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: NF3335_low_4 (Length: 444)

Name: NF3335_low_4
Description: NF3335
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF3335_low_4
NF3335_low_4
[»] chr4 (9 HSPs)
chr4 (17-437)||(5998834-5999254)
chr4 (17-309)||(5629881-5630158)
chr4 (18-294)||(5436993-5437266)
chr4 (129-302)||(5458326-5458499)
chr4 (18-92)||(5487457-5487531)
chr4 (336-395)||(37496775-37496834)
chr4 (339-386)||(39619045-39619092)
chr4 (25-90)||(5447422-5447487)
chr4 (169-225)||(5508842-5508898)
[»] chr2 (1 HSPs)
chr2 (336-428)||(43585945-43586038)
[»] chr8 (1 HSPs)
chr8 (340-428)||(34073922-34074011)
[»] chr7 (3 HSPs)
chr7 (336-428)||(25956471-25956563)
chr7 (339-371)||(10702456-10702488)
chr7 (344-384)||(28224863-28224903)
[»] chr6 (2 HSPs)
chr6 (336-385)||(785384-785433)
chr6 (336-400)||(26178538-26178602)
[»] chr3 (1 HSPs)
chr3 (400-436)||(37077376-37077412)
[»] chr1 (1 HSPs)
chr1 (333-365)||(18945968-18946000)


Alignment Details
Target: chr4 (Bit Score: 401; Significance: 0; HSPs: 9)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 401; E-Value: 0
Query Start/End: Original strand, 17 - 437
Target Start/End: Complemental strand, 5999254 - 5998834
Alignment:
Q  17 agtttacaacttttcagaatcttgattgtacttgtggaaaacccactaataaacagcctaataatttggattctgagggactggggaatagtggtggtat 116  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||| ||||||||||||||||||    
T  5999254 agtttacaacttttcagaatcttgattgtacttgtggaaaacccactaataaacagcctaatagtttggattctgagggacaggggaatagtggtggtat 5999155  T
Q  117 tgctgatgctttaaatggggtttttgttaaggacaatgggtcgttgtttttggtgtatgatgatttgaagattgtgcctagttctttggtgagttccatg 216  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  5999154 tgctgatgctttaaatggggtttttgttaaggacaatgggtcgttgtttttggtgtatgatgatttgaagattgtgcctagttctttggtgagttccatg 5999055  T
Q  217 cagatgttgatggaattggggtattctgatttgagtcaattagaggaagttactcacaacattggaaaacaggaggtactggtgttgtgttttacaatgt 316  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  5999054 cagatgttgatggaattggggtattctgatttgagtcaattagaggaagttactcacaacattggaaaacaggaggtactggtgttgtgttttacaatgt 5998955  T
Q  317 gtatttttatgtcatgttactctgttgcaccgacacttatgattgaaggtgtgtccacgtgtccgacacgtgacgtgtctgacatgacacttatgattgc 416  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||| ||||||||||||||||||||||||||    
T  5998954 gtatttttatgtcatgttactctgttgcaccgacacttatgattgaaggtgtgtccaggtgtccgacacgtgatgtgtctgacatgacacttatgattgc 5998855  T
Q  417 attgaattatgttatattctt 437  Q
    ||||||||||||||| |||||    
T  5998854 attgaattatgttattttctt 5998834  T

