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: NF6540_high_16 (Length: 432)

Name: NF6540_high_16
Description: NF6540
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF6540_high_16
NF6540_high_16
[»] chr3 (5 HSPs)
chr3 (10-416)||(42450358-42450764)
chr3 (128-258)||(19405743-19405869)
chr3 (188-229)||(13626184-13626225)
chr3 (179-227)||(21695793-21695841)
chr3 (182-229)||(8946171-8946218)
[»] scaffold0003 (2 HSPs)
scaffold0003 (168-255)||(325721-325808)
scaffold0003 (161-259)||(325334-325432)
[»] chr7 (2 HSPs)
chr7 (140-197)||(48582197-48582254)
chr7 (289-320)||(41936052-41936083)
[»] chr2 (7 HSPs)
chr2 (235-323)||(34233604-34233694)
chr2 (140-182)||(35204339-35204380)
chr2 (128-156)||(187165-187193)
chr2 (130-197)||(9538560-9538627)
chr2 (188-228)||(21557576-21557616)
chr2 (183-227)||(40500646-40500690)
chr2 (182-226)||(43239974-43240018)
[»] scaffold0260 (1 HSPs)
scaffold0260 (188-259)||(20070-20142)
[»] chr4 (3 HSPs)
chr4 (55-107)||(40360917-40360969)
chr4 (175-227)||(19834705-19834757)
chr4 (285-321)||(50492541-50492577)
[»] chr6 (1 HSPs)
chr6 (182-228)||(34208140-34208186)
[»] chr1 (2 HSPs)
chr1 (184-229)||(51394968-51395013)
chr1 (190-228)||(16363764-16363802)
[»] chr5 (5 HSPs)
chr5 (175-229)||(14612565-14612620)
chr5 (182-224)||(14627836-14627878)
chr5 (182-231)||(6038268-6038317)
chr5 (285-322)||(23656116-23656153)
chr5 (285-322)||(23802417-23802454)
[»] scaffold0318 (1 HSPs)
scaffold0318 (140-197)||(2081-2137)
[»] chr8 (2 HSPs)
chr8 (182-227)||(30943432-30943477)
chr8 (188-225)||(40639113-40639150)


Alignment Details
Target: chr3 (Bit Score: 370; Significance: 0; HSPs: 5)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 370; E-Value: 0
Query Start/End: Original strand, 10 - 416
Target Start/End: Complemental strand, 42450764 - 42450358
Alignment:
Q  10 aatattcagaaatcagaccttataatgttttatgcaaaacacccaaacaccgtgagtagatgcaagaagagtcagacacaagctgcaatacaccgaacnn 109  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||      
T  42450764 aatattcagaaatcagaccttataatgttttatgcaaaacacccaaacaccgtgagtagatgcaagaagagtcagacacaagctgcaatacaccgaacaa 42450665  T
Q  110 nnnnnttggaatttgggtgaaagaaaactagcgtgagttaactcatgttgggggttcagtgtgagttttcagcgtgatttaagtcacgtaagttgtattt 209  Q
         ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||    
T  42450664 aaaaattggaatttgggtgaaagaaaactagcgtgagttaactcatgttgggggttcagtgtgaattttcagcgtgatttaagtcacgtaagttgtattt 42450565  T
Q  210 caacgtgacttaagtcacgtggtgttaacacctgcgtaagttaactcacgcgtgatattttctgaagtttggttggagcgagcaaaacgtgacgggagaa 309  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||    
T  42450564 caacgtgacttaagtcacgtggtgttaacacctgcgtaagttaactcacgcgtggtattttctgaagtttggttggagcgagcaaaacgtgacgggagaa 42450465  T
Q  310 gagcaattttcataccatagtgagtgagagcaaatcctacggcccgggcaacattttgttcgcatgaaaagttgtgaattgttaacctacatatatctca 409  Q
    |||||||||||||||||||||||||||||| ||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  42450464 gagcaattttcataccatagtgagtgagagaaaatcctacggcctgggcaacattttgttcgcatgaaaagttgtgaattgttaacctacatatatctca 42450365  T
Q  410 aaatacg 416  Q
    |||||||    
T  42450364 aaatacg 42450358  T

