccacccaaaaccttaaggcatcaggtatatgggtctcctctcatatatat 47680673  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr4; HSP #4
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 261 - 307
Target Start/End: Complemental strand, 38534542 - 38534496
Alignment:
Q  261 ggccacaagagagggagacaccatatctccacccaaaaccttaatgt 307  Q
    |||||||| |||||||| ||| | |||||||||||||||||||||||    
T  38534542 ggccacaaaagagggaggcactaaatctccacccaaaaccttaatgt 38534496  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr4; HSP #5
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 265 - 338
Target Start/End: Original strand, 20090545 - 20090618
Alignment:
Q  265 acaagagagggagacaccatatctccacccaaaaccttaatgtattaggtatacgggtcacctctcttatatat 338  Q
    ||||||| ||||||||| |  || ||| |||||||| ||||| ||||||||||   ||||||||||||||||||    
T  20090545 acaagagggggagacacgacgtcgccatccaaaaccctaatgcattaggtatataagtcacctctcttatatat 20090618  T

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Target: chr4; HSP #6
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 276 - 304
Target Start/End: Complemental strand, 47681251 - 47681223
Alignment:
Q  276 agacaccatatctccacccaaaaccttaa 304  Q
    |||||||||||||||||||||||||||||    
T  47681251 agacaccatatctccacccaaaaccttaa 47681223  T

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Target: chr5 (Bit Score: 53; Significance: 3e-21; HSPs: 2)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 53; E-Value: 3e-21
Query Start/End: Original strand, 263 - 335
Target Start/End: Original strand, 28296058 - 28296130
Alignment:
Q  263 ccacaagagagggagacaccatatctccacccaaaaccttaatgtattaggtatacgggtcacctctcttata 335  Q
    ||||||||||||||||||||| ||||||||||||||||||||   |||||||||| |||||||||||||||||    
T  28296058 ccacaagagagggagacaccacatctccacccaaaaccttaagagattaggtatatgggtcacctctcttata 28296130  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr5; HSP #2
Raw Score: 34; E-Value: 0.0000000006
Query Start/End: Original strand, 285 - 357
Target Start/End: Complemental strand, 27856234 - 27856164
Alignment:
Q  285 atctccacccaaaaccttaatgtattaggtatacgggtcacctctcttatatatatccaacattttatccatt 357  Q
    ||||||||||||||| |||| | |||||||||| | | ||||||||||||  ||||||||||||||| |||||    
T  27856234 atctccacccaaaactttaaggcattaggtatatgagccacctctcttat--atatccaacattttacccatt 27856164  T

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Target: chr1 (Bit Score: 51; Significance: 4e-20; HSPs: 5)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 51; E-Value: 4e-20
Query Start/End: Original strand, 229 - 381
Target Start/End: Complemental strand, 11200082 - 11199934
Alignment:
Q  229 gtcgggaacaacaacagggcaaaatgttccaaggccacaagagagggagacaccatatctccacccaaaaccttaatgtattaggtatacgggtcacctc 328  Q
    |||||||||||||||| | |||  || |||| | |||||| |||||||||| ||| |||||||||||||||||||| | |||||| ||| | ||||||||    
T  11200082 gtcgggaacaacaacaagtcaa--tgatccaggaccacaacagagggagacgccacatctccacccaaaaccttaaggcattaggcatatgagtcacctc 11199985  T
Q  329 tcttatatatatccaacattttatccattgacatgcgatgtgagacttgacca 381  Q
    ||||||  ||||||||||||||| | ||| | | || ||||||||||| ||||    
T  11199984 tcttat--atatccaacattttacctattcataggcaatgtgagacttaacca 11199934  T

