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: NF20873_low_4 (Length: 639)

Name: NF20873_low_4
Description: NF20873
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF20873_low_4
NF20873_low_4
[»] chr6 (4 HSPs)
chr6 (229-633)||(33700741-33701149)
chr6 (17-191)||(33700529-33700703)
chr6 (268-309)||(32577469-32577510)
chr6 (275-320)||(34625736-34625781)
[»] scaffold0016 (2 HSPs)
scaffold0016 (236-375)||(47270-47407)
scaffold0016 (21-131)||(47495-47603)
[»] chr3 (3 HSPs)
chr3 (263-313)||(18268005-18268055)
chr3 (263-313)||(47542544-47542594)
chr3 (265-313)||(53791954-53792002)
[»] scaffold0019 (1 HSPs)
scaffold0019 (336-372)||(104417-104453)
[»] chr5 (3 HSPs)
chr5 (265-312)||(28322251-28322298)
chr5 (263-313)||(1375911-1375961)
chr5 (265-311)||(27253296-27253342)
[»] chr8 (2 HSPs)
chr8 (267-313)||(3066051-3066097)
chr8 (263-295)||(10356890-10356922)
[»] chr4 (1 HSPs)
chr4 (338-372)||(37496666-37496700)
[»] chr2 (1 HSPs)
chr2 (271-313)||(41047883-41047925)
[»] chr7 (4 HSPs)
chr7 (409-442)||(23851496-23851529)
chr7 (273-313)||(21454250-21454290)
chr7 (265-293)||(23851492-23851520)
chr7 (265-313)||(23948401-23948449)
[»] chr1 (2 HSPs)
chr1 (276-312)||(1118409-1118445)
chr1 (265-320)||(26777379-26777435)


Alignment Details
Target: chr6 (Bit Score: 247; Significance: 1e-137; HSPs: 4)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 247; E-Value: 1e-137
Query Start/End: Original strand, 229 - 633
Target Start/End: Original strand, 33700741 - 33701149
Alignment:
Q  229 ctccaaagcgaaaggaaatgtgagacactagctccaacaccgacacatgtgtttacattcaattaatacattttttcaaattattgtcggtgaaaacata 328  Q
    ||||| ||||||| ||||||  |||||||| || |||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||    
T  33700741 ctccagagcgaaaagaaatg--agacactaacttcaacaccgacacatgtgtttacattcaattaatacattttttcaaattatcgtcggtgaaaacata 33700838  T
Q  329 tccgtgtcggtgtcagtgtcgtgtccgtgttagtgcttcataggcaaaaagtctcaagcaaaagacaacaagagcgtggcttaaacacgacaccgacaca 428  Q
    |||||||| ||||||||||||||||||| ||||||||||||||||||||| |||||||||||||||||||||| ||||||||||||||||||| ||||||    
T  33700839 tccgtgtcagtgtcagtgtcgtgtccgtattagtgcttcataggcaaaaactctcaagcaaaagacaacaagaacgtggcttaaacacgacactgacaca 33700938  T
Q  429 tgtatttacattcatgtttgtgtgtctaatgtctatgttcgtatctcatagacaatatctccttagaaggaatgagaccttgttaaatttatttttcaac 528  Q
    ||| |||||||||||||||||||||    | || ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  33700939 tgtgtttacattcatgtttgtgtgt---gtctccatgttcgtatctcatagacaatatctccttagaaggaatgagaccttgttaaatttatttttcaac 33701035  T
Q  529 ccnnnnnnnnnnnnnng---------ttttgcttaaatagtcatgcatgactatataagcaacttattaaacattcaacgtttcattttctctatatttc 619  Q
    ||              |         ||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||| ||||||||||    
T  33701036 ccaaaaaaaaaaaacagaaaaaatagttttgcttaaatagtcatgcatgactatataagcaacctattaaacattcaacgtttcattttatctatatttc 33701135  T
Q  620 ttccttcatctcac 633  Q
    ||||||||| ||||    
T  33701136 ttccttcatgtcac 33701149  T

