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: NF12559_low_6 (Length: 483)

Name: NF12559_low_6
Description: NF12559
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF12559_low_6
NF12559_low_6
[»] scaffold0238 (1 HSPs)
scaffold0238 (1-380)||(12452-12831)
[»] chr1 (3 HSPs)
chr1 (1-380)||(12604113-12604480)
chr1 (1-98)||(23261272-23261366)
chr1 (144-326)||(23261375-23261554)
[»] chr2 (2 HSPs)
chr2 (1-380)||(10452610-10452995)
chr2 (162-219)||(14455914-14455971)
[»] chr4 (4 HSPs)
chr4 (1-98)||(56478581-56478675)
chr4 (144-326)||(56478393-56478572)
chr4 (290-355)||(6898166-6898231)
chr4 (166-231)||(6898330-6898395)
[»] chr6 (2 HSPs)
chr6 (1-95)||(445284-445376)
chr6 (166-222)||(21547848-21547904)
[»] scaffold0071 (1 HSPs)
scaffold0071 (68-190)||(10083-10201)
[»] chr3 (2 HSPs)
chr3 (68-190)||(15451990-15452108)
chr3 (66-98)||(6824001-6824033)
[»] chr5 (1 HSPs)
chr5 (290-380)||(33619228-33619317)
[»] chr7 (1 HSPs)
chr7 (166-231)||(39741872-39741937)


Alignment Details
Target: scaffold0238 (Bit Score: 360; Significance: 0; HSPs: 1)
Name: scaffold0238
Description:

Target: scaffold0238; HSP #1
Raw Score: 360; E-Value: 0
Query Start/End: Original strand, 1 - 380
Target Start/End: Original strand, 12452 - 12831
Alignment:
Q  1 ccacacaggtgaagaagcgccctgcatatctcttccctaagtctccttagtctcttttacacttgaacacaacagtttcattcacccaagtttctaaatt 100  Q
    ||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||| |||||||||||||||||||||||||||    
T  12452 ccacacaggtgaagaagcgccctgcatatctcttccctaagtcaccttagtctcttttacacttgaacacaaaagtttcattcacccaagtttctaaatt 12551  T
Q  101 ctcatattctccacttttggccaccatcatctgaagagtgaccacataggtatgtaatatgtttgttctttctcaatttcttattcaattcgttctttct 200  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  12552 ctcatattctccacttttggccaccatcatctgaagagtgaccacataggtatgtaatatgtttgttctttctcaatttcttattcaattcgttctttct 12651  T
Q  201 aaatttgatattgattttgattgtcaatttcgttggcaatttgaccgacgattccatcattagttatactatttgaatttgattttggattttgattcat 300  Q
    ||||||||| ||||||||||||| |||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  12652 aaatttgatgttgattttgattgacaatttcgttggcaatgtgaccgacgattccatcattagttatactatttgaatttgattttggattttgattcat 12751  T
Q  301 ttctactttaggttttagattgcatcatgtgccatgttgcaatggatgggaggatcaaggcttaaagctacggcagtgag 380  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  12752 ttctactttaggttttagattgcatcatgtgccatgttgcaatggatgggaggatcaaggcttaaagctacggcagtgag 12831  T

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

Target: chr1 (Bit Score: 327; Significance: 0; HSPs: 3)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 327; E-Value: 0
Query Start/End: Original strand, 1 - 380
Target Start/End: Complemental strand, 12604480 - 12604113
Alignment:
Q  1 ccacacaggtgaagaagcgccctgcatatctcttccctaagtctccttagtctcttttacacttgaacacaacagtttcattcacccaagtttctaaatt 100  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||    
T  12604480 ccacacaggtgaagaagcgccctgcatatctcttccctaagtctccttagtctcttttacacttgaacacaaaagtttcattcacccaagtttctaaatt 12604381  T
Q  101 ctcatattctccacttttggccaccatcatctgaagagtgaccacataggtatgtaatatgtttgttctttctcaatttcttattcaattcgttctttct 200  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  12604380 ctcatattctccacttttggccaccatcatctgaagagtgaccacataggtatgtaatatgtttgttctttctcaatttcttattcaattcgttctttct 12604281  T
Q  201 aaatttgatattgattttgattgtcaatttcgttggcaatttgaccgacgattccatcattagttatactatttgaatttgattttggattttgattcat 300  Q
    |||||            |||||| ||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||    
T  12604280 aaatt------------tgattgacaatttcgttggcaatttgaccgaccattccatcattagttatactatttgaatttgattttggattttgattcat 12604193  T
Q  301 ttctactttaggttttagattgcatcatgtgccatgttgcaatggatgggaggatcaaggcttaaagctacggcagtgag 380  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  12604192 ttctactttaggttttagattgcatcatgtgccatgttgcaatggatgggaggatcaaggcttaaagctacggcagtgag 12604113  T

