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: NF5258-Insertion-1 (Length: 864)

Name: NF5258-Insertion-1
Description: NF5258
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF5258-Insertion-1
NF5258-Insertion-1
[»] chr5 (1 HSPs)
chr5 (8-847)||(41413953-41414785)
[»] chr7 (2 HSPs)
chr7 (10-457)||(36293968-36294415)
chr7 (499-847)||(36293480-36293823)
[»] scaffold0204 (4 HSPs)
scaffold0204 (8-324)||(7404-7720)
scaffold0204 (571-755)||(8040-8222)
scaffold0204 (8-361)||(19619-19972)
scaffold0204 (679-820)||(20297-20433)
[»] chr4 (4 HSPs)
chr4 (570-783)||(48345262-48345471)
chr4 (8-361)||(48332097-48332450)
chr4 (679-820)||(48332775-48332911)
chr4 (235-361)||(48344342-48344468)
[»] chr1 (2 HSPs)
chr1 (642-746)||(47185943-47186047)
chr1 (642-746)||(47198482-47198586)


Alignment Details
Target: chr5 (Bit Score: 722; Significance: 0; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 722; E-Value: 0
Query Start/End: Original strand, 8 - 847
Target Start/End: Complemental strand, 41414785 - 41413953
Alignment:
Q  8 caaacagcttaatacagcgaggatcacaagaaaaaggaaggaagctcctagagaaaattagaggaactagcgatgttgatgcagagtttgaagatatggt 107  Q
    |||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||    
T  41414785 caaacagcttaatacagcgaggatcacaagaaaaaggaagaaagctcctagagaaaattagaggaactagcgatgttgatgcagagcttgaagatatggt 41414686  T
Q  108 tgaagcaagcgaattggcgaactcaataaagcacccatttcgtaacatactcaaaagaaagtataggccagagttggtgatggcaattgtcatgccaact 207  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||    
T  41414685 tgaagcaagcgaattggcgaactcaataaagcacccatttcgtaacatacttaaaagaaagtataggccagagttggtgatggcaattgtcatgccaact 41414586  T
Q  208 tcacaaatcttaactggcataaatgccattctcttctatgctccagtactgtttcaaagcatgggctttgggggagacgcttcactctactcctcggctt 307  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  41414585 tcacaaatcttaactggcataaatgccattctcttctatgctccagtactgtttcaaagcatgggctttgggggagacgcttcactctactcctcggctt 41414486  T
Q  308 tgacgggtggcgttcttgcttgctcaacatttatttccattgcaacagttgataagctaggaaggagaattcttcttatcagtggcggaatacaaatgat 407  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||    
T  41414485 tgacgggtggcgttcttgcttgctcaacatttatttccattgcaacagttgataagctaggaaggagaattcttcttatcagtgggggaatacaaatgat 41414386  T
Q  408 catatgtcaggtatgaaaaagtccgcctcaaacaaattataatcatgttttaaagatttacgccgttatttagttgtnnnnnnnnnttatattcatacat 507  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||  ||||||||||||||||||         |||| |||||||||    
T  41414385 catatgtcaggtatgaaaaagtccgcctcaaacaaattataatcatgttttaaagatccacgccgttatttagttgtaacaaaaaattatgttcatacat 41414286  T
Q  508 gaagtagtctaatgcagtaatgcttgaaactgaacaaaaatttagggcaacttattttgtttcatttttcgcatgagcaggttatagttgcaataattct 607  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||    
T  41414285 gaagtagtctaatgcagtaatgcttgaaactgaacaaaaatttagggcaacttattttgtttcattttt-gcatgagcaggttatagttgcaataattct 41414187  T
Q  608 tggagtcaagtttggggataaccaggaaactatccaaaggctattcaatattggttgtagttgtggtttgcctatttgttgtagcgttcggatggtcatg 707  Q
    |||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  41414186 tggagtcaagtttggggataaccagg-aactatccaaaggctattcaatattggttgtagttgtggtttgcctatttgttgtagcgttcggatggtcatg 41414088  T
Q  708 gggtcctcttggttggacaattccaagtgagatatttcccattagaaaatccgttctgcaggggcaaagtatcacaagttatttgtaaaccttttcttca 807  Q
    ||||||||||||||||||||||||||||||||||||| ||||||| |||||||||| ||| |||||||||||||||   |||||||||||||||| ||||    
T  41414087 gggtcctcttggttggacaattccaagtgagatattt-ccattag-aaatccgttcagca-gggcaaagtatcaca--gtatttgtaaacctttttttca 41413993  T
Q  808 ctttcataattgctcaagtatttcttgctcttctctgctc 847  Q
    ||||||||||||||||||||||||||||||||||||||||    
T  41413992 ctttcataattgctcaagtatttcttgctcttctctgctc 41413953  T

