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: NF9249_low_6 (Length: 837)

Name: NF9249_low_6
Description: NF9249
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF9249_low_6
NF9249_low_6
[»] chr4 (7 HSPs)
chr4 (11-397)||(29339922-29340308)
chr4 (460-819)||(29339503-29339862)
chr4 (11-324)||(29352945-29353258)
chr4 (585-819)||(29352665-29352899)
chr4 (395-450)||(26413981-26414036)
chr4 (410-450)||(20959998-20960038)
chr4 (395-430)||(29339864-29339899)
[»] chr1 (9 HSPs)
chr1 (57-329)||(44661415-44661687)
chr1 (57-297)||(44684518-44684758)
chr1 (574-817)||(44662555-44662791)
chr1 (76-186)||(44642884-44642994)
chr1 (76-175)||(44669999-44670098)
chr1 (572-695)||(44684969-44685092)
chr1 (409-450)||(52909502-52909543)
chr1 (407-450)||(40608988-40609031)
chr1 (408-449)||(2537552-2537593)
[»] scaffold0024 (1 HSPs)
scaffold0024 (395-450)||(121086-121141)
[»] chr8 (2 HSPs)
chr8 (395-441)||(43933683-43933729)
chr8 (397-439)||(15699339-15699381)
[»] chr6 (1 HSPs)
chr6 (395-450)||(9871651-9871707)
[»] chr3 (2 HSPs)
chr3 (395-450)||(14753812-14753867)
chr3 (395-441)||(52011992-52012038)


Alignment Details
Target: chr4 (Bit Score: 375; Significance: 0; HSPs: 7)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 375; E-Value: 0
Query Start/End: Original strand, 11 - 397
Target Start/End: Complemental strand, 29340308 - 29339922
Alignment:
Q  11 agcagagacataatcaaatttcatttatagagaaaaagaggtgcatgtagaaaaactaacgctactaaaatcccatgaagattcccttccgttccaccag 110  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  29340308 agcagagacataatcaaatttcatttatagagaaaaagaggtgcatgtagaaaaactaacgctactaaaatcccatgaagattcccttccgttccaccag 29340209  T
Q  111 ttgtgatgtatccccagtattgatccttctctatctcccatagtttagcaaaccaatcaagcacactaacttcaaatgtcattgaattgagagagaagct 210  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  29340208 ttgtgatgtatccccagtattgatccttctctatctcccatagtttagcaaaccaatcaagcacactaacttcaaatgtcattgaattgagagagaagct 29340109  T
Q  211 gcttccaagaaatggatctccagcattgttcaagtgaaattgaagcaacggtgctaatgcttcatagttgaagtcttgatttgtgggataacctttggta 310  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||    
T  29340108 gcttccaagaaatggatctccagcattgttcaagtgaaattgaagcaacggtgctaatgcttcatagttgaaatcttgatttgtgggataacctttggta 29340009  T
Q  311 taattacgtcaaagttagtattgatttagttatagagatagatagatatgtgagcaacagtgtcaacaacaaattctttaatatact 397  Q
    |||||||||||||||||||||||||||||||||||||||| ||||||||| ||||||||||||||||||||||||||||||||||||    
T  29340008 taattacgtcaaagttagtattgatttagttatagagataaatagatatgggagcaacagtgtcaacaacaaattctttaatatact 29339922  T

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

Target: chr4; HSP #2
Raw Score: 320; E-Value: 1e-180
Query Start/End: Original strand, 460 - 819
Target Start/End: Complemental strand, 29339862 - 29339503
Alignment:
Q  460 atttaagtaaggttcgcataagttaatttagtcgatctatataataaatatcaatcaacaattgagtgaatcgaaaagtttgtactttctagtacaatat 559  Q
    |||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||  |||    
T  29339862 atttaagtgaggttcgcataagttaatttagtcgatctatataataaatatcaatcaacaattgagtgaatcgaaaagtttgtactttctagtactgtat 29339763  T
Q  560 tttgttatattaaatatctaaagatagaaaaataaagcatctaaaacccacctaagttgcgcaagttgtacttgtttatagtctccacatagtgagtaat 659  Q
    ||||| ||||||||||||||||||||||||||| ||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  29339762 tttgtcatattaaatatctaaagatagaaaaatcaagcatcaaaaacccacctaagttgcgcaagttgtacttgtttatagtctccacatagtgagtaat 29339663  T
Q  660 tactgcatctaaattggcatctgtttcaccaatgcattgtgtgatagcaaggttggtaagtctattaatgtcctcttcatgaatatttgcatgtctctct 759  Q
    ||||||||||||||||||||| |||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||    
T  29339662 tactgcatctaaattggcatcagtttcaccaatgcattgtgtgatagcaatgttggtaagtctattaatgtcctcttcatgaatatttgcatgtctctct 29339563  T
Q  760 tcttctgagagtttggcattgccaacaactgttggcaacatctctgtatcaggaatgata 819  Q
    ||| |||||||||||||||||||||||||||||||||||||||||| |||||||||||||    
T  29339562 tctcctgagagtttggcattgccaacaactgttggcaacatctctgcatcaggaatgata 29339503  T

