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: NF16404_low_9 (Length: 273)

Name: NF16404_low_9
Description: NF16404
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF16404_low_9
NF16404_low_9
[»] chr5 (1 HSPs)
chr5 (1-260)||(29505756-29506015)
[»] chr1 (7 HSPs)
chr1 (45-255)||(44783967-44784177)
chr1 (45-243)||(44614296-44614497)
chr1 (45-255)||(35900722-35900932)
chr1 (41-235)||(17809936-17810130)
chr1 (153-256)||(44146591-44146694)
chr1 (43-140)||(11542765-11542862)
chr1 (182-243)||(11542858-11542919)
[»] scaffold0017 (2 HSPs)
scaffold0017 (41-243)||(182255-182457)
scaffold0017 (43-237)||(171174-171368)
[»] scaffold0061 (1 HSPs)
scaffold0061 (43-237)||(27424-27618)
[»] chr3 (1 HSPs)
chr3 (1-242)||(26729914-26730157)
[»] chr2 (4 HSPs)
chr2 (140-256)||(29227245-29227361)
chr2 (140-256)||(29340544-29340660)
chr2 (41-133)||(29218242-29218334)
chr2 (41-133)||(29331541-29331633)


Alignment Details
Target: chr5 (Bit Score: 204; Significance: 1e-111; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 204; E-Value: 1e-111
Query Start/End: Original strand, 1 - 260
Target Start/End: Original strand, 29505756 - 29506015
Alignment:
Q  1 cctgcttagcattcgtcaactttaaagcaactagacatgtattcactgcttccaccacatgaacactttcaatatcaaagcattcaagaatttggaatag 100  Q
    |||||||||||||| || | |||| | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  29505756 cctgcttagcattcatccagtttagaacaactagacatgtattcactgcttccaccacatgaacactttcaatatcaaagcattcaagaatttggaatag 29505855  T
Q  101 gtttctctccaagatggtaagaacaatattgagactataaagccaacaaaagtagtgaagaatcctagccccatgctcatgtataatgcttccaaaaata 200  Q
    ||||||||||||||||||| ||||||||||||  ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  29505856 gtttctctccaagatggtaggaacaatattgaccctataaagccaacaaaagtagtgaagaatcctagccccatgctcatgtataatgcttccaaaaata 29505955  T
Q  201 ttgaattgtcatctcctacatcagttattggcacttgatgtttcggttgctcttcttctc 260  Q
    ||||| ||| ||||||| ||||||||||||||||||||||||| ||  ||||||||||||    
T  29505956 ttgaactgtaatctcctgcatcagttattggcacttgatgttttggcggctcttcttctc 29506015  T

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

Target: chr1 (Bit Score: 115; Significance: 2e-58; HSPs: 7)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 115; E-Value: 2e-58
Query Start/End: Original strand, 45 - 255
Target Start/End: Original strand, 44783967 - 44784177
Alignment:
Q  45 actgcttccaccacatgaacactttcaatatcaaagcattcaagaatttggaataggtttctctccaagatggtaagaacaatattgagactataaagcc 144  Q
    ||||||||||||| ||||  | | ||||||| |||| ||||||||||||||| ||||||||||||||||||||||  |||||||||||| ||||||| ||    
T  44783967 actgcttccaccagatgatgattctcaatattaaagtattcaagaatttggagtaggtttctctccaagatggtagtaacaatattgagcctataaaacc 44784066  T
Q  145 aacaaaagtagtgaagaatcctagccccatgctcatgtataatgcttccaaaaatattgaattgtcatctcctacatcagttattggcacttgatgtttc 244  Q
    ||| ||| |||| |||||||||| |||||||||||||||||| ||||||||||||| |||||||||||||||  ||||| || ||||||||||||||||     
T  44784067 aacgaaactagtaaagaatcctatccccatgctcatgtataacgcttccaaaaatactgaattgtcatctccagcatcaattgttggcacttgatgtttt 44784166  T
Q  245 ggttgctcttc 255  Q
    ||| |||||||    
T  44784167 ggtggctcttc 44784177  T

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Target: chr1; HSP #2
Raw Score: 104; E-Value: 6e-52
Query Start/End: Original strand, 45 - 243
Target Start/End: Complemental strand, 44614497 - 44614296
Alignment:
Q  45 actgcttccaccacatgaacactttcaatatcaaagcattcaagaatttggaataggtttctctccaagatggtaagaacaatattgagactataaagcc 144  Q
    ||||||||||||||||||  ||||||||||||||||  ||||||||| |||| || |||||||||||||||||||  ||||| |||||| | |  |||||    
T  44614497 actgcttccaccacatgatgactttcaatatcaaagtgttcaagaatctggagtaagtttctctccaagatggtagtaacaacattgagccgaccaagcc 44614398  T
Q  145 aacaaaagtagtgaagaatcctagccccatgctcatgtataatgcttccaaaaatattgaatt---gtcatctcctacatcagttattggcacttgatgt 241  Q
    ||| |||  |||||||||||||| |||||||||||||||||||||||||||||||||||||||    ||||||||| |||||||| ||||||||||||||    
T  44614397 aacgaaaccagtgaagaatcctatccccatgctcatgtataatgcttccaaaaatattgaattatcatcatctcctgcatcagttgttggcacttgatgt 44614298  T
Q  242 tt 243  Q
    ||    
T  44614297 tt 44614296  T

