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: NF9939_high_3 (Length: 415)

Name: NF9939_high_3
Description: NF9939
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF9939_high_3
NF9939_high_3
[»] chr5 (17 HSPs)
chr5 (63-400)||(39726364-39726701)
chr5 (63-400)||(38987651-38987982)
chr5 (63-363)||(39879760-39880060)
chr5 (64-400)||(40418230-40418560)
chr5 (64-366)||(39168793-39169098)
chr5 (64-201)||(3299480-3299620)
chr5 (64-201)||(3392373-3392513)
chr5 (67-208)||(39399809-39399950)
chr5 (64-208)||(1163680-1163824)
chr5 (64-208)||(1849912-1850059)
chr5 (244-381)||(3299639-3299779)
chr5 (244-381)||(3392532-3392672)
chr5 (291-381)||(1163549-1163639)
chr5 (291-381)||(1850100-1850190)
chr5 (14-44)||(39879711-39879741)
chr5 (93-195)||(40102213-40102315)
chr5 (315-347)||(39400042-39400074)
[»] chr4 (2 HSPs)
chr4 (64-383)||(25912113-25912429)
chr4 (129-195)||(44444772-44444838)


Alignment Details
Target: chr5 (Bit Score: 330; Significance: 0; HSPs: 17)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 330; E-Value: 0
Query Start/End: Original strand, 63 - 400
Target Start/End: Original strand, 39726364 - 39726701
Alignment:
63 cgccaaaaaatatcgtttagctgatgctgtggttgctcgtgtgaaagatactggaaataatgacacaacttttcaaatcaggactcatcttggtcgtatt 162  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||     
39726364 cgccaaaaaatatcgtttagctgatgctgtggttgctcgtgtgaaagatactggaaataatgacacaacttttcaaatcaggactcatctcggtcgtatc 39726463  T
163 ttaaaacccggtgaccatgctcttggttatgacctgtctggaggagtaggagaaggaggagctgacaccaacaccaataacaaccttcctgctgccattt 262  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
39726464 ttaaaacccggtgaccatgctcttggttatgacctgtctggaggagtaggagaaggaggagctgacaccaacaccaataacaaccttcctgctgccattt 39726563  T
263 tgatcagcaagattagttatgccgaagtgaatggtagagttgttgctgtcaaggataagtgggaatctgattatcaactcttcttcaatgatctacaaca 362  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
39726564 tgatcagcaagattagttatgccgaagtgaatggtagagttgttgctgtcaaggataagtgggaatctgattatcaactcttcttcaatgatctacaaca 39726663  T
363 agaccctcaactactcttcaagataacagcaccctacc 400  Q
    ||||||||||||||||||||||||||||||||||||||    
39726664 agaccctcaactactcttcaagataacagcaccctacc 39726701  T

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

Target: chr5; HSP #2
Raw Score: 303; E-Value: 1e-170
Query Start/End: Original strand, 63 - 400
Target Start/End: Original strand, 38987651 - 38987982
Alignment:
63 cgccaaaaaatatcgtttagctgatgctgtggttgctcgtgtgaaagatactggaaataatgacacaacttttcaaatcaggactcatcttggtcgtatt 162  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||     
38987651 cgccaaaaaatatcgtttagctgatgctgtggttgctcgtgtgaaagatactggaaataatgacacaacttttcaaatcaggactcatctcggtcgtatc 38987750  T
163 ttaaaacccggtgaccatgctcttggttatgacctgtctggaggagtaggagaaggaggagctgacaccaacaccaataacaaccttcctgctgccattt 262  Q
    |||||||||||||||||||||||||||||||||||||||||||||      |||||||||||||||||||||||||||||||||||||||||||||||||    
38987751 ttaaaacccggtgaccatgctcttggttatgacctgtctggagga------gaaggaggagctgacaccaacaccaataacaaccttcctgctgccattt 38987844  T
263 tgatcagcaagattagttatgccgaagtgaatggtagagttgttgctgtcaaggataagtgggaatctgattatcaactcttcttcaatgatctacaaca 362  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
38987845 tgatcagcaagattagttatgccgaagtgaatggtagagttgttgctgtcaaggataagtgggaatctgattatcaactcttcttcaatgatctacaaca 38987944  T
363 agaccctcaactactcttcaagataacagcaccctacc 400  Q
    ||||||||||||||||||||||||||||||| ||||||    
38987945 agaccctcaactactcttcaagataacagcagcctacc 38987982  T

