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: NF9401_low_42 (Length: 402)

Name: NF9401_low_42
Description: NF9401
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF9401_low_42
NF9401_low_42
[»] chr3 (7 HSPs)
chr3 (18-392)||(25908767-25909141)
chr3 (97-138)||(41319317-41319358)
chr3 (319-372)||(25900808-25900863)
chr3 (97-143)||(12704664-12704710)
chr3 (113-146)||(11093573-11093606)
chr3 (106-151)||(19323464-19323509)
chr3 (97-146)||(20691322-20691371)
[»] chr1 (3 HSPs)
chr1 (208-270)||(50644668-50644732)
chr1 (96-138)||(30847726-30847768)
chr1 (97-138)||(2445881-2445922)
[»] chr5 (5 HSPs)
chr5 (106-157)||(11596471-11596522)
chr5 (106-145)||(16434398-16434437)
chr5 (97-143)||(43208281-43208327)
chr5 (97-146)||(37472604-37472653)
chr5 (98-143)||(38749571-38749616)
[»] chr4 (4 HSPs)
chr4 (96-143)||(18513247-18513294)
chr4 (97-143)||(14465301-14465347)
chr4 (106-151)||(5654607-5654652)
chr4 (106-138)||(50875218-50875250)
[»] chr2 (1 HSPs)
chr2 (96-143)||(18570978-18571025)
[»] chr7 (2 HSPs)
chr7 (97-143)||(2525851-2525897)
chr7 (97-143)||(38134413-38134459)
[»] chr6 (3 HSPs)
chr6 (96-138)||(9024182-9024224)
chr6 (112-162)||(17168881-17168931)
chr6 (96-146)||(34541756-34541806)
[»] chr8 (2 HSPs)
chr8 (98-151)||(3508050-3508103)
chr8 (103-143)||(30068041-30068081)


Alignment Details
Target: chr3 (Bit Score: 375; Significance: 0; HSPs: 7)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 375; E-Value: 0
Query Start/End: Original strand, 18 - 392
Target Start/End: Original strand, 25908767 - 25909141
Alignment:
Q  18 ccatgaaacataaatactctttggattaggcatgttctggtgtcggatacggatcatgtcctacaccaacttgacggttgacacatacgattatattgaa 117  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  25908767 ccatgaaacataaatactctttggattaggcatgttctggtgtcggatacggatcatgtcctacaccaacttgacggttgacacatacgattatattgaa 25908866  T
Q  118 ttatgtcattttttcaaattactatcagtatcgaagtgttcgtgtacgtgtcatattcgtgtttgagtatgttcttcatagggtctgctaaactcaacaa 217  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  25908867 ttatgtcattttttcaaattactatcagtatcgaagtgttcgtgtacgtgtcatattcgtgtttgagtatgttcttcatagggtctgctaaactcaacaa 25908966  T
Q  218 atcatctgcaattaaggtaacatgtgtattttttactctcttcctaaacaaaaacctcatagagcaaagacaaggaaaagggtaaaagaccgtgagttta 317  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  25908967 atcatctgcaattaaggtaacatgtgtattttttactctcttcctaaacaaaaacctcatagagcaaagacaaggaaaagggtaaaagaccgtgagttta 25909066  T
Q  318 gaatagtgcattcaaaatctagcatttattgaaaagtgtttttgaaatttcaattgttctaataaaacccctttg 392  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  25909067 gaatagtgcattcaaaatctagcatttattgaaaagtgtttttgaaatttcaattgttctaataaaacccctttg 25909141  T

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Target: chr3; HSP #2
Raw Score: 34; E-Value: 0.0000000006
Query Start/End: Original strand, 97 - 138
Target Start/End: Original strand, 41319317 - 41319358
Alignment:
Q  97 gacacatacgattatattgaattatgtcattttttcaaatta 138  Q
    ||||||||| |||| |||||||||||||||||||||||||||    
T  41319317 gacacatacaattacattgaattatgtcattttttcaaatta 41319358  T

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Target: chr3; HSP #3
Raw Score: 32; E-Value: 0.000000009
Query Start/End: Original strand, 319 - 372
Target Start/End: Original strand, 25900808 - 25900863
Alignment:
Q  319 aatagtgcattcaaaatctagca-tttattgaaaagtg-tttttgaaatttcaatt 372  Q
    |||||||||||||||| |||||| |||||||||||||| ||||| |||||||||||    
T  25900808 aatagtgcattcaaaacctagcattttattgaaaagtgttttttaaaatttcaatt 25900863  T

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Target: chr3; HSP #4
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 97 - 143
Target Start/End: Original strand, 12704664 - 12704710
Alignment:
Q  97 gacacatacgattatattgaattatgtcattttttcaaattactatc 143  Q
    ||||| || ||||| ||||||||||||||||||||||||||| ||||    
T  12704664 gacacctatgattacattgaattatgtcattttttcaaattattatc 12704710  T

