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_high_7 (Length: 513)

Name: NF5539_high_7
Description: NF5539
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF5539_high_7
NF5539_high_7
[»] chr4 (7 HSPs)
chr4 (1-159)||(32649321-32649479)
chr4 (159-270)||(32649169-32649281)
chr4 (248-317)||(32649095-32649164)
chr4 (315-359)||(32225581-32225625)
chr4 (318-357)||(23976706-23976745)
chr4 (320-358)||(44376078-44376116)
chr4 (317-358)||(17558824-17558865)
[»] chr2 (3 HSPs)
chr2 (188-357)||(22136279-22136449)
chr2 (357-413)||(32073854-32073910)
chr2 (443-495)||(32073796-32073855)
[»] chr5 (7 HSPs)
chr5 (303-359)||(16349713-16349769)
chr5 (303-357)||(4082574-4082628)
chr5 (320-358)||(30096275-30096313)
chr5 (299-357)||(16222687-16222745)
chr5 (315-357)||(40951482-40951524)
chr5 (320-357)||(25099236-25099273)
chr5 (320-357)||(25158326-25158363)
[»] chr8 (5 HSPs)
chr8 (305-359)||(16367864-16367918)
chr8 (305-357)||(42308123-42308175)
chr8 (320-358)||(405353-405391)
chr8 (313-359)||(771642-771688)
chr8 (329-357)||(17695634-17695662)
[»] chr1 (5 HSPs)
chr1 (320-360)||(28947451-28947491)
chr1 (305-363)||(27840301-27840359)
chr1 (315-357)||(51387129-51387171)
chr1 (305-362)||(47250304-47250361)
chr1 (313-357)||(50293655-50293699)
[»] chr7 (1 HSPs)
chr7 (320-359)||(31097904-31097943)
[»] scaffold0896 (1 HSPs)
scaffold0896 (320-357)||(1109-1146)
[»] chr6 (2 HSPs)
chr6 (320-357)||(8657064-8657101)
chr6 (320-357)||(33289070-33289107)
[»] chr3 (2 HSPs)
chr3 (312-357)||(53693213-53693258)
chr3 (313-357)||(44708227-44708271)


Alignment Details
Target: chr4 (Bit Score: 143; Significance: 7e-75; HSPs: 7)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 143; E-Value: 7e-75
Query Start/End: Original strand, 1 - 159
Target Start/End: Complemental strand, 32649479 - 32649321
Alignment:
Q  1 agaacaaggagtagaactttctattataactaattagtttgatagcctgccaatcgttatccttatgcaattcctgatggttaatatcattgtatgcagg 100  Q
    ||||||||||||||||||||||| |||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||  ||||||||||    
T  32649479 agaacaaggagtagaactttctactataactaattagtttgatagcctgccaattgttatccttatgcaattcctgatggttaatatctatgtatgcagg 32649380  T
Q  101 ccattccgattataaagttgaggatgcatgttgttcatggtggttaaatttaatgtgtt 159  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  32649379 ccattccgattataaagttgaggatgcatgttgttcatggtggttaaatttaatgtgtt 32649321  T

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Target: chr4; HSP #2
Raw Score: 85; E-Value: 3e-40
Query Start/End: Original strand, 159 - 270
Target Start/End: Complemental strand, 32649281 - 32649169
Alignment:
Q  159 tctaatgactaaatatactgtcacataagtttagtgaaacaacaaaacacactacgttacat-cgtatatcacgagaccacacataagtctgtaacaaca 257  Q
    |||||||||||| |||||||||||||||||||||||| |||||||||||||| ||| ||||| |||||||||||||||||||||||||| ||||||||||    
T  32649281 tctaatgactaagtatactgtcacataagtttagtgacacaacaaaacacacaacgctacattcgtatatcacgagaccacacataagtttgtaacaaca 32649182  T
Q  258 gacatattctctg 270  Q
    |||||||||||||    
T  32649181 gacatattctctg 32649169  T

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Target: chr4; HSP #3
Raw Score: 54; E-Value: 9e-22
Query Start/End: Original strand, 248 - 317
Target Start/End: Complemental strand, 32649164 - 32649095
Alignment:
Q  248 tgtaacaacagacatattctctgtgaaaagttcattcatactaaaatatatttcaaataatgtcttaaac 317  Q
    |||||||||||||||||| |||| ||||||||||||||||||| |||||||||||| |||||||||||||    
T  32649164 tgtaacaacagacatattttctgcgaaaagttcattcatactacaatatatttcaagtaatgtcttaaac 32649095  T

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

Target: chr4; HSP #4
Raw Score: 33; E-Value: 0.000000003
Query Start/End: Original strand, 315 - 359
Target Start/End: Complemental strand, 32225625 - 32225581
Alignment:
Q  315 aactatatatgatacgtgcggcagcacgggtggacgatctagttt 359  Q
    ||||||||||||  ||||||||||||| |||||||||||||||||    
T  32225625 aactatatatgacccgtgcggcagcaccggtggacgatctagttt 32225581  T

