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: NF19856_low_13 (Length: 363)

Name: NF19856_low_13
Description: NF19856
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF19856_low_13
NF19856_low_13
[»] chr4 (1 HSPs)
chr4 (1-354)||(5988587-5988940)
[»] chr3 (8 HSPs)
chr3 (140-353)||(5051962-5052175)
chr3 (181-354)||(11497480-11497653)
chr3 (1-354)||(2919589-2919942)
chr3 (152-300)||(11490984-11491132)
chr3 (147-350)||(4130014-4130217)
chr3 (190-309)||(5965931-5966050)
chr3 (225-308)||(7492228-7492311)
chr3 (226-298)||(911564-911636)
[»] scaffold0603 (1 HSPs)
scaffold0603 (191-309)||(4706-4824)
[»] chr1 (2 HSPs)
chr1 (225-350)||(17311816-17311941)
chr1 (234-284)||(14005101-14005151)
[»] chr5 (1 HSPs)
chr5 (181-306)||(16446921-16447046)
[»] chr8 (1 HSPs)
chr8 (193-309)||(18388136-18388252)


Alignment Details
Target: chr4 (Bit Score: 213; Significance: 1e-117; HSPs: 1)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 213; E-Value: 1e-117
Query Start/End: Original strand, 1 - 354
Target Start/End: Complemental strand, 5988940 - 5988587
Alignment:
Q  1 cagccttttaaaggagtcgaaagatgagagtagctcaatcgtagattagcttgcatcccatgacctatcaacccccaaatgttactttctagcatataat 100  Q
    ||||||||||||||||||||||||||||||||||||||| ||||||| || |||| ||||| ||||||||||  | ||||||||| ||||| || |||||    
T  5988940 cagccttttaaaggagtcgaaagatgagagtagctcaattgtagattggcatgcaacccataacctatcaacttcaaaatgttacattctaacacataat 5988841  T
Q  101 accagtcatttgaggacaattcggtacggagaagagccccaacttttattgcagctgatggtaatccatcacannnnnnngcaattttcctgccaatttc 200  Q
     ||||||||||| |||||| | |||||||||||||||||| ||||||||||||||||||||||||||||||||       ||||||||||||||||||||    
T  5988840 tccagtcatttggggacaaattggtacggagaagagccccgacttttattgcagctgatggtaatccatcacatttttttgcaattttcctgccaatttc 5988741  T
Q  201 ttctagtttagattgttttaggtcgttacatgctccaaatgcatgtctggcaactaaagaccaacaatcttcactttccaaaggtctcaaataatggaca 300  Q
    |||||| || |||||||||| |||| | ||||  |||||||||||||| ||||||||||||||||||||||||||||||| |||||||||||| ||||||    
T  5988740 ttctagattggattgttttatgtcgctgcatgtgccaaatgcatgtctagcaactaaagaccaacaatcttcactttccagaggtctcaaatagtggaca 5988641  T
Q  301 gaaagaaagatctgcatcgatcctgcaactctttcatcccttgttgtgatgatg 354  Q
    || |||||||| ||||| |||| |||||||||||||||||||||||||||||||    
T  5988640 gagagaaagatttgcatggatcttgcaactctttcatcccttgttgtgatgatg 5988587  T

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

Target: chr3 (Bit Score: 85; Significance: 2e-40; HSPs: 8)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 85; E-Value: 2e-40
Query Start/End: Original strand, 140 - 353
Target Start/End: Complemental strand, 5052175 - 5051962
Alignment:
Q  140 caacttttattgcagctgatggtaatccatcacannnnnnngcaattttcctgccaatttcttctagtttagattgttttaggtcgttacatgctccaaa 239  Q
    ||||| ||| ||||||| ||||||||||||||||       ||||||||||| ||||||||||| || || ||| ||||| ||| ||||| || ||||||    
T  5052175 caactgttactgcagctaatggtaatccatcacacttttctgcaattttccttccaatttcttcaagatttgatagtttttggtagttacgtggtccaaa 5052076  T
Q  240 tgcatgtctggcaactaaagaccaacaatcttcactttccaaaggtctcaaataatggacagaaagaaagatctgcatcgatcctgcaactctttcatcc 339  Q
    ||||||||||||||||| |||||| |||||||| |||||||||||||||||||| |||||| ||| |||| | | ||| |||  || ||||||||||||     
T  5052075 tgcatgtctggcaactatagaccagcaatcttcgctttccaaaggtctcaaatagtggacataaaaaaagctttccatggattttggaactctttcatct 5051976  T
Q  340 cttgttgtgatgat 353  Q
    | ||||||||||||    
T  5051975 cgtgttgtgatgat 5051962  T

