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: NF9542_low_3 (Length: 219)

Name: NF9542_low_3
Description: NF9542
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF9542_low_3
NF9542_low_3
[»] chr2 (3 HSPs)
chr2 (2-206)||(13448055-13448259)
chr2 (28-206)||(13454552-13454730)
chr2 (29-206)||(13439919-13440096)
[»] chr5 (2 HSPs)
chr5 (30-206)||(28385054-28385230)
chr5 (38-205)||(12540413-12540580)
[»] chr4 (5 HSPs)
chr4 (31-200)||(48965050-48965219)
chr4 (30-204)||(48967178-48967352)
chr4 (30-194)||(48961011-48961175)
chr4 (42-201)||(48957876-48958035)
chr4 (88-175)||(48912659-48912746)
[»] chr8 (1 HSPs)
chr8 (29-199)||(12641771-12641941)
[»] chr7 (1 HSPs)
chr7 (41-206)||(3417810-3417975)
[»] chr6 (1 HSPs)
chr6 (64-203)||(12590455-12590594)
[»] scaffold0536 (2 HSPs)
scaffold0536 (148-200)||(6800-6852)
scaffold0536 (151-203)||(1739-1791)


Alignment Details
Target: chr2 (Bit Score: 197; Significance: 1e-107; HSPs: 3)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 197; E-Value: 1e-107
Query Start/End: Original strand, 2 - 206
Target Start/End: Original strand, 13448055 - 13448259
Alignment:
Q  2 ccagcttgaggtctctcaatcttttaaggtctctcgatcttttaagttcgtcaatcaaagccaacaaattattataagacgagcccccttcttgaatagc 101  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||    
T  13448055 ccagcttgaggtctctcaatcttttaaggtctctcgatcttttaagttcgtcaatcaaagccaacaaattattataagacgagccaccttcttgaatagc 13448154  T
Q  102 ttgtatagctttttctccaaactctcgagcatgtagcctgatattttcagcttcatcaccaccgtccatcaatctccttacagccttctctatgctatct 201  Q
    ||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  13448155 ttgtatagctttttctccaaactctcgagcacgtagcctgatattttcagcttcatcaccaccgtccatcaatctccttacagccttctctatgctatct 13448254  T
Q  202 ctgct 206  Q
    |||||    
T  13448255 ctgct 13448259  T

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Target: chr2; HSP #2
Raw Score: 123; E-Value: 2e-63
Query Start/End: Original strand, 28 - 206
Target Start/End: Original strand, 13454552 - 13454730
Alignment:
Q  28 aggtctctcgatcttttaagttcgtcaatcaaagccaacaaattattataagacgagcccccttcttgaatagcttgtatagctttttctccaaactctc 127  Q
    |||| |||| ||||||||||||| ||||||||||||||||||||||||||||| ||||| |||| ||||||||||||| |||| ||||||||||||||||    
T  13454552 aggtttctcaatcttttaagttcatcaatcaaagccaacaaattattataagatgagccacctttttgaatagcttgtgtagccttttctccaaactctc 13454651  T
Q  128 gagcatgtagcctgatattttcagcttcatcaccaccgtccatcaatctccttacagccttctctatgctatctctgct 206  Q
    ||||| ||| ||||||||||| |||||||||||||||| ||||||||||||| ||||||||||||||||||||| ||||    
T  13454652 gagcacgtaccctgatatttttagcttcatcaccaccgcccatcaatctcctcacagccttctctatgctatctttgct 13454730  T

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Target: chr2; HSP #3
Raw Score: 114; E-Value: 5e-58
Query Start/End: Original strand, 29 - 206
Target Start/End: Original strand, 13439919 - 13440096
Alignment:
Q  29 ggtctctcgatcttttaagttcgtcaatcaaagccaacaaattattataagacgagcccccttcttgaatagcttgtatagctttttctccaaactctcg 128  Q
    |||||||| ||||||||||||| ||||| ||||||||||||||||||||||||||||| |||||||||||||||||| |||| ||||||||||||||| |    
T  13439919 ggtctctcaatcttttaagttcttcaattaaagccaacaaattattataagacgagccaccttcttgaatagcttgtgtagccttttctccaaactcttg 13440018  T
Q  129 agcatgtagcctgatattttcagcttcatcaccaccgtccatcaatctccttacagccttctctatgctatctctgct 206  Q
    |||| ||||||| ||||||| |||||||||||||   |||||||||||||| ||||||||||||||| |||| |||||    
T  13440019 agcaagtagcctcatatttttagcttcatcaccattctccatcaatctcctcacagccttctctatgttatccctgct 13440096  T

