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: NF16787_low_9 (Length: 213)

Name: NF16787_low_9
Description: NF16787
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF16787_low_9
NF16787_low_9
[»] chr3 (23 HSPs)
chr3 (4-205)||(6946108-6946309)
chr3 (1-191)||(8588571-8588761)
chr3 (5-180)||(6729742-6729917)
chr3 (15-180)||(6449814-6449979)
chr3 (1-178)||(6481004-6481181)
chr3 (67-200)||(6734835-6734968)
chr3 (1-205)||(8453469-8453673)
chr3 (107-169)||(6916041-6916103)
chr3 (144-205)||(6521157-6521218)
chr3 (144-205)||(6555463-6555524)
chr3 (1-41)||(7586705-7586745)
chr3 (144-205)||(6527897-6527958)
chr3 (8-41)||(6840060-6840093)
chr3 (1-41)||(6795776-6795816)
chr3 (1-41)||(8570110-8570150)
chr3 (104-161)||(6237691-6237748)
chr3 (104-161)||(6244230-6244287)
chr3 (101-133)||(4390010-4390042)
chr3 (11-43)||(4390088-4390120)
chr3 (101-133)||(5249096-5249128)
chr3 (11-43)||(5266905-5266937)
chr3 (101-133)||(5266983-5267015)
chr3 (1-37)||(8470394-8470430)
[»] scaffold0425 (1 HSPs)
scaffold0425 (67-205)||(8502-8640)
[»] chr2 (1 HSPs)
chr2 (101-200)||(2623771-2623870)
[»] scaffold1643 (1 HSPs)
scaffold1643 (1-41)||(1007-1047)


Alignment Details
Target: chr3 (Bit Score: 170; Significance: 2e-91; HSPs: 23)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 170; E-Value: 2e-91
Query Start/End: Original strand, 4 - 205
Target Start/End: Original strand, 6946108 - 6946309
Alignment:
Q  4 tcttcaagttgctatttggttgaagagcctcaaagacagatacattgcattcaactcttgagccatccatttcttttcttgtaccattaaattccaaatg 103  Q
    ||||||||||||| |||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||| |||||||||||||||   ||||||    
T  6946108 tcttcaagttgctctttggttgaagagcctcaaagacagatacattgcattcaacttttgagccatccatttcttctcttgtaccattaaacgtcaaatg 6946207  T
Q  104 taattcttctaaatgcttcttatcttttaaattggctgtcgcagcatctgcaggatcaatcacattacccaaccctttaatatcaattgttcgatgatga 203  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||| ||    
T  6946208 taattcttctaaatgcttcttatcttttaaattggctgtcgcagcatctgcaggatcaatcacattacccaaccctttaatatcaattgttccatgaaga 6946307  T
Q  204 tg 205  Q
    ||    
T  6946308 tg 6946309  T

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Target: chr3; HSP #2
Raw Score: 111; E-Value: 3e-56
Query Start/End: Original strand, 1 - 191
Target Start/End: Original strand, 8588571 - 8588761
Alignment:
Q  1 gcctcttcaagttgctatttggttgaagagcctcaaagacagatacattgcattcaactcttgagccatccatttcttttcttgtaccattaaattccaa 100  Q
    ||||||||||||| |||||||||||||||||||| |||||||| ||||||| ||||||| ||||| |||||||||||| ||||  ||||| ||| ||||     
T  8588571 gcctcttcaagtttctatttggttgaagagcctccaagacagacacattgctttcaactattgagtcatccatttcttctcttccaccatcaaaatccat 8588670  T
Q  101 atgtaattcttctaaatgcttcttatcttttaaattggctgtcgcagcatctgcaggatcaatcacattacccaaccctttaatatcaatt 191  Q
    | ||||||||||||||| |||||||||||| |||||||||||| ||||||||||||||||||| ||||||||||| ||||| |||| ||||    
T  8588671 aagtaattcttctaaatacttcttatctttcaaattggctgtcacagcatctgcaggatcaattacattacccaaaccttttatatgaatt 8588761  T

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Target: chr3; HSP #3
Raw Score: 72; E-Value: 6e-33
Query Start/End: Original strand, 5 - 180
Target Start/End: Complemental strand, 6729917 - 6729742
Alignment:
Q  5 cttcaagttgctatttggttgaagagcctcaaagacagatacattgcattcaactcttgagccatccatttcttttcttgtaccattaaattccaaatgt 104  Q
    ||||||||| ||||||||||| |||||||| |||||||| ||||||| ||||||| ||||  |||||||||||| | || || ||   || | || ||||    
T  6729917 cttcaagtttctatttggttgtagagcctccaagacagacacattgctttcaactattgactcatccatttcttctattctatcacagaaattcatatgt 6729818  T
Q  105 aattcttctaaatgcttcttatcttttaaattggctgtcgcagcatctgcaggatcaatcacattacccaaccctt 180  Q
    ||||| ||||||| |||||||||||| |||||||||||| ||||||||| ||| || || ||||||||||||||||    
T  6729817 aattcctctaaatacttcttatctttcaaattggctgtcacagcatctgtagggtcgatgacattacccaaccctt 6729742  T

