Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 120 of 240
Found at i:37281020 original size:16 final size:16
Alignment explanation
Indices: 37280999--37281030 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37280989 ATTTTGTTGC
*
37280999 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
37281015 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
37281031 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:37281227 original size:46 final size:44
Alignment explanation
Indices: 37281160--37281249 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 44
37281150 AACAGATACA
*
37281160 CGGTGGATTCAGCACACAGCAACCACCCTTTGTAATCAATGATATC
1 CGGTGGATTCAGCACACAGCAACCA-CC-TTATAATCAATGATATC
* *
37281206 CGGTGGGA-TCAGCACATAGCAACCACCTTATAATTAATGATATC
1 CGGT-GGATTCAGCACACAGCAACCACCTTATAATCAATGATATC
37281250 GGTTCACATA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
44 15 0.38
45 2 0.05
46 20 0.50
47 3 0.08
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (44 bp):
CGGTGGATTCAGCACACAGCAACCACCTTATAATCAATGATATC
Found at i:37287528 original size:35 final size:35
Alignment explanation
Indices: 37287481--37287619 Score: 181
Period size: 35 Copynumber: 4.0 Consensus size: 35
37287471 ATCGGTAGGT
*
37287481 CTGGCTCTTATGAGCATTTGGTGTGTTGAATGGTA
1 CTGGCTCTTATGAGCATTTGGTGTGCTGAATGGTA
* * * * *
37287516 TTGGCTCTTATGAGCATCTAGTATGCTGGATGGTA
1 CTGGCTCTTATGAGCATTTGGTGTGCTGAATGGTA
37287551 CTGGCTCTTATGAGCATTTGGTGTGCT-AGATGGTA
1 CTGGCTCTTATGAGCATTTGGTGTGCTGA-ATGGTA
* * *
37287586 CTGGCTCTTATGAGCATGTGGTGTGTTGGATGGT
1 CTGGCTCTTATGAGCATTTGGTGTGCTGAATGGT
37287620 TAACCGTGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
35 88 1.00
ACGTcount: A:0.17, C:0.13, G:0.32, T:0.38
Consensus pattern (35 bp):
CTGGCTCTTATGAGCATTTGGTGTGCTGAATGGTA
Found at i:37301554 original size:33 final size:33
Alignment explanation
Indices: 37301517--37301621 Score: 147
Period size: 33 Copynumber: 3.2 Consensus size: 33
37301507 CTCTCTATTC
* * *
37301517 GGTGTGCTGGTTGGTTTAGCTCTTCTGAGCATT
1 GGTGTGATGGTTGGATTAGCTCTTATGAGCATT
* *
37301550 GGTGTGATGGATGGATTAGCTCTTATAAGCATT
1 GGTGTGATGGTTGGATTAGCTCTTATGAGCATT
*
37301583 GGTGTGATGGTTGGATTAGCTTTTATGAGCATT
1 GGTGTGATGGTTGGATTAGCTCTTATGAGCATT
*
37301616 AGTGTG
1 GGTGTG
37301622 TTGGAGGGAT
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 63 1.00
ACGTcount: A:0.17, C:0.10, G:0.33, T:0.40
Consensus pattern (33 bp):
GGTGTGATGGTTGGATTAGCTCTTATGAGCATT
Found at i:37307159 original size:30 final size:30
Alignment explanation
Indices: 37307125--37307182 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
37307115 TCGAGCTTTC
37307125 GGGCAAAAGTGTAAATATG-CAAAAGTTTAG
1 GGGCAAAAGTGTAAATATGTC-AAAGTTTAG
* *
37307155 GGGCAAAATTGTAATTATGTCAAAGTTT
1 GGGCAAAAGTGTAAATATGTCAAAGTTT
37307183 GAGTCAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (30 bp):
GGGCAAAAGTGTAAATATGTCAAAGTTTAG
Found at i:37307695 original size:50 final size:50
Alignment explanation
Indices: 37307585--37307697 Score: 163
Period size: 50 Copynumber: 2.3 Consensus size: 50
37307575 AGAGGTCTAG
* * **
37307585 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGTACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
** *
37307635 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
37307685 TCCCATGTAAGAC
1 TCCCATGTAAGAC
37307698 AATATCTAGG
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.27, C:0.25, G:0.28, T:0.20
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
Found at i:37307997 original size:20 final size:20
Alignment explanation
Indices: 37307972--37308020 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
37307962 TGAGTTATTT
37307972 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
* *
37307992 AAGTAAG-AGAGTTAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
37308012 AAG-AAGCAA
1 AAGTAAGCAA
37308021 AGACGATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.55, C:0.06, G:0.24, T:0.14
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:37309204 original size:15 final size:15
Alignment explanation
Indices: 37309180--37309226 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
37309170 TAAGTAAGGT
*
37309180 AATAATTGGTTAATC
1 AATAACTGGTTAATC
37309195 AATAACTGG-TAAT-
1 AATAACTGGTTAATC
37309208 AAT---TGGTTAATC
1 AATAACTGGTTAATC
37309220 AATAACT
1 AATAACT
37309227 AATCCACCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 10
0.70 0.03 0.27
Matches are distributed among these distances:
10 3 0.12
11 4 0.15
12 3 0.12
13 3 0.12
14 4 0.15
15 9 0.35
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.36
Consensus pattern (15 bp):
AATAACTGGTTAATC
Found at i:37309205 original size:25 final size:25
Alignment explanation
Indices: 37309177--37309226 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
37309167 AGTTAAGTAA
37309177 GGTAATAATTGGTTAATCAATAACT
1 GGTAATAATTGGTTAATCAATAACT
37309202 GGTAATAATTGGTTAATCAATAACT
1 GGTAATAATTGGTTAATCAATAACT
37309227 AATCCACCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (25 bp):
GGTAATAATTGGTTAATCAATAACT
Found at i:37312433 original size:6 final size:6
Alignment explanation
Indices: 37312422--37312456 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
37312412 TAGTTTCCAA
*
37312422 AAATGG AAATGG AAATGG AAATGG AAATGG CAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG
37312457 ACAATGATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.49, C:0.03, G:0.31, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:37312654 original size:26 final size:26
Alignment explanation
Indices: 37312625--37312683 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
37312615 TTTACCAAGG
*
37312625 GTAAAATCGTCAAAATTTTATCGGGA
1 GTAAAATCATCAAAATTTTATCGGGA
* *
37312651 GTAAAATCATCTAAATTTTATTGGGA
1 GTAAAATCATCAAAATTTTATCGGGA
37312677 GTAAAAT
1 GTAAAAT
37312684 TGGGATGAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.34
Consensus pattern (26 bp):
GTAAAATCATCAAAATTTTATCGGGA
Found at i:37317776 original size:25 final size:26
Alignment explanation
Indices: 37317747--37317814 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 26
37317737 AATACATAGT
*
37317747 TGCTCACACGAGCTGTG-AATAGGTA
1 TGCTCACACGAGCTGTGAAATAGGCA
** * *
37317772 TGCTCACATAAGCTGTGAAATGGGCC
1 TGCTCACACGAGCTGTGAAATAGGCA
*
37317798 TGCTCACACGAGTTGTG
1 TGCTCACACGAGCTGTG
37317815 GGTCAAAATG
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
25 15 0.44
26 19 0.56
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (26 bp):
TGCTCACACGAGCTGTGAAATAGGCA
Found at i:37321466 original size:50 final size:50
Alignment explanation
Indices: 37321407--37321600 Score: 185
Period size: 50 Copynumber: 3.9 Consensus size: 50
37321397 TATTGAGATT
* *
37321407 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAC
* ** * * * *
37321457 ATGGGAGGTCCCCCGTAAGACCATGTCTAAGACATGGCGTGGGCGCCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAC
** * * * *
37321507 ATGAGAACTCTCATGTAAGACCATATCTAGGATATGGCATTGGCA--GTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCG-AC
* * * * *
37321556 AAGAAACGTCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCA
37321601 TGTTATTATC
Statistics
Matches: 113, Mismatches: 30, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
48 1 0.01
49 37 0.33
50 75 0.66
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAC
Found at i:37333306 original size:17 final size:16
Alignment explanation
Indices: 37333276--37333310 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
37333266 ATGTTTATTT
37333276 TTACTTTTAATTTTAG
1 TTACTTTTAATTTTAG
*
37333292 TTACATTTTACTTTTAG
1 TTAC-TTTTAATTTTAG
37333309 TT
1 TT
37333311 GTAAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.23, C:0.09, G:0.06, T:0.63
Consensus pattern (16 bp):
TTACTTTTAATTTTAG
Found at i:37333430 original size:14 final size:14
Alignment explanation
Indices: 37333411--37333442 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
37333401 ATTAAGTGAA
37333411 ATTAGAGTTAGTTT
1 ATTAGAGTTAGTTT
*
37333425 ATTAGAGTTATTTT
1 ATTAGAGTTAGTTT
37333439 ATTA
1 ATTA
37333443 TATTTTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (14 bp):
ATTAGAGTTAGTTT
Found at i:37350767 original size:40 final size:40
Alignment explanation
Indices: 37350683--37350866 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
37350673 TTGAATGCTG
* * * *
37350683 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
37350722 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
37350763 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
37350803 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
37350843 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
37350867 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:37350820 original size:80 final size:81
Alignment explanation
Indices: 37350683--37350863 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
37350673 TTGAATGCTG
* *
37350683 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
37350747 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
37350763 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
37350824 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
37350843 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
37350864 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:37354027 original size:29 final size:29
Alignment explanation
Indices: 37353995--37354137 Score: 162
Period size: 29 Copynumber: 4.8 Consensus size: 29
37353985 GGTATAGCTT
* *
37353995 CGACTATCGATTATGAAAAGGGATGGTGA
1 CGACCATCAATTATGAAAAGGGATGGTGA
37354024 CGACCATCAATTATGAAAAGGGATGGTGA
1 CGACCATCAATTATGAAAAGGGATGGTGA
* *
37354053 CGACCATCAACTATGAAAACGGATAGTGATGA
1 CGACCATCAATTATGAAAAGGGAT-G-G-TGA
* *
37354085 CGACCATCGATTAATGAAAAGGGATGGT-T
1 CGACCATCAATT-ATGAAAAGGGATGGTGA
* *
37354114 CTTACCATCAAATATGAAAAGGGA
1 C-GACCATCAATTATGAAAAGGGA
37354138 CTGTTAAAGT
Statistics
Matches: 98, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
29 61 0.62
30 10 0.10
31 2 0.02
32 14 0.14
33 11 0.11
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (29 bp):
CGACCATCAATTATGAAAAGGGATGGTGA
Found at i:37354121 original size:62 final size:58
Alignment explanation
Indices: 37354006--37354133 Score: 159
Period size: 62 Copynumber: 2.1 Consensus size: 58
37353996 GACTATCGAT
* *
37354006 TATGAAAAGGGATGGTGACGACCATCAATTATGAAAAGGGATGGTGACGACCATCAAC
1 TATGAAAACGGATGGTGACGACCATCAATTATGAAAAGGGATGGTGACGACCATCAAA
* * *
37354064 TATGAAAACGGATAGTGATGACGACCATCGATTAATGAAAAGGGATGGT-TCTTACCATCAAA
1 TATGAAAACGGAT-G-G-TGACGACCATCAATT-ATGAAAAGGGATGGTGAC-GACCATCAAA
37354126 TATGAAAA
1 TATGAAAA
37354134 GGGACTGTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
58 12 0.20
59 1 0.02
60 1 0.02
61 15 0.25
62 31 0.52
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (58 bp):
