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: NF3900_low_9 (Length: 309)

Name: NF3900_low_9
Description: NF3900
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF3900_low_9
NF3900_low_9
[»] chr2 (4 HSPs)
chr2 (12-296)||(33026372-33026656)
chr2 (11-295)||(33037868-33038158)
chr2 (19-295)||(33020038-33020311)
chr2 (27-128)||(33023912-33024013)
[»] chr6 (1 HSPs)
chr6 (24-272)||(24417562-24417804)
[»] scaffold1004 (1 HSPs)
scaffold1004 (18-297)||(1867-2143)
[»] scaffold0760 (1 HSPs)
scaffold0760 (18-297)||(4362-4638)
[»] chr7 (1 HSPs)
chr7 (162-211)||(27755555-27755604)
[»] chr3 (12 HSPs)
chr3 (161-204)||(763705-763748)
chr3 (161-204)||(9585279-9585322)
chr3 (18-75)||(9608626-9608683)
chr3 (155-224)||(44001473-44001542)
chr3 (37-77)||(771770-771810)
chr3 (158-198)||(783949-783989)
chr3 (161-211)||(9587322-9587372)
chr3 (24-77)||(784070-784123)
chr3 (158-187)||(7430652-7430681)
chr3 (98-131)||(7443203-7443236)
chr3 (24-77)||(9587459-9587512)
chr3 (147-204)||(43991813-43991870)
[»] scaffold0044 (1 HSPs)
scaffold0044 (33-128)||(88876-88971)
[»] chr1 (3 HSPs)
chr1 (159-197)||(51854806-51854844)
chr1 (159-197)||(51858465-51858503)
chr1 (159-204)||(51829632-51829677)


Alignment Details
Target: chr2 (Bit Score: 277; Significance: 1e-155; HSPs: 4)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 277; E-Value: 1e-155
Query Start/End: Original strand, 12 - 296
Target Start/End: Original strand, 33026372 - 33026656
Alignment:
Q  12 agagaggaagtaagtgttcatactttgggtacagatacttggagaaggataccagacttcccatataatggcccgtttgatcgatttggaatatttgtga 111  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||    
T  33026372 agagaggaagtaagtgttcatactttgggtacagatacttggagaaggataccagacttcccatataatggcccgtttgatcgatttggaatatttttga 33026471  T
Q  112 gtggcactgttaattggatgtcgttcgacaatgtgagttcttcctgtgtcattgtttctcttgatttggagaaggagttgtatcaaacgctttcgctgcc 211  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  33026472 gtggcactgttaattggatgtcgttcgacaatgtgagttcttcctgtgtcattgtttctcttgatttggagaaggagttgtatcaaacgctttcgctgcc 33026571  T
Q  212 ggattttgagaaggatcgtttgataagaactttgtgggttttgagggattgcttgtgcatctttgtaagaaatgatatgtttttg 296  Q
     ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  33026572 agattttgagaaggatcgtttgataagaactttgtgggttttgagggattgcttgtgcatctttgtaagaaatgatatgtttttg 33026656  T

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Target: chr2; HSP #2
Raw Score: 144; E-Value: 1e-75
Query Start/End: Original strand, 11 - 295
Target Start/End: Original strand, 33037868 - 33038158
Alignment:
Q  11 cagagaggaagtaagtgttcatactttgggtacagatacttggagaaggataccagacttcccatataatggcccgtttgatcgatttggaatatttgtg 110  Q
    ||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||  ||||||||||  | | | ||||||||||||     
T  33037868 cagagaggaagtaagtgttcatactttgggtacggatacttggagaaggataccagacttcccatattctggcccgttttgtgggtatggaatatttgtc 33037967  T
Q  111 agtggcactgttaattggatgtcgttcgacaatgtgagttcttcctgtgtcattgtttctcttgatttggagaaggagttgtatcaaacgctttcgctgc 210  Q
     ||||||||||||||||| ||||||| ||| | ||||||||||  || ||||||||||||||||||||||||||||| | ||||||||||||||||||||    
T  33037968 ggtggcactgttaattggttgtcgttagacgaagtgagttctttgtgcgtcattgtttctcttgatttggagaaggaatcgtatcaaacgctttcgctgc 33038067  T
Q  211 cggattttgagaaggatcgtttgataa------gaactttgtgggttttgagggattgcttgtgcatctttgtaagaaatgatatgttttt 295  Q
    | ||| ||||||| |||| ||||| ||      |   |||| |||||||||||||||||||||||||||||| ||| | ||||||||||||    
T  33038068 ctgatattgagaatgatcctttgacaaatttgggggatttgggggttttgagggattgcttgtgcatctttgcaagtagtgatatgttttt 33038158  T

