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: NF5539_low_35 (Length: 253)

Name: NF5539_low_35
Description: NF5539
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF5539_low_35
NF5539_low_35
[»] chr3 (4 HSPs)
chr3 (5-249)||(797590-797832)
chr3 (164-214)||(3255563-3255613)
chr3 (162-206)||(668617-668661)
chr3 (162-251)||(796862-796949)
[»] chr6 (2 HSPs)
chr6 (161-230)||(18714697-18714767)
chr6 (30-91)||(19048662-19048723)
[»] chr8 (2 HSPs)
chr8 (165-251)||(24061078-24061162)
chr8 (43-82)||(16341399-16341438)
[»] scaffold2125 (1 HSPs)
scaffold2125 (162-251)||(273-360)
[»] chr4 (1 HSPs)
chr4 (40-91)||(53694150-53694201)
[»] chr1 (1 HSPs)
chr1 (54-87)||(38286368-38286401)


Alignment Details
Target: chr3 (Bit Score: 188; Significance: 1e-102; HSPs: 4)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 188; E-Value: 1e-102
Query Start/End: Original strand, 5 - 249
Target Start/End: Original strand, 797590 - 797832
Alignment:
Q  5 cgatttttctcatatttcaatttatatttattttaggtttaattggacttttggtcccttaattaattttcaagtttcgttttggtcattggctgaaacc 104  Q
    ||||||||||||||||||||||||||||||||||||  ||||||| |||||||||||||||||||||||| || ||||||||||||||||||||||||||    
T  797590 cgatttttctcatatttcaatttatatttattttagacttaattgaacttttggtcccttaattaattttaaaatttcgttttggtcattggctgaaacc 797689  T
Q  105 atcaaaaggaataaatgaaaaaatttgtaattgtcgctcattggttcacgttgtggaataaagtgataaatacatatcttacaaacaaaggaggaaaata 204  Q
    |||||||||||||||||||||||||| || ||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||    
T  797690 atcaaaaggaataaatgaaaaaatttatagttgtcgctcattggttcacgttgcggaataaagtgataaatacatatcttacaaacaaaggaggaaaata 797789  T
Q  205 tgg-ttaaattgtcaattatgtttatagttatatgattatttttct 249  Q
    ||| | ||||||||||||||||||||||   |||||||||||||||    
T  797790 tggctaaaattgtcaattatgtttatag---tatgattatttttct 797832  T

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Target: chr3; HSP #2
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 164 - 214
Target Start/End: Complemental strand, 3255613 - 3255563
Alignment:
Q  164 aaagtgataaatacatatcttacaaacaaaggaggaaaatatggttaaatt 214  Q
    |||||||||||||||||| ||| |||||||||||| | |||||| ||||||    
T  3255613 aaagtgataaatacatatattaaaaacaaaggagggatatatggctaaatt 3255563  T

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Target: chr3; HSP #3
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 162 - 206
Target Start/End: Original strand, 668617 - 668661
Alignment:
Q  162 ataaagtgataaatacatatcttacaaacaaaggaggaaaatatg 206  Q
    |||||||||||||||||||| ||| ||||||| |||| |||||||    
T  668617 ataaagtgataaatacatatattataaacaaaagagggaaatatg 668661  T

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Target: chr3; HSP #4
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 162 - 251
Target Start/End: Original strand, 796862 - 796949
Alignment:
Q  162 ataaagtgataaatacatatcttacaaacaaaggaggaaaatatgg-ttaaattgtcaattatgtttatagttatatgattatttttcttt 251  Q
    ||||||| ||||||||| || ||||||||||| |||| ||| |||| | |||||||| ||| |||||||||   ||||||||| |||||||    
T  796862 ataaagttataaatacaaatattacaaacaaaagagggaaacatggctaaaattgtctattttgtttatag---tatgattatctttcttt 796949  T