TATGAAAACGGATGGTGACGACCATCAATTATGAAAAGGGATGGTGACGACCATCAAA
Found at i:37358329 original size:22 final size:22
Alignment explanation
Indices: 37358298--37358409 Score: 101
Period size: 22 Copynumber: 5.4 Consensus size: 22
37358288 ATACCCACAA
*
37358298 TAAGCTTGAATAACACTGGCAC
1 TAAGCCTGAATAACACTGGCAC
**
37358320 TAAGCCTGAATAACACCAGCAC
1 TAAGCCTGAATAACACTGGCAC
* * *
37358342 TAAGCTTG-CT-AGACT----C
1 TAAGCCTGAATAACACTGGCAC
* *
37358358 TAAGCCTGAACAACACCGGCAC
1 TAAGCCTGAATAACACTGGCAC
*
37358380 TAAGCCTGAATAGCACTGGCAC
1 TAAGCCTGAATAACACTGGCAC
37358402 TAAGCCTG
1 TAAGCCTG
37358410 CTAGGCACTA
Statistics
Matches: 69, Mismatches: 15, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
16 8 0.12
18 3 0.04
20 3 0.04
21 1 0.01
22 54 0.78
ACGTcount: A:0.34, C:0.29, G:0.19, T:0.19
Consensus pattern (22 bp):
TAAGCCTGAATAACACTGGCAC
Found at i:37358391 original size:60 final size:60
Alignment explanation
Indices: 37358298--37358427 Score: 179
Period size: 60 Copynumber: 2.2 Consensus size: 60
37358288 ATACCCACAA
* * * * *
37358298 TAAGCTTGAATAACACTGGCACTAAGCCTGAATAACACCAGCACTAAGCTTGCTAGACTC
1 TAAGCCTGAACAACACCGGCACTAAGCCTGAATAACACCAGCACTAAGCCTGCTAGACAC
* ** *
37358358 TAAGCCTGAACAACACCGGCACTAAGCCTGAATAGCACTGGCACTAAGCCTGCTAGGCAC
1 TAAGCCTGAACAACACCGGCACTAAGCCTGAATAACACCAGCACTAAGCCTGCTAGACAC
37358418 TAAGCCTGAA
1 TAAGCCTGAA
37358428 TAATAGTATG
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.18
Consensus pattern (60 bp):
TAAGCCTGAACAACACCGGCACTAAGCCTGAATAACACCAGCACTAAGCCTGCTAGACAC
Found at i:37362727 original size:27 final size:27
Alignment explanation
Indices: 37362697--37362749 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
37362687 TGTCTGAAAT
* * *
37362697 ACCCCTATAGTGTAGAATGACCGTAAC
1 ACCCCTATAGGGTAAAATAACCGTAAC
*
37362724 ACCCCTGTAGGGTAAAATAACCGTAA
1 ACCCCTATAGGGTAAAATAACCGTAA
37362750 TGCCCTGGTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.21
Consensus pattern (27 bp):
ACCCCTATAGGGTAAAATAACCGTAAC
Found at i:37362865 original size:24 final size:23
Alignment explanation
Indices: 37362814--37362871 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
37362804 TTTGTGGTTA
*
37362814 AATGACTGATTTTTTGTGTTTGG
1 AATGACTGATTTTCTGTGTTTGG
*
37362837 TATGACTGATTTGTCTGTGATTT-G
1 AATGACTGATTT-TCTGTG-TTTGG
*
37362861 AATGATTGATT
1 AATGACTGATT
37362872 CTGAGCATGG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 11 0.38
24 15 0.52
25 3 0.10
ACGTcount: A:0.21, C:0.05, G:0.24, T:0.50
Consensus pattern (23 bp):
AATGACTGATTTTCTGTGTTTGG
Found at i:37362975 original size:27 final size:27
Alignment explanation
Indices: 37362935--37362994 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
37362925 ATGGAGGAAG
37362935 TACTG-TACTAGTGGCTCT-GCCACA-A
1 TACTGTTACTAGTGGCT-TGGCCACATA
*
37362960 TCACTGTTACTGGTGGCTTGGCCACATA
1 T-ACTGTTACTAGTGGCTTGGCCACATA
37362988 TACTGTT
1 TACTGTT
37362995 GATGGCAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 1 0.03
26 5 0.17
27 22 0.73
28 2 0.07
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (27 bp):
TACTGTTACTAGTGGCTTGGCCACATA
Found at i:37363073 original size:32 final size:32
Alignment explanation
Indices: 37363017--37363250 Score: 213
Period size: 32 Copynumber: 7.4 Consensus size: 32
37363007 GCTACGATGC
* ** *
37363017 TACTGATGGCTTTGTTCCGGTCATAGTACTGT
1 TACTGATGGCTTTGTGCCAATCATATTACTGT
* *
37363049 TACTAATGGCTTTGTGTCAATCATATTACTGT
1 TACTGATGGCTTTGTGCCAATCATATTACTGT
* * * *
37363081 TACTGGTGGCTATGTGCCGATCAT-TTCACTAT
1 TACTGATGGCTTTGTGCCAATCATATT-ACTGT
* * * * * *
37363113 TACTGATGGCTATGTGTCGATAATATCACTGC
1 TACTGATGGCTTTGTGCCAATCATATTACTGT
* * * *
37363145 TACT-ATGGCTTTGTACCGATCATGTTACCGT
1 TACTGATGGCTTTGTGCCAATCATATTACTGT
* * * *
37363176 TGCTGATGGCTGTGTGCCAATCATATCACTGC
1 TACTGATGGCTTTGTGCCAATCATATTACTGT
37363208 TACTGATGGCTTTGTGCCAATCATATTACTG-
1 TACTGATGGCTTTGTGCCAATCATATTACTGT
*
37363239 TACTTATGGCTT
1 TACTGATGGCTT
37363251 GTAGCCATTC
Statistics
Matches: 161, Mismatches: 38, Indels: 7
0.78 0.18 0.03
Matches are distributed among these distances:
31 35 0.22
32 125 0.78
33 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCAATCATATTACTGT
Found at i:37363186 original size:95 final size:94
Alignment explanation
Indices: 37363044--37363250 Score: 225
Period size: 95 Copynumber: 2.2 Consensus size: 94
37363034 CGGTCATAGT
** * * * *
37363044 ACTGTTACTAATGGCTTTGTGTCAATCATATTACTGTTACTGGTGGCTATGTGCCGATCATTTCA
1 ACTG-TACT-ATGGCTTTGTACCAATCATATTACCGTTACTGATGGCTATGTGCCAATCATATCA
* * *
37363109 CTATTACTGATGGCTATGTGTCGATAATATC
64 CTACTACTGATGGCTATGTGCCAATAATATC
* * * *
37363140 ACTGCTACTATGGCTTTGTACCGATCATGTTACCGTTGCTGATGGCTGTGTGCCAATCATATCAC
1 ACTG-TACTATGGCTTTGTACCAATCATATTACCGTTACTGATGGCTATGTGCCAATCATATCAC
* * * *
37363205 TGCTACTGATGGCTTTGTGCCAATCATATT
65 TACTACTGATGGCTATGTGCCAATAATATC
37363235 ACTGTACTTATGGCTT
1 ACTGTAC-TATGGCTT
37363251 GTAGCCATTC
Statistics
Matches: 92, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
94 3 0.03
95 81 0.88
96 8 0.09
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.38
Consensus pattern (94 bp):
ACTGTACTATGGCTTTGTACCAATCATATTACCGTTACTGATGGCTATGTGCCAATCATATCACT
ACTACTGATGGCTATGTGCCAATAATATC
Found at i:37366006 original size:22 final size:22
Alignment explanation
Indices: 37365978--37366031 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
37365968 CTTGCTAGGA
* *
37365978 ACTAAGCCTGAATAACAGCGAC
1 ACTAAGCCTGAACAACACCGAC
*
37366000 ACTAAGCCTGACCAACACCGAC
1 ACTAAGCCTGAACAACACCGAC
37366022 ACTAAGCCTG
1 ACTAAGCCTG
37366032 CTAGGCATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.37, C:0.33, G:0.17, T:0.13
Consensus pattern (22 bp):
ACTAAGCCTGAACAACACCGAC
Found at i:37369864 original size:39 final size:38
Alignment explanation
Indices: 37369804--37369940 Score: 102
Period size: 38 Copynumber: 3.6 Consensus size: 38
37369794 TTAAATATGT
* *
37369804 CTAAACTAGGACAT-ATATAAAACATGTATTTAAGATGAC
1 CTAAACTATGACATAAT-TAAAACAT-TATTAAAGATGAC
* *
37369843 CTAAACTATGACATAATTAAAAACCCTTATTAAAGATGAT
1 CTAAACTATGACATAATT-AAAA-CATTATTAAAGATGAC
* * * **
37369883 C-AGATTATGACATAATTAAAAC-TCATATTAATGATGTT
1 CTAAACTATGACATAATTAAAACAT--TATTAAAGATGAC
*
37369921 C-AAATTATGACATAATTAAA
1 CTAAACTATGACATAATTAAA
37369941 GACTTAAACT
Statistics
Matches: 84, Mismatches: 9, Indels: 11
0.81 0.09 0.11
Matches are distributed among these distances:
36 1 0.01
37 1 0.01
38 34 0.40
39 28 0.33
40 18 0.21
41 2 0.02
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.31
Consensus pattern (38 bp):
CTAAACTATGACATAATTAAAACATTATTAAAGATGAC
Found at i:37369913 original size:38 final size:38
Alignment explanation
Indices: 37369830--37369940 Score: 132
Period size: 38 Copynumber: 2.9 Consensus size: 38
37369820 ATAAAACATG
* * * *
37369830 TATTTAAGATGACCTAAACTATGACATAATTAAAAACCCT
1 TATTAAAGATGATC-AAATTATGACATAATT-AAAACCCA
* *
37369870 TATTAAAGATGATCAGATTATGACATAATTAAAACTCA
1 TATTAAAGATGATCAAATTATGACATAATTAAAACCCA
* *
37369908 TATTAATGATGTTCAAATTATGACATAATTAAA
1 TATTAAAGATGATCAAATTATGACATAATTAAA
37369941 GACTTAAACT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 36 0.58
39 14 0.23
40 12 0.19
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (38 bp):
TATTAAAGATGATCAAATTATGACATAATTAAAACCCA
Found at i:37373644 original size:27 final size:26
Alignment explanation
Indices: 37373614--37373752 Score: 127
Period size: 27 Copynumber: 5.2 Consensus size: 26
37373604 TTACACTGTT
*
37373614 ATGACCAAAATACCTCCATAGGGTAAA
1 ATGACCGAAATACC-CCATAGGGTAAA
*
37373641 ATGACC-AAGATACCCCCATAGGGTAGA
1 ATGACCGAA-ATA-CCCCATAGGGTAAA
* * * *
37373668 ATAACTGAAATACCTCCATATGCTAAA
1 ATGACCGAAATACC-CCATAGGGTAAA
* *
37373695 ATGATCGAAATACCCCTATAGGGTAGA
1 ATGACCGAAATACCCC-ATAGGGTAAA
* *
37373722 ATGACCGTAATACCCCCTAAGGGTAAA
1 ATGACCGAAATACCCCAT-AGGGTAAA
37373749 ATGA
1 ATGA
37373753 TCTTTATACC
Statistics
Matches: 90, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
26 7 0.08
27 79 0.88
28 4 0.04
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.20
Consensus pattern (26 bp):
ATGACCGAAATACCCCATAGGGTAAA
Found at i:37373685 original size:54 final size:54
Alignment explanation
Indices: 37373621--37373754 Score: 164
Period size: 54 Copynumber: 2.5 Consensus size: 54
37373611 GTTATGACCA
*
37373621 AAATACCTCCATAGGGTAAAATGA-CCAAGATACCCCCATAGGGTAGAATAACTG
1 AAATACCTCCATAGGGTAAAATGATCCAA-ATACCCCCATAGGGTAGAATAACCG
* * * * *
37373675 AAATACCTCCATATGCTAAAATGATCGAAATACCCCTATAGGGTAGAATGACCG
1 AAATACCTCCATAGGGTAAAATGATCCAAATACCCCCATAGGGTAGAATAACCG
* *
37373729 TAATACC-CCCTAAGGGTAAAATGATC
1 AAATACCTCCAT-AGGGTAAAATGATC
37373755 TTTATACCCC
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
53 3 0.04
54 62 0.91
55 3 0.04
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.21
Consensus pattern (54 bp):
AAATACCTCCATAGGGTAAAATGATCCAAATACCCCCATAGGGTAGAATAACCG
Found at i:37375289 original size:22 final size:22
Alignment explanation
Indices: 37375246--37375294 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
37375236 TTACCTCTTG
**
37375246 CTTTTCTTTTTTTTTCAGTTTT
1 CTTTTCTTTTTTTCACAGTTTT
**
37375268 CTTTTCTTTTTTTCACTTTTTT
1 CTTTTCTTTTTTTCACAGTTTT
37375290 CTTTT
1 CTTTT
37375295 TCTTCTTTCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.04, C:0.16, G:0.02, T:0.78
Consensus pattern (22 bp):
CTTTTCTTTTTTTCACAGTTTT
Found at i:37376855 original size:9 final size:9
Alignment explanation
Indices: 37376841--37376871 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
37376831 GGACTCATTC
37376841 TTCTAATTG
1 TTCTAATTG
37376850 TTCTAATTG
1 TTCTAATTG
37376859 TTCTAATTG
1 TTCTAATTG
37376868 TTCT
1 TTCT
37376872 TGTACAGGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.19, C:0.13, G:0.10, T:0.58
Consensus pattern (9 bp):
TTCTAATTG
Found at i:37380307 original size:29 final size:29
Alignment explanation
Indices: 37380251--37380307 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
37380241 ATGTATTTGA
* *
37380251 CCCTTAACTTTTCATTAATTATACATTTT
1 CCCTAAACTTTTCATTAATTACACATTTT
*
37380280 CCCTAAACTTTTACATTTATTACA-ATTT
1 CCCTAAACTTTT-CATTAATTACACATTT
37380308 AGTCCCTAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.49
Consensus pattern (29 bp):
CCCTAAACTTTTCATTAATTACACATTTT
Found at i:37381201 original size:19 final size:19
Alignment explanation
Indices: 37381179--37381222 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
37381169 AAAAAATAAA
37381179 AAGAATGA-AATGAGAAATG
1 AAGAATGATAATGA-AAATG
*
37381198 AAGAATGATTATGAAAATG
1 AAGAATGATAATGAAAATG
37381217 AAGAAT
1 AAGAAT
37381223 AGAGGTGGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.57, C:0.00, G:0.23, T:0.20
Consensus pattern (19 bp):
AAGAATGATAATGAAAATG
Found at i:37382164 original size:17 final size:18
Alignment explanation
Indices: 37382127--37382180 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