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

Target: chr4; HSP #3
Raw Score: 258; E-Value: 1e-143
Query Start/End: Original strand, 11 - 324
Target Start/End: Complemental strand, 29353258 - 29352945
Alignment:
Q  11 agcagagacataatcaaatttcatttatagagaaaaagaggtgcatgtagaaaaactaacgctactaaaatcccatgaagattcccttccgttccaccag 110  Q
    |||||||| ||||| |||||| |||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||    
T  29353258 agcagagatataattaaattttatttatagagaaaaagaggtgcatgtagaaaaactaacgctactaaaatcgcatgaagattcccttccgttccaccag 29353159  T
Q  111 ttgtgatgtatccccagtattgatccttctctatctcccatagtttagcaaaccaatcaagcacactaacttcaaatgtcattgaattgagagagaagct 210  Q
    |||||| |||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||     
T  29353158 ttgtgacgtatccccagtactgatccttctctatctcccatagtttagcaaaccaatcaagcacactaacttcaaatgtcattgaattgagagaaaagcc 29353059  T
Q  211 gcttccaagaaatggatctccagcattgttcaagtgaaattgaagcaacggtgctaatgcttcatagttgaagtcttgatttgtgggataacctttggta 310  Q
    |||||||||||||||||||||||||||||||||| |||||||||| ||||||||||||||||||||||||||||||||||||  ||||||||||| | ||    
T  29353058 gcttccaagaaatggatctccagcattgttcaagagaaattgaagtaacggtgctaatgcttcatagttgaagtcttgatttccgggataaccttcgata 29352959  T
Q  311 taattacgtcaaag 324  Q
    ||||||||||||||    
T  29352958 taattacgtcaaag 29352945  T

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

Target: chr4; HSP #4
Raw Score: 191; E-Value: 1e-103
Query Start/End: Original strand, 585 - 819
Target Start/End: Complemental strand, 29352899 - 29352665
Alignment:
Q  585 agaaaaataaagcatctaaaacccacctaagttgcgcaagttgtacttgtttatagtctccacatagtgagtaattactgcatctaaattggcatctgtt 684  Q
    |||||||| ||||||| |||||| ||||||||| | ||||||||| ||||||||||||||||||||||||| |||||||||||||||||||||||| |||    
T  29352899 agaaaaatcaagcatcaaaaacctacctaagttacacaagttgtatttgtttatagtctccacatagtgagcaattactgcatctaaattggcatcagtt 29352800  T
Q  685 tcaccaatgcattgtgtgatagcaaggttggtaagtctattaatgtcctcttcatgaatatttgcatgtctctcttcttctgagagtttggcattgccaa 784  Q
    ||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||    
T  29352799 tcaccaatgcattgtgtgatagcaatgttggtaagtctattaatgtcctcttcatgaatatttgcatgtctctcttcttctgagagtttggcaatgccaa 29352700  T
Q  785 caactgttggcaacatctctgtatcaggaatgata 819  Q
    ||||||||||||||||||||| |||||||||||||    
T  29352699 caactgttggcaacatctctgcatcaggaatgata 29352665  T

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

Target: chr4; HSP #5
Raw Score: 40; E-Value: 0.0000000000003
Query Start/End: Original strand, 395 - 450
Target Start/End: Original strand, 26413981 - 26414036
Alignment:
Q  395 actagggtttataactgtttaggtcatgccttgagaatgttctcaagagaggtatt 450  Q
    ||||| |||||||| |||||||||||||||||||||||| ||||||||| ||||||    
T  26413981 actagagtttataattgtttaggtcatgccttgagaatgctctcaagaggggtatt 26414036  T