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

Target: chr3; HSP #2
Raw Score: 82; E-Value: 1e-38
Query Start/End: Original strand, 181 - 354
Target Start/End: Original strand, 11497480 - 11497653
Alignment:
Q  181 gcaattttcctgccaatttcttctagtttagattgttttaggtcgttacatgctccaaatgcatgtctggcaactaaagaccaacaatcttcactttcca 280  Q
    ||||||| |||||||||||||||||| || ||| ||| |  ||| |||||||||||||||||||| |||||||||||||||||||||||||| |||||||    
T  11497480 gcaatttccctgccaatttcttctagattggatcgttgtttgtcattacatgctccaaatgcatgcctggcaactaaagaccaacaatcttcgctttcca 11497579  T
Q  281 aaggtctcaaataatggacagaaagaaagatctgcatcgatcctgcaactctttcatcccttgttgtgatgatg 354  Q
     |||| ||||||| |||||| ||| |||| | ||||| |||  || |||||||||||| | |||||||||||||    
T  11497580 gaggtttcaaatagtggacataaaaaaaggtttgcatggattttggaactctttcatctcgtgttgtgatgatg 11497653  T

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

Target: chr3; HSP #3
Raw Score: 77; E-Value: 1e-35
Query Start/End: Original strand, 1 - 354
Target Start/End: Complemental strand, 2919942 - 2919589
Alignment:
Q  1 cagccttttaaaggagtcgaaagatgagagtagctcaatcgtagattagcttgcatcccatgacctatcaacccccaaatgttactttctagcatataat 100  Q
    |||| ||||||||||||||||||||   ||||||||||| |||||   ||||| | | ||| | |||||||  ||| |||||||  | |||||| ||| |    
T  2919942 cagcgttttaaaggagtcgaaagatagaagtagctcaattgtagaccggcttggacctcataatctatcaattccccaatgttaactcctagcacatact 2919843  T
Q  101 accagtcatttgaggacaattcggtacggagaagagccccaacttttattgcagctgatggtaatccatcacannnnnnngcaattttcctgccaatttc 200  Q
     ||||| || |   |||||||| ||| | |||||||||||||||  |||||||||| |||||||||| |||||       |||||||  || ||||||||    
T  2919842 tccagttatctacagacaattcagtatgaagaagagccccaactgatattgcagctaatggtaatccgtcacatttttttgcaatttctctaccaatttc 2919743  T
Q  201 ttctagtttagattgttttaggtcgttacatgctccaaatgcatgtctggcaactaaagaccaacaatcttcactttccaaaggtctcaaataatggaca 300  Q
    |||||| | |||  ||||| ||| ||   |||||||||||||||||||||||||||||||||| ||||||||  |||||| | |||||| ||| ||||||    
T  2919742 ttctagatcagaccgtttttggttgtccaatgctccaaatgcatgtctggcaactaaagaccagcaatcttctgtttccagatgtctcatatagtggaca 2919643  T
Q  301 gaaagaaagatctgcatcgatcctgcaactctttcatcccttgttgtgatgatg 354  Q
     ||| |||| | ||||| |||  || |||||||||||| | ||| |||||||||    
T  2919642 taaaaaaaggtttgcatggatattggaactctttcatctcgtgtagtgatgatg 2919589  T

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

Target: chr3; HSP #4
Raw Score: 68; E-Value: 3e-30
Query Start/End: Original strand, 152 - 300
Target Start/End: Original strand, 11490984 - 11491132
Alignment:
Q  152 cagctgatggtaatccatcacannnnnnngcaattttcctgccaatttcttctagtttagattgttttaggtcgttacatgctccaaatgcatgtctggc 251  Q
    ||||| ||||||||||||||||       ||||||||| |||| | ||||||||| || ||| ||| | | ||||||||||| |||||||||||||||||    
T  11490984 cagctaatggtaatccatcacatttttttgcaattttcttgcctacttcttctagattggatcgttgttgctcgttacatgccccaaatgcatgtctggc 11491083  T
Q  252 aactaaagaccaacaatcttcactttccaaaggtctcaaataatggaca 300  Q
    ||||||||||||||||||||| ||||| | |||||||||||| ||||||    
T  11491084 aactaaagaccaacaatcttcgctttctagaggtctcaaatagtggaca 11491132  T