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

Target: chr1; HSP #2
Raw Score: 44; E-Value: 8e-16
Query Start/End: Original strand, 1 - 98
Target Start/End: Original strand, 23261272 - 23261366
Alignment:
Q  1 ccacacaggtgaagaagcgccctgcatatctcttccctaagtctccttagtctcttttacacttgaacacaacagtttcattcacccaagtttctaaa 98  Q
    ||||||| |||||||||| | || ||||||||||| ||||||| ||||  |||   |||| |||||||||||||||| ||||||||||||||||||||    
T  23261272 ccacacatgtgaagaagcacgctacatatctcttctctaagtcaccttgctct---ttacccttgaacacaacagttccattcacccaagtttctaaa 23261366  T

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Target: chr1; HSP #3
Raw Score: 38; E-Value: 0.000000000003
Query Start/End: Original strand, 144 - 326
Target Start/End: Original strand, 23261375 - 23261554
Alignment:
Q  144 acataggtatgtaatatgtttgttctttctcaatttcttattcaattcgttctttctaaatttgatattgattttgattgtcaatttcgttggcaatttg 243  Q
    |||||||||||||||    |||||||||||||||||||||||       |||||||||||||||| || ||||||||||  | ||||| || ||||||||    
T  23261375 acataggtatgtaat----ttgttctttctcaatttcttatt-------ttctttctaaatttgacatcgattttgattaacgatttcatttgcaatttg 23261463  T
Q  244 accgacgattccatcatta--gttatactatttgaa------tttgattttggattttgattcatttctactttaggttttagattgcatc 326  Q
    || ||| |||||||  |||   ||||||||||  ||      ||||||||  | ||||||||||||| |||||||| ||||||||||||||    
T  23261464 actgacaattccatagttaattttatactattccaattcaattttgatttcagcttttgattcatttatactttagattttagattgcatc 23261554  T

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Target: chr2 (Bit Score: 315; Significance: 1e-177; HSPs: 2)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 315; E-Value: 1e-177
Query Start/End: Original strand, 1 - 380
Target Start/End: Original strand, 10452610 - 10452995
Alignment:
Q  1 ccacacaggtgaagaagcgccctgcatatctcttccctaagtctccttagtctcttttacacttgaacacaacagtttcattcacccaagtttctaaatt 100  Q
    ||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||     
T  10452610 ccacacaggtgaagaagcgccctgcatatctcttccctaagtcaccttagtctcttttacacttgaacacaacagtttcattcacccaagtttctaaatc 10452709  T
Q  101 ctcatattctccacttttggccaccatcatctgaagagtgaccacataggtatgtaatatgtttgttctttctcaatttcttattcaattcgttctttct 200  Q
    ||||||||||||||||||||||||| |||||||||||||||  |||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  10452710 ctcatattctccacttttggccaccgtcatctgaagagtgatgacataggtatgtaatatgtttgttctttctcaatttcttattcaattcgttctttct 10452809  T
Q  201 aaatttgatattgattttgattgtcaatttcgttggcaatttgaccgacgattccatcattagttatactatttgaa------tttgattttggattttg 294  Q
    ||||||||||| ||||||||||| |||||||||||||||||||||  ||||||||||||||||||||||||||||||      ||||||||||||||||     
T  10452810 aaatttgatatcgattttgattgacaatttcgttggcaatttgactaacgattccatcattagttatactatttgaattttattttgattttggattttt 10452909  T
Q  295 attcatttctactttaggttttagattgcatcatgtgccatgttgcaatggatgggaggatcaaggcttaaagctacggcagtgag 380  Q
    |||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||| |||||||    
T  10452910 attcatttctactttaggttttagattgcatcatgtgccatgttacaatggatgggaggatcaaggcttaaagctacgacagtgag 10452995  T

