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: NF3619_low_2 (Length: 419)

Name: NF3619_low_2
Description: NF3619
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF3619_low_2
NF3619_low_2
[»] chr2 (3 HSPs)
chr2 (13-221)||(17830057-17830264)
chr2 (231-307)||(11911259-11911335)
chr2 (231-310)||(17785721-17785800)
[»] scaffold0351 (5 HSPs)
scaffold0351 (45-161)||(5437-5553)
scaffold0351 (45-161)||(13780-13896)
scaffold0351 (45-107)||(1-63)
scaffold0351 (170-215)||(5374-5419)
scaffold0351 (179-216)||(13716-13753)
[»] scaffold0002 (2 HSPs)
scaffold0002 (45-161)||(114798-114914)
scaffold0002 (170-222)||(114932-114984)
[»] chr3 (2 HSPs)
chr3 (49-160)||(44125954-44126065)
chr3 (170-221)||(27545768-27545819)
[»] chr5 (3 HSPs)
chr5 (13-221)||(7822335-7822553)
chr5 (170-222)||(28662926-28662979)
chr5 (121-161)||(28663000-28663040)
[»] chr1 (4 HSPs)
chr1 (48-161)||(36687824-36687937)
chr1 (78-160)||(26024163-26024245)
chr1 (170-222)||(36687957-36688009)
chr1 (172-210)||(26024265-26024303)
[»] chr4 (1 HSPs)
chr4 (33-148)||(56339660-56339775)
[»] scaffold0248 (1 HSPs)
scaffold0248 (101-221)||(16837-16959)
[»] chr6 (2 HSPs)
chr6 (170-222)||(11303171-11303223)
chr6 (112-161)||(11303104-11303153)


Alignment Details
Target: chr2 (Bit Score: 148; Significance: 6e-78; HSPs: 3)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 148; E-Value: 6e-78
Query Start/End: Original strand, 13 - 221
Target Start/End: Complemental strand, 17830264 - 17830057
Alignment:
Q  13 aaaatttaaccattggccaagtttattttattttgattattgtgtgcatctctatcacaattatatattttatcacaattccttatttagtcttgaatca 112  Q
    |||| |||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||| ||||||||||    
T  17830264 aaaaattaaccattggccaagtttattttgttttgattattgtgtgcatctctatcacaattatatattttatcacaattcattatttactcttgaatca 17830165  T
Q  113 tatgtgaaattatttttcaagtttaacttgattgtatttacttaaccaannnnnnnnatggtaaacttgattgatctatatttatatttttgcatataat 212  Q
    |||||||||||||||||||||||||||||||||||||| | ||||| ||        ||||| |||||||||||||||||||||||||||||||||||||    
T  17830164 tatgtgaaattatttttcaagtttaacttgattgtattcatttaactaa-tttttttatggttaacttgattgatctatatttatatttttgcatataat 17830066  T
Q  213 ttttgttga 221  Q
    |||||||||    
T  17830065 ttttgttga 17830057  T

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Target: chr2; HSP #2
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 231 - 307
Target Start/End: Complemental strand, 11911335 - 11911259
Alignment:
Q  231 ttcatttcttcgagtttttgagtcaagatcttgttttgtgcaaggatggcatcatttgatcccaattcaaggattcc 307  Q
    ||||| ||||| |||| |||||||||||| ||||||||||||||  | ||||||  |||||| || |||||||||||    
T  11911335 ttcatctcttcaagttgttgagtcaagattttgttttgtgcaagatttgcatcagctgatcctaactcaaggattcc 11911259  T

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Target: chr2; HSP #3
Raw Score: 32; E-Value: 0.000000009
Query Start/End: Original strand, 231 - 310
Target Start/End: Complemental strand, 17785800 - 17785721
Alignment:
Q  231 ttcatttcttcgagtttttgagtcaagatcttgttttgtgcaaggatggcatcatttgatcccaattcaaggattccaga 310  Q
    ||||| ||||| |||| |||||||||||  ||||||||||||||  | ||||||  |||||| || ||||||||||||||    
T  17785800 ttcatctcttcaagttgttgagtcaagaatttgttttgtgcaagatttgcatcagctgatcctaactcaaggattccaga 17785721  T

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Target: scaffold0351 (Bit Score: 101; Significance: 6e-50; HSPs: 5)
Name: scaffold0351
Description:

