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: NF11942_low_33 (Length: 300)

Name: NF11942_low_33
Description: NF11942
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF11942_low_33
NF11942_low_33
[»] chr4 (4 HSPs)
chr4 (60-291)||(31290603-31290831)
chr4 (60-291)||(27957371-27957599)
chr4 (1-51)||(27957328-27957378)
chr4 (1-51)||(34958413-34958463)
[»] chr6 (9 HSPs)
chr6 (128-215)||(11619743-11619830)
chr6 (218-289)||(11618998-11619069)
chr6 (218-289)||(11663819-11663890)
chr6 (218-289)||(11673054-11673125)
chr6 (135-210)||(11630464-11630539)
chr6 (135-210)||(11664595-11664670)
chr6 (218-289)||(11709597-11709668)
chr6 (135-210)||(11708864-11708939)
chr6 (135-203)||(12091602-12091670)
[»] chr5 (2 HSPs)
chr5 (5-100)||(27016506-27016601)
chr5 (5-51)||(19719345-19719390)
[»] scaffold0019 (2 HSPs)
scaffold0019 (135-215)||(7024-7104)
scaffold0019 (218-289)||(8040-8111)
[»] chr8 (4 HSPs)
chr8 (1-104)||(28911919-28912022)
chr8 (135-203)||(16392025-16392093)
chr8 (5-51)||(28425275-28425321)
chr8 (1-90)||(42513468-42513556)
[»] chr3 (1 HSPs)
chr3 (1-49)||(24739030-24739078)
[»] scaffold0196 (1 HSPs)
scaffold0196 (135-174)||(14379-14418)
[»] chr1 (1 HSPs)
chr1 (18-100)||(41577171-41577253)


Alignment Details
Target: chr4 (Bit Score: 158; Significance: 4e-84; HSPs: 4)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 158; E-Value: 4e-84
Query Start/End: Original strand, 60 - 291
Target Start/End: Original strand, 31290603 - 31290831
Alignment:
Q  60 gagcccgtcgcgggctagcctgaccgggccgcgggtagcccattttttaatttataactttcacttaatcgtccaattcagatattgtaagtaaggcttc 159  Q
    |||||||||||||||||||| |||||||||||||||||||| |||   ||||||||||| ||||||||||||||||||||||||||||||||||||||||    
T  31290603 gagcccgtcgcgggctagcccgaccgggccgcgggtagcccgttt---aatttataactgtcacttaatcgtccaattcagatattgtaagtaaggcttc 31290699  T
Q  160 aatcttgtatctcctatctttctttcttcttcttgaattaattgctttccacttggatcctccgcttaaattaacctctctctcgcctattacaatgagg 259  Q
     ||| |||||||||||||| |||||||||||| |||||||||||||||||||||||||||| || ||||||||||| ||||||||||||||||  |||||    
T  31290700 gatcatgtatctcctatctctctttcttcttcctgaattaattgctttccacttggatccttcgtttaaattaacccctctctcgcctattactctgagg 31290799  T
Q  260 tctctatagggaaacaactcaaggtcctttgc 291  Q
    |||| ||||| ||||||||||||||| |||||    
T  31290800 tctccataggaaaacaactcaaggtcttttgc 31290831  T

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Target: chr4; HSP #2
Raw Score: 150; E-Value: 3e-79
Query Start/End: Original strand, 60 - 291
Target Start/End: Original strand, 27957371 - 27957599
Alignment:
Q  60 gagcccgtcgcgggctagcctgaccgggccgcgggtagcccattttttaatttataactttcacttaatcgtccaattcagatattgtaagtaaggcttc 159  Q
    ||||||||||||||||| || ||||| |||||||||||||| |||   ||||||||||| ||||||||||||||||||||||||||||||||||||||||    
T  27957371 gagcccgtcgcgggctaacccgaccgagccgcgggtagcccgttt---aatttataactgtcacttaatcgtccaattcagatattgtaagtaaggcttc 27957467  T
Q  160 aatcttgtatctcctatctttctttcttcttcttgaattaattgctttccacttggatcctccgcttaaattaacctctctctcgcctattacaatgagg 259  Q
     |||||||||||||||||| ||||||||||||||||||||||| |||| ||||||  ||||||||||||||||||| ||||||||||||||| | |||||    
T  27957468 gatcttgtatctcctatctctctttcttcttcttgaattaattacttttcacttgagtcctccgcttaaattaacccctctctcgcctattatagtgagg 27957567  T
Q  260 tctctatagggaaacaactcaaggtcctttgc 291  Q
    |||| | |||||||||||||||| ||||||||    
T  27957568 tctccacagggaaacaactcaagatcctttgc 27957599  T