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

Target: chr5; HSP #3
Raw Score: 301; E-Value: 1e-169
Query Start/End: Original strand, 63 - 363
Target Start/End: Original strand, 39879760 - 39880060
Alignment:
63 cgccaaaaaatatcgtttagctgatgctgtggttgctcgtgtgaaagatactggaaataatgacacaacttttcaaatcaggactcatcttggtcgtatt 162  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
39879760 cgccaaaaaatatcgtttagctgatgctgtggttgctcgtgtgaaagatactggaaataatgacacaacttttcaaatcaggactcatcttggtcgtatt 39879859  T
163 ttaaaacccggtgaccatgctcttggttatgacctgtctggaggagtaggagaaggaggagctgacaccaacaccaataacaaccttcctgctgccattt 262  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
39879860 ttaaaacccggtgaccatgctcttggttatgacctgtctggaggagtaggagaaggaggagctgacaccaacaccaataacaaccttcctgctgccattt 39879959  T
263 tgatcagcaagattagttatgccgaagtgaatggtagagttgttgctgtcaaggataagtgggaatctgattatcaactcttcttcaatgatctacaaca 362  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
39879960 tgatcagcaagattagttatgccgaagtgaatggtagagttgttgctgtcaaggataagtgggaatctgattatcaactcttcttcaatgatctacaaca 39880059  T
363 a 363  Q
    |    
39880060 a 39880060  T

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

Target: chr5; HSP #4
Raw Score: 246; E-Value: 1e-136
Query Start/End: Original strand, 64 - 400
Target Start/End: Original strand, 40418230 - 40418560
Alignment:
64 gccaaaaaatatcgtttagctgatgctgtggttgctcgtgtgaaagatactggaaataatgacacaacttttcaaatcaggactcatcttggtcgtattt 163  Q
    |||||||||||| |||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||    
40418230 gccaaaaaatattgtttagctgatgctgtggttgctcgtgtgaaagatattggaaataatgacacaacttttcaaatcaggactcatcttggtcgtattt 40418329  T
164 taaaacccggtgaccatgctcttggttatgacctgtctggaggagtaggagaaggaggagctgacaccaacaccaataacaaccttcctgctgccatttt 263  Q
    ||||||||||||||||||||||||||||||||||||||||      |||||||||||||||||||||||||| ||||| |||||||||||||||||||||    
40418330 taaaacccggtgaccatgctcttggttatgacctgtctgg------aggagaaggaggagctgacaccaacatcaatatcaaccttcctgctgccatttt 40418423  T
264 gatcagcaagattagttatgccgaagtgaatggtagagttgttgctgtcaaggataagtgggaatctgattatcaactcttcttcaatgatctacaacaa 363  Q
    ||||| |||||||||||||||||||| ||||||||||||||||||| |  | ||||||||||||||||||||||||||||||||||||||||||||||||    
40418424 gatcaccaagattagttatgccgaagagaatggtagagttgttgctcttcatgataagtgggaatctgattatcaactcttcttcaatgatctacaacaa 40418523  T
364 gaccctcaactactcttcaagataacagcaccctacc 400  Q
    ||| || |||| ||||||||  ||| |||| ||||||    
40418524 gacactaaactcctcttcaacgtaagagcagcctacc 40418560  T