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

Target: chr3; HSP #5
Raw Score: 59; E-Value: 6e-25
Query Start/End: Original strand, 147 - 350
Target Start/End: Complemental strand, 4130217 - 4130014
Alignment:
Q  147 tattgcagctgatggtaatccatcacannnnnnngcaattttcctgccaatttcttctagtttagattgttttaggtcgttacatgctccaaatgcatgt 246  Q
    |||||||||| ||||||| ||||||||       |||||||  || ||||||| |||||| || ||| ||| | ||| ||||| || | |||||||||||    
T  4130217 tattgcagctaatggtaacccatcacattttttggcaatttctctaccaattttttctagattggatcgttgttggtagttacttgttacaaatgcatgt 4130118  T
Q  247 ctggcaactaaagaccaacaatcttcactttccaaaggtctcaaataatggacagaaagaaagatctgcatcgatcctgcaactctttcatcccttgttg 346  Q
    ||||||| ||||||||||||||||||  ||||||||| ||| |||   ||||||||||||||| | ||||| | |  ||||||||||||||| | |||||    
T  4130117 ctggcaagtaaagaccaacaatcttccttttccaaagatcttaaacggtggacagaaagaaaggtttgcattggtaatgcaactctttcatctcgtgttg 4130018  T
Q  347 tgat 350  Q
    ||||    
T  4130017 tgat 4130014  T

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

Target: chr3; HSP #6
Raw Score: 56; E-Value: 4e-23
Query Start/End: Original strand, 190 - 309
Target Start/End: Complemental strand, 5966050 - 5965931
Alignment:
Q  190 ctgccaatttcttctagtttagattgttttaggtcgttacatgctccaaatgcatgtctggcaactaaagaccaacaatcttcactttccaaaggtctca 289  Q
    ||||||||||||||||| || |||||   | ||||||||  | ||||||||||||| | ||||| ||||||||| ||||||||||||||||||||| |||    
T  5966050 ctgccaatttcttctagattggattggcgttggtcgttatgttctccaaatgcatgcccggcaagtaaagaccagcaatcttcactttccaaaggtgtca 5965951  T
Q  290 aataatggacagaaagaaag 309  Q
    | || |||||||||||||||    
T  5965950 agtagtggacagaaagaaag 5965931  T

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

Target: chr3; HSP #7
Raw Score: 52; E-Value: 9e-21
Query Start/End: Original strand, 225 - 308
Target Start/End: Original strand, 7492228 - 7492311
Alignment:
Q  225 gttacatgctccaaatgcatgtctggcaactaaagaccaacaatcttcactttccaaaggtctcaaataatggacagaaagaaa 308  Q
    |||||||||||||||||||||||| | |||||||||||| | ||||||| ||||||||||||||||| |||| ||| |||||||    
T  7492228 gttacatgctccaaatgcatgtctagaaactaaagaccatccatcttcaatttccaaaggtctcaaacaatgcacaaaaagaaa 7492311  T

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

Target: chr3; HSP #8
Raw Score: 37; E-Value: 0.000000000008
Query Start/End: Original strand, 226 - 298
Target Start/End: Original strand, 911564 - 911636
Alignment:
Q  226 ttacatgctccaaatgcatgtctggcaactaaagaccaacaatcttcactttccaaaggtctcaaataatgga 298  Q
    ||||||||||||||||||||| |||||| |||||||||||| || |||||| | | |||| ||||||| ||||    
T  911564 ttacatgctccaaatgcatgtttggcaagtaaagaccaacactcgtcacttcctataggtgtcaaatagtgga 911636  T

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

Target: scaffold0603 (Bit Score: 63; Significance: 3e-27; HSPs: 1)
Name: scaffold0603
Description:

