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: NF17539_low_10 (Length: 426)

Name: NF17539_low_10
Description: NF17539
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF17539_low_10
NF17539_low_10
[»] chr2 (5 HSPs)
chr2 (1-418)||(43874841-43875253)
chr2 (1-407)||(43867171-43867577)
chr2 (1-418)||(43863685-43864086)
chr2 (356-401)||(38989526-38989571)
chr2 (1-69)||(38989165-38989233)
[»] chr4 (1 HSPs)
chr4 (1-69)||(52186878-52186946)
[»] chr3 (8 HSPs)
chr3 (4-72)||(481005-481073)
chr3 (1-68)||(778167-778234)
chr3 (4-72)||(476093-476161)
chr3 (268-401)||(777834-777967)
chr3 (7-51)||(1186288-1186332)
chr3 (7-51)||(1204352-1204396)
chr3 (7-51)||(1304694-1304738)
chr3 (258-302)||(7033507-7033551)
[»] scaffold0438 (1 HSPs)
scaffold0438 (4-51)||(5371-5418)
[»] chr5 (2 HSPs)
chr5 (4-51)||(33958061-33958108)
chr5 (259-302)||(25064563-25064606)


Alignment Details
Target: chr2 (Bit Score: 340; Significance: 0; HSPs: 5)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 340; E-Value: 0
Query Start/End: Original strand, 1 - 418
Target Start/End: Complemental strand, 43875253 - 43874841
Alignment:
Q  1 ttgtccaaaagatggatcaatctttggaagagtcttcccactcttacattatgttcttcatactttaggaccaaggaaactttcagcgtattcctgtctc 100  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||   ||||||||||||||||||||||||||| |||||||||||||    
T  43875253 ttgtccaaaagatggatcaatctttggaagagtcttcccactcttacattatgttc---atactttaggaccaaggaaactttcagtgtattcctgtctc 43875157  T
Q  101 aatttttatctctttgcgatggctcaaccactatacacactctcgatgttgactgcccatattacatggagccaagtatattccaaattattataaaata 200  Q
    ||||||||||||||||||||||||||||||||||||||||||  ||||||||||||| ||||||||| ||||||||||||||||||||||||||||||||    
T  43875156 aatttttatctctttgcgatggctcaaccactatacacactc--gatgttgactgccgatattacattgagccaagtatattccaaattattataaaata 43875059  T
Q  201 tgctatcacacacaacatccaacacttactaatggatatcccttgttgtattgacctctttcccccttgcttcttttcatgtcacacattaacttctctt 300  Q
    ||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||    
T  43875058 tgctatcacacacaatatccaacacttactaatggatatcccttgttgtattgacctctttccctcttgcttcttttcatgtcacacattaacttctctt 43874959  T
Q  301 aatccttctggttacgatatattgtttggtcggatacaaatatttccnnnnnnnttgaatttgccaacattaaccagcttgtctttaaagtacattgcct 400  Q
    |||| ||||||||||||||||||||||||||||||||||||||||||       ||||||||||||||||||||||||||||||||||||||||||||||    
T  43874958 aatctttctggttacgatatattgtttggtcggatacaaatatttccaaaaaaattgaatttgccaacattaaccagcttgtctttaaagtacattgcct 43874859  T
Q  401 tgcatcgaaatgatgatg 418  Q
    ||||| ||| ||||||||    
T  43874858 tgcattgaagtgatgatg 43874841  T