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Target: chr4; HSP #5
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 318 - 357
Target Start/End: Complemental strand, 23976745 - 23976706
Alignment:
Q  318 tatatatgatacgtgcggcagcacgggtggacgatctagt 357  Q
    |||||||||  |||||||||||||||||||||||||||||    
T  23976745 tatatatgacccgtgcggcagcacgggtggacgatctagt 23976706  T

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Target: chr4; HSP #6
Raw Score: 31; E-Value: 0.00000005
Query Start/End: Original strand, 320 - 358
Target Start/End: Complemental strand, 44376116 - 44376078
Alignment:
Q  320 tatatgatacgtgcggcagcacgggtggacgatctagtt 358  Q
    |||||||  ||||||||||||||||||||||||||||||    
T  44376116 tatatgacccgtgcggcagcacgggtggacgatctagtt 44376078  T

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

Target: chr4; HSP #7
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 317 - 358
Target Start/End: Complemental strand, 17558865 - 17558824
Alignment:
Q  317 ctatatatgatacgtgcggcagcacgggtggacgatctagtt 358  Q
    ||||||||||  ||||||||||||||||| ||||||||||||    
T  17558865 ctatatatgacccgtgcggcagcacgggtagacgatctagtt 17558824  T

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Target: chr2 (Bit Score: 95; Significance: 3e-46; HSPs: 3)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 95; E-Value: 3e-46
Query Start/End: Original strand, 188 - 357
Target Start/End: Complemental strand, 22136449 - 22136279
Alignment:
Q  188 tttagtgaaacaacaaaacacactacgttacatc----gtatatcacgagaccacacataagtctgtaacaacagacatattctctgtgaaaagttcatt 283  Q
    ||||||| |||| ||||||||||||||||||||     ||||||||||||||||||||||||| ||||||||||||||||||||||| || |||||   |    
T  22136449 tttagtggaacagcaaaacacactacgttacatttgtagtatatcacgagaccacacataagtttgtaacaacagacatattctctgcgacaagtt---t 22136353  T
Q  284 catactaaaatatatttcaaataatgtcttaaactatatatgatacgtgcggcagcacgggtggacgatctagt 357  Q
    ||||||| |||||||||| | ||||||||||||||||||||||  ||||||||| |||||||||||||||||||    
T  22136352 catactacaatatatttcgagtaatgtcttaaactatatatgacccgtgcggcaacacgggtggacgatctagt 22136279  T

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Target: chr2; HSP #2
Raw Score: 45; E-Value: 2e-16
Query Start/End: Original strand, 357 - 413
Target Start/End: Complemental strand, 32073910 - 32073854
Alignment:
Q  357 tttatttattgcagactagcgacaatagtttgacactctttcatacctatcaaaagt 413  Q
    ||||||||||||||||||| |||||||||||| | ||||||||||||||||||||||    
T  32073910 tttatttattgcagactagtgacaatagtttgtcgctctttcatacctatcaaaagt 32073854  T

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Target: chr2; HSP #3
Raw Score: 34; E-Value: 0.0000000007
Query Start/End: Original strand, 443 - 495
Target Start/End: Complemental strand, 32073855 - 32073796
Alignment:
Q  443 gtaactagagaatgcttatagctacctaa-------ttatgggactggctatattgttca 495  Q
    |||||||||||||||||||||||||||||       ||||||||||||||||||||||||    
T  32073855 gtaactagagaatgcttatagctacctaagtatgatttatgggactggctatattgttca 32073796  T

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Target: chr5 (Bit Score: 41; Significance: 0.00000000000005; HSPs: 7)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 41; E-Value: 0.00000000000005
Query Start/End: Original strand, 303 - 359
Target Start/End: Complemental strand, 16349769 - 16349713
Alignment:
Q  303 aataatgtcttaaactatatatgatacgtgcggcagcacgggtggacgatctagttt 359  Q
    |||||||| || ||||||||||||  |||||||||||||||||||||||||||||||    
T  16349769 aataatgtttttaactatatatgacccgtgcggcagcacgggtggacgatctagttt 16349713  T

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Target: chr5; HSP #2
Raw Score: 39; E-Value: 0.0000000000008
Query Start/End: Original strand, 303 - 357
Target Start/End: Original strand, 4082574 - 4082628
Alignment:
Q  303 aataatgtcttaaactatatatgatacgtgcggcagcacgggtggacgatctagt 357  Q
    |||||||| || ||||||||||||  |||||||||||||||||||||||||||||    
T  4082574 aataatgtttttaactatatatgacccgtgcggcagcacgggtggacgatctagt 4082628  T

