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: NF17442_low_33 (Length: 227)

Name: NF17442_low_33
Description: NF17442
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF17442_low_33
NF17442_low_33
[»] chr2 (19 HSPs)
chr2 (1-227)||(8578654-8578880)
chr2 (95-204)||(7612713-7612822)
chr2 (99-201)||(9060325-9060427)
chr2 (78-183)||(9329437-9329542)
chr2 (62-154)||(17565304-17565396)
chr2 (95-154)||(9321858-9321917)
chr2 (99-176)||(9283401-9283478)
chr2 (99-182)||(9275362-9275445)
chr2 (99-182)||(9316864-9316947)
chr2 (99-173)||(10348651-10348725)
chr2 (99-176)||(10372727-10372804)
chr2 (115-188)||(14551152-14551225)
chr2 (99-183)||(9292766-9292850)
chr2 (99-186)||(8572729-8572815)
chr2 (99-186)||(12018141-12018228)
chr2 (120-186)||(9365430-9365496)
chr2 (99-176)||(7114872-7114949)
chr2 (99-176)||(10336656-10336733)
chr2 (115-204)||(12011836-12011925)
[»] chr5 (1 HSPs)
chr5 (66-183)||(36225588-36225705)
[»] scaffold0667 (1 HSPs)
scaffold0667 (99-154)||(5326-5381)
[»] chr8 (1 HSPs)
chr8 (123-182)||(41965973-41966032)
[»] chr3 (2 HSPs)
chr3 (95-154)||(37463389-37463448)
chr3 (83-149)||(39428750-39428816)
[»] chr1 (2 HSPs)
chr1 (107-188)||(29467060-29467141)
chr1 (94-188)||(29452573-29452667)


Alignment Details
Target: chr2 (Bit Score: 188; Significance: 1e-102; HSPs: 19)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 188; E-Value: 1e-102
Query Start/End: Original strand, 1 - 227
Target Start/End: Original strand, 8578654 - 8578880
Alignment:
Q  1 ctcacaatgaattagaaatgaaggnnnnnnnnntagaaaaccctaaaccagtttcgatttcatggctgatgttccaacggaattgttcatcgatatcctc 100  Q
    ||||||||||||||||||||||||         |||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||    
T  8578654 ctcacaatgaattagaaatgaaggaaaaaaaaatagaaaaccctaaaccagtttcgattccatggctgatgttccaacggaattgttcatcgatatcctc 8578753  T
Q  101 tcccgcttacccgtacaatcccttctccgattccgatcaatttctaaatcacttcgatccttcatagattcccacaccttcaccaaacattacttcaaaa 200  Q
    ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||    
T  8578754 tcccgcttaccggtacaatcccttctccgattccgatcaatttctaaatcacttcgatccttcatagattcccacaccttcaccaaacattacctcaaaa 8578853  T
Q  201 actccttcagtatcaagatcatcctcc 227  Q
    |||||||||||||||||||||||||||    
T  8578854 actccttcagtatcaagatcatcctcc 8578880  T

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Target: chr2; HSP #2
Raw Score: 50; E-Value: 9e-20
Query Start/End: Original strand, 95 - 204
Target Start/End: Complemental strand, 7612822 - 7612713
Alignment:
Q  95 atcctctcccgcttacccgtacaatcccttctccgattccgatcaatttctaaatcacttcgatccttcatagattcccacaccttcaccaaacattact 194  Q
    |||||||| |||||||| |||||| |||| |||||||||||||||||||||||||| |||  |||||| || |||||||||| |||||| || | | ||     
T  7612822 atcctctctcgcttaccggtacaaaccctcctccgattccgatcaatttctaaatcgcttaaatccttaattgattcccacaacttcacaaaccttcacc 7612723  T
Q  195 tcaaaaactc 204  Q
    ||||||||||    
T  7612722 tcaaaaactc 7612713  T