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Target: chr2; HSP #3
Raw Score: 135; E-Value: 2e-70
Query Start/End: Original strand, 19 - 295
Target Start/End: Original strand, 33020038 - 33020311
Alignment:
Q  19 aagtaagtgttcatactttgggtacagatacttggagaaggataccagacttcccatataatggcccgtttgatcgatttggaatatttgtgagtggcac 118  Q
    ||||||||||||||||||||||||| ||||||||||||||||||||||||||||||| |  |||||||| |  | | | |||||||||||||||||||||    
T  33020038 aagtaagtgttcatactttgggtacggatacttggagaaggataccagacttcccatgttttggcccgtgtcgtgggtatggaatatttgtgagtggcac 33020137  T
Q  119 tgttaattggatgtcgttcgacaatgtgagttcttcctgtgtcattgtttctcttgatttggagaaggagttgtatcaaacgctttcgctgccggatttt 218  Q
     ||||||||| || | |||||  ||||||||||| | |||||||||||||||||||||||||||||||||| |||||||||| ||| |||||| |||||     
T  33020138 agttaattggttggcattcgaagatgtgagttctccgtgtgtcattgtttctcttgatttggagaaggagtcgtatcaaacgtttttgctgcctgatttc 33020237  T
Q  219 gagaaggatcgtttgataagaactttgtgggttttgagggattgcttgtgcatctttgtaagaaatgatatgttttt 295  Q
    |||||||||| ||||   | || |||| ||||||||||||||||||||||| |||||| ||  | ||||||||||||    
T  33020238 gagaaggatcctttg---acaaatttgggggttttgagggattgcttgtgcttctttgcaaatagtgatatgttttt 33020311  T

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Target: chr2; HSP #4
Raw Score: 34; E-Value: 0.0000000004
Query Start/End: Original strand, 27 - 128
Target Start/End: Original strand, 33023912 - 33024013
Alignment:
Q  27 gttcatactttgggtacagatacttggagaaggataccagacttcccatataatggcccgtttgatcgatttggaatatttgtgagtggcactgttaatt 126  Q
    ||||||||||||| |||  |||| ||| ||||||| ||| |||||||||||  |||| |||||  | | || ||||||||||||||| ||| ||||||||    
T  33023912 gttcatactttggatacgaatacatggtgaaggatgccaaacttcccatattttggctcgttttgtgggttgggaatatttgtgagtcgcaatgttaatt 33024011  T
Q  127 gg 128  Q
    ||    
T  33024012 gg 33024013  T

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Target: chr6 (Bit Score: 57; Significance: 8e-24; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 57; E-Value: 8e-24
Query Start/End: Original strand, 24 - 272
Target Start/End: Complemental strand, 24417804 - 24417562
Alignment:
Q  24 agtgttcatactttgggtacagatacttggagaaggataccagacttcccatataatggcccgtttgatcgatttggaatatttgtgagtggcactgtta 123  Q
    |||||||||||  ||||||||||| ||||||||| ||||| |||||||||||||  | ||| |||  |||| || ||||||||||||||||||||| |||    
T  24417804 agtgttcataccctgggtacagattcttggagaacgatacaagacttcccatattctcgccagttacatcggttgggaatatttgtgagtggcactatta 24417705  T
Q  124 attggatgtcgttcgacaatgtgagttcttcctgtgtcattgtttctcttgatttggagaaggagttgtatcaaacgctttcgctgccggattttgagaa 223  Q
    ||||| ||  | | ||| |||   ||||||| | | |||||||||||||||||||||| || ||||  ||| ||  |||| |||||||  |||| ||| |    
T  24417704 attggttggtggtagacgatg---gttcttcgtttttcattgtttctcttgatttggaaaatgagtcatataaacggcttgcgctgcctaatttggagga 24417608  T
Q  224 ggatcgtttgataagaactttgtgggttttgagggattgcttgtgcatc 272  Q
     ||| |||| | |||   |||| |||||||||||||||| |||||||||    
T  24417607 tgattgtttcacaag---tttgggggttttgagggattgtttgtgcatc 24417562  T