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Target: chr4; HSP #3
Raw Score: 43; E-Value: 0.000000000000002
Query Start/End: Original strand, 1 - 51
Target Start/End: Original strand, 27957328 - 27957378
Alignment:
Q  1 acacaaaaacttggacccgtttaaaaccgggcctttttagccagagcccgt 51  Q
    |||||||||||||| || |||||||||||||||||||||||||||||||||    
T  27957328 acacaaaaacttgggcctgtttaaaaccgggcctttttagccagagcccgt 27957378  T

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Target: chr4; HSP #4
Raw Score: 39; E-Value: 0.0000000000004
Query Start/End: Original strand, 1 - 51
Target Start/End: Complemental strand, 34958463 - 34958413
Alignment:
Q  1 acacaaaaacttggacccgtttaaaaccgggcctttttagccagagcccgt 51  Q
    ||||||||| |||||||||||||||||||||||||||||||| ||| ||||    
T  34958463 acacaaaaatttggacccgtttaaaaccgggcctttttagcccgagtccgt 34958413  T

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Target: chr6 (Bit Score: 60; Significance: 1e-25; HSPs: 9)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 60; E-Value: 1e-25
Query Start/End: Original strand, 128 - 215
Target Start/End: Complemental strand, 11619830 - 11619743
Alignment:
Q  128 tcgtccaattcagatattgtaagtaaggcttcaatcttgtatctcctatctttctttcttcttcttgaattaattgctttccacttgg 215  Q
    |||||| ||| ||||||||||||||||||||||||| ||||| |||||||| |||||||||||| ||||||||||| |||||||||||    
T  11619830 tcgtccgatttagatattgtaagtaaggcttcaatcctgtatttcctatctctctttcttcttcctgaattaattgatttccacttgg 11619743  T

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Target: chr6; HSP #2
Raw Score: 52; E-Value: 8e-21
Query Start/End: Original strand, 218 - 289
Target Start/End: Complemental strand, 11619069 - 11618998
Alignment:
Q  218 cctccgcttaaattaacctctctctcgcctattacaatgaggtctctatagggaaacaactcaaggtccttt 289  Q
    |||||||||||||||||  |||||||||||||| || ||||||||| |||||||||||||||||||||||||    
T  11619069 cctccgcttaaattaactcctctctcgcctatttcagtgaggtctccatagggaaacaactcaaggtccttt 11618998  T

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Target: chr6; HSP #3
Raw Score: 36; E-Value: 0.00000000003
Query Start/End: Original strand, 218 - 289
Target Start/End: Complemental strand, 11663890 - 11663819
Alignment:
Q  218 cctccgcttaaattaacctctctctcgcctattacaatgaggtctctatagggaaacaactcaaggtccttt 289  Q
    ||||| ||||| |||||  |||||||||||||| |  ||||||| | |||||||||||||||||||||||||    
T  11663890 cctccacttaagttaactcctctctcgcctatttcggtgaggtcaccatagggaaacaactcaaggtccttt 11663819  T

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Target: chr6; HSP #4
Raw Score: 36; E-Value: 0.00000000003
Query Start/End: Original strand, 218 - 289
Target Start/End: Original strand, 11673054 - 11673125
Alignment:
Q  218 cctccgcttaaattaacctctctctcgcctattacaatgaggtctctatagggaaacaactcaaggtccttt 289  Q
    ||||| |||||||||||  ||||||| |||||| || ||||||| | ||||||||||||||| |||||||||    
T  11673054 cctccacttaaattaactcctctctcacctatttcagtgaggtcaccatagggaaacaactcgaggtccttt 11673125  T

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Target: chr6; HSP #5
Raw Score: 32; E-Value: 0.000000007
Query Start/End: Original strand, 135 - 210
Target Start/End: Original strand, 11630464 - 11630539
Alignment:
Q  135 attcagatattgtaagtaaggcttcaatcttgtatctcctatctttctttcttcttcttgaattaattgctttcca 210  Q
    ||||| ||||||||||||||||||||| | ||  |||||| ||| |||||||||||  | ||||||||| ||||||    
T  11630464 attcaaatattgtaagtaaggcttcaaccctgcgtctcctttctctctttcttcttgcttaattaattgatttcca 11630539  T

