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: Solexa-NF5837-5 (Length: 141)

Name: Solexa-NF5837-5
Description: NF5837
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] Solexa-NF5837-5
Solexa-NF5837-5
[»] chr5 (5 HSPs)
chr5 (1-141)||(2707802-2707943)
chr5 (26-60)||(6217721-6217755)
chr5 (2-54)||(16127050-16127100)
chr5 (18-54)||(34034905-34034941)
chr5 (19-54)||(16902989-16903024)
[»] chr8 (3 HSPs)
chr8 (19-58)||(21145708-21145747)
chr8 (17-59)||(7574367-7574409)
chr8 (19-54)||(3662508-3662543)
[»] chr6 (4 HSPs)
chr6 (19-54)||(516063-516098)
chr6 (19-54)||(10219537-10219572)
chr6 (17-54)||(21020851-21020888)
chr6 (19-51)||(9307534-9307566)
[»] chr1 (7 HSPs)
chr1 (19-54)||(31134795-31134830)
chr1 (19-58)||(32670051-32670090)
chr1 (19-54)||(32669785-32669820)
chr1 (19-54)||(34177556-34177591)
chr1 (22-58)||(6541002-6541038)
chr1 (17-53)||(31406165-31406201)
chr1 (17-57)||(36144782-36144822)
[»] chr3 (7 HSPs)
chr3 (19-60)||(14984401-14984441)
chr3 (17-57)||(41898089-41898129)
chr3 (20-54)||(23567371-23567405)
chr3 (25-54)||(14984731-14984760)
chr3 (18-59)||(34294175-34294216)
chr3 (6-54)||(46848430-46848476)
chr3 (25-56)||(7672335-7672366)
[»] chr7 (7 HSPs)
chr7 (22-58)||(30839975-30840011)
chr7 (25-54)||(18942737-18942766)
chr7 (19-54)||(8062941-8062976)
chr7 (19-50)||(14669237-14669268)
chr7 (19-54)||(21401751-21401786)
chr7 (19-46)||(38838717-38838744)
chr7 (19-54)||(40355141-40355176)
[»] chr4 (4 HSPs)
chr4 (19-54)||(12034382-12034417)
chr4 (21-54)||(11298456-11298489)
chr4 (19-55)||(51151092-51151128)
chr4 (19-54)||(11840105-11840140)
[»] scaffold0050 (1 HSPs)
scaffold0050 (22-57)||(81637-81672)
[»] chr2 (1 HSPs)
chr2 (19-54)||(40124264-40124299)


Alignment Details
Target: chr5 (Bit Score: 130; Significance: 1e-67; HSPs: 5)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 130; E-Value: 1e-67
Query Start/End: Original strand, 1 - 141
Target Start/End: Original strand, 2707802 - 2707943
Alignment:
Q  1 cagagactattttgacattactcgttacacattcagggaccaaaatgactattatcccaacatatatttagactaattttgttgtcaca-ttttgtatat 99  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||| ||||||||||    
T  2707802 cagagactattttgacattactcgttacacattcagggaccaaaatgactattaccccaacatatatttagactaattttgttgtcacacttttgtatat 2707901  T
Q  100 atatttctaaaactatagtaattgagtggagcaatgtagatt 141  Q
    ||||||||||||||||||||||||||||||||||||||||||    
T  2707902 atatttctaaaactatagtaattgagtggagcaatgtagatt 2707943  T

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Target: chr5; HSP #2
Raw Score: 31; E-Value: 0.00000001
Query Start/End: Original strand, 26 - 60
Target Start/End: Original strand, 6217721 - 6217755
Alignment:
Q  26 tacacattcagggaccaaaatgactattatcccaa 60  Q
    |||||||||| ||||||||||||||||||||||||    
T  6217721 tacacattcatggaccaaaatgactattatcccaa 6217755  T

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Target: chr5; HSP #3
Raw Score: 30; E-Value: 0.00000005
Query Start/End: Original strand, 2 - 54
Target Start/End: Complemental strand, 16127100 - 16127050
Alignment:
Q  2 agagactattttgacattactcgttacacattcagggaccaaaatgactatta 54  Q
    |||||||||| ||||  ||||| ||||||||| ||||||||||||||||||||    
T  16127100 agagactattgtgac--tactccttacacatttagggaccaaaatgactatta 16127050  T