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Target: chr5 (Bit Score: 85; Significance: 1e-40; HSPs: 2)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 85; E-Value: 1e-40
Query Start/End: Original strand, 30 - 206
Target Start/End: Original strand, 28385054 - 28385230
Alignment:
Q  30 gtctctcgatcttttaagttcgtcaatcaaagccaacaaattattataagacgagcccccttcttgaatagcttgtatagctttttctccaaactctcga 129  Q
    ||||||| |||||||||||||||| || ||||| ||||||||||||||||| || || ||||||| || |||| || |||| || ||||| |||||||||    
T  28385054 gtctctcaatcttttaagttcgtcgattaaagctaacaaattattataagaggaaccaccttctttaacagctcgtgtagccttctctcctaactctcga 28385153  T
Q  130 gcatgtagcctgatattttcagcttcatcaccaccgtccatcaatctccttacagccttctctatgctatctctgct 206  Q
    ||| || | || ||||||||||||||||| ||||||||||||||| |||| | ||||||||||||| ||||||||||    
T  28385154 gcacgttgtctcatattttcagcttcatcgccaccgtccatcaatttcctcatagccttctctatgttatctctgct 28385230  T

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Target: chr5; HSP #2
Raw Score: 76; E-Value: 3e-35
Query Start/End: Original strand, 38 - 205
Target Start/End: Original strand, 12540413 - 12540580
Alignment:
Q  38 atcttttaagttcgtcaatcaaagccaacaaattattataagacgagcccccttcttgaatagcttgtatagctttttctccaaactctcgagcatgtag 137  Q
    ||||||||| |||||| |||||||  ||||||||||||| ||| || || |||||||||| |||| || |||| || ||||||| |||||| ||| ||||    
T  12540413 atcttttaatttcgtcgatcaaagataacaaattattatgagaggaaccaccttcttgaacagctcgtctagccttctctccaatctctcgtgcacgtag 12540512  T
Q  138 cctgatattttcagcttcatcaccaccgtccatcaatctccttacagccttctctatgctatctctgc 205  Q
     || |||||||||||||||| |||||| |||||||||||||| | |||||||||||||| ||||||||    
T  12540513 tctcatattttcagcttcataaccaccatccatcaatctcctcatagccttctctatgccatctctgc 12540580  T

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Target: chr4 (Bit Score: 74; Significance: 4e-34; HSPs: 5)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 74; E-Value: 4e-34
Query Start/End: Original strand, 31 - 200
Target Start/End: Original strand, 48965050 - 48965219
Alignment:
Q  31 tctctcgatcttttaagttcgtcaatcaaagccaacaaattattataagacgagcccccttcttgaatagcttgtatagctttttctccaaactctcgag 130  Q
    |||||| ||||||| || || |||||||| || |||||||| |||| ||||||||| ||||||||||| ||| || |||| ||||||||||||||| |||    
T  48965050 tctctcaatcttttgagatcatcaatcaaggctaacaaattcttatgagacgagccaccttcttgaatggctcgtctagccttttctccaaactcttgag 48965149  T
Q  131 catgtagcctgatattttcagcttcatcaccaccgtccatcaatctccttacagccttctctatgctatc 200  Q
    || |    || || || |||||||||||||||| ||||||||||||||| ||||||||||||||||||||    
T  48965150 cacgacttctaattttctcagcttcatcaccactgtccatcaatctcctcacagccttctctatgctatc 48965219  T