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Target: chr3; HSP #4
Raw Score: 66; E-Value: 2e-29
Query Start/End: Original strand, 15 - 180
Target Start/End: Complemental strand, 6449979 - 6449814
Alignment:
Q  15 ctatttggttgaagagcctcaaagacagatacattgcattcaactcttgagccatccatttcttttcttgtaccattaaattccaaatgtaattcttcta 114  Q
    ||||||||||| |||||||| |||||||| ||||||| ||||||| ||||  |||||||||||| | || || ||   || | || ||||||||| ||||    
T  6449979 ctatttggttgtagagcctccaagacagacacattgctttcaactattgactcatccatttcttctattctatcacagaaattcatatgtaattcctcta 6449880  T
Q  115 aatgcttcttatcttttaaattggctgtcgcagcatctgcaggatcaatcacattacccaaccctt 180  Q
    ||| |||||||||||| |||||||||||| ||||||||| ||| || || ||||||||||||||||    
T  6449879 aatacttcttatctttcaaattggctgtcacagcatctgtagggtcgatgacattacccaaccctt 6449814  T

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Target: chr3; HSP #5
Raw Score: 66; E-Value: 2e-29
Query Start/End: Original strand, 1 - 178
Target Start/End: Complemental strand, 6481181 - 6481004
Alignment:
Q  1 gcctcttcaagttgctatttggttgaagagcctcaaagacagatacattgcattcaactcttgagccatccatttcttttcttgtaccattaaattccaa 100  Q
    ||||||| ||| | |||||||||||||||||||| |||||||| ||||||| ||||||| ||||| |||||| ||||||| || |  |||  ||   ||     
T  6481181 gcctctttaagcttctatttggttgaagagcctccaagacagacacattgctttcaactattgagtcatccacttctttttttctgtcatagaaaatcat 6481082  T
Q  101 atgtaattcttctaaatgcttcttatcttttaaattggctgtcgcagcatctgcaggatcaatcacattacccaaccc 178  Q
    || |||||| ||||||| |||||||||||| |||||||||||| |||||||| |||||||||  |||| |||||||||    
T  6481081 atataattcctctaaatacttcttatctttcaaattggctgtcacagcatcttcaggatcaaatacataacccaaccc 6481004  T

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Target: chr3; HSP #6
Raw Score: 62; E-Value: 6e-27
Query Start/End: Original strand, 67 - 200
Target Start/End: Original strand, 6734835 - 6734968
Alignment:
Q  67 catccatttcttttcttgtaccattaaattccaaatgtaattcttctaaatgcttcttatcttttaaattggctgtcgcagcatctgcaggatcaatcac 166  Q
    |||||||||||| ||||   ||||| || ||||  |||||||||||||||| |||||||||||| ||||| | ||| |||||||||||||||||| | ||    
T  6734835 catccatttcttctcttccgccattgaactccatttgtaattcttctaaatacttcttatctttcaaatttgatgtggcagcatctgcaggatcactgac 6734934  T
Q  167 attacccaaccctttaatatcaattgttcgatga 200  Q
    |||||||| ||||||||||| |||||||| ||||    
T  6734935 attacccagccctttaatatgaattgttccatga 6734968  T

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Target: chr3; HSP #7
Raw Score: 61; E-Value: 2e-26
Query Start/End: Original strand, 1 - 205
Target Start/End: Original strand, 8453469 - 8453673
Alignment:
Q  1 gcctcttcaagttgctatttggttgaagagcctcaaagacagatacattgcattcaactcttgagccatccatttcttttcttgtaccattaaattccaa 100  Q
    ||||||||||||| ||||||||||| |||||||| ||||| || ||||||| |||| |  ||||  |||||||||||| ||||   |||| ||| | ||     
T  8453469 gcctcttcaagtttctatttggttggagagcctccaagactgacacattgctttcagccattgactcatccatttcttctcttccgccatcaaacttcat 8453568  T
Q  101 atgtaattcttctaaatgcttcttatcttttaaattggctgtcgcagcatctgcaggatcaatcacattacccaaccctttaatatcaattgttcgatga 200  Q
    |||||||||||||||||  ||| ||||||| |||||  | || |||| ||||||| ||||  | |||||||||||||||| ||||||||||| || ||||    
T  8453569 atgtaattcttctaaatatttcgtatctttcaaatttacagtagcagaatctgcaagatcgctaacattacccaacccttcaatatcaattgctccatga 8453668  T
Q  201 tgatg 205  Q
     ||||    
T  8453669 agatg 8453673  T

