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: NF13306_low_11 (Length: 418)

Name: NF13306_low_11
Description: NF13306
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF13306_low_11
NF13306_low_11
[»] chr3 (9 HSPs)
chr3 (19-400)||(7491494-7491875)
chr3 (169-329)||(2920310-2920470)
chr3 (169-329)||(5966598-5966758)
chr3 (169-329)||(5052673-5052833)
chr3 (169-328)||(11490315-11490474)
chr3 (169-329)||(11496787-11496947)
chr3 (18-96)||(5052486-5052564)
chr3 (25-86)||(11497066-11497127)
chr3 (269-329)||(4130837-4130897)
[»] scaffold0603 (1 HSPs)
scaffold0603 (169-327)||(3999-4157)
[»] chr1 (4 HSPs)
chr1 (169-326)||(17312527-17312684)
chr1 (18-87)||(17312340-17312409)
chr1 (349-397)||(44473599-44473647)
chr1 (349-397)||(44480382-44480430)
[»] chr8 (2 HSPs)
chr8 (169-327)||(18388803-18388961)
chr8 (24-96)||(18388622-18388694)
[»] chr4 (2 HSPs)
chr4 (169-329)||(5989308-5989468)
chr4 (349-392)||(48010303-48010346)
[»] chr5 (1 HSPs)
chr5 (169-329)||(16447573-16447733)
[»] scaffold0331 (1 HSPs)
scaffold0331 (349-397)||(1586-1634)


Alignment Details
Target: chr3 (Bit Score: 382; Significance: 0; HSPs: 9)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 382; E-Value: 0
Query Start/End: Original strand, 19 - 400
Target Start/End: Complemental strand, 7491875 - 7491494
Alignment:
Q  19 aataaggaagcaaacgttgaagtgcataacctcacccatgatttagctacaacggtttcgtcttcatatggtaacaggctgtcttacaatagagggttgt 118  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  7491875 aataaggaagcaaacgttgaagtgcataacctcacccatgatttagctacaacggtttcgtcttcatatggtaacaggctgtcttacaatagagggttgt 7491776  T
Q  119 atgattcatttaatgaatttgctgagttgtttggattagattttctttgcacctttctagcattaccattacaagaacaattgcctctttgttttctgtc 218  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  7491775 atgattcatttaatgaatttgctgagttgtttggattagattttctttgcacctttctagcattaccattacaagaacaattgcctctttgttttctgtc 7491676  T
Q  219 aaaccgggtggtacatgacttgctgcccacaatgaaacaactacttctgttgtcattgtcaaactacaaaagtatcaccgaggttcgcaactctattgga 318  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  7491675 aaaccgggtggtacatgacttgctgcccacaatgaaacaactacttctgttgtcattgtcaaactacaaaagtatcaccgaggttcgcaactctattgga 7491576  T
Q  319 aatttgttatatatacgtgcgatacttgaattttccaaccattatgccttgctccccattgtcattactactaactatgatg 400  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  7491575 aatttgttatatatacgtgcgatacttgaattttccaaccattatgccttgctccccattgtcattactactaactatgatg 7491494  T

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Target: chr3; HSP #2
Raw Score: 81; E-Value: 5e-38
Query Start/End: Original strand, 169 - 329
Target Start/End: Original strand, 2920310 - 2920470
Alignment:
Q  169 acctttctagcattaccattacaagaacaattgcctctttgttttctgtcaaaccgggtggtacatgacttgctgcccacaatgaaacaactacttctgt 268  Q
    |||||||||||||| |||||||| | |||||| ||||||||||| ||  | |||  ||| ||||||||||||||||| |||||||||||  ||| | |||    
T  2920310 acctttctagcattgccattacagggacaatttcctctttgtttgctagcgaacaaggtagtacatgacttgctgccaacaatgaaacagttacgtgtgt 2920409  T
Q  269 tgtcattgtcaaactacaaaagtatcaccgaggttcgcaactctattggaaatttgttata 329  Q
    |||| |||||||||||||| |||||||| ||||||| ||||||||||||||||||||||||    
T  2920410 tgtctttgtcaaactacaagagtatcactgaggttcccaactctattggaaatttgttata 2920470  T

