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: NF5404_low_31 (Length: 283)

Name: NF5404_low_31
Description: NF5404
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF5404_low_31
NF5404_low_31
[»] chr2 (6 HSPs)
chr2 (13-266)||(39614617-39614875)
chr2 (97-256)||(25424168-25424328)
chr2 (54-211)||(21546647-21546805)
chr2 (93-266)||(23152910-23153082)
chr2 (93-266)||(23564167-23564339)
chr2 (140-207)||(27156023-27156090)
[»] chr7 (1 HSPs)
chr7 (13-225)||(13826937-13827149)
[»] chr6 (1 HSPs)
chr6 (63-266)||(32983566-32983769)
[»] chr3 (3 HSPs)
chr3 (91-265)||(14308985-14309155)
chr3 (97-248)||(34056773-34056925)
chr3 (91-193)||(39212861-39212963)
[»] scaffold0740 (1 HSPs)
scaffold0740 (144-266)||(3306-3428)
[»] chr5 (3 HSPs)
chr5 (146-266)||(18924685-18924805)
chr5 (88-211)||(34234614-34234737)
chr5 (159-266)||(25942312-25942418)
[»] chr4 (1 HSPs)
chr4 (92-211)||(29896118-29896235)
[»] chr8 (1 HSPs)
chr8 (104-207)||(32135046-32135150)
[»] scaffold0735 (1 HSPs)
scaffold0735 (132-207)||(3143-3218)
[»] chr1 (2 HSPs)
chr1 (132-207)||(42879822-42879897)
chr1 (140-204)||(17247318-17247382)


Alignment Details
Target: chr2 (Bit Score: 179; Significance: 1e-96; HSPs: 6)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 179; E-Value: 1e-96
Query Start/End: Original strand, 13 - 266
Target Start/End: Original strand, 39614617 - 39614875
Alignment:
Q  13 aatattttattaaatatgttattttccaaaagcaattatggttttcatgcaaaatcacattatatgaaaataaccgtaagtgtgtgatttattttcaaga 112  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||    
T  39614617 aatattttattaaatatgttattttccaaaagcaattatggttttcatgcaaaatcacattatatgaaaataactgtaagtgtgtgatttattttcaaga 39614716  T
Q  113 gatttttagacattattttatatggggacttagaaaaatgtttgtaattattttttgagc-----attttaagttgttctataagttaagaatgataaat 207  Q
    |||||||||||||||||| |||||||||||||||||||  ||| ||||||||||||  ||     ||| ||| ||||| |||||||||||||||||||||    
T  39614717 gatttttagacattatttcatatggggacttagaaaaaaatttataattattttttttgcattctattctaaattgttttataagttaagaatgataaat 39614816  T
Q  208 caaagataaggaccatacatacaaaaatataactttgaagcttaagtcctattatcttc 266  Q
    |||||||||| || || | |||||||||||||||||||||| |||||||||||||||||    
T  39614817 caaagataagaactatccttacaaaaatataactttgaagcctaagtcctattatcttc 39614875  T

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Target: chr2; HSP #2
Raw Score: 85; E-Value: 1e-40
Query Start/End: Original strand, 97 - 256
Target Start/End: Original strand, 25424168 - 25424328
Alignment:
Q  97 tgatttattttcaagagatttttagacattattttatatggggacttagaaaaatgtttgtaattattttttgagcattttaagttgttctataagttaa 196  Q
    ||||||||||||| ||||  ||||| ||||  || ||||||||||||||||||| ||||||||||||||| |||||||| |||||||||| |||||||||    
T  25424168 tgatttattttcatgagagctttaggcattgcttcatatggggacttagaaaaaggtttgtaattattttctgagcattctaagttgttccataagttaa 25424267  T
Q  197 gaatgataaatc-aaagataaggaccatacatacaaaaatataactttgaagcttaagtcc 256  Q
    |||||||||||| ||||||||||||||||| |  ||||||| |||| |||||| |||||||    
T  25424268 gaatgataaatcaaaagataaggaccatacttggaaaaatacaactatgaagcctaagtcc 25424328  T