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Target: chr1; HSP #2
Raw Score: 39; E-Value: 0.0000000000006
Query Start/End: Original strand, 277 - 339
Target Start/End: Original strand, 26231700 - 26231762
Alignment:
Q  277 gacaccatatctccacccaaaaccttaatgtattaggtatacgggtcacctctcttatatata 339  Q
    ||||||| |||||||||||||||||||| ||| | |||||| ||||| |||||||||||||||    
T  26231700 gacaccacatctccacccaaaaccttaaggtaattggtatatgggtcccctctcttatatata 26231762  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr1; HSP #3
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 238 - 357
Target Start/End: Complemental strand, 38637662 - 38637545
Alignment:
Q  238 aacaacagggcaaaatgttccaaggccacaagagagggagacaccatatctccacccaaaaccttaatgtattaggtatacgggtcacctctcttatata 337  Q
    ||||||||| | ||||| |||| | | ||||||||||||||  ||  |||||||||||| ||||||| | ||||||||||  ||||||||| ||  ||||    
T  38637662 aacaacaggcccaaatgctccaggactacaagagagggagatgccgcatctccacccaataccttaaggcattaggtatataggtcacctcact--tata 38637565  T
Q  338 tatccaacattttatccatt 357  Q
    |  |||||||||||||||||    
T  38637564 tggccaacattttatccatt 38637545  T

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Target: chr1; HSP #4
Raw Score: 36; E-Value: 0.00000000004
Query Start/End: Original strand, 267 - 357
Target Start/End: Original strand, 11766012 - 11766100
Alignment:
Q  267 aagagagggagacaccatatctccacccaaaaccttaatgtattaggtatacgggtcacctctcttatatatatccaacattttatccatt 357  Q
    ||||||||||||| ||| |||||||||||||||||||| | |||||||  |  ||||| ||||||  |||| ||||||||||||| |||||    
T  11766012 aagagagggagacgccacatctccacccaaaaccttaaggcattaggttaataggtcaactctct--tataaatccaacattttacccatt 11766100  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr1; HSP #5
Raw Score: 32; E-Value: 0.000000009
Query Start/End: Original strand, 264 - 303
Target Start/End: Complemental strand, 48273345 - 48273306
Alignment:
Q  264 cacaagagagggagacaccatatctccacccaaaacctta 303  Q
    |||||||||||||||| |||||||||||||||||| ||||    
T  48273345 cacaagagagggagacgccatatctccacccaaaaactta 48273306  T

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Target: chr2 (Bit Score: 44; Significance: 7e-16; HSPs: 3)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 44; E-Value: 7e-16
Query Start/End: Original strand, 261 - 340
Target Start/End: Original strand, 14571878 - 14571957
Alignment:
Q  261 ggccacaagagagggagacaccatatctccacccaaaaccttaatgtattaggtatacgggtcacctctcttatatatat 340  Q
    |||||||||||||||||| |||| ||||||| ||||||||||||   | |||| |||||||||| |||||||||||||||    
T  14571878 ggccacaagagagggagaaaccacatctccaaccaaaaccttaaaccaataggaatacgggtcatctctcttatatatat 14571957  T

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Target: chr2; HSP #2
Raw Score: 40; E-Value: 0.0000000000002
Query Start/End: Original strand, 251 - 349
Target Start/End: Original strand, 8252608 - 8252704
Alignment:
Q  251 aatgttccaaggccacaagagagggagacaccatatctccacccaaaaccttaatgtattaggtatacgggtcacctctcttatatatatccaacattt 349  Q
    |||||||||||  || ||||||||| ||||||| ||||||| ||||||| |||| |  ||||||||||| || ||||||||||||  ||||||||||||    
T  8252608 aatgttccaagatcataagagagggcgacaccacatctccatccaaaactttaaggcgttaggtatacgagttacctctcttata--tatccaacattt 8252704  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr2; HSP #3
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 278 - 338
Target Start/End: Complemental strand, 19548256 - 19548196
Alignment:
Q  278 acaccatatctccacccaaaaccttaatgtattaggtatacgggtcacctctcttatatat 338  Q
    |||||| ||||||||||||||||||||   ||||| |||| ||||| ||||||||||||||    
T  19548256 acaccacatctccacccaaaaccttaagacattagatatatgggtctcctctcttatatat 19548196  T

