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: NF11854_low_90 (Length: 250)

Name: NF11854_low_90
Description: NF11854
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF11854_low_90
NF11854_low_90
[»] chr3 (6 HSPs)
chr3 (1-172)||(3211401-3211572)
chr3 (48-172)||(3207954-3208076)
chr3 (170-244)||(3212029-3212103)
chr3 (43-172)||(3191037-3191164)
chr3 (170-244)||(14071927-14072005)
chr3 (170-244)||(17388276-17388354)
[»] chr1 (4 HSPs)
chr1 (170-244)||(17986380-17986458)
chr1 (170-244)||(52755556-52755629)
chr1 (170-244)||(19364474-19364552)
chr1 (199-244)||(28207735-28207780)
[»] scaffold0031 (1 HSPs)
scaffold0031 (170-244)||(77649-77727)
[»] chr7 (5 HSPs)
chr7 (170-244)||(17946535-17946613)
chr7 (170-244)||(9311331-9311409)
chr7 (170-243)||(9258845-9258922)
chr7 (170-244)||(3210941-3211019)
chr7 (199-244)||(8787482-8787527)
[»] chr5 (2 HSPs)
chr5 (170-244)||(17408925-17409003)
chr5 (170-244)||(21382084-21382162)
[»] chr4 (2 HSPs)
chr4 (170-244)||(7197020-7197098)
chr4 (200-244)||(16954112-16954156)
[»] chr6 (1 HSPs)
chr6 (170-231)||(20105861-20105926)
[»] chr2 (1 HSPs)
chr2 (170-244)||(23704072-23704150)
[»] scaffold0072 (1 HSPs)
scaffold0072 (170-243)||(60515-60591)
[»] scaffold0011 (1 HSPs)
scaffold0011 (172-243)||(162290-162364)
[»] chr8 (2 HSPs)
chr8 (199-244)||(1990695-1990740)
chr8 (170-244)||(22818036-22818114)


Alignment Details
Target: chr3 (Bit Score: 147; Significance: 1e-77; HSPs: 6)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 147; E-Value: 1e-77
Query Start/End: Original strand, 1 - 172
Target Start/End: Original strand, 3211401 - 3211572
Alignment:
Q  1 cacaaatgacaaaaacagaaaaagaaaggctctccatcaaccaaaaatggcacgtccagtgggaaaatacaacctttaccactgnnnnnnnttcattttt 100  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||       |||||||||    
T  3211401 cacaaatgacaaaaacagaaaaagaaaggctctccatcaaccaaaaatggcacgtccagtgggaaaatacaacctttaccactgaaaaaaattcattttt 3211500  T
Q  101 ctacgtcatgattaggtttgatgtatgcacatgagctttggaaagactctcaacaatataaaccaactatca 172  Q
    |||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  3211501 ctacgttatgattaggtttgatgtatgcacatgagctttggaaagactctcaacaatataaaccaactatca 3211572  T

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Target: chr3; HSP #2
Raw Score: 59; E-Value: 4e-25
Query Start/End: Original strand, 48 - 172
Target Start/End: Original strand, 3207954 - 3208076
Alignment:
Q  48 tggcacgtccagtgggaaaatacaacctttaccactgnnnnnnnttcatttttctacgtcatgattaggtttgatgtatgcacatgagctttggaaagac 147  Q
    |||||||  |||||||| |||||||||||||||| ||       |||||||| ||| ||||||||||||||||||||||||||||||||| ||||| ||     
T  3207954 tggcacgctcagtgggacaatacaacctttaccattgaaaag--ttcattttcctaggtcatgattaggtttgatgtatgcacatgagctatggaatgag 3208051  T
Q  148 tctcaacaatataaaccaactatca 172  Q
    ||||||||||||||| |||||||||    
T  3208052 tctcaacaatataaagcaactatca 3208076  T

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Target: chr3; HSP #3
Raw Score: 59; E-Value: 4e-25
Query Start/End: Original strand, 170 - 244
Target Start/End: Original strand, 3212029 - 3212103
Alignment:
Q  170 tcagagaggtagcacggcccgtgctcccacacggccgtgccaagtttcagggttctcttttgttgcctttgcttc 244  Q
    |||||||||||||||||||||||||||||||||||||||||||  ||||||||||||||||||||  ||||||||    
T  3212029 tcagagaggtagcacggcccgtgctcccacacggccgtgccaaacttcagggttctcttttgttgtttttgcttc 3212103  T