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

Target: chr3; HSP #3
Raw Score: 81; E-Value: 5e-38
Query Start/End: Original strand, 169 - 329
Target Start/End: Original strand, 5966598 - 5966758
Alignment:
Q  169 acctttctagcattaccattacaagaacaattgcctctttgttttctgtcaaaccgggtggtacatgacttgctgcccacaatgaaacaactacttctgt 268  Q
    ||||||||||||||||||||| |||||| |||||||| |||||| || ||||||  ||| |||||||| |||||||| |||||||||||| | | | |||    
T  5966598 acctttctagcattaccattagaagaacgattgcctcgttgtttgctatcaaacaaggtagtacatgagttgctgccaacaatgaaacaattgcgtgtgt 5966697  T
Q  269 tgtcattgtcaaactacaaaagtatcaccgaggttcgcaactctattggaaatttgttata 329  Q
    |||| ||| ||||||||||||| ||||| ||||||| ||| ||||||||||||||||||||    
T  5966698 tgtctttgacaaactacaaaagcatcactgaggttcccaaatctattggaaatttgttata 5966758  T

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

Target: chr3; HSP #4
Raw Score: 77; E-Value: 1e-35
Query Start/End: Original strand, 169 - 329
Target Start/End: Original strand, 5052673 - 5052833
Alignment:
Q  169 acctttctagcattaccattacaagaacaattgcctctttgttttctgtcaaaccgggtggtacatgacttgctgcccacaatgaaacaactacttctgt 268  Q
    |||||||||||||||||||||||| ||||| | | | |||||||  | ||||||  ||| ||||||||||||||||| |||||||||||| |||   |||    
T  5052673 acctttctagcattaccattacaaaaacaactacatttttgtttgttatcaaacaaggtagtacatgacttgctgccaacaatgaaacaattacgcgtgt 5052772  T
Q  269 tgtcattgtcaaactacaaaagtatcaccgaggttcgcaactctattggaaatttgttata 329  Q
    |||| |||||||||||||  |||||||||||||||| ||||||||||| ||||||||||||    
T  5052773 tgtctttgtcaaactacaggagtatcaccgaggttcccaactctattgaaaatttgttata 5052833  T

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Target: chr3; HSP #5
Raw Score: 76; E-Value: 5e-35
Query Start/End: Original strand, 169 - 328
Target Start/End: Complemental strand, 11490474 - 11490315
Alignment:
Q  169 acctttctagcattaccattacaagaacaattgcctctttgttttctgtcaaaccgggtggtacatgacttgctgcccacaatgaaacaactacttctgt 268  Q
    |||||||||||||||||||||||| ||||| ||||| |||||||  | || |||  ||| ||||||||||||||||| |||||||||||| ||| | | |    
T  11490474 acctttctagcattaccattacaaaaacaactgcctttttgtttgttatcgaacaaggtagtacatgacttgctgccaacaatgaaacaattacgtgttt 11490375  T
Q  269 tgtcattgtcaaactacaaaagtatcaccgaggttcgcaactctattggaaatttgttat 328  Q
    |||| |||||||||||||  |||||||||||| ||| ||||||||||| |||||||||||    
T  11490374 tgtccttgtcaaactacaggagtatcaccgagattcccaactctattgaaaatttgttat 11490315  T

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Target: chr3; HSP #6
Raw Score: 65; E-Value: 2e-28
Query Start/End: Original strand, 169 - 329
Target Start/End: Complemental strand, 11496947 - 11496787
Alignment:
Q  169 acctttctagcattaccattacaagaacaattgcctctttgttttctgtcaaaccgggtggtacatgacttgctgcccacaatgaaacaactacttctgt 268  Q
    |||||||||||| |||| ||||||||||||| |||||||||||| || ||||||  |   ||||||||| |||| ||   |||||||||  | | | |||    
T  11496947 acctttctagcactaccgttacaagaacaatcgcctctttgtttactatcaaacaagaccgtacatgacctgctaccagaaatgaaacagttgcgtgtgt 11496848  T
Q  269 tgtcattgtcaaactacaaaagtatcaccgaggttcgcaactctattggaaatttgttata 329  Q
    |||| |||||||||||||| |||||||||||||||| ||| ||||||||||||||||||||    
T  11496847 tgtctttgtcaaactacaagagtatcaccgaggttcccaaatctattggaaatttgttata 11496787  T

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Target: chr3; HSP #7
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 18 - 96
Target Start/End: Original strand, 5052486 - 5052564
Alignment:
Q  18 caataaggaagcaaacgttgaagtgcataacctcacccatgatttagctacaacggtttcgtcttcatatggtaacagg 96  Q
    |||| ||||||||||| ||||| |||||| ||||  ||||||||| || |||| |||||| ||||||||| ||| ||||    
T  5052486 caatgaggaagcaaactttgaaatgcatagcctcctccatgattttgccacaatggtttcatcttcatattgtaccagg 5052564  T