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Target: chr3 (Bit Score: 43; Significance: 0.000000000000003; HSPs: 6)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 43; E-Value: 0.000000000000003
Query Start/End: Original strand, 263 - 349
Target Start/End: Complemental strand, 43407755 - 43407669
Alignment:
Q  263 ccacaagagagggagacaccatatctccacccaaaaccttaatgtattaggtatacgggtcacctctcttatatatatccaacattt 349  Q
    |||||||| |||||||| ||  |||||||||||||||||||    |||||||||| | ||||||| |||||||||||||||||||||    
T  43407755 ccacaagatagggagactccggatctccacccaaaaccttacgtcattaggtatatgagtcacctttcttatatatatccaacattt 43407669  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr3; HSP #2
Raw Score: 34; E-Value: 0.0000000006
Query Start/End: Original strand, 263 - 328
Target Start/End: Original strand, 54328774 - 54328839
Alignment:
Q  263 ccacaagagagggagacaccatatctccacccaaaaccttaatgtattaggtatacgggtcacctc 328  Q
    |||||||||| |||||||||| |||||||||||||| ||||  |  ||||||||| ||||||||||    
T  54328774 ccacaagagacggagacaccacatctccacccaaaatcttatggcgttaggtatatgggtcacctc 54328839  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr3; HSP #3
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 276 - 338
Target Start/End: Original strand, 40196155 - 40196217
Alignment:
Q  276 agacaccatatctccacccaaaaccttaatgtattaggtatacgggtcacctctcttatatat 338  Q
    |||| |||||||||||||||||||||||| |  | ||||||| ||||| ||||||||| ||||    
T  40196155 agactccatatctccacccaaaaccttaaggcgtcaggtatatgggtcccctctcttacatat 40196217  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr3; HSP #4
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 276 - 338
Target Start/End: Complemental strand, 43481702 - 43481640
Alignment:
Q  276 agacaccatatctccacccaaaaccttaatgtattaggtatacgggtcacctctcttatatat 338  Q
    |||| ||| ||||||||| |||| ||||||| || ||||||| ||||| ||||||||||||||    
T  43481702 agacgccacatctccacctaaaatcttaatgcatcaggtatatgggtcccctctcttatatat 43481640  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr3; HSP #5
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 285 - 338
Target Start/End: Original strand, 43978628 - 43978681
Alignment:
Q  285 atctccacccaaaaccttaatgtattaggtatacgggtcacctctcttatatat 338  Q
    |||||||||||||||||||| | | |||||||| | ||| ||||||||||||||    
T  43978628 atctccacccaaaaccttaaggcaataggtatatgagtctcctctcttatatat 43978681  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr3; HSP #6
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 278 - 338
Target Start/End: Complemental strand, 23162016 - 23161956
Alignment:
Q  278 acaccatatctccacccaaaaccttaatgtattaggtatacgggtcacctctcttatatat 338  Q
    |||||| |||||||||||||| ||||| | ||  |||||| | ||||||||||||||||||    
T  23162016 acaccacatctccacccaaaatcttaaggcatcgggtatatgagtcacctctcttatatat 23161956  T

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Target: chr8 (Bit Score: 40; Significance: 0.0000000000002; HSPs: 5)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 40; E-Value: 0.0000000000002
Query Start/End: Original strand, 267 - 326
Target Start/End: Complemental strand, 42115258 - 42115199
Alignment:
Q  267 aagagagggagacaccatatctccacccaaaaccttaatgtattaggtatacgggtcacc 326  Q
    ||||||||||||||||| |||||||||||||||||||||| |||| ||||| || |||||    
T  42115258 aagagagggagacaccacatctccacccaaaaccttaatgcattatgtatatggttcacc 42115199  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr8; HSP #2
Raw Score: 39; E-Value: 0.0000000000006
Query Start/End: Original strand, 245 - 350
Target Start/End: Complemental strand, 5073127 - 5073024
Alignment:
Q  245 gggcaaaatgttccaaggccacaagagagggagacaccatatctccacccaaaaccttaatgtattaggtatacgggtcacctctcttatatatatccaa 344  Q
    |||| ||||| |||| | |||||||||||||||||  || |||||||||||||||||||| | |||| ||||| | | | ||||||||||  ||||||||    
T  5073127 gggctaaatgctccaggaccacaagagagggagacgacacatctccacccaaaaccttaaggcattacgtatatgagacgcctctcttat--atatccaa 5073030  T
Q  345 catttt 350  Q
    ||||||    
T  5073029 catttt 5073024  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr8; HSP #3
Raw Score: 38; E-Value: 0.000000000002
Query Start/End: Original strand, 286 - 351
Target Start/End: Complemental strand, 11806794 - 11806729
Alignment:
Q  286 tctccacccaaaaccttaatgtattaggtatacgggtcacctctcttatatatatccaacatttta 351  Q
    ||||||||||||||||||| | |  ||||||| |||||||||||||||||||||  ||||||||||    
T  11806794 tctccacccaaaaccttaaggcacaaggtatatgggtcacctctcttatatatacacaacatttta 11806729  T

