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: NF19748_low_42 (Length: 327)

Name: NF19748_low_42
Description: NF19748
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF19748_low_42
NF19748_low_42
[»] scaffold0090 (1 HSPs)
scaffold0090 (9-308)||(8328-8627)
[»] chr3 (11 HSPs)
chr3 (19-305)||(13854872-13855159)
chr3 (34-95)||(20342485-20342546)
chr3 (34-116)||(1107508-1107590)
chr3 (34-95)||(5483495-5483556)
chr3 (30-99)||(5488941-5489010)
chr3 (30-99)||(5501788-5501857)
chr3 (34-99)||(5524656-5524721)
chr3 (34-95)||(5829386-5829447)
chr3 (34-79)||(1050411-1050456)
chr3 (34-95)||(5445166-5445227)
chr3 (34-95)||(5850131-5850192)
[»] chr8 (1 HSPs)
chr8 (31-158)||(23555533-23555660)
[»] chr5 (3 HSPs)
chr5 (34-96)||(22689410-22689472)
chr5 (218-308)||(28419661-28419751)
chr5 (19-77)||(28419897-28419955)
[»] chr4 (1 HSPs)
chr4 (29-103)||(31697078-31697152)
[»] chr2 (2 HSPs)
chr2 (37-80)||(2712642-2712685)
chr2 (54-99)||(34218961-34219006)


Alignment Details
Target: scaffold0090 (Bit Score: 280; Significance: 1e-157; HSPs: 1)
Name: scaffold0090
Description:

Target: scaffold0090; HSP #1
Raw Score: 280; E-Value: 1e-157
Query Start/End: Original strand, 9 - 308
Target Start/End: Original strand, 8328 - 8627
Alignment:
Q  9 gtccaagaatatattactcactttcagatctctatgtatgattcgtaatcttgaatcttgatgaagataaagaagcccccgagcaattccaaatagaatg 108  Q
    |||||| || ||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  8328 gtccaataaaatattactcactttcagatctctgtgtatgattcgtaatcttgaatcttgatgaagataaagaagcccccgagcaattccaaatagaatg 8427  T
Q  109 ttaaagcgtgcagaccagtccaacaatttactttgaaatggatctgtaaagtgtgttcaataagtttattagtaatttctttacataaattttaaactta 208  Q
    ||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||    
T  8428 ttaaagcgtgcagaccaatccaacaatttactttgaaatggatctgtaaagtgtgttcaatatgtttattagtaatttctttacataaattttaaactta 8527  T
Q  209 tatcataccaaatattacactttgcaaaaaattactcaccaaaaagaaatgtatcgagacttttgttggacatgtattcataaatcaacattttctcatc 308  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  8528 tatcataccaaatattacactttgcaaaaaattactcaccaaaaagaaatgtatcgagacttttgttggacatgtattcataaatcaacattttctcatc 8627  T

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

Target: chr3 (Bit Score: 176; Significance: 8e-95; HSPs: 11)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 176; E-Value: 8e-95
Query Start/End: Original strand, 19 - 305
Target Start/End: Complemental strand, 13855159 - 13854872
Alignment:
Q  19 atattactcactttcagatctctatgtatgattcgtaatcttgaatcttgatgaagataaagaagcccccgagcaattccaaatagaatgttaaagcgtg 118  Q
    |||||||||||||| |||||||| |||||||| ||||||||||||||||||||||||||||||||||| |||||||||||||||| |||||| |||||||    
T  13855159 atattactcactttaagatctctgtgtatgatccgtaatcttgaatcttgatgaagataaagaagccctcgagcaattccaaatataatgttgaagcgtg 13855060  T
Q  119 cagaccagtccaacaatttactttgaaatggatctgtaaagtgtgttcaataagtttattagtaatttctttacataa-attttaaacttatatcatacc 217  Q
    ||||||| |||||||||||||||||||||||||||||||||||  | ||||| |||||   ||  ||||||| ||||| |   |||||| ||||||| ||    
T  13855059 cagaccaatccaacaatttactttgaaatggatctgtaaagtgcctccaatacgtttacatgtcgtttctttgcataacaaaataaactaatatcattcc 13854960  T
Q  218 aaatattacactttgcaaaaaattactcaccaaaaagaaatgtatcgagacttttgttggacatgtattcataaatcaacattttctc 305  Q
    ||||||||||||| || ||||||||||||||||||||||||| |||||||||||||||||||||||||||||| ||||||||||||||    
T  13854959 aaatattacacttcgcgaaaaattactcaccaaaaagaaatgaatcgagacttttgttggacatgtattcatatatcaacattttctc 13854872  T

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

Target: chr3; HSP #2
Raw Score: 42; E-Value: 0.000000000000008
Query Start/End: Original strand, 34 - 95
Target Start/End: Original strand, 20342485 - 20342546
Alignment:
Q  34 agatctctatgtatgattcgtaatcttgaatcttgatgaagataaagaagcccccgagcaat 95  Q
    |||||||||||||||||||||| | | ||||||||||| ||||| |||||||||||||||||    
T  20342485 agatctctatgtatgattcgtagtgtagaatcttgatggagatacagaagcccccgagcaat 20342546  T

