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: NF1999_low_25 (Length: 389)

Name: NF1999_low_25
Description: NF1999
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF1999_low_25
NF1999_low_25
[»] chr1 (8 HSPs)
chr1 (16-383)||(48655559-48655925)
chr1 (16-156)||(48628118-48628258)
chr1 (16-149)||(48652320-48652453)
chr1 (16-156)||(48666361-48666501)
chr1 (16-191)||(48660734-48660909)
chr1 (19-156)||(48619005-48619142)
chr1 (16-156)||(48584535-48584675)
chr1 (19-156)||(11546424-11546561)
[»] chr8 (2 HSPs)
chr8 (48-156)||(27223157-27223265)
chr8 (48-156)||(27227348-27227456)
[»] chr3 (1 HSPs)
chr3 (16-101)||(19666358-19666443)


Alignment Details
Target: chr1 (Bit Score: 307; Significance: 1e-173; HSPs: 8)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 307; E-Value: 1e-173
Query Start/End: Original strand, 16 - 383
Target Start/End: Complemental strand, 48655925 - 48655559
Alignment:
Q  16 aagaagtgcttgttggaagctacaacaggggaaaaagcagaggagttgaagaaaaatgcaatcaagtggaagaaggcagcggaggatgcagttgccgtag 115  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  48655925 aagaagtgcttgttggaagctacaacaggggaaaaagcagaggagttgaagaaaaatgcaatcaagtggaagaaggcagcggaggatgcagttgccgtag 48655826  T
Q  116 gtggatcctccgaccgatatcttgatgcatttatcgaagacgttgcgaaacaaggcgctgttaattttcagaagatatgataaactacccatagcggaaa 215  Q
    |||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||    
T  48655825 gtggatcctccgaccgatatcttgatgcatttatcgaagaagttgcgaaacaaggcgctgttaattttcagaagatatgataaactacccataggggaaa 48655726  T
Q  216 caatgtcacccaaatgctatcctaggggttaataaatttaggtatgaaaattccaaaaagagaaagtactctgcttattaggtggagagctcatgtagta 315  Q
    |||| |||||||| |||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  48655725 caatttcacccaagtgctatcctaggggataataaatttaggtatgaaaattccaaaaagagaaagtactctgcttattaggtggagagctcatgtagta 48655626  T
Q  316 gnnnnnnnnaatgtagtagttattttagtagaagcataaagtaataaataatttgatatattcttgga 383  Q
    |        |||||||||||||||||| ||||||||||||||||||||||||||||||| || |||||    
T  48655625 g-tttttttaatgtagtagttattttattagaagcataaagtaataaataatttgatatgtttttgga 48655559  T

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

Target: chr1; HSP #2
Raw Score: 81; E-Value: 5e-38
Query Start/End: Original strand, 16 - 156
Target Start/End: Complemental strand, 48628258 - 48628118
Alignment:
Q  16 aagaagtgcttgttggaagctacaacaggggaaaaagcagaggagttgaagaaaaatgcaatcaagtggaagaaggcagcggaggatgcagttgccgtag 115  Q
    ||||||||||| |||||||| ||||||||||||||||||||||||||||||||||||||||| |||||||||||||  || ||||| ||||| ||||| |    
T  48628258 aagaagtgcttattggaagcaacaacaggggaaaaagcagaggagttgaagaaaaatgcaatgaagtggaagaaggaggcagaggaagcagtggccgttg 48628159  T
Q  116 gtggatcctccgaccgatatcttgatgcatttatcgaagac 156  Q
    |||||||||| ||  |  |||||||||||||||| ||||||    
T  48628158 gtggatcctctgattggaatcttgatgcatttatggaagac 48628118  T