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

Target: chr5; HSP #5
Raw Score: 136; E-Value: 8e-71
Query Start/End: Original strand, 64 - 366
Target Start/End: Original strand, 39168793 - 39169098
Alignment:
64 gccaaaaaatatcgtttagctgatgctgtggttgctcgtgtgaaagatactggaaataatgacacaacttttcaaatcaggactcatcttggtcgtattt 163  Q
    |||||||||||||| ||||||||||| ||||||||||||||| |||||  |||||||||||||||||||||||||||||  |||||||| |||| |||||    
39168793 gccaaaaaatatcggttagctgatgccgtggttgctcgtgtggaagattttggaaataatgacacaacttttcaaatcaaaactcatctaggtcatattt 39168892  T
164 taaaacccggtgaccatgctcttggttatgacctgtctggaggagtaggagaaggaggagctgacaccaacaccaataacaaccttcctgctgccatttt 263  Q
    ||||| |||||||| ||||||||||||||||| |||||||| |   || || |||||||||| ||||||| | ||||  | ||||||||||||| |||||    
39168893 taaaatccggtgactatgctcttggttatgacttgtctggacgtaaagaaggaggaggagctaacaccaatatcaatggcgaccttcctgctgcaatttt 39168992  T
264 gatcagcaagattagttatgccgaagtgaatggtaga---gttgttgctgtcaaggataagtgggaatctgattatcaactcttcttcaatgatctacaa 360  Q
    ||| | ||||| ||||||||  ||||  |||||||||   ||||||| |||  ||| ||||||||||||||||||||||||||| || || |||||||||    
39168993 gattaccaagagtagttatgatgaagaaaatggtagaattgttgttgttgttgagggtaagtgggaatctgattatcaactctttttaaaagatctacaa 39169092  T
361 caagac 366  Q
    ||||||    
39169093 caagac 39169098  T

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

Target: chr5; HSP #6
Raw Score: 107; E-Value: 2e-53
Query Start/End: Original strand, 64 - 201
Target Start/End: Original strand, 3299480 - 3299620
Alignment:
64 gccaaaaaatatcgtttagctgatgctgtggttgctcgtgtgaaagatactggaaataatga---cacaacttttcaaatcaggactcatcttggtcgta 160  Q
    ||||||||||||||||||||||||||  ||||||||||||||||||||| |||||||||| |   ||||||||||||||||| |||||||||||||||||    
3299480 gccaaaaaatatcgtttagctgatgccatggttgctcgtgtgaaagatattggaaataataatcacacaacttttcaaatcaagactcatcttggtcgta 3299579  T
161 ttttaaaacccggtgaccatgctcttggttatgacctgtct 201  Q
    |||||||||||||||||||||||||||||||||||||||||    
3299580 ttttaaaacccggtgaccatgctcttggttatgacctgtct 3299620  T

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

Target: chr5; HSP #7
Raw Score: 107; E-Value: 2e-53
Query Start/End: Original strand, 64 - 201
Target Start/End: Original strand, 3392373 - 3392513
Alignment:
64 gccaaaaaatatcgtttagctgatgctgtggttgctcgtgtgaaagatactggaaataatga---cacaacttttcaaatcaggactcatcttggtcgta 160  Q
    ||||||||||||||||||||||||||  ||||||||||||||||||||| |||||||||| |   ||||||||||||||||| |||||||||||||||||    
3392373 gccaaaaaatatcgtttagctgatgccatggttgctcgtgtgaaagatattggaaataataatcacacaacttttcaaatcaagactcatcttggtcgta 3392472  T
161 ttttaaaacccggtgaccatgctcttggttatgacctgtct 201  Q
    |||||||||||||||||||||||||||||||||||||||||    
3392473 ttttaaaacccggtgaccatgctcttggttatgacctgtct 3392513  T

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

Target: chr5; HSP #8
Raw Score: 102; E-Value: 2e-50
Query Start/End: Original strand, 67 - 208
Target Start/End: Original strand, 39399809 - 39399950
Alignment:
67 aaaaaatatcgtttagctgatgctgtggttgctcgtgtgaaagatactggaaataatgacacaacttttcaaatcaggactcatcttggtcgtattttaa 166  Q
    |||||||| |||||||||||||| ||||||||||||||| || ||  |||||||||||||||||||||||||||||||||||||||||||| ||||||||    
39399809 aaaaaataccgtttagctgatgccgtggttgctcgtgtggaaaattttggaaataatgacacaacttttcaaatcaggactcatcttggtcatattttaa 39399908  T
167 aacccggtgaccatgctcttggttatgacctgtctggaggag 208  Q
    || |||||||| ||||||||||||||||| ||||||||||||    
39399909 aatccggtgactatgctcttggttatgacttgtctggaggag 39399950  T

