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: NF11324A_low_261 (Length: 250)

Name: NF11324A_low_261
Description: NF11324A
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF11324A_low_261
NF11324A_low_261
[»] chr4 (12 HSPs)
chr4 (20-243)||(4025194-4025417)
chr4 (22-240)||(4009966-4010184)
chr4 (20-241)||(4002267-4002488)
chr4 (28-241)||(3801562-3801775)
chr4 (28-240)||(3954360-3954555)
chr4 (20-239)||(3809984-3810203)
chr4 (20-241)||(3986963-3987184)
chr4 (28-241)||(4218619-4218832)
chr4 (125-241)||(3817657-3817773)
chr4 (125-241)||(3919691-3919807)
chr4 (125-241)||(3932915-3933031)
chr4 (185-243)||(3963209-3963267)
[»] chr5 (1 HSPs)
chr5 (20-235)||(13397918-13398133)
[»] scaffold1360 (1 HSPs)
scaffold1360 (184-241)||(1910-1967)
[»] chr8 (4 HSPs)
chr8 (185-243)||(7069135-7069193)
chr8 (185-241)||(7075641-7075697)
chr8 (185-243)||(7036263-7036321)
chr8 (187-243)||(7081692-7081748)


Alignment Details
Target: chr4 (Bit Score: 224; Significance: 1e-123; HSPs: 12)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 224; E-Value: 1e-123
Query Start/End: Original strand, 20 - 243
Target Start/End: Original strand, 4025194 - 4025417
Alignment:
Q  20 aatataactagacaacccatttggtgaatcgattttcacatcttctgctaatagtctagaaaaaagtttttctttcaaaaatgttattccatgtcttcct 119  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  4025194 aatataactagacaacccatttggtgaatcgattttcacatcttctgctaatagtctagaaaaaagtttttctttcaaaaatgttattccatgtcttcct 4025293  T
Q  120 aattcttcacttacctttgccaaaaaacaacaaccttcatattcagagcaattttgtttaaaaatttcttcggcaatagttgtcttgccaatacctccca 219  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  4025294 aattcttcacttacctttgccaaaaaacaacaaccttcatattcagagcaattttgtttaaaaatttcttcggcaatagttgtcttgccaatacctccca 4025393  T
Q  220 taccccaaattccaataacacgaa 243  Q
    ||||||||||||||||||||||||    
T  4025394 taccccaaattccaataacacgaa 4025417  T

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

Target: chr4; HSP #2
Raw Score: 155; E-Value: 2e-82
Query Start/End: Original strand, 22 - 240
Target Start/End: Original strand, 4009966 - 4010184
Alignment:
Q  22 tataactagacaacccatttggtgaatcgattttcacatcttctgctaatagtctagaaaaaagtttttctttcaaaaatgttattccatgtcttcctaa 121  Q
    ||||| |||||||||||||||| |||  ||||||||||||||||||||||||| ||||||||||||||||||||||||||||| ||||||||||||||||    
T  4009966 tataattagacaacccatttggcgaacggattttcacatcttctgctaatagtgtagaaaaaagtttttctttcaaaaatgttcttccatgtcttcctaa 4010065  T
Q  122 ttcttcacttacctttgccaaaaaacaacaaccttcatattcagagcaattttgtttaaaaatttcttcggcaatagttgtcttgccaatacctcccata 221  Q
    ||  || ||||||||| ||||||||||||||||||||||||||||||||||||| |||||||||||| | |||||||||||||||||||||| ||||||     
T  4010066 ttgctcgcttaccttttccaaaaaacaacaaccttcatattcagagcaattttggttaaaaatttctcctgcaatagttgtcttgccaatacttcccatg 4010165  T
Q  222 ccccaaattccaataacac 240  Q
    |||||||||||||| ||||    
T  4010166 ccccaaattccaatgacac 4010184  T