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Target: chr3; HSP #8
Raw Score: 39; E-Value: 0.0000000000003
Query Start/End: Original strand, 107 - 169
Target Start/End: Original strand, 6916041 - 6916103
Alignment:
Q  107 ttcttctaaatgcttcttatcttttaaattggctgtcgcagcatctgcaggatcaatcacatt 169  Q
    |||||||||||| ||||||||||| ||||| |||| | ||||||||||||||||||| |||||    
T  6916041 ttcttctaaatgtttcttatctttcaaatttgctgccacagcatctgcaggatcaatgacatt 6916103  T

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

Target: chr3; HSP #9
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 144 - 205
Target Start/End: Complemental strand, 6521218 - 6521157
Alignment:
Q  144 gcagcatctgcaggatcaatcacattacccaaccctttaatatcaattgttcgatgatgatg 205  Q
    ||||||||||||| |||| | |||||||||||||||||||||| |||||||| |||| ||||    
T  6521218 gcagcatctgcagtatcactaacattacccaaccctttaatatgaattgttccatgaagatg 6521157  T

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Target: chr3; HSP #10
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 144 - 205
Target Start/End: Complemental strand, 6555524 - 6555463
Alignment:
Q  144 gcagcatctgcaggatcaatcacattacccaaccctttaatatcaattgttcgatgatgatg 205  Q
    ||||||||||||| |||| | |||||||||||||||||||||| |||||||| |||| ||||    
T  6555524 gcagcatctgcagtatcactgacattacccaaccctttaatatgaattgttccatgaagatg 6555463  T

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

Target: chr3; HSP #11
Raw Score: 37; E-Value: 0.000000000005
Query Start/End: Original strand, 1 - 41
Target Start/End: Original strand, 7586705 - 7586745
Alignment:
Q  1 gcctcttcaagttgctatttggttgaagagcctcaaagaca 41  Q
    ||||||||||| |||||||||||||||||||||||||||||    
T  7586705 gcctcttcaagctgctatttggttgaagagcctcaaagaca 7586745  T

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

Target: chr3; HSP #12
Raw Score: 34; E-Value: 0.0000000003
Query Start/End: Original strand, 144 - 205
Target Start/End: Complemental strand, 6527958 - 6527897
Alignment:
Q  144 gcagcatctgcaggatcaatcacattacccaaccctttaatatcaattgttcgatgatgatg 205  Q
    ||||||||||||| |||| | ||||||||||| |||||||||| |||||||| |||| ||||    
T  6527958 gcagcatctgcagtatcactgacattacccaagcctttaatatgaattgttccatgaagatg 6527897  T

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Target: chr3; HSP #13
Raw Score: 34; E-Value: 0.0000000003
Query Start/End: Original strand, 8 - 41
Target Start/End: Complemental strand, 6840093 - 6840060
Alignment:
Q  8 caagttgctatttggttgaagagcctcaaagaca 41  Q
    ||||||||||||||||||||||||||||||||||    
T  6840093 caagttgctatttggttgaagagcctcaaagaca 6840060  T

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Target: chr3; HSP #14
Raw Score: 33; E-Value: 0.000000001
Query Start/End: Original strand, 1 - 41
Target Start/End: Complemental strand, 6795816 - 6795776
Alignment:
Q  1 gcctcttcaagttgctatttggttgaagagcctcaaagaca 41  Q
    |||| |||||||||||||| |||||||||||||||||||||    
T  6795816 gccttttcaagttgctattcggttgaagagcctcaaagaca 6795776  T

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Target: chr3; HSP #15
Raw Score: 33; E-Value: 0.000000001
Query Start/End: Original strand, 1 - 41
Target Start/End: Complemental strand, 8570150 - 8570110
Alignment:
Q  1 gcctcttcaagttgctatttggttgaagagcctcaaagaca 41  Q
    ||||||||||||||||||||||||||||||| || ||||||    
T  8570150 gcctcttcaagttgctatttggttgaagagcatccaagaca 8570110  T

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

Target: chr3; HSP #16
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 104 - 161
Target Start/End: Original strand, 6237691 - 6237748
Alignment:
Q  104 taattcttctaaatgcttcttatcttttaaattggctgtcgcagcatctgcaggatca 161  Q
    ||||||||||||||| ||||||||||| ||||| |||| |  ||||||||| ||||||    
T  6237691 taattcttctaaatgtttcttatctttcaaatttgctgccatagcatctgctggatca 6237748  T