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Target: chr3; HSP #2
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 128 - 258
Target Start/End: Original strand, 19405743 - 19405869
Alignment:
Q  128 gaaagaaaactagcgtgagttaactcatgttgggggttcagtgtgagttttcagcgtgatttaagtcacgtaagttgtatttcaacgtgacttaagtcac 227  Q
    ||||||||||  |||| |||||||| | ||||||| || | |||||||||| |||   | |||||||||||| ||||||||||| |||||||||||| |     
T  19405743 gaaagaaaacctgcgtaagttaactgacgttggggttt-attgtgagtttttagc---acttaagtcacgtaggttgtatttcagcgtgacttaagtaag 19405838  T
Q  228 gtggtgttaacacctgcgtaagttaactcac 258  Q
     |||  |||||| |||| |||||||||||||    
T  19405839 ttgggtttaacatctgcataagttaactcac 19405869  T

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Target: chr3; HSP #3
Raw Score: 34; E-Value: 0.0000000006
Query Start/End: Original strand, 188 - 229
Target Start/End: Complemental strand, 13626225 - 13626184
Alignment:
Q  188 ttaagtcacgtaagttgtatttcaacgtgacttaagtcacgt 229  Q
    |||||||||||| ||||||||||| |||||||||||||||||    
T  13626225 ttaagtcacgtaggttgtatttcagcgtgacttaagtcacgt 13626184  T

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Target: chr3; HSP #4
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 179 - 227
Target Start/End: Original strand, 21695793 - 21695841
Alignment:
Q  179 cagcgtgatttaagtcacgtaagttgtatttcaacgtgacttaagtcac 227  Q
    |||||||| |||||||| | |||||||||| ||||||||||||||||||    
T  21695793 cagcgtgacttaagtcaaggaagttgtattccaacgtgacttaagtcac 21695841  T

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Target: chr3; HSP #5
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 182 - 229
Target Start/End: Complemental strand, 8946218 - 8946171
Alignment:
Q  182 cgtgatttaagtcacgtaagttgtatttcaacgtgacttaagtcacgt 229  Q
    ||||||||||||||||||| |||||||| |  ||||||||||||||||    
T  8946218 cgtgatttaagtcacgtaaattgtattttagagtgacttaagtcacgt 8946171  T

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Target: scaffold0003 (Bit Score: 44; Significance: 7e-16; HSPs: 2)
Name: scaffold0003
Description:

Target: scaffold0003; HSP #1
Raw Score: 44; E-Value: 7e-16
Query Start/End: Original strand, 168 - 255
Target Start/End: Original strand, 325721 - 325808
Alignment:
Q  168 gtgtgagttttcagcgtgatttaagtcacgtaagttgtatttcaacgtgacttaagtcacgtggtgttaacacctgcgtaagttaact 255  Q
    ||||||||||| ||||||| |||||||| ||| ||||||||||| ||||| |||||| |  |||  ||||||||||||||||||||||    
T  325721 gtgtgagtttttagcgtgacttaagtcatgtaggttgtatttcagcgtgatttaagtaagttggatttaacacctgcgtaagttaact 325808  T

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Target: scaffold0003; HSP #2
Raw Score: 43; E-Value: 0.000000000000003
Query Start/End: Original strand, 161 - 259
Target Start/End: Complemental strand, 325432 - 325334
Alignment:
Q  161 gggttcagtgtgagttttcagcgtgatttaagtcacgtaagttgtatttcaacgtgacttaagtcacgtggtgttaacacctgcgtaagttaactcacg 259  Q
    |||||||||||||||||| || |||| |||| ||||||| ||| |||||||  ||||||||||| |  |||  ||||||||||||| ||||||||||||    
T  325432 gggttcagtgtgagtttttagtgtgacttaaatcacgtaggttatatttcagtgtgacttaagtaagttgggtttaacacctgcgtgagttaactcacg 325334  T

