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: NF18142_low_9 (Length: 251)

Name: NF18142_low_9
Description: NF18142
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF18142_low_9
NF18142_low_9
[»] chr1 (5 HSPs)
chr1 (1-243)||(29442894-29443136)
chr1 (4-243)||(29423589-29423825)
chr1 (77-240)||(29452956-29453119)
chr1 (62-240)||(29467418-29467595)
chr1 (2-55)||(29463528-29463581)
[»] chr2 (11 HSPs)
chr2 (108-217)||(12012220-12012329)
chr2 (75-243)||(9283831-9283999)
chr2 (158-207)||(9274872-9274921)
chr2 (167-244)||(10353441-10353518)
chr2 (175-235)||(8579228-8579288)
chr2 (77-207)||(9060778-9060908)
chr2 (75-217)||(11987122-11987264)
chr2 (77-134)||(9292358-9292415)
chr2 (77-134)||(9357613-9357670)
chr2 (77-207)||(10336198-10336331)
chr2 (77-134)||(8573142-8573199)
[»] scaffold0667 (1 HSPs)
scaffold0667 (77-224)||(4823-4970)
[»] chr4 (1 HSPs)
chr4 (77-240)||(26575197-26575360)
[»] chr3 (1 HSPs)
chr3 (77-207)||(37462855-37462985)
[»] chr8 (1 HSPs)
chr8 (77-207)||(41966366-41966496)


Alignment Details
Target: chr1 (Bit Score: 227; Significance: 1e-125; HSPs: 5)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 227; E-Value: 1e-125
Query Start/End: Original strand, 1 - 243
Target Start/End: Original strand, 29442894 - 29443136
Alignment:
Q  1 cggattatcccttttccccctattcctactcctcaacaccatgaatctaacaacaacatttacgtcggcttttacattcacggcttcggttttgatccat 100  Q
    ||||||||||| ||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||    
T  29442894 cggattatcccctttcctcctattcctactcctcaacaccatgaatctaacaacaacatttacgtcggcttttgcattcacggcttcggttttgatccat 29442993  T
Q  101 tgaccaacgactacaaactcatcagaatctcttgcttcgttggggtacaacactctacttttgaatcacatgttagactcttcagcttcaaaacaaactc 200  Q
    |||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  29442994 tgaccaacgattacaaactcatcagaatctcttgcttcgttggggtacaacactctacttttgaatcacatgttagactcttcagcttcaaaacaaactc 29443093  T
Q  201 gtggaaagaacttcctactatgccttacactctttcctatgct 243  Q
    |||||||||||||||||||||||||||||||||||||||||||    
T  29443094 gtggaaagaacttcctactatgccttacactctttcctatgct 29443136  T

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

Target: chr1; HSP #2
Raw Score: 86; E-Value: 3e-41
Query Start/End: Original strand, 4 - 243
Target Start/End: Complemental strand, 29423825 - 29423589
Alignment:
Q  4 attatcccttttccccctattcctactcctcaacaccatgaatctaacaacaacatttacgtcggcttttacattcacggcttcggttttgatccattga 103  Q
    ||||||||||  | |||||||||||| ||||||||   |||| ||   |||||||| |||| || ||||| | || |||||||||||||||||||||| |    
T  29423825 attatcccttccctccctattcctacccctcaacattctgaacct---aacaacatctacgccgacttttgcgtttacggcttcggttttgatccattaa 29423729  T
Q  104 ccaacgactacaaactcatcagaatctcttgcttcgttggggtacaacactctacttttgaatcacatgttagactcttcagcttcaaaacaaactcgtg 203  Q
    |  | || ||||||||| ||| |||||  || ||||| | | ||||||| ||||||| |||||||||||  |||||||||||||  ||||||||||||||    
T  29423728 ctgatgattacaaactcctcacaatcttctgtttcgtcgagatacaacaatctacttctgaatcacatgcgagactcttcagctcgaaaacaaactcgtg 29423629  T
Q  204 gaaagaacttcctactatgccttacactctttcctatgct 243  Q
    ||||||||||||||| |||||||||||||||| |||||||    
T  29423628 gaaagaacttcctaccatgccttacactctttactatgct 29423589  T