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

Target: chr7 (Bit Score: 312; Significance: 1e-175; HSPs: 2)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 312; E-Value: 1e-175
Query Start/End: Original strand, 10 - 457
Target Start/End: Complemental strand, 36294415 - 36293968
Alignment:
Q  10 aacagcttaatacagcgaggatcacaagaaaaaggaaggaagctcctagagaaaattagaggaactagcgatgttgatgcagagtttgaagatatggttg 109  Q
    |||||||||||| | ||||||| | |||||| |||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||    
T  36294415 aacagcttaatagaacgaggattagaagaaagaggaaggaagctcctagagaaaattagaggaactggcgatgttgatgcagagtttgaagatatggttg 36294316  T
Q  110 aagcaagcgaattggcgaactcaataaagcacccatttcgtaacatactcaaaagaaagtataggccagagttggtgatggcaattgtcatgccaacttc 209  Q
    | |||||| | ||||| ||||||||||||||||| ||||||||||||||  |||||| ||||||||||||||||||||||||||||||||||||||||||    
T  36294315 atgcaagcaagttggcaaactcaataaagcacccgtttcgtaacatacttcaaagaaggtataggccagagttggtgatggcaattgtcatgccaacttc 36294216  T
Q  210 acaaatcttaactggcataaatgccattctcttctatgctccagtactgtttcaaagcatgggctttgggggagacgcttcactctactcctcggctttg 309  Q
    ||| ||||| |||||||| ||| ||||||||||||||||||| || ||||||||||||||||| ||||| ||||| |||||||||||||||||||||||     
T  36294215 acagatcttgactggcattaattccattctcttctatgctccggtgctgtttcaaagcatgggatttggtggagatgcttcactctactcctcggcttta 36294116  T
Q  310 acgggtggcgttcttgcttgctcaacatttatttccattgcaacagttgataagctaggaaggagaattcttcttatcagtggcggaatacaaatgatca 409  Q
    || |||||||||||||||||||||||||| |||||||| ||||||||||||||||| ||||||||| |||||||||||||||| ||||||||||||||||    
T  36294115 actggtggcgttcttgcttgctcaacattcatttccatcgcaacagttgataagctgggaaggagagttcttcttatcagtggtggaatacaaatgatca 36294016  T
Q  410 tatgtcaggtatgaaaaagtccgcctcaaacaaattataatcatgttt 457  Q
    |||||||||||||||||| || | |||||||||||| |||||||||||    
T  36294015 tatgtcaggtatgaaaaaatctgtctcaaacaaattctaatcatgttt 36293968  T

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

Target: chr7; HSP #2
Raw Score: 199; E-Value: 1e-108
Query Start/End: Original strand, 499 - 847
Target Start/End: Complemental strand, 36293823 - 36293480
Alignment:
Q  499 ttcatacatgaagtagtctaatgcagtaatgcttgaaactgaacaaaaattt-agggcaacttattttgtttcatttttcgcatgagcaggttatagttg 597  Q
    |||||||||||| |||||||||||||||||||| ||| |||||||||||||  ||||||||||||||||||||||||||| |||||||||||||||||||    
T  36293823 ttcatacatgaattagtctaatgcagtaatgctagaagctgaacaaaaattgcagggcaacttattttgtttcatttttcacatgagcaggttatagttg 36293724  T
Q  598 caataattcttggagtcaagtttggggataaccaggaaactatccaaaggctattcaatattggttgtagttgtggtttgcctatttgttgtagcgttcg 697  Q
    ||||||||||||| || ||||||||||||||||| ||| || || |||||||||||||||||||||||||||||||||||||||||||||||||| || |    
T  36293723 caataattcttggggtgaagtttggggataaccaagaa-ctgtcgaaaggctattcaatattggttgtagttgtggtttgcctatttgttgtagcatttg 36293625  T
Q  698 gatggtcatggggtcctcttggttggacaattccaagtgagatatttcccattagaaaatccgttctgcaggggcaaagtatcacaagttatttgtaaac 797  Q
    ||||||| ||||| || |||||||||||| ||||||||||||||||| ||||||| |||||||||| ||| ||||| |||||||||   ||| |||||||    
T  36293624 gatggtcgtggggcccacttggttggacagttccaagtgagatattt-ccattag-aaatccgttcagca-gggcagagtatcaca--gtatctgtaaac 36293530  T
Q  798 cttttcttcactttcataattgctcaagtatttcttgctcttctctgctc 847  Q
    ||||| ||||||||| |||||||||| | ||| |||||||||||||||||    
T  36293529 ctttttttcactttcgtaattgctcaggcattccttgctcttctctgctc 36293480  T