37382117 CTTTCATTCC
*
37382127 ATAACATTTTCTAGTTT-A
1 ATAACATTTTCCA-TTTCA
37382145 ATAACA-TTTCCATTTCA
1 ATAACATTTTCCATTTCA
*
37382162 ATATCATTTTCCATTTCA
1 ATAACATTTTCCATTTCA
37382180 A
1 A
37382181 AATCATGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 3 0.09
17 11 0.34
18 18 0.56
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.46
Consensus pattern (18 bp):
ATAACATTTTCCATTTCA
Found at i:37382172 original size:18 final size:18
Alignment explanation
Indices: 37382151--37382186 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
37382141 TTTAATAACA
*
37382151 TTTCCATTTCAATATCAT
1 TTTCCATTTCAAAATCAT
37382169 TTTCCATTTCAAAATCAT
1 TTTCCATTTCAAAATCAT
37382187 GATTTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.22, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTCCATTTCAAAATCAT
Found at i:37387463 original size:27 final size:27
Alignment explanation
Indices: 37387432--37387609 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
37387422 TAAATTGTAC
37387432 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
37387459 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37387485 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
37387513 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
37387541 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37387568 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
37387595 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
37387610 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:37387546 original size:82 final size:81
Alignment explanation
Indices: 37387433--37387588 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
37387423 AAATTGTACA
*
37387433 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
37387497 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
37387514 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
37387579 TGCGAGTTGA
65 TGCGAATTGA
37387589 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:37387600 original size:82 final size:81
Alignment explanation
Indices: 37387429--37387609 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
37387419 GATTAAATTG
*
37387429 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
37387494 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
37387510 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
37387574 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
37387592 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
37387610 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:37394312 original size:27 final size:27
Alignment explanation
Indices: 37394281--37394458 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
37394271 TAAATTGTAC
37394281 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
37394308 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37394334 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
37394362 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
37394390 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37394417 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
37394444 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
37394459 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:37394395 original size:82 final size:81
Alignment explanation
Indices: 37394282--37394437 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
37394272 AAATTGTACA
*
37394282 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
37394346 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
37394363 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
37394428 TGCGAGTTGA
65 TGCGAATTGA
37394438 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:37394449 original size:82 final size:81
Alignment explanation
Indices: 37394278--37394458 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
37394268 GATTAAATTG
*
37394278 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
37394343 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
37394359 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
37394423 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
37394441 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
37394459 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:37403636 original size:25 final size:25
Alignment explanation
Indices: 37403612--37403693 Score: 119
Period size: 25 Copynumber: 3.3 Consensus size: 25
37403602 AGAATAGTAT
* * *
37403612 GCTCTCACAAGCTATAAATTGGTAT
1 GCTCTTACAAGCTATAAATCGGTAC
* *
37403637 GCTCTTACGAGCTATAAATCGATAC
1 GCTCTTACAAGCTATAAATCGGTAC
37403662 GCTCTTACAAGCTATAAATCGGTAC
1 GCTCTTACAAGCTATAAATCGGTAC
37403687 GCTCTTA
1 GCTCTTA
37403694 TGAACTGTAG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (25 bp):
GCTCTTACAAGCTATAAATCGGTAC
Found at i:37412100 original size:49 final size:49
Alignment explanation
Indices: 37412047--37412932 Score: 1236
Period size: 49 Copynumber: 18.4 Consensus size: 49
37412037 TTGTGATGTG
37412047 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
37412096 AGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTTTATA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA--T----GTG---A-A
* *
37412153 TATGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 -A-GTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
37412204 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
37412253 AGTGTATATATATGTGATTAGGCCTAATGGCCGATATGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
37412302 AGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
37412349 AGTGTATATATATGTG---A----TAA-GGCC-ATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
37412389 AGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
37412438 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATTTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
37412487 AGTGTATATATATGTGAT-A-GCCGAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
37412534 A--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
37412581 AGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
37412630 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
37412679 AGTG--TATATATGTGATAAGG-CTAATAG-CGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
37412724 AGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
37412771 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
37412820 AGTG--TATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
37412867 AGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
37412914 AGTGTATA-A-ATGTGATAAG
1 AGTGTATATATATGTGATAAG
37412933 TCCCGAAGGG
Statistics
Matches: 763, Mismatches: 39, Indels: 72
0.87 0.04 0.08
Matches are distributed among these distances:
40 31 0.04
41 4 0.01
42 2 0.00
43 1 0.00
45 53 0.07
46 13 0.02
47 263 0.34
48 6 0.01
49 337 0.44
50 1 0.00
51 1 0.00
52 1 0.00
53 3 0.00
55 3 0.00
56 1 0.00
57 1 0.00
58 1 0.00
59 4 0.01
61 37 0.05
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (49 bp):
AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:37412171 original size:61 final size:61
Alignment explanation
Indices: 37412100--37412219 Score: 231
Period size: 61 Copynumber: 2.0 Consensus size: 61
37412090 TGTGAAAGTG
*
37412100 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTTTATATATGTGTA
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGTA
37412161 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTG
37412220 ATAAGGCCTA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (61 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGTA
Found at i:37412337 original size:96 final size:97
Alignment explanation
Indices: 37412047--37412932 Score: 1246
Period size: 96 Copynumber: 9.2 Consensus size: 97
37412037 TTGTGATGTG
37412047 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGA
*
37412111 TAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTTTATA
66 TAAGGCCTAATGGCCAATGTGATGAA--T----GTG---A-A
* *
37412153 TATGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATG
1 -A-GTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATG
*
37412218 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
63 TGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
* *
37412253 AGTGTATATATATGTGATTAGGCCTAATGGCCGATATGATGAATGTGAAAGTG-TATATATGTGA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGA
* *
37412317 TAAGGCCGAATGGCCAATGTGATAAATGTGAA
66 TAAGGCCTAATGGCCAATGTGATGAATGTGAA
37412349 AGTGTATATATATGTG---A----TAA-GGCC-ATGTGATGAATGTGAAAGTGTATATATATGTG
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTG
37412405 ATAAGGCCTAATGGCCAATGTGATGAATGTGAA
65 ATAAGGCCTAATGGCCAATGTGATGAATGTGAA
*
37412438 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATTTGAAAGTGTATATATATGTG
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTG
*
37412503 AT-A-GCCGAATGGCCAATGTGATGAATGTGAA
65 ATAAGGCCTAATGGCCAATGTGATGAATGTGAA
37412534 A--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTG
37412597 ATAAGGCCTAATGGCCAATGTGATGAATGTGAA
65 ATAAGGCCTAATGGCCAATGTGATGAATGTGAA
37412630 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGA
* *
37412694 TAAGG-CTAATAG-CGATGTGATGAATGTGAA
66 TAAGGCCTAATGGCCAATGTGATGAATGTGAA
* *
37412724 AGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTG
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTG
*
37412787 ATAAGGCCTAATGGCCGATGTGATGAATGTGAA
65 ATAAGGCCTAATGGCCAATGTGATGAATGTGAA
*
37412820 AGTG--TATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTG-TATATATGTGA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGA
* * * * * *
37412882 CAGGGCCGAGTGGCCAACGTGATGGATGTGAA
66 TAAGGCCTAATGGCCAATGTGATGAATGTGAA
37412914 AGTGTATA-A-ATGTGATAAG
1 AGTGTATATATATGTGATAAG
37412933 TCCCGAAGGG
Statistics
Matches: 722, Mismatches: 33, Indels: 61
0.88 0.04 0.07
Matches are distributed among these distances:
87 19 0.03
88 4 0.01
89 60 0.08
92 46 0.06
93 1 0.00
94 150 0.21
95 14 0.02
96 199 0.28
97 5 0.01
98 131 0.18
99 1 0.00
100 1 0.00
101 1 0.00
104 3 0.00
107 1 0.00
108 51 0.07
110 35 0.05
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (97 bp):
AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGA
TAAGGCCTAATGGCCAATGTGATGAATGTGAA
Found at i:37412365 original size:18 final size:18
Alignment explanation
Indices: 37412342--37412405 Score: 58
Period size: 18 Copynumber: 3.3 Consensus size: 18
37412332 AATGTGATAA
37412342 ATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATAT
* *
37412360 ATGTGATAAG-GCCATGTGAT
1 ATGTGA-AAGTG-TATAT-AT
37412380 GAATGTGAAAGTGTATATAT
1 --ATGTGAAAGTGTATATAT
37412400 ATGTGA
1 ATGTGA
37412406 TAAGGCCTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
18 13 0.36
19 6 0.17
20 4 0.11
21 6 0.17
22 7 0.19
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (18 bp):
ATGTGAAAGTGTATATAT
Found at i:37417253 original size:51 final size:51