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

Target: chr2; HSP #2
Raw Score: 202; E-Value: 1e-110
Query Start/End: Original strand, 1 - 407
Target Start/End: Complemental strand, 43867577 - 43867171
Alignment:
Q  1 ttgtccaaaagatggatcaatctttggaagagtcttcccactcttacattatgttcttcatactttaggaccaaggaaactttcagcgtattcctgtctc 100  Q
    ||||||||||||||||||| ||| |||||| ||||||| ||| |||||||| |||||||  ||||||||||| || ||| |||   || |||||||||||    
T  43867577 ttgtccaaaagatggatcactctctggaagggtcttcctactattacattaagttcttcgaactttaggaccgagaaaagtttagccgaattcctgtctc 43867478  T
Q  101 aatttttatctctttgcgatggctcaaccactatacacactctcgatgttgactgcccatattacatggagccaagtatattccaaattattataaaata 200  Q
    | |||||||||||| ||||||||||||||||||||||||||||||||||| |||||| ||||||| ||||||| ||  | |||||||| |||||||||||    
T  43867477 actttttatctcttcgcgatggctcaaccactatacacactctcgatgttcactgcctatattacttggagcctagcctgttccaaatgattataaaata 43867378  T
Q  201 tgctatcacacacaacatccaacacttactaatggatatcccttgttgtattgacctctttcccccttgcttcttttcatgtcacacattaacttctctt 300  Q
     |||||  | |||||  ||||||||||||||||| || |||||||| ||||||||||||||||| ||||||||||||| |||||||||||||| ||||||    
T  43867377 cgctatttcccacaatgtccaacacttactaatgaatttcccttgtcgtattgacctctttccctcttgcttcttttcgtgtcacacattaacgtctctt 43867278  T
Q  301 aatccttctggttacgatatattgtttggtcggatacaaatatttccnnnnnnnttgaatttgccaacattaaccagcttgtctttaaagtacattgcct 400  Q
    |||| |||||||||||||||||||||||||| ||||| |||||||||       || ||| ||||| |||||||||||||||||||||||||| || |||    
T  43867277 aatctttctggttacgatatattgtttggtcagataccaatatttccaaaaaatttaaatctgccagcattaaccagcttgtctttaaagtacttttcct 43867178  T
Q  401 tgcatcg 407  Q
    | |||||    
T  43867177 ttcatcg 43867171  T

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

Target: chr2; HSP #3
Raw Score: 171; E-Value: 1e-91
Query Start/End: Original strand, 1 - 418
Target Start/End: Complemental strand, 43864086 - 43863685
Alignment:
Q  1 ttgtccaaaagatggatcaatctttggaagagtcttcccactc-ttacattatgttcttcatactttaggaccaaggaaactttcagcgtattcctgtct 99  Q
    |||||||||||||||||||||||||||||||||||||| |||  |||||||| |||||||| |||||||||||||||||| ||| |||| ||| ||||||    
T  43864086 ttgtccaaaagatggatcaatctttggaagagtcttcctactaattacattaagttcttcaaactttaggaccaaggaaagtttaagcgaatttctgtct 43863987  T
Q  100 caatttttatctctttgcgatggctcaaccactatacacactctcgatgttgactgcccatattacatggagccaagtatattccaaattattataaaat 199  Q
    ||||||||||||||| ||||||||||||||||||||||||||||||||||| |||||||||||| | ||||||||||  ||||| |||| ||||||||||    
T  43863986 caatttttatctcttcgcgatggctcaaccactatacacactctcgatgtttactgcccatattccttggagccaagcctattcaaaatgattataaaat 43863887  T
Q  200 atgctatcacacacaacatccaacacttactaatggatatcccttgttgtattgacctctttcccccttgcttcttttcatgtcacacattaac-ttctc 298  Q
    | | |||  |            ||||||||||||| || ||||||||| |      ||||||||| ||| ||||||||||||||||||||||||  ||||    
T  43863886 acgttatttc------------acacttactaatgaatttcccttgtttt------ctctttccctcttccttcttttcatgtcacacattaacggtctc 43863805  T
Q  299 ttaatccttctggttacgatatattgtttggtcggatacaaatatttccnnnnnnnttgaatttgccaacattaaccagcttgtctttaaagtacattgc 398  Q
    || ||| |||||||||||||||||||||||||| ||||| |||||||||       |||||||||||| ||||||||| |||||||||||||||| || |    
T  43863804 tttatctttctggttacgatatattgtttggtcagataccaatatttccaaaacatttgaatttgccagcattaaccaccttgtctttaaagtacttttc 43863705  T
Q  399 cttgcatcgaaatgatgatg 418  Q
    ||| ||||| | ||||||||    
T  43863704 ctttcatcgcagtgatgatg 43863685  T