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Target: chr3; HSP #4
Raw Score: 56; E-Value: 3e-23
Query Start/End: Original strand, 43 - 172
Target Start/End: Original strand, 3191037 - 3191164
Alignment:
Q  43 aaaaatggcacgtccagtgggaaaatacaacctttaccactgnnnnnnnttcatttttctacgtcatgattaggtttgatgtatgcacatgagctttgga 142  Q
    |||| |||||||| |||||||| |||||||||||||||| ||       || ||||| |||  |||||||||||||||||||||||||||||||| ||||    
T  3191037 aaaattggcacgttcagtgggacaatacaacctttaccattgaaaaa--tttattttcctagatcatgattaggtttgatgtatgcacatgagctatgga 3191134  T
Q  143 aagactctcaacaatataaaccaactatca 172  Q
    | || ||||||||||||||| |||||||||    
T  3191135 atgagtctcaacaatataaagcaactatca 3191164  T

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Target: chr3; HSP #5
Raw Score: 42; E-Value: 0.000000000000006
Query Start/End: Original strand, 170 - 244
Target Start/End: Complemental strand, 14072005 - 14071927
Alignment:
Q  170 tcagagaggtagcacggcccgtgctcccac----acggccgtgccaagtttcagggttctcttttgttgcctttgcttc 244  Q
    |||||||||| |||||||| ||||||||||    |||||||||||||| ||||||||||||||||| ||| ||||||||    
T  14072005 tcagagaggtggcacggcctgtgctcccactagcacggccgtgccaagcttcagggttctcttttgctgcttttgcttc 14071927  T

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Target: chr3; HSP #6
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 170 - 244
Target Start/End: Original strand, 17388276 - 17388354
Alignment:
Q  170 tcagagaggtagcacggcccgtgctcccac----acggccgtgccaagtttcagggttctcttttgttgcctttgcttc 244  Q
    |||||||||| |||||||||| ||||||||    |||||||||||||| ||||| |||||||||| |||| ||||||||    
T  17388276 tcagagaggtggcacggcccgcgctcccactggcacggccgtgccaagcttcagagttctcttttattgcttttgcttc 17388354  T

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Target: chr1 (Bit Score: 50; Significance: 1e-19; HSPs: 4)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 50; E-Value: 1e-19
Query Start/End: Original strand, 170 - 244
Target Start/End: Original strand, 17986380 - 17986458
Alignment:
Q  170 tcagagaggtagcacggcccgtgctcccac----acggccgtgccaagtttcagggttctcttttgttgcctttgcttc 244  Q
    |||||||||| |||||||||||||||||||    |||||||||||||| ||||||||||||||||||||| ||||||||    
T  17986380 tcagagaggtggcacggcccgtgctcccactggcacggccgtgccaagcttcagggttctcttttgttgcttttgcttc 17986458  T

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Target: chr1; HSP #2
Raw Score: 47; E-Value: 6e-18
Query Start/End: Original strand, 170 - 244
Target Start/End: Complemental strand, 52755629 - 52755556
Alignment:
Q  170 tcagagaggtagcacggcccgtgctcccacacggccgtgccaagtttcagggttctcttttgttgcctttgcttc 244  Q
    |||||||||| |||||||||||||||||||  |||||||||||| ||||||||||||||||| ||| ||||||||    
T  52755629 tcagagaggtggcacggcccgtgctcccact-ggccgtgccaagcttcagggttctcttttgctgcttttgcttc 52755556  T

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Target: chr1; HSP #3
Raw Score: 34; E-Value: 0.0000000003
Query Start/End: Original strand, 170 - 244
Target Start/End: Original strand, 19364474 - 19364552
Alignment:
Q  170 tcagagaggtagcacggcccgtgctcccac----acggccgtgccaagtttcagggttctcttttgttgcctttgcttc 244  Q
    |||||||||| ||| |||||||||||||||    |||| | ||||||| ||||||||||||||||| ||| ||||||||    
T  19364474 tcagagaggtggcagggcccgtgctcccaccggcacggtcatgccaaggttcagggttctcttttgctgcttttgcttc 19364552  T

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Target: chr1; HSP #4
Raw Score: 34; E-Value: 0.0000000003
Query Start/End: Original strand, 199 - 244
Target Start/End: Original strand, 28207735 - 28207780
Alignment:
Q  199 cacggccgtgccaagtttcagggttctcttttgttgcctttgcttc 244  Q
    ||||||||||||||| ||||||||||||||||| ||| ||||||||    
T  28207735 cacggccgtgccaagcttcagggttctcttttgctgcatttgcttc 28207780  T

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Target: scaffold0031 (Bit Score: 46; Significance: 2e-17; HSPs: 1)
Name: scaffold0031
Description:

Target: scaffold0031; HSP #1
Raw Score: 46; E-Value: 2e-17
Query Start/End: Original strand, 170 - 244
Target Start/End: Original strand, 77649 - 77727
Alignment:
Q  170 tcagagaggtagcacggcccgtgctcccac----acggccgtgccaagtttcagggttctcttttgttgcctttgcttc 244  Q
    |||||||||| |||||||||||||||||||    |||||||||||||| ||||||||||||||||| ||| ||||||||    
T  77649 tcagagaggtggcacggcccgtgctcccactggcacggccgtgccaagcttcagggttctcttttgctgcttttgcttc 77727  T

