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: NF9960_1D_high_19 (Length: 231)

Name: NF9960_1D_high_19
Description: NF9960_1D
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF9960_1D_high_19
NF9960_1D_high_19
[»] chr2 (20 HSPs)
chr2 (23-220)||(30021487-30021684)
chr2 (23-220)||(30120507-30120704)
chr2 (23-220)||(30039011-30039208)
chr2 (23-220)||(30079893-30080090)
chr2 (23-220)||(30108489-30108686)
chr2 (23-220)||(30135205-30135402)
chr2 (23-220)||(30233149-30233346)
chr2 (23-153)||(30056024-30056154)
chr2 (34-220)||(30250417-30250603)
chr2 (103-220)||(30278017-30278134)
chr2 (103-217)||(30169695-30169809)
chr2 (36-209)||(30788772-30788945)
chr2 (91-211)||(30222241-30222361)
chr2 (26-220)||(30066703-30066897)
chr2 (91-211)||(30090784-30090904)
chr2 (91-211)||(30127389-30127509)
chr2 (148-220)||(30010208-30010280)
chr2 (91-211)||(30028104-30028224)
chr2 (91-211)||(30101103-30101223)
chr2 (75-175)||(30186118-30186218)
[»] chr1 (1 HSPs)
chr1 (97-220)||(30272048-30272171)


Alignment Details
Target: chr2 (Bit Score: 174; Significance: 9e-94; HSPs: 20)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 174; E-Value: 9e-94
Query Start/End: Original strand, 23 - 220
Target Start/End: Complemental strand, 30021684 - 30021487
Alignment:
Q  23 atttgtgagaatgtctaaataagcccaacccccaataacatacaaaaattggtccagtgtagaggacatccagtccaaaggaaccaattaataagaatag 122  Q
    ||||||||||||||||||||||||||||||||||||||||||| |||| ||||||||||||||||  |||||||||||||||||||||||||||||||||    
T  30021684 atttgtgagaatgtctaaataagcccaacccccaataacatactaaaagtggtccagtgtagaggtaatccagtccaaaggaaccaattaataagaatag 30021585  T
Q  123 caacttcagttcttcactctctaaacaattataactcaattccagagtagaataaactttcttatgcaacccttcttgatcagatctctgtaattcat 220  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||| |||||||||||||||    
T  30021584 caacttcagttcttcactctctaaacaattataactcaattccagagtagagtaaactttcttatgcaacccttcttgatcaaatctctgtaattcat 30021487  T

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

Target: chr2; HSP #2
Raw Score: 174; E-Value: 9e-94
Query Start/End: Original strand, 23 - 220
Target Start/End: Original strand, 30120507 - 30120704
Alignment:
Q  23 atttgtgagaatgtctaaataagcccaacccccaataacatacaaaaattggtccagtgtagaggacatccagtccaaaggaaccaattaataagaatag 122  Q
    ||||||||||||||||||||||||||||||||||||||||||| |||| ||||||||||||||||  |||||||||||||||||||||||||||||||||    
T  30120507 atttgtgagaatgtctaaataagcccaacccccaataacatactaaaagtggtccagtgtagaggtaatccagtccaaaggaaccaattaataagaatag 30120606  T
Q  123 caacttcagttcttcactctctaaacaattataactcaattccagagtagaataaactttcttatgcaacccttcttgatcagatctctgtaattcat 220  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||| |||||||||||||||    
T  30120607 caacttcagttcttcactctctaaacaattataactcaattccagagtagagtaaactttcttatgcaacccttcttgatcaaatctctgtaattcat 30120704  T

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

Target: chr2; HSP #3
Raw Score: 170; E-Value: 2e-91
Query Start/End: Original strand, 23 - 220
Target Start/End: Original strand, 30039011 - 30039208
Alignment:
Q  23 atttgtgagaatgtctaaataagcccaacccccaataacatacaaaaattggtccagtgtagaggacatccagtccaaaggaaccaattaataagaatag 122  Q
    ||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||| ||  |||||||||||||||||||||||||||||||||    
T  30039011 atttgtgagaatgtctaaataagcccaacccccaataacatactaaaattggtccagtgtagcggtaatccagtccaaaggaaccaattaataagaatag 30039110  T
Q  123 caacttcagttcttcactctctaaacaattataactcaattccagagtagaataaactttcttatgcaacccttcttgatcagatctctgtaattcat 220  Q
    ||||||||||||||||||||||||||||||| ||||||||||||||||||| |||||||||||||||||||||||||||||| |||||||||||||||    
T  30039111 caacttcagttcttcactctctaaacaattaaaactcaattccagagtagagtaaactttcttatgcaacccttcttgatcaaatctctgtaattcat 30039208  T