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Target: chr6; HSP #6
Raw Score: 32; E-Value: 0.000000007
Query Start/End: Original strand, 135 - 210
Target Start/End: Complemental strand, 11664670 - 11664595
Alignment:
Q  135 attcagatattgtaagtaaggcttcaatcttgtatctcctatctttctttcttcttcttgaattaattgctttcca 210  Q
    ||||| ||||||||||||||||||||| | | | |||||| ||| |||||||||||  | ||||||||| ||||||    
T  11664670 attcaaatattgtaagtaaggcttcaaccctttgtctcctctctctctttcttcttgcttaattaattgatttcca 11664595  T

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Target: chr6; HSP #7
Raw Score: 32; E-Value: 0.000000007
Query Start/End: Original strand, 218 - 289
Target Start/End: Original strand, 11709597 - 11709668
Alignment:
Q  218 cctccgcttaaattaacctctctctcgcctattacaatgaggtctctatagggaaacaactcaaggtccttt 289  Q
    |||||||||||||||||  |||||||||||||| |  |||| || | ||||||||  |||||||||||||||    
T  11709597 cctccgcttaaattaactcctctctcgcctatttctgtgagatcgccatagggaagtaactcaaggtccttt 11709668  T

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Target: chr6; HSP #8
Raw Score: 29; E-Value: 0.0000004
Query Start/End: Original strand, 135 - 210
Target Start/End: Original strand, 11708864 - 11708939
Alignment:
Q  135 attcagatattgtaagtaaggcttcaatcttgtatctcctatctttctttcttctt-cttgaattaattgctttcca 210  Q
    |||||||||||||||||| |||||||| | | | |||||| ||| ||||||||||| |||| |||||||| ||||||    
T  11708864 attcagatattgtaagtacggcttcaaccctttgtctcctttctctctttcttcttgcttg-attaattgatttcca 11708939  T

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Target: chr6; HSP #9
Raw Score: 29; E-Value: 0.0000004
Query Start/End: Original strand, 135 - 203
Target Start/End: Original strand, 12091602 - 12091670
Alignment:
Q  135 attcagatattgtaagtaaggcttcaatcttgtatctcctatctttctttcttcttcttgaattaattg 203  Q
    ||||||||| ||||||||||||||||||| ||| |||||| | | ||| |||||||  | |||||||||    
T  12091602 attcagatactgtaagtaaggcttcaatcctgtgtctcctttttctctctcttcttgctcaattaattg 12091670  T

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Target: chr5 (Bit Score: 40; Significance: 0.0000000000001; HSPs: 2)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 40; E-Value: 0.0000000000001
Query Start/End: Original strand, 5 - 100
Target Start/End: Complemental strand, 27016601 - 27016506
Alignment:
Q  5 aaaaacttggacccgtttaaaaccgggcctttttagccagagcccgttaagacccgagcccgtcgcgggctagcctgaccgggccgcgggtagccc 100  Q
    ||||| |||| ||||||||||||||| ||||||||||| || ||| || |  |||||||||||| | |||||||| ||| | ||||||||||||||    
T  27016601 aaaaaattgggcccgtttaaaaccggacctttttagcccgatcccattgaagcccgagcccgtcacaggctagcccgactgagccgcgggtagccc 27016506  T

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Target: chr5; HSP #2
Raw Score: 31; E-Value: 0.00000003
Query Start/End: Original strand, 5 - 51
Target Start/End: Complemental strand, 19719390 - 19719345
Alignment:
Q  5 aaaaacttggacccgtttaaaaccgggcctttttagccagagcccgt 51  Q
    ||||| ||||||||||||||| |||||||||||||||| ||||||||    
T  19719390 aaaaaattggacccgtttaaa-ccgggcctttttagcccgagcccgt 19719345  T

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Target: scaffold0019 (Bit Score: 37; Significance: 0.000000000007; HSPs: 2)
Name: scaffold0019
Description:

Target: scaffold0019; HSP #1
Raw Score: 37; E-Value: 0.000000000007
Query Start/End: Original strand, 135 - 215
Target Start/End: Original strand, 7024 - 7104
Alignment:
Q  135 attcagatattgtaagtaaggcttcaatcttgtatctcctatctttctttcttcttcttgaattaattgctttccacttgg 215  Q
    ||||||||||||||||||||||||||||| ||| || ||| ||| ||| |||||||  ||||| ||||| |||||| ||||    
T  7024 attcagatattgtaagtaaggcttcaatcctgtgtcgcctttctctctctcttcttgatgaatcaattgatttccatttgg 7104  T

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Target: scaffold0019; HSP #2
Raw Score: 36; E-Value: 0.00000000003
Query Start/End: Original strand, 218 - 289
Target Start/End: Original strand, 8040 - 8111
Alignment:
Q  218 cctccgcttaaattaacctctctctcgcctattacaatgaggtctctatagggaaacaactcaaggtccttt 289  Q
    ||||| |||||||||||  ||||||| |||||| || ||||||| | |||||||| ||||||||||||||||    
T  8040 cctccacttaaattaactcctctctcacctatttcagtgaggtcaccatagggaagcaactcaaggtccttt 8111  T

