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: NF12878_high_9 (Length: 345)

Name: NF12878_high_9
Description: NF12878
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF12878_high_9
NF12878_high_9
[»] chr6 (13 HSPs)
chr6 (1-329)||(176266-176594)
chr6 (213-325)||(1470926-1471038)
chr6 (213-329)||(1459544-1459660)
chr6 (196-323)||(7564737-7564864)
chr6 (198-325)||(1442096-1442223)
chr6 (207-316)||(370782-370891)
chr6 (47-157)||(1453677-1453787)
chr6 (47-157)||(1465369-1465479)
chr6 (208-329)||(1453838-1453959)
chr6 (84-157)||(1459403-1459476)
chr6 (208-329)||(1465530-1465651)
chr6 (213-262)||(9819832-9819881)
chr6 (213-261)||(9703889-9703937)
[»] chr4 (1 HSPs)
chr4 (200-301)||(55419742-55419843)
[»] chr7 (1 HSPs)
chr7 (208-327)||(3926993-3927112)
[»] chr3 (3 HSPs)
chr3 (202-250)||(2442050-2442098)
chr3 (200-257)||(4142124-4142181)
chr3 (205-257)||(4157939-4157991)
[»] chr2 (3 HSPs)
chr2 (207-250)||(6538845-6538888)
chr2 (208-257)||(7160752-7160801)
chr2 (208-257)||(7168688-7168737)
[»] scaffold0044 (1 HSPs)
scaffold0044 (213-267)||(89137-89191)
[»] chr5 (2 HSPs)
chr5 (205-250)||(23766857-23766902)
chr5 (205-250)||(23816705-23816750)


Alignment Details
Target: chr6 (Bit Score: 309; Significance: 1e-174; HSPs: 13)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 309; E-Value: 1e-174
Query Start/End: Original strand, 1 - 329
Target Start/End: Complemental strand, 176594 - 176266
Alignment:
Q  1 gttgaaggaactctcaagatagatatttgagttgaaggaaatacatgggaggccttgaatcttgggattctttactgcaccagtcttgtaattgtaaaca 100  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  176594 gttgaaggaactctcaagatagatatttgagttgaaggaaatacatgggaggccttgaatcttgggattctttactgcaccagtcttgtaattgtaaaca 176495  T
Q  101 tataccttattgttgaagtccacgaacacttggtggtcctcctcagaaatataaagccgagtaatgcagacgccatcaagaccaacgaattcggcgaatg 200  Q
    |||||||||||| |||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||    
T  176494 tataccttattgatgaagtacacgaacacttggtggtcctcctcagaaatataaagccgagtaatgcagacgccatcaagaccaacgaattcggcaaatg 176395  T
Q  201 gaagagtgaacgatttagtccaagaatctttatttccataatcgttcatacgccaaatatccaaaaaagtttcggtgtgagcaaggacgcataggcaatc 300  Q
    ||||||||||| ||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  176394 gaagagtgaacaatttagtccaagaatctttatttccataatcattcatacgccaaatatccaaaaaagtttcggtgtgagcaaggacgcataggcaatc 176295  T
Q  301 cctagaaacccccaagctgaagttatgca 329  Q
    |||||||||||||||||||||||||||||    
T  176294 cctagaaacccccaagctgaagttatgca 176266  T

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

Target: chr6; HSP #2
Raw Score: 69; E-Value: 6e-31
Query Start/End: Original strand, 213 - 325
Target Start/End: Original strand, 1470926 - 1471038
Alignment:
Q  213 atttagtccaagaatctttatttccataatcgttcatacgccaaatatccaaaaaagtttcggtgtgagcaaggacgcataggcaatccctagaaacccc 312  Q
    |||||| |||||||||||||||||||||||| ||||||  ||||||||||||||||| || ||| |||||||||| ||||| | ||||||||||||||||    
T  1470926 atttagaccaagaatctttatttccataatctttcataacccaaatatccaaaaaagatttggtatgagcaaggatgcataagtaatccctagaaacccc 1471025  T
Q  313 caagctgaagtta 325  Q
    |||||| ||||||    
T  1471026 caagctaaagtta 1471038  T

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Target: chr6; HSP #3
Raw Score: 65; E-Value: 2e-28
Query Start/End: Original strand, 213 - 329
Target Start/End: Original strand, 1459544 - 1459660
Alignment:
Q  213 atttagtccaagaatctttatttccataatcgttcatacgccaaatatccaaaaaagtttcggtgtgagcaaggacgcataggcaatccctagaaacccc 312  Q
    ||||||||||||| |||||||||||| |||| ||||||  ||||||||||||||||| ||  || |||||||||||||||| | |||||||| |||||||    
T  1459544 atttagtccaagattctttatttccaaaatctttcataacccaaatatccaaaaaagattttgtatgagcaaggacgcataagtaatccctataaacccc 1459643  T
Q  313 caagctgaagttatgca 329  Q
    |||||| ||||||||||    
T  1459644 caagctaaagttatgca 1459660  T