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

Target: chr4; HSP #3
Raw Score: 154; E-Value: 9e-82
Query Start/End: Original strand, 20 - 241
Target Start/End: Original strand, 4002267 - 4002488
Alignment:
Q  20 aatataactagacaacccatttggtgaatcgattttcacatcttctgctaatagtctagaaaaaagtttttctttcaaaaatgttattccatgtcttcct 119  Q
    ||||||| |||||| ||||||||||||||  |||||||||||||||||||||||| |||||||||| |||||||| ||||||||||||||||| ||||||    
T  4002267 aatataattagacagcccatttggtgaattaattttcacatcttctgctaatagtgtagaaaaaagcttttcttttaaaaatgttattccatgccttcct 4002366  T
Q  120 aattcttcacttacctttgccaaaaaacaacaaccttcatattcagagcaattttgtttaaaaatttcttcggcaatagttgtcttgccaatacctccca 219  Q
     ||||||||||||||||| ||||||||||| |||||||||||||||||||| || | ||||||| |||||| ||||||||||||||||||||||||||||    
T  4002367 gattcttcacttaccttttccaaaaaacaaaaaccttcatattcagagcaacttcggttaaaaacttcttcagcaatagttgtcttgccaatacctccca 4002466  T
Q  220 taccccaaattccaataacacg 241  Q
    |||||||||||||||| |||||    
T  4002467 taccccaaattccaatgacacg 4002488  T

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

Target: chr4; HSP #4
Raw Score: 114; E-Value: 6e-58
Query Start/End: Original strand, 28 - 241
Target Start/End: Original strand, 3801562 - 3801775
Alignment:
Q  28 tagacaacccatttggtgaatcgattttcacatcttctgctaatagtctagaaaaaagtttttctttcaaaaatgttattccatgtcttcctaattcttc 127  Q
    |||||||||||||||||||||||||||||||||||||   ||||||  |||||||||| ||||||||  ||| |||||||||| | |||||||||||       
T  3801562 tagacaacccatttggtgaatcgattttcacatcttcatttaataggttagaaaaaagcttttctttttaaattgttattccacgccttcctaattccaa 3801661  T
Q  128 acttacctttgccaaaaaacaacaaccttcatattcagagcaattttgtttaaaaatttcttcggcaatagttgtcttgccaatacctcccataccccaa 227  Q
    ||| || |||| || |||||||||||| ||||||||| ||| |||||| ||||| |||||||| ||||||||||||||||||||||| ||||||||||||    
T  3801662 actcacatttgacataaaacaacaaccatcatattcaaagcgattttggttaaatatttcttctgcaatagttgtcttgccaataccgcccataccccaa 3801761  T
Q  228 attccaataacacg 241  Q
    ||||||||||||||    
T  3801762 attccaataacacg 3801775  T

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

Target: chr4; HSP #5
Raw Score: 97; E-Value: 9e-48
Query Start/End: Original strand, 28 - 240
Target Start/End: Complemental strand, 3954555 - 3954360
Alignment:
Q  28 tagacaacccatttggtgaatcgattttcacatcttctgctaatagtctagaaaaaagtttttctttcaaaaatgttattccatgtcttcctaattcttc 127  Q
    ||||||||||||||||||||||||||||||||||||||||||||||| | |||||||| | |||                 | || ||||||||||| ||    
T  3954555 tagacaacccatttggtgaatcgattttcacatcttctgctaatagtgttgaaaaaagctgttc-----------------cgtgccttcctaattcgtc 3954473  T
Q  128 acttacctttgccaaaaaacaacaaccttcatattcagagcaattttgtttaaaaatttcttcggcaatagttgtcttgccaatacctcccataccccaa 227  Q
    ||| ||||||||||||||||||||||||||||||||||||||| || | ||| ||| |||||| ||||||||||||||||||||||||||||||||||||    
T  3954472 actcacctttgccaaaaaacaacaaccttcatattcagagcaacttcggttataaacttcttcagcaatagttgtcttgccaatacctcccataccccaa 3954373  T