Alignment explanation
Indices: 37417126--37417321 Score: 218
Period size: 51 Copynumber: 3.9 Consensus size: 51
37417116 AGCGAAAGTG
* *
37417126 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-A-TG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * * *
37417175 ATAGGTCGCATGTGTAGTACTATGTGCAGCCTACTATGCGTACCGGATAGT-
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * * * *
37417226 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * * *
37417278 ATGGTCAAATGTGTAGTACTATGTACAGGCTACTATGTGAACCG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
37417322 AACATCATTG
Statistics
Matches: 120, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
49 2 0.02
50 39 0.32
51 77 0.64
52 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
Found at i:37417379 original size:45 final size:45
Alignment explanation
Indices: 37417318--37417412 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
37417308 TACTATGTGA
* * *
37417318 ACCGAACATCATTGATTAGTAAGGTGGTTGTTATGTGCT-AATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTACTGAA-TCC
* *
37417363 ACCGGACATTATTGATTAATAAGGTGGTTGCTATGTACTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTACTGAATCC
37417408 ACCGA
1 ACCGA
37417413 GTATATGTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 41 0.95
46 2 0.05
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTACTGAATCC
Found at i:37425738 original size:35 final size:35
Alignment explanation
Indices: 37425652--37425740 Score: 115
Period size: 35 Copynumber: 2.5 Consensus size: 35
37425642 ATTTGTTGAT
* * *
37425652 ATTCTGATTCACATGTTAAGCATGCCATTATTTTG
1 ATTCTGATTCACATGTTAACCATGCCACTATTCTG
* *
37425687 ATTCTGATACACATGTTAACCATGTCACTATTCTG
1 ATTCTGATTCACATGTTAACCATGCCACTATTCTG
**
37425722 ATTCTGATTCGTATGTTAA
1 ATTCTGATTCACATGTTAA
37425741 GTATGCAACC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (35 bp):
ATTCTGATTCACATGTTAACCATGCCACTATTCTG
Found at i:37426514 original size:22 final size:22
Alignment explanation
Indices: 37426440--37426514 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 22
37426430 TGGACAAGCC
* * *
37426440 ACCACTGATTTGCAGTTAATCT
1 ACCACTGATTTGTAGATAAACT
** * **
37426462 GTCATTGATTTGTAGATAAAAA
1 ACCACTGATTTGTAGATAAACT
*
37426484 ACCATTGATTTGTAGATAAACT
1 ACCACTGATTTGTAGATAAACT
37426506 ACCACTGAT
1 ACCACTGAT
37426515 AACACTAATG
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (22 bp):
ACCACTGATTTGTAGATAAACT
Found at i:37427604 original size:15 final size:16
Alignment explanation
Indices: 37427584--37427616 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
37427574 TGGTTCGGCT
37427584 AAGGAGAAGG-GAAGA
1 AAGGAGAAGGTGAAGA
*
37427599 AAGGAGTAGGTGAAGA
1 AAGGAGAAGGTGAAGA
37427615 AA
1 AA
37427617 AATAGAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.52, C:0.00, G:0.42, T:0.06
Consensus pattern (16 bp):
AAGGAGAAGGTGAAGA
Found at i:37431551 original size:28 final size:28
Alignment explanation
Indices: 37431487--37431555 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 28
37431477 TTTTATTCTG
* *
37431487 AACCCCAAATCCTAAATCTTAAAATTAA
1 AACCCCAAACCCTAAATCTTAAAATCAA
* * * **
37431515 AATCTCAAACCCTAAATCTTAAACTCGT
1 AACCCCAAACCCTAAATCTTAAAATCAA
37431543 AACCCCAAACCCT
1 AACCCCAAACCCT
37431556 TAAACCTTGA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.43, C:0.32, G:0.01, T:0.23
Consensus pattern (28 bp):
AACCCCAAACCCTAAATCTTAAAATCAA
Found at i:37431600 original size:26 final size:27
Alignment explanation
Indices: 37431547--37431621 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 27
37431537 ACTCGTAACC
*
37431547 CCAAACCCTTAAACCTTGAA-CTTAAAAT
1 CCAAACCC--AAACCCTGAACCTTAAAAT
* * *
37431575 TCAAACTCAAGCCCTGAACCTT-AAAT
1 CCAAACCCAAACCCTGAACCTTAAAAT
*
37431601 CCAAACCCAAACCTTGAACCT
1 CCAAACCCAAACCCTGAACCT
37431622 CGAGGTTCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
26 29 0.76
27 3 0.08
28 6 0.16
ACGTcount: A:0.40, C:0.33, G:0.05, T:0.21
Consensus pattern (27 bp):
CCAAACCCAAACCCTGAACCTTAAAAT
Found at i:37434397 original size:43 final size:43
Alignment explanation
Indices: 37434335--37434511 Score: 171
Period size: 43 Copynumber: 4.1 Consensus size: 43
37434325 ACATAGGACT
* * *
37434335 TCGATATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCA
1 TCGATTTGAGATTTAGTGTAAGACCATGTCTGGGACATTGGCA
* * ** *
37434378 TCGATTTGAGAATTT-GTGTAAGACTACGTCTGGGATGTTGCCA
1 TCGATTTGAG-ATTTAGTGTAAGACCATGTCTGGGACATTGGCA
* *
37434421 TCAATTTGAGATTTACGTGTAAGACCATGTTTGGGACATTGGCA
1 TCGATTTGAGATTTA-GTGTAAGACCATGTCTGGGACATTGGCA
* * * * *
37434465 TCG-TAT-ATGATTTAATGTAAGACCCTGTCTAGGACAGTGGCA
1 TCGATTTGA-GATTTAGTGTAAGACCATGTCTGGGACATTGGCA
37434507 TCGAT
1 TCGAT
37434512 AGTTGATTAC
Statistics
Matches: 108, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
42 31 0.29
43 49 0.45
44 28 0.26
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.33
Consensus pattern (43 bp):
TCGATTTGAGATTTAGTGTAAGACCATGTCTGGGACATTGGCA
Found at i:37434519 original size:43 final size:42
Alignment explanation
Indices: 37434433--37434532 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
37434423 AATTTGAGAT
* * * *
37434433 TTACGTGTAAGACCATGTTTGGGACATTGGCATCGTATATGA
1 TTACATGTAAGACCATGTCTAGGACAGTGGCATCGTATATGA
*
37434475 TTTA-ATGTAAGACCCTGTCTAGGACAGTGGCATCG-ATAGTTGA
1 -TTACATGTAAGACCATGTCTAGGACAGTGGCATCGTATA--TGA
37434518 TTACATGTAAGACCA
1 TTACATGTAAGACCA
37434533 CGTCCGAGAC
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
41 3 0.06
42 29 0.60
43 16 0.33
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTAGGACAGTGGCATCGTATATGA
Found at i:37436949 original size:31 final size:32
Alignment explanation
Indices: 37436912--37436971 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
37436902 CGGAAGCTTA
* *
37436912 ATTTAAAACAAA-TGATTTGCGAAAATGTGTT
1 ATTTAAAAAAAATTGAGTTGCGAAAATGTGTT
37436943 ATTTAAAAAAAATTGAGTTGCGAAAATGT
1 ATTTAAAAAAAATTGAGTTGCGAAAATGT
37436972 AGCATTTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 11 0.42
32 15 0.58
ACGTcount: A:0.45, C:0.05, G:0.17, T:0.33
Consensus pattern (32 bp):
ATTTAAAAAAAATTGAGTTGCGAAAATGTGTT
Found at i:37437637 original size:22 final size:22
Alignment explanation
Indices: 37437608--37437659 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
37437598 AATGTCTAAG
* *
37437608 AGCCATAAACAAGATAGCTATA
1 AGCCATAAACAAAATAGCTACA
* *
37437630 AGCTATAAACAAAATGGCTACA
1 AGCCATAAACAAAATAGCTACA
37437652 AGCCATAA
1 AGCCATAA
37437660 GTACAGTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.50, C:0.19, G:0.13, T:0.17
Consensus pattern (22 bp):
AGCCATAAACAAAATAGCTACA
Found at i:37437701 original size:32 final size:32
Alignment explanation
Indices: 37437651--37437821 Score: 213
Period size: 32 Copynumber: 5.4 Consensus size: 32
37437641 AAATGGCTAC
* * * *
37437651 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGACACA
* *
37437682 AAGCCATCAGTAGCAGTAATATGATCGACACA
1 AAGCCATCAGTAACGGTAATATGATCGACACA
* * *
37437714 CAA-CCATCAGTAATGGTAATATGATTGGCACA
1 -AAGCCATCAGTAACGGTAATATGATCGACACA
*
37437746 AAGCCA-CTAGTAATGGTAATATGATCGACACA
1 AAGCCATC-AGTAACGGTAATATGATCGACACA
37437778 AAGCCATCAGTAACGGTAATATGATCGACACA
1 AAGCCATCAGTAACGGTAATATGATCGACACA
37437810 AAGCCATCAGTA
1 AAGCCATCAGTA
37437822 GAATCGCAGC
Statistics
Matches: 123, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
31 13 0.11
32 107 0.87
33 3 0.02
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (32 bp):
AAGCCATCAGTAACGGTAATATGATCGACACA
Found at i:37437898 original size:27 final size:26
Alignment explanation
Indices: 37437868--37437929 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 26
37437858 AAAGCTTCCC
37437868 GTAATAGTATATGTGGCCA-AGCCACCA
1 GTAATAGTAT-TGTGG-CAGAGCCACCA
*
37437895 GTAACAGTGATTGTGGCAGAGCCACCA
1 GTAATAGT-ATTGTGGCAGAGCCACCA
37437922 GT-ATAGTA
1 GTAATAGTA
37437930 CTTCCTCGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
25 1 0.03
26 6 0.19
27 22 0.71
28 2 0.06
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (26 bp):
GTAATAGTATTGTGGCAGAGCCACCA
Found at i:37438019 original size:11 final size:11
Alignment explanation
Indices: 37438003--37438045 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
37437993 AACTAGTCAT
37438003 ACAAATCACAG
1 ACAAATCACAG
*
37438014 ACAAATCAATCAT
1 ACAAATC-A-CAG
*
37438027 ACCAATCACAG
1 ACAAATCACAG
37438038 ACAAATCA
1 ACAAATCA
37438046 GTCATTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 16 0.62
12 2 0.08
13 8 0.31
ACGTcount: A:0.53, C:0.28, G:0.05, T:0.14
Consensus pattern (11 bp):
ACAAATCACAG
Found at i:37438099 original size:24 final size:24
Alignment explanation
Indices: 37438007--37438103 Score: 108
Period size: 24 Copynumber: 4.0 Consensus size: 24
37437997 AGTCATACAA
37438007 ATCACAGACAAATCAATCA--TACC
1 ATCACAGACAAATCAATCATTTA-C
* *
37438030 AATCACAGACAAATCAGTCATTTAA
1 -ATCACAGACAAATCAATCATTTAC
* * *
37438055 ATCATAGACAAATTAGTCATTTAC
1 ATCACAGACAAATCAATCATTTAC
*
37438079 ATCACGGACAAATCAATCATTTAC
1 ATCACAGACAAATCAATCATTTAC
37438103 A
1 A
37438104 CTCGAGGGGC
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
24 60 0.97
26 2 0.03
ACGTcount: A:0.45, C:0.23, G:0.07, T:0.25
Consensus pattern (24 bp):
ATCACAGACAAATCAATCATTTAC
Found at i:37438169 original size:27 final size:26
Alignment explanation
Indices: 37438120--37438190 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 26
37438110 GGGCAAAATA
*
37438120 GTCA-TTTACCCTCTAGGGGCATTACG
1 GTCATTTTACCCTAT-GGGGCATTACG
*
37438146 GTCATTTTACCTTATGGGGTCATTACG
1 GTCATTTTACCCTATGGGG-CATTACG
37438173 GTCATTTTACCCTATGGG
1 GTCATTTTACCCTATGGG
37438191 AATTTTTCGG
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 8 0.20
27 32 0.80
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGCATTACG
Found at i:37438201 original size:27 final size:27
Alignment explanation
Indices: 37438139--37438213 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
37438129 CCTCTAGGGG
* *
37438139 CATTACGGTCATTTTACCTTATGGGGT
1 CATTACGGTCATTTTACCCTATGGGAT
37438166 CATTACGGTCATTTTACCCTATGGGAAT
1 CATTACGGTCATTTTACCCTATGGG-AT
* * *
37438194 -TTTTCGGTTATTTTACCCTA
1 CATTACGGTCATTTTACCCTA
37438214 CATGGCTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 41 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.43
Consensus pattern (27 bp):
CATTACGGTCATTTTACCCTATGGGAT
Found at i:37440468 original size:97 final size:97
Alignment explanation
Indices: 37440355--37440563 Score: 346
Period size: 97 Copynumber: 2.2 Consensus size: 97
37440345 TTAAATTTTT
* *
37440355 GTTATGAAATTTTAATGTTTAAATGGTTAATTAAATGAAAAGGATTAAATCGTAAAAATAGAAAA
1 GTTATGAAATTTTAATGTTTAAATGGTTAATTAAATGAAAAGGACTAAATCATAAAAATAGAAAA
* *
37440420 AGTTAAGTTCTATTAGTTAAAAGGGTCAAATG
66 AGTTAAGTTATATTAGTTAAAAGAGTCAAATG
* * *
37440452 GTTATGAAATTTTAATGTTTAAATGGTTAATTAAATTAAAAGGACTAAATCATAAAAATGGTAAA