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

Target: chr4; HSP #6
Raw Score: 33; E-Value: 0.000000005
Query Start/End: Original strand, 410 - 450
Target Start/End: Original strand, 20959998 - 20960038
Alignment:
Q  410 tgtttaggtcatgccttgagaatgttctcaagagaggtatt 450  Q
    |||||||||||||||||||||||| ||||||||| ||||||    
T  20959998 tgtttaggtcatgccttgagaatgctctcaagaggggtatt 20960038  T

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

Target: chr4; HSP #7
Raw Score: 32; E-Value: 0.00000002
Query Start/End: Original strand, 395 - 430
Target Start/End: Complemental strand, 29339899 - 29339864
Alignment:
Q  395 actagggtttataactgtttaggtcatgccttgaga 430  Q
    |||||||||||||||||||||||||||||| |||||    
T  29339899 actagggtttataactgtttaggtcatgccatgaga 29339864  T

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

Target: chr1 (Bit Score: 185; Significance: 1e-99; HSPs: 9)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 185; E-Value: 1e-99
Query Start/End: Original strand, 57 - 329
Target Start/End: Original strand, 44661415 - 44661687
Alignment:
Q  57 gtagaaaaactaacgctactaaaatcccatgaagattcccttccgttccaccagttgtgatgtatccccagtattgatccttctctatctcccatagttt 156  Q
    |||||||||||||| || ||||||| |||||||||||||||||||||||||||||||||| |||||||||||| | || ||||||||| |||||||  ||    
T  44661415 gtagaaaaactaaccctgctaaaattccatgaagattcccttccgttccaccagttgtgacgtatccccagtactcattcttctctatttcccataactt 44661514  T
Q  157 agcaaaccaatcaagcacactaacttcaaatgtcattgaattgagagagaagctgcttccaagaaatggatctccagcattgttcaagtgaaattgaagc 256  Q
    |||||||||||||||||| ||||||||||||| ||||||||| |||||||||||||||||||||||||||||||||||||| ||||||||||||||||||    
T  44661515 agcaaaccaatcaagcacgctaacttcaaatgccattgaattaagagagaagctgcttccaagaaatggatctccagcattattcaagtgaaattgaagc 44661614  T
Q  257 aacggtgctaatgcttcatagttgaagtcttgatttgtgggataacctttggtataattacgtcaaagttagt 329  Q
    || ||||||||||||||||||||||||||||||||||||||||| ||||   ||| ||||  |||||||||||    
T  44661615 aatggtgctaatgcttcatagttgaagtcttgatttgtgggatagccttcaatatcattagatcaaagttagt 44661687  T

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

Target: chr1; HSP #2
Raw Score: 85; E-Value: 5e-40
Query Start/End: Original strand, 57 - 297
Target Start/End: Original strand, 44684518 - 44684758
Alignment:
Q  57 gtagaaaaactaacgctactaaaatcccatgaagattcccttccgttccaccagttgtgatgtatccccagtattgatccttctctatctcccatagttt 156  Q
    ||||||||||| || |||||||||| ||||||||||| |||||  |||||||||||||||  |||||||| || | |   || ||||| | ||| || ||    
T  44684518 gtagaaaaactgaccctactaaaattccatgaagattgccttcacttccaccagttgtgacatatccccaatactcactattgtctatgttccaaagatt 44684617  T
Q  157 agcaaaccaatcaagcacactaacttcaaatgtcattgaattgagagagaagctgcttccaagaaatggatctccagcattgttcaagtgaaattgaagc 256  Q
     |||||||||||||||||||||||||||||||    |||||| |||||||| || ||||||| ||||||||| || ||||||||||||||||| ||||      
T  44684618 tgcaaaccaatcaagcacactaacttcaaatggagatgaattcagagagaaactacttccaacaaatggatcacccgcattgttcaagtgaaaatgaaat 44684717  T
Q  257 aacggtgctaatgcttcatagttgaagtcttgatttgtggg 297  Q
    || |||||||||   || ||||||||||||||||| |||||    
T  44684718 aatggtgctaatttgtcgtagttgaagtcttgattagtggg 44684758  T

