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-NF5848-12 (Length: 140)

Name: Solexa-NF5848-12
Description: NF5848
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] Solexa-NF5848-12
Solexa-NF5848-12
[»] chr6 (6 HSPs)
chr6 (1-69)||(32669175-32669243)
chr6 (17-72)||(12464629-12464684)
chr6 (9-69)||(13729962-13730022)
chr6 (32-65)||(28043675-28043708)
chr6 (32-65)||(28044532-28044565)
chr6 (106-140)||(17935436-17935471)
[»] chr7 (8 HSPs)
chr7 (74-131)||(11683574-11683631)
chr7 (77-131)||(34784683-34784737)
chr7 (17-66)||(10259710-10259759)
chr7 (98-127)||(23954692-23954721)
chr7 (98-127)||(27956723-27956752)
chr7 (82-127)||(38614182-38614227)
chr7 (38-69)||(9739224-9739255)
chr7 (92-131)||(48705282-48705321)
[»] chr8 (3 HSPs)
chr8 (74-131)||(25371348-25371405)
chr8 (1-66)||(28848016-28848081)
chr8 (74-131)||(10771043-10771100)
[»] chr5 (2 HSPs)
chr5 (74-127)||(40329866-40329919)
chr5 (98-127)||(32836549-32836578)
[»] chr3 (7 HSPs)
chr3 (74-127)||(2976454-2976507)
chr3 (32-69)||(20961662-20961699)
chr3 (98-127)||(23775041-23775070)
chr3 (98-127)||(48634761-48634790)
chr3 (32-72)||(23432687-23432727)
chr3 (100-131)||(30501629-30501660)
chr3 (106-140)||(32843581-32843616)
[»] chr1 (4 HSPs)
chr1 (77-140)||(42558964-42559028)
chr1 (9-65)||(51110839-51110895)
chr1 (32-66)||(50058050-50058084)
chr1 (32-72)||(24549759-24549799)
[»] chr2 (3 HSPs)
chr2 (71-131)||(20941688-20941748)
chr2 (34-69)||(30947854-30947889)
chr2 (98-127)||(42880201-42880230)
[»] scaffold0072 (1 HSPs)
scaffold0072 (32-69)||(19075-19112)
[»] scaffold0062 (1 HSPs)
scaffold0062 (32-69)||(1692-1729)
[»] chr4 (3 HSPs)
chr4 (82-127)||(4519814-4519859)
chr4 (32-65)||(13269375-13269408)
chr4 (32-65)||(13959499-13959532)


Alignment Details
Target: chr6 (Bit Score: 53; Significance: 8e-22; HSPs: 6)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 53; E-Value: 8e-22
Query Start/End: Original strand, 1 - 69
Target Start/End: Complemental strand, 32669243 - 32669175
Alignment:
Q  1 agagatatgcggcttgtacttagcgtgttctttaagaatgttgctgcaacatttaaggaaacatctgat 69  Q
    |||||||||||| || |||||||||||||| |||||||||||| |||||||||||||||||||||||||    
T  32669243 agagatatgcggtttatacttagcgtgttccttaagaatgttgttgcaacatttaaggaaacatctgat 32669175  T

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Target: chr6; HSP #2
Raw Score: 48; E-Value: 8e-19
Query Start/End: Original strand, 17 - 72
Target Start/End: Complemental strand, 12464684 - 12464629
Alignment:
Q  17 tacttagcgtgttctttaagaatgttgctgcaacatttaaggaaacatctgatttg 72  Q
    |||||||||||||| |||||||||||| ||||||||||||||||||||||||||||    
T  12464684 tacttagcgtgttccttaagaatgttgttgcaacatttaaggaaacatctgatttg 12464629  T

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Target: chr6; HSP #3
Raw Score: 37; E-Value: 0.000000000003
Query Start/End: Original strand, 9 - 69
Target Start/End: Original strand, 13729962 - 13730022
Alignment:
Q  9 gcggcttgtacttagcgtgttctttaagaatgttgctgcaacatttaaggaaacatctgat 69  Q
    |||| |||||||||| ||||||  ||||||||||| || ||||||||||||||||||||||    
T  13729962 gcggtttgtacttagtgtgttccgtaagaatgttgttgtaacatttaaggaaacatctgat 13730022  T