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Target: chr2; HSP #3
Raw Score: 43; E-Value: 0.000000000000001
Query Start/End: Original strand, 99 - 201
Target Start/End: Original strand, 9060325 - 9060427
Alignment:
Q  99 tctcccgcttacccgtacaatcccttctccgattccgatcaatttctaaatcacttcgatccttcatagattcccacaccttcaccaaacattacttcaa 198  Q
    ||||||||||||| || ||||| ||||||||||||||||||| ||| |||||||||  |||||| || ||||| |||| |||||| || | |||| ||||    
T  9060325 tctcccgcttaccggttcaatcacttctccgattccgatcaacttcaaaatcacttaaatccttaatcgattctcacaacttcactaacctttacctcaa 9060424  T
Q  199 aaa 201  Q
    |||    
T  9060425 aaa 9060427  T

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Target: chr2; HSP #4
Raw Score: 42; E-Value: 0.000000000000005
Query Start/End: Original strand, 78 - 183
Target Start/End: Complemental strand, 9329542 - 9329437
Alignment:
Q  78 cggaattgttcatcgatatcctctcccgcttacccgtacaatcccttctccgattccgatcaatttctaaatcacttcgatccttcatagattcccacac 177  Q
    |||||||||| |  || ||||||||||||||||| ||| |||| |||||||||||||| |||| ||| |||||||||  |||| | || ||||||||||     
T  9329542 cggaattgttaacggaaatcctctcccgcttaccggtaaaatcacttctccgattccgttcaacttcaaaatcacttaaatccataatcgattcccacaa 9329443  T
Q  178 cttcac 183  Q
    ||||||    
T  9329442 cttcac 9329437  T

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Target: chr2; HSP #5
Raw Score: 41; E-Value: 0.00000000000002
Query Start/End: Original strand, 62 - 154
Target Start/End: Original strand, 17565304 - 17565396
Alignment:
Q  62 atggctgatgttccaacggaattgttcatcgatatcctctcccgcttacccgtacaatcccttctccgattccgatcaatttctaaatcactt 154  Q
    ||||||||| ||||| ||||||| ||||  || |||||||| |||||||| ||||||||||| |||||| |||||||||  || |||||||||    
T  17565304 atggctgatcttccatcggaattattcactgaaatcctctctcgcttaccagtacaatccctcctccgactccgatcaacgtcgaaatcactt 17565396  T

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Target: chr2; HSP #6
Raw Score: 40; E-Value: 0.00000000000008
Query Start/End: Original strand, 95 - 154
Target Start/End: Complemental strand, 9321917 - 9321858
Alignment:
Q  95 atcctctcccgcttacccgtacaatcccttctccgattccgatcaatttctaaatcactt 154  Q
    ||||||||||||||||| ||| |||| ||||||| ||||||||||| |||||||||||||    
T  9321917 atcctctcccgcttaccggtaaaatcacttctccaattccgatcaacttctaaatcactt 9321858  T

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Target: chr2; HSP #7
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 99 - 176
Target Start/End: Original strand, 9283401 - 9283478
Alignment:
Q  99 tctcccgcttacccgtacaatcccttctccgattccgatcaatttctaaatcacttcgatccttcatagattcccaca 176  Q
    ||||| ||||||| ||  |||| || |||||||||||||||| ||||||||||||||||||| | |||||||| ||||    
T  9283401 tctcctgcttaccagttaaatcactactccgattccgatcaacttctaaatcacttcgatccctaatagattctcaca 9283478  T

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Target: chr2; HSP #8
Raw Score: 36; E-Value: 0.00000000002
Query Start/End: Original strand, 99 - 182
Target Start/End: Complemental strand, 9275445 - 9275362
Alignment:
Q  99 tctcccgcttacccgtacaatcccttctccgattccgatcaatttctaaatcacttcgatccttcatagattcccacaccttca 182  Q
    ||||||| ||||| |||||||| |||||| ||||||||||||| || |||||||||  ||| || || |||||||||| |||||    
T  9275445 tctcccggttaccagtacaatcacttctctgattccgatcaatctcaaaatcacttaaatcgttgattgattcccacaacttca 9275362  T

