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: NF9417_low_3 (Length: 442)

Name: NF9417_low_3
Description: NF9417
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF9417_low_3
NF9417_low_3
[»] chr1 (5 HSPs)
chr1 (8-433)||(34976696-34977121)
chr1 (20-433)||(2304204-2304617)
chr1 (19-366)||(34990583-34990930)
chr1 (155-433)||(34983890-34984168)
chr1 (9-75)||(34983805-34983871)
[»] chr5 (1 HSPs)
chr5 (20-433)||(40581265-40581678)
[»] chr3 (12 HSPs)
chr3 (221-350)||(22619689-22619818)
chr3 (94-139)||(30988333-30988378)
chr3 (94-137)||(22054102-22054145)
chr3 (94-129)||(22466989-22467024)
chr3 (94-139)||(21931814-21931859)
chr3 (94-139)||(22029399-22029444)
chr3 (94-123)||(22035913-22035942)
chr3 (94-123)||(22116481-22116510)
chr3 (94-139)||(22188387-22188432)
chr3 (97-129)||(22357031-22357063)
chr3 (97-129)||(22366965-22366997)
chr3 (97-129)||(22441786-22441818)


Alignment Details
Target: chr1 (Bit Score: 370; Significance: 0; HSPs: 5)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 370; E-Value: 0
Query Start/End: Original strand, 8 - 433
Target Start/End: Original strand, 34976696 - 34977121
Alignment:
Q  8 accaacatggttttcccaaatggattggtattctccaaaatctggagactttggatctaagggcttcttatccactcaccgttataccaaaggagattag 107  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||| || |||||||||||||||||||||||    
T  34976696 accaacatggttttcccaaatggattggtattctccaaaatctggagactttggatctaagggcttcttttcctcttaccgttataccaaaggagattag 34976795  T
Q  108 caagcttagaaagctacgccatcttatgggcaacaagagatgtatgcttcaattgaaggatgttttaggatgcatggaatctctacaaacattgactgga 207  Q
    ||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||| |||||||||||||||||| ||||||||||||| |||    
T  34976796 caagcttagaaagctacgccatcttatgggcaacaagaggtgtatgcttcaattgaaggatgtgttaggatgcatggaatctttacaaacattgaccgga 34976895  T
Q  208 gtgaaaattggtaaggatggaatagagttaattaaagagttgggaaagttcagacagttaaggaagttgagcttgttttatgtggcggcagaacattcaa 307  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||   ||||||||||||||    
T  34976896 gtgaaaattggtaaggatggaatagagttaattaaagagttgggaaagttcagacagttaaggaagttgagcttgttttatgtaagggcagaacattcaa 34976995  T
Q  308 gcgctctatcttcctcactgaatgagatgcgacacttggagaatttatacattgtgtcaggaatgggagacaatatagattttgatgtcattgatttaga 407  Q
    ||||||||| |||||||||||||||||||  |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  34976996 gcgctctatattcctcactgaatgagatgaaacacttggagaatttatacattgtgtcaggaatgggagacaatatagattttgatgtcattgatttaga 34977095  T
Q  408 tttggtttcgcctccacctttgcttc 433  Q
    ||||||||||||||||||| ||||||    
T  34977096 tttggtttcgcctccacctatgcttc 34977121  T