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Target: chr6; HSP #4
Raw Score: 30; E-Value: 0.00000004
Query Start/End: Original strand, 32 - 65
Target Start/End: Original strand, 28043675 - 28043708
Alignment:
Q  32 ttaagaatgttgctgcaacatttaaggaaacatc 65  Q
    |||||||||||| |||||||||||||||||||||    
T  28043675 ttaagaatgttgttgcaacatttaaggaaacatc 28043708  T

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Target: chr6; HSP #5
Raw Score: 30; E-Value: 0.00000004
Query Start/End: Original strand, 32 - 65
Target Start/End: Original strand, 28044532 - 28044565
Alignment:
Q  32 ttaagaatgttgctgcaacatttaaggaaacatc 65  Q
    |||||||||||| |||||||||||||||||||||    
T  28044532 ttaagaatgttgttgcaacatttaaggaaacatc 28044565  T

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

Target: chr6; HSP #6
Raw Score: 28; E-Value: 0.0000007
Query Start/End: Original strand, 106 - 140
Target Start/End: Complemental strand, 17935471 - 17935436
Alignment:
Q  106 aatgaaaagaggttgaagatgaatg-atgtaacctt 140  Q
    ||||||||||||||||||||||||| ||||||||||    
T  17935471 aatgaaaagaggttgaagatgaatgaatgtaacctt 17935436  T

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Target: chr7 (Bit Score: 46; Significance: 1e-17; HSPs: 8)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 46; E-Value: 1e-17
Query Start/End: Original strand, 74 - 131
Target Start/End: Complemental strand, 11683631 - 11683574
Alignment:
Q  74 tattgtattgttcttggagtgtgcaaagttctaatgaaaagaggttgaagatgaatga 131  Q
    |||||||||||||| |||||||| |||||| |||||||||||||||||||||||||||    
T  11683631 tattgtattgttctaggagtgtgtaaagttataatgaaaagaggttgaagatgaatga 11683574  T

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Target: chr7; HSP #2
Raw Score: 39; E-Value: 0.0000000000002
Query Start/End: Original strand, 77 - 131
Target Start/End: Original strand, 34784683 - 34784737
Alignment:
Q  77 tgtattgttcttggagtgtgcaaagttctaatgaaaagaggttgaagatgaatga 131  Q
    ||||||||||| || ||||| |||||| |||||||||||||||||||||||||||    
T  34784683 tgtattgttctaggtgtgtgtaaagttgtaatgaaaagaggttgaagatgaatga 34784737  T

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Target: chr7; HSP #3
Raw Score: 34; E-Value: 0.0000000002
Query Start/End: Original strand, 17 - 66
Target Start/End: Original strand, 10259710 - 10259759
Alignment:
Q  17 tacttagcgtgttctttaagaatgttgctgcaacatttaaggaaacatct 66  Q
    |||||||||||||  | |||||||||| ||||||||||||||||||||||    
T  10259710 tacttagcgtgtttctgaagaatgttgttgcaacatttaaggaaacatct 10259759  T

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Target: chr7; HSP #4
Raw Score: 30; E-Value: 0.00000004
Query Start/End: Original strand, 98 - 127
Target Start/End: Complemental strand, 23954721 - 23954692
Alignment:
Q  98 aaagttctaatgaaaagaggttgaagatga 127  Q
    ||||||||||||||||||||||||||||||    
T  23954721 aaagttctaatgaaaagaggttgaagatga 23954692  T

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Target: chr7; HSP #5
Raw Score: 30; E-Value: 0.00000004
Query Start/End: Original strand, 98 - 127
Target Start/End: Complemental strand, 27956752 - 27956723
Alignment:
Q  98 aaagttctaatgaaaagaggttgaagatga 127  Q
    ||||||||||||||||||||||||||||||    
T  27956752 aaagttctaatgaaaagaggttgaagatga 27956723  T

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Target: chr7; HSP #6
Raw Score: 30; E-Value: 0.00000004
Query Start/End: Original strand, 82 - 127
Target Start/End: Complemental strand, 38614227 - 38614182
Alignment:
Q  82 tgttcttggagtgtgcaaagttctaatgaaaagaggttgaagatga 127  Q
    |||||| || ||||| |||||||||||||||| |||||||||||||    
T  38614227 tgttctaggtgtgtgtaaagttctaatgaaaataggttgaagatga 38614182  T