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Target: chr8 (Bit Score: 36; Significance: 0.00000000003; HSPs: 4)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 36; E-Value: 0.00000000003
Query Start/End: Original strand, 1 - 104
Target Start/End: Complemental strand, 28912022 - 28911919
Alignment:
Q  1 acacaaaaacttggacccgtttaaaaccgggcctttttagccagagcccgttaagacccgagcccgtcgcgggctagcctgaccgggccgcgggtagccc 100  Q
    ||||||||| || ||| | |||||||||||||||||||| || |||| | || |  ||||||||| |||  |||| ||| |||||| |||||||||||||    
T  28912022 acacaaaaatttcgactcatttaaaaccgggcctttttaacccgagctcattgaagcccgagcccatcgtaggctggcccgaccggcccgcgggtagccc 28911923  T
Q  101 attt 104  Q
    ||||    
T  28911922 attt 28911919  T

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Target: chr8; HSP #2
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 135 - 203
Target Start/End: Original strand, 16392025 - 16392093
Alignment:
Q  135 attcagatattgtaagtaaggcttcaatcttgtatctcctatctttctttcttcttcttgaattaattg 203  Q
    ||||||||||||||||||||||||||| | | | |||||| ||| |||||||||||  | |||||||||    
T  16392025 attcagatattgtaagtaaggcttcaaccctttgtctcctttctctctttcttcttgcttaattaattg 16392093  T

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Target: chr8; HSP #3
Raw Score: 31; E-Value: 0.00000003
Query Start/End: Original strand, 5 - 51
Target Start/End: Original strand, 28425275 - 28425321
Alignment:
Q  5 aaaaacttggacccgtttaaaaccgggcctttttagccagagcccgt 51  Q
    ||||| || |||| |||||||||||||||||||||||| ||||||||    
T  28425275 aaaaaattagacctgtttaaaaccgggcctttttagcccgagcccgt 28425321  T

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Target: chr8; HSP #4
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 1 - 90
Target Start/End: Original strand, 42513468 - 42513556
Alignment:
Q  1 acacaaaaacttggacccgtttaaaaccgggcctttttagccagagcccgttaagacccgagcccgtcgcgggctagcctgaccgggccg 90  Q
    ||||||||| ||||| ||||||||| | || ||||||||||| ||||| ||| || ||||||||  || |||||||||| ||| ||||||    
T  42513468 acacaaaaatttggatccgtttaaa-ctggacctttttagcccgagcctgttgaggcccgagcctttctcgggctagcccgacagggccg 42513556  T

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Target: chr3 (Bit Score: 33; Significance: 0.000000002; HSPs: 1)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 1 - 49
Target Start/End: Complemental strand, 24739078 - 24739030
Alignment:
Q  1 acacaaaaacttggacccgtttaaaaccgggcctttttagccagagccc 49  Q
    ||||||||| |||| |||||||||||||||| |||||||||| ||||||    
T  24739078 acacaaaaatttgggcccgtttaaaaccgggtctttttagcccgagccc 24739030  T

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Target: scaffold0196 (Bit Score: 32; Significance: 0.000000007; HSPs: 1)
Name: scaffold0196
Description:

Target: scaffold0196; HSP #1
Raw Score: 32; E-Value: 0.000000007
Query Start/End: Original strand, 135 - 174
Target Start/End: Complemental strand, 14418 - 14379
Alignment:
Q  135 attcagatattgtaagtaaggcttcaatcttgtatctcct 174  Q
    ||||||||||||||||||||||||||||| ||| ||||||    
T  14418 attcagatattgtaagtaaggcttcaatcctgtgtctcct 14379  T

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Target: chr1 (Bit Score: 31; Significance: 0.00000003; HSPs: 1)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 31; E-Value: 0.00000003
Query Start/End: Original strand, 18 - 100
Target Start/End: Complemental strand, 41577253 - 41577171
Alignment:
Q  18 cgtttaaaaccgggcctttttagccagagcccgttaagacccgagcccgtcgcgggctagcctgaccgggccgcgggtagccc 100  Q
    ||||||||||| ||||||||||||| ||| || || || ||| | |||||| ||| ||| || |||| |||||||||||||||    
T  41577253 cgtttaaaaccaggcctttttagcccgagtccattgaggcccaaacccgtcacggactaacccgaccaggccgcgggtagccc 41577171  T

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