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

Target: chr1; HSP #3
Raw Score: 78; E-Value: 3e-36
Query Start/End: Original strand, 16 - 149
Target Start/End: Complemental strand, 48652453 - 48652320
Alignment:
Q  16 aagaagtgcttgttggaagctacaacaggggaaaaagcagaggagttgaagaaaaatgcaatcaagtggaagaaggcagcggaggatgcagttgccgtag 115  Q
    |||||||||||||||||||| |   | ||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||| |||||| |||    
T  48652453 aagaagtgcttgttggaagcaatggctggggaaaaagcagaggagttgaagaaaaatgcaatcaagtggaagaaagcagcggaggatgcggttgccatag 48652354  T
Q  116 gtggatcctccgaccgatatcttgatgcatttat 149  Q
    ||||||| || || |   ||||||||||||||||    
T  48652353 gtggatcatctgatctgcatcttgatgcatttat 48652320  T

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

Target: chr1; HSP #4
Raw Score: 73; E-Value: 3e-33
Query Start/End: Original strand, 16 - 156
Target Start/End: Complemental strand, 48666501 - 48666361
Alignment:
Q  16 aagaagtgcttgttggaagctacaacaggggaaaaagcagaggagttgaagaaaaatgcaatcaagtggaagaaggcagcggaggatgcagttgccgtag 115  Q
    ||||| ||||| ||||||| ||||||||||||||||||||||  ||||||||||||||||| ||||| ||| ||||| |||||||| ||||| || || |    
T  48666501 aagaaatgcttattggaagttacaacaggggaaaaagcagagacgttgaagaaaaatgcaaccaagttgaaaaaggcggcggaggaagcagtggcggttg 48666402  T
Q  116 gtggatcctccgaccgatatcttgatgcatttatcgaagac 156  Q
    |||| ||||| |||||| |||||||||||||||| ||||||    
T  48666401 gtggttcctcggaccgacatcttgatgcatttatggaagac 48666361  T

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

Target: chr1; HSP #5
Raw Score: 72; E-Value: 1e-32
Query Start/End: Original strand, 16 - 191
Target Start/End: Complemental strand, 48660909 - 48660734
Alignment:
Q  16 aagaagtgcttgttggaagctacaacaggggaaaaagcagaggagttgaagaaaaatgcaatcaagtggaagaaggcagcggaggatgcagttgccgtag 115  Q
    ||||||||||| |||||||| | |||||||||||||||||||  ||||||  |||||||||| |||||||||| |||||| ||||||||  | || || |    
T  48660909 aagaagtgcttattggaagcaataacaggggaaaaagcagagaggttgaaacaaaatgcaatgaagtggaagacggcagcagaggatgcgatggcagtcg 48660810  T
Q  116 gtggatcctccgaccgatatcttgatgcatttatcgaagacgttgcgaaacaaggcgctgttaattttcagaagat 191  Q
    |||| ||||| |||||| ||||||||||||||||| ||||| ||  |||||| ||| ||| |||| ||||||||||    
T  48660809 gtggttcctcggaccgacatcttgatgcatttatccaagacattaagaaacatggcactggtaatattcagaagat 48660734  T

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Target: chr1; HSP #6
Raw Score: 70; E-Value: 2e-31
Query Start/End: Original strand, 19 - 156
Target Start/End: Original strand, 48619005 - 48619142
Alignment:
Q  19 aagtgcttgttggaagctacaacaggggaaaaagcagaggagttgaagaaaaatgcaatcaagtggaagaaggcagcggaggatgcagttgccgtaggtg 118  Q
    ||||| || |||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||   ||||| || ||||| ||| | ||||    
T  48619005 aagtgtttattggaagctacaacaggggaaaaagcagaggagttgaagaaaaatgcaatgaagtggaagaagaaggcggatgaagcagtggccattggtg 48619104  T
Q  119 gatcctccgaccgatatcttgatgcatttatcgaagac 156  Q
    ||||||| || ||  ||||||||| |||||| ||||||    
T  48619105 gatcctctgatcggaatcttgatgaatttatggaagac 48619142  T

