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: NF3644_low_7 (Length: 420)

Name: NF3644_low_7
Description: NF3644
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF3644_low_7
NF3644_low_7
[»] chr4 (5 HSPs)
chr4 (20-387)||(55448839-55449207)
chr4 (272-326)||(624548-624600)
chr4 (259-303)||(28815700-28815744)
chr4 (275-303)||(31187493-31187521)
chr4 (275-326)||(37868520-37868569)
[»] chr5 (3 HSPs)
chr5 (261-326)||(25460719-25460783)
chr5 (272-326)||(18890394-18890448)
chr5 (259-326)||(6167280-6167345)
[»] scaffold0003 (1 HSPs)
scaffold0003 (261-320)||(315723-315780)
[»] chr6 (1 HSPs)
chr6 (272-327)||(6196299-6196352)
[»] chr8 (1 HSPs)
chr8 (272-326)||(26217859-26217911)
[»] chr3 (2 HSPs)
chr3 (272-326)||(40739161-40739213)
chr3 (280-326)||(34102134-34102180)
[»] scaffold0006 (1 HSPs)
scaffold0006 (261-307)||(60336-60382)
[»] chr2 (2 HSPs)
chr2 (261-299)||(43398402-43398440)
chr2 (280-326)||(43214422-43214465)
[»] chr1 (2 HSPs)
chr1 (258-326)||(5863040-5863106)
chr1 (270-299)||(35283594-35283623)


Alignment Details
Target: chr4 (Bit Score: 345; Significance: 0; HSPs: 5)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 345; E-Value: 0
Query Start/End: Original strand, 20 - 387
Target Start/End: Complemental strand, 55449207 - 55448839
Alignment:
Q  20 tggtgtccaaaactcacatatggaagaacttatttgtgttgaaaatcgtcaagatgacattttcaaatttgatgaagaagtcattgaagttcaatgcgaa 119  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  55449207 tggtgtccaaaactcacatatggaagaacttatttgtgttgaaaatcgtcaagatgacattttcaaatttgatgaagaagtcattgaagttcaatgcgaa 55449108  T
Q  120 acatcacgaaacaacaatagagaagaagcagaactatcattttctgaatggttggaggtggatgagcatctggctgtgtggttcaaggtatatatacata 219  Q
    |||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  55449107 acatcacgaaacaataatagagaagaagcagaactatcattttctgaatggttggaggtggatgagcatctggctgtgtggttcaaggtatatatacata 55449008  T
Q  220 tgtgtgtatggtgctatcaaaatttagttgtttactttatattttctttattaagtagtttagtggttagagctcacacatttttaaaacgtggagaagt 319  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||    
T  55449007 tgtgtgtatggtgctatcaaaatttagttgtttactttatattttctttattaagtagtctagtggttagagctcacacatttttaaaacgtggagaagt 55448908  T
Q  320 gaggtgtaagctgt-tgaggttcgaaatttgttaattaatgatttttcttatgtttgtttattatccta 387  Q
    |||||||||||||| |||| |||||||| ||||||||||||||||||||||||||||||||||||||||    
T  55448907 gaggtgtaagctgtctgagattcgaaatatgttaattaatgatttttcttatgtttgtttattatccta 55448839  T

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

Target: chr4; HSP #2
Raw Score: 36; E-Value: 0.00000000004
Query Start/End: Original strand, 272 - 326
Target Start/End: Complemental strand, 624600 - 624548
Alignment:
Q  272 aagtagtttagtggttagagctcacacatttttaaaacgtggagaagtgaggtgt 326  Q
    ||||||||||||||||||||||||||||||||  ||| ||||||||||| |||||    
T  624600 aagtagtttagtggttagagctcacacatttt--aaatgtggagaagtggggtgt 624548  T

