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: NF5781_low_5 (Length: 581)

Name: NF5781_low_5
Description: NF5781
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF5781_low_5
NF5781_low_5
[»] chr4 (4 HSPs)
chr4 (18-240)||(52720593-52720812)
chr4 (264-468)||(44210644-44210847)
chr4 (506-573)||(44210885-44210952)
chr4 (142-232)||(51288933-51289023)
[»] chr8 (3 HSPs)
chr8 (18-232)||(10382035-10382252)
chr8 (18-193)||(9484808-9484990)
chr8 (130-202)||(43433845-43433917)
[»] chr5 (2 HSPs)
chr5 (74-237)||(3135922-3136082)
chr5 (74-198)||(3136427-3136548)
[»] chr3 (8 HSPs)
chr3 (74-232)||(41639026-41639182)
chr3 (126-228)||(37242932-37243034)
chr3 (126-228)||(1259644-1259746)
chr3 (131-228)||(34872973-34873070)
chr3 (148-232)||(41638484-41638568)
chr3 (142-232)||(46993325-46993415)
chr3 (194-241)||(34873693-34873740)
chr3 (180-232)||(44445494-44445546)
[»] chr7 (1 HSPs)
chr7 (140-228)||(31235110-31235198)
[»] scaffold1956 (1 HSPs)
scaffold1956 (186-231)||(1032-1077)
[»] chr1 (1 HSPs)
chr1 (185-229)||(41465243-41465287)


Alignment Details
Target: chr4 (Bit Score: 160; Significance: 5e-85; HSPs: 4)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 160; E-Value: 5e-85
Query Start/End: Original strand, 18 - 240
Target Start/End: Complemental strand, 52720812 - 52720593
Alignment:
Q  18 acctttttgttgctcggaatagaagaaaacatccggtggtgagttagatgttactagtggtggggaggaaggagagagaagagtggtggtggaaggtgtn 117  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||| ||   |||||||     
T  52720812 acctttttgttgctcggaatagaagaaaacatccggtggtgagttagatgttactggtggtggggaggaaggagagagaagagtggggg---aaggtgta 52720716  T
Q  118 nnnnnncaaatctagtgttagtagtgtatgataagattgtgttctcaaatcaatctaaccactaaagtaaactttcccatggtggcaatgttttatacct 217  Q
          |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||| ||||||| ||||||||||||||    
T  52720715 taaaaacaaatctagtgttagtagtgtatgataagattgtgttctcaaattaatctaaccactaaagtaaactttcctatggtgggaatgttttatacct 52720616  T
Q  218 tcacatgtgaaatgctaccttta 240  Q
    || |||||||||||| |||||||    
T  52720615 tcccatgtgaaatgccaccttta 52720593  T

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Target: chr4; HSP #2
Raw Score: 138; E-Value: 7e-72
Query Start/End: Original strand, 264 - 468
Target Start/End: Original strand, 44210644 - 44210847
Alignment:
Q  264 gtcggttcaaactccaaattnnnnnnngtaaattgtctaattttgatccaacaaccaccaataaaatggaggacaacaaatctaaacccttaataaattg 363  Q
    ||||||||||||||||||||       ||| |||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||    
T  44210644 gtcggttcaaactccaaattaaaaac-gtagattgtctaattttgatccaacaaccaccaataaaatcgaggacaacaaatctaaacccttaataaattg 44210742  T
Q  364 tcgaatnnnnnnncatcaataaaatataatgatttcatttggatctcaagtgatcaattttgaatggcgtaaaatcccgatttgacgtcaaatttgttta 463  Q
    || |||       |||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||| |||||||||||||    
T  44210743 tcaaataaaaaaacatcaataaaatataatgatttcatttggatctcaaatgatcaattttgaatggcgtaaaatcccgatttgacatcaaatttgttta 44210842  T
Q  464 atctg 468  Q
    |||||    
T  44210843 atctg 44210847  T

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Target: chr4; HSP #3
Raw Score: 68; E-Value: 4e-30
Query Start/End: Original strand, 506 - 573
Target Start/End: Original strand, 44210885 - 44210952
Alignment:
Q  506 ttatttggtttagattgaattatcgaatttatgggataatttgtttgagttttaccccttagaataat 573  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  44210885 ttatttggtttagattgaattatcgaatttatgggataatttgtttgagttttaccccttagaataat 44210952  T

