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: NF5852_low_24 (Length: 279)

Name: NF5852_low_24
Description: NF5852
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF5852_low_24
NF5852_low_24
[»] chr5 (4 HSPs)
chr5 (17-261)||(14357438-14357682)
chr5 (16-70)||(40815572-40815626)
chr5 (16-70)||(30915794-30915848)
chr5 (23-63)||(30915872-30915912)
[»] chr7 (5 HSPs)
chr7 (14-253)||(29657305-29657544)
chr7 (16-70)||(22794086-22794140)
chr7 (16-46)||(4973822-4973852)
chr7 (87-127)||(7147577-7147617)
chr7 (16-52)||(32893746-32893782)
[»] chr1 (3 HSPs)
chr1 (16-136)||(49619511-49619624)
chr1 (16-128)||(40778688-40778794)
chr1 (16-50)||(40779411-40779445)
[»] chr8 (2 HSPs)
chr8 (16-128)||(16497127-16497232)
chr8 (16-69)||(11080778-11080831)
[»] scaffold0034 (1 HSPs)
scaffold0034 (16-111)||(98356-98444)
[»] chr2 (2 HSPs)
chr2 (17-70)||(20921830-20921883)
chr2 (22-81)||(12365769-12365828)
[»] chr6 (2 HSPs)
chr6 (16-69)||(682572-682625)
chr6 (95-131)||(682643-682679)
[»] chr4 (5 HSPs)
chr4 (16-69)||(5547210-5547263)
chr4 (16-80)||(37642274-37642338)
chr4 (16-55)||(54373769-54373808)
chr4 (16-52)||(49923530-49923566)
chr4 (18-52)||(49922825-49922859)
[»] scaffold2117 (1 HSPs)
scaffold2117 (22-142)||(203-317)
[»] scaffold0171 (1 HSPs)
scaffold0171 (16-133)||(28943-29053)


Alignment Details
Target: chr5 (Bit Score: 233; Significance: 1e-129; HSPs: 4)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 233; E-Value: 1e-129
Query Start/End: Original strand, 17 - 261
Target Start/End: Complemental strand, 14357682 - 14357438
Alignment:
Q  17 cacaaaatcaaacatttaaatttataattaacaccaccaacatcattcaaaatcagatcatcaaagtccaaaactcattaactccaaaaagaaactttct 116  Q
    |||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |    
T  14357682 cacaaaatcaaacatttaaatttataattaacaccatcaacatcattcaaaatcagatcatcaaagtccaaaactcattaactccaaaaagaaacttttt 14357583  T
Q  117 atcaccaaaatccttccctttcaccaaaagacatagagggaaggtgtttgatgttaggaaaataactagtgaaagccatagcagacagcgcatcagcagc 216  Q
    |||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  14357582 atcaccaaaatcattccctttcaccaaaagacatagagggaaggtgtttgatgttaggaaaataactagtgaaagccatagcagacagcgcatcagcagc 14357483  T
Q  217 gaaaataaattgaaaaatacgcagagaaaggccaccagcagtatc 261  Q
    |||||||||||||||||||||||||||||||||||||||||||||    
T  14357482 gaaaataaattgaaaaatacgcagagaaaggccaccagcagtatc 14357438  T

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

Target: chr5; HSP #2
Raw Score: 51; E-Value: 3e-20
Query Start/End: Original strand, 16 - 70
Target Start/End: Original strand, 40815572 - 40815626
Alignment:
Q  16 ccacaaaatcaaacatttaaatttataattaacaccaccaacatcattcaaaatc 70  Q
    |||||||||||||||||||||||||||||||||||||||| ||||||||||||||    
T  40815572 ccacaaaatcaaacatttaaatttataattaacaccaccaccatcattcaaaatc 40815626  T

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Target: chr5; HSP #3
Raw Score: 43; E-Value: 0.000000000000002
Query Start/End: Original strand, 16 - 70
Target Start/End: Original strand, 30915794 - 30915848
Alignment:
Q  16 ccacaaaatcaaacatttaaatttataattaacaccaccaacatcattcaaaatc 70  Q
    ||||| |||||||| ||||||||||||||||||||||||| ||||||||||||||    
T  30915794 ccacataatcaaacctttaaatttataattaacaccaccaccatcattcaaaatc 30915848  T

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Target: chr5; HSP #4
Raw Score: 29; E-Value: 0.0000004
Query Start/End: Original strand, 23 - 63
Target Start/End: Complemental strand, 30915912 - 30915872
Alignment:
Q  23 atcaaacatttaaatttataattaacaccaccaacatcatt 63  Q
    ||||||| ||||||||||||||||||| ||||| |||||||    
T  30915912 atcaaacctttaaatttataattaacatcaccaccatcatt 30915872  T