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Target: scaffold1004 (Bit Score: 54; Significance: 5e-22; HSPs: 1)
Name: scaffold1004
Description:

Target: scaffold1004; HSP #1
Raw Score: 54; E-Value: 5e-22
Query Start/End: Original strand, 18 - 297
Target Start/End: Original strand, 1867 - 2143
Alignment:
Q  18 gaagtaagtgttcatactttgggtacagatacttggagaaggataccagacttcccatataatggcccgtttgatcgatttggaatatttgtgagtggca 117  Q
    ||||| ||||||||||||||||||||  || |||||| || |||||  ||||||||||||| | | |||||   | | |  ||||||||||||| |||||    
T  1867 gaagttagtgttcatactttgggtacgtattcttggataaagatacatgacttcccatatactagtccgttatgtgggtcaggaatatttgtgaatggca 1966  T
Q  118 ctgttaattggatgtcgttcgacaatgtgagttcttcctgtgtcattgtttctcttgatttggagaaggagttgtatcaaacgctttcgctgccggattt 217  Q
     |||||||||| || | || ||   ||||| |||||| ||||||||||||||||||||||||  ||| ||||  ||||||| ||||| ||  ||  || |    
T  1967 atgttaattggttggcattagatggtgtgacttcttcgtgtgtcattgtttctcttgatttgacgaaagagtcatatcaaaagcttttgccacctaatat 2066  T
Q  218 tgagaaggatcgtttgataagaactttgtgggttttgagggattgcttgtgcatctttgtaagaaatgatatgtttttga 297  Q
     |||| ||||| || |   |  |||||| ||||||| | |||||||||||||||||||| ||| |||||| |||||||||    
T  2067 ggagatggatcattgg---acgactttgggggttttaaaggattgcttgtgcatctttgcaagtaatgatgtgtttttga 2143  T

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Target: scaffold0760 (Bit Score: 54; Significance: 5e-22; HSPs: 1)
Name: scaffold0760
Description:

Target: scaffold0760; HSP #1
Raw Score: 54; E-Value: 5e-22
Query Start/End: Original strand, 18 - 297
Target Start/End: Original strand, 4362 - 4638
Alignment:
Q  18 gaagtaagtgttcatactttgggtacagatacttggagaaggataccagacttcccatataatggcccgtttgatcgatttggaatatttgtgagtggca 117  Q
    ||||| ||||||||||||||||||||  || |||||| || |||||  ||||||||||||| | | |||||   | | |  ||||||||||||| |||||    
T  4362 gaagttagtgttcatactttgggtacgtattcttggataaagatacatgacttcccatatactagtccgttatgtgggtcaggaatatttgtgaatggca 4461  T
Q  118 ctgttaattggatgtcgttcgacaatgtgagttcttcctgtgtcattgtttctcttgatttggagaaggagttgtatcaaacgctttcgctgccggattt 217  Q
     |||||||||| || | || ||   ||||| |||||| ||||||||||||||||||||||||  ||| ||||  ||||||| ||||| ||  ||  || |    
T  4462 atgttaattggttggcattagatggtgtgacttcttcgtgtgtcattgtttctcttgatttgacgaaagagtcatatcaaaagcttttgccacctaatat 4561  T
Q  218 tgagaaggatcgtttgataagaactttgtgggttttgagggattgcttgtgcatctttgtaagaaatgatatgtttttga 297  Q
     |||| ||||| || |   |  |||||| ||||||| | |||||||||||||||||||| ||| |||||| |||||||||    
T  4562 ggagatggatcattgg---acgactttgggggttttaaaggattgcttgtgcatctttgcaagtaatgatgtgtttttga 4638  T

