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-NF5709-28 (Length: 124)

Name: Solexa-NF5709-28
Description: NF5709
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] Solexa-NF5709-28
Solexa-NF5709-28
[»] chr4 (20 HSPs)
chr4 (8-83)||(48870424-48870499)
chr4 (8-83)||(48886110-48886185)
chr4 (8-77)||(48875728-48875797)
chr4 (26-81)||(50250910-50250965)
chr4 (39-81)||(48852576-48852618)
chr4 (37-81)||(48898630-48898674)
chr4 (34-81)||(48170700-48170747)
chr4 (23-78)||(48863126-48863181)
chr4 (8-81)||(48705479-48705554)
chr4 (26-81)||(33133934-33133989)
chr4 (40-79)||(50672412-50672451)
chr4 (39-81)||(49044316-49044358)
chr4 (40-81)||(48891326-48891367)
chr4 (36-80)||(49041276-49041320)
chr4 (34-81)||(37827114-37827161)
chr4 (34-79)||(45372191-45372236)
chr4 (36-81)||(49048704-49048749)
chr4 (29-80)||(45366333-45366384)
chr4 (26-81)||(45384988-45385043)
chr4 (26-77)||(47207796-47207847)
[»] chr6 (1 HSPs)
chr6 (34-81)||(21015714-21015761)
[»] chr3 (2 HSPs)
chr3 (25-80)||(47452028-47452083)
chr3 (25-79)||(11015641-11015695)
[»] chr5 (4 HSPs)
chr5 (26-76)||(29688011-29688061)
chr5 (34-81)||(42562451-42562498)
chr5 (27-79)||(29696113-29696165)
chr5 (34-77)||(29261158-29261201)
[»] chr7 (2 HSPs)
chr7 (34-77)||(30120435-30120478)
chr7 (40-81)||(48883712-48883753)
[»] chr8 (2 HSPs)
chr8 (26-81)||(15348762-15348817)
chr8 (39-79)||(4032032-4032072)
[»] chr1 (2 HSPs)
chr1 (40-78)||(24310097-24310135)
chr1 (8-64)||(24367044-24367100)


Alignment Details
Target: chr4 (Bit Score: 56; Significance: 1e-23; HSPs: 20)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 56; E-Value: 1e-23
Query Start/End: Original strand, 8 - 83
Target Start/End: Original strand, 48870424 - 48870499
Alignment:
Q  8 tatattgttgcattctgcttcaagcctctacctatggaatccatccaccggagttcacaaacaaatacctttgtgt 83  Q
    |||||| ||||||| |||| ||| |||||||||||||||||||||||||||| |||||||||||||||||||||||    
T  48870424 tatattattgcattgtgctccaaccctctacctatggaatccatccaccggatttcacaaacaaatacctttgtgt 48870499  T

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Target: chr4; HSP #2
Raw Score: 56; E-Value: 1e-23
Query Start/End: Original strand, 8 - 83
Target Start/End: Original strand, 48886110 - 48886185
Alignment:
Q  8 tatattgttgcattctgcttcaagcctctacctatggaatccatccaccggagttcacaaacaaatacctttgtgt 83  Q
    |||||| ||||||| |||| ||| |||||||||||||||||||||||||||| |||||||||||||||||||||||    
T  48886110 tatattattgcattgtgctccaaccctctacctatggaatccatccaccggatttcacaaacaaatacctttgtgt 48886185  T

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Target: chr4; HSP #3
Raw Score: 50; E-Value: 5e-20
Query Start/End: Original strand, 8 - 77
Target Start/End: Original strand, 48875728 - 48875797
Alignment:
Q  8 tatattgttgcattctgcttcaagcctctacctatggaatccatccaccggagttcacaaacaaatacct 77  Q
    |||| ||||||||| |  |||||||||||||||||||||||||||||||||| |||||||||||||||||    
T  48875728 tatactgttgcattgtttttcaagcctctacctatggaatccatccaccggatttcacaaacaaatacct 48875797  T

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Target: chr4; HSP #4
Raw Score: 44; E-Value: 2e-16
Query Start/End: Original strand, 26 - 81
Target Start/End: Complemental strand, 50250965 - 50250910
Alignment:
Q  26 ttcaagcctctacctatggaatccatccaccggagttcacaaacaaatacctttgt 81  Q
    |||||||||||||||||||||||||||||||||  |||||| ||||||||||||||    
T  50250965 ttcaagcctctacctatggaatccatccaccgggcttcacatacaaatacctttgt 50250910  T

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Target: chr4; HSP #5
Raw Score: 43; E-Value: 7e-16
Query Start/End: Original strand, 39 - 81
Target Start/End: Original strand, 48852576 - 48852618
Alignment:
Q  39 ctatggaatccatccaccggagttcacaaacaaatacctttgt 81  Q
    |||||||||||||||||||||||||||||||||||||||||||    
T  48852576 ctatggaatccatccaccggagttcacaaacaaatacctttgt 48852618  T