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Target: chr5; HSP #4
Raw Score: 29; E-Value: 0.0000002
Query Start/End: Original strand, 18 - 54
Target Start/End: Original strand, 34034905 - 34034941
Alignment:
Q  18 ttactcgttacacattcagggaccaaaatgactatta 54  Q
    |||||| |||||||||||||||| |||||||||||||    
T  34034905 ttactcattacacattcagggactaaaatgactatta 34034941  T

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Target: chr5; HSP #5
Raw Score: 28; E-Value: 0.0000007
Query Start/End: Original strand, 19 - 54
Target Start/End: Complemental strand, 16903024 - 16902989
Alignment:
Q  19 tactcgttacacattcagggaccaaaatgactatta 54  Q
    ||||||||| |||||||||||| |||||||||||||    
T  16903024 tactcgttatacattcagggactaaaatgactatta 16902989  T

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Target: chr8 (Bit Score: 36; Significance: 0.00000000001; HSPs: 3)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 36; E-Value: 0.00000000001
Query Start/End: Original strand, 19 - 58
Target Start/End: Original strand, 21145708 - 21145747
Alignment:
Q  19 tactcgttacacattcagggaccaaaatgactattatccc 58  Q
    ||||||||||||||||||| ||||||||||||||||||||    
T  21145708 tactcgttacacattcaggaaccaaaatgactattatccc 21145747  T

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Target: chr8; HSP #2
Raw Score: 31; E-Value: 0.00000001
Query Start/End: Original strand, 17 - 59
Target Start/End: Complemental strand, 7574409 - 7574367
Alignment:
Q  17 attactcgttacacattcagggaccaaaatgactattatccca 59  Q
    |||||| |||||||||||| ||||||||||| |||||||||||    
T  7574409 attacttgttacacattcaaggaccaaaatgtctattatccca 7574367  T

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Target: chr8; HSP #3
Raw Score: 28; E-Value: 0.0000007
Query Start/End: Original strand, 19 - 54
Target Start/End: Original strand, 3662508 - 3662543
Alignment:
Q  19 tactcgttacacattcagggaccaaaatgactatta 54  Q
    |||||||| ||||||||||||||||||| |||||||    
T  3662508 tactcgttgcacattcagggaccaaaataactatta 3662543  T

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Target: chr6 (Bit Score: 36; Significance: 0.00000000001; HSPs: 4)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 36; E-Value: 0.00000000001
Query Start/End: Original strand, 19 - 54
Target Start/End: Original strand, 516063 - 516098
Alignment:
Q  19 tactcgttacacattcagggaccaaaatgactatta 54  Q
    ||||||||||||||||||||||||||||||||||||    
T  516063 tactcgttacacattcagggaccaaaatgactatta 516098  T

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Target: chr6; HSP #2
Raw Score: 36; E-Value: 0.00000000001
Query Start/End: Original strand, 19 - 54
Target Start/End: Complemental strand, 10219572 - 10219537
Alignment:
Q  19 tactcgttacacattcagggaccaaaatgactatta 54  Q
    ||||||||||||||||||||||||||||||||||||    
T  10219572 tactcgttacacattcagggaccaaaatgactatta 10219537  T

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Target: chr6; HSP #3
Raw Score: 30; E-Value: 0.00000005
Query Start/End: Original strand, 17 - 54
Target Start/End: Complemental strand, 21020888 - 21020851
Alignment:
Q  17 attactcgttacacattcagggaccaaaatgactatta 54  Q
    ||||||||||| | ||||||||||||||||||||||||    
T  21020888 attactcgttatatattcagggaccaaaatgactatta 21020851  T

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Target: chr6; HSP #4
Raw Score: 29; E-Value: 0.0000002
Query Start/End: Original strand, 19 - 51
Target Start/End: Original strand, 9307534 - 9307566
Alignment:
Q  19 tactcgttacacattcagggaccaaaatgacta 51  Q
    |||||||||||||||||||||| ||||||||||    
T  9307534 tactcgttacacattcagggactaaaatgacta 9307566  T