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Target: chr7 (Bit Score: 42; Significance: 0.00000000000001; HSPs: 2)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 42; E-Value: 0.00000000000001
Query Start/End: Original strand, 140 - 197
Target Start/End: Complemental strand, 48582254 - 48582197
Alignment:
Q  140 gcgtgagttaactcatgttgggggttcagtgtgagttttcagcgtgatttaagtcacg 197  Q
    ||||||||||||||| | |||||||||||||||| |||||||||||| ||||||||||    
T  48582254 gcgtgagttaactcacgctgggggttcagtgtgaattttcagcgtgacttaagtcacg 48582197  T

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Target: chr7; HSP #2
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 289 - 320
Target Start/End: Original strand, 41936052 - 41936083
Alignment:
Q  289 gagcaaaacgtgacgggagaagagcaattttc 320  Q
    ||||||||||||||||||||||||||||||||    
T  41936052 gagcaaaacgtgacgggagaagagcaattttc 41936083  T

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Target: chr2 (Bit Score: 39; Significance: 0.0000000000006; HSPs: 7)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 39; E-Value: 0.0000000000006
Query Start/End: Original strand, 235 - 323
Target Start/End: Original strand, 34233604 - 34233694
Alignment:
Q  235 taacacctgcgtaagttaactcacgcgtga-tattttctgaagtttggttgg-agcgagcaaaacgtgacgggagaagagcaattttcata 323  Q
    |||||||||||| ||||||||||||| ||| ||||||  ||||||||||||| || ||||||||||||| || ||||||| | ||||||||    
T  34233604 taacacctgcgtgagttaactcacgcatgagtattttgggaagtttggttggaagtgagcaaaacgtgatggaagaagagaatttttcata 34233694  T

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Target: chr2; HSP #2
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 140 - 182
Target Start/End: Complemental strand, 35204380 - 35204339
Alignment:
Q  140 gcgtgagttaactcatgttgggggttcagtgtgagttttcagc 182  Q
    ||||||||||||||||||| |||||||||||||| ||||||||    
T  35204380 gcgtgagttaactcatgtt-ggggttcagtgtgaattttcagc 35204339  T

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Target: chr2; HSP #3
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 128 - 156
Target Start/End: Original strand, 187165 - 187193
Alignment:
Q  128 gaaagaaaactagcgtgagttaactcatg 156  Q
    |||||||||||||||||||||||||||||    
T  187165 gaaagaaaactagcgtgagttaactcatg 187193  T

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Target: chr2; HSP #4
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 130 - 197
Target Start/End: Complemental strand, 9538627 - 9538560
Alignment:
Q  130 aagaaaactagcgtgagttaactcatgttgggggttcagtgtgag-ttttcagcgtgatttaagtcacg 197  Q
    ||||||||||||||||||||||||| | | || |||||||||| | |||||||||||| |||| |||||    
T  9538627 aagaaaactagcgtgagttaactcacgct-ggagttcagtgtgtgtttttcagcgtgaattaactcacg 9538560  T

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Target: chr2; HSP #5
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 188 - 228
Target Start/End: Original strand, 21557576 - 21557616
Alignment:
Q  188 ttaagtcacgtaagttgtatttcaacgtgacttaagtcacg 228  Q
    ||||||||| || ||||||||||| ||||||||||||||||    
T  21557576 ttaagtcacataggttgtatttcagcgtgacttaagtcacg 21557616  T

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Target: chr2; HSP #6
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 183 - 227
Target Start/End: Complemental strand, 40500690 - 40500646
Alignment:
Q  183 gtgatttaagtcacgtaagttgtatttcaacgtgacttaagtcac 227  Q
    |||| |||||||||||| |||||||| ||||||||| ||||||||    
T  40500690 gtgacttaagtcacgtaggttgtattccaacgtgacataagtcac 40500646  T