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

Target: chr2; HSP #3
Raw Score: 79; E-Value: 6e-37
Query Start/End: Original strand, 54 - 211
Target Start/End: Original strand, 21546647 - 21546805
Alignment:
Q  54 ttttcatgcaaaatcacat-tatatgaaaataaccgtaagtgtgtgatttattttcaagagatttttagacattattttatatggggacttagaaaaatg 152  Q
    |||||||||||| |||| | ||| ||||||| | | | |||||||||||||||||||| |||||||||| ||||  || |||||| |||||| |||||||    
T  21546647 ttttcatgcaaagtcacttatatttgaaaatcatcttgagtgtgtgatttattttcaaaagatttttaggcattgcttcatatggtgacttaaaaaaatg 21546746  T
Q  153 tttgtaattattttttgagcattttaagttgttctataagttaagaatgataaatcaaa 211  Q
    |||||||||||||| ||| |||| |||||||||| ||||||||||||||||||||||||    
T  21546747 tttgtaattattttctgaacattctaagttgttccataagttaagaatgataaatcaaa 21546805  T

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

Target: chr2; HSP #4
Raw Score: 78; E-Value: 2e-36
Query Start/End: Original strand, 93 - 266
Target Start/End: Original strand, 23152910 - 23153082
Alignment:
Q  93 tgtgtgatttattttcaagagatttttagacattattttatatggggacttagaaaaatgtttgtaattattttttgagcattttaagttgttctataag 192  Q
    ||||||||||||||||||||||||||| |  |||  || ||||||||||||||| ||||| | ||||||||||| |||||||| |||  ||||| |||||    
T  23152910 tgtgtgatttattttcaagagatttttggt-attgcttcatatggggacttagagaaatgatagtaattattttctgagcattctaatgtgttccataag 23153008  T
Q  193 ttaagaatgataaatcaaagataaggaccatacatacaaaaatataactttgaagcttaagtcctattatcttc 266  Q
    |||| |||||||||| ||| |||||||||||||  |||||||||||||| |||| | ||||||| |||||||||    
T  23153009 ttaaaaatgataaataaaaaataaggaccatactgacaaaaatataactatgaaacctaagtccaattatcttc 23153082  T

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Target: chr2; HSP #5
Raw Score: 78; E-Value: 2e-36
Query Start/End: Original strand, 93 - 266
Target Start/End: Original strand, 23564167 - 23564339
Alignment:
Q  93 tgtgtgatttattttcaagagatttttagacattattttatatggggacttagaaaaatgtttgtaattattttttgagcattttaagttgttctataag 192  Q
    ||||||||||||||||||||||||||| |  |||  || ||||||||||||||| ||||| | ||||||||||| |||||||| |||  ||||| |||||    
T  23564167 tgtgtgatttattttcaagagatttttggt-attgcttcatatggggacttagagaaatgatagtaattattttctgagcattctaatgtgttccataag 23564265  T
Q  193 ttaagaatgataaatcaaagataaggaccatacatacaaaaatataactttgaagcttaagtcctattatcttc 266  Q
    |||| |||||||||| ||| |||||||||||||  |||||||||||||| |||| | ||||||| |||||||||    
T  23564266 ttaaaaatgataaataaaaaataaggaccatactgacaaaaatataactatgaaacctaagtccaattatcttc 23564339  T

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Target: chr2; HSP #6
Raw Score: 52; E-Value: 7e-21
Query Start/End: Original strand, 140 - 207
Target Start/End: Complemental strand, 27156090 - 27156023
Alignment:
Q  140 acttagaaaaatgtttgtaattattttttgagcattttaagttgttctataagttaagaatgataaat 207  Q
    ||||||||||||||||||||||||||| |||||||| |||||||||| |||| |||||||||||||||    
T  27156090 acttagaaaaatgtttgtaattattttctgagcattctaagttgttccataatttaagaatgataaat 27156023  T