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Target: chr4; HSP #2
Raw Score: 63; E-Value: 1e-27
Query Start/End: Original strand, 30 - 204
Target Start/End: Original strand, 48967178 - 48967352
Alignment:
Q  30 gtctctcgatcttttaagttcgtcaatcaaagccaacaaattattataagacgagcccccttcttgaatagcttgtatagctttttctccaaactctcga 129  Q
    |||||||  ||||||||| || ||||||||||| |  ||||||||||||||| |||| ||||||||||  ||| || |||| ||||||||||| ||||||    
T  48967178 gtctctcattcttttaagatcatcaatcaaagcaagtaaattattataagacaagccaccttcttgaagtgctcgtgtagccttttctccaaagtctcga 48967277  T
Q  130 gcatgtagcctgatattttcagcttcatcaccaccgtccatcaatctccttacagccttctctatgctatctctg 204  Q
    ||| || | ||||| || |||||||||||  ||  |||||||||||| |||| ||| ||||||||| ||||||||    
T  48967278 gcacgttgtctgatcttctcagcttcatcgtcattgtccatcaatcttcttatagctttctctatgttatctctg 48967352  T

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Target: chr4; HSP #3
Raw Score: 61; E-Value: 2e-26
Query Start/End: Original strand, 30 - 194
Target Start/End: Original strand, 48961011 - 48961175
Alignment:
Q  30 gtctctcgatcttttaagttcgtcaatcaaagccaacaaattattataagacgagcccccttcttgaatagcttgtatagctttttctccaaactctcga 129  Q
    ||||||| |||||||||| || ||||| ||||||||||||||||||| ||| ||||| ||| |||||| ||||  |||||| || || ||||||||||||    
T  48961011 gtctctcaatcttttaagatcatcaattaaagccaacaaattattatgagatgagccgcctacttgaacagctcatatagccttatccccaaactctcga 48961110  T
Q  130 gcatgtagcctgatattttcagcttcatcaccaccgtccatcaatctccttacagccttctctat 194  Q
    ||| |  | || |||| ||| |||||||||||||||||||| ||| | || || |||||||||||    
T  48961111 gcacgccgtcttatatcttcggcttcatcaccaccgtccattaattttctcactgccttctctat 48961175  T

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Target: chr4; HSP #4
Raw Score: 56; E-Value: 2e-23
Query Start/End: Original strand, 42 - 201
Target Start/End: Original strand, 48957876 - 48958035
Alignment:
Q  42 tttaagttcgtcaatcaaagccaacaaattattataagacgagcccccttcttgaatagcttgtatagctttttctccaaactctcgagcatgtagcctg 141  Q
    |||||| || |||||||||| ||||||||| |||| ||| || || |||||||||| |||| || |||| |||||||| |||||| ||||| |  |  ||    
T  48957876 tttaagatcatcaatcaaagacaacaaattgttatgagatgatccaccttcttgaacagctcgtgtagccttttctccgaactcttgagcacgctgtttg 48957975  T
Q  142 atattttcagcttcatcaccaccgtccatcaatctccttacagccttctctatgctatct 201  Q
    || |  |||||||||||||||||||||||||||||| | |||||||| ||||| ||||||    
T  48957976 atttcctcagcttcatcaccaccgtccatcaatctcttcacagccttttctatactatct 48958035  T

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Target: chr4; HSP #5
Raw Score: 44; E-Value: 3e-16
Query Start/End: Original strand, 88 - 175
Target Start/End: Complemental strand, 48912746 - 48912659
Alignment:
Q  88 ccttcttgaatagcttgtatagctttttctccaaactctcgagcatgtagcctgatattttcagcttcatcaccaccgtccatcaatc 175  Q
    ||||||| ||| || ||| ||||||| || |||||||||||||||||| | ||||| || |||||||||||||||| |||||||||||    
T  48912746 ccttctttaattgcatgtttagctttctccccaaactctcgagcatgttgtctgattttctcagcttcatcaccactgtccatcaatc 48912659  T