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

Target: chr5; HSP #9
Raw Score: 94; E-Value: 9e-46
Query Start/End: Original strand, 64 - 208
Target Start/End: Complemental strand, 1163824 - 1163680
Alignment:
64 gccaaaaaatatcgtttagctgatgctgtggttgctcgtgtgaaagatactggaaataatga-cacaacttttcaaatcaggactcatcttggtcgtatt 162  Q
    ||||||||||||||||||||| ||||  | ||||||||||| ||||||| |||||||||| | |||| ||||||||||||||||||||||||||||||||    
1163824 gccaaaaaatatcgtttagctaatgccatagttgctcgtgtcaaagatattggaaataataatcaca-cttttcaaatcaggactcatcttggtcgtatt 1163726  T
163 ttaaaacccggtgaccatgctcttggttatgacctgtctggaggag 208  Q
    |||||||||||||||||||||||||||||||||||| ||| |||||    
1163725 ttaaaacccggtgaccatgctcttggttatgacctgcctgaaggag 1163680  T

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

Target: chr5; HSP #10
Raw Score: 94; E-Value: 9e-46
Query Start/End: Original strand, 64 - 208
Target Start/End: Original strand, 1849912 - 1850059
Alignment:
64 gccaaaaaatatcgtttagctgatgctgtggttgctcgtgtgaaagatactggaaataatga---cacaacttttcaaatcaggactcatcttggtcgta 160  Q
    ||||||||||||||||||||| ||||  | ||||||||||||||||||| |||||||||| |   |||||||||||||||||||||||||||| ||||||    
1849912 gccaaaaaatatcgtttagctaatgccatagttgctcgtgtgaaagatattggaaataataatcacacaacttttcaaatcaggactcatcttagtcgta 1850011  T
161 ttttaaaacccggtgaccatgctcttggttatgacctgtctggaggag 208  Q
    |||||||||| ||||||||||||||||||||||||||| ||| |||||    
1850012 ttttaaaacctggtgaccatgctcttggttatgacctgcctgaaggag 1850059  T

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

Target: chr5; HSP #11
Raw Score: 87; E-Value: 1e-41
Query Start/End: Original strand, 244 - 381
Target Start/End: Original strand, 3299639 - 3299779
Alignment:
244 aaccttcctgctgccattttgatcagcaagattagttatgccgaagtg---aatggtagagttgttgctgtcaaggataagtgggaatctgattatcaac 340  Q
    ||||||||||||||||||||||||| ||| |||||||||||||||| |   ||||||||||||||||||||  |||||||||||||||||||||||||||    
3299639 aaccttcctgctgccattttgatcaccaaaattagttatgccgaagaggagaatggtagagttgttgctgttcaggataagtgggaatctgattatcaac 3299738  T
341 tcttcttcaatgatctacaacaagaccctcaactactcttc 381  Q
    ||||||| || ||||||||||||||| || |||| ||||||    
3299739 tcttcttaaaagatctacaacaagacactaaactcctcttc 3299779  T

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

Target: chr5; HSP #12
Raw Score: 87; E-Value: 1e-41
Query Start/End: Original strand, 244 - 381
Target Start/End: Original strand, 3392532 - 3392672
Alignment:
244 aaccttcctgctgccattttgatcagcaagattagttatgccgaagtg---aatggtagagttgttgctgtcaaggataagtgggaatctgattatcaac 340  Q
    ||||||||||||||||||||||||| ||| |||||||||||||||| |   ||||||||||||||||||||  |||||||||||||||||||||||||||    
3392532 aaccttcctgctgccattttgatcaccaaaattagttatgccgaagaggagaatggtagagttgttgctgttcaggataagtgggaatctgattatcaac 3392631  T
341 tcttcttcaatgatctacaacaagaccctcaactactcttc 381  Q
    ||||||| || ||||||||||||||| || |||| ||||||    
3392632 tcttcttaaaagatctacaacaagacactaaactcctcttc 3392672  T

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

Target: chr5; HSP #13
Raw Score: 59; E-Value: 7e-25
Query Start/End: Original strand, 291 - 381
Target Start/End: Complemental strand, 1163639 - 1163549
Alignment:
291 gaatggtagagttgttgctgtcaaggataagtgggaatctgattatcaactcttcttcaatgatctacaacaagaccctcaactactcttc 381  Q
    |||||||||||||||| ||||  |||||||||||||||||| ||||||||||||||| || |||||||||||||||||| |||| ||||||    
1163639 gaatggtagagttgttcctgttcaggataagtgggaatctggttatcaactcttcttaaaagatctacaacaagaccctaaactcctcttc 1163549  T