Target: scaffold0603; HSP #1
Raw Score: 63; E-Value: 3e-27
Query Start/End: Original strand, 191 - 309
Target Start/End: Original strand, 4706 - 4824
Alignment:
Q  191 tgccaatttcttctagtttagattgttttaggtcgttacatgctccaaatgcatgtctggcaactaaagaccaacaatcttcactttccaaaggtctcaa 290  Q
    |||||||||||||||| || ||||| | | ||||||||||||||||||||||| |||  |||| ||||||||| |||||||||||||||| |||| ||||    
T  4706 tgccaatttcttctagattggattgatgttggtcgttacatgctccaaatgcaagtccagcaagtaaagaccagcaatcttcactttccagaggtgtcaa 4805  T
Q  291 ataatggacagaaagaaag 309  Q
     || |||||||||||||||    
T  4806 gtagtggacagaaagaaag 4824  T

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

Target: chr1 (Bit Score: 62; Significance: 1e-26; HSPs: 2)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 62; E-Value: 1e-26
Query Start/End: Original strand, 225 - 350
Target Start/End: Complemental strand, 17311941 - 17311816
Alignment:
Q  225 gttacatgctccaaatgcatgtctggcaactaaagaccaacaatcttcactttccaaaggtctcaaataatggacagaaagaaagatctgcatcgatcct 324  Q
    |||||||| || |||||||||||||||||||||||||||||||||||| ||||| | |||||||||||| |||||| ||| |||| | ||||| |||  |    
T  17311941 gttacatgttctaaatgcatgtctggcaactaaagaccaacaatcttcgctttctagaggtctcaaatagtggacataaaaaaaggtttgcatggatttt 17311842  T
Q  325 gcaactctttcatcccttgttgtgat 350  Q
    | |||||||||||| | |||||||||    
T  17311841 ggaactctttcatctcgtgttgtgat 17311816  T

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

Target: chr1; HSP #2
Raw Score: 31; E-Value: 0.00000003
Query Start/End: Original strand, 234 - 284
Target Start/End: Original strand, 14005101 - 14005151
Alignment:
Q  234 tccaaatgcatgtctggcaactaaagaccaacaatcttcactttccaaagg 284  Q
    ||||||||||||| |||||| ||||||||| |||||||||||  |||||||    
T  14005101 tccaaatgcatgtttggcaagtaaagaccagcaatcttcactcgccaaagg 14005151  T

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

Target: chr5 (Bit Score: 58; Significance: 2e-24; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 58; E-Value: 2e-24
Query Start/End: Original strand, 181 - 306
Target Start/End: Complemental strand, 16447046 - 16446921
Alignment:
Q  181 gcaattttcctgccaatttcttctagtttagattgttttaggtcgttacatgctccaaatgcatgtctggcaactaaagaccaacaatcttcactttcca 280  Q
    ||||||| |||||||||||||||||| || | |  || | ||| |||||||| |||||||||||||||||||| ||||||||| |||||||||||||| |    
T  16447046 gcaatttccctgccaatttcttctagattggttctttcttggtagttacatggtccaaatgcatgtctggcaattaaagaccagcaatcttcactttcga 16446947  T
Q  281 aaggtctcaaataatggacagaaaga 306  Q
     |||||||||||| || ||| |||||    
T  16446946 gaggtctcaaatagtgaacataaaga 16446921  T

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

Target: chr8 (Bit Score: 53; Significance: 2e-21; HSPs: 1)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 53; E-Value: 2e-21
Query Start/End: Original strand, 193 - 309
Target Start/End: Complemental strand, 18388252 - 18388136
Alignment:
Q  193 ccaatttcttctagtttagattgttttaggtcgttacatgctccaaatgcatgtctggcaactaaagaccaacaatcttcactttccaaaggtctcaaat 292  Q
    |||||||||||||| | ||| ||||   ||| ||| || |||| ||||||||||||||||||||||||||| ||||||||||| |||| |||||||||||    
T  18388252 ccaatttcttctagatcagactgttgctggttgttccaagctctaaatgcatgtctggcaactaaagaccagcaatcttcactctccagaggtctcaaat 18388153  T
Q  293 aatggacagaaagaaag 309  Q
    | ||||| ||| |||||    
T  18388152 agtggaccgaatgaaag 18388136  T

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



© Oklahoma State University