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: NF9696_1D_low_1 (Length: 1086)

Name: NF9696_1D_low_1
Description: NF9696_1D
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF9696_1D_low_1
NF9696_1D_low_1
[»] chr5 (4 HSPs)
chr5 (429-1086)||(6963574-6964231)
chr5 (25-428)||(6963109-6963526)
chr5 (442-528)||(38307936-38308022)
chr5 (470-556)||(24111555-24111639)
[»] chr8 (8 HSPs)
chr8 (30-312)||(33605914-33606196)
chr8 (445-571)||(15546657-15546780)
chr8 (441-555)||(12929014-12929126)
chr8 (446-571)||(16650800-16650922)
chr8 (461-525)||(45183575-45183639)
chr8 (442-571)||(15849131-15849257)
chr8 (458-494)||(44912249-44912285)
chr8 (440-524)||(3283414-3283498)
[»] chr3 (2 HSPs)
chr3 (442-571)||(9596297-9596423)
chr3 (435-481)||(39286770-39286816)
[»] chr4 (1 HSPs)
chr4 (441-527)||(35884248-35884334)
[»] chr1 (1 HSPs)
chr1 (435-527)||(41048031-41048123)
[»] chr6 (1 HSPs)
chr6 (443-571)||(24093786-24093910)
[»] chr7 (1 HSPs)
chr7 (442-524)||(28102936-28103018)
[»] chr2 (2 HSPs)
chr2 (445-527)||(3394556-3394638)
chr2 (443-496)||(4634200-4634253)


Alignment Details
Target: chr5 (Bit Score: 535; Significance: 0; HSPs: 4)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 535; E-Value: 0
Query Start/End: Original strand, 429 - 1086
Target Start/End: Original strand, 6963574 - 6964231
Alignment:
Q  429 aatgctcttaaggcactagttcagaagtaaaaaatagaaataaattataaatttgacgtagaaaaagtctatttctaacgttttaagatgttgaatacac 528  Q
    ||||||||||||||||||||| |||||||||||||||||||||||||||||||| | |||||||||||| |||| |||||||||||||||||||||||||    
T  6963574 aatgctcttaaggcactagttgagaagtaaaaaatagaaataaattataaatttaatgtagaaaaagtcgatttttaacgttttaagatgttgaatacac 6963673  T
Q  529 acaatctctaagataaactttctctttttaagtttcttaacaatttgatgttaaaaaaccagtctacaatatttaagcacaatccttacgttttatttag 628  Q
    ||||||  |||||||||||||||||||| ||||||||||||||||||| |||||||| || |||||||||||||||||||||||||||||||||||||||    
T  6963674 acaatccttaagataaactttctctttt-aagtttcttaacaatttgaagttaaaaatccggtctacaatatttaagcacaatccttacgttttatttag 6963772  T
Q  629 gccgactaatatgggctatcctgttttgacaactctacgcgtgcgtgtcgatcgatcataagttatccaagtgaaattgattgtgtaatttaaacgggtt 728  Q
     ||||||||||||||||||||||||||||||||||||   || ||||| |||||||||||| |||||||| |||||||||||||||||||||||||||||    
T  6963773 accgactaatatgggctatcctgttttgacaactctatatgtacgtgttgatcgatcataaattatccaaatgaaattgattgtgtaatttaaacgggtt 6963872  T
Q  729 gatatcaaaagaaatatcataaacgttttctctccaataatcatccttttatcgaggaaaactcgaatgaatttcaccacttttaaaagtatcaaactga 828  Q
    |||||||||||||||||||||||| |||||||| ||||| ||||||||||||||||| |||||||||||||||||||||||||| ||||||||||||| |    
T  6963873 gatatcaaaagaaatatcataaacattttctctgcaatactcatccttttatcgagggaaactcgaatgaatttcaccactttttaaagtatcaaactca 6963972  T
Q  829 gatgacttttactcggtaagtattg-aaaaaagactcatcttgatctcaaatcaacaccaatatccttctagtgcatgatatatgatgtgattggagaga 927  Q
    ||||||||| ||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  6963973 gatgactttgactcggtaagtattgaaaaaaagactcatcttgatctcaaatcaacaccaatatccttctagtgcatgatatatgatgtgattggagaga 6964072  T
Q  928 agaatgggttgaatgattaaaggcccttcaacccgaatagtgtagccatcgcaccgacggaacagattctttgcacaataacaatatctacaggatttca 1027  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||    
T  6964073 agaatgggttgaatgattaaaggcccttcaacccgaatagtgtagccatcgcaccgacggaacagattccttgcacaataacaatatctacaggatttca 6964172  T
Q  1028 tcccccacttaaagcaagaataaaattaaaacaaattcattgtcctactattttagtat 1086  Q
    || ||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  6964173 tctcccacttaaagcaagaataaaattaaaacaaattcattgtcctactattttagtat 6964231  T