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

Target: chr4; HSP #2
Raw Score: 91; E-Value: 6e-44
Query Start/End: Original strand, 17 - 309
Target Start/End: Original strand, 5629881 - 5630158
Alignment:
Q  17 agtttacaacttttcagaatcttgattgtacttgtggaaaacccactaataaacagcctaataatttggattctgagggactggggaatagtggtggtat 116  Q
    ||||||||||||| |||||||||||||||||||||| |||||| ||||||||||||||||| ||||||||||||||||| | || |||||              
T  5629881 agtttacaactttacagaatcttgattgtacttgtgaaaaaccaactaataaacagcctaagaatttggattctgagggtcaggagaata---------- 5629970  T
Q  117 tgctgatgctttaaatggggtttttgttaaggacaatgggtcgttgtttttggtgtatgatgatttgaagattgtgcctagttctttggtgagttccatg 216  Q
         ||||   ||||||||| ||||||||||| |||||||| ||||| ||||||| |||||||||||||||| ||||| |||||||| |||  ||  ||    
T  5629971 -----atgcacaaaatggggtctttgttaaggaaaatgggtcattgttcttggtgtttgatgatttgaagattatgccttgttctttgatgacctctgtg 5630065  T
Q  217 cagatgttgatggaattggggtattctgatttgagtcaattagaggaagttactcacaacattggaaaacaggaggtactggtgttgtgtttt 309  Q
     |   ||||| |||||| |||||||| ||||||||| | ||||||||||| || || ||||||||||| || |||||| | ||||||||||||    
T  5630066 gaacggttgaaggaattagggtattcagatttgagtaatttagaggaagtcacacataacattggaaagcaagaggtaattgtgttgtgtttt 5630158  T

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

Target: chr4; HSP #3
Raw Score: 83; E-Value: 4e-39
Query Start/End: Original strand, 18 - 294
Target Start/End: Complemental strand, 5437266 - 5436993
Alignment:
Q  18 gtttacaacttttcagaatcttgattgtacttgtggaaaacccactaataaacagcctaataatttggattctgagggactggggaatagtggtggtatt 117  Q
    |||||| ||||| || || ||| ||||||| ||||||||||| ||||||| ||||||||| ||| ||||||| ||||| |  |||||||||  | || |     
T  5437266 gtttactactttccaaaaccttcattgtacctgtggaaaacctactaatagacagcctaagaatctggattcagagggtcatgggaatagtactagtgtg 5437167  T
Q  118 gctgatgctttaaatggggtttttgttaaggacaatgggtcgttgtttttggtgtatgatgatttgaagattgtgcctagttctttggtgagttccatgc 217  Q
    |   || || |||||||||| |||||||  || ||||| ||  ||||| |||||| ||||||||| ||||||||||| |||||||  ||||  | | |||    
T  5437166 g---atactataaatggggtctttgttagagaaaatggatcaatgtttctggtgtctgatgatttaaagattgtgccaagttcttctgtgacatacttgc 5437070  T
Q  218 agatgttgatggaattggggtattctgatttgagtcaattagaggaagttactcacaacattggaaaacaggaggta 294  Q
    || |||||||||||||||||||||| ||||||| ||||||||||||||| || ||||||||||| ||||| ||||||    
T  5437069 agctgttgatggaattggggtattcagatttgactcaattagaggaagtcacacacaacattggcaaacaagaggta 5436993  T

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

Target: chr4; HSP #4
Raw Score: 70; E-Value: 2e-31
Query Start/End: Original strand, 129 - 302
Target Start/End: Complemental strand, 5458499 - 5458326
Alignment:
Q  129 aaatggggtttttgttaaggacaatgggtcgttgtttttggtgtatgatgatttgaagattgtgcctagttctttggtgagttccatgcagatgttgatg 228  Q
    ||||||||| ||||| || || ||||| || |||||| ||||||  |||||||| ||||||||||| ||||| |  |||| |||||||||| | ||||||    
T  5458499 aaatggggtctttgtaaaagaaaatggatcattgtttctggtgtccgatgatttaaagattgtgccaagttcctctgtgacttccatgcagctattgatg 5458400  T
Q  229 gaattggggtattctgatttgagtcaattagaggaagttactcacaacattggaaaacaggaggtactggtgtt 302  Q
    |||||||| ||||| || |||| |||| |||||||||| || ||||||||||| |||||||||||| |||||||    
T  5458399 gaattgggttattcagacttgactcaaatagaggaagtcacacacaacattggcaaacaggaggtaatggtgtt 5458326  T