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

Target: chr1; HSP #3
Raw Score: 60; E-Value: 1e-25
Query Start/End: Original strand, 77 - 240
Target Start/End: Original strand, 29452956 - 29453119
Alignment:
Q  77 ttcacggcttcggttttgatccattgaccaacgactacaaactcatcagaatctcttgcttcgttggggtacaacactctacttttgaatcacatgttag 176  Q
    |||||||||| ||||||||||| || | |  ||| ||||||||| |||||||||||||  ||||||    |||| ||||||||| ||| |||||||| ||    
T  29452956 ttcacggctttggttttgatccgttaaacgtcgattacaaactcctcagaatctcttgtatcgttgatccacaatactctacttctgattcacatgtgag 29453055  T
Q  177 actcttcagcttcaaaacaaactcgtggaaagaacttcctactatgccttacactctttcctat 240  Q
    |||||||||||  ||||  |||||||||||||| ||||||| |||||| ||| |||||||||||    
T  29453056 actcttcagctcgaaaatgaactcgtggaaagaccttcctagtatgccgtacgctctttcctat 29453119  T

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

Target: chr1; HSP #4
Raw Score: 51; E-Value: 2e-20
Query Start/End: Original strand, 62 - 240
Target Start/End: Original strand, 29467418 - 29467595
Alignment:
Q  62 acgtcggcttttacattcacggcttcggttttgatccattgaccaacgactacaaactcatcagaatctcttgcttcgttggggtacaacactctacttt 161  Q
    |||||||||||| | ||||||||||||||||||||||||| ||| | || ||||||||| ||||||||||||| |||||     |||| |||   |||      
T  29467418 acgtcggcttttgcgttcacggcttcggttttgatccattaaccgatgattacaaactc-tcagaatctcttgtttcgtcaaactacaccaccacactca 29467516  T
Q  162 tgaatcacatgttagactcttcagcttcaaaacaaactcgtggaaagaacttcctactatgccttacactctttcctat 240  Q
    ||| |||||||||| |||||||||||  ||||| ||||| ||||||| |||| ||| |||||| ||| |||||| ||||    
T  29467517 tgattcacatgttacactcttcagctcgaaaacgaactcctggaaagtactttctagtatgccgtactctctttactat 29467595  T

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

Target: chr1; HSP #5
Raw Score: 42; E-Value: 0.000000000000006
Query Start/End: Original strand, 2 - 55
Target Start/End: Original strand, 29463528 - 29463581
Alignment:
Q  2 ggattatcccttttccccctattcctactcctcaacaccatgaatctaacaaca 55  Q
    |||||||||||| ||||||||||||||||||||||| || ||||||||||||||    
T  29463528 ggattatcccttatccccctattcctactcctcaacgccctgaatctaacaaca 29463581  T

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

Target: chr2 (Bit Score: 54; Significance: 4e-22; HSPs: 11)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 54; E-Value: 4e-22
Query Start/End: Original strand, 108 - 217
Target Start/End: Original strand, 12012220 - 12012329
Alignment:
Q  108 cgactacaaactcatcagaatctcttgcttcgttggggtacaacactctacttttgaatcacatgttagactcttcagcttcaaaacaaactcgtggaaa 207  Q
    ||||||||| || |||||||||||||| |||||||   ||||| ||||||||||||| ||| |||| |||||||||| ||  ||||||||||||||||||    
T  12012220 cgactacaagcttatcagaatctcttggttcgttgatttacaaaactctacttttgattcatatgtcagactcttcacctcgaaaacaaactcgtggaaa 12012319  T
Q  208 gaacttccta 217  Q
    | ||||||||    
T  12012320 gtacttccta 12012329  T