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Target: chr3; HSP #8
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 25 - 86
Target Start/End: Complemental strand, 11497127 - 11497066
Alignment:
Q  25 gaagcaaacgttgaagtgcataacctcacccatgatttagctacaacggtttcgtcttcata 86  Q
    |||| |||| ||||| |||| ||||| | ||||||||||||||||| |||||| ||||||||    
T  11497127 gaagaaaactttgaaatgcaaaaccttatccatgatttagctacaatggtttcatcttcata 11497066  T

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Target: chr3; HSP #9
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 269 - 329
Target Start/End: Original strand, 4130837 - 4130897
Alignment:
Q  269 tgtcattgtcaaactacaaaagtatcaccgaggttcgcaactctattggaaatttgttata 329  Q
    |||| |||||||||||||| | |||||| ||| ||| ||| ||||||||||||||| ||||    
T  4130837 tgtctttgtcaaactacaagaatatcactgagtttcccaattctattggaaatttgatata 4130897  T

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Target: scaffold0603 (Bit Score: 83; Significance: 3e-39; HSPs: 1)
Name: scaffold0603
Description:

Target: scaffold0603; HSP #1
Raw Score: 83; E-Value: 3e-39
Query Start/End: Original strand, 169 - 327
Target Start/End: Complemental strand, 4157 - 3999
Alignment:
Q  169 acctttctagcattaccattacaagaacaattgcctctttgttttctgtcaaaccgggtggtacatgacttgctgcccacaatgaaacaactacttctgt 268  Q
    ||||||||||||||||||||||||||||| |||||||||||||| || ||||||  | | |||||||| |||||||| |||||||||||| |||   |||    
T  4157 acctttctagcattaccattacaagaacatttgcctctttgtttgctatcaaacaagttagtacatgaattgctgccaacaatgaaacaattacgcgtgt 4058  T
Q  269 tgtcattgtcaaactacaaaagtatcaccgaggttcgcaactctattggaaatttgtta 327  Q
    |||| |||||||| ||||| |||||||| ||||||| ||||||||||| ||||||||||    
T  4057 tgtctttgtcaaattacaagagtatcactgaggttcccaactctattgcaaatttgtta 3999  T

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Target: chr1 (Bit Score: 54; Significance: 7e-22; HSPs: 4)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 54; E-Value: 7e-22
Query Start/End: Original strand, 169 - 326
Target Start/End: Original strand, 17312527 - 17312684
Alignment:
Q  169 acctttctagcattaccattacaagaacaattgcctctttgttttctgtcaaaccgggtggtacatgacttgctgcccacaatgaaacaactacttctgt 268  Q
    |||||||||||||| ||||||||| |||||  |||| |||||||  | ||||||  ||| ||| ||||||||||||| |||||||||||| ||| |  ||    
T  17312527 acctttctagcatttccattacaaaaacaacggcctttttgtttgttatcaaacaaggtagtaaatgacttgctgccgacaatgaaacaattacgtgcgt 17312626  T
Q  269 tgtcattgtcaaactacaaaagtatcaccgaggttcgcaactctattggaaatttgtt 326  Q
    |||| |||||||||||||| |||||||   ||||||  || ||||||||||| |||||    
T  17312627 tgtctttgtcaaactacaagagtatcattaaggttccgaagtctattggaaaattgtt 17312684  T

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Target: chr1; HSP #2
Raw Score: 34; E-Value: 0.0000000006
Query Start/End: Original strand, 18 - 87
Target Start/End: Original strand, 17312340 - 17312409
Alignment:
Q  18 caataaggaagcaaacgttgaagtgcataacctcacccatgatttagctacaacggtttcgtcttcatat 87  Q
    |||| ||||||||||| ||||| |||||| ||||  ||||||||| ||||||| |||||| |||||||||    
T  17312340 caatgaggaagcaaactttgaaatgcatagcctcctccatgatttggctacaatggtttcatcttcatat 17312409  T

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Target: chr1; HSP #3
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 349 - 397
Target Start/End: Complemental strand, 44473647 - 44473599
Alignment:
Q  349 ttttccaaccattatgccttgctccccattgtcattactactaactatg 397  Q
    ||||||| ||||| |||||| ||||||| ||||||||||||||||||||    
T  44473647 ttttccatccattctgcctttctccccactgtcattactactaactatg 44473599  T

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Target: chr1; HSP #4
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 349 - 397
Target Start/End: Complemental strand, 44480430 - 44480382
Alignment:
Q  349 ttttccaaccattatgccttgctccccattgtcattactactaactatg 397  Q
    ||||||| ||||| |||||||||||||| ||||||| ||||||||||||    
T  44480430 ttttccatccattctgccttgctccccactgtcattgctactaactatg 44480382  T