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

Target: chr3; HSP #3
Raw Score: 39; E-Value: 0.0000000000005
Query Start/End: Original strand, 34 - 116
Target Start/End: Complemental strand, 1107590 - 1107508
Alignment:
Q  34 agatctctatgtatgattcgtaatcttgaatcttgatgaagataaagaagcccccgagcaattccaaatagaatgttaaagcg 116  Q
    ||||||||||||||||| |  ||||| ||||||||||||||||||| ||| || ||||| |||||| |||  |||||||||||    
T  1107590 agatctctatgtatgatcctcaatctagaatcttgatgaagataaataagtccacgagcgattccacatatgatgttaaagcg 1107508  T

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

Target: chr3; HSP #4
Raw Score: 34; E-Value: 0.0000000005
Query Start/End: Original strand, 34 - 95
Target Start/End: Original strand, 5483495 - 5483556
Alignment:
Q  34 agatctctatgtatgattcgtaatcttgaatcttgatgaagataaagaagcccccgagcaat 95  Q
    ||||||||||||||||||| |||| | ||||| ||||| ||||| || ||||||||||||||    
T  5483495 agatctctatgtatgattcttaatgtagaatcctgatggagatacagcagcccccgagcaat 5483556  T

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

Target: chr3; HSP #5
Raw Score: 34; E-Value: 0.0000000005
Query Start/End: Original strand, 30 - 99
Target Start/End: Original strand, 5488941 - 5489010
Alignment:
Q  30 tttcagatctctatgtatgattcgtaatcttgaatcttgatgaagataaagaagcccccgagcaattcca 99  Q
    ||||| ||||||||||||||||| || | | ||||||||||||||||| |  ||||| ||||||||||||    
T  5488941 tttcatatctctatgtatgattcttagtgtagaatcttgatgaagatacaacagccctcgagcaattcca 5489010  T

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

Target: chr3; HSP #6
Raw Score: 34; E-Value: 0.0000000005
Query Start/End: Original strand, 30 - 99
Target Start/End: Original strand, 5501788 - 5501857
Alignment:
Q  30 tttcagatctctatgtatgattcgtaatcttgaatcttgatgaagataaagaagcccccgagcaattcca 99  Q
    ||||| ||||||||||||||||| || | | ||||||||||||||||| |  ||||| ||||||||||||    
T  5501788 tttcatatctctatgtatgattcttagtgtagaatcttgatgaagatacaacagccctcgagcaattcca 5501857  T

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

Target: chr3; HSP #7
Raw Score: 34; E-Value: 0.0000000005
Query Start/End: Original strand, 34 - 99
Target Start/End: Original strand, 5524656 - 5524721
Alignment:
Q  34 agatctctatgtatgattcgtaatcttgaatcttgatgaagataaagaagcccccgagcaattcca 99  Q
    ||||||||||||||||||| |  | | ||||||||||||||||| || ||||| ||||||||||||    
T  5524656 agatctctatgtatgattctttgtgtagaatcttgatgaagatatagcagccctcgagcaattcca 5524721  T

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

Target: chr3; HSP #8
Raw Score: 34; E-Value: 0.0000000005
Query Start/End: Original strand, 34 - 95
Target Start/End: Complemental strand, 5829447 - 5829386
Alignment:
Q  34 agatctctatgtatgattcgtaatcttgaatcttgatgaagataaagaagcccccgagcaat 95  Q
    ||||||||||||||||| |  ||| ||||||||||||| |||||||| ||||| ||||||||    
T  5829447 agatctctatgtatgatcctcaatgttgaatcttgatggagataaagcagcccacgagcaat 5829386  T

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

Target: chr3; HSP #9
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 34 - 79
Target Start/End: Complemental strand, 1050456 - 1050411
Alignment:
Q  34 agatctctatgtatgattcgtaatcttgaatcttgatgaagataaa 79  Q
    ||||||| ||||||||| | |||||| |||||||||||||||||||    
T  1050456 agatctcgatgtatgatccttaatctagaatcttgatgaagataaa 1050411  T

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

Target: chr3; HSP #10
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 34 - 95
Target Start/End: Original strand, 5445166 - 5445227
Alignment:
Q  34 agatctctatgtatgattcgtaatcttgaatcttgatgaagataaagaagcccccgagcaat 95  Q
    ||||||||||| ||||||| |||| | ||||| ||||| ||||| || ||||||||||||||    
T  5445166 agatctctatgaatgattcttaatgtagaatcctgatggagatacagcagcccccgagcaat 5445227  T