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Target: chr2; HSP #2
Raw Score: 34; E-Value: 0.0000000007
Query Start/End: Original strand, 162 - 219
Target Start/End: Complemental strand, 14455971 - 14455914
Alignment:
Q  162 tttgttctttctcaatttcttattcaattcgttctttctaaatttgatattgattttg 219  Q
    |||||||||||||||||||||| |||||| |||||||||  |||| |||| |||||||    
T  14455971 tttgttctttctcaatttcttactcaatttgttctttctcgatttaatatcgattttg 14455914  T

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Target: chr4 (Bit Score: 51; Significance: 5e-20; HSPs: 4)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 51; E-Value: 5e-20
Query Start/End: Original strand, 1 - 98
Target Start/End: Complemental strand, 56478675 - 56478581
Alignment:
Q  1 ccacacaggtgaagaagcgccctgcatatctcttccctaagtctccttagtctcttttacacttgaacacaacagtttcattcacccaagtttctaaa 98  Q
    ||||||| |||||||||| | |||||||||||||| ||||||| ||||  ||||||| || |||||||||||||||| ||||||||||||||||||||    
T  56478675 ccacacatgtgaagaagcacgctgcatatctcttctctaagtcacctt--tctcttt-acccttgaacacaacagttccattcacccaagtttctaaa 56478581  T

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

Target: chr4; HSP #2
Raw Score: 38; E-Value: 0.000000000003
Query Start/End: Original strand, 144 - 326
Target Start/End: Complemental strand, 56478572 - 56478393
Alignment:
Q  144 acataggtatgtaatatgtttgttctttctcaatttcttattcaattcgttctttctaaatttgatattgattttgattgtcaatttcgttggcaatttg 243  Q
    |||||||||||||||    |||||||||||||||||||||||       |||||||||||||||| || ||||||||||  | ||||| || ||||||||    
T  56478572 acataggtatgtaat----ttgttctttctcaatttcttatt-------ttctttctaaatttgacatcgattttgattaacgatttcatttgcaatttg 56478484  T
Q  244 accgacgattccatcattagtt--atactatttgaatttgattttg------gattttgattcatttctactttaggttttagattgcatc 326  Q
    || ||| |||||||  ||| ||  ||||||||  ||||  ||||||      | ||||||||||||| |||||||| ||||||||||||||    
T  56478483 actgacaattccatagttaattttatactattccaattcaattttgatttcagcttttgattcatttatactttagtttttagattgcatc 56478393  T

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Target: chr4; HSP #3
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 290 - 355
Target Start/End: Complemental strand, 6898231 - 6898166
Alignment:
Q  290 ttttgattcatttctactttaggttttagattgcatcatgtgccatgttgcaatggatgggaggat 355  Q
    ||||||||  |||||||| || |||||||| | ||||||||  ||||||||||| |||||||||||    
T  6898231 ttttgatttgtttctactataagttttagaatccatcatgtagcatgttgcaattgatgggaggat 6898166  T

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Target: chr4; HSP #4
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 166 - 231
Target Start/End: Complemental strand, 6898395 - 6898330
Alignment:
Q  166 ttctttctcaatttcttattcaattcgttctttctaaatttgatattgattttgattgtcaatttc 231  Q
    |||||||||||||||| ||||||||  ||||||||  |||||||||  |||||||||  |||||||    
T  6898395 ttctttctcaatttctcattcaatttcttctttctcgatttgatatcaattttgatttacaatttc 6898330  T

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Target: chr6 (Bit Score: 48; Significance: 3e-18; HSPs: 2)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 48; E-Value: 3e-18
Query Start/End: Original strand, 1 - 95
Target Start/End: Complemental strand, 445376 - 445284
Alignment:
Q  1 ccacacaggtgaagaagcgccctgcatatctcttccctaagtctccttagtctcttttacacttgaacacaacagtttcattcacccaagtttct 95  Q
    ||||||| |||||||| | | |||||||||||||| ||||||| |||| ||||  ||||| |||||||||||||||| |||||||||||||||||    
T  445376 ccacacatgtgaagaaccacgctgcatatctcttctctaagtcacctttgtct--tttacccttgaacacaacagttccattcacccaagtttct 445284  T