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Target: chr2; HSP #9
Raw Score: 36; E-Value: 0.00000000002
Query Start/End: Original strand, 99 - 182
Target Start/End: Complemental strand, 9316947 - 9316864
Alignment:
Q  99 tctcccgcttacccgtacaatcccttctccgattccgatcaatttctaaatcacttcgatccttcatagattcccacaccttca 182  Q
    |||||| |||||| ||| |||| ||||||||||||||||||| ||| |||||||||  ||| || |||||||| |||| |||||    
T  9316947 tctcccacttaccagtaaaatcacttctccgattccgatcaacttcaaaatcacttaaatctttaatagattctcacaacttca 9316864  T

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Target: chr2; HSP #10
Raw Score: 35; E-Value: 0.00000000008
Query Start/End: Original strand, 99 - 173
Target Start/End: Complemental strand, 10348725 - 10348651
Alignment:
Q  99 tctcccgcttacccgtacaatcccttctccgattccgatcaatttctaaatcacttcgatccttcatagattccc 173  Q
    ||||||||||||| ||| |||| |||||||||||||||||||  || |||||||||  |||||| || |||||||    
T  10348725 tctcccgcttaccggtaaaatcacttctccgattccgatcaacctcaaaatcacttaaatccttaatcgattccc 10348651  T

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Target: chr2; HSP #11
Raw Score: 34; E-Value: 0.0000000003
Query Start/End: Original strand, 99 - 176
Target Start/End: Complemental strand, 10372804 - 10372727
Alignment:
Q  99 tctcccgcttacccgtacaatcccttctccgattccgatcaatttctaaatcacttcgatccttcatagattcccaca 176  Q
    ||||||||||||| ||| |||| ||||||||||||||||||| ||| |||||| ||  ||| || || ||||||||||    
T  10372804 tctcccgcttaccggtaaaatcacttctccgattccgatcaacttcaaaatcatttaaatcattaatcgattcccaca 10372727  T

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Target: chr2; HSP #12
Raw Score: 34; E-Value: 0.0000000003
Query Start/End: Original strand, 115 - 188
Target Start/End: Complemental strand, 14551225 - 14551152
Alignment:
Q  115 acaatcccttctccgattccgatcaatttctaaatcacttcgatccttcatagattcccacaccttcaccaaac 188  Q
    ||||||||| |||| ||||||||||| ||| |||||||||| |||| | || |||||||||| ||||| |||||    
T  14551225 acaatccctcctccaattccgatcaacttcaaaatcacttcaatccctaatcgattcccacaacttcatcaaac 14551152  T

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Target: chr2; HSP #13
Raw Score: 33; E-Value: 0.000000001
Query Start/End: Original strand, 99 - 183
Target Start/End: Complemental strand, 9292850 - 9292766
Alignment:
Q  99 tctcccgcttacccgtacaatcccttctccgattccgatcaatttctaaatcacttcgatccttcatagattcccacaccttcac 183  Q
    |||||||| |||| ||| |||| |||||| |||||||||||||||| |||||||||  |||| | || ||||| |||| ||||||    
T  9292850 tctcccgcgtaccagtaaaatcacttctcagattccgatcaatttcaaaatcacttaaatccctaatcgattctcacagcttcac 9292766  T

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Target: chr2; HSP #14
Raw Score: 32; E-Value: 0.000000005
Query Start/End: Original strand, 99 - 186
Target Start/End: Original strand, 8572729 - 8572815
Alignment:
Q  99 tctcccgcttacccgtacaatcccttctccgattccgatcaatttctaaatcacttcgatccttcatagattcccacaccttcaccaa 186  Q
    |||||||| |||| ||| |||| ||||||||||||||||||| ||| |||||||||  |||  | || |||||||||| |||||||||    
T  8572729 tctcccgcataccagta-aatcacttctccgattccgatcaacttcaaaatcacttaaatctataatcgattcccacaacttcaccaa 8572815  T