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Target: chr7 (Bit Score: 177; Significance: 2e-95; HSPs: 1)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 177; E-Value: 2e-95
Query Start/End: Original strand, 13 - 225
Target Start/End: Complemental strand, 13827149 - 13826937
Alignment:
Q  13 aatattttattaaatatgttattttccaaaagcaattatggttttcatgcaaaatcacattatatgaaaataaccgtaagtgtgtgatttattttcaaga 112  Q
    |||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||| | |||||||||||||||||| ||||    
T  13827149 aatattttattaaatatgctattttccaaaagcaattatggttttcatgcaaaatcacattatatgaaaataactgcaagtgtgtgatttatttttaaga 13827050  T
Q  113 gatttttagacattattttatatggggacttagaaaaatgtttgtaattattttttgagcattttaagttgttctataagttaagaatgataaatcaaag 212  Q
     ||||||||||||||||| ||||||||||||||||||||||||||||||||||||| |||||| ||||||||||||||||||||||||||||||||||||    
T  13827049 aatttttagacattatttcatatggggacttagaaaaatgtttgtaattattttttaagcattctaagttgttctataagttaagaatgataaatcaaag 13826950  T
Q  213 ataaggaccatac 225  Q
    ||||| |||||||    
T  13826949 ataagaaccatac 13826937  T

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Target: chr6 (Bit Score: 93; Significance: 2e-45; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 93; E-Value: 2e-45
Query Start/End: Original strand, 63 - 266
Target Start/End: Complemental strand, 32983769 - 32983566
Alignment:
Q  63 aaaatcacattatatgaaaataaccgtaagtgtgtgatttattttcaagagatttttagacattattttatatggggacttagaaaaa-tgtttgtaatt 161  Q
    ||||||||  ||||||||||| |  || |||||||||||| ||||||  | | |||||| ||||  || |||||| |||||||||||| ||||| |||||    
T  32983769 aaaatcactatatatgaaaatcaatgtgagtgtgtgatttcttttcatcatagttttag-cattgcttcatatggagacttagaaaaaatgtttataatt 32983671  T
Q  162 attttttgagcattttaagttgttctataagttaagaatgataaatcaaagataaggaccatacatacaaaaatataactttgaagcttaagtcctatta 261  Q
    ||||| |||||||| |||||||||| |||||||||||||||||||||||||||||||||||||| ||||||||||||||| |||||| ||||||| |||     
T  32983670 attttctgagcattctaagttgttccataagttaagaatgataaatcaaagataaggaccatacttacaaaaatataactatgaagcctaagtcccattg 32983571  T
Q  262 tcttc 266  Q
    |||||    
T  32983570 tcttc 32983566  T

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Target: chr3 (Bit Score: 84; Significance: 6e-40; HSPs: 3)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 84; E-Value: 6e-40
Query Start/End: Original strand, 91 - 265
Target Start/End: Original strand, 14308985 - 14309155
Alignment:
Q  91 agtgtgtgatttattttcaagagatttttagacattattttatatggggacttag-aaaaatgtttgtaattattttttgagcattttaagttgttctat 189  Q
    ||||||||||||||||||| ||||||||||| ||||  || ||||||| ||| || |||||||||||||||||||||||||||||| |||||      ||    
T  14308985 agtgtgtgatttattttcatgagatttttaggcattgcttcatatgggtactcagaaaaaatgtttgtaattattttttgagcattctaagt-----cat 14309079  T
Q  190 aagttaagaatgataaatcaaagataaggaccatacatacaaaaatataactttgaagcttaagtcctattatctt 265  Q
     ||||||||||||||||||||||||||||||||||  ||||||||||||||| |||||  ||||||| ||||||||    
T  14309080 gagttaagaatgataaatcaaagataaggaccataattacaaaaatataactatgaagtctaagtcccattatctt 14309155  T

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Target: chr3; HSP #2
Raw Score: 73; E-Value: 2e-33
Query Start/End: Original strand, 97 - 248
Target Start/End: Original strand, 34056773 - 34056925
Alignment:
Q  97 tgatttattttcaagagatttttagacattattttatatggggacttagaaaaatgtttgtaattattttttgagcattttaagttgttctataagttaa 196  Q
    ||||||||||| | ||||  ||||| ||||  || ||||| |||||||||||||  |||||||||||||| |||||||| | |||||||| |||||||||    
T  34056773 tgatttattttaacgagagctttaggcattgcttcatatgaggacttagaaaaagttttgtaattattttctgagcattatgagttgttccataagttaa 34056872  T
Q  197 gaatgataaatc-aaagataaggaccatacatacaaaaatataactttgaagc 248  Q
    |||||||||||| ||| ||||||||||||| ||||||||||||||| ||||||    
T  34056873 gaatgataaatcaaaatataaggaccatacttacaaaaatataactatgaagc 34056925  T