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Target: chr2; HSP #7
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 182 - 226
Target Start/End: Complemental strand, 43240018 - 43239974
Alignment:
Q  182 cgtgatttaagtcacgtaagttgtatttcaacgtgacttaagtca 226  Q
    ||||| |||||||||||| ||| |||| |||||||||||||||||    
T  43240018 cgtgacttaagtcacgtaggttatattacaacgtgacttaagtca 43239974  T

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Target: scaffold0260 (Bit Score: 37; Significance: 0.00000000001; HSPs: 1)
Name: scaffold0260
Description:

Target: scaffold0260; HSP #1
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 188 - 259
Target Start/End: Complemental strand, 20142 - 20070
Alignment:
Q  188 ttaagtcacgtaagttgtatttcaacgtgacttaagtcacg-tggtgttaacacctgcgtaagttaactcacg 259  Q
    |||||||||||| |||||||| ||||||||||||||||||| | |  |||||| ||||||||||||| |||||    
T  20142 ttaagtcacgtaggttgtattccaacgtgacttaagtcacgcttgatttaacatctgcgtaagttaagtcacg 20070  T

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Target: chr4 (Bit Score: 37; Significance: 0.00000000001; HSPs: 3)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 55 - 107
Target Start/End: Complemental strand, 40360969 - 40360917
Alignment:
Q  55 aacaccgtgagtagatgcaagaagagtcagacacaagctgcaatacaccgaac 107  Q
    |||||| |||||||||||||||||||||||| ||||| ||||||||| |||||    
T  40360969 aacaccttgagtagatgcaagaagagtcagatacaagttgcaatacaacgaac 40360917  T

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Target: chr4; HSP #2
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 175 - 227
Target Start/End: Complemental strand, 19834757 - 19834705
Alignment:
Q  175 ttttcagcgtgatttaagtcacgtaagttgtatttcaacgtgacttaagtcac 227  Q
    |||||| ||| |||||||||||||||||||||||||||| | |||||| ||||    
T  19834757 ttttcaacgtaatttaagtcacgtaagttgtatttcaacataacttaaatcac 19834705  T

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Target: chr4; HSP #3
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 285 - 321
Target Start/End: Complemental strand, 50492577 - 50492541
Alignment:
Q  285 gagcgagcaaaacgtgacgggagaagagcaattttca 321  Q
    ||||||||||||||||| |||||||||||| ||||||    
T  50492577 gagcgagcaaaacgtgaggggagaagagcagttttca 50492541  T

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Target: chr6 (Bit Score: 35; Significance: 0.0000000002; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 35; E-Value: 0.0000000002
Query Start/End: Original strand, 182 - 228
Target Start/End: Complemental strand, 34208186 - 34208140
Alignment:
Q  182 cgtgatttaagtcacgtaagttgtatttcaacgtgacttaagtcacg 228  Q
    ||||| |||||||||||| |||||||| |||||||||||||||||||    
T  34208186 cgtgacttaagtcacgtatgttgtattccaacgtgacttaagtcacg 34208140  T

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Target: chr1 (Bit Score: 34; Significance: 0.0000000006; HSPs: 2)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 34; E-Value: 0.0000000006
Query Start/End: Original strand, 184 - 229
Target Start/End: Complemental strand, 51395013 - 51394968
Alignment:
Q  184 tgatttaagtcacgtaagttgtatttcaacgtgacttaagtcacgt 229  Q
    |||||||||||||||||||| |||| ||||||||| ||||||||||    
T  51395013 tgatttaagtcacgtaagttatattacaacgtgacctaagtcacgt 51394968  T