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Target: chr4; HSP #6
Raw Score: 41; E-Value: 0.00000000000001
Query Start/End: Original strand, 37 - 81
Target Start/End: Original strand, 48898630 - 48898674
Alignment:
Q  37 acctatggaatccatccaccggagttcacaaacaaatacctttgt 81  Q
    |||||||||||||||||||||||| ||||||||||||||||||||    
T  48898630 acctatggaatccatccaccggagctcacaaacaaatacctttgt 48898674  T

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Target: chr4; HSP #7
Raw Score: 40; E-Value: 0.00000000000004
Query Start/End: Original strand, 34 - 81
Target Start/End: Complemental strand, 48170747 - 48170700
Alignment:
Q  34 tctacctatggaatccatccaccggagttcacaaacaaatacctttgt 81  Q
    ||||||||||||||||||||||| ||||||| ||||||||||||||||    
T  48170747 tctacctatggaatccatccacccgagttcataaacaaatacctttgt 48170700  T

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Target: chr4; HSP #8
Raw Score: 40; E-Value: 0.00000000000004
Query Start/End: Original strand, 23 - 78
Target Start/End: Original strand, 48863126 - 48863181
Alignment:
Q  23 tgcttcaagcctctacctatggaatccatccaccggagttcacaaacaaatacctt 78  Q
    |||||||| | ||||||||||||||||||||||||||| ||| |||||||||||||    
T  48863126 tgcttcaaacatctacctatggaatccatccaccggagctcagaaacaaatacctt 48863181  T

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Target: chr4; HSP #9
Raw Score: 37; E-Value: 0.000000000003
Query Start/End: Original strand, 8 - 81
Target Start/End: Complemental strand, 48705554 - 48705479
Alignment:
Q  8 tatattgttgcattctgcttcaagcctct--acctatggaatccatccaccggagttcacaaacaaatacctttgt 81  Q
    ||||||||| |||| |||||||| |||||  |||| ||||||||||| || ||| |||||||||||||||||||||    
T  48705554 tatattgtttcattgtgcttcaaccctctctacctgtggaatccatctactggatttcacaaacaaatacctttgt 48705479  T

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Target: chr4; HSP #10
Raw Score: 36; E-Value: 0.00000000001
Query Start/End: Original strand, 26 - 81
Target Start/End: Complemental strand, 33133989 - 33133934
Alignment:
Q  26 ttcaagcctctacctatggaatccatccaccggagttcacaaacaaatacctttgt 81  Q
    ||||||| || ||||||||||||||| |||| ||||||| ||||||||||||||||    
T  33133989 ttcaagcttccacctatggaatccattcacccgagttcataaacaaatacctttgt 33133934  T

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Target: chr4; HSP #11
Raw Score: 36; E-Value: 0.00000000001
Query Start/End: Original strand, 40 - 79
Target Start/End: Original strand, 50672412 - 50672451
Alignment:
Q  40 tatggaatccatccaccggagttcacaaacaaataccttt 79  Q
    |||||||||||||||| |||||||||||||||||||||||    
T  50672412 tatggaatccatccacaggagttcacaaacaaataccttt 50672451  T

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Target: chr4; HSP #12
Raw Score: 35; E-Value: 0.00000000004
Query Start/End: Original strand, 39 - 81
Target Start/End: Complemental strand, 49044358 - 49044316
Alignment:
Q  39 ctatggaatccatccaccggagttcacaaacaaatacctttgt 81  Q
    |||||||||||||||||  ||||||||||||||||||||||||    
T  49044358 ctatggaatccatccactagagttcacaaacaaatacctttgt 49044316  T

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Target: chr4; HSP #13
Raw Score: 34; E-Value: 0.0000000002
Query Start/End: Original strand, 40 - 81
Target Start/End: Original strand, 48891326 - 48891367
Alignment:
Q  40 tatggaatccatccaccggagttcacaaacaaatacctttgt 81  Q
    |||||||||||||||| ||| |||||||||||||||||||||    
T  48891326 tatggaatccatccactggacttcacaaacaaatacctttgt 48891367  T

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Target: chr4; HSP #14
Raw Score: 33; E-Value: 0.0000000006
Query Start/End: Original strand, 36 - 80
Target Start/End: Complemental strand, 49041320 - 49041276
Alignment:
Q  36 tacctatggaatccatccaccggagttcacaaacaaatacctttg 80  Q
    ||||||||||| ||||||||||||| |||||||| ||||||||||    
T  49041320 tacctatggaacccatccaccggagctcacaaactaatacctttg 49041276  T