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

Target: chr3; HSP #3
Raw Score: 43; E-Value: 0.000000000000002
Query Start/End: Original strand, 91 - 193
Target Start/End: Complemental strand, 39212963 - 39212861
Alignment:
Q  91 agtgtgtgatttattttcaagagatttttagacattattttatatggggacttagaaaaatgtttgtaattattttttgagcattttaagttgttctata 190  Q
    ||||||| |||||| |||| ||||||| ||||||||  |||||||| ||| ||| |||||| ||| |||||||||| | |||||| ||| ||||||||||    
T  39212963 agtgtgttatttatcttcacgagatttctagacattgctttatatgtggatttaaaaaaatatttttaattattttctaagcattctaaattgttctata 39212864  T
Q  191 agt 193  Q
    |||    
T  39212863 agt 39212861  T

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Target: scaffold0740 (Bit Score: 75; Significance: 1e-34; HSPs: 1)
Name: scaffold0740
Description:

Target: scaffold0740; HSP #1
Raw Score: 75; E-Value: 1e-34
Query Start/End: Original strand, 144 - 266
Target Start/End: Complemental strand, 3428 - 3306
Alignment:
Q  144 agaaaaatgtttgtaattattttttgagcattttaagttgttctataagttaagaatgataaatcaaagataaggaccatacatacaaaaatataacttt 243  Q
    ||||||| ||||||||||||||| | || ||| ||||||||||||||||||||||||||||||||||| |||||||  |||| ||||||||||||||  |    
T  3428 agaaaaacgtttgtaattattttcttagtattctaagttgttctataagttaagaatgataaatcaaaaataaggaatatacttacaaaaatataacaat 3329  T
Q  244 gaagcttaagtcctattatcttc 266  Q
    ||||||||||||| |||||||||    
T  3328 gaagcttaagtcccattatcttc 3306  T

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Target: chr5 (Bit Score: 73; Significance: 2e-33; HSPs: 3)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 73; E-Value: 2e-33
Query Start/End: Original strand, 146 - 266
Target Start/End: Complemental strand, 18924805 - 18924685
Alignment:
Q  146 aaaaatgtttgtaattattttttgagcattttaagttgttctataagttaagaatgataaatcaaagataaggaccatacatacaaaaatataactttga 245  Q
    |||||||| |||||||||||| |||||||| |||||||||| |||| |||||||||||||||||||||||||||  |||| ||||||||||||||| |||    
T  18924805 aaaaatgtgtgtaattattttatgagcattctaagttgttccataaattaagaatgataaatcaaagataaggattatacttacaaaaatataactatga 18924706  T
Q  246 agcttaagtcctattatcttc 266  Q
    ||| ||| || ||||||||||    
T  18924705 agcctaaatcatattatcttc 18924685  T

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

Target: chr5; HSP #2
Raw Score: 65; E-Value: 1e-28
Query Start/End: Original strand, 88 - 211
Target Start/End: Complemental strand, 34234737 - 34234614
Alignment:
Q  88 gtaagtgtgtgatttattttcaagagatttttagacattattttatatggggacttagaaaaa-tgtttgtaattattttttgagcattttaagttgttc 186  Q
    |||||||||||||||||||||||||||| || || ||||  || ||||| ||||||||||||| |||||||||||||||| |||||||| ||| || |||    
T  34234737 gtaagtgtgtgatttattttcaagagatatt-aggcattgcttcatatgcggacttagaaaaaatgtttgtaattattttctgagcattctaaattattc 34234639  T
Q  187 tataagttaagaatgataaatcaaa 211  Q
     ||||||||||||||||||||||||    
T  34234638 cataagttaagaatgataaatcaaa 34234614  T