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Target: chr7 (Bit Score: 42; Significance: 0.000000000000006; HSPs: 5)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 42; E-Value: 0.000000000000006
Query Start/End: Original strand, 170 - 244
Target Start/End: Original strand, 17946535 - 17946613
Alignment:
Q  170 tcagagaggtagcacggcccgtgctccca----cacggccgtgccaagtttcagggttctcttttgttgcctttgcttc 244  Q
    |||||||||| |||| |||||||||||||    ||||||||||||||| ||||||||||||||||| ||| ||||||||    
T  17946535 tcagagaggtggcacagcccgtgctcccagtggcacggccgtgccaagcttcagggttctcttttgctgcttttgcttc 17946613  T

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Target: chr7; HSP #2
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 170 - 244
Target Start/End: Original strand, 9311331 - 9311409
Alignment:
Q  170 tcagagaggtagcacggcccgtgctcccac----acggccgtgccaagtttcagggttctcttttgttgcctttgcttc 244  Q
    ||||| |||| |||||||||||||||||||    ||||| |||||||| ||||||||||||||||| ||| ||||||||    
T  9311331 tcagacaggtggcacggcccgtgctcccactggcacggctgtgccaagcttcagggttctcttttgctgcttttgcttc 9311409  T

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Target: chr7; HSP #3
Raw Score: 37; E-Value: 0.000000000006
Query Start/End: Original strand, 170 - 243
Target Start/End: Complemental strand, 9258922 - 9258845
Alignment:
Q  170 tcagagaggtagcacggcccgtgctcccac----acggccgtgccaagtttcagggttctcttttgttgcctttgctt 243  Q
    ||||| |||| |||||||||||||||||||    ||||| |||||||| ||||||||||||||||| ||| |||||||    
T  9258922 tcagacaggtggcacggcccgtgctcccactggcacggctgtgccaagcttcagggttctcttttgctgcttttgctt 9258845  T

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Target: chr7; HSP #4
Raw Score: 30; E-Value: 0.00000008
Query Start/End: Original strand, 170 - 244
Target Start/End: Complemental strand, 3211019 - 3210941
Alignment:
Q  170 tcagagaggtagcacggcccgtgctcccac----acggccgtgccaagtttcagggttctcttttgttgcctttgcttc 244  Q
    |||||||| | || ||||||||||||||||    |||||||||||||| | ||| ||||||||||| ||| ||||||||    
T  3211019 tcagagagatggcccggcccgtgctcccactggtacggccgtgccaagctacagagttctcttttgctgcttttgcttc 3210941  T

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Target: chr7; HSP #5
Raw Score: 30; E-Value: 0.00000008
Query Start/End: Original strand, 199 - 244
Target Start/End: Complemental strand, 8787527 - 8787482
Alignment:
Q  199 cacggccgtgccaagtttcagggttctcttttgttgcctttgcttc 244  Q
    ||||||||||||||| |||||||| |||||||| ||| ||||||||    
T  8787527 cacggccgtgccaagcttcagggtgctcttttgctgcttttgcttc 8787482  T

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Target: chr5 (Bit Score: 42; Significance: 0.000000000000006; HSPs: 2)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 42; E-Value: 0.000000000000006
Query Start/End: Original strand, 170 - 244
Target Start/End: Complemental strand, 17409003 - 17408925
Alignment:
Q  170 tcagagaggtagcacggcccgtgctcccac----acggccgtgccaagtttcagggttctcttttgttgcctttgcttc 244  Q
    |||||||||| |||||||||||||||||||    |||| ||||||||| ||||||||||||||||| ||| ||||||||    
T  17409003 tcagagaggtggcacggcccgtgctcccactagcacggtcgtgccaagcttcagggttctcttttgctgcttttgcttc 17408925  T

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Target: chr5; HSP #2
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 170 - 244
Target Start/End: Original strand, 21382084 - 21382162
Alignment:
Q  170 tcagagaggtagcacggcccgtgctcccac----acggccgtgccaagtttcagggttctcttttgttgcctttgcttc 244  Q
    |||||||| | ||||| |||||||||||||    |||||||||||||||||  ||||||||||||||||| ||||||||    
T  21382084 tcagagagatggcacgacccgtgctcccactggcacggccgtgccaagtttatgggttctcttttgttgcttttgcttc 21382162  T