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Target: chr7 (Bit Score: 192; Significance: 1e-104; HSPs: 5)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 192; E-Value: 1e-104
Query Start/End: Original strand, 14 - 253
Target Start/End: Original strand, 29657305 - 29657544
Alignment:
Q  14 atccacaaaatcaaacatttaaatttataattaacaccaccaacatcattcaaaatcagatcatcaaagtccaaaactcattaactccaaaaagaaactt 113  Q
    ||||| |||||||||||||||||||||||||||||||||||| |||||||||||||| ||||||||||||||||||||||||||||||||||||||||||    
T  29657305 atccaaaaaatcaaacatttaaatttataattaacaccaccaccatcattcaaaatcggatcatcaaagtccaaaactcattaactccaaaaagaaactt 29657404  T
Q  114 tctatcaccaaaatccttccctttcaccaaaagacatagagggaaggtgtttgatgttaggaaaataactagtgaaagccatagcagacagcgcatcagc 213  Q
    |||||||||||||||||||||||||||||||||| |||||||||||||||||||||||| ||||||||||||||||||||||| |||||||||||||| |    
T  29657405 tctatcaccaaaatccttccctttcaccaaaagatatagagggaaggtgtttgatgttacgaaaataactagtgaaagccataacagacagcgcatcaac 29657504  T
Q  214 agcgaaaataaattgaaaaatacgcagagaaaggccacca 253  Q
    |  ||| |||||||| |||||||||||| |||||||||||    
T  29657505 aaagaatataaattgcaaaatacgcagataaaggccacca 29657544  T

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Target: chr7; HSP #2
Raw Score: 39; E-Value: 0.0000000000004
Query Start/End: Original strand, 16 - 70
Target Start/End: Complemental strand, 22794140 - 22794086
Alignment:
Q  16 ccacaaaatcaaacatttaaatttataattaacaccaccaacatcattcaaaatc 70  Q
    ||||| |||||||| |||||||||||||||||||||||||  |||||||||||||    
T  22794140 ccacataatcaaacctttaaatttataattaacaccaccacaatcattcaaaatc 22794086  T

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

Target: chr7; HSP #3
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 16 - 46
Target Start/End: Complemental strand, 4973852 - 4973822
Alignment:
Q  16 ccacaaaatcaaacatttaaatttataatta 46  Q
    |||||||||||||||||||||||||||||||    
T  4973852 ccacaaaatcaaacatttaaatttataatta 4973822  T

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Target: chr7; HSP #4
Raw Score: 29; E-Value: 0.0000004
Query Start/End: Original strand, 87 - 127
Target Start/End: Complemental strand, 7147617 - 7147577
Alignment:
Q  87 aaactcattaactccaaaaagaaactttctatcaccaaaat 127  Q
    |||| ||||||||||||||||||||||||  ||||||||||    
T  7147617 aaacccattaactccaaaaagaaactttcattcaccaaaat 7147577  T

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Target: chr7; HSP #5
Raw Score: 29; E-Value: 0.0000004
Query Start/End: Original strand, 16 - 52
Target Start/End: Original strand, 32893746 - 32893782
Alignment:
Q  16 ccacaaaatcaaacatttaaatttataattaacacca 52  Q
    |||||||||| || |||||||||||||||||||||||    
T  32893746 ccacaaaatcgaaaatttaaatttataattaacacca 32893782  T

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Target: chr1 (Bit Score: 75; Significance: 1e-34; HSPs: 3)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 75; E-Value: 1e-34
Query Start/End: Original strand, 16 - 136
Target Start/End: Complemental strand, 49619624 - 49619511
Alignment:
Q  16 ccacaaaatcaaacatttaaatttataattaacaccaccaacatcattcaaaatcagatcatcaaagtccaaaactcattaactccaaaaagaaactttc 115  Q
    ||||||||||||||||||||||||| |||||||||||||| ||||||||||||||||||||       ||||||| |||||||||||||| |||||||||    
T  49619624 ccacaaaatcaaacatttaaatttagaattaacaccaccaccatcattcaaaatcagatca-------ccaaaacccattaactccaaaacgaaactttc 49619532  T
Q  116 tatcaccaaaatccttccctt 136  Q
    | |||||||||||||||||||    
T  49619531 tttcaccaaaatccttccctt 49619511  T

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Target: chr1; HSP #2
Raw Score: 54; E-Value: 5e-22
Query Start/End: Original strand, 16 - 128
Target Start/End: Original strand, 40778688 - 40778794
Alignment:
Q  16 ccacaaaatcaaacatttaaatttat--aattaacaccaccaacatcattcaaaatcagatcatcaaagtccaaaactcattaactccaaaaagaaactt 113  Q
    ||||||||||||||||||||||||||  |||||||||||||| |||||||||||||| |||||       ||||||| |||||||||||||||| ||||     
T  40778688 ccacaaaatcaaacatttaaatttataaaattaacaccaccaccatcattcaaaatcggatca-------ccaaaacccattaactccaaaaag-aacta 40778779  T
Q  114 tctatcaccaaaatc 128  Q
    |||||||||||||||    
T  40778780 tctatcaccaaaatc 40778794  T