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

Target: chr5; HSP #3
Raw Score: 44; E-Value: 4e-16
Query Start/End: Original strand, 159 - 266
Target Start/End: Complemental strand, 25942418 - 25942312
Alignment:
Q  159 attattttttgagcattttaagttgttctataagttaagaatgataaatcaaagataaggaccatacatacaaaaatataactttgaagcttaagtccta 258  Q
    |||||||| |||| ||| |||||||||| ||||||||| ||| |||||| |||||||| ||| |||| ||||||||||||||  |||||| ||||| | |    
T  25942418 attattttctgagtattctaagttgttccataagttaataatcataaat-aaagataaagacaatacttacaaaaatataacaatgaagcctaagttcca 25942320  T
Q  259 ttatcttc 266  Q
    ||||||||    
T  25942319 ttatcttc 25942312  T

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Target: chr4 (Bit Score: 68; Significance: 2e-30; HSPs: 1)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 68; E-Value: 2e-30
Query Start/End: Original strand, 92 - 211
Target Start/End: Complemental strand, 29896235 - 29896118
Alignment:
Q  92 gtgtgtgatttattttcaagagatttttagacattattttatatggggacttagaaaaatgtttgtaattattttttgagcattttaagttgttctataa 191  Q
    |||||||||||||||||||||||  ||||| |||| ||| ||||||| | ||||||||||||||||||||||||| |||||||| |||||| ||| ||||    
T  29896235 gtgtgtgatttattttcaagagagctttag-cattgtttcatatggg-atttagaaaaatgtttgtaattattttctgagcattctaagttattccataa 29896138  T
Q  192 gttaagaatgataaatcaaa 211  Q
    ||||||||||||||||||||    
T  29896137 gttaagaatgataaatcaaa 29896118  T

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

Target: chr8 (Bit Score: 57; Significance: 7e-24; HSPs: 1)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 57; E-Value: 7e-24
Query Start/End: Original strand, 104 - 207
Target Start/End: Complemental strand, 32135150 - 32135046
Alignment:
Q  104 ttttcaagagatttttagacattattttatatg-gggacttagaaaaatgtttgtaattattttttgagcattttaagttgttctataagttaagaatga 202  Q
    ||||||||| |||||||| ||||  || ||||| |||||||||| |||||| |||||||||||| ||||||||||||||||||| |||| ||||||||||    
T  32135150 ttttcaagaaatttttaggcattgcttcatatgagggacttagagaaatgtctgtaattattttctgagcattttaagttgttccataatttaagaatga 32135051  T
Q  203 taaat 207  Q
    |||||    
T  32135050 taaat 32135046  T

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Target: scaffold0735 (Bit Score: 56; Significance: 3e-23; HSPs: 1)
Name: scaffold0735
Description:

Target: scaffold0735; HSP #1
Raw Score: 56; E-Value: 3e-23
Query Start/End: Original strand, 132 - 207
Target Start/End: Original strand, 3143 - 3218
Alignment:
Q  132 atatggggacttagaaaaatgtttgtaattattttttgagcattttaagttgttctataagttaagaatgataaat 207  Q
    |||||| |||||||||||||||| ||||||||||| |||||||| |||||||||| ||||||||||||||||||||    
T  3143 atatggtgacttagaaaaatgttagtaattattttctgagcattctaagttgttccataagttaagaatgataaat 3218  T

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Target: chr1 (Bit Score: 56; Significance: 3e-23; HSPs: 2)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 56; E-Value: 3e-23
Query Start/End: Original strand, 132 - 207
Target Start/End: Complemental strand, 42879897 - 42879822
Alignment:
Q  132 atatggggacttagaaaaatgtttgtaattattttttgagcattttaagttgttctataagttaagaatgataaat 207  Q
    |||||| |||||||||||||||| ||||||||||| |||||||| |||||||||| ||||||||||||||||||||    
T  42879897 atatggtgacttagaaaaatgttagtaattattttctgagcattctaagttgttccataagttaagaatgataaat 42879822  T

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

Target: chr1; HSP #2
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 140 - 204
Target Start/End: Original strand, 17247318 - 17247382
Alignment:
Q  140 acttagaaaaatgtttgtaattattttttgagcattttaagttgttctataagttaagaatgata 204  Q
    |||||| ||||||||||||||||| || |||| ||| ||| || ||| |||||||||||||||||    
T  17247318 acttagtaaaatgtttgtaattatcttctgagtattctaatttattccataagttaagaatgata 17247382  T

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