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

Target: chr2; HSP #4
Raw Score: 170; E-Value: 2e-91
Query Start/End: Original strand, 23 - 220
Target Start/End: Complemental strand, 30080090 - 30079893
Alignment:
Q  23 atttgtgagaatgtctaaataagcccaacccccaataacatacaaaaattggtccagtgtagaggacatccagtccaaaggaaccaattaataagaatag 122  Q
    ||||||||||| || ||||||||||||||||||||||||||||||||| ||||||||||||||||  |||||||||||||||||||||||||||||||||    
T  30080090 atttgtgagaaagtgtaaataagcccaacccccaataacatacaaaaagtggtccagtgtagaggtaatccagtccaaaggaaccaattaataagaatag 30079991  T
Q  123 caacttcagttcttcactctctaaacaattataactcaattccagagtagaataaactttcttatgcaacccttcttgatcagatctctgtaattcat 220  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||| |||||||||||||||    
T  30079990 caacttcagttcttcactctctaaacaattataactcaattccagagtagagtaaactttcttatgcaacccttcttgatcaaatctctgtaattcat 30079893  T

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

Target: chr2; HSP #5
Raw Score: 170; E-Value: 2e-91
Query Start/End: Original strand, 23 - 220
Target Start/End: Original strand, 30108489 - 30108686
Alignment:
Q  23 atttgtgagaatgtctaaataagcccaacccccaataacatacaaaaattggtccagtgtagaggacatccagtccaaaggaaccaattaataagaatag 122  Q
    ||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||| ||  |||||||||||||||||||||||||||||||||    
T  30108489 atttgtgagaatgtctaaataagcccaacccccaataacatactaaaattggtccagtgtagcggtaatccagtccaaaggaaccaattaataagaatag 30108588  T
Q  123 caacttcagttcttcactctctaaacaattataactcaattccagagtagaataaactttcttatgcaacccttcttgatcagatctctgtaattcat 220  Q
    ||||||||||||||||||||||||||||||| ||||||||||||||||||| |||||||||||||||||||||||||||||| |||||||||||||||    
T  30108589 caacttcagttcttcactctctaaacaattaaaactcaattccagagtagagtaaactttcttatgcaacccttcttgatcaaatctctgtaattcat 30108686  T

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

Target: chr2; HSP #6
Raw Score: 170; E-Value: 2e-91
Query Start/End: Original strand, 23 - 220
Target Start/End: Original strand, 30135205 - 30135402
Alignment:
Q  23 atttgtgagaatgtctaaataagcccaacccccaataacatacaaaaattggtccagtgtagaggacatccagtccaaaggaaccaattaataagaatag 122  Q
    ||||||||||||||||||||||||||||||||||||||||||| |||| ||||||||||||||||  |||||||||||||||||||||||||||||||||    
T  30135205 atttgtgagaatgtctaaataagcccaacccccaataacatactaaaagtggtccagtgtagaggtaatccagtccaaaggaaccaattaataagaatag 30135304  T
Q  123 caacttcagttcttcactctctaaacaattataactcaattccagagtagaataaactttcttatgcaacccttcttgatcagatctctgtaattcat 220  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||| |||||||||||||||| |||||||||||||||    
T  30135305 caacttcagttcttcactctctaaacaattataactcaattccagagtagagtaaactttcttattcaacccttcttgatcaaatctctgtaattcat 30135402  T

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

Target: chr2; HSP #7
Raw Score: 170; E-Value: 2e-91
Query Start/End: Original strand, 23 - 220
Target Start/End: Original strand, 30233149 - 30233346
Alignment:
Q  23 atttgtgagaatgtctaaataagcccaacccccaataacatacaaaaattggtccagtgtagaggacatccagtccaaaggaaccaattaataagaatag 122  Q
    ||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||| ||  |||||||||||||||||||||||||||||||||    
T  30233149 atttgtgagaatgtctaaataagcccaacccccaataacatactaaaattggtccagtgtagcggtaatccagtccaaaggaaccaattaataagaatag 30233248  T
Q  123 caacttcagttcttcactctctaaacaattataactcaattccagagtagaataaactttcttatgcaacccttcttgatcagatctctgtaattcat 220  Q
    ||||||||||||||||||||||||||||||| ||||||||||||||||||| |||||||||||||||||||||||||||||| |||||||||||||||    
T  30233249 caacttcagttcttcactctctaaacaattaaaactcaattccagagtagagtaaactttcttatgcaacccttcttgatcaaatctctgtaattcat 30233346  T