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Target: chr1 (Bit Score: 36; Significance: 0.00000000001; HSPs: 7)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 36; E-Value: 0.00000000001
Query Start/End: Original strand, 19 - 54
Target Start/End: Original strand, 31134795 - 31134830
Alignment:
Q  19 tactcgttacacattcagggaccaaaatgactatta 54  Q
    ||||||||||||||||||||||||||||||||||||    
T  31134795 tactcgttacacattcagggaccaaaatgactatta 31134830  T

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Target: chr1; HSP #2
Raw Score: 36; E-Value: 0.00000000001
Query Start/End: Original strand, 19 - 58
Target Start/End: Original strand, 32670051 - 32670090
Alignment:
Q  19 tactcgttacacattcagggaccaaaatgactattatccc 58  Q
    ||||||||||||||||||||| ||||||||||||||||||    
T  32670051 tactcgttacacattcagggatcaaaatgactattatccc 32670090  T

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Target: chr1; HSP #3
Raw Score: 32; E-Value: 0.000000003
Query Start/End: Original strand, 19 - 54
Target Start/End: Complemental strand, 32669820 - 32669785
Alignment:
Q  19 tactcgttacacattcagggaccaaaatgactatta 54  Q
    ||||||||||||||||| ||||||||||||||||||    
T  32669820 tactcgttacacattcatggaccaaaatgactatta 32669785  T

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Target: chr1; HSP #4
Raw Score: 32; E-Value: 0.000000003
Query Start/End: Original strand, 19 - 54
Target Start/End: Original strand, 34177556 - 34177591
Alignment:
Q  19 tactcgttacacattcagggaccaaaatgactatta 54  Q
    ||||| ||||||||||||||||||||||||||||||    
T  34177556 tactcattacacattcagggaccaaaatgactatta 34177591  T

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Target: chr1; HSP #5
Raw Score: 29; E-Value: 0.0000002
Query Start/End: Original strand, 22 - 58
Target Start/End: Complemental strand, 6541038 - 6541002
Alignment:
Q  22 tcgttacacattcagggaccaaaatgactattatccc 58  Q
    ||||||||||||||||||  |||||||||||||||||    
T  6541038 tcgttacacattcagggattaaaatgactattatccc 6541002  T

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Target: chr1; HSP #6
Raw Score: 29; E-Value: 0.0000002
Query Start/End: Original strand, 17 - 53
Target Start/End: Complemental strand, 31406201 - 31406165
Alignment:
Q  17 attactcgttacacattcagggaccaaaatgactatt 53  Q
    |||||||||||||||| ||||||| ||||||||||||    
T  31406201 attactcgttacacatgcagggacgaaaatgactatt 31406165  T

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Target: chr1; HSP #7
Raw Score: 29; E-Value: 0.0000002
Query Start/End: Original strand, 17 - 57
Target Start/End: Complemental strand, 36144822 - 36144782
Alignment:
Q  17 attactcgttacacattcagggaccaaaatgactattatcc 57  Q
    ||||||| ||||| ||||| |||||||||||||||||||||    
T  36144822 attactcattacatattcaaggaccaaaatgactattatcc 36144782  T

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Target: chr3 (Bit Score: 34; Significance: 0.0000000002; HSPs: 7)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 34; E-Value: 0.0000000002
Query Start/End: Original strand, 19 - 60
Target Start/End: Complemental strand, 14984441 - 14984401
Alignment:
Q  19 tactcgttacacattcagggaccaaaatgactattatcccaa 60  Q
    ||||||||||||||||||| ||||||||||||||||||||||    
T  14984441 tactcgttacacattcagg-accaaaatgactattatcccaa 14984401  T

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Target: chr3; HSP #2
Raw Score: 33; E-Value: 0.0000000007
Query Start/End: Original strand, 17 - 57
Target Start/End: Original strand, 41898089 - 41898129
Alignment:
Q  17 attactcgttacacattcagggaccaaaatgactattatcc 57  Q
    ||||||||||||||||||| |||||||||| ||||||||||    
T  41898089 attactcgttacacattcaaggaccaaaataactattatcc 41898129  T