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

Target: chr5; HSP #14
Raw Score: 55; E-Value: 2e-22
Query Start/End: Original strand, 291 - 381
Target Start/End: Original strand, 1850100 - 1850190
Alignment:
291 gaatggtagagttgttgctgtcaaggataagtgggaatctgattatcaactcttcttcaatgatctacaacaagaccctcaactactcttc 381  Q
    ||||||||||||| || ||||  |||||||||||||||||||||||||||||||||| || ||| |||||||||||||| |||| ||||||    
1850100 gaatggtagagttattcctgttcaggataagtgggaatctgattatcaactcttcttaaaagatttacaacaagaccctaaactcctcttc 1850190  T

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

Target: chr5; HSP #15
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 14 - 44
Target Start/End: Original strand, 39879711 - 39879741
Alignment:
14 aggtggtggaggagaacaagaaggagaagga 44  Q
    |||||||||||||||||||||||||||||||    
39879711 aggtggtggaggagaacaagaaggagaagga 39879741  T

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

Target: chr5; HSP #16
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 93 - 195
Target Start/End: Complemental strand, 40102315 - 40102213
Alignment:
93 ggttgctcgtgtgaaagatactggaaataatgacacaacttttcaaatcaggactcatcttggtcgtattttaaaacccggtgaccatgctcttggttat 192  Q
    |||||||||||||||||||  |||||| |||||||| |  ||| | |||| ||||||||| |||  | |||| |||   |||||||||||| ||||||||    
40102315 ggttgctcgtgtgaaagattttggaaagaatgacacgagatttaatatcaagactcatctgggttatcttttgaaatttggtgaccatgcttttggttat 40102216  T
193 gac 195  Q
    |||    
40102215 gac 40102213  T

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

Target: chr5; HSP #17
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 315 - 347
Target Start/End: Original strand, 39400042 - 39400074
Alignment:
315 ggataagtgggaatctgattatcaactcttctt 347  Q
    |||||||||| ||||||||||||||||||||||    
39400042 ggataagtggcaatctgattatcaactcttctt 39400074  T

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

Target: chr4 (Bit Score: 238; Significance: 1e-131; HSPs: 2)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 238; E-Value: 1e-131
Query Start/End: Original strand, 64 - 383
Target Start/End: Complemental strand, 25912429 - 25912113
Alignment:
64 gccaaaaaatatcgtttagctgatgctgtggttgctcgtgtgaaagatactggaaataatgacacaacttttcaaatcaggactcatcttggtcgtattt 163  Q
    ||||||||||||||||||||||||| ||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||     
25912429 gccaaaaaatatcgtttagctgatgatgtggttgctcgtgtgaaagatattggaaataatgacacaacttttcaaatcaggactcatcttggtcgtattc 25912330  T
164 taaaacccggtgaccatgctcttggttatgacctgtctggaggagtaggagaaggaggagctgacaccaacaccaataacaaccttcctgctgccatttt 263  Q
    ||||||||| |||||||||||||||||||||||||||| ||||||   |||||||||||||| |||||||||||||||||||||||| ||||||||||||    
25912329 taaaacccgatgaccatgctcttggttatgacctgtctagaggag---gagaaggaggagctaacaccaacaccaataacaaccttcatgctgccatttt 25912233  T
264 gatcagcaagattagttatgccgaagtgaatggtagagttgttgctgtcaaggataagtgggaatctgattatcaactcttcttcaatgatctacaacaa 363  Q
    ||||| |||||||||||||||||||| |||||||||||||||||||||  |||||||||||||||||||||||||||||||||| ||| ||||||| |||    
25912232 gatcaccaagattagttatgccgaagagaatggtagagttgttgctgttcaggataagtgggaatctgattatcaactcttcttaaattatctacagcaa 25912133  T
364 gaccctcaactactcttcaa 383  Q
    |||||| ||||  |||||||    
25912132 gaccctaaactgatcttcaa 25912113  T

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

Target: chr4; HSP #2
Raw Score: 55; E-Value: 2e-22
Query Start/End: Original strand, 129 - 195
Target Start/End: Complemental strand, 44444838 - 44444772
Alignment:
129 aacttttcaaatcaggactcatcttggtcgtattttaaaacccggtgaccatgctcttggttatgac 195  Q
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44444838 aacttttcaaatcaagactcatcttggtcgtattttaaaacctggtgactatgctcttggttatgac 44444772  T

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