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Target: chr6 (Bit Score: 39; Significance: 0.0000000000004; HSPs: 2)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 39; E-Value: 0.0000000000004
Query Start/End: Original strand, 161 - 230
Target Start/End: Original strand, 18714697 - 18714767
Alignment:
Q  161 aataaagtgataaatacatatcttacaaacaaaggaggaaaatatgg-ttaaattgtcaattatgtttata 230  Q
    ||||||||||||||||||||| |||||||||||||||| | |||||| | ||||| |||||| ||||||||    
T  18714697 aataaagtgataaatacatatattacaaacaaaggagggagatatggctaaaattatcaattttgtttata 18714767  T

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Target: chr6; HSP #2
Raw Score: 34; E-Value: 0.0000000004
Query Start/End: Original strand, 30 - 91
Target Start/End: Complemental strand, 19048723 - 19048662
Alignment:
Q  30 atttattttaggtttaattggacttttggtcccttaattaattttcaagtttcgttttggtc 91  Q
    |||||||||||| ||||||   ||||||||||||||||| |||||  |||||||||||||||    
T  19048723 atttattttaggcttaattactcttttggtcccttaatttattttttagtttcgttttggtc 19048662  T

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Target: chr8 (Bit Score: 38; Significance: 0.000000000001; HSPs: 2)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 165 - 251
Target Start/End: Original strand, 24061078 - 24061162
Alignment:
Q  165 aagtgataaatacatatcttacaaacaaaggaggaaaatatgg-ttaaattgtcaattatgtttatagttatatgattatttttcttt 251  Q
    |||| |||||||||||| |||||||||||||||| |||||||| | |||||||||||| | |||||||   ||||||||| |||||||    
T  24061078 aagttataaatacatatattacaaacaaaggagggaaatatggctaaaattgtcaattttctttatag---tatgattatctttcttt 24061162  T

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Target: chr8; HSP #2
Raw Score: 32; E-Value: 0.000000005
Query Start/End: Original strand, 43 - 82
Target Start/End: Complemental strand, 16341438 - 16341399
Alignment:
Q  43 ttaattggacttttggtcccttaattaattttcaagtttc 82  Q
    |||||||||| |||||||||||||||||||| ||||||||    
T  16341438 ttaattggacatttggtcccttaattaatttccaagtttc 16341399  T

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Target: scaffold2125 (Bit Score: 33; Significance: 0.000000001; HSPs: 1)
Name: scaffold2125
Description:

Target: scaffold2125; HSP #1
Raw Score: 33; E-Value: 0.000000001
Query Start/End: Original strand, 162 - 251
Target Start/End: Original strand, 273 - 360
Alignment:
Q  162 ataaagtgataaatacatatcttacaaacaaaggaggaaaatatgg-ttaaattgtcaattatgtttatagttatatgattatttttcttt 251  Q
    |||||||||||||||||||| ||||||||||| |||  | |||||| | |||||||||||| | |||||||   ||||||||| |||||||    
T  273 ataaagtgataaatacatatattacaaacaaaagagagatatatggctaaaattgtcaattttatttatag---tatgattatctttcttt 360  T

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Target: chr4 (Bit Score: 32; Significance: 0.000000005; HSPs: 1)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 32; E-Value: 0.000000005
Query Start/End: Original strand, 40 - 91
Target Start/End: Complemental strand, 53694201 - 53694150
Alignment:
Q  40 ggtttaattggacttttggtcccttaattaattttcaagtttcgttttggtc 91  Q
    |||||||||  || ||||||||||||||||||||| | ||||||||||||||    
T  53694201 ggtttaattatacatttggtcccttaattaatttttaggtttcgttttggtc 53694150  T

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Target: chr1 (Bit Score: 30; Significance: 0.00000009; HSPs: 1)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 30; E-Value: 0.00000009
Query Start/End: Original strand, 54 - 87
Target Start/End: Original strand, 38286368 - 38286401
Alignment:
Q  54 tttggtcccttaattaattttcaagtttcgtttt 87  Q
    ||||||||||||||||||||||| ||||||||||    
T  38286368 tttggtcccttaattaattttcaggtttcgtttt 38286401  T

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