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

Target: chr3; HSP #11
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 34 - 95
Target Start/End: Complemental strand, 5850192 - 5850131
Alignment:
Q  34 agatctctatgtatgattcgtaatcttgaatcttgatgaagataaagaagcccccgagcaat 95  Q
    ||||||||||||||||||| |||| | ||||| ||||| ||||| || ||||| ||||||||    
T  5850192 agatctctatgtatgattcttaatgtagaatcctgatggagatacagcagccctcgagcaat 5850131  T

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

Target: chr8 (Bit Score: 48; Significance: 2e-18; HSPs: 1)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 48; E-Value: 2e-18
Query Start/End: Original strand, 31 - 158
Target Start/End: Complemental strand, 23555660 - 23555533
Alignment:
Q  31 ttcagatctctatgtatgattcgtaatcttgaatcttgatgaagataaagaagcccccgagcaattccaaatagaatgttaaagcgtgcagaccagtcca 130  Q
    |||| ||||||||||||||| |  ||||||||||||||||| | ||||||||| || |||||||||||| | |  |||||||| || |  ||||| || |    
T  23555660 ttcaaatctctatgtatgatcctcaatcttgaatcttgatgtaaataaagaagacctcgagcaattccatacaagatgttaaaacgcgtcgaccaatcta 23555561  T
Q  131 acaatttactttgaaatggatctgtaaa 158  Q
    ||| ||||||||||| ||||||||||||    
T  23555560 acagtttactttgaattggatctgtaaa 23555533  T

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

Target: chr5 (Bit Score: 39; Significance: 0.0000000000005; HSPs: 3)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 39; E-Value: 0.0000000000005
Query Start/End: Original strand, 34 - 96
Target Start/End: Original strand, 22689410 - 22689472
Alignment:
Q  34 agatctctatgtatgattcgtaatcttgaatcttgatgaagataaagaagcccccgagcaatt 96  Q
    ||||| ||||||||||||| |||| | ||||||||||||||||||||||| || |||||||||    
T  22689410 agatccctatgtatgattcttaatatagaatcttgatgaagataaagaagtcctcgagcaatt 22689472  T

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

Target: chr5; HSP #2
Raw Score: 35; E-Value: 0.0000000001
Query Start/End: Original strand, 218 - 308
Target Start/End: Complemental strand, 28419751 - 28419661
Alignment:
Q  218 aaatattacactttgcaaaaaattactcaccaaaaagaaatgtatcgagacttttgttggacatgtattcataaatcaacattttctcatc 308  Q
    |||||||| |||||  ||||||||||  |||||||||||||| ||| || |||||||| | |||||||||||| || |||| ||| |||||    
T  28419751 aaatattagacttttaaaaaaattacaaaccaaaaagaaatgaatcaaggcttttgtttggcatgtattcatagattaacagtttttcatc 28419661  T

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

Target: chr5; HSP #3
Raw Score: 31; E-Value: 0.00000003
Query Start/End: Original strand, 19 - 77
Target Start/End: Complemental strand, 28419955 - 28419897
Alignment:
Q  19 atattactcactttcagatctctatgtatgattcgtaatcttgaatcttgatgaagata 77  Q
    ||||||||| | |||| ||| ||||||||||| | |||||| |||||||||||||||||    
T  28419955 atattactcgccttcaaatccctatgtatgatccttaatctagaatcttgatgaagata 28419897  T

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

Target: chr4 (Bit Score: 35; Significance: 0.0000000001; HSPs: 1)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 35; E-Value: 0.0000000001
Query Start/End: Original strand, 29 - 103
Target Start/End: Complemental strand, 31697152 - 31697078
Alignment:
Q  29 ctttcagatctctatgtatgattcgtaatcttgaatcttgatgaagataaagaagcccccgagcaattccaaata 103  Q
    |||| ||||||||||| || |||| |||||  ||||||||||||||||| | ||| |||| ||||||||||||||    
T  31697152 ctttgagatctctatgaataattcttaatcgagaatcttgatgaagatacacaagtcccctagcaattccaaata 31697078  T

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

Target: chr2 (Bit Score: 32; Significance: 0.000000007; HSPs: 2)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 32; E-Value: 0.000000007
Query Start/End: Original strand, 37 - 80
Target Start/End: Original strand, 2712642 - 2712685
Alignment:
Q  37 tctctatgtatgattcgtaatcttgaatcttgatgaagataaag 80  Q
    ||||||||||| |||| ||||||||||||| |||||||||||||    
T  2712642 tctctatgtattattcttaatcttgaatctcgatgaagataaag 2712685  T

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

Target: chr2; HSP #2
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 54 - 99
Target Start/End: Complemental strand, 34219006 - 34218961
Alignment:
Q  54 taatcttgaatcttgatgaagataaagaagcccccgagcaattcca 99  Q
    |||||| ||||||| ||||||||||||||| || ||||||||||||    
T  34219006 taatctagaatcttcatgaagataaagaaggcctcgagcaattcca 34218961  T

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



© Oklahoma State University