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

Target: scaffold0204 (Bit Score: 77; Significance: 3e-35; HSPs: 4)
Name: scaffold0204
Description:

Target: scaffold0204; HSP #1
Raw Score: 77; E-Value: 3e-35
Query Start/End: Original strand, 8 - 324
Target Start/End: Original strand, 7404 - 7720
Alignment:
Q  8 caaacagcttaatacagcgaggatcacaagaaaaaggaaggaagctcctagagaaaattagaggaactagcgatgttgatgcagagtttgaagatatggt 107  Q
    |||| ||||||||| | ||||||||| | ||||||||||||||| |||| || ||| | |||||||| |  ||||||||||| |||||  ||||||||||    
T  7404 caaatagcttaatagaacgaggatcaaaggaaaaaggaaggaaggtccttgaaaaactcagaggaacaaaggatgttgatgctgagttccaagatatggt 7503  T
Q  108 tgaagcaagcgaattggcgaactcaataaagcacccatttcgtaacatactcaaaagaaagtataggccagagttggtgatggcaattgtcatgccaact 207  Q
    ||||||||| || ||||| ||||||||||||||||| || || ||||||||  ||| |   || ||||||||| |||| ||||| ||   ||||||| |     
T  7504 tgaagcaagtgagttggcaaactcaataaagcaccctttccggaacatacttgaaaaacgatacaggccagagctggtcatggctatatgcatgccagcg 7603  T
Q  208 tcacaaatcttaactggcataaatgccattctcttctatgctccagtactgtttcaaagcatgggctttgggggagacgcttcactctactcctcggctt 307  Q
    |  || ||  | || ||||||||| | |||||||| |||||||| || || |||||||||||||| |||||   |||||| || |||||||||||||| |    
T  7604 ttccagattcttaccggcataaattcaattctcttttatgctcccgtgctatttcaaagcatgggatttggcaaagacgcgtctctctactcctcggcct 7703  T
Q  308 tgacgggtggcgttctt 324  Q
    |||| || || ||||||    
T  7704 tgactgggggagttctt 7720  T

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

Target: scaffold0204; HSP #2
Raw Score: 42; E-Value: 0.00000000000002
Query Start/End: Original strand, 571 - 755
Target Start/End: Original strand, 8040 - 8222
Alignment:
Q  571 atttttcgcatgagcaggttatagttgcaataattcttggag-tcaagtttggggataaccaggaaactatccaaaggctattcaatattggttgtagtt 669  Q
    ||||||| ||||||||||| |||||||| ||||| ||||| | |||||||||| || ||||| |||  | || |||||||||||| | |  || ||||||    
T  8040 atttttcacatgagcaggtcatagttgccataat-cttggggatcaagtttggagacaaccaagaat-tgtcaaaaggctattcattgtcagtagtagtt 8137  T
Q  670 gtggtttgcctatttgttgtagcgttcggatggtcatggggtcctcttggttggacaattccaagtgagatatttcccattagaaa 755  Q
    |   |||| ||||||||| |||| || |||||||||||||| || || || |||||| | ||||||||||||||| ||||||||||    
T  8138 gcaatttgtctatttgttctagcatttggatggtcatgggggccactagggtggacagtcccaagtgagatattt-ccattagaaa 8222  T