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

Target: chr5; HSP #2
Raw Score: 347; E-Value: 0
Query Start/End: Original strand, 25 - 428
Target Start/End: Original strand, 6963109 - 6963526
Alignment:
Q  25 cgtcgttcttggacccaaagggaagaggtgcttcaactggttatgacaatgcagttgcattgcctgctggtggaagaggcgatgaggaagaacttggtaa 124  Q
    ||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  6963109 cgtcgttcttggacccaaagggaagaggtgcctcaactggttatgacaatgcagttgcattgcctgctggtggaagaggcgatgaggaagaacttggtaa 6963208  T
Q  125 ggaaaataacaagagtgctgcatcatctaaagggaaaattacattgagtgtaactcagagtaagcctgaaactggtgaggttattggtgtgtttgaaagt 224  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  6963209 ggaaaataacaagagtgctgcatcatctaaagggaaaattacattgagtgtaactcagagtaagcctgaaactggtgaggttattggtgtgtttgaaagt 6963308  T
Q  225 attcagccttctgatactgatttaggtgctaaagctcctaaggatgttaagattcaaggtgtttggtatgctcaacttgagtcatagaacatttctgttg 324  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||| ||    
T  6963309 attcagccttctgatactgatttaggtgctaaagctcctaaggatgttaagattcaaggtgtttggtatgctcagcttgagtcatagaacatttctgatg 6963408  T
Q  325 gtttcgattttgttagcaaaatcttttgacaccaattggttaagagca--------------catcatgtttgtatattataatgacttgatcataatgc 410  Q
    |||| |||||||||||||||||||||||||||||||||||||||||||               |||||||||||||||||||||||||||||||||||||    
T  6963409 gtttagattttgttagcaaaatcttttgacaccaattggttaagagcattgagagcaattagtatcatgtttgtatattataatgacttgatcataatgc 6963508  T
Q  411 ttaaaatgtcacgtggtc 428  Q
    |||||||||||| |||||    
T  6963509 ttaaaatgtcacatggtc 6963526  T

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

Target: chr5; HSP #3
Raw Score: 47; E-Value: 3e-17
Query Start/End: Original strand, 442 - 528
Target Start/End: Complemental strand, 38308022 - 38307936
Alignment:
Q  442 cactagttcagaagtaaaaaatagaaataaattataaatttgacgtagaaaaagtctatttctaacgttttaagatgttgaatacac 528  Q
    |||||||| |||| | ||||||||||||||||||| ||||||| |||||||||||| || | ||| |||| ||||||||||||||||    
T  38308022 cactagttaagaaatcaaaaatagaaataaattatgaatttgatgtagaaaaagtcaatgtttaaagtttcaagatgttgaatacac 38307936  T

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

Target: chr5; HSP #4
Raw Score: 32; E-Value: 0.00000003
Query Start/End: Original strand, 470 - 556
Target Start/End: Original strand, 24111555 - 24111639
Alignment:
Q  470 aaattataaatttgacgtagaaaaagtctatttctaacgttttaagatgttgaatacacacaatctctaagataaactttctctttt 556  Q
    ||||||||| ||||| |||||||||||| |||| ||| |||| ||  |||| |||  |||||||  |||||||||||||||||||||    
T  24111555 aaattataagtttgatgtagaaaaagtccatttttaaagtttcaatgtgttaaat--acacaattcctaagataaactttctctttt 24111639  T

