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: NF9561_low_20 (Length: 250)

Name: NF9561_low_20
Description: NF9561
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF9561_low_20
NF9561_low_20
[»] chr3 (7 HSPs)
chr3 (1-240)||(40573376-40573615)
chr3 (1-240)||(40579833-40580072)
chr3 (1-240)||(40568775-40569014)
chr3 (11-240)||(40598283-40598512)
chr3 (12-238)||(40591683-40591909)
chr3 (85-238)||(40602333-40602486)
chr3 (15-103)||(40582056-40582144)
[»] chr2 (1 HSPs)
chr2 (3-240)||(2014724-2014961)
[»] chr4 (1 HSPs)
chr4 (113-240)||(14029473-14029600)
[»] chr1 (1 HSPs)
chr1 (186-238)||(9118809-9118861)


Alignment Details
Target: chr3 (Bit Score: 228; Significance: 1e-126; HSPs: 7)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 228; E-Value: 1e-126
Query Start/End: Original strand, 1 - 240
Target Start/End: Complemental strand, 40573615 - 40573376
Alignment:
Q  1 tgtcctcgcccttcacccttaaacaccgttctgcaatataggcaacctcttttagttgctcaatatttggctcatctatatttttgtccaaaatatgaag 100  Q
    ||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||    
T  40573615 tgtcctcgcccttcacccttaaacaccgttctgcaatatgggcaacctcttttagttgctcaatatttgcctcatctatatttttgtccaaaatatgaag 40573516  T
Q  101 taaccgaccctgtttcatcgaagaaacaaagtatgcggcaaggtttctatcaacctcaggcctcccaaaagatagcgctttctttcctgtcagtagctct 200  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  40573515 taaccgaccctgtttcatcgaagaaacaaagtatgcggcaaggtttctatcaacctcaggcctcccaaaagatagcgctttctttcctgtcagtagctct 40573416  T
Q  201 gctaggactactccaaaactataaacatcactcttctctg 240  Q
    ||||||||||||||||| ||||||||||||||||||||||    
T  40573415 gctaggactactccaaatctataaacatcactcttctctg 40573376  T

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

Target: chr3; HSP #2
Raw Score: 180; E-Value: 3e-97
Query Start/End: Original strand, 1 - 240
Target Start/End: Complemental strand, 40580072 - 40579833
Alignment:
Q  1 tgtcctcgcccttcacccttaaacaccgttctgcaatataggcaacctcttttagttgctcaatatttggctcatctatatttttgtccaaaatatgaag 100  Q
    ||||||| ||||||||||||||||||||||||||||||| |||||||||||| |||||||||||||||| ||||||||||||||||||||||||||||||    
T  40580072 tgtcctctcccttcacccttaaacaccgttctgcaatatcggcaacctctttaagttgctcaatatttgtctcatctatatttttgtccaaaatatgaag 40579973  T
Q  101 taaccgaccctgtttcatcgaagaaacaaagtatgcggcaaggtttctatcaacctcaggcctcccaaaagatagcgctttctttcctgtcagtagctct 200  Q
    |||||||||||||||||| ||||||||||||||||||| |||||||||||| ||||| ||||| ||||||||||| || |||||||| || |||||||||    
T  40579972 taaccgaccctgtttcattgaagaaacaaagtatgcggaaaggtttctatctacctctggcctgccaaaagatagtgccttctttcccgttagtagctct 40579873  T
Q  201 gctaggactactccaaaactataaacatcactcttctctg 240  Q
    |||| |||||||||||| ||||||||||||||||||||||    
T  40579872 gctatgactactccaaatctataaacatcactcttctctg 40579833  T