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Target: chr4; HSP #15
Raw Score: 32; E-Value: 0.000000002
Query Start/End: Original strand, 34 - 81
Target Start/End: Complemental strand, 37827161 - 37827114
Alignment:
Q  34 tctacctatggaatccatccaccggagttcacaaacaaatacctttgt 81  Q
    ||||| |||||||||||||||| ||| |||||||||||||||| ||||    
T  37827161 tctacatatggaatccatccactggatttcacaaacaaatacccttgt 37827114  T

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Target: chr4; HSP #16
Raw Score: 30; E-Value: 0.00000004
Query Start/End: Original strand, 34 - 79
Target Start/End: Complemental strand, 45372236 - 45372191
Alignment:
Q  34 tctacctatggaatccatccaccggagttcacaaacaaataccttt 79  Q
    |||| ||||||||||||||||| || ||||| ||||||||||||||    
T  45372236 tctatctatggaatccatccactggtgttcagaaacaaataccttt 45372191  T

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Target: chr4; HSP #17
Raw Score: 30; E-Value: 0.00000004
Query Start/End: Original strand, 36 - 81
Target Start/End: Complemental strand, 49048749 - 49048704
Alignment:
Q  36 tacctatggaatccatccaccggagttcacaaacaaatacctttgt 81  Q
    ||||| ||||||||||||||  ||||||||| ||||||||||||||    
T  49048749 tacctttggaatccatccactagagttcacagacaaatacctttgt 49048704  T

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Target: chr4; HSP #18
Raw Score: 28; E-Value: 0.0000006
Query Start/End: Original strand, 29 - 80
Target Start/End: Complemental strand, 45366384 - 45366333
Alignment:
Q  29 aagcctctacctatggaatccatccaccggagttcacaaacaaatacctttg 80  Q
    |||||| ||||| |||||||||||||| ||| |||| ||| |||||||||||    
T  45366384 aagcctttacctttggaatccatccactggatttcataaaaaaatacctttg 45366333  T

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Target: chr4; HSP #19
Raw Score: 28; E-Value: 0.0000006
Query Start/End: Original strand, 26 - 81
Target Start/End: Complemental strand, 45385043 - 45384988
Alignment:
Q  26 ttcaagcctctacctatggaatccatccaccggagttcacaaacaaatacctttgt 81  Q
    ||||||||| || ||||||||||||| ||   ||||||||||| ||||||||||||    
T  45385043 ttcaagcctttatctatggaatccattcattagagttcacaaagaaatacctttgt 45384988  T

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Target: chr4; HSP #20
Raw Score: 28; E-Value: 0.0000006
Query Start/End: Original strand, 26 - 77
Target Start/End: Original strand, 47207796 - 47207847
Alignment:
Q  26 ttcaagcctctacctatggaatccatccaccggagttcacaaacaaatacct 77  Q
    |||||||  ||||||||||||||||||||| |||||| | | ||||||||||    
T  47207796 ttcaagctactacctatggaatccatccactggagttgagagacaaatacct 47207847  T

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Target: chr6 (Bit Score: 40; Significance: 0.00000000000004; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 40; E-Value: 0.00000000000004
Query Start/End: Original strand, 34 - 81
Target Start/End: Original strand, 21015714 - 21015761
Alignment:
Q  34 tctacctatggaatccatccaccggagttcacaaacaaatacctttgt 81  Q
    ||||||||||||||||||||||  ||||||||||||||||||||||||    
T  21015714 tctacctatggaatccatccactagagttcacaaacaaatacctttgt 21015761  T

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Target: chr3 (Bit Score: 40; Significance: 0.00000000000004; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 40; E-Value: 0.00000000000004
Query Start/End: Original strand, 25 - 80
Target Start/End: Complemental strand, 47452083 - 47452028
Alignment:
Q  25 cttcaagcctctacctatggaatccatccaccggagttcacaaacaaatacctttg 80  Q
    |||||| | ||||| |||||||||||||||| ||||||||||||||||||||||||    
T  47452083 cttcaaacatctacatatggaatccatccactggagttcacaaacaaatacctttg 47452028  T

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Target: chr3; HSP #2
Raw Score: 31; E-Value: 0.00000001
Query Start/End: Original strand, 25 - 79
Target Start/End: Complemental strand, 11015695 - 11015641
Alignment:
Q  25 cttcaagcctctacctatggaatccatccaccggagttcacaaacaaataccttt 79  Q
    |||||| | ||||||||||||||||||| || |||  ||||||||||||||||||    
T  11015695 cttcaaacatctacctatggaatccatcaactggacatcacaaacaaataccttt 11015641  T

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Target: chr5 (Bit Score: 39; Significance: 0.0000000000002; HSPs: 4)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 39; E-Value: 0.0000000000002
Query Start/End: Original strand, 26 - 76
Target Start/End: Original strand, 29688011 - 29688061
Alignment:
Q  26 ttcaagcctctacctatggaatccatccaccggagttcacaaacaaatacc 76  Q
    ||||||||| || |||||||||||||||||||||||||||| |||||||||    
T  29688011 ttcaagcctttatctatggaatccatccaccggagttcacagacaaatacc 29688061  T