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Target: chr6; HSP #4
Raw Score: 60; E-Value: 1e-25
Query Start/End: Original strand, 196 - 323
Target Start/End: Original strand, 7564737 - 7564864
Alignment:
Q  196 gaatggaagagtgaacgatttagtccaagaatctttatttccataatcgttcatacgccaaatatccaaaaaagtttcggtgtgagcaaggacgcatagg 295  Q
    |||||||| | ||||| |||||||||||||||| || ||||||||||| ||||||  |||||||| ||||||||||   |||||||||||||| |||| |    
T  7564737 gaatggaacactgaacaatttagtccaagaatccttgtttccataatccttcataacccaaatattcaaaaaagttgtagtgtgagcaaggacccataag 7564836  T
Q  296 caatccctagaaacccccaagctgaagt 323  Q
    ||||||||| ||||||| ||||| ||||    
T  7564837 caatccctacaaacccctaagctaaagt 7564864  T

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

Target: chr6; HSP #5
Raw Score: 56; E-Value: 4e-23
Query Start/End: Original strand, 198 - 325
Target Start/End: Original strand, 1442096 - 1442223
Alignment:
Q  198 atggaagagtgaacgatttagtccaagaatctttatttccataatcgttcatacgccaaatatccaaaaaagtttcggtgtgagcaaggacgcataggca 297  Q
    |||||| ||||||| |||||||||||||||||||| |||||||||| ||||||  |||  ||||||||| |||| || | |||||||||| ||||| |||    
T  1442096 atggaacagtgaacaatttagtccaagaatctttaattccataatccttcataacccatgtatccaaaatagttccgttttgagcaaggatgcataagca 1442195  T
Q  298 atccctagaaacccccaagctgaagtta 325  Q
    |||  | |||||||||||||| ||||||    
T  1442196 atcattggaaacccccaagctcaagtta 1442223  T

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

Target: chr6; HSP #6
Raw Score: 50; E-Value: 1e-19
Query Start/End: Original strand, 207 - 316
Target Start/End: Original strand, 370782 - 370891
Alignment:
Q  207 tgaacgatttagtccaagaatctttatttccataatcgttcatacgccaaatatccaaaaaagtttcggtgtgagcaaggacgcataggcaatccctaga 306  Q
    ||||| ||||||||||||||||||||||||||||||  ||||||  |||||   ||| ||||||||  || |||||||||| ||||| ||||||||||||    
T  370782 tgaacaatttagtccaagaatctttatttccataattcttcataacccaaacgcccataaaagttttagtctgagcaaggatgcataagcaatccctaga 370881  T
Q  307 aacccccaag 316  Q
    |||| |||||    
T  370882 aacctccaag 370891  T

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Target: chr6; HSP #7
Raw Score: 43; E-Value: 0.000000000000002
Query Start/End: Original strand, 47 - 157
Target Start/End: Original strand, 1453677 - 1453787
Alignment:
Q  47 gggaggccttgaatcttgggattctttactgcaccagtcttgtaattgtaaacatataccttattgttgaagtccacgaacacttggtggtcctcctcag 146  Q
    ||||||||||||||||| ||| ||||||  | || | |||||||||||||||||||||||| ||  || ||||| | ||||||||||   |||||||| |    
T  1453677 gggaggccttgaatcttaggaatctttagggtacgattcttgtaattgtaaacatatacctcataatttaagtcgaagaacacttggccatcctcctcgg 1453776  T
Q  147 aaatataaagc 157  Q
    |||||||||||    
T  1453777 aaatataaagc 1453787  T

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Target: chr6; HSP #8
Raw Score: 43; E-Value: 0.000000000000002
Query Start/End: Original strand, 47 - 157
Target Start/End: Original strand, 1465369 - 1465479
Alignment:
Q  47 gggaggccttgaatcttgggattctttactgcaccagtcttgtaattgtaaacatataccttattgttgaagtccacgaacacttggtggtcctcctcag 146  Q
    ||||||||||||||||| ||| ||||||  | || | |||||||||||||||||||||||| ||  || ||||| | ||||||||||   |||||||| |    
T  1465369 gggaggccttgaatcttaggaatctttagggtacgattcttgtaattgtaaacatatacctcataatttaagtcgaagaacacttggccatcctcctcgg 1465468  T
Q  147 aaatataaagc 157  Q
    |||||||||||    
T  1465469 aaatataaagc 1465479  T