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

Target: chr2; HSP #8
Raw Score: 119; E-Value: 6e-61
Query Start/End: Original strand, 23 - 153
Target Start/End: Complemental strand, 30056154 - 30056024
Alignment:
Q  23 atttgtgagaatgtctaaataagcccaacccccaataacatacaaaaattggtccagtgtagaggacatccagtccaaaggaaccaattaataagaatag 122  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||  |||||||||||||||||||||||||||||||||    
T  30056154 atttgtgagaatgtctaaataagcccaacccccaataacatacaaaaattggtccagtgtagcggtaatccagtccaaaggaaccaattaataagaatag 30056055  T
Q  123 caacttcagttcttcactctctaaacaatta 153  Q
    |||||||||||||||||||||||||||||||    
T  30056054 caacttcagttcttcactctctaaacaatta 30056024  T

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

Target: chr2; HSP #9
Raw Score: 111; E-Value: 4e-56
Query Start/End: Original strand, 34 - 220
Target Start/End: Complemental strand, 30250603 - 30250417
Alignment:
Q  34 tgtctaaataagcccaacccccaataacatacaaaaattggtccagtgtagaggacatccagtccaaaggaaccaattaataagaatagcaacttcagtt 133  Q
    ||||||||||||||||||||| ||||| ||| ||| || | |||| |||||| |  ||| ||||||||||||||||| || |||||||||||||||||||    
T  30250603 tgtctaaataagcccaaccccaaataatataaaaacatcgatccaatgtagatgtaatctagtccaaaggaaccaatgaacaagaatagcaacttcagtt 30250504  T
Q  134 cttcactctctaaacaattataactcaattccagagtagaataaactttcttatgcaacccttcttgatcagatctctgtaattcat 220  Q
    | |||||||||||||||||||||||||||||||||||||| ||||||||||||||||| |||||||||||| |||| | ||||||||    
T  30250503 cctcactctctaaacaattataactcaattccagagtagagtaaactttcttatgcaatccttcttgatcaaatctttctaattcat 30250417  T

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

Target: chr2; HSP #10
Raw Score: 78; E-Value: 2e-36
Query Start/End: Original strand, 103 - 220
Target Start/End: Complemental strand, 30278134 - 30278017
Alignment:
Q  103 gaaccaattaataagaatagcaacttcagttcttcactctctaaacaattataactcaattccagagtagaataaactttcttatgcaacccttcttgat 202  Q
    |||||||| |||||||||||||| || ||||| ||| ||||||||||||||||||||||||| |||||||| ||||||||||||||||||||||||| ||    
T  30278134 gaaccaatgaataagaatagcaattttagttcctcattctctaaacaattataactcaattcaagagtagagtaaactttcttatgcaacccttcttcat 30278035  T
Q  203 cagatctctgtaattcat 220  Q
    || |||||| ||||||||    
T  30278034 caaatctctctaattcat 30278017  T

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

Target: chr2; HSP #11
Raw Score: 59; E-Value: 4e-25
Query Start/End: Original strand, 103 - 217
Target Start/End: Complemental strand, 30169809 - 30169695
Alignment:
Q  103 gaaccaattaataagaatagcaacttcagttcttcactctctaaacaattataactcaattccagagtagaataaactttcttatgcaacccttcttgat 202  Q
    |||||||| ||||| || ||  ||||||| || ||||| |||||||||||||||||||||||||  ||||| ||||||||||||||||| ||||||||||    
T  30169809 gaaccaatgaataaaaagagtgacttcaggtcatcactttctaaacaattataactcaattccaaggtagagtaaactttcttatgcaagccttcttgat 30169710  T
Q  203 cagatctctgtaatt 217  Q
    || |||||| |||||    
T  30169709 caaatctctctaatt 30169695  T