Target: scaffold0351; HSP #1
Raw Score: 101; E-Value: 6e-50
Query Start/End: Original strand, 45 - 161
Target Start/End: Complemental strand, 5553 - 5437
Alignment:
Q  45 ttgattattgtgtgcatctctatcacaattatatattttatcacaattccttatttagtcttgaatcatatgtgaaattatttttcaagtttaacttgat 144  Q
    |||||||||||||||| ||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||    
T  5553 ttgattattgtgtgcacctctatcacaattatatattttatcacaatttcttatttagtcttgaatcatatgtgaaattatttttcaagtttaacttgat 5454  T
Q  145 tgtatttacttaaccaa 161  Q
    |||||||  ||||||||    
T  5453 tgtatttgtttaaccaa 5437  T

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Target: scaffold0351; HSP #2
Raw Score: 97; E-Value: 2e-47
Query Start/End: Original strand, 45 - 161
Target Start/End: Complemental strand, 13896 - 13780
Alignment:
Q  45 ttgattattgtgtgcatctctatcacaattatatattttatcacaattccttatttagtcttgaatcatatgtgaaattatttttcaagtttaacttgat 144  Q
    |||||||||||||||| ||||||||||||||||||||||||||||||| |||||||||||||| ||||||||||||||||||||||||||||||||||||    
T  13896 ttgattattgtgtgcacctctatcacaattatatattttatcacaatttcttatttagtcttgcatcatatgtgaaattatttttcaagtttaacttgat 13797  T
Q  145 tgtatttacttaaccaa 161  Q
    |||||||  ||||||||    
T  13796 tgtatttgtttaaccaa 13780  T

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Target: scaffold0351; HSP #3
Raw Score: 55; E-Value: 2e-22
Query Start/End: Original strand, 45 - 107
Target Start/End: Complemental strand, 63 - 1
Alignment:
Q  45 ttgattattgtgtgcatctctatcacaattatatattttatcacaattccttatttagtcttg 107  Q
    |||||||||||||||| ||||||||||||||||||||||||||||||| ||||||||||||||    
T  63 ttgattattgtgtgcacctctatcacaattatatattttatcacaatttcttatttagtcttg 1  T

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Target: scaffold0351; HSP #4
Raw Score: 34; E-Value: 0.0000000006
Query Start/End: Original strand, 170 - 215
Target Start/End: Complemental strand, 5419 - 5374
Alignment:
Q  170 atggtaaacttgattgatctatatttatatttttgcatataatttt 215  Q
    ||||| || |||||||||||||| ||||||||||||||||||||||    
T  5419 atggttaatttgattgatctatacttatatttttgcatataatttt 5374  T

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Target: scaffold0351; HSP #5
Raw Score: 34; E-Value: 0.0000000006
Query Start/End: Original strand, 179 - 216
Target Start/End: Complemental strand, 13753 - 13716
Alignment:
Q  179 ttgattgatctatatttatatttttgcatataattttt 216  Q
    |||||||||||||| |||||||||||||||||||||||    
T  13753 ttgattgatctatacttatatttttgcatataattttt 13716  T

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Target: scaffold0002 (Bit Score: 101; Significance: 6e-50; HSPs: 2)
Name: scaffold0002
Description:

Target: scaffold0002; HSP #1
Raw Score: 101; E-Value: 6e-50
Query Start/End: Original strand, 45 - 161
Target Start/End: Original strand, 114798 - 114914
Alignment:
Q  45 ttgattattgtgtgcatctctatcacaattatatattttatcacaattccttatttagtcttgaatcatatgtgaaattatttttcaagtttaacttgat 144  Q
    |||||||||||||||| ||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||    
T  114798 ttgattattgtgtgcacctctatcacaattatatattttatcacaatttcttatttagtcttgaatcatatgtgaaattatttttcaagtttaacttgat 114897  T
Q  145 tgtatttacttaaccaa 161  Q
    |||||||  ||||||||    
T  114898 tgtatttgtttaaccaa 114914  T

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Target: scaffold0002; HSP #2
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 170 - 222
Target Start/End: Original strand, 114932 - 114984
Alignment:
Q  170 atggtaaacttgattgatctatatttatatttttgcatataatttttgttgag 222  Q
    ||||| || |||||||||||||| ||||||||||||||||||||||| |||||    
T  114932 atggttaatttgattgatctatacttatatttttgcatataattttttttgag 114984  T