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Target: chr7 (Bit Score: 38; Significance: 0.000000000002; HSPs: 1)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 38; E-Value: 0.000000000002
Query Start/End: Original strand, 162 - 211
Target Start/End: Original strand, 27755555 - 27755604
Alignment:
Q  162 attgtttctcttgatttggagaaggagttgtatcaaacgctttcgctgcc 211  Q
    ||||||||||||||||||||||||||||||||| ||| |||| |||||||    
T  27755555 attgtttctcttgatttggagaaggagttgtatgaaaagcttgcgctgcc 27755604  T

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Target: chr3 (Bit Score: 36; Significance: 0.00000000003; HSPs: 12)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 36; E-Value: 0.00000000003
Query Start/End: Original strand, 161 - 204
Target Start/End: Complemental strand, 763748 - 763705
Alignment:
Q  161 cattgtttctcttgatttggagaaggagttgtatcaaacgcttt 204  Q
    ||||||||||||||||||||||||||||| |||||||| |||||    
T  763748 cattgtttctcttgatttggagaaggagtcgtatcaaaagcttt 763705  T

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Target: chr3; HSP #2
Raw Score: 36; E-Value: 0.00000000003
Query Start/End: Original strand, 161 - 204
Target Start/End: Complemental strand, 9585322 - 9585279
Alignment:
Q  161 cattgtttctcttgatttggagaaggagttgtatcaaacgcttt 204  Q
    ||||||||||||||||||||||||||||| |||||||| |||||    
T  9585322 cattgtttctcttgatttggagaaggagtcgtatcaaaagcttt 9585279  T

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Target: chr3; HSP #3
Raw Score: 34; E-Value: 0.0000000004
Query Start/End: Original strand, 18 - 75
Target Start/End: Complemental strand, 9608683 - 9608626
Alignment:
Q  18 gaagtaagtgttcatactttgggtacagatacttggagaaggataccagacttcccat 75  Q
    ||||| ||||||||||||||||| || |||  |||||||||||||| |||||||||||    
T  9608683 gaagttagtgttcatactttgggcactgattattggagaaggatacaagacttcccat 9608626  T

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Target: chr3; HSP #4
Raw Score: 34; E-Value: 0.0000000004
Query Start/End: Original strand, 155 - 224
Target Start/End: Original strand, 44001473 - 44001542
Alignment:
Q  155 ctgtgtcattgtttctcttgatttggagaaggagttgtatcaaacgctttcgctgccggattttgagaag 224  Q
    ||||| |||||||||||||||| | || |||||||  ||||||  |||||||||||| ||||||||||||    
T  44001473 ctgtgacattgtttctcttgatcttgaaaaggagtcatatcaacagctttcgctgcctgattttgagaag 44001542  T

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Target: chr3; HSP #5
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 37 - 77
Target Start/End: Complemental strand, 771810 - 771770
Alignment:
Q  37 tgggtacagatacttggagaaggataccagacttcccatat 77  Q
    ||||||||||| ||||||||||||||| |||||||||||||    
T  771810 tgggtacagattcttggagaaggatacaagacttcccatat 771770  T

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Target: chr3; HSP #6
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 158 - 198
Target Start/End: Complemental strand, 783989 - 783949
Alignment:
Q  158 tgtcattgtttctcttgatttggagaaggagttgtatcaaa 198  Q
    ||||||||||||||||||||||||||| |||| ||||||||    
T  783989 tgtcattgtttctcttgatttggagaatgagtcgtatcaaa 783949  T

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Target: chr3; HSP #7
Raw Score: 31; E-Value: 0.00000003
Query Start/End: Original strand, 161 - 211
Target Start/End: Complemental strand, 9587372 - 9587322
Alignment:
Q  161 cattgtttctcttgatttggagaaggagttgtatcaaacgctttcgctgcc 211  Q
    |||||||||||||||||||||||| |||| ||||||||  |||| ||||||    
T  9587372 cattgtttctcttgatttggagaacgagtcgtatcaaaatcttttgctgcc 9587322  T