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

Target: chr2; HSP #2
Raw Score: 45; E-Value: 1e-16
Query Start/End: Original strand, 75 - 243
Target Start/End: Original strand, 9283831 - 9283999
Alignment:
Q  75 cattcacggcttcggttttgatccattgaccaacgactacaaactcatcagaatctcttgcttcgttggggtacaacactctacttttgaatcacatgtt 174  Q
    |||||||||||||||||||||||| || |||  ||| ||||||||| || ||||||||||  | ||     ||||| |||||  || | | |||||||      
T  9283831 cattcacggcttcggttttgatcctttaaccggcgattacaaactcctccgaatctcttggctagtatctctacaaaactctttttatcattcacatgcc 9283930  T
Q  175 agactcttcagcttcaaaacaaactcgtggaaagaacttcctactatgccttacactctttcctatgct 243  Q
    ||||||||||||| |||||||||||||||||||  | |||||| |||||| |||||| ||| |||||||    
T  9283931 agactcttcagctccaaaacaaactcgtggaaaataattcctattatgccctacactgtttactatgct 9283999  T

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

Target: chr2; HSP #3
Raw Score: 42; E-Value: 0.000000000000006
Query Start/End: Original strand, 158 - 207
Target Start/End: Complemental strand, 9274921 - 9274872
Alignment:
Q  158 cttttgaatcacatgttagactcttcagcttcaaaacaaactcgtggaaa 207  Q
    |||||||||||||||| |||||||||||||| ||||||||||||||||||    
T  9274921 cttttgaatcacatgtgagactcttcagcttgaaaacaaactcgtggaaa 9274872  T

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

Target: chr2; HSP #4
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 167 - 244
Target Start/End: Complemental strand, 10353518 - 10353441
Alignment:
Q  167 cacatgttagactcttcagcttcaaaacaaactcgtggaaagaacttcctactatgccttacactctttcctatgctt 244  Q
    ||||||| |||||||||||||| ||||||||||| ||||||| | |||||| | |||||||  |||||| ||||||||    
T  10353518 cacatgtcagactcttcagcttgaaaacaaactcatggaaagtaattcctaatttgccttattctctttactatgctt 10353441  T

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

Target: chr2; HSP #5
Raw Score: 37; E-Value: 0.000000000006
Query Start/End: Original strand, 175 - 235
Target Start/End: Original strand, 8579228 - 8579288
Alignment:
Q  175 agactcttcagcttcaaaacaaactcgtggaaagaacttcctactatgccttacactcttt 235  Q
    ||||||||||||| |||||||||||||||||||| |||||||| ||| || ||| ||||||    
T  8579228 agactcttcagctccaaaacaaactcgtggaaagcacttcctaatatcccgtacgctcttt 8579288  T

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

Target: chr2; HSP #6
Raw Score: 35; E-Value: 0.00000000009
Query Start/End: Original strand, 77 - 207
Target Start/End: Original strand, 9060778 - 9060908
Alignment:
Q  77 ttcacggcttcggttttgatccattgaccaacgactacaaactcatcagaatctcttgcttcgttggggtacaacactctacttttgaatcacatgttag 176  Q
    ||||||||||||||||||||||||| |||  ||| ||||||||| |||||||| |||| ||  |||    |||| ||  |  || ||| |||||||| ||    
T  9060778 ttcacggcttcggttttgatccattcaccgccgattacaaactcctcagaatcacttggttatttgctcgacaaaacattttttatgattcacatgtcag 9060877  T
Q  177 actcttcagcttcaaaacaaactcgtggaaa 207  Q
     ||||| ||||| ||||||||||||||||||    
T  9060878 tctctttagcttgaaaacaaactcgtggaaa 9060908  T