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Target: chr7; HSP #7
Raw Score: 28; E-Value: 0.0000007
Query Start/End: Original strand, 38 - 69
Target Start/End: Original strand, 9739224 - 9739255
Alignment:
Q  38 atgttgctgcaacatttaaggaaacatctgat 69  Q
    |||||| |||||||||||||||||||||||||    
T  9739224 atgttgttgcaacatttaaggaaacatctgat 9739255  T

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Target: chr7; HSP #8
Raw Score: 28; E-Value: 0.0000007
Query Start/End: Original strand, 92 - 131
Target Start/End: Complemental strand, 48705321 - 48705282
Alignment:
Q  92 gtgtgcaaagttctaatgaaaagaggttgaagatgaatga 131  Q
    ||||| |||||| ||||||||| |||||||||||||||||    
T  48705321 gtgtgtaaagttgtaatgaaaacaggttgaagatgaatga 48705282  T

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Target: chr8 (Bit Score: 38; Significance: 0.0000000000008; HSPs: 3)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 38; E-Value: 0.0000000000008
Query Start/End: Original strand, 74 - 131
Target Start/End: Original strand, 25371348 - 25371405
Alignment:
Q  74 tattgtattgttcttggagtgtgcaaagttctaatgaaaagaggttgaagatgaatga 131  Q
    |||||||||||| | ||  |||| ||||||||||||||||||||||||||||||||||    
T  25371348 tattgtattgttataggcatgtgtaaagttctaatgaaaagaggttgaagatgaatga 25371405  T

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Target: chr8; HSP #2
Raw Score: 34; E-Value: 0.0000000002
Query Start/End: Original strand, 1 - 66
Target Start/End: Original strand, 28848016 - 28848081
Alignment:
Q  1 agagatatgcggcttgtacttagcgtgttctttaagaatgttgctgcaacatttaaggaaacatct 66  Q
    ||||||| |||| |||||||||| |||||  |||||||||||| | ||||||||||| ||||||||    
T  28848016 agagataggcggtttgtacttagtgtgtttcttaagaatgttgttacaacatttaagaaaacatct 28848081  T

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Target: chr8; HSP #3
Raw Score: 30; E-Value: 0.00000004
Query Start/End: Original strand, 74 - 131
Target Start/End: Original strand, 10771043 - 10771100
Alignment:
Q  74 tattgtattgttcttggagtgtgcaaagttctaatgaaaagaggttgaagatgaatga 131  Q
    |||||||||||  | | |||||| || || ||||||||||||||||||||||||||||    
T  10771043 tattgtattgtattagaagtgtgtaatgtgctaatgaaaagaggttgaagatgaatga 10771100  T

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Target: chr5 (Bit Score: 38; Significance: 0.0000000000008; HSPs: 2)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 38; E-Value: 0.0000000000008
Query Start/End: Original strand, 74 - 127
Target Start/End: Complemental strand, 40329919 - 40329866
Alignment:
Q  74 tattgtattgttcttggagtgtgcaaagttctaatgaaaagaggttgaagatga 127  Q
    |||||||||||||| || ||||| |||||||||||||||||||| |||||||||    
T  40329919 tattgtattgttctaggcgtgtgtaaagttctaatgaaaagaggatgaagatga 40329866  T

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Target: chr5; HSP #2
Raw Score: 30; E-Value: 0.00000004
Query Start/End: Original strand, 98 - 127
Target Start/End: Original strand, 32836549 - 32836578
Alignment:
Q  98 aaagttctaatgaaaagaggttgaagatga 127  Q
    ||||||||||||||||||||||||||||||    
T  32836549 aaagttctaatgaaaagaggttgaagatga 32836578  T

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Target: chr3 (Bit Score: 38; Significance: 0.0000000000008; HSPs: 7)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 38; E-Value: 0.0000000000008
Query Start/End: Original strand, 74 - 127
Target Start/End: Original strand, 2976454 - 2976507
Alignment:
Q  74 tattgtattgttcttggagtgtgcaaagttctaatgaaaagaggttgaagatga 127  Q
    |||||||||| ||| || ||||| ||||||||||||||||||||||||||||||    
T  2976454 tattgtattgctctaggcgtgtgtaaagttctaatgaaaagaggttgaagatga 2976507  T