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

Target: chr1; HSP #2
Raw Score: 202; E-Value: 1e-110
Query Start/End: Original strand, 20 - 433
Target Start/End: Complemental strand, 2304617 - 2304204
Alignment:
Q  20 ttcccaaatggattggtattctccaaaatctggagactttggatctaagggcttcttatccactcaccgttataccaaaggagattagcaagcttagaaa 119  Q
    ||||||||||||||||| |||| | |||||||||||| ||||||||||||  ||||| |    | ||| |||||||||||||||||||||||||||||||    
T  2304617 ttcccaaatggattggtcttcttctaaatctggagaccttggatctaaggagttcttcttgttttaccattataccaaaggagattagcaagcttagaaa 2304518  T
Q  120 gctacgccatcttatgggcaacaagagatgtatgcttcaattgaaggatgttttaggatgcatggaatctctacaaacattgactggagtgaaaattggt 219  Q
    |||| |||||||||||||| |||| |  ||| || ||||||||||||||||| ||||| ||||||||||||||||||||||||||||| |||||||||||    
T  2304517 gctatgccatcttatgggctacaatatctgtttgtttcaattgaaggatgttataggaggcatggaatctctacaaacattgactggaatgaaaattggt 2304418  T
Q  220 aaggatggaatagagttaattaaagagttgggaaagttcagacagttaaggaagttgagcttgttttatgtggcggcagaacattcaagcgctctatctt 319  Q
    |||| ||||||||||||||||||||||||||||||| | || |||||||||||||| ||||||||| |||||  |  ||||||||||| |||| ||||||    
T  2304417 aagggtggaatagagttaattaaagagttgggaaagctaaggcagttaaggaagtttagcttgtttgatgtgaggctagaacattcaatcgctttatctt 2304318  T
Q  320 cctcactgaatgagatgcgacacttggagaatttatacattgtgtcaggaatgggagacaatatagattttgatgtcattgatttagatttggtttcgcc 419  Q
    ||||  |||||||||||||||||| |||||| |||| |||| ||||| |||  |||||  ||   | ||||||||||||||||||| ||||||||||||     
T  2304317 cctcgttgaatgagatgcgacactcggagaaattatgcattatgtcaagaagcggagatgatggggtttttgatgtcattgatttacatttggtttcgct 2304218  T
Q  420 tccacctttgcttc 433  Q
    ||||||| ||||||    
T  2304217 tccacctatgcttc 2304204  T

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

Target: chr1; HSP #3
Raw Score: 160; E-Value: 4e-85
Query Start/End: Original strand, 19 - 366
Target Start/End: Original strand, 34990583 - 34990930
Alignment:
Q  19 tttcccaaatggattggtattctccaaaatctggagactttggatctaagggcttcttatccactcaccgttataccaaaggagattagcaagcttagaa 118  Q
    ||||||||||||||||||||||||| |||||| ||||| ||||||||||| ||| ||| |    | | | |||||||||||||||||||||||||||||     
T  34990583 tttcccaaatggattggtattctcctaaatcttgagaccttggatctaagagctgcttttggttttatcattataccaaaggagattagcaagcttagac 34990682  T
Q  119 agctacgccatcttatgggcaacaagagatgtatgcttcaattgaaggatgttttaggatgcatggaatctctacaaacattgactggagtgaaaattgg 218  Q
    |||||||||||||||| ||   || ||  | | || |||| |||||||||||| | ||||||||||||||||||||||| |||| |||||||||||||||    
T  34990683 agctacgccatcttataggttgcaggatgtctttgtttcatttgaaggatgttattggatgcatggaatctctacaaacgttgagtggagtgaaaattgg 34990782  T
Q  219 taaggatggaatagagttaattaaagagttgggaaagttcagacagttaaggaagttgagcttgttttatgtggcggcagaacattcaagcgctctatct 318  Q
    ||||| |||||||||||| ||||| |||||||||||| | || | |||||||||||||||||||  | |||||  ||||  ||||||||||||| |||||    
T  34990783 taagggtggaatagagttgattaaggagttgggaaagctaaggcggttaaggaagttgagcttgaatgatgtgagggcaagacattcaagcgctttatct 34990882  T
Q  319 tcctcactgaatgagatgcgacacttggagaatttatacattgtgtca 366  Q
    |||||||||||||||||||||||||||||||| |||  ||||||||||    
T  34990883 tcctcactgaatgagatgcgacacttggagaaattacgcattgtgtca 34990930  T

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

Target: chr1; HSP #4
Raw Score: 155; E-Value: 4e-82
Query Start/End: Original strand, 155 - 433
Target Start/End: Original strand, 34983890 - 34984168
Alignment:
Q  155 ttcaattgaaggatgttttaggatgcatggaatctctacaaacattgactggagtgaaaattggtaaggatggaatagagttaattaaagagttgggaaa 254  Q
    ||||||||||||||||| ||||| |||||||||||||||||||||||| |||||||||||||||||||| ||||||||||||||||||||||||||||||    
T  34983890 ttcaattgaaggatgttataggaggcatggaatctctacaaacattgagtggagtgaaaattggtaagggtggaatagagttaattaaagagttgggaaa 34983989  T
Q  255 gttcagacagttaaggaagttgagcttgttttatgtggcggcagaacattcaagcgctctatcttcctcactgaatgagatgcgacacttggagaattta 354  Q
    | | ||||||||||||||||||| ||||||||||| |  |||||||||||  |||||| ||||||||||| ||||||||||||||||||| || || |||    
T  34983990 gctaagacagttaaggaagttgaccttgttttatgcgagggcagaacattttagcgctttatcttcctcattgaatgagatgcgacacttagaaaaatta 34984089  T
Q  355 tacattgtgtcaggaatgggagacaatatagattttgatgtcattgatttagatttggtttcgcctccacctttgcttc 433  Q
    | |||||||||||||  || |||   |    ||| |||||||||||||||| |||||||||||||||||||| ||||||    
T  34984090 tgcattgtgtcaggatgggaagatggttcttattatgatgtcattgatttacatttggtttcgcctccacctatgcttc 34984168  T