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

Target: scaffold0204; HSP #3
Raw Score: 42; E-Value: 0.00000000000002
Query Start/End: Original strand, 8 - 361
Target Start/End: Original strand, 19619 - 19972
Alignment:
Q  8 caaacagcttaatacagcgaggatcacaagaaaaaggaaggaagctcctagagaaaattagaggaactagcgatgttgatgcagagtttgaagatatggt 107  Q
    |||| ||||||||| |  |||||||| | ||| |||| ||||||||||| || ||||| |||||||| |  || || || || |||||  |||||||| |    
T  19619 caaatagcttaatagaaagaggatcaaaggaacaagggaggaagctccttgaaaaaatcagaggaacgaatgaggtcgacgcggagttccaagatatgct 19718  T
Q  108 tgaagcaagcgaattggcgaactcaataaagcacccatttcgtaacatactcaaaagaaagtataggccagagttggtgatggcaattgtcatgccaact 207  Q
    ||| ||  | |||||||| || |||||||||||||| | |  |||||| || |||||||  || || ||||||||||| ||||| ||   ||||||  |     
T  19719 tgatgcgggtgaattggcaaattcaataaagcacccctattataacatccttaaaagaagatacagaccagagttggtcatggctatctgcatgcctgca 19818  T
Q  208 tcacaaatcttaactggcataaatgccattctcttctatgctccagtactgtttcaaagcatgggctttgggggagacgcttcactctactcctcggctt 307  Q
    |  || ||  | || ||||||||  | || ||||| ||||||||| | || |||||||||||||| |||||  || | || || ||||||||||| || |    
T  19819 ttccagattctgaccggcataaactcaatcctcttttatgctccaatgctatttcaaagcatgggatttggcagacaggcatctctctactcctcagcat 19918  T
Q  308 tgacgggtggcgttcttgcttgctcaacatttatttccattgcaacagttgata 361  Q
    |||| || |  ||||||||| | |||||||| ||||| ||||||||||| ||||    
T  19919 tgactggagtagttcttgctggatcaacattcatttctattgcaacagtagata 19972  T

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

Target: scaffold0204; HSP #4
Raw Score: 34; E-Value: 0.000000001
Query Start/End: Original strand, 679 - 820
Target Start/End: Original strand, 20297 - 20433
Alignment:
Q  679 ctatttgttgtagcgttcggatggtcatggggtcctcttggttggacaattccaagtgagatatttcccattagaaaatccgttctgcaggggcaaagta 778  Q
    ||||||||| |||| || |||||||||||||| || || || |||||| | ||||||||||||||| || |||| ||||||| || ||| ||||||||||    
T  20297 ctatttgttctagcatttggatggtcatgggggccactaggatggacagtcccaagtgagatattt-ccgttag-aaatccgatcggca-gggcaaagta 20393  T
Q  779 tcacaagttatttgtaaaccttttcttcactttcataattgc 820  Q
    | || ||||   ||| |||||| |||||||||||||||||||    
T  20394 taac-agtt-gctgtgaaccttctcttcactttcataattgc 20433  T

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

Target: chr4 (Bit Score: 54; Significance: 1e-21; HSPs: 4)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 54; E-Value: 1e-21
Query Start/End: Original strand, 570 - 783
Target Start/End: Original strand, 48345262 - 48345471
Alignment:
Q  570 catttttcgcatgagcaggttatagttgcaataattcttggagtcaagtttggggataaccaggaaactatccaaaggctattcaatattggttgtagtt 669  Q
    |||||||| ||||| |||||||||||||| |||||| | || |||||| ||||    ||||| |||  | || |||  ||||||||||| ||||||||||    
T  48345262 catttttcacatgaacaggttatagttgccataattttgggtgtcaagcttggaccaaaccaagaat-tgtcaaaaaactattcaatatcggttgtagtt 48345360  T
Q  670 gtggtttgcctatttgttgtagcgttcggatggtcatggggtcctcttggttggacaattccaagtgagatatttcccattagaaaatccgttctgcagg 769  Q
    ||  |||  ||||||||| |||| || |||||||||||||| || ||||| |||||| | ||||||||||||||| ||||||| ||||||| || ||| |    
T  48345361 gtactttctctatttgttctagcttttggatggtcatgggggccacttggatggacagtcccaagtgagatattt-ccattag-aaatccgatcggca-g 48345457  T
Q  770 ggcaaagtatcaca 783  Q
    ||||||||||||||    
T  48345458 ggcaaagtatcaca 48345471  T

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

Target: chr4; HSP #2
Raw Score: 42; E-Value: 0.00000000000002
Query Start/End: Original strand, 8 - 361
Target Start/End: Original strand, 48332097 - 48332450
Alignment:
Q  8 caaacagcttaatacagcgaggatcacaagaaaaaggaaggaagctcctagagaaaattagaggaactagcgatgttgatgcagagtttgaagatatggt 107  Q
    |||| ||||||||| |  |||||||| | ||| |||| ||||||||||| || ||||| |||||||| |  || || || || |||||  |||||||| |    
T  48332097 caaatagcttaatagaaagaggatcaaaggaacaagggaggaagctccttgaaaaaatcagaggaacgaatgaggtcgacgcggagttccaagatatgct 48332196  T
Q  108 tgaagcaagcgaattggcgaactcaataaagcacccatttcgtaacatactcaaaagaaagtataggccagagttggtgatggcaattgtcatgccaact 207  Q
    ||| ||  | |||||||| || |||||||||||||| | |  |||||| || |||||||  || || ||||||||||| ||||| ||   ||||||  |     
T  48332197 tgatgcgggtgaattggcaaattcaataaagcacccctattataacatccttaaaagaagatacagaccagagttggtcatggctatctgcatgcctgca 48332296  T
Q  208 tcacaaatcttaactggcataaatgccattctcttctatgctccagtactgtttcaaagcatgggctttgggggagacgcttcactctactcctcggctt 307  Q
    |  || ||  | || ||||||||  | || ||||| ||||||||| | || |||||||||||||| |||||  || | || || ||||||||||| || |    
T  48332297 ttccagattctgaccggcataaactcaatcctcttttatgctccaatgctatttcaaagcatgggatttggcagacaggcatctctctactcctcagcat 48332396  T
Q  308 tgacgggtggcgttcttgcttgctcaacatttatttccattgcaacagttgata 361  Q
    |||| || |  ||||||||| | |||||||| ||||| ||||||||||| ||||    
T  48332397 tgactggagtagttcttgctggatcaacattcatttctattgcaacagtagata 48332450  T