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

Target: chr8 (Bit Score: 183; Significance: 2e-98; HSPs: 8)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 183; E-Value: 2e-98
Query Start/End: Original strand, 30 - 312
Target Start/End: Complemental strand, 33606196 - 33605914
Alignment:
Q  30 ttcttggacccaaagggaagaggtgcttcaactggttatgacaatgcagttgcattgcctgctggtggaagaggcgatgaggaagaacttggtaaggaaa 129  Q
    |||||||||||||||||||||||||| || || |||||||||||||||||||||||||| ||||| |||||||| ||||| ||||||||||| |||||||    
T  33606196 ttcttggacccaaagggaagaggtgcatctaccggttatgacaatgcagttgcattgccagctggaggaagaggagatgaagaagaacttggaaaggaaa 33606097  T
Q  130 ataacaagagtgctgcatcatctaaagggaaaattacattgagtgtaactcagagtaagcctgaaactggtgaggttattggtgtgtttgaaagtattca 229  Q
    | ||||||||||||||||||||||| |||||||| ||||||||||| ||||| | ||||||||| |||||||| ||||||||||||||||| ||||||||    
T  33606096 acaacaagagtgctgcatcatctaaggggaaaatcacattgagtgttactcaaactaagcctgagactggtgaagttattggtgtgtttgagagtattca 33605997  T
Q  230 gccttctgatactgatttaggtgctaaagctcctaaggatgttaagattcaaggtgtttggtatgctcaacttgagtcataga 312  Q
    ||| ||||| |||||||| ||||||||||| || ||||||||||| || |||||||||||||||||||| |||||||||||||    
T  33605996 gccgtctgacactgatttgggtgctaaagcaccaaaggatgttaaaatccaaggtgtttggtatgctcagcttgagtcataga 33605914  T

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

Target: chr8; HSP #2
Raw Score: 47; E-Value: 3e-17
Query Start/End: Original strand, 445 - 571
Target Start/End: Original strand, 15546657 - 15546780
Alignment:
Q  445 tagttcagaagtaaaaaatagaaataaattataaatttgacgtagaaaaagtctatttctaacgttttaagatgttgaatacacacaatctctaagataa 544  Q
    ||||| |||| ||||||||||||||||||||||||||||| | |||||||||  |||| | | |||||||||||||||||| |  |||| || |||| ||    
T  15546657 tagttaagaactaaaaaatagaaataaattataaatttgatgcagaaaaagttcattttttaagttttaagatgttgaatata-tcaat-tccaagaaaa 15546754  T
Q  545 actttctctttttaagtttcttaacaa 571  Q
    | |||||| ||||||||||||||||||    
T  15546755 aatttctc-ttttaagtttcttaacaa 15546780  T

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

Target: chr8; HSP #3
Raw Score: 40; E-Value: 0.0000000000004
Query Start/End: Original strand, 441 - 555
Target Start/End: Complemental strand, 12929126 - 12929014
Alignment:
Q  441 gcactagttcagaagtaaaaaatagaaataaattataaatttgacgtagaaaaagtctatttctaacgttttaagatgttgaatacacacaatctctaag 540  Q
    ||||||||| |||| | ||||||| ||||||||||||||||||| | |||||||||  | || ||| || | ||||||||||||  |||| || ||||||    
T  12929126 gcactagttaagaaatcaaaaataaaaataaattataaatttgatgcagaaaaagttaacttttaaagtgtcaagatgttgaat--acactatttctaag 12929029  T
Q  541 ataaactttctcttt 555  Q
    ||||||||| |||||    
T  12929028 ataaactttatcttt 12929014  T

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

Target: chr8; HSP #4
Raw Score: 38; E-Value: 0.000000000007
Query Start/End: Original strand, 446 - 571
Target Start/End: Complemental strand, 16650922 - 16650800
Alignment:
Q  446 agttcagaagtaaaaaatagaaataaattataaatttgacgtagaaaaagtctatttctaacgttttaagatgttgaatacacacaatctctaagataaa 545  Q
    |||| |||||| |||||||||||||||||||| |||||| ||| | |||||  |||| | | |||| ||||||||||||||||| | |||| || |||||    
T  16650922 agttaagaagttaaaaatagaaataaattatatatttgatgtatagaaagtacatttttcaagtttcaagatgttgaatacaca-attctc-aaaataaa 16650825  T
Q  546 ctttctctttttaagtttcttaacaa 571  Q
    |||||| |||||||| || |||||||    
T  16650824 ctttct-tttttaagctttttaacaa 16650800  T