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Target: chr5; HSP #2
Raw Score: 36; E-Value: 0.00000000001
Query Start/End: Original strand, 34 - 81
Target Start/End: Complemental strand, 42562498 - 42562451
Alignment:
Q  34 tctacctatggaatccatccaccggagttcacaaacaaatacctttgt 81  Q
    ||||||||||||||||||||| ||||  ||||||||||||||||||||    
T  42562498 tctacctatggaatccatccatcggacatcacaaacaaatacctttgt 42562451  T

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Target: chr5; HSP #3
Raw Score: 33; E-Value: 0.0000000006
Query Start/End: Original strand, 27 - 79
Target Start/End: Original strand, 29696113 - 29696165
Alignment:
Q  27 tcaagcctctacctatggaatccatccaccggagttcacaaacaaataccttt 79  Q
    ||||||||||   |||||||||||||||||||| ||||||||| |||||||||    
T  29696113 tcaagcctctgtatatggaatccatccaccggatttcacaaacgaataccttt 29696165  T

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Target: chr5; HSP #4
Raw Score: 32; E-Value: 0.000000002
Query Start/End: Original strand, 34 - 77
Target Start/End: Original strand, 29261158 - 29261201
Alignment:
Q  34 tctacctatggaatccatccaccggagttcacaaacaaatacct 77  Q
    |||| |||||||||||||| |||||||| |||||||||||||||    
T  29261158 tctatctatggaatccatcaaccggagtccacaaacaaatacct 29261201  T

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

Target: chr7 (Bit Score: 36; Significance: 0.00000000001; HSPs: 2)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 36; E-Value: 0.00000000001
Query Start/End: Original strand, 34 - 77
Target Start/End: Complemental strand, 30120478 - 30120435
Alignment:
Q  34 tctacctatggaatccatccaccggagttcacaaacaaatacct 77  Q
    |||| ||||||||||||||||||||||| |||||||||||||||    
T  30120478 tctatctatggaatccatccaccggagtccacaaacaaatacct 30120435  T

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Target: chr7; HSP #2
Raw Score: 30; E-Value: 0.00000004
Query Start/End: Original strand, 40 - 81
Target Start/End: Original strand, 48883712 - 48883753
Alignment:
Q  40 tatggaatccatccaccggagttcacaaacaaatacctttgt 81  Q
    |||||||||||| ||| ||| |||||||||||||||||||||    
T  48883712 tatggaatccatacactggatttcacaaacaaatacctttgt 48883753  T

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Target: chr8 (Bit Score: 32; Significance: 0.000000002; HSPs: 2)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 32; E-Value: 0.000000002
Query Start/End: Original strand, 26 - 81
Target Start/End: Original strand, 15348762 - 15348817
Alignment:
Q  26 ttcaagcctctacctatggaatccatccaccggagttcacaaacaaatacctttgt 81  Q
    ||||| |||||| ||||||||||||||||||||| |||||| | || |||||||||    
T  15348762 ttcaatcctctatctatggaatccatccaccggatttcacagaaaagtacctttgt 15348817  T

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

Target: chr8; HSP #2
Raw Score: 29; E-Value: 0.0000002
Query Start/End: Original strand, 39 - 79
Target Start/End: Complemental strand, 4032072 - 4032032
Alignment:
Q  39 ctatggaatccatccaccggagttcacaaacaaataccttt 79  Q
    ||||||||| ||||||  |||||||||||||||||||||||    
T  4032072 ctatggaattcatccattggagttcacaaacaaataccttt 4032032  T

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

Target: chr1 (Bit Score: 31; Significance: 0.00000001; HSPs: 2)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 31; E-Value: 0.00000001
Query Start/End: Original strand, 40 - 78
Target Start/End: Original strand, 24310097 - 24310135
Alignment:
Q  40 tatggaatccatccaccggagttcacaaacaaatacctt 78  Q
    ||||||||||||||||||||||||| | |||||||||||    
T  24310097 tatggaatccatccaccggagttcatagacaaatacctt 24310135  T

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

Target: chr1; HSP #2
Raw Score: 29; E-Value: 0.0000002
Query Start/End: Original strand, 8 - 64
Target Start/End: Original strand, 24367044 - 24367100
Alignment:
Q  8 tatattgttgcattctgcttcaagcctctacctatggaatccatccaccggagttca 64  Q
    |||||||||||| ||| |||||| | | ||||||||||| ||||||||| |||||||    
T  24367044 tatattgttgcactcttcttcaaacatttacctatggaacccatccaccagagttca 24367100  T

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