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Target: chr8 (Bit Score: 51; Significance: 4e-20; HSPs: 2)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 51; E-Value: 4e-20
Query Start/End: Original strand, 169 - 327
Target Start/End: Original strand, 18388803 - 18388961
Alignment:
Q  169 acctttctagcattaccattacaagaacaattgcctctttgttttctgtcaaaccgggtggtacatgacttgctgcccacaatgaaacaactacttctgt 268  Q
    |||||||||||||||||| ||||  ||||| ||||| |||||||  | || |||  ||| ||||||| ||||||||| |||||||||||  |||   ||     
T  18388803 acctttctagcattaccaatacagaaacaactgcctttttgtttgttatcgaacaaggtcgtacatggcttgctgccaacaatgaaacagttacgcatgc 18388902  T
Q  269 tgtcattgtcaaactacaaaagtatcaccgaggttcgcaactctattggaaatttgtta 327  Q
    |||| |||||||||||||| |||||||| ||||||| |||  | |||||||||||||||    
T  18388903 tgtctttgtcaaactacaagagtatcactgaggttcccaaaacaattggaaatttgtta 18388961  T

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

Target: chr8; HSP #2
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 24 - 96
Target Start/End: Original strand, 18388622 - 18388694
Alignment:
Q  24 ggaagcaaacgttgaagtgcataacctcacccatgatttagctacaacggtttcgtcttcatatggtaacagg 96  Q
    |||||||||| ||||| ||||| |||||   |||||||||||||||| |||||| ||||||||| ||| ||||    
T  18388622 ggaagcaaactttgaaatgcatgacctcgttcatgatttagctacaaaggtttcatcttcatattgtatcagg 18388694  T

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Target: chr4 (Bit Score: 45; Significance: 2e-16; HSPs: 2)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 45; E-Value: 2e-16
Query Start/End: Original strand, 169 - 329
Target Start/End: Original strand, 5989308 - 5989468
Alignment:
Q  169 acctttctagcattaccattacaagaacaattgcctctttgttttctgtcaaaccgggtggtacatgacttgctgcccacaatgaaacaactacttctgt 268  Q
    |||||||||||| | ||||||||| ||||||||||||||||||| || ||||||  ||| ||| |  ||||||| || | |||||||    ||  | |||    
T  5989308 acctttctagcactgccattacaaaaacaattgcctctttgtttgctatcaaacaaggtagtaaacaacttgcttccaaaaatgaaatggttatgtgtgt 5989407  T
Q  269 tgtcattgtcaaactacaaaagtatcaccgaggttcgcaactctattggaaatttgttata 329  Q
    | || |||||||||||||| ||||||||  |||||| ||| ||||||||||||||| ||||    
T  5989408 tatctttgtcaaactacaagagtatcactaaggttcccaagtctattggaaatttggtata 5989468  T

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

Target: chr4; HSP #2
Raw Score: 32; E-Value: 0.000000009
Query Start/End: Original strand, 349 - 392
Target Start/End: Original strand, 48010303 - 48010346
Alignment:
Q  349 ttttccaaccattatgccttgctccccattgtcattactactaa 392  Q
    ||||||| |||| ||||||| |||||||||||||||||||||||    
T  48010303 ttttccatccatcatgccttactccccattgtcattactactaa 48010346  T

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

Target: chr5 (Bit Score: 37; Significance: 0.00000000001; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 169 - 329
Target Start/End: Original strand, 16447573 - 16447733
Alignment:
Q  169 acctttctagcattaccattacaagaacaattgcctctttgttttctgtcaaaccgggtggtacatgacttgctgcccacaatgaaacaactacttctgt 268  Q
    |||||||||||||||||||| ||||||||||  ||||||||| | || || |||  |||  ||||||   ||||||| |  |||||  |  |||   |||    
T  16447573 acctttctagcattaccatttcaagaacaatctcctctttgtctactatcgaacaaggtcatacatgcaatgctgccaaggatgaagaagttacgggtgt 16447672  T
Q  269 tgtcattgtcaaactacaaaagtatcaccgaggttcgcaactctattggaaatttgttata 329  Q
    | || ||||||||||||| ||||||||| ||||||| |||||||||||||| |||| ||||    
T  16447673 tatctttgtcaaactacagaagtatcactgaggttcccaactctattggaagtttgatata 16447733  T

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

Target: scaffold0331 (Bit Score: 29; Significance: 0.0000006; HSPs: 1)
Name: scaffold0331
Description:

Target: scaffold0331; HSP #1
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 349 - 397
Target Start/End: Original strand, 1586 - 1634
Alignment:
Q  349 ttttccaaccattatgccttgctccccattgtcattactactaactatg 397  Q
    |||||||  |||||||||||| | |||| ||||||||||||||||||||    
T  1586 ttttccatacattatgccttgattcccactgtcattactactaactatg 1634  T

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