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

Target: chr4; HSP #6
Raw Score: 96; E-Value: 3e-47
Query Start/End: Original strand, 20 - 239
Target Start/End: Original strand, 3809984 - 3810203
Alignment:
Q  20 aatataactagacaacccatttggtgaatcgattttcacatcttctgctaatagtctagaaaaaagtttttctttcaaaaatgttattccatgtcttcct 119  Q
    ||||| ||||| ||||| |||||||| ||| ||||||||||||||||| |||||| ||||||||||||| | ||| ||| |    ||||||||||||  |    
T  3809984 aatatcactaggcaaccaatttggtgtatcaattttcacatcttctgccaatagtttagaaaaaagtttattttttaaagaatccattccatgtcttgtt 3810083  T
Q  120 aattcttcacttacctttgccaaaaaacaacaaccttcatattcagagcaattttgtttaaaaatttcttcggcaatagttgtcttgccaatacctccca 219  Q
    || ||||||||||||||| |||| ||||||||||| ||||||||||| ||| |||| | ||| | |||||  ||||||||||||||||||||||| ||||    
T  3810084 aactcttcacttaccttttccaagaaacaacaaccatcatattcagaacaaatttggtcaaataattcttttgcaatagttgtcttgccaataccaccca 3810183  T
Q  220 taccccaaattccaataaca 239  Q
    ||||||||||||| ||||||    
T  3810184 taccccaaattccgataaca 3810203  T

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

Target: chr4; HSP #7
Raw Score: 94; E-Value: 5e-46
Query Start/End: Original strand, 20 - 241
Target Start/End: Original strand, 3986963 - 3987184
Alignment:
Q  20 aatataactagacaacccatttggtgaatcgattttcacatcttctgctaatagtctagaaaaaagtttttctttcaaaaatgttattccatgtcttcct 119  Q
    ||||| ||| ||||||| |||||||| ||| |||||||||||||| || |||| | ||| ||||||  ||||||| ||| ||  ||||||||||  |  |    
T  3986963 aatatcactggacaacctatttggtgtatcaattttcacatcttcggccaatattttagtaaaaagggtttcttttaaagattctattccatgtaatttt 3987062  T
Q  120 aattcttcacttacctttgccaaaaaacaacaaccttcatattcagagcaattttgtttaaaaatttcttcggcaatagttgtcttgccaatacctccca 219  Q
    || | |||||| ||||||||||||||||||||||| ||||||||||||| |||||| |||||||||||||| |||||||||||||||||||| ||   ||    
T  3987063 aacttttcactcacctttgccaaaaaacaacaaccatcatattcagagcgattttggttaaaaatttcttctgcaatagttgtcttgccaatgccaggca 3987162  T
Q  220 taccccaaattccaataacacg 241  Q
    |||||||||||||||| |||||    
T  3987163 taccccaaattccaatcacacg 3987184  T

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

Target: chr4; HSP #8
Raw Score: 90; E-Value: 1e-43
Query Start/End: Original strand, 28 - 241
Target Start/End: Original strand, 4218619 - 4218832
Alignment:
Q  28 tagacaacccatttggtgaatcgattttcacatcttctgctaatagtctagaaaaaagtttttctttcaaaaatgttattccatgtcttcctaattcttc 127  Q
    ||||||||||||||| |||||||||||||||||||||   ||||||  ||||||||||  ||||||| ||||||||||||||| | |||  |||| |       
T  4218619 tagacaacccatttgatgaatcgattttcacatcttcatttaataggttagaaaaaagcatttcttttaaaaatgttattccacgactttgtaatcccaa 4218718  T
Q  128 acttacctttgccaaaaaacaacaaccttcatattcagagcaattttgtttaaaaatttcttcggcaatagttgtcttgccaatacctcccataccccaa 227  Q
    ||| || |||| || |||||||||||| ||||||||||| ||| |||| | ||| | |||||  ||||||||||||||||||||||| ||||||||||||    
T  4218719 actcacatttgacataaaacaacaaccatcatattcagaacaaatttggtcaaataattcttttgcaatagttgtcttgccaataccgcccataccccaa 4218818  T
Q  228 attccaataacacg 241  Q
    ||||||||||||||    
T  4218819 attccaataacacg 4218832  T