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

Target: chr3; HSP #17
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 104 - 161
Target Start/End: Original strand, 6244230 - 6244287
Alignment:
Q  104 taattcttctaaatgcttcttatcttttaaattggctgtcgcagcatctgcaggatca 161  Q
    ||||||||||||||| ||||||||||| ||||| |||| |  ||||||||| ||||||    
T  6244230 taattcttctaaatgtttcttatctttcaaatttgctgccatagcatctgctggatca 6244287  T

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

Target: chr3; HSP #18
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 101 - 133
Target Start/End: Complemental strand, 4390042 - 4390010
Alignment:
Q  101 atgtaattcttctaaatgcttcttatcttttaa 133  Q
    |||||||||||| ||||||||||||||||||||    
T  4390042 atgtaattcttccaaatgcttcttatcttttaa 4390010  T

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Target: chr3; HSP #19
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 11 - 43
Target Start/End: Complemental strand, 4390120 - 4390088
Alignment:
Q  11 gttgctatttggttgaagagcctcaaagacaga 43  Q
    |||||||||||||||||||||||| ||||||||    
T  4390120 gttgctatttggttgaagagcctccaagacaga 4390088  T

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Target: chr3; HSP #20
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 101 - 133
Target Start/End: Original strand, 5249096 - 5249128
Alignment:
Q  101 atgtaattcttctaaatgcttcttatcttttaa 133  Q
    |||||||||||| ||||||||||||||||||||    
T  5249096 atgtaattcttccaaatgcttcttatcttttaa 5249128  T

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

Target: chr3; HSP #21
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 11 - 43
Target Start/End: Original strand, 5266905 - 5266937
Alignment:
Q  11 gttgctatttggttgaagagcctcaaagacaga 43  Q
    |||||||||||||||||||||||| ||||||||    
T  5266905 gttgctatttggttgaagagcctccaagacaga 5266937  T

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Target: chr3; HSP #22
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 101 - 133
Target Start/End: Original strand, 5266983 - 5267015
Alignment:
Q  101 atgtaattcttctaaatgcttcttatcttttaa 133  Q
    |||||||||||| ||||||||||||||||||||    
T  5266983 atgtaattcttccaaatgcttcttatcttttaa 5267015  T

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

Target: chr3; HSP #23
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 1 - 37
Target Start/End: Original strand, 8470394 - 8470430
Alignment:
Q  1 gcctcttcaagttgctatttggttgaagagcctcaaa 37  Q
    |||| ||||||||| ||||||||||||||||||||||    
T  8470394 gcctattcaagttgttatttggttgaagagcctcaaa 8470430  T

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

Target: scaffold0425 (Bit Score: 63; Significance: 1e-27; HSPs: 1)
Name: scaffold0425
Description:

Target: scaffold0425; HSP #1
Raw Score: 63; E-Value: 1e-27
Query Start/End: Original strand, 67 - 205
Target Start/End: Complemental strand, 8640 - 8502
Alignment:
Q  67 catccatttcttttcttgtaccattaaattccaaatgtaattcttctaaatgcttcttatcttttaaattggctgtcgcagcatctgcaggatcaatcac 166  Q
    |||||||||||| ||||   ||||| || ||||  || ||||||||||||| |||||||||||| ||||| | ||| |||||||||||||||||| | ||    
T  8640 catccatttcttctcttccgccattgaactccatttgaaattcttctaaatacttcttatctttcaaatttgatgtggcagcatctgcaggatcactgac 8541  T
Q  167 attacccaaccctttaatatcaattgttcgatgatgatg 205  Q
    |||||||||||||||||||| |||||||| |||| ||||    
T  8540 attacccaaccctttaatatgaattgttccatgaagatg 8502  T

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

Target: chr2 (Bit Score: 40; Significance: 0.00000000000008; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 40; E-Value: 0.00000000000008
Query Start/End: Original strand, 101 - 200
Target Start/End: Complemental strand, 2623870 - 2623771
Alignment:
Q  101 atgtaattcttctaaatgcttcttatcttttaaattggctgtcgcagcatctgcaggatcaatcacattacccaaccctttaatatcaattgttcgatga 200  Q
    |||||||| |||||||| |||||||||||| |||||  |||| |||||||||||| ||||  | |||||| |||| |||| ||||| |||||||| ||||    
T  2623870 atgtaatttttctaaatacttcttatctttcaaatttactgtagcagcatctgcaagatcgctgacattatccaagccttcaatatgaattgttccatga 2623771  T

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Target: scaffold1643 (Bit Score: 29; Significance: 0.0000003; HSPs: 1)
Name: scaffold1643
Description:

Target: scaffold1643; HSP #1
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 1 - 41
Target Start/End: Original strand, 1007 - 1047
Alignment:
Q  1 gcctcttcaagttgctatttggttgaagagcctcaaagaca 41  Q
    |||||||||||||| |||||||||||||||| || ||||||    
T  1007 gcctcttcaagttgttatttggttgaagagcatccaagaca 1047  T

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