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Target: chr3; HSP #2
Raw Score: 34; E-Value: 0.0000000002
Query Start/End: Original strand, 32 - 69
Target Start/End: Original strand, 20961662 - 20961699
Alignment:
Q  32 ttaagaatgttgctgcaacatttaaggaaacatctgat 69  Q
    |||||||||||| |||||||||||||||||||||||||    
T  20961662 ttaagaatgttgttgcaacatttaaggaaacatctgat 20961699  T

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

Target: chr3; HSP #3
Raw Score: 30; E-Value: 0.00000004
Query Start/End: Original strand, 98 - 127
Target Start/End: Complemental strand, 23775070 - 23775041
Alignment:
Q  98 aaagttctaatgaaaagaggttgaagatga 127  Q
    ||||||||||||||||||||||||||||||    
T  23775070 aaagttctaatgaaaagaggttgaagatga 23775041  T

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Target: chr3; HSP #4
Raw Score: 30; E-Value: 0.00000004
Query Start/End: Original strand, 98 - 127
Target Start/End: Complemental strand, 48634790 - 48634761
Alignment:
Q  98 aaagttctaatgaaaagaggttgaagatga 127  Q
    ||||||||||||||||||||||||||||||    
T  48634790 aaagttctaatgaaaagaggttgaagatga 48634761  T

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Target: chr3; HSP #5
Raw Score: 29; E-Value: 0.0000002
Query Start/End: Original strand, 32 - 72
Target Start/End: Original strand, 23432687 - 23432727
Alignment:
Q  32 ttaagaatgttgctgcaacatttaaggaaacatctgatttg 72  Q
    |||||||||||| ||||||||||||| ||||||| ||||||    
T  23432687 ttaagaatgttgttgcaacatttaagtaaacatcggatttg 23432727  T

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

Target: chr3; HSP #6
Raw Score: 28; E-Value: 0.0000007
Query Start/End: Original strand, 100 - 131
Target Start/End: Original strand, 30501629 - 30501660
Alignment:
Q  100 agttctaatgaaaagaggttgaagatgaatga 131  Q
    |||| |||||||||||||||||||||||||||    
T  30501629 agttgtaatgaaaagaggttgaagatgaatga 30501660  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, 106 - 140
Target Start/End: Original strand, 32843581 - 32843616
Alignment:
Q  106 aatgaaaagaggttgaagatgaatg-atgtaacctt 140  Q
    ||||||||||||||||||||||||| ||||||||||    
T  32843581 aatgaaaagaggttgaagatgaatgaatgtaacctt 32843616  T

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

Target: chr1 (Bit Score: 37; Significance: 0.000000000003; HSPs: 4)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 37; E-Value: 0.000000000003
Query Start/End: Original strand, 77 - 140
Target Start/End: Original strand, 42558964 - 42559028
Alignment:
Q  77 tgtattgttcttggagtgtgcaaagttctaatgaaaagaggttgaagatgaatg-atgtaacctt 140  Q
    |||||||| || || ||||| || |||||||||||||||||||||||||||||| ||||||||||    
T  42558964 tgtattgtactaggtgtgtgtaatgttctaatgaaaagaggttgaagatgaatgaatgtaacctt 42559028  T

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

Target: chr1; HSP #2
Raw Score: 33; E-Value: 0.0000000007
Query Start/End: Original strand, 9 - 65
Target Start/End: Complemental strand, 51110895 - 51110839
Alignment:
Q  9 gcggcttgtacttagcgtgttctttaagaatgttgctgcaacatttaaggaaacatc 65  Q
    |||| ||||||||||| |  || |||||||||||| |||||||||||||||||||||    
T  51110895 gcggtttgtacttagcttagtccttaagaatgttgttgcaacatttaaggaaacatc 51110839  T

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

Target: chr1; HSP #3
Raw Score: 31; E-Value: 0.00000001
Query Start/End: Original strand, 32 - 66
Target Start/End: Complemental strand, 50058084 - 50058050
Alignment:
Q  32 ttaagaatgttgctgcaacatttaaggaaacatct 66  Q
    |||||||||||| ||||||||||||||||||||||    
T  50058084 ttaagaatgttgttgcaacatttaaggaaacatct 50058050  T

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

Target: chr1; HSP #4
Raw Score: 29; E-Value: 0.0000002
Query Start/End: Original strand, 32 - 72
Target Start/End: Complemental strand, 24549799 - 24549759
Alignment:
Q  32 ttaagaatgttgctgcaacatttaaggaaacatctgatttg 72  Q
    |||||||||||| |||||| |||||||||||||| ||||||    
T  24549799 ttaagaatgttgttgcaacgtttaaggaaacatccgatttg 24549759  T