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

Target: chr1; HSP #3
Raw Score: 83; E-Value: 2e-39
Query Start/End: Original strand, 45 - 255
Target Start/End: Complemental strand, 35900932 - 35900722
Alignment:
Q  45 actgcttccaccacatgaacactttcaatatcaaagcattcaagaatttggaataggtttctctccaagatggtaagaacaatattgagactataaagcc 144  Q
    ||||||||| ||||| ||| | |||||||||||| |  ||||||||||||||  | |||||||||||||||||||  || ||||||||| ||   |||||    
T  35900932 actgcttcctccacaagaagattttcaatatcaatgtgttcaagaatttggagcaagtttctctccaagatggtagtaaaaatattgagcctgccaagcc 35900833  T
Q  145 aacaaaagtagtgaagaatcctagccccatgctcatgtataatgcttccaaaaatattgaattgtcatctcctacatcagttattggcacttgatgtttc 244  Q
    ||| ||   | |||||||||||| ||||   ||||||||||||||||||||||||||| |||||||||||||| |||||||| || ||||||||| ||||    
T  35900832 aacgaagccaatgaagaatcctatccccccactcatgtataatgcttccaaaaatattaaattgtcatctcctgcatcagttgtttgcacttgatatttc 35900733  T
Q  245 ggttgctcttc 255  Q
    ||| |||||||    
T  35900732 ggtggctcttc 35900722  T

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Target: chr1; HSP #4
Raw Score: 79; E-Value: 5e-37
Query Start/End: Original strand, 41 - 235
Target Start/End: Original strand, 17809936 - 17810130
Alignment:
Q  41 attcactgcttccaccacatgaacactttcaatatcaaagcattcaagaatttggaataggtttctctccaagatggtaagaacaatattgagactataa 140  Q
    |||||||||||||||||| |||| ||||||||||||||||  ||||||||| |||| || || ||||||||||| ||||  |||||||||||| |||  |    
T  17809936 attcactgcttccaccacgtgaagactttcaatatcaaagtgttcaagaatctggagtaagtatctctccaagacggtagtaacaatattgagcctacca 17810035  T
Q  141 agccaacaaaagtagtgaagaatcctagccccatgctcatgtataatgcttccaaaaatattgaattgtcatctcctacatcagttattggcact 235  Q
    ||||||| |||  ||| ||||| || |||||||||||||||||||||| ||| ||||| ||||| || ||||||||| |||  ||| ||||||||    
T  17810036 agccaacgaaaccagtaaagaacccaagccccatgctcatgtataatgtttctaaaaacattgagttctcatctcctgcatttgttgttggcact 17810130  T

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Target: chr1; HSP #5
Raw Score: 64; E-Value: 5e-28
Query Start/End: Original strand, 153 - 256
Target Start/End: Complemental strand, 44146694 - 44146591
Alignment:
Q  153 tagtgaagaatcctagccccatgctcatgtataatgcttccaaaaatattgaattgtcatctcctacatcagttattggcacttgatgtttcggttgctc 252  Q
    ||||||||||||||| ||||||||||||||| |||||||| |||||||||||||||||||||||| |||||||  | |||||||||||||| | | ||||    
T  44146694 tagtgaagaatcctatccccatgctcatgtagaatgcttctaaaaatattgaattgtcatctcctgcatcagtagtcggcacttgatgttttgatggctc 44146595  T
Q  253 ttct 256  Q
    ||||    
T  44146594 ttct 44146591  T

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Target: chr1; HSP #6
Raw Score: 46; E-Value: 3e-17
Query Start/End: Original strand, 43 - 140
Target Start/End: Original strand, 11542765 - 11542862
Alignment:
Q  43 tcactgcttccaccacatgaacactttcaatatcaaagcattcaagaatttggaataggtttctctccaagatggtaagaacaatattgagactataa 140  Q
    ||||| |||||||||  |||| | | ||||||| |||||||||||||||||||| |||||||||||||||||||| |  ||| |||||||| ||||||    
T  11542765 tcactacttccaccatctgaagattctcaatattaaagcattcaagaatttggagtaggtttctctccaagatggcagtaacgatattgagcctataa 11542862  T