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

Target: chr2; HSP #7
Raw Score: 35; E-Value: 0.00000000009
Query Start/End: Original strand, 75 - 217
Target Start/End: Original strand, 11987122 - 11987264
Alignment:
Q  75 cattcacggcttcggttttgatccattgaccaacgactacaaactcatcagaatctcttgcttcgttggggtacaacactctacttttgaatcacatgtt 174  Q
    ||||||||| ||||| |||||||| ||  |   ||| ||||||||||||||||||||||| || ||||   ||||  ||  ||||||||| ||| ||||     
T  11987122 cattcacggattcggctttgatcctttttcatccgattacaaactcatcagaatctcttggtttgttgatctacacaaccgtacttttgattcatatgtc 11987221  T
Q  175 agactcttcagcttcaaaacaaactcgtggaaagaacttccta 217  Q
    |||||||||| ||  || || ||||||||||||| ||||||||    
T  11987222 agactcttcacctcgaagacgaactcgtggaaagtacttccta 11987264  T

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

Target: chr2; HSP #8
Raw Score: 34; E-Value: 0.0000000003
Query Start/End: Original strand, 77 - 134
Target Start/End: Complemental strand, 9292415 - 9292358
Alignment:
Q  77 ttcacggcttcggttttgatccattgaccaacgactacaaactcatcagaatctcttg 134  Q
    ||||||||||||||| ||||||||| |||  ||| ||||||||| |||||||||||||    
T  9292415 ttcacggcttcggttatgatccattaaccggcgattacaaactcctcagaatctcttg 9292358  T

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

Target: chr2; HSP #9
Raw Score: 34; E-Value: 0.0000000003
Query Start/End: Original strand, 77 - 134
Target Start/End: Complemental strand, 9357670 - 9357613
Alignment:
Q  77 ttcacggcttcggttttgatccattgaccaacgactacaaactcatcagaatctcttg 134  Q
    |||||||||||||||||||||| || |||  ||| ||||||||| |||||||||||||    
T  9357670 ttcacggcttcggttttgatcctttaaccggcgattacaaactcctcagaatctcttg 9357613  T

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

Target: chr2; HSP #10
Raw Score: 32; E-Value: 0.000000005
Query Start/End: Original strand, 77 - 207
Target Start/End: Complemental strand, 10336331 - 10336198
Alignment:
Q  77 ttcacggcttcggttttgatccattgaccaacgactacaaactcatcagaatctcttgcttcgttggggtacaacactctacttttg---aatcacatgt 173  Q
    ||||||| |||||||||||| ||||  ||  ||| ||||||||| ||||||||||||| ||||| |   ||||||||  ||||||||   | |||||| |    
T  10336331 ttcacggattcggttttgattcattatccgccgattacaaactcctcagaatctcttggttcgtcgatctacaacaccatacttttgataattcacattt 10336232  T
Q  174 tagactcttcagcttcaaaacaaactcgtggaaa 207  Q
     | |||||||||||  ||||||||||| ||||||    
T  10336231 gacactcttcagctcgaaaacaaactcttggaaa 10336198  T

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

Target: chr2; HSP #11
Raw Score: 30; E-Value: 0.00000008
Query Start/End: Original strand, 77 - 134
Target Start/End: Original strand, 8573142 - 8573199
Alignment:
Q  77 ttcacggcttcggttttgatccattgaccaacgactacaaactcatcagaatctcttg 134  Q
    ||||||||||||||||||||| ||| |||  ||| ||||||||| || ||||||||||    
T  8573142 ttcacggcttcggttttgatctattaaccgccgattacaaactcctccgaatctcttg 8573199  T

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

Target: scaffold0667 (Bit Score: 36; Significance: 0.00000000002; HSPs: 1)
Name: scaffold0667
Description:

Target: scaffold0667; HSP #1
Raw Score: 36; E-Value: 0.00000000002
Query Start/End: Original strand, 77 - 224
Target Start/End: Complemental strand, 4970 - 4823
Alignment:
Q  77 ttcacggcttcggttttgatccattgaccaacgactacaaactcatcagaatctcttgcttcgttggggtacaacactctacttttgaatcacatgttag 176  Q
    |||||||||||||||||||||| || |||  ||| |||||| || ||||| ||||||| || ||     ||||| || ||  || |||  ||||||||||    
T  4970 ttcacggcttcggttttgatcctttaaccggcgattacaaaatcctcagactctcttggttagtctctctacaaaaccctttttatgatccacatgttag 4871  T
Q  177 actcttcagcttcaaaacaaactcgtggaaagaacttcctactatgcc 224  Q
    |||||| ||||| ||||| ||||||||||||  | |||||||||||||    
T  4870 actctttagcttgaaaaccaactcgtggaaaataattcctactatgcc 4823  T

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

Target: chr4 (Bit Score: 36; Significance: 0.00000000002; HSPs: 1)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 36; E-Value: 0.00000000002
Query Start/End: Original strand, 77 - 240
Target Start/End: Complemental strand, 26575360 - 26575197
Alignment:
Q  77 ttcacggcttcggttttgatccattgaccaacgactacaaactcatcagaatctcttgcttcgttggggtacaacactctacttttgaatcacatgttag 176  Q
    |||||||||||||||||||| | ||  ||  ||| ||||||||| |||||||||||| |||  | |   ||||| || ||  || |||  ||||||||||    
T  26575360 ttcacggcttcggttttgattctttatccggcgattacaaactcctcagaatctcttacttgctcgatctacaaaaccctttttatgatccacatgttag 26575261  T
Q  177 actcttcagcttcaaaacaaactcgtggaaagaacttcctactatgccttacactctttcctat 240  Q
    |||||||||||| ||||||||||| ||||||  | |||||| | | |||||| |||||| ||||    
T  26575260 actcttcagcttgaaaacaaactcatggaaaataattcctaattttccttacgctctttactat 26575197  T

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

Target: chr3 (Bit Score: 36; Significance: 0.00000000002; HSPs: 1)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 36; E-Value: 0.00000000002
Query Start/End: Original strand, 77 - 207
Target Start/End: Complemental strand, 37462985 - 37462855
Alignment:
Q  77 ttcacggcttcggttttgatccattgaccaacgactacaaactcatcagaatctcttg-cttcgttggggtacaacactctacttttgaatcacatgtta 175  Q
    |||||||||||||||||||| | || |||  ||| ||||||||| ||||||||||||| |||| | |   ||||| || ||  || |||  ||||||| |    
T  37462985 ttcacggcttcggttttgattctttaaccggcgattacaaactcctcagaatctcttggcttc-tcgatctacaaaaccctttttatgatccacatgtga 37462887  T
Q  176 gactcttcagcttcaaaacaaactcgtggaaa 207  Q
    |||||||||||| |||||||||||||||||||    
T  37462886 gactcttcagctccaaaacaaactcgtggaaa 37462855  T

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

Target: chr8 (Bit Score: 35; Significance: 0.00000000009; HSPs: 1)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 35; E-Value: 0.00000000009
Query Start/End: Original strand, 77 - 207
Target Start/End: Original strand, 41966366 - 41966496
Alignment:
Q  77 ttcacggcttcggttttgatccattgaccaacgactacaaactcatcagaatctcttgcttcgttggggtacaacactctacttttgaatcacatgttag 176  Q
    ||||||| ||||||||||||||||| |||| |||  |||||||| ||||||||||||| |   |||    ||||| |||||||||||| |||||||| ||    
T  41966366 ttcacggattcggttttgatccattaaccagcgatcacaaactcctcagaatctcttggtcttttgatcaacaactctctacttttgattcacatgtcag 41966465  T
Q  177 actcttcagcttcaaaacaaactcgtggaaa 207  Q
     || || ||||  ||||  ||||||||||||    
T  41966466 gctatttagctctaaaaacaactcgtggaaa 41966496  T

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



© Oklahoma State University