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Target: chr8 (Bit Score: 71; Significance: 3e-32; HSPs: 1)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 71; E-Value: 3e-32
Query Start/End: Original strand, 29 - 199
Target Start/End: Complemental strand, 12641941 - 12641771
Alignment:
Q  29 ggtctctcgatcttttaagttcgtcaatcaaagccaacaaattattataagacgagcccccttcttgaatagcttgtatagctttttctccaaactctcg 128  Q
    ||||||||||||||||||| |||| |||||||||||||||||| |||| |||||| || ||||||| || ||| ||| |||| ||||  ||||||||| |    
T  12641941 ggtctctcgatcttttaagatcgttaatcaaagccaacaaattgttatgagacgacccgccttcttcaacagcatgtgtagcctttttcccaaactcttg 12641842  T
Q  129 agcatgtagcctgatattttcagcttcatcaccaccgtccatcaatctccttacagccttctctatgctat 199  Q
    |||| || | ||||| |  | ||||||||||||| |||||||||||||||| ||||| |||||||| ||||    
T  12641841 agcacgttgtctgatttccttagcttcatcaccatcgtccatcaatctcctcacagctttctctatactat 12641771  T

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Target: chr7 (Bit Score: 58; Significance: 1e-24; HSPs: 1)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 58; E-Value: 1e-24
Query Start/End: Original strand, 41 - 206
Target Start/End: Complemental strand, 3417975 - 3417810
Alignment:
Q  41 ttttaagttcgtcaatcaaagccaacaaattattataagacgagcccccttcttgaatagcttgtatagctttttctccaaactctcgagcatgtagcct 140  Q
    ||||||||||||| |||||||  |||||||||| ||  || || || ||||||||||||||| || |||| || ||||||| |||||||||| |||| ||    
T  3417975 ttttaagttcgtcgatcaaagttaacaaattatgatgtgaggaaccaccttcttgaatagctcgtttagccttctctccaagctctcgagcacgtagtct 3417876  T
Q  141 gatattttcagcttcatcaccaccgtccatcaatctccttacagccttctctatgctatctctgct 206  Q
     |||  |||||| ||||||| || ||||||||||||||| |  ||||||||||||  |||||||||    
T  3417875 cataccttcagcctcatcactactgtccatcaatctcctcattgccttctctatgtcatctctgct 3417810  T

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Target: chr6 (Bit Score: 36; Significance: 0.00000000002; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 36; E-Value: 0.00000000002
Query Start/End: Original strand, 64 - 203
Target Start/End: Complemental strand, 12590594 - 12590455
Alignment:
Q  64 aacaaattattataagacgagcccccttcttgaatagcttgtatagctttttctccaaactctcgagcatgtagcctgatattttcagcttcatcaccac 163  Q
    ||||||||||||| ||| ||||| |||| ||||| |||| || |||||||||| || |||||| ||  | || | ||||| |  |||||||||   ||||    
T  12590594 aacaaattattattagaggagccaccttgttgaacagctagtctagctttttcccctaactcttgactacgtcgtctgatttcctcagcttcaatgccac 12590495  T
Q  164 cgtccatcaatctccttacagccttctctatgctatctct 203  Q
    | ||||||||||| || ||||| |||| ||||||||||||    
T  12590494 catccatcaatcttctcacagcattctttatgctatctct 12590455  T

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Target: scaffold0536 (Bit Score: 33; Significance: 0.000000001; HSPs: 2)
Name: scaffold0536
Description:

Target: scaffold0536; HSP #1
Raw Score: 33; E-Value: 0.000000001
Query Start/End: Original strand, 148 - 200
Target Start/End: Complemental strand, 6852 - 6800
Alignment:
Q  148 tcagcttcatcaccaccgtccatcaatctccttacagccttctctatgctatc 200  Q
    |||||||| |||||||| |||||||||||||| ||||||||||| || |||||    
T  6852 tcagcttcgtcaccaccatccatcaatctcctcacagccttctcaatactatc 6800  T

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Target: scaffold0536; HSP #2
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 151 - 203
Target Start/End: Complemental strand, 1791 - 1739
Alignment:
Q  151 gcttcatcaccaccgtccatcaatctccttacagccttctctatgctatctct 203  Q
    ||||||||||||| ||||||||| ||||||| |||||||| ||| | ||||||    
T  1791 gcttcatcaccactgtccatcaacctccttaaagccttctttatacgatctct 1739  T

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