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Target: chr6; HSP #2
Raw Score: 163; E-Value: 1e-86
Query Start/End: Original strand, 17 - 191
Target Start/End: Original strand, 33700529 - 33700703
Alignment:
Q  17 acatagttgttgagaaataggagttttaagtatagcagtctaaattttacggtcaggtcttttgcaaattatattactaccttatgcgatagcagagatt 116  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||    
T  33700529 acatagttgttgagaaataggagttttaagtatagcagtctaaattttacggtcaggtcttttgcaaattatattactaccttatgtgatagcagagatt 33700628  T
Q  117 ttagtttaaaactagctagaaacagattgaaattgacaggatactattggaagttatattataagtaccatatag 191  Q
    |||| |||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||    
T  33700629 ttaggttaaaactagctagaaacagattgaaattgacaggatactgttggaagttatattataagtaccatatag 33700703  T

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Target: chr6; HSP #3
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 268 - 309
Target Start/End: Original strand, 32577469 - 32577510
Alignment:
Q  268 ccgacacatgtgtttacattcaattaatacattttttcaaat 309  Q
    |||||||||||| ||||||||||||||| |||||| ||||||    
T  32577469 ccgacacatgtgattacattcaattaattcattttctcaaat 32577510  T

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Target: chr6; HSP #4
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 275 - 320
Target Start/End: Complemental strand, 34625781 - 34625736
Alignment:
Q  275 atgtgtttacattcaattaatacattttttcaaattattgtcggtg 320  Q
    ||||| ||||||||||||||| |||||| |||||||||| ||||||    
T  34625781 atgtgattacattcaattaattcattttctcaaattattatcggtg 34625736  T

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Target: scaffold0016 (Bit Score: 69; Significance: 1e-30; HSPs: 2)
Name: scaffold0016
Description:

Target: scaffold0016; HSP #1
Raw Score: 69; E-Value: 1e-30
Query Start/End: Original strand, 236 - 375
Target Start/End: Complemental strand, 47407 - 47270
Alignment:
Q  236 gcgaaaggaaatgtgagacactagctccaacaccgacacatgtgtttacattcaattaatacattttttcaaattattgtcggtgaaaacatatccgtgt 335  Q
    |||||||||||||  |||||||||||||||||||||||||||||||||| ||||||||||||||||| |||||||||  || |||| ||  ||| |||||    
T  47407 gcgaaaggaaatg--agacactagctccaacaccgacacatgtgtttacgttcaattaatacattttctcaaattatcatcagtgacaatgtattcgtgt 47310  T
Q  336 cggtgtcagtgtcgtgtccgtgttagtgcttcataggcaa 375  Q
    | |||| ||||| | ||| ||||||| |||||||||||||    
T  47309 cagtgttagtgttgcgtctgtgttagcgcttcataggcaa 47270  T

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Target: scaffold0016; HSP #2
Raw Score: 51; E-Value: 7e-20
Query Start/End: Original strand, 21 - 131
Target Start/End: Complemental strand, 47603 - 47495
Alignment:
Q  21 agttgttgagaaataggagttttaagtatagcagtctaaattttacggtcaggtcttttgcaaattatattactaccttatgcgatagcagagattttag 120  Q
    |||||||||||||||||||||| |||| || ||| ||||||||| | ||||||||  | ||||||||||||||||||||| | ||||||||||| |||||    
T  47603 agttgttgagaaataggagtttcaagtctaccaggctaaattttccagtcaggtc-gtggcaaattatattactaccttaggtgatagcagaga-tttag 47506  T
Q  121 tttaaaactag 131  Q
     ||||||||||    
T  47505 gttaaaactag 47495  T

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Target: chr3 (Bit Score: 35; Significance: 0.0000000002; HSPs: 3)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 35; E-Value: 0.0000000002
Query Start/End: Original strand, 263 - 313
Target Start/End: Original strand, 18268005 - 18268055
Alignment:
Q  263 caacaccgacacatgtgtttacattcaattaatacattttttcaaattatt 313  Q
    ||||||||||||||||| |||| |||||||||| |||||| ||||||||||    
T  18268005 caacaccgacacatgtgattacgttcaattaattcattttctcaaattatt 18268055  T