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Target: chr3; HSP #8
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 24 - 77
Target Start/End: Complemental strand, 784123 - 784070
Alignment:
Q  24 agtgttcatactttgggtacagatacttggagaaggataccagacttcccatat 77  Q
    |||||| ||||||||||||| ||| ||||||| ||||| | |||||||||||||    
T  784123 agtgtttatactttgggtaccgattcttggaggaggatccaagacttcccatat 784070  T

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Target: chr3; HSP #9
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 158 - 187
Target Start/End: Complemental strand, 7430681 - 7430652
Alignment:
Q  158 tgtcattgtttctcttgatttggagaagga 187  Q
    ||||||||||||||||||||||||||||||    
T  7430681 tgtcattgtttctcttgatttggagaagga 7430652  T

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Target: chr3; HSP #10
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 98 - 131
Target Start/End: Complemental strand, 7443236 - 7443203
Alignment:
Q  98 tggaatatttgtgagtggcactgttaattggatg 131  Q
    ||||||||||||| ||||||||||||||||||||    
T  7443236 tggaatatttgtgggtggcactgttaattggatg 7443203  T

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Target: chr3; HSP #11
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 24 - 77
Target Start/End: Complemental strand, 9587512 - 9587459
Alignment:
Q  24 agtgttcatactttgggtacagatacttggagaaggataccagacttcccatat 77  Q
    |||||| |||||||||||||  |||||||||| ||||| | |||||||||||||    
T  9587512 agtgtttatactttgggtaccaatacttggaggaggatccaagacttcccatat 9587459  T

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Target: chr3; HSP #12
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 147 - 204
Target Start/End: Original strand, 43991813 - 43991870
Alignment:
Q  147 agttcttcctgtgtcattgtttctcttgatttggagaaggagttgtatcaaacgcttt 204  Q
    ||||| || |||| ||||||||||||||||||||||| |||||  ||||||| |||||    
T  43991813 agttcctcttgtgccattgtttctcttgatttggagacggagtcttatcaaaagcttt 43991870  T

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Target: scaffold0044 (Bit Score: 32; Significance: 0.000000007; HSPs: 1)
Name: scaffold0044
Description:

Target: scaffold0044; HSP #1
Raw Score: 32; E-Value: 0.000000007
Query Start/End: Original strand, 33 - 128
Target Start/End: Original strand, 88876 - 88971
Alignment:
Q  33 actttgggtacagatacttggagaaggataccagacttcccatataatggcccgtttgatcgatttggaatatttgtgagtggcactgttaattgg 128  Q
    ||||| ||||| |||  ||||||||| |||  ||||||||||||| |||| || ||  ||  ||  ||||||||||||||||||||||||||||||    
T  88876 actttaggtactgattattggagaagaataaaagacttcccatatgatggtcccttacatgaatcgggaatatttgtgagtggcactgttaattgg 88971  T

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Target: chr1 (Bit Score: 31; Significance: 0.00000003; HSPs: 3)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 31; E-Value: 0.00000003
Query Start/End: Original strand, 159 - 197
Target Start/End: Original strand, 51854806 - 51854844
Alignment:
Q  159 gtcattgtttctcttgatttggagaaggagttgtatcaa 197  Q
    |||||||||||||||||||||||||| | ||||||||||    
T  51854806 gtcattgtttctcttgatttggagaatgggttgtatcaa 51854844  T

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Target: chr1; HSP #2
Raw Score: 31; E-Value: 0.00000003
Query Start/End: Original strand, 159 - 197
Target Start/End: Original strand, 51858465 - 51858503
Alignment:
Q  159 gtcattgtttctcttgatttggagaaggagttgtatcaa 197  Q
    |||||||||||||||||||||||||| ||||||| ||||    
T  51858465 gtcattgtttctcttgatttggagaatgagttgtgtcaa 51858503  T

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

Target: chr1; HSP #3
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 159 - 204
Target Start/End: Original strand, 51829632 - 51829677
Alignment:
Q  159 gtcattgtttctcttgatttggagaaggagttgtatcaaacgcttt 204  Q
    |||||||||||| |||||||  ||||||||| ||||||||||||||    
T  51829632 gtcattgtttcttttgatttacagaaggagtcgtatcaaacgcttt 51829677  T

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