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

Target: chr8; HSP #5
Raw Score: 37; E-Value: 0.00000000003
Query Start/End: Original strand, 461 - 525
Target Start/End: Original strand, 45183575 - 45183639
Alignment:
Q  461 aatagaaataaattataaatttgacgtagaaaaagtctatttctaacgttttaagatgttgaata 525  Q
    |||||||||||||||||||||||| |||||||||||  |||| ||| |||||||| |||| ||||    
T  45183575 aatagaaataaattataaatttgatgtagaaaaagttcatttttaaagttttaaggtgttaaata 45183639  T

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

Target: chr8; HSP #6
Raw Score: 34; E-Value: 0.000000002
Query Start/End: Original strand, 442 - 571
Target Start/End: Complemental strand, 15849257 - 15849131
Alignment:
Q  442 cactagttcagaagtaaaaaatagaaataaattataaatttgacgtagaaaaagtctatttctaacgttttaagatgttgaatacacacaatctctaaga 541  Q
    ||||| || |||||||||||||| ||||| ||||||||||||| ||| ||||| |  |||| ||| |||| ||| | || |||| | |||||| |||| |    
T  15849257 cactaattaagaagtaaaaaatataaatagattataaatttgatgtataaaaattacatttttaaagtttcaaggttttcaatata-acaatc-ctaaaa 15849160  T
Q  542 taaactttctctttttaagtttcttaacaa 571  Q
    ||||||||||| |||||||||| |||||||    
T  15849159 taaactttctc-ttttaagtttattaacaa 15849131  T

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

Target: chr8; HSP #7
Raw Score: 33; E-Value: 0.000000006
Query Start/End: Original strand, 458 - 494
Target Start/End: Complemental strand, 44912285 - 44912249
Alignment:
Q  458 aaaaatagaaataaattataaatttgacgtagaaaaa 494  Q
    ||||||||||||||||||||||||||| |||||||||    
T  44912285 aaaaatagaaataaattataaatttgatgtagaaaaa 44912249  T

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

Target: chr8; HSP #8
Raw Score: 30; E-Value: 0.0000004
Query Start/End: Original strand, 440 - 524
Target Start/End: Complemental strand, 3283498 - 3283414
Alignment:
Q  440 ggcactagttcagaagtaaaaaatagaaa-taaattataaatttgacgtagaaaaagtctatttctaacgttttaagatgttgaat 524  Q
    |||||||||| |||||| |||| |||||| ||||| |||| ||| | |||||||||||| ||||||||  ||||||| ||||||||    
T  3283498 ggcactagttaagaagtcaaaa-tagaaaataaatgataagttttatgtagaaaaagtcaatttctaaaattttaagttgttgaat 3283414  T

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

Target: chr3 (Bit Score: 51; Significance: 1e-19; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 51; E-Value: 1e-19
Query Start/End: Original strand, 442 - 571
Target Start/End: Complemental strand, 9596423 - 9596297
Alignment:
Q  442 cactagttcagaagtaaaaaatagaaataaattataaatttgacgtagaaaaagtctatttctaacgttttaagatgttgaatacacacaatctctaaga 541  Q
    |||||||| |||| | ||||||||||||||||||||||||||| || ||||||||  |||| ||| |||| | | ||||||||  |||  ||||||||||    
T  9596423 cactagttaagaactcaaaaatagaaataaattataaatttgatgtggaaaaagttcatttttaaagtttcatggtgttgaat--acatcatctctaaga 9596326  T
Q  542 taaactttctctttttaagtttcttaacaa 571  Q
    |||||||||| |||||||| ||||||||||    
T  9596325 taaactttct-tttttaagcttcttaacaa 9596297  T

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

Target: chr3; HSP #2
Raw Score: 31; E-Value: 0.0000001
Query Start/End: Original strand, 435 - 481
Target Start/End: Original strand, 39286770 - 39286816
Alignment:
Q  435 cttaaggcactagttcagaagtaaaaaatagaaataaattataaatt 481  Q
    |||| |||| ||||| |||||| ||||||||||||||||||||||||    
T  39286770 cttatggcattagttaagaagtcaaaaatagaaataaattataaatt 39286816  T