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Target: chr1; HSP #7
Raw Score: 46; E-Value: 3e-17
Query Start/End: Original strand, 182 - 243
Target Start/End: Original strand, 11542858 - 11542919
Alignment:
Q  182 tataatgcttccaaaaatattgaattgtcatctcctacatcagttattggcacttgatgttt 243  Q
    ||||||||||||||||||||||||||||||||| || |||||||| | ||||||||||||||    
T  11542858 tataatgcttccaaaaatattgaattgtcatcttctgcatcagttgtcggcacttgatgttt 11542919  T

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Target: scaffold0017 (Bit Score: 107; Significance: 1e-53; HSPs: 2)
Name: scaffold0017
Description:

Target: scaffold0017; HSP #1
Raw Score: 107; E-Value: 1e-53
Query Start/End: Original strand, 41 - 243
Target Start/End: Complemental strand, 182457 - 182255
Alignment:
Q  41 attcactgcttccaccacatgaacactttcaatatcaaagcattcaagaatttggaataggtttctctccaagatggtaagaacaatattgagactataa 140  Q
    |||||| |||||||||||||||  ||||||||||||||||  ||||||||| |||| || |||||||||||||||||||  |||||||||||| |||  |    
T  182457 attcacggcttccaccacatgatgactttcaatatcaaagtgttcaagaatctggagtaagtttctctccaagatggtagtaacaatattgagcctacca 182358  T
Q  141 agccaacaaaagtagtgaagaatcctagccccatgctcatgtataatgcttccaaaaatattgaattgtcatctcctacatcagttattggcacttgatg 240  Q
    ||||||  |||  |||||||||||||| |||||||||||| ||||||||||||||||||| |||||| ||||||||| |||| ||| |||||||||||||    
T  182357 agccaatgaaaccagtgaagaatcctatccccatgctcatatataatgcttccaaaaatactgaattttcatctcctgcatccgttgttggcacttgatg 182258  T
Q  241 ttt 243  Q
    |||    
T  182257 ttt 182255  T

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

Target: scaffold0017; HSP #2
Raw Score: 103; E-Value: 3e-51
Query Start/End: Original strand, 43 - 237
Target Start/End: Complemental strand, 171368 - 171174
Alignment:
Q  43 tcactgcttccaccacatgaacactttcaatatcaaagcattcaagaatttggaataggtttctctccaagatggtaagaacaatattgagactataaag 142  Q
    ||||| ||||||||||||||| | | ||||||  |||| ||||||||||||||| ||||||||||||||||||||||  |||||||||||| |||  ||     
T  171368 tcactacttccaccacatgaaaattctcaatagtaaagtattcaagaatttggagtaggtttctctccaagatggtagtaacaatattgagcctaccaaa 171269  T
Q  143 ccaacaaaagtagtgaagaatcctagccccatgctcatgtataatgcttccaaaaatattgaattgtcatctcctacatcagttattggcacttg 237  Q
    ||||| |||  |||||||||||||| |||||||||||| ||||||||||| |||||||||||||| ||||||||| |||||||| ||||||||||    
T  171268 ccaacgaaaccagtgaagaatcctatccccatgctcatatataatgcttcaaaaaatattgaattttcatctcctgcatcagttgttggcacttg 171174  T

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Target: scaffold0061 (Bit Score: 103; Significance: 3e-51; HSPs: 1)
Name: scaffold0061
Description:

Target: scaffold0061; HSP #1
Raw Score: 103; E-Value: 3e-51
Query Start/End: Original strand, 43 - 237
Target Start/End: Original strand, 27424 - 27618
Alignment:
Q  43 tcactgcttccaccacatgaacactttcaatatcaaagcattcaagaatttggaataggtttctctccaagatggtaagaacaatattgagactataaag 142  Q
    ||||| ||||||||||||||| | | ||||||  |||| ||||||||||||||| ||||||||||||||||||||||  |||||||||||| |||  ||     
T  27424 tcactacttccaccacatgaaaattctcaatagtaaagtattcaagaatttggagtaggtttctctccaagatggtagtaacaatattgagcctaccaaa 27523  T
Q  143 ccaacaaaagtagtgaagaatcctagccccatgctcatgtataatgcttccaaaaatattgaattgtcatctcctacatcagttattggcacttg 237  Q
    ||||| |||  |||||||||||||| |||||||||||| ||||||||||| |||||||||||||| ||||||||| |||||||| ||||||||||    
T  27524 ccaacgaaaccagtgaagaatcctatccccatgctcatatataatgcttcaaaaaatattgaattttcatctcctgcatcagttgttggcacttg 27618  T