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Target: chr4; HSP #4
Raw Score: 31; E-Value: 0.00000005
Query Start/End: Original strand, 142 - 232
Target Start/End: Original strand, 51288933 - 51289023
Alignment:
Q  142 tgtatgataagattgtgttctcaaatcaatctaaccactaaagtaaactttcccatggtggcaatgttttataccttcacatgtgaaatgc 232  Q
    ||||||||||||||||||||||| || |||||||   ||||| |||| |||   ||||||| || ||||||||||||  |||| |||||||    
T  51288933 tgtatgataagattgtgttctcagattaatctaatggctaaaataaatttttttatggtggaaaagttttatacctttccatgagaaatgc 51289023  T

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Target: chr8 (Bit Score: 99; Significance: 1e-48; HSPs: 3)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 99; E-Value: 1e-48
Query Start/End: Original strand, 18 - 232
Target Start/End: Complemental strand, 10382252 - 10382035
Alignment:
Q  18 acctttttgttgctcggaatagaagaaaacatccggtggtgagttagatgttactagtggtggggaggaaggagagagaagagtggtggtggaaggtgt- 116  Q
    ||||||||||||||||||||||||||||||||||||||||||| |||||||| || || ||||||||||||||||||||||||||   |||||||||||     
T  10382252 acctttttgttgctcggaatagaagaaaacatccggtggtgaggtagatgttgctggtagtggggaggaaggagagagaagagtg---gtggaaggtgta 10382156  T
Q  117 -----nnnnnnncaaatctagtgttagtagtgtatgataagattgtgttctcaaatcaatctaaccactaaagtaaactttcccatggtggcaatgtttt 211  Q
                 |||| |||| ||| || ||||| ||||||||||||| |||||| |||||||| |||||||||||||||||||| |||| ||||||||    
T  10382155 aaaaaagtaaaaaaaatttagtattaatattgtataataagattgtgttttcaaattaatctaacaactaaagtaaactttcccatagtgggaatgtttt 10382056  T
Q  212 ataccttcacatgtgaaatgc 232  Q
    |||||||| ||||||||||||    
T  10382055 ataccttcgcatgtgaaatgc 10382035  T

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Target: chr8; HSP #2
Raw Score: 83; E-Value: 5e-39
Query Start/End: Original strand, 18 - 193
Target Start/End: Original strand, 9484808 - 9484990
Alignment:
Q  18 acctttttgttgctcggaatagaagaaaacatccggtggtgagttagatgttactagtggtggggaggaaggagagagaagagtggtggtggaaggtgtn 117  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||| || ||||||||||||||||||||||||||   ||||||||||||||     
T  9484808 acctttttgttgctcggaatagaagaaaacatccggtggtgagttagatgttgctggtggtggggaggaaggagagagaaga---gtggtggaaggtgta 9484904  T
Q  118 nnnnnncaaa------tctagtgtt----agtagtgtatgataagattgtgttctcaaatcaatctaaccactaaagtaaactttc 193  Q
           |||      |||||||||    |||||||||||||||||||||||||| |||| ||||||||||||||| || ||||||    
T  9484905 aaaaaaaaaaaaaaattctagtgttagtaagtagtgtatgataagattgtgttctgaaattaatctaaccactaaattacactttc 9484990  T

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Target: chr8; HSP #3
Raw Score: 29; E-Value: 0.0000008
Query Start/End: Original strand, 130 - 202
Target Start/End: Complemental strand, 43433917 - 43433845
Alignment:
Q  130 tagtgttagtagtgtatgataagattgtgttctcaaatcaatctaaccactaaagtaaactttcccatggtgg 202  Q
    ||||||| | ||| |||||||||||||||||||  |||  ||||||   ||||||| ||||||||||||||||    
T  43433917 tagtgttggaagtctatgataagattgtgttcttcaattcatctaatggctaaagtgaactttcccatggtgg 43433845  T

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Target: chr5 (Bit Score: 61; Significance: 7e-26; HSPs: 2)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 61; E-Value: 7e-26
Query Start/End: Original strand, 74 - 237
Target Start/End: Complemental strand, 3136082 - 3135922
Alignment:
Q  74 gtggtggggaggaaggagagagaagagtggtggtggaaggtgtnnnnnnncaaatctagtgttagtagtgtatgataagattgtgttctcaaatcaatct 173  Q
    |||||||||||||||||||||||||   |||||||||||||||         |||| |||||||  ||||||||||||||| ||||| |||||| |||||    
T  3136082 gtggtggggaggaaggagagagaag---ggtggtggaaggtgtaaaagaaataatccagtgttacaagtgtatgataagatggtgttttcaaattaatct 3135986  T
Q  174 aaccactaaagtaaactttcccatggtggcaatgttttataccttcacatgtgaaatgctacct 237  Q
    |    ||||| |||||||||||||||||| || ||||||||||||| |||||||||||| ||||    
T  3135985 agtggctaaaataaactttcccatggtgggaaggttttataccttcccatgtgaaatgccacct 3135922  T