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

Target: chr4 (Bit Score: 47; Significance: 3e-17; HSPs: 1)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 47; E-Value: 3e-17
Query Start/End: Original strand, 441 - 527
Target Start/End: Original strand, 35884248 - 35884334
Alignment:
Q  441 gcactagttcagaagtaaaaaatagaaataaattataaatttgacgtagaaaaagtctatttctaacgttttaagatgttgaataca 527  Q
    ||||||||| ||| || ||||||||||||||||||||||||||| |||||||||||||||||  || |||| ||  |||||||||||    
T  35884248 gcactagttaagaggtcaaaaatagaaataaattataaatttgatgtagaaaaagtctattttaaaagtttcaaagtgttgaataca 35884334  T

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

Target: chr1 (Bit Score: 45; Significance: 4e-16; HSPs: 1)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 45; E-Value: 4e-16
Query Start/End: Original strand, 435 - 527
Target Start/End: Original strand, 41048031 - 41048123
Alignment:
Q  435 cttaaggcactagttcagaagtaaaaaatagaaataaattataaatttgacgtagaaaaagtctatttctaacgttttaagatgttgaataca 527  Q
    ||||||||||||||| |||| | ||||||| |||||||||||||||||||  |||||||||| ||||| |||  ||| ||| |||||||||||    
T  41048031 cttaaggcactagttaagaactcaaaaataaaaataaattataaatttgaaatagaaaaagtttatttttaaaatttcaaggtgttgaataca 41048123  T

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

Target: chr6 (Bit Score: 41; Significance: 0.0000000000001; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 41; E-Value: 0.0000000000001
Query Start/End: Original strand, 443 - 571
Target Start/End: Complemental strand, 24093910 - 24093786
Alignment:
Q  443 actagttcagaagtaaaaaatagaaataaattataaatttgacgtagaaaaagtctatttctaacgttttaagatgttgaatacacacaatctctaagat 542  Q
    ||||||| |||| | |||||||||||| |||||||||||||| |||||||||||  |||| ||| |||| ||| |||||||||||  || || | |||||    
T  24093910 actagttaagaactcaaaaatagaaatgaattataaatttgatgtagaaaaagttcattt-taaagtttcaaggtgttgaataca-tcattc-ccaagat 24093814  T
Q  543 aaactttctctttttaagtttcttaacaa 571  Q
    |||||||||| ||||||| ||||||||||    
T  24093813 aaactttctc-ttttaagcttcttaacaa 24093786  T

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

Target: chr7 (Bit Score: 39; Significance: 0.000000000002; HSPs: 1)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 39; E-Value: 0.000000000002
Query Start/End: Original strand, 442 - 524
Target Start/End: Complemental strand, 28103018 - 28102936
Alignment:
Q  442 cactagttcagaagtaaaaaatagaaataaattataaatttgacgtagaaaaagtctatttctaacgttttaagatgttgaat 524  Q
    |||||||| | |||| |||||||||| |||| |||||||||||||||||||||||  ||||  || |||||||| ||||||||    
T  28103018 cactagttaaaaagtcaaaaatagaattaaaatataaatttgacgtagaaaaagtacattttaaaagttttaaggtgttgaat 28102936  T

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

Target: chr2 (Bit Score: 39; Significance: 0.000000000002; HSPs: 2)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 39; E-Value: 0.000000000002
Query Start/End: Original strand, 445 - 527
Target Start/End: Complemental strand, 3394638 - 3394556
Alignment:
Q  445 tagttcagaagtaaaaaatagaaataaattataaatttgacgtagaaaaagtctatttctaacgttttaagatgttgaataca 527  Q
    ||||| |||||| |||||||||||||||||||||||| ||  || |||||||  |||||||| |||||||  |||||||||||    
T  3394638 tagttaagaagtcaaaaatagaaataaattataaattcgatataaaaaaagttaatttctaaagttttaaagtgttgaataca 3394556  T

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

Target: chr2; HSP #2
Raw Score: 38; E-Value: 0.000000000007
Query Start/End: Original strand, 443 - 496
Target Start/End: Complemental strand, 4634253 - 4634200
Alignment:
Q  443 actagttcagaagtaaaaaatagaaataaattataaatttgacgtagaaaaagt 496  Q
    ||||||| |||||||||||| ||||||||||||| ||||||| |||||||||||    
T  4634253 actagttaagaagtaaaaaagagaaataaattatgaatttgatgtagaaaaagt 4634200  T

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