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Target: chr8; HSP #4
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 276 - 357
Target Start/End: Original strand, 5981486 - 5981565
Alignment:
Q  276 agacaccatatctccacccaaaaccttaatgtattaggtatacgggtcacctctcttatatatatccaacattttatccatt 357  Q
    |||||||| || ||||||||||||||||| | || ||||| | ||||| |||||||||||  |||||||| |||| ||||||    
T  5981486 agacaccacatttccacccaaaaccttaaggcatcaggtacatgggtcccctctcttata--tatccaacgttttctccatt 5981565  T

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Target: chr8; HSP #5
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 277 - 317
Target Start/End: Complemental strand, 12156439 - 12156399
Alignment:
Q  277 gacaccatatctccacccaaaaccttaatgtattaggtata 317  Q
    ||||||| |||||||||| ||||||||| ||||||||||||    
T  12156439 gacaccacatctccaccctaaaccttaacgtattaggtata 12156399  T

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Target: chr7 (Bit Score: 38; Significance: 0.000000000002; HSPs: 3)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 38; E-Value: 0.000000000002
Query Start/End: Original strand, 285 - 338
Target Start/End: Original strand, 11776400 - 11776453
Alignment:
Q  285 atctccacccaaaaccttaatgtattaggtatacgggtcacctctcttatatat 338  Q
    |||||||||||||||||||| |||||| ||||| ||||| ||||||||||||||    
T  11776400 atctccacccaaaaccttaaggtattatgtatatgggtcccctctcttatatat 11776453  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr7; HSP #2
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 266 - 338
Target Start/End: Original strand, 33730086 - 33730158
Alignment:
Q  266 caagagagggagacaccatatctccacccaaaaccttaatgtattaggtatacgggtcacctctcttatatat 338  Q
    ||||||| |||| ||||| ||||||| |||||||||||||| ||||| | || |||||||||||||| |||||    
T  33730086 caagagatggaggcaccacatctccatccaaaaccttaatgcattagctctatgggtcacctctcttttatat 33730158  T

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Target: chr7; HSP #3
Raw Score: 32; E-Value: 0.000000009
Query Start/End: Original strand, 255 - 298
Target Start/End: Original strand, 33730413 - 33730456
Alignment:
Q  255 ttccaaggccacaagagagggagacaccatatctccacccaaaa 298  Q
    ||||||| ||||||||||||||||| ||| ||||||||||||||    
T  33730413 ttccaagaccacaagagagggagacgccacatctccacccaaaa 33730456  T

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Target: scaffold0039 (Bit Score: 35; Significance: 0.0000000002; HSPs: 1)
Name: scaffold0039
Description:

Target: scaffold0039; HSP #1
Raw Score: 35; E-Value: 0.0000000002
Query Start/End: Original strand, 276 - 350
Target Start/End: Complemental strand, 29137 - 29063
Alignment:
Q  276 agacaccatatctccacccaaaaccttaatgtattaggtatacgggtcacctctcttatatatatccaacatttt 350  Q
    |||||||| |||||||||||||| |||||   || || |||| | ||| ||||||||||||||||||||||||||    
T  29137 agacaccacatctccacccaaaatcttaagacatcagatatatgagtcccctctcttatatatatccaacatttt 29063  T

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