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Target: chr1; HSP #3
Raw Score: 35; E-Value: 0.0000000001
Query Start/End: Original strand, 16 - 50
Target Start/End: Complemental strand, 40779445 - 40779411
Alignment:
Q  16 ccacaaaatcaaacatttaaatttataattaacac 50  Q
    |||||||||||||||||||||||||||||||||||    
T  40779445 ccacaaaatcaaacatttaaatttataattaacac 40779411  T

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Target: chr8 (Bit Score: 56; Significance: 3e-23; HSPs: 2)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 56; E-Value: 3e-23
Query Start/End: Original strand, 16 - 128
Target Start/End: Original strand, 16497127 - 16497232
Alignment:
Q  16 ccacaaaatcaaacatttaaatttataa-ttaacaccaccaacatcattcaaaatcagatcatcaaagtccaaaactcattaactccaaaaagaaacttt 114  Q
    |||||||||||||||||||||||||||| |||||||||||| |||||||||||||| ||||||       |||||| ||| |||||||||||| ||||||    
T  16497127 ccacaaaatcaaacatttaaatttataaattaacaccaccaccatcattcaaaatcggatcat-------caaaacccatcaactccaaaaag-aacttt 16497218  T
Q  115 ctatcaccaaaatc 128  Q
    ||||||||||||||    
T  16497219 ctatcaccaaaatc 16497232  T

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Target: chr8; HSP #2
Raw Score: 38; E-Value: 0.000000000002
Query Start/End: Original strand, 16 - 69
Target Start/End: Complemental strand, 11080831 - 11080778
Alignment:
Q  16 ccacaaaatcaaacatttaaatttataattaacaccaccaacatcattcaaaat 69  Q
    ||||| |||||||| |||||||||||||||||||||||||  ||||||||||||    
T  11080831 ccacataatcaaacctttaaatttataattaacaccaccactatcattcaaaat 11080778  T

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Target: scaffold0034 (Bit Score: 54; Significance: 5e-22; HSPs: 1)
Name: scaffold0034
Description:

Target: scaffold0034; HSP #1
Raw Score: 54; E-Value: 5e-22
Query Start/End: Original strand, 16 - 111
Target Start/End: Original strand, 98356 - 98444
Alignment:
Q  16 ccacaaaatcaaacatttaaatttataattaacaccaccaacatcattcaaaatcagatcatcaaagtccaaaactcattaactccaaaaagaaac 111  Q
    ||||||||| |||||||||||||||||||||||||||||| |||||||||||||| |||||       ||||||| ||||||||||||||||||||    
T  98356 ccacaaaattaaacatttaaatttataattaacaccaccaccatcattcaaaatcggatca-------ccaaaacccattaactccaaaaagaaac 98444  T

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Target: chr2 (Bit Score: 46; Significance: 3e-17; HSPs: 2)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 46; E-Value: 3e-17
Query Start/End: Original strand, 17 - 70
Target Start/End: Original strand, 20921830 - 20921883
Alignment:
Q  17 cacaaaatcaaacatttaaatttataattaacaccaccaacatcattcaaaatc 70  Q
    |||||| |||||||||||||||||||||||||||||||| ||||||||||||||    
T  20921830 cacaaagtcaaacatttaaatttataattaacaccaccaccatcattcaaaatc 20921883  T

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Target: chr2; HSP #2
Raw Score: 44; E-Value: 4e-16
Query Start/End: Original strand, 22 - 81
Target Start/End: Complemental strand, 12365828 - 12365769
Alignment:
Q  22 aatcaaacatttaaatttataattaacaccaccaacatcattcaaaatcagatcatcaaa 81  Q
    |||||||| ||||||||||||||||||||||||| |||||||||||||| ||||| ||||    
T  12365828 aatcaaacctttaaatttataattaacaccaccaccatcattcaaaatcggatcaccaaa 12365769  T

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Target: chr6 (Bit Score: 42; Significance: 0.000000000000007; HSPs: 2)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 42; E-Value: 0.000000000000007
Query Start/End: Original strand, 16 - 69
Target Start/End: Original strand, 682572 - 682625
Alignment:
Q  16 ccacaaaatcaaacatttaaatttataattaacaccaccaacatcattcaaaat 69  Q
    ||||| |||||||| ||||||||||||||||||||||||| |||||||||||||    
T  682572 ccacataatcaaacctttaaatttataattaacaccaccaccatcattcaaaat 682625  T