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Target: chr5; HSP #3
Raw Score: 35; E-Value: 0.0000000002
Query Start/End: Original strand, 320 - 358
Target Start/End: Complemental strand, 30096313 - 30096275
Alignment:
Q  320 tatatgatacgtgcggcagcacgggtggacgatctagtt 358  Q
    |||||||| ||||||||||||||||||||||||||||||    
T  30096313 tatatgatccgtgcggcagcacgggtggacgatctagtt 30096275  T

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Target: chr5; HSP #4
Raw Score: 31; E-Value: 0.00000005
Query Start/End: Original strand, 299 - 357
Target Start/End: Original strand, 16222687 - 16222745
Alignment:
Q  299 ttcaaataatgtcttaaactatatatgatacgtgcggcagcacgggtggacgatctagt 357  Q
    ||||| |||||| || | |||||||||| | |||||||||||||||| |||||||||||    
T  16222687 ttcaactaatgtttttagctatatatgacatgtgcggcagcacgggtagacgatctagt 16222745  T

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Target: chr5; HSP #5
Raw Score: 31; E-Value: 0.00000005
Query Start/End: Original strand, 315 - 357
Target Start/End: Original strand, 40951482 - 40951524
Alignment:
Q  315 aactatatatgatacgtgcggcagcacgggtggacgatctagt 357  Q
    ||||||||||||  ||||||||||||||||| |||||||||||    
T  40951482 aactatatatgacccgtgcggcagcacgggtagacgatctagt 40951524  T

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

Target: chr5; HSP #6
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 320 - 357
Target Start/End: Complemental strand, 25099273 - 25099236
Alignment:
Q  320 tatatgatacgtgcggcagcacgggtggacgatctagt 357  Q
    |||||||  |||||||||||||||||||||||||||||    
T  25099273 tatatgacccgtgcggcagcacgggtggacgatctagt 25099236  T

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Target: chr5; HSP #7
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 320 - 357
Target Start/End: Complemental strand, 25158363 - 25158326
Alignment:
Q  320 tatatgatacgtgcggcagcacgggtggacgatctagt 357  Q
    |||||||  |||||||||||||||||||||||||||||    
T  25158363 tatatgacccgtgcggcagcacgggtggacgatctagt 25158326  T

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Target: chr8 (Bit Score: 39; Significance: 0.0000000000008; HSPs: 5)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 39; E-Value: 0.0000000000008
Query Start/End: Original strand, 305 - 359
Target Start/End: Original strand, 16367864 - 16367918
Alignment:
Q  305 taatgtcttaaactatatatgatacgtgcggcagcacgggtggacgatctagttt 359  Q
    |||||| |||||||||||||||  ||||||||||||||||| |||||||||||||    
T  16367864 taatgttttaaactatatatgacccgtgcggcagcacgggtagacgatctagttt 16367918  T

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Target: chr8; HSP #2
Raw Score: 33; E-Value: 0.000000003
Query Start/End: Original strand, 305 - 357
Target Start/End: Complemental strand, 42308175 - 42308123
Alignment:
Q  305 taatgtcttaaactatatatgatacgtgcggcagcacgggtggacgatctagt 357  Q
    |||||| || ||||||||||||  ||||||||||||| |||||||||||||||    
T  42308175 taatgtttttaactatatatgacccgtgcggcagcacaggtggacgatctagt 42308123  T

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Target: chr8; HSP #3
Raw Score: 31; E-Value: 0.00000005
Query Start/End: Original strand, 320 - 358
Target Start/End: Complemental strand, 405391 - 405353
Alignment:
Q  320 tatatgatacgtgcggcagcacgggtggacgatctagtt 358  Q
    |||||||  ||||||||||||||||||||||||||||||    
T  405391 tatatgacccgtgcggcagcacgggtggacgatctagtt 405353  T

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Target: chr8; HSP #4
Raw Score: 31; E-Value: 0.00000005
Query Start/End: Original strand, 313 - 359
Target Start/End: Original strand, 771642 - 771688
Alignment:
Q  313 taaactatatatgatacgtgcggcagcacgggtggacgatctagttt 359  Q
    ||||||||||||||  ||||||||||||||||| ||||| |||||||    
T  771642 taaactatatatgacccgtgcggcagcacgggtagacgacctagttt 771688  T

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Target: chr8; HSP #5
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 329 - 357
Target Start/End: Original strand, 17695634 - 17695662
Alignment:
Q  329 cgtgcggcagcacgggtggacgatctagt 357  Q
    |||||||||||||||||||||||||||||    
T  17695634 cgtgcggcagcacgggtggacgatctagt 17695662  T