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Target: chr3; HSP #3
Raw Score: 31; E-Value: 0.00000001
Query Start/End: Original strand, 20 - 54
Target Start/End: Original strand, 23567371 - 23567405
Alignment:
Q  20 actcgttacacattcagggaccaaaatgactatta 54  Q
    |||||||||||||||||||| ||||||||||||||    
T  23567371 actcgttacacattcagggatcaaaatgactatta 23567405  T

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Target: chr3; HSP #4
Raw Score: 30; E-Value: 0.00000005
Query Start/End: Original strand, 25 - 54
Target Start/End: Original strand, 14984731 - 14984760
Alignment:
Q  25 ttacacattcagggaccaaaatgactatta 54  Q
    ||||||||||||||||||||||||||||||    
T  14984731 ttacacattcagggaccaaaatgactatta 14984760  T

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Target: chr3; HSP #5
Raw Score: 30; E-Value: 0.00000005
Query Start/End: Original strand, 18 - 59
Target Start/End: Original strand, 34294175 - 34294216
Alignment:
Q  18 ttactcgttacacattcagggaccaaaatgactattatccca 59  Q
    |||||||||||||||| | ||| |||||||||||||||||||    
T  34294175 ttactcgttacacatttaaggatcaaaatgactattatccca 34294216  T

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Target: chr3; HSP #6
Raw Score: 30; E-Value: 0.00000005
Query Start/End: Original strand, 6 - 54
Target Start/End: Original strand, 46848430 - 46848476
Alignment:
Q  6 actattttgacattactcgttacacattcagggaccaaaatgactatta 54  Q
    |||||||||||  ||||| |||||||||||||||||||| |||||||||    
T  46848430 actattttgac--tactcattacacattcagggaccaaagtgactatta 46848476  T

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

Target: chr3; HSP #7
Raw Score: 28; E-Value: 0.0000007
Query Start/End: Original strand, 25 - 56
Target Start/End: Complemental strand, 7672366 - 7672335
Alignment:
Q  25 ttacacattcagggaccaaaatgactattatc 56  Q
    ||||||||||| ||||||||||||||||||||    
T  7672366 ttacacattcaaggaccaaaatgactattatc 7672335  T

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Target: chr7 (Bit Score: 33; Significance: 0.0000000007; HSPs: 7)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 33; E-Value: 0.0000000007
Query Start/End: Original strand, 22 - 58
Target Start/End: Original strand, 30839975 - 30840011
Alignment:
Q  22 tcgttacacattcagggaccaaaatgactattatccc 58  Q
    |||||| ||||||||||||||||||||||||||||||    
T  30839975 tcgttatacattcagggaccaaaatgactattatccc 30840011  T

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

Target: chr7; HSP #2
Raw Score: 30; E-Value: 0.00000005
Query Start/End: Original strand, 25 - 54
Target Start/End: Complemental strand, 18942766 - 18942737
Alignment:
Q  25 ttacacattcagggaccaaaatgactatta 54  Q
    ||||||||||||||||||||||||||||||    
T  18942766 ttacacattcagggaccaaaatgactatta 18942737  T

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Target: chr7; HSP #3
Raw Score: 28; E-Value: 0.0000007
Query Start/End: Original strand, 19 - 54
Target Start/End: Original strand, 8062941 - 8062976
Alignment:
Q  19 tactcgttacacattcagggaccaaaatgactatta 54  Q
    ||||||||||||||||| |||||||||| |||||||    
T  8062941 tactcgttacacattcaaggaccaaaataactatta 8062976  T

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Target: chr7; HSP #4
Raw Score: 28; E-Value: 0.0000007
Query Start/End: Original strand, 19 - 50
Target Start/End: Complemental strand, 14669268 - 14669237
Alignment:
Q  19 tactcgttacacattcagggaccaaaatgact 50  Q
    ||||||||||||||||| ||||||||||||||    
T  14669268 tactcgttacacattcaaggaccaaaatgact 14669237  T