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Target: chr4; HSP #3
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 259 - 303
Target Start/End: Complemental strand, 28815744 - 28815700
Alignment:
Q  259 tattttctttattaagtagtttagtggttagagctcacacatttt 303  Q
    |||||| ||| | ||||||| ||||||||||||||||||||||||    
T  28815744 tattttttttgtcaagtagtctagtggttagagctcacacatttt 28815700  T

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

Target: chr4; HSP #4
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 275 - 303
Target Start/End: Original strand, 31187493 - 31187521
Alignment:
Q  275 tagtttagtggttagagctcacacatttt 303  Q
    |||||||||||||||||||||||||||||    
T  31187493 tagtttagtggttagagctcacacatttt 31187521  T

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Target: chr4; HSP #5
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 275 - 326
Target Start/End: Original strand, 37868520 - 37868569
Alignment:
Q  275 tagtttagtggttagagctcacacatttttaaaacgtggagaagtgaggtgt 326  Q
    ||||||||||||||||||||||||| |||  ||  |||||||||||||||||    
T  37868520 tagtttagtggttagagctcacacaattt--aattgtggagaagtgaggtgt 37868569  T

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Target: chr5 (Bit Score: 38; Significance: 0.000000000002; HSPs: 3)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 38; E-Value: 0.000000000002
Query Start/End: Original strand, 261 - 326
Target Start/End: Original strand, 25460719 - 25460783
Alignment:
Q  261 ttttctttattaagtagtttagtggttagagctcacacatttttaaaacgtggagaagtgaggtgt 326  Q
    |||| ||||| ||||||| ||||||||||||||||||||||||| ||| ||||||||||| |||||    
T  25460719 ttttttttatcaagtagtctagtggttagagctcacacattttt-aaatgtggagaagtggggtgt 25460783  T

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

Target: chr5; HSP #2
Raw Score: 35; E-Value: 0.0000000002
Query Start/End: Original strand, 272 - 326
Target Start/End: Complemental strand, 18890448 - 18890394
Alignment:
Q  272 aagtagtttagtggttagagctcacacatttttaaaacgtggagaagtgaggtgt 326  Q
    ||||||| |||||||||||| |||||||||||| ||| ||||||||||| |||||    
T  18890448 aagtagtctagtggttagaggtcacacattttttaaatgtggagaagtggggtgt 18890394  T

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Target: chr5; HSP #3
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 259 - 326
Target Start/End: Complemental strand, 6167345 - 6167280
Alignment:
Q  259 tattttctttattaagtagtttagtggttagagctcacacatttttaaaacgtggagaagtgaggtgt 326  Q
    |||||| ||| ||||||||  |||||| |||||||||||||||||  ||| |||||||||||||||||    
T  6167345 tattttttttgttaagtagcctagtggctagagctcacacatttt--aaatgtggagaagtgaggtgt 6167280  T

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Target: scaffold0003 (Bit Score: 33; Significance: 0.000000002; HSPs: 1)
Name: scaffold0003
Description:

Target: scaffold0003; HSP #1
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 261 - 320
Target Start/End: Complemental strand, 315780 - 315723
Alignment:
Q  261 ttttctttattaagtagtttagtggttagagctcacacatttttaaaacgtggagaagtg 320  Q
    |||| ||||| |||||||||||||||||||| |||||||||||  ||| |||||||||||    
T  315780 ttttttttatcaagtagtttagtggttagagttcacacatttt--aaatgtggagaagtg 315723  T

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Target: chr6 (Bit Score: 33; Significance: 0.000000002; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 272 - 327
Target Start/End: Original strand, 6196299 - 6196352
Alignment:
Q  272 aagtagtttagtggttagagctcacacatttttaaaacgtggagaagtgaggtgta 327  Q
    ||||| ||||||||||| ||||||||||||||  ||||||||||||||||| ||||    
T  6196299 aagtaatttagtggttaaagctcacacatttt--aaacgtggagaagtgagatgta 6196352  T