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

Target: chr4; HSP #5
Raw Score: 39; E-Value: 0.0000000000007
Query Start/End: Original strand, 18 - 92
Target Start/End: Original strand, 5487457 - 5487531
Alignment:
Q  18 gtttacaacttttcagaatcttgattgtacttgtggaaaacccactaataaacagcctaataatttggattctga 92  Q
    |||||| ||||| || || ||| ||||||| ||||||||||||| ||||||||||||||| |||||||| |||||    
T  5487457 gtttactactttccaaaaccttcattgtacctgtggaaaacccattaataaacagcctaagaatttggactctga 5487531  T

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

Target: chr4; HSP #6
Raw Score: 36; E-Value: 0.00000000004
Query Start/End: Original strand, 336 - 395
Target Start/End: Complemental strand, 37496834 - 37496775
Alignment:
Q  336 ctctgttgcaccgacacttatgattgaaggtgtgtccacgtgtccgacacgtgacgtgtc 395  Q
    ||||||||||| |||||||||||||||||| ||||||  |||||||||| ||| ||||||    
T  37496834 ctctgttgcacggacacttatgattgaaggcgtgtcccggtgtccgacatgtgtcgtgtc 37496775  T

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Target: chr4; HSP #7
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 339 - 386
Target Start/End: Original strand, 39619045 - 39619092
Alignment:
Q  339 tgttgcaccgacacttatgattgaaggtgtgtccacgtgtccgacacg 386  Q
    |||||||| ||||||| |||||||||||||||||  ||||||||||||    
T  39619045 tgttgcacggacacttctgattgaaggtgtgtcccggtgtccgacacg 39619092  T

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

Target: chr4; HSP #8
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 25 - 90
Target Start/End: Complemental strand, 5447487 - 5447422
Alignment:
Q  25 acttttcagaatcttgattgtacttgtggaaaacccactaataaacagcctaataatttggattct 90  Q
    ||||||||||| |||||||| |||||||||||||| || || | ||| |||  |||||||||||||    
T  5447487 acttttcagaaccttgattgcacttgtggaaaaccaacaaacagacaacctcgtaatttggattct 5447422  T

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

Target: chr4; HSP #9
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 169 - 225
Target Start/End: Original strand, 5508842 - 5508898
Alignment:
Q  169 gtgtatgatgatttgaagattgtgcctagttctttggtgagttccatgcagatgttg 225  Q
    |||| |||||||||||||||| |||| ||||| ||| |||  |||||||||||||||    
T  5508842 gtgtctgatgatttgaagattttgccaagttccttgctgaactccatgcagatgttg 5508898  T

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Target: chr2 (Bit Score: 42; Significance: 0.00000000000001; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 42; E-Value: 0.00000000000001
Query Start/End: Original strand, 336 - 428
Target Start/End: Original strand, 43585945 - 43586038
Alignment:
Q  336 ctctgttgcaccgacacttatgattgaaggtgtgtccacgtgtccgacacgtgacgtgtctgaca-tgacacttatgattgcattgaattatgt 428  Q
    |||||||||||  |||||| |||||||||||||||||| ||||| |||||||  |||||| ||||  ||||||| ||||| |||||||||||||    
T  43585945 ctctgttgcacgaacacttctgattgaaggtgtgtccatgtgtctgacacgtatcgtgtccgacaccgacacttgtgattacattgaattatgt 43586038  T

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

Target: chr8 (Bit Score: 34; Significance: 0.0000000006; HSPs: 1)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 34; E-Value: 0.0000000006
Query Start/End: Original strand, 340 - 428
Target Start/End: Original strand, 34073922 - 34074011
Alignment:
Q  340 gttgcaccgacacttatgattgaaggtgtgtccacgtgtccgacacgtgacgtgtctgacat-gacacttatgattgcattgaattatgt 428  Q
    |||||||  |||||| |||||||||| |||||    ||| ||||||||||||||||||| || ||||||||||||| |||| ||||||||    
T  34073922 gttgcacaaacacttttgattgaaggcgtgtcatgatgtgcgacacgtgacgtgtctgatatcgacacttatgattacattaaattatgt 34074011  T