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Target: chr6; HSP #9
Raw Score: 34; E-Value: 0.0000000005
Query Start/End: Original strand, 208 - 329
Target Start/End: Original strand, 1453838 - 1453959
Alignment:
Q  208 gaacgatttagtccaagaatctttatttccataatcgttcatacgccaaatatccaaaaaagtttcggtgtgagcaaggacgcataggcaatccctagaa 307  Q
    |||| ||||| ||||||| ||||||||||||||||  ||||||  ||| ||||||||| |    |  | ||||||||||| ||||| ||||||||||||     
T  1453838 gaacaatttattccaagagtctttatttccataatacttcataacccagatatccaaagagtcattagcgtgagcaaggatgcataagcaatccctagat 1453937  T
Q  308 acccccaagctgaagttatgca 329  Q
    || |||||||| |||| |||||    
T  1453938 actcccaagctcaagtcatgca 1453959  T

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Target: chr6; HSP #10
Raw Score: 34; E-Value: 0.0000000005
Query Start/End: Original strand, 84 - 157
Target Start/End: Original strand, 1459403 - 1459476
Alignment:
Q  84 tcttgtaattgtaaacatataccttattgttgaagtccacgaacacttggtggtcctcctcagaaatataaagc 157  Q
    ||||||||||||||||||||| |||||| | ||| || | || ||||||||  || ||||||||||||||||||    
T  1459403 tcttgtaattgtaaacatatatcttattatagaaatctaggaccacttggtcatcttcctcagaaatataaagc 1459476  T

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Target: chr6; HSP #11
Raw Score: 34; E-Value: 0.0000000005
Query Start/End: Original strand, 208 - 329
Target Start/End: Original strand, 1465530 - 1465651
Alignment:
Q  208 gaacgatttagtccaagaatctttatttccataatcgttcatacgccaaatatccaaaaaagtttcggtgtgagcaaggacgcataggcaatccctagaa 307  Q
    |||| ||||| ||||||| ||||||||||||||||  ||||||  ||| ||||||||| |    |  | ||||||||||| ||||| ||||||||||||     
T  1465530 gaacaatttattccaagagtctttatttccataatacttcataacccagatatccaaagagtcattagcgtgagcaaggatgcataagcaatccctagat 1465629  T
Q  308 acccccaagctgaagttatgca 329  Q
    || |||||||| |||| |||||    
T  1465630 actcccaagctcaagtcatgca 1465651  T

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

Target: chr6; HSP #12
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 213 - 262
Target Start/End: Original strand, 9819832 - 9819881
Alignment:
Q  213 atttagtccaagaatctttatttccataatcgttcatacgccaaatatcc 262  Q
    ||||||||||||| ||| |||||||||| || |||||| |||||||||||    
T  9819832 atttagtccaagagtctctatttccatattccttcataagccaaatatcc 9819881  T

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

Target: chr6; HSP #13
Raw Score: 29; E-Value: 0.0000005
Query Start/End: Original strand, 213 - 261
Target Start/End: Original strand, 9703889 - 9703937
Alignment:
Q  213 atttagtccaagaatctttatttccataatcgttcatacgccaaatatc 261  Q
    ||||||||||| ||||| |||||||||| || |||||| ||||||||||    
T  9703889 atttagtccaaaaatctctatttccatattccttcataagccaaatatc 9703937  T

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Target: chr4 (Bit Score: 54; Significance: 6e-22; HSPs: 1)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 54; E-Value: 6e-22
Query Start/End: Original strand, 200 - 301
Target Start/End: Complemental strand, 55419843 - 55419742
Alignment:
Q  200 ggaagagtgaacgatttagtccaagaatctttatttccataatcgttcatacgccaaatatccaaaaaagtttcggtgtgagcaaggacgcataggcaat 299  Q
    |||| ||| ||| ||||||||||||||||||||||||||||| | |||||| |||| |||||||||||||  | ||||||||||| |||||||| |||||    
T  55419843 ggaatagtaaacaatttagtccaagaatctttatttccataaaccttcataagccagatatccaaaaaagaattggtgtgagcaacgacgcataagcaat 55419744  T
Q  300 cc 301  Q
    ||    
T  55419743 cc 55419742  T

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Target: chr7 (Bit Score: 52; Significance: 9e-21; HSPs: 1)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 52; E-Value: 9e-21
Query Start/End: Original strand, 208 - 327
Target Start/End: Complemental strand, 3927112 - 3926993
Alignment:
Q  208 gaacgatttagtccaagaatctttatttccataatcgttcatacgccaaatatccaaaaaagtttcggtgtgagcaaggacgcataggcaatccctagaa 307  Q
    |||| ||||||||||||||| ||||||||||||||| ||||||  ||||||| |||| |||||||| |||| | ||||||| || | ||||||| |||||    
T  3927112 gaacaatttagtccaagaatttttatttccataatccttcataacccaaatacccaacaaagtttcagtgtaaacaaggacacacaagcaatccttagaa 3927013  T
Q  308 acccccaagctgaagttatg 327  Q
    ||||| ||| ||||| ||||    
T  3927012 acccctaaggtgaagatatg 3926993  T