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Target: chr1; HSP #5
Raw Score: 55; E-Value: 2e-22
Query Start/End: Original strand, 9 - 75
Target Start/End: Original strand, 34983805 - 34983871
Alignment:
Q  9 ccaacatggttttcccaaatggattggtattctccaaaatctggagactttggatctaagggcttct 75  Q
    ||||||||| ||||||||||||||||||||||||| |||||||||||| ||||||||||||||||||    
T  34983805 ccaacatggatttcccaaatggattggtattctcctaaatctggagaccttggatctaagggcttct 34983871  T

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

Target: chr5 (Bit Score: 202; Significance: 1e-110; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 202; E-Value: 1e-110
Query Start/End: Original strand, 20 - 433
Target Start/End: Original strand, 40581265 - 40581678
Alignment:
Q  20 ttcccaaatggattggtattctccaaaatctggagactttggatctaagggcttcttatccactcaccgttataccaaaggagattagcaagcttagaaa 119  Q
    ||||||||||||||||| |||||| |||||||||||| |||||||||||||||||||||      | ||||||||||||||| |||||||| ||||||||    
T  40581265 ttcccaaatggattggtcttctcctaaatctggagaccttggatctaagggcttcttattattgtagcgttataccaaaggacattagcaaacttagaaa 40581364  T
Q  120 gctacgccatcttatgggcaacaagagatgtatgcttcaattgaaggatgttttaggatgcatggaatctctacaaacattgactggagtgaaaattggt 219  Q
    ||||||||||||||||||| ||||||  ||| ||  | ||| |||||||||| |||||||||||||||||||||||||||||| || |||||||||||||    
T  40581365 gctacgccatcttatgggctacaagatgtgtttgtctaaatggaaggatgttataggatgcatggaatctctacaaacattgagtgcagtgaaaattggt 40581464  T
Q  220 aaggatggaatagagttaattaaagagttgggaaagttcagacagttaaggaagttgagcttgttttatgtggcggcagaacattcaagcgctctatctt 319  Q
    |||| ||||||||||||||||||||||||| ||||| | || |||||||||||||||| ||||||||||| |  |||||||||||  |||||| ||||||    
T  40581465 aagggtggaatagagttaattaaagagttgagaaagctaaggcagttaaggaagttgaacttgttttatgcgagggcagaacattttagcgctttatctt 40581564  T
Q  320 cctcactgaatgagatgcgacacttggagaatttatacattgtgtcaggaatgggagacaatatagattttgatgtcattgatttagatttggtttcgcc 419  Q
    ||||| |||||||||||||||||||| | || |||  |||||| ||||||  |||| |  || | | || |||||||||||||||| |||||||||||||    
T  40581565 cctcattgaatgagatgcgacacttgaaaaaattaagcattgtatcaggatggggacaagattttgtttatgatgtcattgatttacatttggtttcgcc 40581664  T
Q  420 tccacctttgcttc 433  Q
    ||||||| ||||||    
T  40581665 tccacctatgcttc 40581678  T

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Target: chr3 (Bit Score: 42; Significance: 0.00000000000001; HSPs: 12)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 42; E-Value: 0.00000000000001
Query Start/End: Original strand, 221 - 350
Target Start/End: Complemental strand, 22619818 - 22619689
Alignment:
Q  221 aggatggaatagagttaattaaagagttgggaaagttcagacagttaaggaagttgagcttgttttatgtggcggcagaacattcaagcgctctatcttc 320  Q
    |||||||||||||||||||||| |||||||||||||| || ||||||||||| ||| | ||| ||  |||      |||||||  ||||||| |||||||    
T  22619818 aggatggaatagagttaattaaggagttgggaaagttgaggcagttaaggaaattgggtttggttggtgttagaagagaacatggaagcgctttatcttc 22619719  T
Q  321 ctcactgaatgagatgcgacacttggagaa 350  Q
    |  | |||||||| ||||||||||||||||    
T  22619718 cgtattgaatgagctgcgacacttggagaa 22619689  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, 94 - 139
Target Start/End: Complemental strand, 30988378 - 30988333
Alignment:
Q  94 ccaaaggagattagcaagcttagaaagctacgccatcttatgggca 139  Q
    |||||||||||||||||||||||||||||| | |||||||| ||||    
T  30988378 ccaaaggagattagcaagcttagaaagctaagacatcttatcggca 30988333  T