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Target: chr2; HSP #15
Raw Score: 32; E-Value: 0.000000005
Query Start/End: Original strand, 99 - 186
Target Start/End: Original strand, 12018141 - 12018228
Alignment:
Q  99 tctcccgcttacccgtacaatcccttctccgattccgatcaatttctaaatcacttcgatccttcatagattcccacaccttcaccaa 186  Q
    ||||||||||||| ||| |||| ||||| |||||||| |||| ||| |||||||||  |||| | || ||||| |||| |||||||||    
T  12018141 tctcccgcttaccagtaaaatcacttcttcgattccgctcaacttcaaaatcacttaaatccataatcgattctcacaacttcaccaa 12018228  T

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Target: chr2; HSP #16
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 120 - 186
Target Start/End: Complemental strand, 9365496 - 9365430
Alignment:
Q  120 cccttctccgattccgatcaatttctaaatcacttcgatccttcatagattcccacaccttcaccaa 186  Q
    |||||||||||||||||||||  || |||||||||  |||| | || ||||| ||||||||||||||    
T  9365496 cccttctccgattccgatcaacctcaaaatcacttaaatccataatcgattctcacaccttcaccaa 9365430  T

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Target: chr2; HSP #17
Raw Score: 30; E-Value: 0.00000008
Query Start/End: Original strand, 99 - 176
Target Start/End: Original strand, 7114872 - 7114949
Alignment:
Q  99 tctcccgcttacccgtacaatcccttctccgattccgatcaatttctaaatcacttcgatccttcatagattcccaca 176  Q
    |||| ||| |||| |||| ||| ||||| ||||||||||||| ||| |||||||||  |||||| || ||||||||||    
T  7114872 tctctcgcctaccagtacgatcacttcttcgattccgatcaacttcaaaatcacttaaatccttaatcgattcccaca 7114949  T

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Target: chr2; HSP #18
Raw Score: 30; E-Value: 0.00000008
Query Start/End: Original strand, 99 - 176
Target Start/End: Complemental strand, 10336733 - 10336656
Alignment:
Q  99 tctcccgcttacccgtacaatcccttctccgattccgatcaatttctaaatcacttcgatccttcatagattcccaca 176  Q
    ||||||| ||||| ||| |||| |||||||||||||||||||  || |||||||||  |||||| || ||||| ||||    
T  10336733 tctcccgtttaccggtaaaatcacttctccgattccgatcaacctcaaaatcacttaaatccttaatcgattctcaca 10336656  T

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Target: chr2; HSP #19
Raw Score: 30; E-Value: 0.00000008
Query Start/End: Original strand, 115 - 204
Target Start/End: Original strand, 12011836 - 12011925
Alignment:
Q  115 acaatcccttctccgattccgatcaatttctaaatcacttcgatccttcatagattcccacaccttcaccaaacattacttcaaaaactc 204  Q
    |||||| |||||||||||||| |||| ||| |||||||||  |||| | || ||||| |||| ||||||||| | | || ||||||||||    
T  12011836 acaatcacttctccgattccgctcaacttcaaaatcacttaaatccataatcgattctcacaacttcaccaatcttcacctcaaaaactc 12011925  T

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Target: chr5 (Bit Score: 46; Significance: 2e-17; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 46; E-Value: 2e-17
Query Start/End: Original strand, 66 - 183
Target Start/End: Complemental strand, 36225705 - 36225588
Alignment:
Q  66 ctgatgttccaacggaattgttcatcgatatcctctcccgcttacccgtacaatcccttctccgattccgatcaatttctaaatcacttcgatccttcat 165  Q
    ||||||||||| |||| | ||||| ||| ||||||||||||||||  || |||||||| |||||||||||||||| ||| |||||||||  ||| || ||    
T  36225705 ctgatgttccatcggattggttcaccgaaatcctctcccgcttactagtgcaatccctcctccgattccgatcaacttcaaaatcacttaaatcgttaat 36225606  T
Q  166 agattcccacaccttcac 183  Q
     ||||| |||| ||||||    
T  36225605 cgattcgcacaacttcac 36225588  T

