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: NF20135_low_3 (Length: 538)

Name: NF20135_low_3
Description: NF20135
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF20135_low_3
NF20135_low_3
[»] chr1 (4 HSPs)
chr1 (142-342)||(9799142-9799342)
chr1 (410-526)||(9799411-9799527)
chr1 (142-302)||(9790124-9790287)
chr1 (13-89)||(9799013-9799089)
[»] chr4 (2 HSPs)
chr4 (28-74)||(20246231-20246277)
chr4 (23-59)||(13985941-13985977)
[»] scaffold0014 (1 HSPs)
scaffold0014 (23-59)||(97940-97976)
[»] chr7 (1 HSPs)
chr7 (23-59)||(16254471-16254507)
[»] chr6 (1 HSPs)
chr6 (23-59)||(26129191-26129227)
[»] chr3 (2 HSPs)
chr3 (23-59)||(31197296-31197332)
chr3 (23-59)||(52770984-52771020)


Alignment Details
Target: chr1 (Bit Score: 201; Significance: 1e-109; HSPs: 4)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 201; E-Value: 1e-109
Query Start/End: Original strand, 142 - 342
Target Start/End: Original strand, 9799142 - 9799342
Alignment:
Q  142 gtatattctgttattcaatgataagagttagttacaatatatgtttatataggggctatctaactgtataacatctgtaactaacaaactctataagctg 241  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  9799142 gtatattctgttattcaatgataagagttagttacaatatatgtttatataggggctatctaactgtataacatctgtaactaacaaactctataagctg 9799241  T
Q  242 tgctattctatgtaaggtacttggtaaaggaaacttagagcacaagttaatttgcacaactagttaactatggtgtaaccagaagtttaacagatagtat 341  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  9799242 tgctattctatgtaaggtacttggtaaaggaaacttagagcacaagttaatttgcacaactagttaactatggtgtaaccagaagtttaacagatagtat 9799341  T
Q  342 a 342  Q
    |    
T  9799342 a 9799342  T

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Target: chr1; HSP #2
Raw Score: 117; E-Value: 2e-59
Query Start/End: Original strand, 410 - 526
Target Start/End: Original strand, 9799411 - 9799527
Alignment:
Q  410 tatgtattttcatatcagttgctgccttgttaattaacaaacatatgcaagaaattcaatggtggaaaaattaatgaaattgacttaaggagaatgctta 509  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  9799411 tatgtattttcatatcagttgctgccttgttaattaacaaacatatgcaagaaattcaatggtggaaaaattaatgaaattgacttaaggagaatgctta 9799510  T
Q  510 agtgcacgacagttttg 526  Q
    |||||||||||||||||    
T  9799511 agtgcacgacagttttg 9799527  T

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Target: chr1; HSP #3
Raw Score: 102; E-Value: 2e-50
Query Start/End: Original strand, 142 - 302
Target Start/End: Original strand, 9790124 - 9790287
Alignment:
Q  142 gtatattctgttattcaatgataagagttagttacaatatatgtttatataggggctat---ctaactgtataacatctgtaactaacaaactctataag 238  Q
    ||||||||||||||||||||||  |||||||||||||||||||||||||||| || |||   |||||||||||||| |||||||| ||||||||||||||    
T  9790124 gtatattctgttattcaatgatgtgagttagttacaatatatgtttatatagaggatatgatctaactgtataacagctgtaactgacaaactctataag 9790223  T
Q  239 ctgtgctattctatgtaaggtacttggtaaaggaaacttagagcacaagttaatttgcacaact 302  Q
     |||||||||||||||| ||||| |||||| ||||||||| |||||||||||| ||||||||||    
T  9790224 ttgtgctattctatgtagggtacatggtaagggaaacttaaagcacaagttaacttgcacaact 9790287  T