1 GTTATGAAATTTTAATGTTTAAATGGTTAATTAAATGAAAAGGACTAAATCATAAAAATAGAAAA
37440517 AGTTAAGTTATATTAGTTAAAAGAGTCAAATG
66 AGTTAAGTTATATTAGTTAAAAGAGTCAAATG
*
37440549 GCTATGAAATTTTAA
1 GTTATGAAATTTTAA
37440564 ACTAAGGGAC
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
97 104 1.00
ACGTcount: A:0.45, C:0.03, G:0.16, T:0.35
Consensus pattern (97 bp):
GTTATGAAATTTTAATGTTTAAATGGTTAATTAAATGAAAAGGACTAAATCATAAAAATAGAAAA
AGTTAAGTTATATTAGTTAAAAGAGTCAAATG
Found at i:37444302 original size:16 final size:17
Alignment explanation
Indices: 37444279--37444316 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
37444269 AATAAACAAT
37444279 TAAA-TAAATT-GGAAA
1 TAAATTAAATTGGGAAA
37444294 TAAATTAAATTGGGAAA
1 TAAATTAAATTGGGAAA
37444311 TAAATT
1 TAAATT
37444317 TCGGTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.19
16 6 0.29
17 11 0.52
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (17 bp):
TAAATTAAATTGGGAAA
Found at i:37444884 original size:13 final size:13
Alignment explanation
Indices: 37444868--37444902 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
37444858 ACTTTTTTTT
37444868 AATTTATTTTGAA
1 AATTTATTTTGAA
*
37444881 AATTTATTTCGAA
1 AATTTATTTTGAA
37444894 AATTT-TTTT
1 AATTTATTTT
37444903 CTATGAACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 3 0.15
13 17 0.85
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (13 bp):
AATTTATTTTGAA
Found at i:37447528 original size:45 final size:45
Alignment explanation
Indices: 37447470--37447555 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 45
37447460 TCTTCGTTTT
* *
37447470 TCAATCTCTTTTTCAATTTTCTCCTTTTCATTTCCTTTTTCAATC
1 TCAATCTCCTTTTCAATCTTCTCCTTTTCATTTCCTTTTTCAATC
* * * *
37447515 TCAATTTCCTTTTCAATCTTCTCTTTTTCGTTTTCTTTTTC
1 TCAATCTCCTTTTCAATCTTCTCCTTTTCATTTCCTTTTTC
37447556 TCTCACTTCT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.13, C:0.26, G:0.01, T:0.60
Consensus pattern (45 bp):
TCAATCTCCTTTTCAATCTTCTCCTTTTCATTTCCTTTTTCAATC
Found at i:37447600 original size:31 final size:29
Alignment explanation
Indices: 37447532--37447605 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
37447522 CCTTTTCAAT
* *
37447532 CTTCTCTTTTTCGTTTTCTTTTTCTCTCA
1 CTTCTCTTTTTCTTTTTCATTTTCTCTCA
*
37447561 CTTCTCTTTTTCTTTTATCATTTTCATTTTCA
1 CTTCTCTTTTTCTTTT-TCATTTTC--TCTCA
37447593 -TTCTCTTTTTCTT
1 CTTCTCTTTTTCTT
37447606 CTTTTTCGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
29 15 0.38
30 7 0.18
31 13 0.33
32 4 0.10
ACGTcount: A:0.07, C:0.24, G:0.01, T:0.68
Consensus pattern (29 bp):
CTTCTCTTTTTCTTTTTCATTTTCTCTCA
Found at i:37448505 original size:13 final size:13
Alignment explanation
Indices: 37448483--37448518 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
37448473 AACTTTTTTT
* *
37448483 AATTTATTTCGAA
1 AATTTTTTTCAAA
37448496 AATTTTTTTCAAA
1 AATTTTTTTCAAA
37448509 AATTTTTTTC
1 AATTTTTTTC
37448519 TATGAACCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (13 bp):
AATTTTTTTCAAA
Found at i:37457438 original size:524 final size:524
Alignment explanation
Indices: 37456443--37457505 Score: 2085
Period size: 524 Copynumber: 2.0 Consensus size: 524
37456433 ATAAATCTAA
37456443 AAAAGA-A-AGATTTGATTTGGGTGATTCTTAACAGATTGACTAAATTAGCACACTTTATTCTAG
1 AAAAGATATAGATTTGATTTGGGTGATTCTTAACAGATTGACTAAATTAGCACACTTTATTCTAG
37456506 TTAGAATAGATTTTTCTCTTGAGAGATTAGCGAAATTATATGTATCAGAGATTGTGAGGTGACAT
66 TTAGAATAGATTTTTCTCTTGAGAGATTAGCGAAATTATATGTATCAGAGATTGTGAGGTGACAT
37456571 CGAGATTTTGGAGCAAACTTCACGAAGCTTTGGGAACTAAAATCAATTTCAACACAATGTTTCAT
131 CGAGATTTTGGAGCAAACTTCACGAAGCTTTGGGAACTAAAATCAATTTCAACACAATGTTTCAT
37456636 CCTCAATTAGACAGGCAATTAGAACGACTGATACAGATTCTAAAAGATATGTTGAGATGTTGTAT
196 CCTCAATTAGACAGGCAATTAGAACGACTGATACAGATTCTAAAAGATATGTTGAGATGTTGTAT
37456701 ACTCGAGTTTGAAGGTAGCTGGGAAAAGTACCTACCGTTAGTTGAATTTGCTTATAACAAAAATT
261 ACTCGAGTTTGAAGGTAGCTGGGAAAAGTACCTACCGTTAGTTGAATTTGCTTATAACAAAAATT
37456766 ATCAATCAAGTATAAATATAACACCGTTTGAAGCTCTTTAGGGAAGAAAGTGTAAAACACCATTG
326 ATCAATCAAGTATAAATATAACACCGTTTGAAGCTCTTTAGGGAAGAAAGTGTAAAACACCATTG
37456831 TATTGGTCTGAATTGAATGAATCCAAAATGGTGGGAATTATTTTGATCCAAGAAACAGAAGACAA
391 TATTGGTCTGAATTGAATGAATCCAAAATGGTGGGAATTATTTTGATCCAAGAAACAGAAGACAA
37456896 CGTCTGAGGTATTTGAGATTGTTTGAAAGCTGCATCTGATCGTCAGAAATCGTATGCAAATTTGA
456 CGTCTGAGGTATTTGAGATTGTTTGAAAGCTGCATCTGATCGTCAGAAATCGTATGCAAATTTGA
37456961 AAAG
521 AAAG
37456965 AAAAGATATAGATTTGATTTGGGTGATTCTTAACAGATTGACTAAATTAGCACACTTTATTCTAG
1 AAAAGATATAGATTTGATTTGGGTGATTCTTAACAGATTGACTAAATTAGCACACTTTATTCTAG
*
37457030 TTAGAATAGATTTTTCTCTTGAGAGATTAGCGAAATTATATGTATCTGAGATTGTGAGGTGACAT
66 TTAGAATAGATTTTTCTCTTGAGAGATTAGCGAAATTATATGTATCAGAGATTGTGAGGTGACAT
37457095 CGAGATTTTGGAGCAAACTTCACGAAGCTTTGGGAACTAAAATCAATTTCAACACAATGTTTCAT
131 CGAGATTTTGGAGCAAACTTCACGAAGCTTTGGGAACTAAAATCAATTTCAACACAATGTTTCAT
37457160 CCTCAATTAGACAGGCAATTAGAACGACTGATACAGATTCTAAAAGATATGTTGAGATGTTGTAT
196 CCTCAATTAGACAGGCAATTAGAACGACTGATACAGATTCTAAAAGATATGTTGAGATGTTGTAT
37457225 ACTCGAGTTTGAAGGTAGCTGGGAAAAGTACCTACCGTTAGTTGAATTTGCTTATAACAAAAATT
261 ACTCGAGTTTGAAGGTAGCTGGGAAAAGTACCTACCGTTAGTTGAATTTGCTTATAACAAAAATT
37457290 ATCAATCAAGTATAAATATAACACCGTTTGAAGCTCTTTAGGGAAGAAAGTGTAAAACACCATTG
326 ATCAATCAAGTATAAATATAACACCGTTTGAAGCTCTTTAGGGAAGAAAGTGTAAAACACCATTG
37457355 TATTGGTCTGAATTGAATGAATCCAAAATGGTGGGAATTATTTTGATCCAAGAAACAGAAGACAA
391 TATTGGTCTGAATTGAATGAATCCAAAATGGTGGGAATTATTTTGATCCAAGAAACAGAAGACAA
*
37457420 CGTTTGAGGTATTTGAGATTGTTTGAAAGCTGCATCTGATCGTCAGAAATCGTATGCAAATTTGA
456 CGTCTGAGGTATTTGAGATTGTTTGAAAGCTGCATCTGATCGTCAGAAATCGTATGCAAATTTGA
37457485 AAAG
521 AAAG
37457489 AAAAGATATAGAATTTG
1 AAAAGATATAG-ATTTG
37457506 CTGTTGGCGA
Statistics
Matches: 536, Mismatches: 2, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
522 6 0.01
523 1 0.00
524 524 0.98
525 5 0.01
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (524 bp):
AAAAGATATAGATTTGATTTGGGTGATTCTTAACAGATTGACTAAATTAGCACACTTTATTCTAG
TTAGAATAGATTTTTCTCTTGAGAGATTAGCGAAATTATATGTATCAGAGATTGTGAGGTGACAT
CGAGATTTTGGAGCAAACTTCACGAAGCTTTGGGAACTAAAATCAATTTCAACACAATGTTTCAT
CCTCAATTAGACAGGCAATTAGAACGACTGATACAGATTCTAAAAGATATGTTGAGATGTTGTAT
ACTCGAGTTTGAAGGTAGCTGGGAAAAGTACCTACCGTTAGTTGAATTTGCTTATAACAAAAATT
ATCAATCAAGTATAAATATAACACCGTTTGAAGCTCTTTAGGGAAGAAAGTGTAAAACACCATTG
TATTGGTCTGAATTGAATGAATCCAAAATGGTGGGAATTATTTTGATCCAAGAAACAGAAGACAA
CGTCTGAGGTATTTGAGATTGTTTGAAAGCTGCATCTGATCGTCAGAAATCGTATGCAAATTTGA
AAAG
Found at i:37462446 original size:79 final size:79
Alignment explanation
Indices: 37462351--37462509 Score: 284
Period size: 79 Copynumber: 2.0 Consensus size: 79
37462341 TTGAAGGGAG
37462351 TTGTGAAATATTTCTTGATTTCAAAGCTTCTTAGGACTTTCTTTATCTTTCTT-GTTGTTTATTC
1 TTGTGAAATATTTCTTGATTTCAAAGCTTCTTAGGACTTTCTTTATCTTT-TTCGTTGTTTATTC
37462415 TTCTTTAATTAATTA
65 TTCTTTAATTAATTA
* *
37462430 TTGTGAAATCTTTCTTGATTTCAAAGCTTCTTAGGACTTTCTTTATCTTTTTCGTTGTTTGTTCT
1 TTGTGAAATATTTCTTGATTTCAAAGCTTCTTAGGACTTTCTTTATCTTTTTCGTTGTTTATTCT
37462495 TCTTTAATTAATTA
66 TCTTTAATTAATTA
37462509 T
1 T
37462510 GTTTGTGCCG
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
78 2 0.03
79 75 0.97
ACGTcount: A:0.20, C:0.13, G:0.11, T:0.56
Consensus pattern (79 bp):
TTGTGAAATATTTCTTGATTTCAAAGCTTCTTAGGACTTTCTTTATCTTTTTCGTTGTTTATTCT
TCTTTAATTAATTA
Found at i:37462822 original size:15 final size:15
Alignment explanation
Indices: 37462802--37462833 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
37462792 CTCTATCATT
37462802 TTCTTTCTCTTTTTC
1 TTCTTTCTCTTTTTC
*
37462817 TTCTTTTTCTTTTTC
1 TTCTTTCTCTTTTTC
37462832 TT
1 TT
37462834 AATTTTCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTCTTTCTCTTTTTC
Found at i:37469875 original size:15 final size:15
Alignment explanation
Indices: 37469855--37469886 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
37469845 CTCTATCATT
37469855 TTCTTTCTCTTTTTC
1 TTCTTTCTCTTTTTC
*
37469870 TTCTTTTTCTTTTTC
1 TTCTTTCTCTTTTTC
37469885 TT
1 TT
37469887 AATTTTCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTCTTTCTCTTTTTC
Found at i:37473447 original size:36 final size:35
Alignment explanation
Indices: 37473404--37473522 Score: 123
Period size: 36 Copynumber: 3.3 Consensus size: 35
37473394 ATAAGTATTT
* *
37473404 GTGTATTTTGGAGCGATTGACTCGTGTGAGCATCTG
1 GTGTATTTTGGAG-GATTGGCTCATGTGAGCATCTG
37473440 GTGTATTTTTGTG-GGATTGGCTCATGTGAGCATCTG
1 GTGTA-TTTTG-GAGGATTGGCTCATGTGAGCATCTG
* * * *
37473476 TTGTGTCTTGGAAGGATTGGCTCATGTGACCATCTG
1 GTGTATTTTGG-AGGATTGGCTCATGTGAGCATCTG
* *
37473512 CTGTGTTTTGG
1 GTGTATTTTGG
37473523 TTGGACTGAC
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 4 0.06
36 59 0.83
37 6 0.08
38 1 0.01
ACGTcount: A:0.14, C:0.13, G:0.33, T:0.39
Consensus pattern (35 bp):
GTGTATTTTGGAGGATTGGCTCATGTGAGCATCTG
Found at i:37475692 original size:20 final size:20
Alignment explanation
Indices: 37475669--37475722 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
37475659 AGTTTTTCCC
*
37475669 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
37475689 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
37475709 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
37475723 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:37475704 original size:30 final size:30
Alignment explanation
Indices: 37475669--37475742 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
37475659 AGTTTTTCCC
37475669 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
37475699 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
37475729 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
37475743 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:37475732 original size:20 final size:20
Alignment explanation
Indices: 37475669--37475733 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
37475659 AGTTTTTCCC
* * * *
37475669 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
37475689 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
37475708 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
37475729 AGCTC
1 AGCTC
37475734 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:37477369 original size:11 final size:12
Alignment explanation
Indices: 37477343--37477368 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37477333 AAAAGAGAAG
37477343 AAATTCAAAAAA
1 AAATTCAAAAAA
37477355 AAATTCAAAAAA
1 AAATTCAAAAAA
37477367 AA
1 AA
37477369 TCGAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (12 bp):
AAATTCAAAAAA
Found at i:37478452 original size:12 final size:12
Alignment explanation
Indices: 37478431--37478568 Score: 65
Period size: 12 Copynumber: 11.6 Consensus size: 12
37478421 AGAAAAGGAG
*
37478431 AAAGAGATTGAA
1 AAAGAAATTGAA
37478443 AAAGAAATTGAAAGA
1 AAAGAAATTG--A-A
* **
37478458 AAACAAAAAGAA
1 AAAGAAATTGAA
* **
37478470 AACGAAAAAGAA
1 AAAGAAATTGAA
*
37478482 AAAGAAATCGAA
1 AAAGAAATTGAA
* **
37478494 AAAGAGAGAGAA