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Target: chr6; HSP #2
Raw Score: 29; E-Value: 0.0000004
Query Start/End: Original strand, 95 - 131
Target Start/End: Original strand, 682643 - 682679
Alignment:
Q  95 taactccaaaaagaaactttctatcaccaaaatcctt 131  Q
    |||||||||||||||| ||||| ||||||||||||||    
T  682643 taactccaaaaagaaattttctctcaccaaaatcctt 682679  T

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Target: chr4 (Bit Score: 42; Significance: 0.000000000000007; HSPs: 5)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 42; E-Value: 0.000000000000007
Query Start/End: Original strand, 16 - 69
Target Start/End: Original strand, 5547210 - 5547263
Alignment:
Q  16 ccacaaaatcaaacatttaaatttataattaacaccaccaacatcattcaaaat 69  Q
    ||||| |||||||| ||||||||||||||||||||||||| |||||||||||||    
T  5547210 ccacataatcaaacctttaaatttataattaacaccaccaccatcattcaaaat 5547263  T

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

Target: chr4; HSP #2
Raw Score: 41; E-Value: 0.00000000000003
Query Start/End: Original strand, 16 - 80
Target Start/End: Complemental strand, 37642338 - 37642274
Alignment:
Q  16 ccacaaaatcaaacatttaaatttataattaacaccaccaacatcattcaaaatcagatcatcaa 80  Q
    ||||| |||||||| |||||||||||||| |||||||||| |||||||||||||  |||||||||    
T  37642338 ccacataatcaaacctttaaatttataatcaacaccaccaccatcattcaaaattggatcatcaa 37642274  T

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Target: chr4; HSP #3
Raw Score: 36; E-Value: 0.00000000003
Query Start/End: Original strand, 16 - 55
Target Start/End: Complemental strand, 54373808 - 54373769
Alignment:
Q  16 ccacaaaatcaaacatttaaatttataattaacaccacca 55  Q
    |||||||||||||||||||||||||||| |||||||||||    
T  54373808 ccacaaaatcaaacatttaaatttataactaacaccacca 54373769  T

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

Target: chr4; HSP #4
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 16 - 52
Target Start/End: Complemental strand, 49923566 - 49923530
Alignment:
Q  16 ccacaaaatcaaacatttaaatttataattaacacca 52  Q
    ||||||||||||||||||||||||| |||||||||||    
T  49923566 ccacaaaatcaaacatttaaatttaaaattaacacca 49923530  T

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

Target: chr4; HSP #5
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 18 - 52
Target Start/End: Original strand, 49922825 - 49922859
Alignment:
Q  18 acaaaatcaaacatttaaatttataattaacacca 52  Q
    |||||||||||||||||||||||||||||| ||||    
T  49922825 acaaaatcaaacatttaaatttataattaagacca 49922859  T

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

Target: scaffold2117 (Bit Score: 40; Significance: 0.0000000000001; HSPs: 1)
Name: scaffold2117
Description:

Target: scaffold2117; HSP #1
Raw Score: 40; E-Value: 0.0000000000001
Query Start/End: Original strand, 22 - 142
Target Start/End: Complemental strand, 317 - 203
Alignment:
Q  22 aatcaaacatttaaatttataattaacaccaccaacatcattcaaaatcagatcatcaaagtccaaaactcattaactccaaaaagaaactttctatcac 121  Q
    ||||||||  |||||| ||||||||||||||| | |||||| ||||||  |||||       |||||||||||| |||||||||||||||||| | ||||    
T  317 aatcaaacccttaaatctataattaacaccacaaccatcatccaaaattggatca-------ccaaaactcattcactccaaaaagaaactttttctcac 225  T
Q  122 caaaatccttcc-ctttcacca 142  Q
    ||||| |||||| |||||||||    
T  224 caaaacccttcctctttcacca 203  T

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

Target: scaffold0171 (Bit Score: 36; Significance: 0.00000000003; HSPs: 1)
Name: scaffold0171
Description:

Target: scaffold0171; HSP #1
Raw Score: 36; E-Value: 0.00000000003
Query Start/End: Original strand, 16 - 133
Target Start/End: Complemental strand, 29053 - 28943
Alignment:
Q  16 ccacaaaatcaaacatttaaatttataattaacaccaccaacatcattcaaaatcagatcatcaaagtccaaaactcattaactccaaaaagaaactttc 115  Q
    ||||| |||||||| ||||||| || |||||||||||| | |||||| ||||||  |||||       ||||||| |||| |||||||||||||||||||    
T  29053 ccacataatcaaacctttaaatctacaattaacaccacaaccatcatccaaaattggatca-------ccaaaacccattcactccaaaaagaaactttc 28961  T
Q  116 tatcaccaaaatccttcc 133  Q
      ||||| ||||||||||    
T  28960 attcacccaaatccttcc 28943  T

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