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

Target: chr1; HSP #3
Raw Score: 71; E-Value: 1e-31
Query Start/End: Original strand, 574 - 817
Target Start/End: Original strand, 44662555 - 44662791
Alignment:
Q  574 tatctaaagatagaaaaata--aagcatctaaaacccacctaagttgcgcaagttgtacttgtttatagtctccacatagtgagtaattactgcatctaa 671  Q
    ||||||||||||||||||||  ||||| | ||| || ||||||||| |||| |||||||||| |||||||||   ||||||||| ||||| |||||| ||    
T  44662555 tatctaaagatagaaaaatatgaagcaccaaaagcctacctaagttacgcatgttgtacttggttatagtctgagcatagtgagcaattattgcatccaa 44662654  T
Q  672 attggcatctgtttcaccaatgcattgtgtgatagcaaggttggtaagtctattaatgtcctcttcatgaatatttgcatgtctctcttcttctgagagt 771  Q
    |||||||||||||||||| ||| | |  |||| | ||||||| ||||||| | |||||| ||||||||         ||||| ||||||||  |||||||    
T  44662655 attggcatctgtttcacctatggacttcgtgacatcaaggtttgtaagtccaataatgttctcttcat---------catgtttctcttctcttgagagt 44662745  T
Q  772 ttggcattgccaacaactgttggcaacatctctgtatcaggaatga 817  Q
    ||||||||| | ||||| ||||||||||  |||| |||||||||||    
T  44662746 ttggcattgactacaaccgttggcaacaattctgcatcaggaatga 44662791  T

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

Target: chr1; HSP #4
Raw Score: 63; E-Value: 6e-27
Query Start/End: Original strand, 76 - 186
Target Start/End: Original strand, 44642884 - 44642994
Alignment:
Q  76 taaaatcccatgaagattcccttccgttccaccagttgtgatgtatccccagtattgatccttctctatctcccatagtttagcaaaccaatcaagcaca 175  Q
    |||||| ||||||| ||| ||||| ||||||||| ||||||||||||||||||| |  ||||||| ||| ||||| ||||||||||||||||||||||||    
T  44642884 taaaattccatgaaaattgccttcagttccaccacttgtgatgtatccccagtactcttccttctttatttcccaaagtttagcaaaccaatcaagcaca 44642983  T
Q  176 ctaacttcaaa 186  Q
    || ||||||||    
T  44642984 cttacttcaaa 44642994  T

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

Target: chr1; HSP #5
Raw Score: 56; E-Value: 9e-23
Query Start/End: Original strand, 76 - 175
Target Start/End: Original strand, 44669999 - 44670098
Alignment:
Q  76 taaaatcccatgaagattcccttccgttccaccagttgtgatgtatccccagtattgatccttctctatctcccatagtttagcaaaccaatcaagcaca 175  Q
    |||||||||||||||||| ||||| || ||||||||||||| ||||||||| || | | | |||| ||||||||||| ||||||||||||||||||||||    
T  44669999 taaaatcccatgaagatttccttcagtcccaccagttgtgacgtatccccaatactcacctttctttatctcccataatttagcaaaccaatcaagcaca 44670098  T

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

Target: chr1; HSP #6
Raw Score: 56; E-Value: 9e-23
Query Start/End: Original strand, 572 - 695
Target Start/End: Original strand, 44684969 - 44685092
Alignment:
Q  572 aatatctaaagatagaaaaataaagcatctaaaacccacctaagttgcgcaagttgtacttgtttatagtctccacatagtgagtaattactgcatctaa 671  Q
    |||| ||||| |||||||||| ||||| | ||| || ||||||||| || |||||||||||||||||||||||| ||||| ||| ||||| |||||| ||    
T  44684969 aataactaaatatagaaaaatgaagcaccaaaaccctacctaagttacgtaagttgtacttgtttatagtctccgcatagcgagcaattattgcatccaa 44685068  T
Q  672 attggcatctgtttcaccaatgca 695  Q
    |||||||||| |||| || |||||    
T  44685069 attggcatctttttcgcccatgca 44685092  T

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

Target: chr1; HSP #7
Raw Score: 34; E-Value: 0.000000001
Query Start/End: Original strand, 409 - 450
Target Start/End: Original strand, 52909502 - 52909543
Alignment:
Q  409 ctgtttaggtcatgccttgagaatgttctcaagagaggtatt 450  Q
    ||||||||||||||||||||||||| ||||||||| ||||||    
T  52909502 ctgtttaggtcatgccttgagaatgctctcaagaggggtatt 52909543  T