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

Target: chr2; HSP #12
Raw Score: 54; E-Value: 4e-22
Query Start/End: Original strand, 36 - 209
Target Start/End: Complemental strand, 30788945 - 30788772
Alignment:
Q  36 tctaaataagcccaacccccaataacatacaaaaattggtccagtgtagaggacatccagtccaaaggaaccaattaataagaatagcaacttcagttct 135  Q
    |||| |||||||| ||||||||||||||| ||| | |  | |||||| ||||  ||| || ||||| |||||||| |||||||| ||  |||| |||||     
T  30788945 tctatataagcccgacccccaataacataaaaatagttctgcagtgtggaggtgatctaggccaaatgaaccaatgaataagaacagtgactttagttca 30788846  T
Q  136 tcactctctaaacaattataactcaattccagagtagaataaactttcttatgcaacccttcttgatcagatct 209  Q
    ||||| ||||| ||||||||||||||||| | || ||| || | |||||||||||||||||||| |||| ||||    
T  30788845 tcactttctaagcaattataactcaattctaaagcagagtagattttcttatgcaacccttctttatcaaatct 30788772  T

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

Target: chr2; HSP #13
Raw Score: 53; E-Value: 1e-21
Query Start/End: Original strand, 91 - 211
Target Start/End: Complemental strand, 30222361 - 30222241
Alignment:
Q  91 tccagtccaaaggaaccaattaataagaatagcaacttcagttcttcactctctaaacaattataactcaattccagagtagaataaactttcttatgca 190  Q
    ||||||||||| ||||||||||| | ||| ||  ||||||| || || || |||||||||||||||||||||||||  ||||| || |||||||||||||    
T  30222361 tccagtccaaatgaaccaattaaaaggaagagtgacttcaggtcatccctttctaaacaattataactcaattccaaggtagagtagactttcttatgca 30222262  T
Q  191 acccttcttgatcagatctct 211  Q
    | |||| ||||||| ||||||    
T  30222261 aaccttgttgatcaaatctct 30222241  T

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

Target: chr2; HSP #14
Raw Score: 51; E-Value: 2e-20
Query Start/End: Original strand, 26 - 220
Target Start/End: Complemental strand, 30066897 - 30066703
Alignment:
Q  26 tgtgagaatgtctaaataagcccaacccccaataacatacaaaaattggtccagtgtagaggacatccagtccaaaggaaccaattaataagaatagcaa 125  Q
    ||||||| |||||| ||||||||| ||||||||| | |  ||| | |  ||| |||| ||||  ||| |||||||| ||||| || |||||||| ||  |    
T  30066897 tgtgagagtgtctatataagcccatcccccaatagcttgaaaacagttctccggtgtggaggtaatctagtccaaacgaacctatgaataagaacagtga 30066798  T
Q  126 cttcagttcttcactctctaaacaattataactcaattccagagtagaataaactttcttatgcaacccttcttgatcagatctctgtaattcat 220  Q
    ||| || || ||||| ||||  ||||||||||||||||||| || |||||| | ||||||||||| ||||||||||||| |||||| ||| ||||    
T  30066797 ctttagctcatcactttctaggcaattataactcaattccaaagcagaatatattttcttatgcagcccttcttgatcaaatctctctaactcat 30066703  T

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

Target: chr2; HSP #15
Raw Score: 45; E-Value: 9e-17
Query Start/End: Original strand, 91 - 211
Target Start/End: Complemental strand, 30090904 - 30090784
Alignment:
Q  91 tccagtccaaaggaaccaattaataagaatagcaacttcagttcttcactctctaaacaattataactcaattccagagtagaataaactttcttatgca 190  Q
    |||| |||||| |||||||| || | ||| ||  ||||||| || || || |||||||||||||||||||||||||  ||||| || |||||||||||||    
T  30090904 tccaatccaaatgaaccaatgaaaaggaagagtgacttcaggtcatccctttctaaacaattataactcaattccaaggtagagtagactttcttatgca 30090805  T
Q  191 acccttcttgatcagatctct 211  Q
    | |||| ||||||| ||||||    
T  30090804 aaccttgttgatcaaatctct 30090784  T

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

Target: chr2; HSP #16
Raw Score: 45; E-Value: 9e-17
Query Start/End: Original strand, 91 - 211
Target Start/End: Complemental strand, 30127509 - 30127389
Alignment:
Q  91 tccagtccaaaggaaccaattaataagaatagcaacttcagttcttcactctctaaacaattataactcaattccagagtagaataaactttcttatgca 190  Q
    |||| |||||| |||||||| || | ||| ||  ||||||| || || || |||||||||||||||||||||||||  ||||| || |||||||||||||    
T  30127509 tccaatccaaatgaaccaatgaaaaggaagagtgacttcaggtcatccctttctaaacaattataactcaattccaaggtagagtagactttcttatgca 30127410  T
Q  191 acccttcttgatcagatctct 211  Q
    | |||| ||||||| ||||||    
T  30127409 aaccttgttgatcaaatctct 30127389  T