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Target: chr5; HSP #2
Raw Score: 34; E-Value: 0.0000000008
Query Start/End: Original strand, 74 - 198
Target Start/End: Original strand, 3136427 - 3136548
Alignment:
Q  74 gtggtggggaggaaggagagagaagagtggtggtggaaggtgtnnnnnnncaaatctagtgttagtagtgtatgataagattgtgttctcaaatcaatct 173  Q
    ||||||||||||||||||||||||    |||||||||||||||         |||  |||||| | |||||||||||| ||||||||||||||| |||||    
T  3136427 gtggtggggaggaaggagagagaaa---ggtggtggaaggtgtaaaagaaataattcagtgttggaagtgtatgataaaattgtgttctcaaattaatct 3136523  T
Q  174 aaccactaaagtaaactttcccatg 198  Q
    |||   |||| ||||||| ||||||    
T  3136524 aactgttaaaataaacttacccatg 3136548  T

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Target: chr3 (Bit Score: 53; Significance: 4e-21; HSPs: 8)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 53; E-Value: 4e-21
Query Start/End: Original strand, 74 - 232
Target Start/End: Original strand, 41639026 - 41639182
Alignment:
Q  74 gtggtggggaggaaggagagagaagagtggtggtggaaggtgtnnnnnnncaaatctagtgttagtagtgtatgataagattgtgttctcaaatcaatct 173  Q
    |||||||||||||||||||||||||   |||||||||||||||         ||||||||||||| ||||||  |||||||||||||||||||| |||||    
T  41639026 gtggtggggaggaaggagagagaag---ggtggtggaaggtgtaaaagaaataatctagtgttagaagtgtaccataagattgtgttctcaaattaatct 41639122  T
Q  174 aaccactaaagtaaactttcccatggtggcaatgtttt-ataccttcacatgtgaaatgc 232  Q
    ||   ||||| |||| ||||||||||||| || ||||| | |||||  ||||||||||||    
T  41639123 aatggctaaaataaattttcccatggtgggaaggttttaaaaccttaccatgtgaaatgc 41639182  T

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Target: chr3; HSP #2
Raw Score: 43; E-Value: 0.000000000000004
Query Start/End: Original strand, 126 - 228
Target Start/End: Original strand, 37242932 - 37243034
Alignment:
Q  126 aatctagtgttagtagtgtatgataagattgtgttctcaaatcaatctaaccactaaagtaaactttcccatggtggcaatgttttataccttcacatgt 225  Q
    |||| |||||||  ||||||||||||||| ||||| |||||| |||||||   |||||  ||| ||||||||||||| || ||||||||||||| |||||    
T  37242932 aatccagtgttacaagtgtatgataagatggtgttttcaaattaatctaatggctaaaacaaattttcccatggtgggaaggttttataccttcccatgt 37243031  T
Q  226 gaa 228  Q
    |||    
T  37243032 gaa 37243034  T

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Target: chr3; HSP #3
Raw Score: 39; E-Value: 0.0000000000009
Query Start/End: Original strand, 126 - 228
Target Start/End: Original strand, 1259644 - 1259746
Alignment:
Q  126 aatctagtgttagtagtgtatgataagattgtgttctcaaatcaatctaaccactaaagtaaactttcccatggtggcaatgttttataccttcacatgt 225  Q
    |||| |||||||  ||||||||||||||| ||||| |||||| |||||||   |||||  ||| |||| |||||||| || ||||||||||||| |||||    
T  1259644 aatccagtgttacaagtgtatgataagatggtgttttcaaattaatctaatggctaaaacaaattttctcatggtgggaaggttttataccttcccatgt 1259743  T
Q  226 gaa 228  Q
    |||    
T  1259744 gaa 1259746  T