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

Target: chr4; HSP #9
Raw Score: 61; E-Value: 3e-26
Query Start/End: Original strand, 125 - 241
Target Start/End: Original strand, 3817657 - 3817773
Alignment:
Q  125 ttcacttacctttgccaaaaaacaacaaccttcatattcagagcaattttgtttaaaaatttcttcggcaatagttgtcttgccaatacctcccataccc 224  Q
    |||||| |||||| |||| ||||||||||| ||||| || || | ||||||  |||| |||||||| ||||||||||||||||||||||| ||||| |||    
T  3817657 ttcactgaccttttccaagaaacaacaaccatcataatcggaacgattttggctaaatatttcttctgcaatagttgtcttgccaataccgcccatgccc 3817756  T
Q  225 caaattccaataacacg 241  Q
    |||||||||||||||||    
T  3817757 caaattccaataacacg 3817773  T

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

Target: chr4; HSP #10
Raw Score: 61; E-Value: 3e-26
Query Start/End: Original strand, 125 - 241
Target Start/End: Complemental strand, 3919807 - 3919691
Alignment:
Q  125 ttcacttacctttgccaaaaaacaacaaccttcatattcagagcaattttgtttaaaaatttcttcggcaatagttgtcttgccaatacctcccataccc 224  Q
    |||||| |||||| |||| ||||||||||| ||||| || || | ||||||  |||| |||||||| ||||||||||||||||||||||| ||||| |||    
T  3919807 ttcactgaccttttccaagaaacaacaaccatcataatcggaacgattttggctaaatatttcttctgcaatagttgtcttgccaataccgcccatgccc 3919708  T
Q  225 caaattccaataacacg 241  Q
    |||||||||||||||||    
T  3919707 caaattccaataacacg 3919691  T

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

Target: chr4; HSP #11
Raw Score: 61; E-Value: 3e-26
Query Start/End: Original strand, 125 - 241
Target Start/End: Complemental strand, 3933031 - 3932915
Alignment:
Q  125 ttcacttacctttgccaaaaaacaacaaccttcatattcagagcaattttgtttaaaaatttcttcggcaatagttgtcttgccaatacctcccataccc 224  Q
    |||||| |||||| |||| ||||||||||| ||||| || || | ||||||  |||| |||||||| ||||||||||||||||||||||| ||||| |||    
T  3933031 ttcactgaccttttccaagaaacaacaaccatcataatcggaacgattttggctaaatatttcttctgcaatagttgtcttgccaataccgcccatgccc 3932932  T
Q  225 caaattccaataacacg 241  Q
    |||||||||||||||||    
T  3932931 caaattccaataacacg 3932915  T

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

Target: chr4; HSP #12
Raw Score: 35; E-Value: 0.00000000009
Query Start/End: Original strand, 185 - 243
Target Start/End: Complemental strand, 3963267 - 3963209
Alignment:
Q  185 ttcttcggcaatagttgtcttgccaatacctcccataccccaaattccaataacacgaa 243  Q
    |||||| ||||  ||||||||||||||||| |||||||||||||| |||| ||||||||    
T  3963267 ttcttctgcaagggttgtcttgccaataccacccataccccaaatcccaacaacacgaa 3963209  T