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

Target: chr1; HSP #7
Raw Score: 49; E-Value: 6e-19
Query Start/End: Original strand, 16 - 156
Target Start/End: Complemental strand, 48584675 - 48584535
Alignment:
Q  16 aagaagtgcttgttggaagctacaacaggggaaaaagcagaggagttgaagaaaaatgcaatcaagtggaagaaggcagcggaggatgcagttgccgtag 115  Q
    |||||||| || |||||||| |||| ||| |||||||||||| |||||||| ||||||||| |||||||||||||   |||||||| ||  | ||||| |    
T  48584675 aagaagtgtttattggaagcaacaataggtgaaaaagcagagaagttgaagcaaaatgcaaacaagtggaagaagaaggcggaggaagctttggccgttg 48584576  T
Q  116 gtggatcctccgaccgatatcttgatgcatttatcgaagac 156  Q
    |||||||||| || ||  |||||||||  ||||| ||||||    
T  48584575 gtggatcctctgatcggaatcttgatgagtttatggaagac 48584535  T

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

Target: chr1; HSP #8
Raw Score: 46; E-Value: 4e-17
Query Start/End: Original strand, 19 - 156
Target Start/End: Complemental strand, 11546561 - 11546424
Alignment:
Q  19 aagtgcttgttggaagctacaacaggggaaaaagcagaggagttgaagaaaaatgcaatcaagtggaagaaggcagcggaggatgcagttgccgtaggtg 118  Q
    |||||||| || ||||| |||| |||||||||||| ||||| ||||||||||||||||| |||||||||||    || ||||| ||||| ||| | ||||    
T  11546561 aagtgcttattagaagcaacaataggggaaaaagctgaggatttgaagaaaaatgcaataaagtggaagaaaaaggctgaggaagcagtggccattggtg 11546462  T
Q  119 gatcctccgaccgatatcttgatgcatttatcgaagac 156  Q
    ||||||| || ||  ||||||||| |||| | ||||||    
T  11546461 gatcctctgatcggaatcttgatgaatttttggaagac 11546424  T

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

Target: chr8 (Bit Score: 65; Significance: 2e-28; HSPs: 2)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 65; E-Value: 2e-28
Query Start/End: Original strand, 48 - 156
Target Start/End: Complemental strand, 27223265 - 27223157
Alignment:
Q  48 aaaagcagaggagttgaagaaaaatgcaatcaagtggaagaaggcagcggaggatgcagttgccgtaggtggatcctccgaccgatatcttgatgcattt 147  Q
    ||||||||||||||||||| |||| ||||||||||||||||||||||| |||| ||| |||||| ||||||||||||| || | | ||||||||||||||    
T  27223265 aaaagcagaggagttgaagcaaaacgcaatcaagtggaagaaggcagcagaggctgctgttgccataggtggatcctctgatcaacatcttgatgcattt 27223166  T
Q  148 atcgaagac 156  Q
    || ||||||    
T  27223165 atggaagac 27223157  T

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

Target: chr8; HSP #2
Raw Score: 53; E-Value: 3e-21
Query Start/End: Original strand, 48 - 156
Target Start/End: Complemental strand, 27227456 - 27227348
Alignment:
Q  48 aaaagcagaggagttgaagaaaaatgcaatcaagtggaagaaggcagcggaggatgcagttgccgtaggtggatcctccgaccgatatcttgatgcattt 147  Q
    ||||||||||  ||||||| ||||  ||||||||||||||||||||||||||| ||||||||| |||||||| ||||| || ||  || |||||||||||    
T  27227456 aaaagcagagatgttgaagcaaaacacaatcaagtggaagaaggcagcggaggctgcagttgcggtaggtggttcctctgatcggcatattgatgcattt 27227357  T
Q  148 atcgaagac 156  Q
    || ||||||    
T  27227356 atggaagac 27227348  T

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

Target: chr3 (Bit Score: 54; Significance: 6e-22; HSPs: 1)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 54; E-Value: 6e-22
Query Start/End: Original strand, 16 - 101
Target Start/End: Original strand, 19666358 - 19666443
Alignment:
Q  16 aagaagtgcttgttggaagctacaacaggggaaaaagcagaggagttgaagaaaaatgcaatcaagtggaagaaggcagcggagga 101  Q
    ||||||||||| |||||||| |||| ||| ||||||| ||||||||||||| |||||||||||||||||||||| || ||||||||    
T  19666358 aagaagtgcttattggaagcaacaataggagaaaaaggagaggagttgaagcaaaatgcaatcaagtggaagaaagcggcggagga 19666443  T

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