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Target: chr6; HSP #2
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 166 - 222
Target Start/End: Complemental strand, 21547904 - 21547848
Alignment:
Q  166 ttctttctcaatttcttattcaattcgttctttctaaatttgatattgattttgatt 222  Q
    |||||||||||||||||||||| ||  |||||||| |||||||||| ||||||||||    
T  21547904 ttctttctcaatttcttattcagttttttctttctcaatttgatatcgattttgatt 21547848  T

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

Target: scaffold0071 (Bit Score: 42; Significance: 0.00000000000001; HSPs: 1)
Name: scaffold0071
Description:

Target: scaffold0071; HSP #1
Raw Score: 42; E-Value: 0.00000000000001
Query Start/End: Original strand, 68 - 190
Target Start/End: Complemental strand, 10201 - 10083
Alignment:
Q  68 cacaacagtttcattcacccaagtttctaaattctcatattctccacttttggccaccatcatctgaagagtgaccacataggtatgtaatatgtttgtt 167  Q
    |||||||||| |||||||| | || ||||||| ||||| | |||||| ||||||||||||||| |||||| || | ||| || |||| ||    ||||||    
T  10201 cacaacagttccattcacctaggtatctaaatcctcatctcctccacctttggccaccatcatttgaagactgtcgacagagctatgcaa----tttgtt 10106  T
Q  168 ctttctcaatttcttattcaatt 190  Q
    |||||||||||||| ||||||||    
T  10105 ctttctcaatttctgattcaatt 10083  T

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

Target: chr3 (Bit Score: 42; Significance: 0.00000000000001; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 42; E-Value: 0.00000000000001
Query Start/End: Original strand, 68 - 190
Target Start/End: Original strand, 15451990 - 15452108
Alignment:
Q  68 cacaacagtttcattcacccaagtttctaaattctcatattctccacttttggccaccatcatctgaagagtgaccacataggtatgtaatatgtttgtt 167  Q
    |||||||||| |||||||| | || ||||||| ||||| | |||||| ||||||||||||||| |||||| || | ||| || |||| ||    ||||||    
T  15451990 cacaacagttccattcacctaggtatctaaatcctcatctcctccacctttggccaccatcatttgaagactgtcgacagagctatgcaa----tttgtt 15452085  T
Q  168 ctttctcaatttcttattcaatt 190  Q
    |||||||||||||| ||||||||    
T  15452086 ctttctcaatttctgattcaatt 15452108  T

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

Target: chr3; HSP #2
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 66 - 98
Target Start/End: Complemental strand, 6824033 - 6824001
Alignment:
Q  66 aacacaacagtttcattcacccaagtttctaaa 98  Q
    ||||||||| |||||||||||||||||||||||    
T  6824033 aacacaacaatttcattcacccaagtttctaaa 6824001  T

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Target: chr5 (Bit Score: 31; Significance: 0.00000004; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 290 - 380
Target Start/End: Complemental strand, 33619317 - 33619228
Alignment:
Q  290 ttttgattcatttctactttaggttttagattgcatcatgtgccatgttgcaatggatgggaggatcaaggcttaaagctacggcagtgag 380  Q
    ||||||||  |||||||| ||||||||||| | |||||||| |||||||| | | ||||||||||| |||||| |||| ||  ||||||||    
T  33619317 ttttgatttgtttctactataggttttagaatccatcatgtaccatgttgtagttgatgggaggat-aaggctgaaagttagtgcagtgag 33619228  T

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Target: chr7 (Bit Score: 30; Significance: 0.0000002; HSPs: 1)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 166 - 231
Target Start/End: Complemental strand, 39741937 - 39741872
Alignment:
Q  166 ttctttctcaatttcttattcaattcgttctttctaaatttgatattgattttgattgtcaatttc 231  Q
    |||||||||||||||| ||||||||  ||||||||  |||||||||  |||||||||  |||||||    
T  39741937 ttctttctcaatttctcattcaatttcttctttctcgatttgatatcaattttgatttacaatttc 39741872  T

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