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

Target: chr5 (Bit Score: 148; Significance: 3e-78; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 148; E-Value: 3e-78
Query Start/End: Original strand, 20 - 235
Target Start/End: Original strand, 13397918 - 13398133
Alignment:
Q  20 aatataactagacaacccatttggtgaatcgattttcacatcttctgctaatagtctagaaaaaagtttttctttcaaaaatgttattccatgtcttcct 119  Q
    ||||||||||| ||||||||||| |||||||||||| |||||||||||||||||| |||||| ||| |||||||| ||||| | ||||||||| ||||||    
T  13397918 aatataactaggcaacccatttgatgaatcgatttttacatcttctgctaatagtgtagaaacaagcttttcttttaaaaacgctattccatgccttcct 13398017  T
Q  120 aattcttcacttacctttgccaaaaaacaacaaccttcatattcagagcaattttgtttaaaaatttcttcggcaatagttgtcttgccaatacctccca 219  Q
    ||||||||||| |||||||||||||||||||| |||||||||||||| ||| |||| ||||||||||||||||||||||||||||| |||||||||||||    
T  13398018 aattcttcactcacctttgccaaaaaacaacatccttcatattcagaacaaatttgattaaaaatttcttcggcaatagttgtctttccaatacctccca 13398117  T
Q  220 taccccaaattccaat 235  Q
    |||||||||| |||||    
T  13398118 taccccaaataccaat 13398133  T

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

Target: scaffold1360 (Bit Score: 46; Significance: 2e-17; HSPs: 1)
Name: scaffold1360
Description:

Target: scaffold1360; HSP #1
Raw Score: 46; E-Value: 2e-17
Query Start/End: Original strand, 184 - 241
Target Start/End: Complemental strand, 1967 - 1910
Alignment:
Q  184 tttcttcggcaatagttgtcttgccaatacctcccataccccaaattccaataacacg 241  Q
    ||||||| ||||||||||||||||||||||| ||||| ||||||||||||||||||||    
T  1967 tttcttctgcaatagttgtcttgccaataccgcccatgccccaaattccaataacacg 1910  T

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

Target: chr8 (Bit Score: 39; Significance: 0.0000000000004; HSPs: 4)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 39; E-Value: 0.0000000000004
Query Start/End: Original strand, 185 - 243
Target Start/End: Original strand, 7069135 - 7069193
Alignment:
Q  185 ttcttcggcaatagttgtcttgccaatacctcccataccccaaattccaataacacgaa 243  Q
    |||||| |||||||||||||| |||||||| | ||||||||||||||||||| ||||||    
T  7069135 ttcttctgcaatagttgtctttccaataccactcataccccaaattccaatagcacgaa 7069193  T

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

Target: chr8; HSP #2
Raw Score: 33; E-Value: 0.000000001
Query Start/End: Original strand, 185 - 241
Target Start/End: Original strand, 7075641 - 7075697
Alignment:
Q  185 ttcttcggcaatagttgtcttgccaatacctcccataccccaaattccaataacacg 241  Q
    |||||| ||||||||||| || |||||||||  ||||||||||||||||| ||||||    
T  7075641 ttcttcagcaatagttgttttaccaatacctggcataccccaaattccaagaacacg 7075697  T

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

Target: chr8; HSP #3
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 185 - 243
Target Start/End: Complemental strand, 7036321 - 7036263
Alignment:
Q  185 ttcttcggcaatagttgtcttgccaatacctcccataccccaaattccaataacacgaa 243  Q
    |||||| ||||||||||| || ||||||||   ||||||||||||||||| ||||||||    
T  7036321 ttcttcagcaatagttgttttaccaataccaggcataccccaaattccaagaacacgaa 7036263  T

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

Target: chr8; HSP #4
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 187 - 243
Target Start/End: Original strand, 7081692 - 7081748
Alignment:
Q  187 cttcggcaatagttgtcttgccaatacctcccataccccaaattccaataacacgaa 243  Q
    ||||| ||||| ||||||| |||||||| | ||| ||||||||||||||| ||||||    
T  7081692 cttcgacaataattgtctttccaataccactcatcccccaaattccaatagcacgaa 7081748  T

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



© Oklahoma State University