1 AAAGAAATTGAA
*
37478506 AAAGAAAATGAAGA
1 AAAGAAATTG-A-A
37478520 AAAGAAAATTGAA
1 AAAG-AAATTGAA
37478533 AAAGAAATTG--
1 AAAGAAATTGAA
37478543 --AG-AA-TGAA
1 AAAGAAATTGAA
37478551 AAA-AAATTGAA
1 AAAGAAATTGAA
37478562 AAAGAAA
1 AAAGAAA
37478569 AAGCGAAAAA
Statistics
Matches: 97, Mismatches: 16, Indels: 26
0.70 0.12 0.19
Matches are distributed among these distances:
6 2 0.02
7 2 0.02
8 2 0.02
10 3 0.03
11 7 0.07
12 54 0.56
13 7 0.07
14 7 0.07
15 13 0.13
ACGTcount: A:0.70, C:0.02, G:0.19, T:0.09
Consensus pattern (12 bp):
AAAGAAATTGAA
Found at i:37478485 original size:6 final size:6
Alignment explanation
Indices: 37478453--37478571 Score: 71
Period size: 6 Copynumber: 19.7 Consensus size: 6
37478443 AAAGAAATTG
* * ** *
37478453 AAAG-A AAACAA AAAGAA AACGAA AAAGAA AAAGAA ATCGAA AAAGAG
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
* * * ** * *
37478500 AGAGAA AAAGAA AATGAAGA AAAGAA AATTGAA AAAGAA ATTGAG AATGAA
1 AAAGAA AAAGAA AAAG-A-A AAAGAA AA-AGAA AAAGAA AAAGAA AAAGAA
**
37478551 AAA-AA ATTGAA AAAGAA AAAG
1 AAAGAA AAAGAA AAAGAA AAAG
37478572 CGAAAAAAGA
Statistics
Matches: 83, Mismatches: 26, Indels: 9
0.70 0.22 0.08
Matches are distributed among these distances:
5 6 0.07
6 66 0.80
7 7 0.08
8 4 0.05
ACGTcount: A:0.71, C:0.03, G:0.18, T:0.08
Consensus pattern (6 bp):
AAAGAA
Found at i:37478557 original size:17 final size:18
Alignment explanation
Indices: 37478439--37478571 Score: 69
Period size: 18 Copynumber: 7.4 Consensus size: 18
37478429 AGAAAGAGAT
37478439 TGAAAAAGAAATTGAAAGAAA
1 TGAAAAAGAAATTG--A-AAA
** **
37478460 ACAAAAAGAAAACGAAAA
1 TGAAAAAGAAATTGAAAA
* *
37478478 AGAAAAAGAAATCGAAAA
1 TGAAAAAGAAATTGAAAA
* * * **
37478496 AGAGAGAGAAAAAGAAAA
1 TGAAAAAGAAATTGAAAA
*
37478514 TG---AAGAAA-AGAAAA
1 TGAAAAAGAAATTGAAAA
*
37478528 TTGAAAAAGAAATTGAGAA
1 -TGAAAAAGAAATTGAAAA
37478547 TGAAAAA-AAATTGAAAA
1 TGAAAAAGAAATTGAAAA
*
37478564 AGAAAAAG
1 TGAAAAAG
37478572 CGAAAAAAGA
Statistics
Matches: 90, Mismatches: 16, Indels: 15
0.74 0.13 0.12
Matches are distributed among these distances:
14 6 0.07
15 7 0.08
17 15 0.17
18 47 0.52
19 5 0.06
21 10 0.11
ACGTcount: A:0.70, C:0.02, G:0.19, T:0.09
Consensus pattern (18 bp):
TGAAAAAGAAATTGAAAA
Found at i:37480324 original size:20 final size:20
Alignment explanation
Indices: 37480267--37480325 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
37480257 TCCCAGCTAG
* * *
37480267 ATTTAGCTTACATGAGCTTA
1 ATTTAGCTTACTTTAGCTCA
37480287 ATTTAGC-T-CGTTTGAGCTCA
1 ATTTAGCTTAC-TTT-AGCTCA
37480307 ATTTAGCTTACTTTAGCTC
1 ATTTAGCTTACTTTAGCTC
37480326 GTTTGAGCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
18 1 0.03
19 2 0.06
20 24 0.75
21 4 0.12
22 1 0.03
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.42
Consensus pattern (20 bp):
ATTTAGCTTACTTTAGCTCA
Found at i:37483266 original size:29 final size:29
Alignment explanation
Indices: 37483216--37483282 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
37483206 TCGACAAATA
37483216 AAAAGGGATAGCTTGGACTATCGAA-TAAG
1 AAAAGGGATAGCTTGGACTATC-AATTAAG
* *
37483245 AAAAGGGATAGCTTTGG-TTATCAATTATG
1 AAAAGGGATAGC-TTGGACTATCAATTAAG
37483274 AAAAGGGAT
1 AAAAGGGAT
37483283 GGTGACTAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 2 0.06
29 28 0.82
30 4 0.12
ACGTcount: A:0.40, C:0.07, G:0.27, T:0.25
Consensus pattern (29 bp):
AAAAGGGATAGCTTGGACTATCAATTAAG
Found at i:37483303 original size:30 final size:30
Alignment explanation
Indices: 37483267--37483400 Score: 157
Period size: 30 Copynumber: 4.5 Consensus size: 30
37483257 TTTGGTTATC
* *
37483267 AATTATGAAAAGGGATGGTGACTAACATCA
1 AATTATGAAAAGGGATGGTGACGACCATCA
*
37483297 AATTATGAAAAGGGATGGTGACGACCATCG
1 AATTATGAAAAGGGATGGTGACGACCATCA
* * * * *
37483327 AACTATGAAAAGGGATAGT--CGGCTATCG
1 AATTATGAAAAGGGATGGTGACGACCATCA
*
37483355 AATTATG-AAAGCGGATGGTAACGACCATCA
1 AATTATGAAAAG-GGATGGTGACGACCATCA
37483385 AATTATGAAAAGGGAT
1 AATTATGAAAAGGGAT
37483401 AGCTTCAGCT
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
27 4 0.05
28 19 0.22
30 61 0.69
31 4 0.05
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.22
Consensus pattern (30 bp):
AATTATGAAAAGGGATGGTGACGACCATCA
Found at i:37483371 original size:58 final size:59
Alignment explanation
Indices: 37483297--37483430 Score: 182
Period size: 58 Copynumber: 2.3 Consensus size: 59
37483287 ACTAACATCA
* * *
37483297 AATTATGAAAAGGGATGGTGACGACCATCGAACTATGAAAAGGGATAG-TCGGCTATCG
1 AATTATGAAAAGGGATGGTAACGACCATCAAACTATGAAAAGGGATAGCTCAGCTATCG
*
37483355 AATTATG-AAAGCGGATGGTAACGACCATCAAATTATGAAAAGGGATAGCTTCAGCTATCG
1 AATTATGAAAAG-GGATGGTAACGACCATCAAACTATGAAAAGGGATAGC-TCAGCTATCG
* *
37483415 AACTATCAAAAGGGAT
1 AATTATGAAAAGGGAT
37483431 AACTTTGGTT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
57 4 0.06
58 40 0.61
60 18 0.27
61 4 0.06
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (59 bp):
AATTATGAAAAGGGATGGTAACGACCATCAAACTATGAAAAGGGATAGCTCAGCTATCG
Found at i:37483415 original size:88 final size:88
Alignment explanation
Indices: 37483216--37483431 Score: 253
Period size: 88 Copynumber: 2.5 Consensus size: 88
37483206 TCGACAAATA
* * * *
37483216 AAAAGGGATAGCTTGGACTATCGAA-TAAGAAAAGGGATAGCTTTGGTTATCAATTATGAAAAGG
1 AAAAGGGATAGCTTAGACTATCGAACTATGAAAAGGGATAGC-TCGGCTATCAATTATGAAAAGG
* *
37483280 GATGGTGACTAACATCAAATTATG
65 GATGGTAACGAACATCAAATTATG
* * *
37483304 AAAAGGGAT-GGTGACGACCATCGAACTATGAAAAGGGATAG-TCGGCTATCGAATTATG-AAAG
1 AAAAGGGATAGCTTA-GACTATCGAACTATGAAAAGGGATAGCTCGGCTATC-AATTATGAAAAG
*
37483366 CGGATGGTAACGACCATCAAATTATG
64 -GGATGGTAACGAACATCAAATTATG
*
37483392 AAAAGGGATAGCTTCAG-CTATCGAACTATCAAAAGGGATA
1 AAAAGGGATAGCTT-AGACTATCGAACTATGAAAAGGGATA
37483432 ACTTTGGTTA
Statistics
Matches: 108, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
87 13 0.12
88 77 0.71
89 17 0.16
90 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.23
Consensus pattern (88 bp):
AAAAGGGATAGCTTAGACTATCGAACTATGAAAAGGGATAGCTCGGCTATCAATTATGAAAAGGG
ATGGTAACGAACATCAAATTATG
Found at i:37484206 original size:15 final size:15
Alignment explanation
Indices: 37484186--37484215 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
37484176 TTAGTCATTT
37484186 GGCCAAATTGAATAC
1 GGCCAAATTGAATAC
37484201 GGCCAAATTGAATAC
1 GGCCAAATTGAATAC
37484216 ATGGTTAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (15 bp):
GGCCAAATTGAATAC
Found at i:37485861 original size:29 final size:28
Alignment explanation
Indices: 37485825--37485902 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
37485815 TCATGAGATT
*
37485825 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTT--ATAGTACA
*
37485855 -GCACTAAGTGTGCGAGTTTATAGTACA
1 GGCACTAAGTGTGCGGGTTTATAGTACA
37485882 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
37485903 GATTATTAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.17
29 32 0.76
30 3 0.07
ACGTcount: A:0.24, C:0.14, G:0.31, T:0.31
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTATAGTACA
Found at i:37486120 original size:174 final size:174
Alignment explanation
Indices: 37485855--37486182 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
37485845 AAATTGTACA
* *
37485855 GCACTAAGTGTGCGAGTTTATAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
37485920 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
37485985 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
37486029 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
37486094 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
37486159 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
37486183 ACCTTGAGTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:37493917 original size:29 final size:28
Alignment explanation
Indices: 37493881--37493958 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
37493871 TCATGAGATT
37493881 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
37493911 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
37493938 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
37493959 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:37494176 original size:174 final size:174
Alignment explanation
Indices: 37493911--37494238 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
37493901 AAATTGTACA
*
37493911 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
37493976 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
37494041 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
37494085 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
37494150 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
37494215 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
37494239 ACCTTGAGTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:37501983 original size:29 final size:28
Alignment explanation
Indices: 37501947--37502024 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
37501937 TCATGAGATT
37501947 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
37501977 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
37502004 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
37502025 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:37502246 original size:173 final size:173
Alignment explanation
Indices: 37501977--37502301 Score: 589
Period size: 173 Copynumber: 1.9 Consensus size: 173
37501967 AAATTGTACA
*
37501977 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTCGTTGATTATTAAGCACTATG
* *
37502042 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
37502107 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAA-GTAAGTGTGCGAACTTGAAATGCATG
*
37502151 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCG-CGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTCGTTGATTATTAAGCACTATG
*
37502215 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
37502280 TTTTGGACAGCGGAAAAGTAAG
131 TTTTGGACAGCGGAAAAGTAAG
37502302 GACCTTGAGT
Statistics
Matches: 146, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
172 5 0.03
173 99 0.68
174 42 0.29
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (173 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTCGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGTAAGTGTGCGAACTTGAAATGCATG
Found at i:37507827 original size:29 final size:29
Alignment explanation
Indices: 37507781--37507850 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
37507771 CTAAGTTACC
*
37507781 ATCCCTTTTCATAATCGATAATCGAAGCT
1 ATCCCTTTTCATAATCGATAACCGAAGCT
* * *
37507810 ATCCCTTTTCGTATTCGATAGCCGAAGCT
1 ATCCCTTTTCATAATCGATAACCGAAGCT
37507839 ATCCCTTTTCAT
1 ATCCCTTTTCAT
37507851 TTTTCGATGA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.24, C:0.27, G:0.11, T:0.37
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAACCGAAGCT
Found at i:37510082 original size:30 final size:30
Alignment explanation
Indices: 37510006--37510090 Score: 84