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Target: chr3; HSP #5
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 113 - 146
Target Start/End: Complemental strand, 11093606 - 11093573
Alignment:
Q  113 ttgaattatgtcattttttcaaattactatcagt 146  Q
    |||||||||||||||||||||||||| |||||||    
T  11093606 ttgaattatgtcattttttcaaattattatcagt 11093573  T

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Target: chr3; HSP #6
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 106 - 151
Target Start/End: Original strand, 19323464 - 19323509
Alignment:
Q  106 gattatattgaattatgtcattttttcaaattactatcagtatcga 151  Q
    ||||| ||| |||||||||||||| |||||||||||||||| ||||    
T  19323464 gattaaattcaattatgtcattttctcaaattactatcagtgtcga 19323509  T

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Target: chr3; HSP #7
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 97 - 146
Target Start/End: Complemental strand, 20691371 - 20691322
Alignment:
Q  97 gacacatacgattatattgaattatgtcattttttcaaattactatcagt 146  Q
    |||||||| ||||| | |||||||||||||||| |||||||| |||||||    
T  20691371 gacacatatgattacactgaattatgtcattttctcaaattattatcagt 20691322  T

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Target: chr1 (Bit Score: 38; Significance: 0.000000000002; HSPs: 3)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 38; E-Value: 0.000000000002
Query Start/End: Original strand, 208 - 270
Target Start/End: Original strand, 50644668 - 50644732
Alignment:
Q  208 aactcaacaaatcatctgcaattaaggtaacatgtgtatttttt--actctcttcctaaacaaaa 270  Q
    ||||||||||||||||||| || |||||||||  ||||||||||  |||||||||||||||||||    
T  50644668 aactcaacaaatcatctgctatgaaggtaacacatgtatttttttcactctcttcctaaacaaaa 50644732  T

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Target: chr1; HSP #2
Raw Score: 35; E-Value: 0.0000000001
Query Start/End: Original strand, 96 - 138
Target Start/End: Original strand, 30847726 - 30847768
Alignment:
Q  96 tgacacatacgattatattgaattatgtcattttttcaaatta 138  Q
    ||||||||| ||||| |||||||||||||||||||||||||||    
T  30847726 tgacacatatgattacattgaattatgtcattttttcaaatta 30847768  T

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Target: chr1; HSP #3
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 97 - 138
Target Start/End: Complemental strand, 2445922 - 2445881
Alignment:
Q  97 gacacatacgattatattgaattatgtcattttttcaaatta 138  Q
    |||||||| ||||| |||||||||||||||||| ||||||||    
T  2445922 gacacatatgattaaattgaattatgtcattttctcaaatta 2445881  T

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Target: chr5 (Bit Score: 32; Significance: 0.000000009; HSPs: 5)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 32; E-Value: 0.000000009
Query Start/End: Original strand, 106 - 157
Target Start/End: Original strand, 11596471 - 11596522
Alignment:
Q  106 gattatattgaattatgtcattttttcaaattactatcagtatcgaagtgtt 157  Q
    ||||| |||||||||||||||||| |||||||| |||| ||||||| |||||    
T  11596471 gattacattgaattatgtcattttctcaaattattatcggtatcgacgtgtt 11596522  T

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Target: chr5; HSP #2
Raw Score: 32; E-Value: 0.000000009
Query Start/End: Original strand, 106 - 145
Target Start/End: Original strand, 16434398 - 16434437
Alignment:
Q  106 gattatattgaattatgtcattttttcaaattactatcag 145  Q
    |||||||||||||||||| |||||||||||||| ||||||    
T  16434398 gattatattgaattatgttattttttcaaattattatcag 16434437  T

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Target: chr5; HSP #3
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 97 - 143
Target Start/End: Original strand, 43208281 - 43208327
Alignment:
Q  97 gacacatacgattatattgaattatgtcattttttcaaattactatc 143  Q
    |||| ||| ||||| |||||||||||||||||| |||||||||||||    
T  43208281 gacagatatgattacattgaattatgtcattttctcaaattactatc 43208327  T

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Target: chr5; HSP #4
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 97 - 146
Target Start/End: Original strand, 37472604 - 37472653
Alignment:
Q  97 gacacatacgattatattgaattatgtcattttttcaaattactatcagt 146  Q
    |||||||| |||||||| ||||||||||||||| || ||||| |||||||    
T  37472604 gacacatatgattatatcgaattatgtcattttctcgaattattatcagt 37472653  T

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Target: chr5; HSP #5
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 98 - 143
Target Start/End: Original strand, 38749571 - 38749616
Alignment:
Q  98 acacatacgattatattgaattatgtcattttttcaaattactatc 143  Q
    |||||||  |||| ||||||||||||||||||||||||||| ||||    
T  38749571 acacatataattacattgaattatgtcattttttcaaattattatc 38749616  T