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Target: chr1 (Bit Score: 33; Significance: 0.000000003; HSPs: 5)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 33; E-Value: 0.000000003
Query Start/End: Original strand, 320 - 360
Target Start/End: Complemental strand, 28947491 - 28947451
Alignment:
Q  320 tatatgatacgtgcggcagcacgggtggacgatctagttta 360  Q
    |||||||  ||||||||||||||||||||||||||||||||    
T  28947491 tatatgacccgtgcggcagcacgggtggacgatctagttta 28947451  T

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

Target: chr1; HSP #2
Raw Score: 31; E-Value: 0.00000005
Query Start/End: Original strand, 305 - 363
Target Start/End: Complemental strand, 27840359 - 27840301
Alignment:
Q  305 taatgtcttaaactatatatgatacgtgcggcagcacgggtggacgatctagtttattt 363  Q
    |||||| |||||||||| ||||  |||||| |||||||||| |||||||||||| ||||    
T  27840359 taatgttttaaactataaatgacccgtgcgacagcacgggtagacgatctagttcattt 27840301  T

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

Target: chr1; HSP #3
Raw Score: 31; E-Value: 0.00000005
Query Start/End: Original strand, 315 - 357
Target Start/End: Complemental strand, 51387171 - 51387129
Alignment:
Q  315 aactatatatgatacgtgcggcagcacgggtggacgatctagt 357  Q
    ||||||||||||  ||||||||||||||||| |||||||||||    
T  51387171 aactatatatgacccgtgcggcagcacgggtagacgatctagt 51387129  T

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

Target: chr1; HSP #4
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 305 - 362
Target Start/End: Original strand, 47250304 - 47250361
Alignment:
Q  305 taatgtcttaaactatatatgatacgtgcggcagcacgggtggacgatctagtttatt 362  Q
    |||||| || ||||||||||||  ||||||||||| ||| ||||||||||||| ||||    
T  47250304 taatgtttttaactatatatgacccgtgcggcagctcggatggacgatctagtatatt 47250361  T

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Target: chr1; HSP #5
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 313 - 357
Target Start/End: Original strand, 50293655 - 50293699
Alignment:
Q  313 taaactatatatgatacgtgcggcagcacgggtggacgatctagt 357  Q
    ||||||||||||||  |||||||||||| |||| |||||||||||    
T  50293655 taaactatatatgacccgtgcggcagcatgggtagacgatctagt 50293699  T

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Target: chr7 (Bit Score: 32; Significance: 0.00000001; HSPs: 1)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 320 - 359
Target Start/End: Original strand, 31097904 - 31097943
Alignment:
Q  320 tatatgatacgtgcggcagcacgggtggacgatctagttt 359  Q
    |||||||  |||||||||||||||||||||||||||||||    
T  31097904 tatatgacccgtgcggcagcacgggtggacgatctagttt 31097943  T

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Target: scaffold0896 (Bit Score: 30; Significance: 0.0000002; HSPs: 1)
Name: scaffold0896
Description:

Target: scaffold0896; HSP #1
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 320 - 357
Target Start/End: Original strand, 1109 - 1146
Alignment:
Q  320 tatatgatacgtgcggcagcacgggtggacgatctagt 357  Q
    |||||||  |||||||||||||||||||||||||||||    
T  1109 tatatgacccgtgcggcagcacgggtggacgatctagt 1146  T

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Target: chr6 (Bit Score: 30; Significance: 0.0000002; HSPs: 2)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 320 - 357
Target Start/End: Complemental strand, 8657101 - 8657064
Alignment:
Q  320 tatatgatacgtgcggcagcacgggtggacgatctagt 357  Q
    |||||||  |||||||||||||||||||||||||||||    
T  8657101 tatatgacccgtgcggcagcacgggtggacgatctagt 8657064  T

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

Target: chr6; HSP #2
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 320 - 357
Target Start/End: Complemental strand, 33289107 - 33289070
Alignment:
Q  320 tatatgatacgtgcggcagcacgggtggacgatctagt 357  Q
    |||||||  |||||||||||||||||||||||||||||    
T  33289107 tatatgacccgtgcggcagcacgggtggacgatctagt 33289070  T

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

Target: chr3 (Bit Score: 30; Significance: 0.0000002; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 312 - 357
Target Start/End: Original strand, 53693213 - 53693258
Alignment:
Q  312 ttaaactatatatgatacgtgcggcagcacgggtggacgatctagt 357  Q
    |||||||||||||||   |||||||||||||||| |||||||||||    
T  53693213 ttaaactatatatgacctgtgcggcagcacgggtagacgatctagt 53693258  T

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Target: chr3; HSP #2
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 313 - 357
Target Start/End: Complemental strand, 44708271 - 44708227
Alignment:
Q  313 taaactatatatgatacgtgcggcagcacgggtggacgatctagt 357  Q
    |||| |||||||||  ||||||||||||||||| |||||||||||    
T  44708271 taaattatatatgacccgtgcggcagcacgggtagacgatctagt 44708227  T

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



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