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

Target: chr2 (Bit Score: 33; Significance: 0.0000000007; HSPs: 3)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 33; E-Value: 0.0000000007
Query Start/End: Original strand, 71 - 131
Target Start/End: Complemental strand, 20941748 - 20941688
Alignment:
Q  71 tgttattgtattgttcttggagtgtgcaaagttctaatgaaaagaggttgaagatgaatga 131  Q
    ||||| |||||||| || || ||||| || ||| |||||||||||||||||||||||||||    
T  20941748 tgttactgtattgtgctaggtgtgtgtaacgttgtaatgaaaagaggttgaagatgaatga 20941688  T

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

Target: chr2; HSP #2
Raw Score: 32; E-Value: 0.000000003
Query Start/End: Original strand, 34 - 69
Target Start/End: Complemental strand, 30947889 - 30947854
Alignment:
Q  34 aagaatgttgctgcaacatttaaggaaacatctgat 69  Q
    |||||||||| |||||||||||||||||||||||||    
T  30947889 aagaatgttgttgcaacatttaaggaaacatctgat 30947854  T

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

Target: chr2; HSP #3
Raw Score: 30; E-Value: 0.00000004
Query Start/End: Original strand, 98 - 127
Target Start/End: Complemental strand, 42880230 - 42880201
Alignment:
Q  98 aaagttctaatgaaaagaggttgaagatga 127  Q
    ||||||||||||||||||||||||||||||    
T  42880230 aaagttctaatgaaaagaggttgaagatga 42880201  T

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Target: scaffold0072 (Bit Score: 30; Significance: 0.00000004; HSPs: 1)
Name: scaffold0072
Description:

Target: scaffold0072; HSP #1
Raw Score: 30; E-Value: 0.00000004
Query Start/End: Original strand, 32 - 69
Target Start/End: Complemental strand, 19112 - 19075
Alignment:
Q  32 ttaagaatgttgctgcaacatttaaggaaacatctgat 69  Q
    ||||||||||||  ||||||||||||||||||||||||    
T  19112 ttaagaatgttgtagcaacatttaaggaaacatctgat 19075  T

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Target: scaffold0062 (Bit Score: 30; Significance: 0.00000004; HSPs: 1)
Name: scaffold0062
Description:

Target: scaffold0062; HSP #1
Raw Score: 30; E-Value: 0.00000004
Query Start/End: Original strand, 32 - 69
Target Start/End: Original strand, 1692 - 1729
Alignment:
Q  32 ttaagaatgttgctgcaacatttaaggaaacatctgat 69  Q
    |||||||||||| |||||||||||||||||||| ||||    
T  1692 ttaagaatgttgttgcaacatttaaggaaacatatgat 1729  T

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Target: chr4 (Bit Score: 30; Significance: 0.00000004; HSPs: 3)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 30; E-Value: 0.00000004
Query Start/End: Original strand, 82 - 127
Target Start/End: Complemental strand, 4519859 - 4519814
Alignment:
Q  82 tgttcttggagtgtgcaaagttctaatgaaaagaggttgaagatga 127  Q
    |||||| || ||||| ||| ||||||||||||||||||||||||||    
T  4519859 tgttctaggtgtgtgtaaaattctaatgaaaagaggttgaagatga 4519814  T

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

Target: chr4; HSP #2
Raw Score: 30; E-Value: 0.00000004
Query Start/End: Original strand, 32 - 65
Target Start/End: Complemental strand, 13269408 - 13269375
Alignment:
Q  32 ttaagaatgttgctgcaacatttaaggaaacatc 65  Q
    |||||||||||| |||||||||||||||||||||    
T  13269408 ttaagaatgttgttgcaacatttaaggaaacatc 13269375  T

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

Target: chr4; HSP #3
Raw Score: 30; E-Value: 0.00000004
Query Start/End: Original strand, 32 - 65
Target Start/End: Complemental strand, 13959532 - 13959499
Alignment:
Q  32 ttaagaatgttgctgcaacatttaaggaaacatc 65  Q
    |||||||||||| |||||||||||||||||||||    
T  13959532 ttaagaatgttgttgcaacatttaaggaaacatc 13959499  T

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



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