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

Target: chr2; HSP #4
Raw Score: 34; E-Value: 0.0000000006
Query Start/End: Original strand, 356 - 401
Target Start/End: Original strand, 38989526 - 38989571
Alignment:
Q  356 tgaatttgccaacattaaccagcttgtctttaaagtacattgcctt 401  Q
    ||||||||||| ||||||||| |||||||||||||||| |||||||    
T  38989526 tgaatttgccatcattaaccaacttgtctttaaagtactttgcctt 38989571  T

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

Target: chr2; HSP #5
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 1 - 69
Target Start/End: Original strand, 38989165 - 38989233
Alignment:
Q  1 ttgtccaaaagatggatcaatctttggaagagtcttcccactcttacattatgttcttcatactttagg 69  Q
    ||||||||||||||||||| ||| |||||||||||| ||||| ||||| |  | |||||||||| ||||    
T  38989165 ttgtccaaaagatggatcattctctggaagagtctttccactattacacttagatcttcatactctagg 38989233  T

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Target: chr4 (Bit Score: 49; Significance: 7e-19; HSPs: 1)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 49; E-Value: 7e-19
Query Start/End: Original strand, 1 - 69
Target Start/End: Original strand, 52186878 - 52186946
Alignment:
Q  1 ttgtccaaaagatggatcaatctttggaagagtcttcccactcttacattatgttcttcatactttagg 69  Q
    ||||||||||||||||||| ||| |||| ||||||||||||||||||| || |||||||||||||||||    
T  52186878 ttgtccaaaagatggatcattctctggaggagtcttcccactcttacactaagttcttcatactttagg 52186946  T

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Target: chr3 (Bit Score: 45; Significance: 2e-16; HSPs: 8)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 45; E-Value: 2e-16
Query Start/End: Original strand, 4 - 72
Target Start/End: Original strand, 481005 - 481073
Alignment:
Q  4 tccaaaagatggatcaatctttggaagagtcttcccactcttacattatgttcttcatactttaggacc 72  Q
    |||||||||||||||||||| ||||||| ||||||||| ||||| ||| |||||||| |||||||||||    
T  481005 tccaaaagatggatcaatctctggaagactcttcccacgcttaccttaagttcttcaaactttaggacc 481073  T

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

Target: chr3; HSP #2
Raw Score: 44; E-Value: 7e-16
Query Start/End: Original strand, 1 - 68
Target Start/End: Complemental strand, 778234 - 778167
Alignment:
Q  1 ttgtccaaaagatggatcaatctttggaagagtcttcccactcttacattatgttcttcatactttag 68  Q
    ||||||||||||||||||||||| ||||| | ||| ||||||||||||||| |||||||| |||||||    
T  778234 ttgtccaaaagatggatcaatctctggaaaattctacccactcttacattaagttcttcacactttag 778167  T

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

Target: chr3; HSP #3
Raw Score: 41; E-Value: 0.00000000000004
Query Start/End: Original strand, 4 - 72
Target Start/End: Original strand, 476093 - 476161
Alignment:
Q  4 tccaaaagatggatcaatctttggaagagtcttcccactcttacattatgttcttcatactttaggacc 72  Q
    |||||||||||||||||||| ||||| | ||||||||| |||||| || |||||||| |||||||||||    
T  476093 tccaaaagatggatcaatctctggaatactcttcccacccttacactaagttcttcaaactttaggacc 476161  T