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Target: chr1; HSP #2
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 190 - 228
Target Start/End: Original strand, 16363764 - 16363802
Alignment:
Q  190 aagtcacgtaagttgtatttcaacgtgacttaagtcacg 228  Q
    |||||||||| |||||||| |||||||||||||||||||    
T  16363764 aagtcacgtaggttgtattccaacgtgacttaagtcacg 16363802  T

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Target: chr5 (Bit Score: 32; Significance: 0.00000001; HSPs: 5)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 175 - 229
Target Start/End: Original strand, 14612565 - 14612620
Alignment:
Q  175 ttttcagcgtgatttaagtcacgtaagttgtat-ttcaacgtgacttaagtcacgt 229  Q
    |||||||||||| |||||||||||| |||||||  ||||| |||||||||||||||    
T  14612565 ttttcagcgtgacttaagtcacgtaggttgtataatcaacatgacttaagtcacgt 14612620  T

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Target: chr5; HSP #2
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 182 - 224
Target Start/End: Complemental strand, 14627878 - 14627836
Alignment:
Q  182 cgtgatttaagtcacgtaagttgtatttcaacgtgacttaagt 224  Q
    ||||| |||||||||||| ||| ||||||||||||||||||||    
T  14627878 cgtgacttaagtcacgtacgttatatttcaacgtgacttaagt 14627836  T

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

Target: chr5; HSP #3
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 182 - 231
Target Start/End: Original strand, 6038268 - 6038317
Alignment:
Q  182 cgtgatttaagtcacgtaagttgtatttcaacgtgacttaagtcacgtgg 231  Q
    ||||| |||||||||||||||||||||||| ||| |||||| ||| ||||    
T  6038268 cgtgacttaagtcacgtaagttgtatttcagcgtaacttaaatcatgtgg 6038317  T

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Target: chr5; HSP #4
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 285 - 322
Target Start/End: Complemental strand, 23656153 - 23656116
Alignment:
Q  285 gagcgagcaaaacgtgacgggagaagagcaattttcat 322  Q
    ||||||||||||||||| || |||||||||||||||||    
T  23656153 gagcgagcaaaacgtgatggaagaagagcaattttcat 23656116  T

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Target: chr5; HSP #5
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 285 - 322
Target Start/End: Original strand, 23802417 - 23802454
Alignment:
Q  285 gagcgagcaaaacgtgacgggagaagagcaattttcat 322  Q
    ||||||||||||||||| || |||||||||||||||||    
T  23802417 gagcgagcaaaacgtgatggaagaagagcaattttcat 23802454  T

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Target: scaffold0318 (Bit Score: 30; Significance: 0.0000002; HSPs: 1)
Name: scaffold0318
Description:

Target: scaffold0318; HSP #1
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 140 - 197
Target Start/End: Original strand, 2081 - 2137
Alignment:
Q  140 gcgtgagttaactcatgttgggggttcagtgtgagttttcagcgtgatttaagtcacg 197  Q
    ||||||||||||||||| ||| | |||||||||| |||||||||||| ||||| ||||    
T  2081 gcgtgagttaactcatgctggag-ttcagtgtgaattttcagcgtgacttaagccacg 2137  T

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Target: chr8 (Bit Score: 30; Significance: 0.0000002; HSPs: 2)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 182 - 227
Target Start/End: Complemental strand, 30943477 - 30943432
Alignment:
Q  182 cgtgatttaagtcacgtaagttgtatttcaacgtgacttaagtcac 227  Q
    ||||| |||| |||||||| ||||||| ||||||||||||||||||    
T  30943477 cgtgacttaaatcacgtaacttgtattccaacgtgacttaagtcac 30943432  T

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

Target: chr8; HSP #2
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 188 - 225
Target Start/End: Complemental strand, 40639150 - 40639113
Alignment:
Q  188 ttaagtcacgtaagttgtatttcaacgtgacttaagtc 225  Q
    |||||||||||| |||||| ||||||||||||||||||    
T  40639150 ttaagtcacgtaggttgtacttcaacgtgacttaagtc 40639113  T

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



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