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

Target: chr3; HSP #3
Raw Score: 152; E-Value: 1e-80
Query Start/End: Original strand, 1 - 240
Target Start/End: Complemental strand, 40569014 - 40568775
Alignment:
Q  1 tgtcctcgcccttcacccttaaacaccgttctgcaatataggcaacctcttttagttgctcaatatttggctcatctatatttttgtccaaaatatgaag 100  Q
    ||||||| |||||||||||||||||||||||| |||||   |||||||| ||||||||||||||||  |  | ||||||| |||||||||||||||||||    
T  40569014 tgtcctcacccttcacccttaaacaccgttctacaataagagcaacctcctttagttgctcaatatcagcattatctatacttttgtccaaaatatgaag 40568915  T
Q  101 taaccgaccctgtttcatcgaagaaacaaagtatgcggcaaggtttctatcaacctcaggcctcccaaaagatagcgctttctttcctgtcagtagctct 200  Q
    ||||||||||| |||||| |||||||||||||| ||||||||||||||||||||||| ||||| || |||||||| || |||||||||||||||||||||    
T  40568914 taaccgaccctctttcattgaagaaacaaagtacgcggcaaggtttctatcaacctctggcctgcccaaagatagtgccttctttcctgtcagtagctct 40568815  T
Q  201 gctaggactactccaaaactataaacatcactcttctctg 240  Q
    |||||||| || ||||||||||||||||||||||||||||    
T  40568814 gctaggaccaccccaaaactataaacatcactcttctctg 40568775  T

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

Target: chr3; HSP #4
Raw Score: 82; E-Value: 8e-39
Query Start/End: Original strand, 11 - 240
Target Start/End: Complemental strand, 40598512 - 40598283
Alignment:
Q  11 cttcacccttaaacaccgttctgcaatataggcaacctcttttagttgctcaatatttggctcatctatatttttgtccaaaatatgaagtaaccgaccc 110  Q
    ||||||||||||||||| |||||||||   |||||| || ||||| || |||||||||  |||||||||||||||||| | ||||||||||||  || ||    
T  40598512 cttcacccttaaacacctttctgcaattagggcaacttcctttagatgttcaatatttttctcatctatatttttgtctagaatatgaagtaattgatcc 40598413  T
Q  111 tgtttcatcgaagaaacaaagtatgcggcaaggtttctatcaacctcaggcctcccaaaagatagcgctttctttcctgtcagtagctctgctaggacta 210  Q
    | ||| ||| |||| ||||||||    |||||||||||||| ||||| ||||| ||||||||||  || || | |||||| ||||||||||||||||| |    
T  40598412 tctttaatccaagacacaaagtacattgcaaggtttctatctacctctggcctgccaaaagataatgccttttctcctgttagtagctctgctaggacaa 40598313  T
Q  211 ctccaaaactataaacatcactcttctctg 240  Q
    |||| || ||||| || |||||||||||||    
T  40598312 ctccgaagctatagacgtcactcttctctg 40598283  T

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Target: chr3; HSP #5
Raw Score: 63; E-Value: 2e-27
Query Start/End: Original strand, 12 - 238
Target Start/End: Complemental strand, 40591909 - 40591683
Alignment:
Q  12 ttcacccttaaacaccgttctgcaatataggcaacctcttttagttgctcaatatttggctcatctatatttttgtccaaaatatgaagtaaccgaccct 111  Q
    |||||||||||||||| |||||||||   |||||| || ||||| ||||||| ||||  | |||| || ||  |||||| |||||||| ||||||| | |    
T  40591909 ttcacccttaaacacctttctgcaattagggcaacttcctttagatgctcaacatttcccgcatcgatgttgctgtccagaatatgaactaaccgatctt 40591810  T
Q  112 gtttcatcgaagaaacaaagtatgcggcaaggtttctatcaacctcaggcctcccaaaagatagcgctttctttcctgtcagtagctctgctaggactac 211  Q
     |||||| ||||||||||||||    |||||| |||| || ||| | || || | | || |||| |||||||||||||||||||||||||||||||| ||    
T  40591809 ctttcattgaagaaacaaagtacatcgcaaggcttctttctaccactggtctgctataacatagtgctttctttcctgtcagtagctctgctaggacaac 40591710  T
Q  212 tccaaaactataaacatcactcttctc 238  Q
     ||||| || || ||||||||||||||    
T  40591709 cccaaagctgtagacatcactcttctc 40591683  T