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Target: chr4 (Bit Score: 32; Significance: 0.000000009; HSPs: 4)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 32; E-Value: 0.000000009
Query Start/End: Original strand, 96 - 143
Target Start/End: Original strand, 18513247 - 18513294
Alignment:
Q  96 tgacacatacgattatattgaattatgtcattttttcaaattactatc 143  Q
    ||||||||| ||||| |||||||||||||||||| |||||||| ||||    
T  18513247 tgacacatatgattacattgaattatgtcattttctcaaattattatc 18513294  T

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Target: chr4; HSP #2
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 97 - 143
Target Start/End: Original strand, 14465301 - 14465347
Alignment:
Q  97 gacacatacgattatattgaattatgtcattttttcaaattactatc 143  Q
    |||||||| ||||| |||||||||||||||||| |||||||| ||||    
T  14465301 gacacatatgattaaattgaattatgtcattttctcaaattattatc 14465347  T

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Target: chr4; HSP #3
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 106 - 151
Target Start/End: Original strand, 5654607 - 5654652
Alignment:
Q  106 gattatattgaattatgtcattttttcaaattactatcagtatcga 151  Q
    ||||| |||||||||||||||||| |||||||| ||||||| ||||    
T  5654607 gattacattgaattatgtcattttctcaaattattatcagtgtcga 5654652  T

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Target: chr4; HSP #4
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 106 - 138
Target Start/End: Original strand, 50875218 - 50875250
Alignment:
Q  106 gattatattgaattatgtcattttttcaaatta 138  Q
    ||||| |||||||||||||||||||||||||||    
T  50875218 gattaaattgaattatgtcattttttcaaatta 50875250  T

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Target: chr2 (Bit Score: 32; Significance: 0.000000009; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 32; E-Value: 0.000000009
Query Start/End: Original strand, 96 - 143
Target Start/End: Complemental strand, 18571025 - 18570978
Alignment:
Q  96 tgacacatacgattatattgaattatgtcattttttcaaattactatc 143  Q
    ||||||||| ||||| |||||||||||||||||| |||||||| ||||    
T  18571025 tgacacatatgattacattgaattatgtcattttctcaaattattatc 18570978  T

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Target: chr7 (Bit Score: 31; Significance: 0.00000004; HSPs: 2)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 97 - 143
Target Start/End: Original strand, 2525851 - 2525897
Alignment:
Q  97 gacacatacgattatattgaattatgtcattttttcaaattactatc 143  Q
    |||||||| |||||||||||||||||||||||  |||||||| ||||    
T  2525851 gacacatatgattatattgaattatgtcatttgctcaaattattatc 2525897  T

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Target: chr7; HSP #2
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 97 - 143
Target Start/End: Original strand, 38134413 - 38134459
Alignment:
Q  97 gacacatacgattatattgaattatgtcattttttcaaattactatc 143  Q
    |||||||| ||||| |||||||||||||||||| |||||||| ||||    
T  38134413 gacacatatgattacattgaattatgtcattttctcaaattattatc 38134459  T

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Target: chr6 (Bit Score: 31; Significance: 0.00000004; HSPs: 3)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 96 - 138
Target Start/End: Original strand, 9024182 - 9024224
Alignment:
Q  96 tgacacatacgattatattgaattatgtcattttttcaaatta 138  Q
    ||||||||| ||||| |||||||||||||||||| ||||||||    
T  9024182 tgacacatatgattacattgaattatgtcattttctcaaatta 9024224  T

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

Target: chr6; HSP #2
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 112 - 162
Target Start/End: Complemental strand, 17168931 - 17168881
Alignment:
Q  112 attgaattatgtcattttttcaaattactatcagtatcgaagtgttcgtgt 162  Q
    ||||||||||||||||||||||||||| ||||| | |||| ||||| ||||    
T  17168931 attgaattatgtcattttttcaaattattatcaatgtcgacgtgtttgtgt 17168881  T

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Target: chr6; HSP #3
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 96 - 146
Target Start/End: Original strand, 34541756 - 34541806
Alignment:
Q  96 tgacacatacgattatattgaattatgtcattttttcaaattactatcagt 146  Q
    ||||||||| ||||| |||||||| |||||||||||| ||||| |||||||    
T  34541756 tgacacatatgattacattgaattttgtcattttttctaattattatcagt 34541806  T

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Target: chr8 (Bit Score: 30; Significance: 0.0000001; HSPs: 2)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 98 - 151
Target Start/End: Complemental strand, 3508103 - 3508050
Alignment:
Q  98 acacatacgattatattgaattatgtcattttttcaaattactatcagtatcga 151  Q
    ||||||| ||||| |||||||||||| ||||| |||||||| |||||| |||||    
T  3508103 acacatatgattacattgaattatgttattttctcaaattattatcagcatcga 3508050  T

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

Target: chr8; HSP #2
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 103 - 143
Target Start/End: Original strand, 30068041 - 30068081
Alignment:
Q  103 tacgattatattgaattatgtcattttttcaaattactatc 143  Q
    |||||||||| |||||||||||||||| |||||||| ||||    
T  30068041 tacgattatactgaattatgtcattttctcaaattattatc 30068081  T

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