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

Target: chr2; HSP #17
Raw Score: 41; E-Value: 0.00000000000002
Query Start/End: Original strand, 148 - 220
Target Start/End: Complemental strand, 30010280 - 30010208
Alignment:
Q  148 caattataactcaattccagagtagaataaactttcttatgcaacccttcttgatcagatctctgtaattcat 220  Q
    ||||||||||||||||||| || |||||| | ||||||||||| ||||||||||||| |||||| ||| ||||    
T  30010280 caattataactcaattccaaagcagaatatattttcttatgcagcccttcttgatcaaatctctctaactcat 30010208  T

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

Target: chr2; HSP #18
Raw Score: 37; E-Value: 0.000000000005
Query Start/End: Original strand, 91 - 211
Target Start/End: Complemental strand, 30028224 - 30028104
Alignment:
Q  91 tccagtccaaaggaaccaattaataagaatagcaacttcagttcttcactctctaaacaattataactcaattccagagtagaataaactttcttatgca 190  Q
    ||||||||||| |||| ||| || | ||| ||  ||||||| || || || ||||||||||||||||||| |||||  ||||| || |||||| ||||||    
T  30028224 tccagtccaaatgaacaaatgaaaaggaagagtgacttcaggtcatccctttctaaacaattataactcagttccaaggtagagtagactttcatatgca 30028125  T
Q  191 acccttcttgatcagatctct 211  Q
    | |||| ||||||| ||||||    
T  30028124 aaccttgttgatcaaatctct 30028104  T

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

Target: chr2; HSP #19
Raw Score: 37; E-Value: 0.000000000005
Query Start/End: Original strand, 91 - 211
Target Start/End: Complemental strand, 30101223 - 30101103
Alignment:
Q  91 tccagtccaaaggaaccaattaataagaatagcaacttcagttcttcactctctaaacaattataactcaattccagagtagaataaactttcttatgca 190  Q
    ||||||||||| |||| ||| || | ||| ||  ||||||| || || || ||||||||||||||||||| |||||  ||||| || |||||| ||||||    
T  30101223 tccagtccaaatgaacaaatgaaaaggaagagtgacttcaggtcatccctttctaaacaattataactcagttccaaggtagagtagactttcatatgca 30101124  T
Q  191 acccttcttgatcagatctct 211  Q
    | |||| ||||||| ||||||    
T  30101123 aaccttgttgatcaaatctct 30101103  T

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

Target: chr2; HSP #20
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 75 - 175
Target Start/End: Original strand, 30186118 - 30186218
Alignment:
Q  75 tccagtgtagaggacatccagtccaaaggaaccaattaataagaatagcaacttcagttcttcactctctaaacaattataactcaattccagagtagaa 174  Q
    |||||||| ||||  ||| | |||||| |||||||| |||||||| |   |||||||||| ||||| ||||   ||||||||||||| |||| |||||||    
T  30186118 tccagtgtggaggtgatctactccaaacgaaccaatgaataagaacaatgacttcagttcatcactttctaggaaattataactcaactccaaagtagaa 30186217  T
Q  175 t 175  Q
    |    
T  30186218 t 30186218  T

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

Target: chr1 (Bit Score: 56; Significance: 2e-23; HSPs: 1)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 56; E-Value: 2e-23
Query Start/End: Original strand, 97 - 220
Target Start/End: Complemental strand, 30272171 - 30272048
Alignment:
Q  97 ccaaaggaaccaattaataagaatagcaacttcagttcttcactctctaaacaattataactcaattccagagtagaataaactttcttatgcaaccctt 196  Q
    ||||| |||||||| |||||||| ||  |||| || || ||||| ||||| ||||||||||||||||||| ||||||||| | |||||||||||||||||    
T  30272171 ccaaacgaaccaatgaataagaagagtgactttagctcgtcactttctaagcaattataactcaattccaaagtagaatagattttcttatgcaaccctt 30272072  T
Q  197 cttgatcagatctctgtaattcat 220  Q
     ||||||| |||||| ||| ||||    
T  30272071 tttgatcaaatctctctaactcat 30272048  T

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