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

Target: chr3 (Bit Score: 37; Significance: 0.000000000008; HSPs: 3)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 37; E-Value: 0.000000000008
Query Start/End: Original strand, 202 - 250
Target Start/End: Complemental strand, 2442098 - 2442050
Alignment:
Q  202 aagagtgaacgatttagtccaagaatctttatttccataatcgttcata 250  Q
    |||||||||| |||||||||||||||||||||||||||| || ||||||    
T  2442098 aagagtgaacaatttagtccaagaatctttatttccatactccttcata 2442050  T

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

Target: chr3; HSP #2
Raw Score: 34; E-Value: 0.0000000005
Query Start/End: Original strand, 200 - 257
Target Start/End: Original strand, 4142124 - 4142181
Alignment:
Q  200 ggaagagtgaacgatttagtccaagaatctttatttccataatcgttcatacgccaaa 257  Q
    |||| ||||||| ||||||||||||| |||||||||||||| || |||||| ||||||    
T  4142124 ggaatagtgaacaatttagtccaagactctttatttccatattccttcataagccaaa 4142181  T

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

Target: chr3; HSP #3
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 205 - 257
Target Start/End: Original strand, 4157939 - 4157991
Alignment:
Q  205 agtgaacgatttagtccaagaatctttatttccataatcgttcatacgccaaa 257  Q
    ||||||| ||||||||||||| |||||||||||||| || |||||| ||||||    
T  4157939 agtgaacaatttagtccaagactctttatttccatattccttcataagccaaa 4157991  T

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

Target: chr2 (Bit Score: 32; Significance: 0.000000008; HSPs: 3)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 32; E-Value: 0.000000008
Query Start/End: Original strand, 207 - 250
Target Start/End: Complemental strand, 6538888 - 6538845
Alignment:
Q  207 tgaacgatttagtccaagaatctttatttccataatcgttcata 250  Q
    ||||| |||||||||||||||||||||||||||| || ||||||    
T  6538888 tgaacaatttagtccaagaatctttatttccatactccttcata 6538845  T

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

Target: chr2; HSP #2
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 208 - 257
Target Start/End: Original strand, 7160752 - 7160801
Alignment:
Q  208 gaacgatttagtccaagaatctttatttccataatcgttcatacgccaaa 257  Q
    |||| |||||||||||||||| ||||||||||| || |||||| ||||||    
T  7160752 gaacaatttagtccaagaatcattatttccatactccttcataagccaaa 7160801  T

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

Target: chr2; HSP #3
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 208 - 257
Target Start/End: Original strand, 7168688 - 7168737
Alignment:
Q  208 gaacgatttagtccaagaatctttatttccataatcgttcatacgccaaa 257  Q
    |||| |||||||||||||||| ||||||||||| || |||||| ||||||    
T  7168688 gaacaatttagtccaagaatcgttatttccatattccttcataagccaaa 7168737  T

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

Target: scaffold0044 (Bit Score: 31; Significance: 0.00000003; HSPs: 1)
Name: scaffold0044
Description:

Target: scaffold0044; HSP #1
Raw Score: 31; E-Value: 0.00000003
Query Start/End: Original strand, 213 - 267
Target Start/End: Complemental strand, 89191 - 89137
Alignment:
Q  213 atttagtccaagaatctttatttccataatcgttcatacgccaaatatccaaaaa 267  Q
    ||||||||||||| |||||||||||||| || ||||||  ||||||||| |||||    
T  89191 atttagtccaagactctttatttccatattccttcataacccaaatatcaaaaaa 89137  T

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

Target: chr5 (Bit Score: 30; Significance: 0.0000001; HSPs: 2)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 205 - 250
Target Start/End: Original strand, 23766857 - 23766902
Alignment:
Q  205 agtgaacgatttagtccaagaatctttatttccataatcgttcata 250  Q
    ||||||| ||||||||||||| |||||||||||||| || ||||||    
T  23766857 agtgaacaatttagtccaagactctttatttccatattctttcata 23766902  T

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

Target: chr5; HSP #2
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 205 - 250
Target Start/End: Original strand, 23816705 - 23816750
Alignment:
Q  205 agtgaacgatttagtccaagaatctttatttccataatcgttcata 250  Q
    ||||||| ||||||||||||| |||||||||||||| || ||||||    
T  23816705 agtgaacaatttagtccaagactctttatttccatattctttcata 23816750  T

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



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