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Target: chr1; HSP #4
Raw Score: 73; E-Value: 4e-33
Query Start/End: Original strand, 13 - 89
Target Start/End: Original strand, 9799013 - 9799089
Alignment:
Q  13 gagaagaaagcgatgcgcagcagtgctcaaaagagctttgataccatcatgaagttcatcatcttcttgatgatgat 89  Q
    ||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||    
T  9799013 gagaagaaagcgatgcgcagcagtgctcaaaagagctctgataccatcatgaagttcatcatcttcttgatgatgat 9799089  T

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Target: chr4 (Bit Score: 31; Significance: 0.00000005; HSPs: 2)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 31; E-Value: 0.00000005
Query Start/End: Original strand, 28 - 74
Target Start/End: Original strand, 20246231 - 20246277
Alignment:
Q  28 cgcagcagtgctcaaaagagctttgataccatcatgaagttcatcat 74  Q
    |||| ||| ||||||||||| ||||||||||||||||||||| ||||    
T  20246231 cgcatcagagctcaaaagagatttgataccatcatgaagttcgtcat 20246277  T

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Target: chr4; HSP #2
Raw Score: 29; E-Value: 0.0000008
Query Start/End: Original strand, 23 - 59
Target Start/End: Complemental strand, 13985977 - 13985941
Alignment:
Q  23 cgatgcgcagcagtgctcaaaagagctttgataccat 59  Q
    ||||||||||||| ||||||||||||| |||||||||    
T  13985977 cgatgcgcagcagagctcaaaagagctctgataccat 13985941  T

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Target: scaffold0014 (Bit Score: 29; Significance: 0.0000008; HSPs: 1)
Name: scaffold0014
Description:

Target: scaffold0014; HSP #1
Raw Score: 29; E-Value: 0.0000008
Query Start/End: Original strand, 23 - 59
Target Start/End: Original strand, 97940 - 97976
Alignment:
Q  23 cgatgcgcagcagtgctcaaaagagctttgataccat 59  Q
    ||||||||||||| ||||||||||||| |||||||||    
T  97940 cgatgcgcagcagagctcaaaagagctctgataccat 97976  T

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Target: chr7 (Bit Score: 29; Significance: 0.0000008; HSPs: 1)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 29; E-Value: 0.0000008
Query Start/End: Original strand, 23 - 59
Target Start/End: Complemental strand, 16254507 - 16254471
Alignment:
Q  23 cgatgcgcagcagtgctcaaaagagctttgataccat 59  Q
    ||||||||||||| ||||||||||||| |||||||||    
T  16254507 cgatgcgcagcagagctcaaaagagctctgataccat 16254471  T

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Target: chr6 (Bit Score: 29; Significance: 0.0000008; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 29; E-Value: 0.0000008
Query Start/End: Original strand, 23 - 59
Target Start/End: Complemental strand, 26129227 - 26129191
Alignment:
Q  23 cgatgcgcagcagtgctcaaaagagctttgataccat 59  Q
    ||||||||||||| ||||||||||||| |||||||||    
T  26129227 cgatgcgcagcagagctcaaaagagctctgataccat 26129191  T

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Target: chr3 (Bit Score: 29; Significance: 0.0000008; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 29; E-Value: 0.0000008
Query Start/End: Original strand, 23 - 59
Target Start/End: Original strand, 31197296 - 31197332
Alignment:
Q  23 cgatgcgcagcagtgctcaaaagagctttgataccat 59  Q
    ||||||||||||| ||||||||||||| |||||||||    
T  31197296 cgatgcgcagcagagctcaaaagagctctgataccat 31197332  T

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

Target: chr3; HSP #2
Raw Score: 29; E-Value: 0.0000008
Query Start/End: Original strand, 23 - 59
Target Start/End: Complemental strand, 52771020 - 52770984
Alignment:
Q  23 cgatgcgcagcagtgctcaaaagagctttgataccat 59  Q
    ||||||||||||| ||||||||||||| |||||||||    
T  52771020 cgatgcgcagcagagctcaaaagagctctgataccat 52770984  T

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