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Target: chr3 (Bit Score: 100; Significance: 2e-49; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 100; E-Value: 2e-49
Query Start/End: Original strand, 49 - 160
Target Start/End: Complemental strand, 44126065 - 44125954
Alignment:
Q  49 ttattgtgtgcatctctatcacaattatatattttatcacaattccttatttagtcttgaatcatatgtgaaattatttttcaagtttaacttgattgta 148  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||    
T  44126065 ttattgtgtgcatctctatcacaattatatattttatcacaattccttatttagtcttgaatcatatgtgaaattatttttcaagtataacttgattgta 44125966  T
Q  149 tttacttaacca 160  Q
    |||  |||||||    
T  44125965 tttgtttaacca 44125954  T

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Target: chr3; HSP #2
Raw Score: 36; E-Value: 0.00000000004
Query Start/End: Original strand, 170 - 221
Target Start/End: Original strand, 27545768 - 27545819
Alignment:
Q  170 atggtaaacttgattgatctatatttatatttttgcatataatttttgttga 221  Q
    ||||| ||||||||||||||||||||||||||||   |||||||||||||||    
T  27545768 atggttaacttgattgatctatatttatatttttatttataatttttgttga 27545819  T

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Target: chr5 (Bit Score: 96; Significance: 6e-47; HSPs: 3)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 96; E-Value: 6e-47
Query Start/End: Original strand, 13 - 221
Target Start/End: Complemental strand, 7822553 - 7822335
Alignment:
Q  13 aaaatttaaccattggccaagtttattttattttgattattgtgtgcatctctatcacaattatatattttatcacaattccttatttagtcttgaatca 112  Q
    ||||||||||  |||||||||| ||  || ||||||||||| |||||||||||||||||||||||||||||||||||||||||| |||  | |||||| |    
T  7822553 aaaatttaacttttggccaagtgtacgttgttttgattattttgtgcatctctatcacaattatatattttatcacaattccttgtttgattttgaatta 7822454  T
Q  113 tatgtgaaattatttttcaagtttaacttgattgtatttacttaaccaa----------nnnnnnnnatggtaaacttgattgatctatatttatatttt 202  Q
    |||||||||||||||||||||||||||||||||||||||  ||||||||                   |||| |||||||||||||||||||||||||||    
T  7822453 tatgtgaaattatttttcaagtttaacttgattgtatttgtttaaccaattgtttttctttataaaattggttaacttgattgatctatatttatatttt 7822354  T
Q  203 tgcatataatttttgttga 221  Q
    |||||||||||||||||||    
T  7822353 tgcatataatttttgttga 7822335  T

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Target: chr5; HSP #2
Raw Score: 38; E-Value: 0.000000000002
Query Start/End: Original strand, 170 - 222
Target Start/End: Complemental strand, 28662979 - 28662926
Alignment:
Q  170 atggtaaacttgattgatctatatttatattttt-gcatataatttttgttgag 222  Q
    ||||| |||||||||||||||||||||||||||| |||| ||||||||||||||    
T  28662979 atggttaacttgattgatctatatttatatttttggcatgtaatttttgttgag 28662926  T

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Target: chr5; HSP #3
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 121 - 161
Target Start/End: Complemental strand, 28663040 - 28663000
Alignment:
Q  121 attatttttcaagtttaacttgattgtatttacttaaccaa 161  Q
    ||||||||||||||||||||||||||||||| |||||||||    
T  28663040 attatttttcaagtttaacttgattgtatttccttaaccaa 28663000  T

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Target: chr1 (Bit Score: 78; Significance: 3e-36; HSPs: 4)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 78; E-Value: 3e-36
Query Start/End: Original strand, 48 - 161
Target Start/End: Original strand, 36687824 - 36687937
Alignment:
Q  48 attattgtgtgcatctctatcacaattatatattttatcacaattccttatttagtcttgaatcatatgtgaaattatttttcaagtttaacttgattgt 147  Q
    ||||||||||  |||||| ||||||||||  ||||||||||||||  |||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  36687824 attattgtgtttatctctgtcacaattatgcattttatcacaattttttatttagtcttgaatcatatgtgaaattatttttcaagtttaacttgattgt 36687923  T
Q  148 atttacttaaccaa 161  Q
    ||||  ||||||||    
T  36687924 atttgtttaaccaa 36687937  T