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Target: chr3; HSP #4
Raw Score: 38; E-Value: 0.000000000003
Query Start/End: Original strand, 131 - 228
Target Start/End: Complemental strand, 34873070 - 34872973
Alignment:
Q  131 agtgttagtagtgtatgataagattgtgttctcaaatcaatctaaccactaaagtaaactttcccatggtggcaatgttttataccttcacatgtgaa 228  Q
    |||||||  ||||||||||||||| |||||  ||||| |||||||   |||||  ||| ||||||||||||| || ||||||||||||| ||||||||    
T  34873070 agtgttacaagtgtatgataagatggtgtttccaaattaatctaatggctaaaacaaattttcccatggtgggaaggttttataccttcccatgtgaa 34872973  T

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Target: chr3; HSP #5
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 148 - 232
Target Start/End: Complemental strand, 41638568 - 41638484
Alignment:
Q  148 ataagattgtgttctcaaatcaatctaaccactaaagtaaactttcccatggtggcaatgttttataccttcacatgtgaaatgc 232  Q
    ||||||||||||||||||||  ||||||   ||||| |||| ||||||||| ||| || |||||| |||||| ||||||||||||    
T  41638568 ataagattgtgttctcaaattgatctaatggctaaaataaattttcccatgatgggaaggttttacaccttcccatgtgaaatgc 41638484  T

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Target: chr3; HSP #6
Raw Score: 35; E-Value: 0.0000000002
Query Start/End: Original strand, 142 - 232
Target Start/End: Complemental strand, 46993415 - 46993325
Alignment:
Q  142 tgtatgataagattgtgttctcaaatcaatctaaccactaaagtaaactttcccatggtggcaatgttttataccttcacatgtgaaatgc 232  Q
    |||||||||||||||||||| || || |||||||   ||||||| |||||| ||||||||| || |||||| || ||| ||||| ||||||    
T  46993415 tgtatgataagattgtgttcccagattaatctaatggctaaagtgaacttttccatggtgggaaagttttacactttcccatgttaaatgc 46993325  T

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Target: chr3; HSP #7
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 194 - 241
Target Start/End: Original strand, 34873693 - 34873740
Alignment:
Q  194 ccatggtggcaatgttttataccttcacatgtgaaatgctacctttag 241  Q
    ||||||||| || ||||||||||||| |||||||||||| ||||||||    
T  34873693 ccatggtgggaaggttttataccttcccatgtgaaatgccacctttag 34873740  T

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Target: chr3; HSP #8
Raw Score: 29; E-Value: 0.0000008
Query Start/End: Original strand, 180 - 232
Target Start/End: Complemental strand, 44445546 - 44445494
Alignment:
Q  180 taaagtaaactttcccatggtggcaatgttttataccttcacatgtgaaatgc 232  Q
    |||||| || ||||||||||||| || |||||||| |||| ||||||||||||    
T  44445546 taaagtgaattttcccatggtgggaaggttttatatcttcccatgtgaaatgc 44445494  T

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Target: chr7 (Bit Score: 33; Significance: 0.000000003; HSPs: 1)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 33; E-Value: 0.000000003
Query Start/End: Original strand, 140 - 228
Target Start/End: Original strand, 31235110 - 31235198
Alignment:
Q  140 agtgtatgataagattgtgttctcaaatcaatctaaccactaaagtaaactttcccatggtggcaatgttttataccttcacatgtgaa 228  Q
    ||||||||||||||| ||||| |||||| |||||||   |||||  ||| ||| | ||||||| || ||||||||||||| ||||||||    
T  31235110 agtgtatgataagatggtgttttcaaattaatctaatggctaaaacaaatttttctatggtgggaaggttttataccttcccatgtgaa 31235198  T

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Target: scaffold1956 (Bit Score: 30; Significance: 0.0000002; HSPs: 1)
Name: scaffold1956
Description:

Target: scaffold1956; HSP #1
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 186 - 231
Target Start/End: Complemental strand, 1077 - 1032
Alignment:
Q  186 aaactttcccatggtggcaatgttttataccttcacatgtgaaatg 231  Q
    ||||||||||||||||| || | ||||||||||| |||||||||||    
T  1077 aaactttcccatggtggaaaagctttataccttctcatgtgaaatg 1032  T

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Target: chr1 (Bit Score: 29; Significance: 0.0000008; HSPs: 1)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 29; E-Value: 0.0000008
Query Start/End: Original strand, 185 - 229
Target Start/End: Complemental strand, 41465287 - 41465243
Alignment:
Q  185 taaactttcccatggtggcaatgttttataccttcacatgtgaaa 229  Q
    |||||||||||||||||| || |||||| |||||| |||||||||    
T  41465287 taaactttcccatggtgggaaggttttacaccttcccatgtgaaa 41465243  T

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