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

Target: chr4; HSP #3
Raw Score: 34; E-Value: 0.000000001
Query Start/End: Original strand, 679 - 820
Target Start/End: Original strand, 48332775 - 48332911
Alignment:
Q  679 ctatttgttgtagcgttcggatggtcatggggtcctcttggttggacaattccaagtgagatatttcccattagaaaatccgttctgcaggggcaaagta 778  Q
    ||||||||| |||| || |||||||||||||| || || || |||||| | ||||||||||||||| || |||| ||||||| || ||| ||||||||||    
T  48332775 ctatttgttctagcatttggatggtcatgggggccactaggatggacagtcccaagtgagatattt-ccgttag-aaatccgatcggca-gggcaaagta 48332871  T
Q  779 tcacaagttatttgtaaaccttttcttcactttcataattgc 820  Q
    | || ||||   ||| |||||| |||||||||||||||||||    
T  48332872 taac-agtt-gctgtgaaccttctcttcactttcataattgc 48332911  T

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

Target: chr4; HSP #4
Raw Score: 31; E-Value: 0.00000008
Query Start/End: Original strand, 235 - 361
Target Start/End: Original strand, 48344342 - 48344468
Alignment:
Q  235 attctcttctatgctccagtactgtttcaaagcatgggctttgggggagacgcttcactctactcctcggctttgacgggtggcgttcttgcttgctcaa 334  Q
    |||||||| ||||||||| | || |||||||||||||| |||||  || | || || || |||||||| || ||||| || |  |||||||| |  ||||    
T  48344342 attctcttttatgctccaatgctatttcaaagcatgggatttggcagacaagcatcgctttactcctcagccttgactggagtagttcttgccttatcaa 48344441  T
Q  335 catttatttccattgcaacagttgata 361  Q
    |||| ||||| ||||||||||| ||||    
T  48344442 cattcatttctattgcaacagtagata 48344468  T

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Target: chr1 (Bit Score: 33; Significance: 0.000000005; HSPs: 2)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 33; E-Value: 0.000000005
Query Start/End: Original strand, 642 - 746
Target Start/End: Original strand, 47185943 - 47186047
Alignment:
Q  642 caaaggctattcaatattggttgtagttgtggtttgcctatttgttgtagcgttcggatggtcatggggtcctcttggttggacaattccaagtgagata 741  Q
    |||||||||| |||| ||||| || ||| |||| |||  |||||||| | | || | ||||||||||||||| |||||||||  |||||| ||||||| |    
T  47185943 caaaggctatgcaatgttggtggtggttatggtatgcacatttgttgcatcttttgcatggtcatggggtccacttggttggttaattcctagtgagaca 47186042  T
Q  742 tttcc 746  Q
    |||||    
T  47186043 tttcc 47186047  T

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Target: chr1; HSP #2
Raw Score: 33; E-Value: 0.000000005
Query Start/End: Original strand, 642 - 746
Target Start/End: Original strand, 47198482 - 47198586
Alignment:
Q  642 caaaggctattcaatattggttgtagttgtggtttgcctatttgttgtagcgttcggatggtcatggggtcctcttggttggacaattccaagtgagata 741  Q
    |||||||||| |||| ||||| || ||| |||| |||  |||||||| | | || | ||||||||||||||| |||||||||  |||||| ||||||| |    
T  47198482 caaaggctatgcaatgttggtggtggttatggtatgcacatttgttgcatcttttgcatggtcatggggtccacttggttggttaattcctagtgagaca 47198581  T
Q  742 tttcc 746  Q
    |||||    
T  47198582 tttcc 47198586  T

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