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

Target: chr3; HSP #4
Raw Score: 41; E-Value: 0.00000000000004
Query Start/End: Original strand, 268 - 401
Target Start/End: Complemental strand, 777967 - 777834
Alignment:
Q  268 tgcttcttttcatgtcacacattaacttctcttaatccttctggttacgatatattgtttggtcggatacaaatatttccnnnnnnnttgaatttgccaa 367  Q
    ||||||||||||||||| || ||||| |||||||||| |||||||| | |||||||||||||||  | ||  ||||||||       |||||||| |||     
T  777967 tgcttcttttcatgtcaaactttaacgtctcttaatctttctggtttccatatattgtttggtcacaaactcatatttccaaattttttgaatttaccag 777868  T
Q  368 cattaaccagcttgtctttaaagtacattgcctt 401  Q
    ||||||| ||||||||| | |||||  |||||||    
T  777867 cattaacaagcttgtctctgaagtattttgcctt 777834  T

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Target: chr3; HSP #5
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 7 - 51
Target Start/End: Original strand, 1186288 - 1186332
Alignment:
Q  7 aaaagatggatcaatctttggaagagtcttcccactcttacatta 51  Q
    ||||||||||||||||| ||||||| |||| ||||||||||||||    
T  1186288 aaaagatggatcaatctctggaagactctttccactcttacatta 1186332  T

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

Target: chr3; HSP #6
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 7 - 51
Target Start/End: Original strand, 1204352 - 1204396
Alignment:
Q  7 aaaagatggatcaatctttggaagagtcttcccactcttacatta 51  Q
    ||||||||||||||||| ||||||| |||| ||||||||||||||    
T  1204352 aaaagatggatcaatctctggaagactctttccactcttacatta 1204396  T

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

Target: chr3; HSP #7
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 7 - 51
Target Start/End: Complemental strand, 1304738 - 1304694
Alignment:
Q  7 aaaagatggatcaatctttggaagagtcttcccactcttacatta 51  Q
    ||||||||||||||||| ||||||| |||| ||||||||||||||    
T  1304738 aaaagatggatcaatctctggaagactctttccactcttacatta 1304694  T

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

Target: chr3; HSP #8
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 258 - 302
Target Start/End: Original strand, 7033507 - 7033551
Alignment:
Q  258 ctttcccccttgcttcttttcatgtcacacattaacttctcttaa 302  Q
    |||||| || ||||||||||||||| |||| ||||||||||||||    
T  7033507 ctttcctccatgcttcttttcatgtaacactttaacttctcttaa 7033551  T

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

Target: scaffold0438 (Bit Score: 40; Significance: 0.0000000000002; HSPs: 1)
Name: scaffold0438
Description:

Target: scaffold0438; HSP #1
Raw Score: 40; E-Value: 0.0000000000002
Query Start/End: Original strand, 4 - 51
Target Start/End: Original strand, 5371 - 5418
Alignment:
Q  4 tccaaaagatggatcaatctttggaagagtcttcccactcttacatta 51  Q
    |||||||||||||||||||| ||||||| |||||||||||||||||||    
T  5371 tccaaaagatggatcaatctctggaagactcttcccactcttacatta 5418  T

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

Target: chr5 (Bit Score: 36; Significance: 0.00000000004; HSPs: 2)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 36; E-Value: 0.00000000004
Query Start/End: Original strand, 4 - 51
Target Start/End: Complemental strand, 33958108 - 33958061
Alignment:
Q  4 tccaaaagatggatcaatctttggaagagtcttcccactcttacatta 51  Q
    |||||||||||||||||||| ||||||| ||||| |||||||||||||    
T  33958108 tccaaaagatggatcaatctctggaagactcttcacactcttacatta 33958061  T

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

Target: chr5; HSP #2
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 259 - 302
Target Start/End: Original strand, 25064563 - 25064606
Alignment:
Q  259 tttcccccttgcttcttttcatgtcacacattaacttctcttaa 302  Q
    |||||||||| ||||||||||||||||||||||||  |||||||    
T  25064563 tttcccccttccttcttttcatgtcacacattaaccactcttaa 25064606  T

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



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