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

Target: chr3; HSP #3
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 94 - 137
Target Start/End: Original strand, 22054102 - 22054145
Alignment:
Q  94 ccaaaggagattagcaagcttagaaagctacgccatcttatggg 137  Q
    |||||||||||||| ||||||||||||||| | |||||||||||    
T  22054102 ccaaaggagattaggaagcttagaaagctaagacatcttatggg 22054145  T

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

Target: chr3; HSP #4
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 94 - 129
Target Start/End: Complemental strand, 22467024 - 22466989
Alignment:
Q  94 ccaaaggagattagcaagcttagaaagctacgccat 129  Q
    |||||||||||| |||||||||||||||||||||||    
T  22467024 ccaaaggagatttgcaagcttagaaagctacgccat 22466989  T

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

Target: chr3; HSP #5
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 94 - 139
Target Start/End: Original strand, 21931814 - 21931859
Alignment:
Q  94 ccaaaggagattagcaagcttagaaagctacgccatcttatgggca 139  Q
    |||||||||||||| ||||||||||||||| | |||||||| ||||    
T  21931814 ccaaaggagattaggaagcttagaaagctaagacatcttatcggca 21931859  T

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

Target: chr3; HSP #6
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 94 - 139
Target Start/End: Original strand, 22029399 - 22029444
Alignment:
Q  94 ccaaaggagattagcaagcttagaaagctacgccatcttatgggca 139  Q
    |||||||||||||| ||||||||||||||| | |||||||| ||||    
T  22029399 ccaaaggagattaggaagcttagaaagctaagacatcttatcggca 22029444  T

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

Target: chr3; HSP #7
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 94 - 123
Target Start/End: Original strand, 22035913 - 22035942
Alignment:
Q  94 ccaaaggagattagcaagcttagaaagcta 123  Q
    ||||||||||||||||||||||||||||||    
T  22035913 ccaaaggagattagcaagcttagaaagcta 22035942  T

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

Target: chr3; HSP #8
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 94 - 123
Target Start/End: Original strand, 22116481 - 22116510
Alignment:
Q  94 ccaaaggagattagcaagcttagaaagcta 123  Q
    ||||||||||||||||||||||||||||||    
T  22116481 ccaaaggagattagcaagcttagaaagcta 22116510  T

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

Target: chr3; HSP #9
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 94 - 139
Target Start/End: Original strand, 22188387 - 22188432
Alignment:
Q  94 ccaaaggagattagcaagcttagaaagctacgccatcttatgggca 139  Q
    |||||||||||||| ||||||||||||||| | |||||||| ||||    
T  22188387 ccaaaggagattaggaagcttagaaagctaagacatcttatcggca 22188432  T

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

Target: chr3; HSP #10
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 97 - 129
Target Start/End: Complemental strand, 22357063 - 22357031
Alignment:
Q  97 aaggagattagcaagcttagaaagctacgccat 129  Q
    ||||||||| |||||||||||||||||||||||    
T  22357063 aaggagatttgcaagcttagaaagctacgccat 22357031  T

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

Target: chr3; HSP #11
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 97 - 129
Target Start/End: Complemental strand, 22366997 - 22366965
Alignment:
Q  97 aaggagattagcaagcttagaaagctacgccat 129  Q
    ||||||||| |||||||||||||||||||||||    
T  22366997 aaggagatttgcaagcttagaaagctacgccat 22366965  T

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

Target: chr3; HSP #12
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 97 - 129
Target Start/End: Complemental strand, 22441818 - 22441786
Alignment:
Q  97 aaggagattagcaagcttagaaagctacgccat 129  Q
    ||||||||| |||||||||||||||||||||||    
T  22441818 aaggagatttgcaagcttagaaagctacgccat 22441786  T

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



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