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Target: scaffold0667 (Bit Score: 36; Significance: 0.00000000002; HSPs: 1)
Name: scaffold0667
Description:

Target: scaffold0667; HSP #1
Raw Score: 36; E-Value: 0.00000000002
Query Start/End: Original strand, 99 - 154
Target Start/End: Complemental strand, 5381 - 5326
Alignment:
Q  99 tctcccgcttacccgtacaatcccttctccgattccgatcaatttctaaatcactt 154  Q
    ||||||||||||| ||| |||| ||||||||||||||||||| ||| |||||||||    
T  5381 tctcccgcttaccggtaaaatcacttctccgattccgatcaacttcaaaatcactt 5326  T

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Target: chr8 (Bit Score: 36; Significance: 0.00000000002; HSPs: 1)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 36; E-Value: 0.00000000002
Query Start/End: Original strand, 123 - 182
Target Start/End: Original strand, 41965973 - 41966032
Alignment:
Q  123 ttctccgattccgatcaatttctaaatcacttcgatccttcatagattcccacaccttca 182  Q
    ||||||||||||||||||  || ||||||||||||||||| || |||||||||| |||||    
T  41965973 ttctccgattccgatcaacctcgaaatcacttcgatccttaatcgattcccacaacttca 41966032  T

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Target: chr3 (Bit Score: 36; Significance: 0.00000000002; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 36; E-Value: 0.00000000002
Query Start/End: Original strand, 95 - 154
Target Start/End: Complemental strand, 37463448 - 37463389
Alignment:
Q  95 atcctctcccgcttacccgtacaatcccttctccgattccgatcaatttctaaatcactt 154  Q
    ||||||||||| ||||| ||| |||| ||||||||||||||||||| ||| |||||||||    
T  37463448 atcctctcccgtttaccagtagaatcacttctccgattccgatcaacttcaaaatcactt 37463389  T

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Target: chr3; HSP #2
Raw Score: 35; E-Value: 0.00000000008
Query Start/End: Original strand, 83 - 149
Target Start/End: Complemental strand, 39428816 - 39428750
Alignment:
Q  83 ttgttcatcgatatcctctcccgcttacccgtacaatcccttctccgattccgatcaatttctaaat 149  Q
    ||||||| ||| ||||||||||||||||| || |||||||| |||| ||||||||||| ||| ||||    
T  39428816 ttgttcaccgaaatcctctcccgcttaccggtgcaatccctcctccaattccgatcaacttcaaaat 39428750  T

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Target: chr1 (Bit Score: 34; Significance: 0.0000000003; HSPs: 2)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 34; E-Value: 0.0000000003
Query Start/End: Original strand, 107 - 188
Target Start/End: Original strand, 29467060 - 29467141
Alignment:
Q  107 ttacccgtacaatcccttctccgattccgatcaatttctaaatcacttcgatccttcatagattcccacaccttcaccaaac 188  Q
    ||||| ||||||||||| ||||||||||| ||||  || |||||||||| |||| | || |||||||||| ||||| |||||    
T  29467060 ttaccggtacaatccctcctccgattccgttcaacctcaaaatcacttcaatccctaatcgattcccacaacttcatcaaac 29467141  T

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Target: chr1; HSP #2
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 94 - 188
Target Start/End: Original strand, 29452573 - 29452667
Alignment:
Q  94 tatcctctcccgcttacccgtacaatcccttctccgattccgatcaatttctaaatcacttcgatccttcatagattcccacaccttcaccaaac 188  Q
    ||||||||| |  ||||| ||||||||||| ||||||||||| ||||  || |||||||||| |||| | || ||||| |||| ||||| |||||    
T  29452573 tatcctctctctgttaccggtacaatccctcctccgattccgttcaacctcaaaatcacttcaatccctaatcgattctcacaacttcatcaaac 29452667  T

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