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Target: chr4 (Bit Score: 42; Significance: 0.000000000000006; HSPs: 2)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 42; E-Value: 0.000000000000006
Query Start/End: Original strand, 170 - 244
Target Start/End: Original strand, 7197020 - 7197098
Alignment:
Q  170 tcagagaggtagcacggcccgtgctcccac----acggccgtgccaagtttcagggttctcttttgttgcctttgcttc 244  Q
    |||||||||| |||||||||||||||||||    |||||| ||||||| ||||||||||||||||| ||| ||||||||    
T  7197020 tcagagaggtggcacggcccgtgctcccactggcacggccatgccaagcttcagggttctcttttgctgcttttgcttc 7197098  T

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Target: chr4; HSP #2
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 200 - 244
Target Start/End: Complemental strand, 16954156 - 16954112
Alignment:
Q  200 acggccgtgccaagtttcagggttctcttttgttgcctttgcttc 244  Q
    |||||||||||||| |||||||| |||||||| ||| ||||||||    
T  16954156 acggccgtgccaagcttcagggtgctcttttgctgcttttgcttc 16954112  T

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Target: chr6 (Bit Score: 41; Significance: 0.00000000000002; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 41; E-Value: 0.00000000000002
Query Start/End: Original strand, 170 - 231
Target Start/End: Complemental strand, 20105926 - 20105861
Alignment:
Q  170 tcagagaggtagcacggcccgtgctcccac----acggccgtgccaagtttcagggttctcttttg 231  Q
    |||||||||| |||||||||||||||||||    |||||||||||||| |||||||||||||||||    
T  20105926 tcagagaggtggcacggcccgtgctcccactagcacggccgtgccaagcttcagggttctcttttg 20105861  T

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Target: chr2 (Bit Score: 38; Significance: 0.000000000001; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 170 - 244
Target Start/End: Original strand, 23704072 - 23704150
Alignment:
Q  170 tcagagaggtagcacggcccgtgctcccac----acggccgtgccaagtttcagggttctcttttgttgcctttgcttc 244  Q
    ||||||| || |||||||||||||||||||    |||||||||||||| ||||||||||||||||| | | ||||||||    
T  23704072 tcagagaagtggcacggcccgtgctcccactggcacggccgtgccaagcttcagggttctcttttgctacttttgcttc 23704150  T

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Target: scaffold0072 (Bit Score: 33; Significance: 0.000000001; HSPs: 1)
Name: scaffold0072
Description:

Target: scaffold0072; HSP #1
Raw Score: 33; E-Value: 0.000000001
Query Start/End: Original strand, 170 - 243
Target Start/End: Original strand, 60515 - 60591
Alignment:
Q  170 tcagagaggtagcacggcccgtgctcccac----acggccgtgccaagtttcagggttctcttttgttgcctttgctt 243  Q
    |||||||||| |||||||| ||||||||||    |||||||||||||| ||||| | ||||||||||||| |||||||    
T  60515 tcagagaggtggcacggcctgtgctcccactggcacggccgtgccaagcttcagag-tctcttttgttgcttttgctt 60591  T

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Target: scaffold0011 (Bit Score: 31; Significance: 0.00000002; HSPs: 1)
Name: scaffold0011
Description:

Target: scaffold0011; HSP #1
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 172 - 243
Target Start/End: Original strand, 162290 - 162364
Alignment:
Q  172 agagaggtagcacggcccgtgctccca----cacggccgtgccaagtttcagggttctcttttgttgcctttgctt 243  Q
    |||||||| ||||||||||||||||||    || |||||||||||| ||||| | ||||||||||||| |||||||    
T  162290 agagaggtggcacggcccgtgctcccactggcatggccgtgccaagcttcagag-tctcttttgttgcttttgctt 162364  T

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Target: chr8 (Bit Score: 30; Significance: 0.00000008; HSPs: 2)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 30; E-Value: 0.00000008
Query Start/End: Original strand, 199 - 244
Target Start/End: Complemental strand, 1990740 - 1990695
Alignment:
Q  199 cacggccgtgccaagtttcagggttctcttttgttgcctttgcttc 244  Q
    |||||| |||||||| ||||||||||||||||| ||| ||||||||    
T  1990740 cacggctgtgccaagcttcagggttctcttttgctgcttttgcttc 1990695  T

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Target: chr8; HSP #2
Raw Score: 30; E-Value: 0.00000008
Query Start/End: Original strand, 170 - 244
Target Start/End: Original strand, 22818036 - 22818114
Alignment:
Q  170 tcagagaggtagcacggcccgtgctcccac----acggccgtgccaagtttcagggttctcttttgttgcctttgcttc 244  Q
    |||||||||| ||||||||| |||||||||    ||| |||||||||| ||||||||||| ||||  ||| ||||||||    
T  22818036 tcagagaggtggcacggcccatgctcccactagcacgaccgtgccaagcttcagggttctttttttctgcttttgcttc 22818114  T

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