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Target: chr3; HSP #2
Raw Score: 31; E-Value: 0.00000006
Query Start/End: Original strand, 263 - 313
Target Start/End: Complemental strand, 47542594 - 47542544
Alignment:
Q  263 caacaccgacacatgtgtttacattcaattaatacattttttcaaattatt 313  Q
    ||||||||||||||||| |||||||||| || | |||||| ||||||||||    
T  47542594 caacaccgacacatgtgattacattcaaatagttcattttctcaaattatt 47542544  T

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Target: chr3; HSP #3
Raw Score: 29; E-Value: 0.0000009
Query Start/End: Original strand, 265 - 313
Target Start/End: Original strand, 53791954 - 53792002
Alignment:
Q  265 acaccgacacatgtgtttacattcaattaatacattttttcaaattatt 313  Q
    ||||||||||||||| ||||||||||||| | | |||| ||||||||||    
T  53791954 acaccgacacatgtggttacattcaattattcctttttctcaaattatt 53792002  T

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Target: scaffold0019 (Bit Score: 33; Significance: 0.000000004; HSPs: 1)
Name: scaffold0019
Description:

Target: scaffold0019; HSP #1
Raw Score: 33; E-Value: 0.000000004
Query Start/End: Original strand, 336 - 372
Target Start/End: Complemental strand, 104453 - 104417
Alignment:
Q  336 cggtgtcagtgtcgtgtccgtgttagtgcttcatagg 372  Q
    ||||||||||||||||||||||| |||||||||||||    
T  104453 cggtgtcagtgtcgtgtccgtgtcagtgcttcatagg 104417  T

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Target: chr5 (Bit Score: 32; Significance: 0.00000001; HSPs: 3)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 265 - 312
Target Start/End: Complemental strand, 28322298 - 28322251
Alignment:
Q  265 acaccgacacatgtgtttacattcaattaatacattttttcaaattat 312  Q
    ||||| ||||||||| ||||||||||||||| |||||| |||||||||    
T  28322298 acaccaacacatgtgattacattcaattaattcattttctcaaattat 28322251  T

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Target: chr5; HSP #2
Raw Score: 31; E-Value: 0.00000006
Query Start/End: Original strand, 263 - 313
Target Start/End: Original strand, 1375911 - 1375961
Alignment:
Q  263 caacaccgacacatgtgtttacattcaattaatacattttttcaaattatt 313  Q
    |||||||||||||||| ||||||||||||||    ||||||||||||||||    
T  1375911 caacaccgacacatgtttttacattcaattatgctattttttcaaattatt 1375961  T

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

Target: chr5; HSP #3
Raw Score: 31; E-Value: 0.00000006
Query Start/End: Original strand, 265 - 311
Target Start/End: Complemental strand, 27253342 - 27253296
Alignment:
Q  265 acaccgacacatgtgtttacattcaattaatacattttttcaaatta 311  Q
    |||| |||||||||| |||||||||||||  ||||||||||||||||    
T  27253342 acactgacacatgtgattacattcaattatgacattttttcaaatta 27253296  T

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Target: chr8 (Bit Score: 31; Significance: 0.00000006; HSPs: 2)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 31; E-Value: 0.00000006
Query Start/End: Original strand, 267 - 313
Target Start/End: Complemental strand, 3066097 - 3066051
Alignment:
Q  267 accgacacatgtgtttacattcaattaatacattttttcaaattatt 313  Q
    ||||||||||||  ||||||||||||||| |||||| ||||||||||    
T  3066097 accgacacatgttattacattcaattaatccattttctcaaattatt 3066051  T

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

Target: chr8; HSP #2
Raw Score: 29; E-Value: 0.0000009
Query Start/End: Original strand, 263 - 295
Target Start/End: Complemental strand, 10356922 - 10356890
Alignment:
Q  263 caacaccgacacatgtgtttacattcaattaat 295  Q
    ||||||||||||||||| |||||||||||||||    
T  10356922 caacaccgacacatgtgattacattcaattaat 10356890  T