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

Target: chr3 (Bit Score: 89; Significance: 6e-43; HSPs: 1)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 89; E-Value: 6e-43
Query Start/End: Original strand, 1 - 242
Target Start/End: Complemental strand, 26730157 - 26729914
Alignment:
Q  1 cctgcttagcattcgtcaactttaaagcaactagacatgt--attcactgcttccaccacatgaacactttcaatatcaaagcattcaagaatttggaat 98  Q
    |||||| | ||||| || |||||  |||||||||||| ||  |||||||||||||||||||||||  ||||||| ||||| |  ||||||||| |||| |    
T  26730157 cctgctcatcattcatccactttggagcaactagacaagttcattcactgcttccaccacatgaaggctttcaagatcaaggtgttcaagaatctggagt 26730058  T
Q  99 aggtttctctccaagatggtaagaacaatattgagactataaagccaacaaaagtagtgaagaatcctagccccatgctcatgtataatgcttccaaaaa 198  Q
    | |||||||||||||| | ||  |||| ||||||| |||  |||||||| ||| ||||||||||||||| |||||||||||||||||| |||||||||||    
T  26730057 aagtttctctccaagacgatattaacattattgagcctaccaagccaacgaaactagtgaagaatcctatccccatgctcatgtataaagcttccaaaaa 26729958  T
Q  199 tattgaattgtcatctcctacatcagttattggcacttgatgtt 242  Q
    ||||||||| || | ||||  ||  ||| |||||||||||||||    
T  26729957 tattgaattctcgtttcctgaatttgttgttggcacttgatgtt 26729914  T

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

Target: chr2 (Bit Score: 77; Significance: 8e-36; HSPs: 4)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 77; E-Value: 8e-36
Query Start/End: Original strand, 140 - 256
Target Start/End: Original strand, 29227245 - 29227361
Alignment:
Q  140 aagccaacaaaagtagtgaagaatcctagccccatgctcatgtataatgcttccaaaaatattgaattgtcatctcctacatcagttattggcacttgat 239  Q
    |||||||| |||  |||||||||||||||||||||||||||||| |||||||||| ||||||||||||||||||||||||||||||| ||||||||||      
T  29227245 aagccaacgaaaccagtgaagaatcctagccccatgctcatgtagaatgcttccagaaatattgaattgtcatctcctacatcagttgttggcacttgtg 29227344  T
Q  240 gtttcggttgctcttct 256  Q
    |||| | ||||||||||    
T  29227345 gttttgattgctcttct 29227361  T

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

Target: chr2; HSP #2
Raw Score: 77; E-Value: 8e-36
Query Start/End: Original strand, 140 - 256
Target Start/End: Original strand, 29340544 - 29340660
Alignment:
Q  140 aagccaacaaaagtagtgaagaatcctagccccatgctcatgtataatgcttccaaaaatattgaattgtcatctcctacatcagttattggcacttgat 239  Q
    |||||||| |||  |||||||||||||||||||||||||||||| |||||||||| ||||||||||||||||||||||||||||||| ||||||||||      
T  29340544 aagccaacgaaaccagtgaagaatcctagccccatgctcatgtagaatgcttccagaaatattgaattgtcatctcctacatcagttgttggcacttgtg 29340643  T
Q  240 gtttcggttgctcttct 256  Q
    |||| | ||||||||||    
T  29340644 gttttgattgctcttct 29340660  T

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

Target: chr2; HSP #3
Raw Score: 41; E-Value: 0.00000000000003
Query Start/End: Original strand, 41 - 133
Target Start/End: Original strand, 29218242 - 29218334
Alignment:
Q  41 attcactgcttccaccacatgaacactttcaatatcaaagcattcaagaatttggaataggtttctctccaagatggtaagaacaatattgag 133  Q
    |||||||||||||| |||||||  | | ||||||| |  ||||||||||||||||| ||||||||| ||||||| ||||  ||||||||||||    
T  29218242 attcactgcttccagcacatgatgattctcaatattatcgcattcaagaatttggagtaggtttctttccaagacggtagtaacaatattgag 29218334  T

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

Target: chr2; HSP #4
Raw Score: 41; E-Value: 0.00000000000003
Query Start/End: Original strand, 41 - 133
Target Start/End: Original strand, 29331541 - 29331633
Alignment:
Q  41 attcactgcttccaccacatgaacactttcaatatcaaagcattcaagaatttggaataggtttctctccaagatggtaagaacaatattgag 133  Q
    |||||||||||||| |||||||  | | ||||||| |  ||||||||||||||||| ||||||||| ||||||| ||||  ||||||||||||    
T  29331541 attcactgcttccagcacatgatgattctcaatattatcgcattcaagaatttggagtaggtttctttccaagacggtagtaacaatattgag 29331633  T

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



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