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Target: chr3; HSP #6
Raw Score: 46; E-Value: 2e-17
Query Start/End: Original strand, 85 - 238
Target Start/End: Complemental strand, 40602486 - 40602333
Alignment:
Q  85 tgtccaaaatatgaagtaaccgaccctgtttcatcgaagaaacaaagtatgcggcaaggtttctatcaacctcaggcctcccaaaagatagcgctttctt 184  Q
    |||||| ||||||||| ||| || | | |||||| ||||||||||| |     |||||| |||| || || || ||||| | |||| |||| ||||||||    
T  40602486 tgtccagaatatgaagcaactgatcttctttcattgaagaaacaaaatgcattgcaaggcttctttctacatctggcctgctaaaacatagtgctttctt 40602387  T
Q  185 tcctgtcagtagctctgctaggactactccaaaactataaacatcactcttctc 238  Q
    |||||||| |||||||||||| || || ||||| ||||||||||||||||||||    
T  40602386 tcctgtcaatagctctgctagaacaaccccaaagctataaacatcactcttctc 40602333  T

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

Target: chr3; HSP #7
Raw Score: 33; E-Value: 0.000000001
Query Start/End: Original strand, 15 - 103
Target Start/End: Complemental strand, 40582144 - 40582056
Alignment:
Q  15 acccttaaacaccgttctgcaatataggcaacctcttttagttgctcaatatttggctcatctatatttttgtccaaaatatgaagtaa 103  Q
    ||||| ||||| | || |||||||| || ||| || |||||| |||||||||||  ||||||||||||||||| || || |||||||||    
T  40582144 accctgaaacaacattttgcaatatgggaaacttcctttagtggctcaatattttcctcatctatatttttgttcataacatgaagtaa 40582056  T

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Target: chr2 (Bit Score: 110; Significance: 2e-55; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 110; E-Value: 2e-55
Query Start/End: Original strand, 3 - 240
Target Start/End: Original strand, 2014724 - 2014961
Alignment:
Q  3 tcctcgcccttcacccttaaacaccgttctgcaatataggcaacctcttttagttgctcaatatttggctcatctatatttttgtccaaaatatgaagta 102  Q
    ||||| |||||||||| |||||||| ||||||||||  ||||||||| |||||||||||||| || | ||| || |||||||||||||||||||||||||    
T  2014724 tcctcacccttcacccgtaaacacctttctgcaataagggcaacctcctttagttgctcaatgttcgcctcgtcaatatttttgtccaaaatatgaagta 2014823  T
Q  103 accgaccctgtttcatcgaagaaacaaagtatgcggcaaggtttctatcaacctcaggcctcccaaaagatagcgctttctttcctgtcagtagctctgc 202  Q
    || |||| | |||||| ||||||||||||||    |||||||||||||| | ||| ||||| | ||||||||| || |||||||||| ||||||||||||    
T  2014824 actgaccatctttcattgaagaaacaaagtacaatgcaaggtttctatccaactctggcctgctaaaagatagtgccttctttcctgccagtagctctgc 2014923  T
Q  203 taggactactccaaaactataaacatcactcttctctg 240  Q
    ||| || |||||||| ||||| || |||||||||||||    
T  2014924 tagtacaactccaaagctatagacgtcactcttctctg 2014961  T

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

Target: chr4 (Bit Score: 40; Significance: 0.00000000000009; HSPs: 1)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 40; E-Value: 0.00000000000009
Query Start/End: Original strand, 113 - 240
Target Start/End: Original strand, 14029473 - 14029600
Alignment:
Q  113 tttcatcgaagaaacaaagtatgcggcaaggtttctatcaacctcaggcctcccaaaagatagcgctttctttcctgtcagtagctctgctaggactact 212  Q
    |||||| ||||||||||||||    ||||||||||| || ||| | | ||| | ||||||| | | ||| |||| ||| ||||||||||||||||| ||     
T  14029473 tttcattgaagaaacaaagtacattgcaaggtttctttctaccactgacctacaaaaagatggtgttttatttcgtgtgagtagctctgctaggacaacc 14029572  T
Q  213 ccaaaactataaacatcactcttctctg 240  Q
    ||||||||||| ||||||| ||||||||    
T  14029573 ccaaaactatagacatcacccttctctg 14029600  T

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

Target: chr1 (Bit Score: 29; Significance: 0.0000003; HSPs: 1)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 186 - 238
Target Start/End: Complemental strand, 9118861 - 9118809
Alignment:
Q  186 cctgtcagtagctctgctaggactactccaaaactataaacatcactcttctc 238  Q
    ||||| || |||||||| || ||||||||||| |||||||||||||| |||||    
T  9118861 cctgttagaagctctgcaagaactactccaaagctataaacatcacttttctc 9118809  T

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