Period size: 30 Copynumber: 2.8 Consensus size: 30
37509996 ATGATGGTGA
* * *
37510006 CAGCCATCAAACTATGAAAAGGGATGGCTT
1 CAGCTATCAAATTATGAAAAGGGATAGCTT
**
37510036 C-GACTAT-TGATCTATGAAAAGGGATAGCTT
1 CAG-CTATCAAAT-TATGAAAAGGGATAGCTT
*
37510066 CAGCTATCAAATTATGAAAAAGGAT
1 CAGCTATCAAATTATGAAAAGGGAT
37510091 GGTGACACCC
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
29 2 0.05
30 38 0.88
31 3 0.07
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (30 bp):
CAGCTATCAAATTATGAAAAGGGATAGCTT
Found at i:37525452 original size:16 final size:17
Alignment explanation
Indices: 37525431--37525464 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
37525421 ATTGGAAAAA
*
37525431 TTTTGTTTTGTT-ATTT
1 TTTTGTTTCGTTAATTT
37525447 TTTTGTTTCGTTAATTT
1 TTTTGTTTCGTTAATTT
37525464 T
1 T
37525465 GTCTAACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.09, C:0.03, G:0.12, T:0.76
Consensus pattern (17 bp):
TTTTGTTTCGTTAATTT
Found at i:37531118 original size:50 final size:50
Alignment explanation
Indices: 37531042--37531186 Score: 139
Period size: 50 Copynumber: 2.9 Consensus size: 50
37531032 TATTAAGGGT
* * * *
37531042 ATGAGAAGTCCCATGTAAGACTATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAAGTCCCACGTAAGACTATGTCTAGGACATGGCATGGGCACCGAG
* * *
37531092 ATGAGAGGTCCCCCGTAAGA-TCATGTCTAGGACATGGCATGGGCACCGAT
1 ATGAGAAGTCCCACGTAAGACT-ATGTCTAGGACATGGCATGGGCACCGAG
* * * * * * * *
37531142 ATGAGAACTCTCATGTAAGACCATATCTTGGATATGGCATTGGCA
1 ATGAGAAGTCCCACGTAAGACTATGTCTAGGACATGGCATGGGCA
37531187 GTACAGGAAA
Statistics
Matches: 76, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
49 1 0.01
50 75 0.99
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
ATGAGAAGTCCCACGTAAGACTATGTCTAGGACATGGCATGGGCACCGAG
Found at i:37537036 original size:27 final size:25
Alignment explanation
Indices: 37536995--37537217 Score: 133
Period size: 27 Copynumber: 8.3 Consensus size: 25
37536985 CAGAAAGGTT
* *
37536995 GTAAGATTATCGAAATACACCCGAAGG
1 GTAAAATTAT-GAAATAC-CCCAAAGG
* * *
37537022 GTAAAACTACTGAAATACCCTTAATGG
1 GTAAAATTA-TGAAATACCC-CAAAGG
*
37537049 GTAAAATTATCGAAATACCCCCAAAAG
1 GTAAAATTAT-GAAATA-CCCCAAAGG
*
37537076 GTAAAATTATTGAAATACCCTCGATA-G
1 GTAAAATTA-TGAAATACCC-C-AAAGG
* *
37537103 ATAAAATTATCGAAATACCCCTAAAAG
1 GTAAAATTAT-GAAATACCCC-AAAGG
* ** *
37537130 GTAAAATTACTAAAATACCCTTGATGG
1 GTAAAATTA-TGAAATACCC-CAAAGG
**
37537157 GTAAAATTACCAAAATACCCCCAAAGG
1 GTAAAATTA-TGAAATA-CCCCAAAGG
* *
37537184 GTAAAATTATCAGAATACCTCCAGAGG
1 GTAAAATTATGA-AATACC-CCAAAGG
37537211 GTAAAAT
1 GTAAAAT
37537218 GACTGTTATA
Statistics
Matches: 156, Mismatches: 26, Indels: 28
0.74 0.12 0.13
Matches are distributed among these distances:
26 13 0.08
27 132 0.85
28 11 0.07
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.23
Consensus pattern (25 bp):
GTAAAATTATGAAATACCCCAAAGG
Found at i:37537090 original size:54 final size:54
Alignment explanation
Indices: 37536995--37537192 Score: 261
Period size: 54 Copynumber: 3.7 Consensus size: 54
37536985 CAGAAAGGTT
* * * * * *
37536995 GTAAGATTATCGAAATACACCCGAAGGGTAAAACTACTGAAATACCCTTAATGG
1 GTAAAATTATCGAAATACCCCCAAAAGGTAAAATTACTGAAATACCCTTGATGG
* * *
37537049 GTAAAATTATCGAAATACCCCCAAAAGGTAAAATTATTGAAATACCCTCGATAG
1 GTAAAATTATCGAAATACCCCCAAAAGGTAAAATTACTGAAATACCCTTGATGG
* * *
37537103 ATAAAATTATCGAAATACCCCTAAAAGGTAAAATTACTAAAATACCCTTGATGG
1 GTAAAATTATCGAAATACCCCCAAAAGGTAAAATTACTGAAATACCCTTGATGG
* * *
37537157 GTAAAATTACCAAAATACCCCCAAAGGGTAAAATTA
1 GTAAAATTATCGAAATACCCCCAAAAGGTAAAATTA
37537193 TCAGAATACC
Statistics
Matches: 124, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 124 1.00
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.23
Consensus pattern (54 bp):
GTAAAATTATCGAAATACCCCCAAAAGGTAAAATTACTGAAATACCCTTGATGG
Found at i:37537201 original size:108 final size:108
Alignment explanation
Indices: 37537000--37537202 Score: 293
Period size: 108 Copynumber: 1.9 Consensus size: 108
37536990 AGGTTGTAAG
* * * * *
37537000 ATTATCGAAATACACCCGAAGGGTAAAACTACTGAAATACCCTTAATGGGTAAAATTATCGAAAT
1 ATTATCGAAATACACCCAAAAGGTAAAACTACTAAAATACCCTTAATGGGTAAAATTACCAAAAT
*
37537065 ACCCCCAAAAGGTAAAATTATTGAAATACCCTCGATAGATAAA
66 ACCCCCAAAAGGTAAAATTATAGAAATACCCTCGATAGATAAA
* *
37537108 ATTATCGAAATAC-CCCTAAAAGGTAAAATTACTAAAATACCCTTGATGGGTAAAATTACCAAAA
1 ATTATCGAAATACACCC-AAAAGGTAAAACTACTAAAATACCCTTAATGGGTAAAATTACCAAAA
*
37537172 TACCCCCAAAGGGTAAAATTATCAG-AATACC
65 TACCCCCAAAAGGTAAAATTAT-AGAAATACC
37537203 TCCAGAGGGT
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 80 0.95
109 1 0.01
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.23
Consensus pattern (108 bp):
ATTATCGAAATACACCCAAAAGGTAAAACTACTAAAATACCCTTAATGGGTAAAATTACCAAAAT
ACCCCCAAAAGGTAAAATTATAGAAATACCCTCGATAGATAAA
Found at i:37537213 original size:54 final size:54
Alignment explanation
Indices: 37537047--37537217 Score: 179
Period size: 54 Copynumber: 3.2 Consensus size: 54
37537037 TACCCTTAAT
* * *
37537047 GGGTAAAATTATCGAAATACCCCCAAAAGGTAAAATTAT-TGAAATACCCTCGATA
1 GGGTAAAATTATCGAAATACCCCCAAAAGGTAAAATTATCAG-AATA-CCTCCAGA
* * * **
37537102 -GATAAAATTATCGAAATACCCCTAAAAGGTAAAATTA-CTAAAATACC-CTTGA
1 GGGTAAAATTATCGAAATACCCCCAAAAGGTAAAATTATC-AGAATACCTCCAGA
* * *
37537154 TGGGTAAAATTACCAAAATACCCCCAAAGGGTAAAATTATCAGAATACCTCCAGA
1 -GGGTAAAATTATCGAAATACCCCCAAAAGGTAAAATTATCAGAATACCTCCAGA
37537209 GGGTAAAAT
1 GGGTAAAAT
37537218 GACTGTTATA
Statistics
Matches: 95, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
52 2 0.02
53 2 0.02
54 87 0.92
55 4 0.04
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.23
Consensus pattern (54 bp):
GGGTAAAATTATCGAAATACCCCCAAAAGGTAAAATTATCAGAATACCTCCAGA
Found at i:37541725 original size:27 final size:26
Alignment explanation
Indices: 37541690--37541921 Score: 158
Period size: 27 Copynumber: 8.7 Consensus size: 26
37541680 CAAAAAGGTT
*
37541690 GTAAGATTACCGAAATATACCTGAAGG
1 GTAAAATTACCGAAATA-ACCTGAAGG
* *
37541717 GTAAAATTACCGAAATACACTTGATGG
1 GTAAAATTACCGAAATA-ACCTGAAGG
* * *
37541744 GTAAAATTATCGAAATACCCTTGATGG
1 GTAAAATTACCGAAATAACC-TGAAGG
* * * * *
37541771 GTAAAATTATCAAAATACCCTCAAAAG
1 GTAAAATTACCGAAATAACCT-GAAGG
* * * *
37541798 GTAAGATTACCGAAATACCCTTGATGA
1 GTAAAATTACCGAAATAACC-TGAAGG
** *
37541825 GTAAAATTACAAAAATACCCTTGAAGG
1 GTAAAATTACCGAAATAACC-TGAAGG
* ** *
37541852 GTAAAATTATCGAAATGCCCTCGATGG
1 GTAAAATTACCGAAATAACCT-GAAGG
* * * *
37541879 GTAAAATTACTGAAATACCCCGAAAG
1 GTAAAATTACCGAAATAACCTGAAGG
*
37541905 GTAAAATTACCAAAATA
1 GTAAAATTACCGAAATA
37541922 CCCCATAGGG
Statistics
Matches: 165, Mismatches: 36, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
26 21 0.13
27 143 0.87
28 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.24
Consensus pattern (26 bp):
GTAAAATTACCGAAATAACCTGAAGG
Found at i:37541787 original size:54 final size:53
Alignment explanation
Indices: 37541715--37541924 Score: 233
Period size: 54 Copynumber: 3.9 Consensus size: 53
37541705 TATACCTGAA
* * *
37541715 GGGTAAAATTACCGAAATACACTTGATGGGTAAAATTATCGAAATACCCTTGAT
1 GGGTAAAATTA-CAAAATACCCTTGAAGGGTAAAATTATCGAAATACCCTTGAT
** * * *
37541769 GGGTAAAATTATCAAAATACCCTCAAAAGGTAAGATTACCGAAATACCCTTGAT
1 GGGTAAAATTA-CAAAATACCCTTGAAGGGTAAAATTATCGAAATACCCTTGAT
* * *
37541823 GAGTAAAATTACAAAAATACCCTTGAAGGGTAAAATTATCGAAATGCCCTCGAT
1 GGGTAAAATTAC-AAAATACCCTTGAAGGGTAAAATTATCGAAATACCCTTGAT
* * * * *
37541877 GGGTAAAATTACTGAAATACCC-CGAAAGGTAAAATTACCAAAATACCC
1 GGGTAAAATTAC-AAAATACCCTTGAAGGGTAAAATTATCGAAATACCC
37541925 CATAGGGTAA
Statistics
Matches: 130, Mismatches: 25, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
53 22 0.17
54 108 0.83
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (53 bp):
GGGTAAAATTACAAAATACCCTTGAAGGGTAAAATTATCGAAATACCCTTGAT
Found at i:37541841 original size:81 final size:80
Alignment explanation
Indices: 37541716--37541924 Score: 251
Period size: 81 Copynumber: 2.6 Consensus size: 80
37541706 ATACCTGAAG
* * * *
37541716 GGTAAAATTACCGAAATACACTTGATGGGTAAAATTATCGAAATACCCTTGATGGGTAAAATTAT
1 GGTAAAATTACCGAAATACCCTTGATGAGTAAAATTA-CAAAATACCCTTGAAGGGTAAAATTAT
37541781 CAAAATACCCTCAAAA
65 CAAAATACCCTCAAAA
*
37541797 GGTAAGATTACCGAAATACCCTTGATGAGTAAAATTACAAAAATACCCTTGAAGGGTAAAATTAT
1 GGTAAAATTACCGAAATACCCTTGATGAGTAAAATTAC-AAAATACCCTTGAAGGGTAAAATTAT
* * * **
37541862 CGAAATGCCCTCGATG
65 CAAAATACCCTCAAAA
* * *
37541878 GGTAAAATTACTGAAATACCC-CGA-AAGGTAAAATTACCAAAATACCC
1 GGTAAAATTACCGAAATACCCTTGATGA-GTAAAATTA-CAAAATACCC
37541925 CATAGGGTAA
Statistics
Matches: 111, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
79 1 0.01
80 21 0.19
81 89 0.80
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.24
Consensus pattern (80 bp):
GGTAAAATTACCGAAATACCCTTGATGAGTAAAATTACAAAATACCCTTGAAGGGTAAAATTATC
AAAATACCCTCAAAA
Found at i:37548611 original size:18 final size:19
Alignment explanation
Indices: 37548585--37548632 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
37548575 ATTATTTTTA
* *
37548585 CATTCTTATTCTATTA-AT
1 CATTATTATTATATTATAT
37548603 CATTATTATTATATTATAT
1 CATTATTATTATATTATAT
37548622 -ATTATTATTAT
1 CATTATTATTAT
37548633 TGTACCTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 25 0.93
19 2 0.07
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (19 bp):
CATTATTATTATATTATAT
Found at i:37548900 original size:30 final size:28
Alignment explanation
Indices: 37548866--37548956 Score: 94
Period size: 30 Copynumber: 3.1 Consensus size: 28
37548856 ATTAATTTCA
37548866 ATATATGTAATTATTATTATTTGTTTATAT
1 ATATATGTAATTATTATT-TTT-TTTATAT
* *
37548896 ATATATGTAATTATCT-TTTTTATAATCTAT
1 ATATATGTAATTAT-TATTTTT-T-TTATAT
*
37548926 ATATATGTATATAATTATTTTTTTTATAT
1 ATATATGTA-ATTATTATTTTTTTTATAT
37548955 AT
1 AT
37548957 GTACATGTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
29 10 0.20
30 31 0.61
31 10 0.20
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.59
Consensus pattern (28 bp):
ATATATGTAATTATTATTTTTTTTATAT
Found at i:37548965 original size:31 final size:33
Alignment explanation
Indices: 37548903--37548983 Score: 85
Period size: 31 Copynumber: 2.5 Consensus size: 33
37548893 TATATATATG
* * *
37548903 TAATTATCTTTTTTATAATCTATATATATGTATA
1 TAATTATATTTTTT-TAATATATATACATGTATA
*
37548937 TAATTAT-TTTTTTT-ATATATGTACATGTATA
1 TAATTATATTTTTTTAATATATATACATGTATA
*
37548968 TATTTATATATTTTTT
1 TAATTATAT-TTTTTT
37548984 CTAATGAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 20 0.49
32 2 0.05
33 12 0.29
34 7 0.17
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (33 bp):
TAATTATATTTTTTTAATATATATACATGTATA
Found at i:37549339 original size:4 final size:4
Alignment explanation
Indices: 37549330--37549369 Score: 62
Period size: 4 Copynumber: 9.8 Consensus size: 4
37549320 GCATGTCATT
*
37549330 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTCA TATTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTT