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

Target: chr7; HSP #5
Raw Score: 28; E-Value: 0.0000007
Query Start/End: Original strand, 19 - 54
Target Start/End: Complemental strand, 21401786 - 21401751
Alignment:
Q  19 tactcgttacacattcagggaccaaaatgactatta 54  Q
    ||||||||||||||| || |||||||||||||||||    
T  21401786 tactcgttacacatttagagaccaaaatgactatta 21401751  T

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

Target: chr7; HSP #6
Raw Score: 28; E-Value: 0.0000007
Query Start/End: Original strand, 19 - 46
Target Start/End: Original strand, 38838717 - 38838744
Alignment:
Q  19 tactcgttacacattcagggaccaaaat 46  Q
    ||||||||||||||||||||||||||||    
T  38838717 tactcgttacacattcagggaccaaaat 38838744  T

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Target: chr7; HSP #7
Raw Score: 28; E-Value: 0.0000007
Query Start/End: Original strand, 19 - 54
Target Start/End: Original strand, 40355141 - 40355176
Alignment:
Q  19 tactcgttacacattcagggaccaaaatgactatta 54  Q
    |||||||||||||||||  |||||||||||||||||    
T  40355141 tactcgttacacattcaaagaccaaaatgactatta 40355176  T

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Target: chr4 (Bit Score: 32; Significance: 0.000000003; HSPs: 4)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 32; E-Value: 0.000000003
Query Start/End: Original strand, 19 - 54
Target Start/End: Complemental strand, 12034417 - 12034382
Alignment:
Q  19 tactcgttacacattcagggaccaaaatgactatta 54  Q
    ||||||||| ||||||||||||||||||||||||||    
T  12034417 tactcgttatacattcagggaccaaaatgactatta 12034382  T

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Target: chr4; HSP #2
Raw Score: 30; E-Value: 0.00000005
Query Start/End: Original strand, 21 - 54
Target Start/End: Complemental strand, 11298489 - 11298456
Alignment:
Q  21 ctcgttacacattcagggaccaaaatgactatta 54  Q
    |||||||||||||||||||| |||||||||||||    
T  11298489 ctcgttacacattcagggactaaaatgactatta 11298456  T

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Target: chr4; HSP #3
Raw Score: 29; E-Value: 0.0000002
Query Start/End: Original strand, 19 - 55
Target Start/End: Original strand, 51151092 - 51151128
Alignment:
Q  19 tactcgttacacattcagggaccaaaatgactattat 55  Q
    ||||||||||||||||| |||||||||| ||||||||    
T  51151092 tactcgttacacattcaaggaccaaaataactattat 51151128  T

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Target: chr4; HSP #4
Raw Score: 28; E-Value: 0.0000007
Query Start/End: Original strand, 19 - 54
Target Start/End: Original strand, 11840105 - 11840140
Alignment:
Q  19 tactcgttacacattcagggaccaaaatgactatta 54  Q
    ||||| |||| |||||||||||||||||||||||||    
T  11840105 tactccttacgcattcagggaccaaaatgactatta 11840140  T

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Target: scaffold0050 (Bit Score: 28; Significance: 0.0000007; HSPs: 1)
Name: scaffold0050
Description:

Target: scaffold0050; HSP #1
Raw Score: 28; E-Value: 0.0000007
Query Start/End: Original strand, 22 - 57
Target Start/End: Original strand, 81637 - 81672
Alignment:
Q  22 tcgttacacattcagggaccaaaatgactattatcc 57  Q
    ||||||||||||||  ||||||||||||||||||||    
T  81637 tcgttacacattcaaagaccaaaatgactattatcc 81672  T

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Target: chr2 (Bit Score: 28; Significance: 0.0000007; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 28; E-Value: 0.0000007
Query Start/End: Original strand, 19 - 54
Target Start/End: Complemental strand, 40124299 - 40124264
Alignment:
Q  19 tactcgttacacattcagggaccaaaatgactatta 54  Q
    ||||||||||||||||| |||||||| |||||||||    
T  40124299 tactcgttacacattcaaggaccaaagtgactatta 40124264  T

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