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Target: chr1; HSP #2
Raw Score: 67; E-Value: 1e-29
Query Start/End: Original strand, 78 - 160
Target Start/End: Original strand, 26024163 - 26024245
Alignment:
Q  78 tattttatcacaattccttatttagtcttgaatcatatgtgaaattatttttcaagtttaacttgattgtatttacttaacca 160  Q
    |||||||||| ||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||  |||||||    
T  26024163 tattttatcagaattctttatttagtcttgaatcatatgtgaaattatttttcaagtttaacttgattgtatttgtttaacca 26024245  T

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Target: chr1; HSP #3
Raw Score: 41; E-Value: 0.00000000000004
Query Start/End: Original strand, 170 - 222
Target Start/End: Original strand, 36687957 - 36688009
Alignment:
Q  170 atggtaaacttgattgatctatatttatatttttgcatataatttttgttgag 222  Q
    ||||| |||||||||||||| |||||||||| |||||||||||||||||||||    
T  36687957 atggttaacttgattgatctgtatttatattcttgcatataatttttgttgag 36688009  T

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Target: chr1; HSP #4
Raw Score: 35; E-Value: 0.0000000002
Query Start/End: Original strand, 172 - 210
Target Start/End: Original strand, 26024265 - 26024303
Alignment:
Q  172 ggtaaacttgattgatctatatttatatttttgcatata 210  Q
    ||| |||||||||||||||||||||||||||||||||||    
T  26024265 ggttaacttgattgatctatatttatatttttgcatata 26024303  T

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Target: chr4 (Bit Score: 72; Significance: 1e-32; HSPs: 1)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 72; E-Value: 1e-32
Query Start/End: Original strand, 33 - 148
Target Start/End: Complemental strand, 56339775 - 56339660
Alignment:
Q  33 gtttattttattttgattattgtgtgcatctctatcacaattatatattttatcacaattccttatttagtcttgaatcatatgtgaaattatttttcaa 132  Q
    ||||||||| |||||||||||||||| |||||||||||||||||||||| |||||  | |  |||||| ||||||||| ||||||||||||||||| |||    
T  56339775 gtttattttcttttgattattgtgtgtatctctatcacaattatatattctatcattaatttttattttgtcttgaattatatgtgaaattattttccaa 56339676  T
Q  133 gtttaacttgattgta 148  Q
    ||||||||||||||||    
T  56339675 gtttaacttgattgta 56339660  T

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Target: scaffold0248 (Bit Score: 54; Significance: 7e-22; HSPs: 1)
Name: scaffold0248
Description:

Target: scaffold0248; HSP #1
Raw Score: 54; E-Value: 7e-22
Query Start/End: Original strand, 101 - 221
Target Start/End: Original strand, 16837 - 16959
Alignment:
Q  101 agtcttgaatcatatgtgaaattatttttcaagtttaacttgattgtatttacttaaccaa---nnnnnnnnatggtaaacttgattgatctatatttat 197  Q
    |||||||||| |||||||||||||||||||||||||| |||||||||||||  ||||||||           ||||| ||||||||||||||||||||||    
T  16837 agtcttgaatgatatgtgaaattatttttcaagtttatcttgattgtatttgtttaaccaatttttttttttatggttaacttgattgatctatatttat 16936  T
Q  198 atttttgcatataatttttgttga 221  Q
    | ||||| ||||||||||||||||    
T  16937 a-ttttgtatataatttttgttga 16959  T

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Target: chr6 (Bit Score: 41; Significance: 0.00000000000004; HSPs: 2)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 41; E-Value: 0.00000000000004
Query Start/End: Original strand, 170 - 222
Target Start/End: Original strand, 11303171 - 11303223
Alignment:
Q  170 atggtaaacttgattgatctatatttatatttttgcatataatttttgttgag 222  Q
    ||||| ||||||||||||||| |||| ||||||||||||||||||||||||||    
T  11303171 atggttaacttgattgatctacatttgtatttttgcatataatttttgttgag 11303223  T

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

Target: chr6; HSP #2
Raw Score: 38; E-Value: 0.000000000002
Query Start/End: Original strand, 112 - 161
Target Start/End: Original strand, 11303104 - 11303153
Alignment:
Q  112 atatgtgaaattatttttcaagtttaacttgattgtatttacttaaccaa 161  Q
    |||||||||| |||||||||||||||||||||||||||||  ||||||||    
T  11303104 atatgtgaaagtatttttcaagtttaacttgattgtatttgtttaaccaa 11303153  T

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