37549370 CTATGCAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
4 30 0.91
5 3 0.09
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:37554277 original size:26 final size:26
Alignment explanation
Indices: 37554224--37554290 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
37554214 ATAAAATACA
**
37554224 TCTTTCCATTCATTTTTGAGCCAATAT
1 TCTTTCCATTC-TTTTTGAAACAATAT
*
37554251 T-TTTCCATTCTTTTTGAAATAATTAT
1 TCTTTCCATTCTTTTTGAAACAA-TAT
37554277 TCTTT-CATTCTTTT
1 TCTTTCCATTCTTTT
37554291 GGATTTTCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 9 0.26
26 22 0.63
27 4 0.11
ACGTcount: A:0.21, C:0.18, G:0.04, T:0.57
Consensus pattern (26 bp):
TCTTTCCATTCTTTTTGAAACAATAT
Found at i:37555144 original size:14 final size:15
Alignment explanation
Indices: 37555120--37555152 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
37555110 TCCCAAGCTG
37555120 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
37555135 GGAA-GACCTTATTT
1 GGAAGGACCTTATGT
37555149 GGAA
1 GGAA
37555153 AAGCGTCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:37556590 original size:88 final size:88
Alignment explanation
Indices: 37556439--37557148 Score: 607
Period size: 88 Copynumber: 8.2 Consensus size: 88
37556429 GAAAATATCA
* * * **
37556439 TTGAAGATAGCAGATCTTGCCTTCTTGTACCGGTAGCGAAGCAGAT--AAAAGGCACCAGCCTTG
1 TTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAAA--CACCAGCCTTG
* *
37556502 CCTCCCTGGGTTGCAGCAGATCAGG
64 CCTCCCTGGGTTGCAGCGGAGCAGG
* * *
37556527 TTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGTTCGAAAACACCAGTCTTGCC
1 TTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAAACACCAGCCTTGCC
* ** *
37556592 TCCCTAGGTTGCAGTAGAGCAGA
66 TCCCTGGGTTGCAGCGGAGCAGG
** * * * * *
37556615 CCGAAGATAGCAGATCTTGCCTTCCTGTACCGGCAGCAAAGCAGATC-AAAGAAACCAGCCTTGC
1 TTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAA-ACACCAGCCTTGC
* *
37556679 TTCCCTGGGTTGCAGTGGAGCA--
65 CTCCCTGGGTTGCAGCGGAGCAGG
* * * *
37556701 --G------GCAGATCTTACCTTCCTGTACTGATAGCGAAGCATATCG-AAACACCAGTCTTGCC
1 TTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAAACACCAGCCTTGCC
* * **
37556757 TCCCTAGGTTGCAGTGGAGCAAA
66 TCCCTGGGTTGCAGCGGAGCAGG
* * * * * *
37556780 CTGAAGATAGCAGATCTTGTCTTCCTGTACTAACAGCGAAGCAGATCGAAGACACTAGCCTTGCC
1 TTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAAACACCAGCCTTGCC
* * *
37556845 TCCCTGAGTTACAGCGGAGTAGG
66 TCCCTGGGTTGCAGCGGAGCAGG
* * * * * *
37556868 TTAAAAATAGCAGATCTTACCTTCCTGTACCGGCAGCAAAGCAGATC-AAAGACACCAGCCTTAC
1 TTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAA-ACACCAGCCTTGC
37556932 CTCCCTGGGTTGCAGCGGAGCAGG
65 CTCCCTGGGTTGCAGCGGAGCAGG
** * * * * * * *
37556956 TTGAAAATTA-CAGATCTTATCTCCCT-AAGCTG-TAGTGGAGTAGATCGAAGACACTC-GCCTT
1 TTGAAAA-TAGCAGATCTTGCCTTCCTGTA-CTGACAGCGAAGCAGATCGAAAACAC-CAGCCTT
* * *
37557017 GCCTCCCTCGATGGCAGCGGAGCAGG
63 GCCTCCCTGGGTTGCAGCGGAGCAGG
* * * *
37557043 TT-AAAGATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATTGAAGACACCAGCCTTGC
1 TTGAAA-ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAAACACCAGCCTTGC
** *
37557107 CTCCCTAAGTTGCATCGGAGCAGG
65 CTCCCTGGGTTGCAGCGGAGCAGG
37557131 TTGAAAATTA-CAGATCTT
1 TTGAAAA-TAGCAGATCTT
37557149 ATCTCCCTAA
Statistics
Matches: 501, Mismatches: 94, Indels: 54
0.77 0.14 0.08
Matches are distributed among these distances:
77 31 0.06
78 34 0.07
81 1 0.00
84 1 0.00
86 5 0.01
87 99 0.20
88 319 0.64
89 7 0.01
90 4 0.01
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.23
Consensus pattern (88 bp):
TTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAAACACCAGCCTTGCC
TCCCTGGGTTGCAGCGGAGCAGG
Found at i:37556809 original size:165 final size:166
Alignment explanation
Indices: 37556536--37556850 Score: 472
Period size: 165 Copynumber: 1.9 Consensus size: 166
37556526 GTTGAAAATA
* *
37556536 GCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGTTCGAAAACACCAGTCTTGCCTCCCTAGGT
1 GCAGATCTTACCTTCCTGTACTGACAGCGAAGCAGTTCGAAAACACCAGTCTTGCCTCCCTAGGT
* **
37556601 TGCAGTAGAGCAGACCGAAGATAGCAGATCTTGCCTTCCTGTACCGGCAGCAAAGCAGATCAAAG
66 TGCAGTAGAGCAAACCGAAGATAGCAGATCTTGCCTTCCTGTACCAACAGCAAAGCAGATCAAAG
*
37556666 AAACCAGCCTTGCTTCCCTGGGTTGCAGTGGAGCAG
131 AAACCAGCCTTGCCTCCCTGGGTTGCAGTGGAGCAG
*
37556702 GCAGATCTTACCTTCCTGTACTGATAGCGAAGCA-TATCG-AAACACCAGTCTTGCCTCCCTAGG
1 GCAGATCTTACCTTCCTGTACTGACAGCGAAGCAGT-TCGAAAACACCAGTCTTGCCTCCCTAGG
* * * * * *
37556765 TTGCAGTGGAGCAAACTGAAGATAGCAGATCTTGTCTTCCTGTACTAACAGCGAAGCAGATCGAA
65 TTGCAGTAGAGCAAACCGAAGATAGCAGATCTTGCCTTCCTGTACCAACAGCAAAGCAGATCAAA
* *
37556830 GACACTAGCCTTGCCTCCCTG
130 GAAACCAGCCTTGCCTCCCTG
37556851 AGTTACAGCG
Statistics
Matches: 133, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
165 99 0.74
166 34 0.26
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (166 bp):
GCAGATCTTACCTTCCTGTACTGACAGCGAAGCAGTTCGAAAACACCAGTCTTGCCTCCCTAGGT
TGCAGTAGAGCAAACCGAAGATAGCAGATCTTGCCTTCCTGTACCAACAGCAAAGCAGATCAAAG
AAACCAGCCTTGCCTCCCTGGGTTGCAGTGGAGCAG
Found at i:37556946 original size:253 final size:253
Alignment explanation
Indices: 37556448--37557149 Score: 759
Period size: 253 Copynumber: 2.7 Consensus size: 253
37556438 ATTGAAGATA
* * * * *
37556448 GCAGATCTTGCCTTCTTGTACCGGTAGCGAAGCAGAT-AAAAGGCACCAGCCTTGCCTCCCTGGG
1 GCAGATCTTACCTTCCTGTA-CTGTAGCGAAGCAGATCGAAA--CACCAGCCTTGCCTCCCTAGG
* * * * *
37556512 TTGCAGCAGATCAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGTTCGAA
63 TTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATCGAA
* * ** **** * *
37556577 AACACCAGTCTTGCCTCCCTAGGTTGCAGTAGAGCAGACCGAAGATAGCAGATCTTGCCTTCCTG
128 GACACCAGCCTTGCCTCCCTA-GTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTACCTTCCTG
* * *
37556642 TACCGGCAGCAAAGCAGATCAAAGAAACCAGCCTTGCTTCCCTGGGTTGCAGTGGAGCA-G-
192 TACCGGCAGCAAAGCAGATCAAAGAAACCAGCCTTACCTCCCTGGGTTGCAGCGGAGCAGGT
* *
37556702 GCAGATCTTACCTTCCTGTACTGATAGCGAAGCATATCGAAACACCAGTCTTGCCTCCCTAGGTT
1 GCAGATCTTACCTTCCTGTACTG-TAGCGAAGCAGATCGAAACACCAGCCTTGCCTCCCTAGGTT
* *** * *
37556767 GCAGTGGAGCAAACTGAAGATAGCAGATCTTGTCTTCCTGTACTAACAGCGAAGCAGATCGAAGA
65 GCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATCGAAGA
* * *
37556832 CACTAGCCTTGCCTCCCTGAGTTACAGCGGAGTAGGTTAAAAATAGCAGATCTTACCTTCCTGTA
130 CACCAGCCTTGCCTCCCT-AGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTACCTTCCTGTA
*
37556897 CCGGCAGCAAAGCAGATCAAAGACACCAGCCTTACCTCCCTGGGTTGCAGCGGAGCAGGTT
194 CCGGCAGCAAAGCAGATCAAAGAAACCAGCCTTACCTCCCTGGGTTGCAGCGGAGCAGG-T
* * * * * *
37556958 GAAAATTACAGATCTTATCTCCCT-AAGCTGTAGTGGAGTAGATCGAAGACACTC-GCCTTGCCT
1 G-------CAGATCTTACCTTCCTGTA-CTGTAGCGAAGCAGATCGAA-ACAC-CAGCCTTGCCT
* * * *
37557021 CCCTCGATGGCAGCGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCA
56 CCCTAGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCA
* * *
37557086 GATTGAAGACACCAGCCTTGCCTCCCTAAGTTGCATCGGAGCAGGTTGAAAATTA-CAGATCTTA
121 GATCGAAGACACCAGCCTTGCCTCCCT-AGTTGCAGCGGAGCAGGTT-AAAAATAGCAGATCTTA
37557150 TCTCCCTAAG
Statistics
Matches: 371, Mismatches: 60, Indels: 25
0.81 0.13 0.05
Matches are distributed among these distances:
253 180 0.49
254 32 0.09
255 3 0.01
256 1 0.00
262 14 0.04
263 134 0.36
264 7 0.02
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.23
Consensus pattern (253 bp):
GCAGATCTTACCTTCCTGTACTGTAGCGAAGCAGATCGAAACACCAGCCTTGCCTCCCTAGGTTG
CAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATCGAAGAC
ACCAGCCTTGCCTCCCTAGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTACCTTCCTGTACC
GGCAGCAAAGCAGATCAAAGAAACCAGCCTTACCTCCCTGGGTTGCAGCGGAGCAGGT
Found at i:37557005 original size:175 final size:175
Alignment explanation
Indices: 37556822--37557169 Score: 518
Period size: 175 Copynumber: 2.0 Consensus size: 175
37556812 ACAGCGAAGC
* *
37556822 AGATCGAAGACACTAGCCTTGCCTCCCT-GAGTTACAGCGGAGTAGGTTAAAAATAGCAGATCTT
1 AGATCGAAGACACTAGCCTTGCCTCCCTCGA-TGACAGCGGAGCAGGTTAAAAATAGCAGATCTT
** **
37556886 ACCTTCCTGTACCGGCAGCAAAGCAGATCAAAGACACCAGCCTTACCTCCCTGGGTTGCAGCGGA
65 ACCTTCCTGTACCAACAGCAAAGCAGATCAAAGACACCAGCCTTACCTCCCTAAGTTGCAGCGGA
*
37556951 GCAGGTTGAAAATTACAGATCTTATCTCCCTAAGCTGTAGTGGAGT
130 GCAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGT
* * * *
37556997 AGATCGAAGACACTCGCCTTGCCTCCCTCGATGGCAGCGGAGCAGGTTAAAGATAGCAGATCTTG
1 AGATCGAAGACACTAGCCTTGCCTCCCTCGATGACAGCGGAGCAGGTTAAAAATAGCAGATCTTA
* ** ** * *
37557062 CCTTCCTGTACTAACAGTGAAGCAGATTGAAGACACCAGCCTTGCCTCCCTAAGTTGCATCGGAG
66 CCTTCCTGTACCAACAGCAAAGCAGATCAAAGACACCAGCCTTACCTCCCTAAGTTGCAGCGGAG
37557127 CAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
131 CAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
37557170 TGGAAAATCT
Statistics
Matches: 154, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
175 152 0.99
176 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.23
Consensus pattern (175 bp):
AGATCGAAGACACTAGCCTTGCCTCCCTCGATGACAGCGGAGCAGGTTAAAAATAGCAGATCTTA
CCTTCCTGTACCAACAGCAAAGCAGATCAAAGACACCAGCCTTACCTCCCTAAGTTGCAGCGGAG
CAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGT
Found at i:37558876 original size:24 final size:24
Alignment explanation
Indices: 37558814--37558877 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
37558804 AATTATCTTT
* *
37558814 TTTATA-ATCTATATATATGTATA
1 TTTATATATTTATATATATGTACA
*
37558837 TAATTAT-T-TTTTTATATATGTACA
1 T--TTATATATTTATATATATGTACA
37558861 TTTATATATTTATATAT
1 TTTATATATTTATATAT
37558878 TTTTTCTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
22 4 0.12
23 2 0.06
24 22 0.69
25 4 0.12
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (24 bp):
TTTATATATTTATATATATGTACA
Found at i:37562596 original size:11 final size:11
Alignment explanation
Indices: 37562580--37562606 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
37562570 AGCAAGAGGC
37562580 AAGTTTGTTAG
1 AAGTTTGTTAG
37562591 AAGTTTGTTAG
1 AAGTTTGTTAG
37562602 AAGTT
1 AAGTT
37562607 CTTCGGCGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (11 bp):
AAGTTTGTTAG
Found at i:37574415 original size:14 final size:14
Alignment explanation
Indices: 37574398--37574426 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
37574388 AAATGTATGA
37574398 TCATTTTAGTATAG
1 TCATTTTAGTATAG
37574412 TCATTTTAGTATAG
1 TCATTTTAGTATAG
37574426 T
1 T
37574427 TAAATTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.52
Consensus pattern (14 bp):
TCATTTTAGTATAG
Found at i:37575511 original size:19 final size:20
Alignment explanation
Indices: 37575473--37575513 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
37575463 ACAGTTAGTG
*
37575473 GCATTTTAGGTCATTTCATTA
1 GCATTTTA-GTCATTGCATTA
37575494 GCATTTTA-TCATTGCATTA
1 GCATTTTAGTCATTGCATTA
37575513 G
1 G
37575514 GAGCTTGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
21 8 0.42
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (20 bp):
GCATTTTAGTCATTGCATTA
Done.