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Target: chr4 (Bit Score: 31; Significance: 0.00000006; HSPs: 1)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 31; E-Value: 0.00000006
Query Start/End: Original strand, 338 - 372
Target Start/End: Complemental strand, 37496700 - 37496666
Alignment:
Q  338 gtgtcagtgtcgtgtccgtgttagtgcttcatagg 372  Q
    |||||||||||||||||||||| ||||||||||||    
T  37496700 gtgtcagtgtcgtgtccgtgtttgtgcttcatagg 37496666  T

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Target: chr2 (Bit Score: 31; Significance: 0.00000006; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 31; E-Value: 0.00000006
Query Start/End: Original strand, 271 - 313
Target Start/End: Complemental strand, 41047925 - 41047883
Alignment:
Q  271 acacatgtgtttacattcaattaatacattttttcaaattatt 313  Q
    ||||||||||||||||||||||| | || ||||||||||||||    
T  41047925 acacatgtgtttacattcaattattccactttttcaaattatt 41047883  T

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Target: chr7 (Bit Score: 30; Significance: 0.0000002; HSPs: 4)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 409 - 442
Target Start/End: Complemental strand, 23851529 - 23851496
Alignment:
Q  409 ttaaacacgacaccgacacatgtatttacattca 442  Q
    ||||||||||||||||||||||| ||||||||||    
T  23851529 ttaaacacgacaccgacacatgtgtttacattca 23851496  T

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

Target: chr7; HSP #2
Raw Score: 29; E-Value: 0.0000009
Query Start/End: Original strand, 273 - 313
Target Start/End: Original strand, 21454250 - 21454290
Alignment:
Q  273 acatgtgtttacattcaattaatacattttttcaaattatt 313  Q
    ||||||| ||||||||||| ||| |||||||||||||||||    
T  21454250 acatgtggttacattcaataaatccattttttcaaattatt 21454290  T

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

Target: chr7; HSP #3
Raw Score: 29; E-Value: 0.0000009
Query Start/End: Original strand, 265 - 293
Target Start/End: Complemental strand, 23851520 - 23851492
Alignment:
Q  265 acaccgacacatgtgtttacattcaatta 293  Q
    |||||||||||||||||||||||||||||    
T  23851520 acaccgacacatgtgtttacattcaatta 23851492  T

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

Target: chr7; HSP #4
Raw Score: 29; E-Value: 0.0000009
Query Start/End: Original strand, 265 - 313
Target Start/End: Complemental strand, 23948449 - 23948401
Alignment:
Q  265 acaccgacacatgtgtttacattcaattaatacattttttcaaattatt 313  Q
    |||| ||||||| || |||||||||||||||  ||||||||||||||||    
T  23948449 acactgacacatatgattacattcaattaattgattttttcaaattatt 23948401  T

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Target: chr1 (Bit Score: 29; Significance: 0.0000009; HSPs: 2)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 29; E-Value: 0.0000009
Query Start/End: Original strand, 276 - 312
Target Start/End: Original strand, 1118409 - 1118445
Alignment:
Q  276 tgtgtttacattcaattaatacattttttcaaattat 312  Q
    |||| ||||||||||||||| ||||||||||||||||    
T  1118409 tgtgattacattcaattaattcattttttcaaattat 1118445  T

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

Target: chr1; HSP #2
Raw Score: 29; E-Value: 0.0000009
Query Start/End: Original strand, 265 - 320
Target Start/End: Original strand, 26777379 - 26777435
Alignment:
Q  265 acaccgacacatgtgtttacattcaattaataca-ttttttcaaattattgtcggtg 320  Q
    ||||| ||||||||| ||||||||||||||  || ||||||||||||||| ||||||    
T  26777379 acacccacacatgtgattacattcaattaagtcatttttttcaaattattatcggtg 26777435  T

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