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Target: chr8 (Bit Score: 32; Significance: 0.000000009; HSPs: 1)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 32; E-Value: 0.000000009
Query Start/End: Original strand, 272 - 326
Target Start/End: Complemental strand, 26217911 - 26217859
Alignment:
Q  272 aagtagtttagtggttagagctcacacatttttaaaacgtggagaagtgaggtgt 326  Q
    |||||||||||||||| ||| |||||||||||  ||| |||||||||||||||||    
T  26217911 aagtagtttagtggttggagatcacacatttt--aaatgtggagaagtgaggtgt 26217859  T

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Target: chr3 (Bit Score: 32; Significance: 0.000000009; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 32; E-Value: 0.000000009
Query Start/End: Original strand, 272 - 326
Target Start/End: Original strand, 40739161 - 40739213
Alignment:
Q  272 aagtagtttagtggttagagctcacacatttttaaaacgtggagaagtgaggtgt 326  Q
    ||||||| |||||| |||||||||||||||||  |||| ||||||||||||||||    
T  40739161 aagtagtctagtggctagagctcacacatttt--aaacatggagaagtgaggtgt 40739213  T

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Target: chr3; HSP #2
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 280 - 326
Target Start/End: Complemental strand, 34102180 - 34102134
Alignment:
Q  280 tagtggttagagctcacacatttttaaaacgtggagaagtgaggtgt 326  Q
    |||||||| |||||||||||||||| ||| |||||||| ||||||||    
T  34102180 tagtggttggagctcacacattttttaaatgtggagaaatgaggtgt 34102134  T

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Target: scaffold0006 (Bit Score: 31; Significance: 0.00000004; HSPs: 1)
Name: scaffold0006
Description:

Target: scaffold0006; HSP #1
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 261 - 307
Target Start/End: Complemental strand, 60382 - 60336
Alignment:
Q  261 ttttctttattaagtagtttagtggttagagctcacacatttttaaa 307  Q
    |||| ||||| |||||| ||||||||||||| |||||||||||||||    
T  60382 ttttttttatcaagtagcttagtggttagagttcacacatttttaaa 60336  T

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Target: chr2 (Bit Score: 31; Significance: 0.00000004; HSPs: 2)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 261 - 299
Target Start/End: Complemental strand, 43398440 - 43398402
Alignment:
Q  261 ttttctttattaagtagtttagtggttagagctcacaca 299  Q
    |||||||||| ||||||| ||||||||||||||||||||    
T  43398440 ttttctttatcaagtagtctagtggttagagctcacaca 43398402  T

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

Target: chr2; HSP #2
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 280 - 326
Target Start/End: Complemental strand, 43214465 - 43214422
Alignment:
Q  280 tagtggttagagctcacacatttttaaaacgtggagaagtgaggtgt 326  Q
    |||||||||||||||||||| ||   |||||||||||||||||||||    
T  43214465 tagtggttagagctcacacaatt---aaacgtggagaagtgaggtgt 43214422  T

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

Target: chr1 (Bit Score: 30; Significance: 0.0000001; HSPs: 2)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 258 - 326
Target Start/End: Complemental strand, 5863106 - 5863040
Alignment:
Q  258 atattttctttattaagtagtttagtggttagagctcacacatttttaaaacgtggagaagtgaggtgt 326  Q
    ||||||| ||| | ||||||| ||||||||||| |||||||||||| || ||  |||||||||||||||    
T  5863106 atattttttttgtcaagtagtctagtggttagaactcacacattttaaatac--ggagaagtgaggtgt 5863040  T

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

Target: chr1; HSP #2
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 270 - 299
Target Start/End: Complemental strand, 35283623 - 35283594
Alignment:
Q  270 ttaagtagtttagtggttagagctcacaca 299  Q
    ||||||||||||||||||||||||||||||    
T  35283623 ttaagtagtttagtggttagagctcacaca 35283594  T

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