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Target: chr7 (Bit Score: 34; Significance: 0.0000000006; HSPs: 3)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 34; E-Value: 0.0000000006
Query Start/End: Original strand, 336 - 428
Target Start/End: Complemental strand, 25956563 - 25956471
Alignment:
Q  336 ctctgttgcaccgacacttatgattgaaggtgtgtccacgtgtccgacacgtgacgtgtctgacat-gacacttatgattgcattgaattatgt 428  Q
    |||| |||||| ||||||| |||||||||| |||||| ||||||||||| ||  |||||| ||||  ||||||| ||||| |||||||||||||    
T  25956563 ctctattgcacggacacttctgattgaaggcgtgtcc-cgtgtccgacatgtatcgtgtccgacaccgacacttgtgattacattgaattatgt 25956471  T

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

Target: chr7; HSP #2
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 339 - 371
Target Start/End: Original strand, 10702456 - 10702488
Alignment:
Q  339 tgttgcaccgacacttatgattgaaggtgtgtc 371  Q
    |||||||||||||||| ||||||||||||||||    
T  10702456 tgttgcaccgacacttctgattgaaggtgtgtc 10702488  T

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

Target: chr7; HSP #3
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 344 - 384
Target Start/End: Complemental strand, 28224903 - 28224863
Alignment:
Q  344 caccgacacttatgattgaaggtgtgtccacgtgtccgaca 384  Q
    ||||||||||||||||||||||||||||   ||||||||||    
T  28224903 caccgacacttatgattgaaggtgtgtctcagtgtccgaca 28224863  T

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

Target: chr6 (Bit Score: 34; Significance: 0.0000000006; HSPs: 2)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 34; E-Value: 0.0000000006
Query Start/End: Original strand, 336 - 385
Target Start/End: Original strand, 785384 - 785433
Alignment:
Q  336 ctctgttgcaccgacacttatgattgaaggtgtgtccacgtgtccgacac 385  Q
    ||||||||||| ||||||| |||||||||||||||||  |||||||||||    
T  785384 ctctgttgcacggacacttctgattgaaggtgtgtcctggtgtccgacac 785433  T

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

Target: chr6; HSP #2
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 336 - 400
Target Start/End: Complemental strand, 26178602 - 26178538
Alignment:
Q  336 ctctgttgcaccgacacttatgattgaaggtgtgtccacgtgtccgacacgtgacgtgtctgaca 400  Q
    ||||| ||||| ||||||| ||||||||||| |||||   ||||||||||||| |||||| ||||    
T  26178602 ctctgatgcacggacacttctgattgaaggtatgtcccgatgtccgacacgtgtcgtgtccgaca 26178538  T

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

Target: chr3 (Bit Score: 29; Significance: 0.0000006; HSPs: 1)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 400 - 436
Target Start/End: Complemental strand, 37077412 - 37077376
Alignment:
Q  400 atgacacttatgattgcattgaattatgttatattct 436  Q
    ||||||| ||||||| |||||||||||||||||||||    
T  37077412 atgacacatatgattccattgaattatgttatattct 37077376  T

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

Target: chr1 (Bit Score: 29; Significance: 0.0000006; HSPs: 1)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 29; E-Value: 0.0000006
Query Start/End: Original strand, 333 - 365
Target Start/End: Original strand, 18945968 - 18946000
Alignment:
Q  333 ttactctgttgcaccgacacttatgattgaagg 365  Q
    |||||||||||||||||||||| ||||||||||    
T  18945968 ttactctgttgcaccgacacttctgattgaagg 18946000  T

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



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