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

Target: chr1; HSP #8
Raw Score: 32; E-Value: 0.00000002
Query Start/End: Original strand, 407 - 450
Target Start/End: Complemental strand, 40609031 - 40608988
Alignment:
Q  407 aactgtttaggtcatgccttgagaatgttctcaagagaggtatt 450  Q
    ||||||||||||||||  ||||||||||||||||||| ||||||    
T  40609031 aactgtttaggtcatggtttgagaatgttctcaagaggggtatt 40608988  T

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

Target: chr1; HSP #9
Raw Score: 30; E-Value: 0.0000003
Query Start/End: Original strand, 408 - 449
Target Start/End: Original strand, 2537552 - 2537593
Alignment:
Q  408 actgtttaggtcatgccttgagaatgttctcaagagaggtat 449  Q
    ||||||||| |||||||||||||||| ||||||||| |||||    
T  2537552 actgtttagatcatgccttgagaatgctctcaagaggggtat 2537593  T

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

Target: scaffold0024 (Bit Score: 36; Significance: 0.00000000008; HSPs: 1)
Name: scaffold0024
Description:

Target: scaffold0024; HSP #1
Raw Score: 36; E-Value: 0.00000000008
Query Start/End: Original strand, 395 - 450
Target Start/End: Complemental strand, 121141 - 121086
Alignment:
Q  395 actagggtttataactgtttaggtcatgccttgagaatgttctcaagagaggtatt 450  Q
    ||||||||||| |||||| |||||||||||||||||||| ||||| ||| ||||||    
T  121141 actagggtttagaactgtgtaggtcatgccttgagaatgatctcatgaggggtatt 121086  T

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

Target: chr8 (Bit Score: 35; Significance: 0.0000000003; HSPs: 2)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 35; E-Value: 0.0000000003
Query Start/End: Original strand, 395 - 441
Target Start/End: Complemental strand, 43933729 - 43933683
Alignment:
Q  395 actagggtttataactgtttaggtcatgccttgagaatgttctcaag 441  Q
    |||||||||| || ||||||||||||||||||||||||| |||||||    
T  43933729 actagggtttgtatctgtttaggtcatgccttgagaatgctctcaag 43933683  T

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

Target: chr8; HSP #2
Raw Score: 31; E-Value: 0.00000008
Query Start/End: Original strand, 397 - 439
Target Start/End: Original strand, 15699339 - 15699381
Alignment:
Q  397 tagggtttataactgtttaggtcatgccttgagaatgttctca 439  Q
    ||||||||| |||| |||||||||||||||||||||| |||||    
T  15699339 tagggtttagaactatttaggtcatgccttgagaatgctctca 15699381  T

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

Target: chr6 (Bit Score: 33; Significance: 0.000000005; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 33; E-Value: 0.000000005
Query Start/End: Original strand, 395 - 450
Target Start/End: Original strand, 9871651 - 9871707
Alignment:
Q  395 actagggtttataa-ctgtttaggtcatgccttgagaatgttctcaagagaggtatt 450  Q
    |||||||||| ||| ||||||||||||||||||||||||  ||||||||| ||||||    
T  9871651 actagggtttttaatctgtttaggtcatgccttgagaatactctcaagaggggtatt 9871707  T

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

Target: chr3 (Bit Score: 32; Significance: 0.00000002; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 32; E-Value: 0.00000002
Query Start/End: Original strand, 395 - 450
Target Start/End: Complemental strand, 14753867 - 14753812
Alignment:
Q  395 actagggtttataactgtttaggtcatgccttgagaatgttctcaagagaggtatt 450  Q
    ||||||||||| ||||| |||||| || ||||||||||| ||||||||| ||||||    
T  14753867 actagggtttagaactgcttaggtgataccttgagaatgctctcaagaggggtatt 14753812  T

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

Target: chr3; HSP #2
Raw Score: 31; E-Value: 0.00000008
Query Start/End: Original strand, 395 - 441
Target Start/End: Original strand, 52011992 - 52012038
Alignment:
Q  395 actagggtttataactgtttaggtcatgccttgagaatgttctcaag 441  Q
    ||||||||| |||  |||||||||||||||||||||||| |||||||    
T  52011992 actagggttaatatttgtttaggtcatgccttgagaatgatctcaag 52012038  T

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



© Oklahoma State University