Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 113 of 199
Found at i:34347051 original size:2 final size:2
Alignment explanation
Indices: 34347044--34347086 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
34347034 AAATAGAATA
34347044 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34347086 A
1 A
34347087 ATAGGTGCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:34347180 original size:3 final size:3
Alignment explanation
Indices: 34347172--34347204 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
34347162 GTATATATAG
34347172 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
34347205 CTTAATAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:34351324 original size:22 final size:21
Alignment explanation
Indices: 34351272--34351325 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
34351262 TTTAAATATT
* *
34351272 TTAATATAATTTAATATAAAAA
1 TTAATATATTTTAATA-CAAAA
* *
34351294 TAAAAATATTTTAATACAAAA
1 TTAATATATTTTAATACAAAA
34351315 TTAATTATATT
1 TTAA-TATATT
34351326 AAGAATGTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TTAATATATTTTAATACAAAA
Found at i:34351581 original size:16 final size:16
Alignment explanation
Indices: 34351568--34351598 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34351558 CTGATTACGA
34351568 TTTTATTCGATTACAG
1 TTTTATTCGATTACAG
*
34351584 TTTTATTCAATTACA
1 TTTTATTCGATTACA
34351599 ACTCTATTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.13, G:0.06, T:0.52
Consensus pattern (16 bp):
TTTTATTCGATTACAG
Found at i:34355865 original size:25 final size:27
Alignment explanation
Indices: 34355834--34355891 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 27
34355824 TTAAGTTAAT
34355834 ATTATAA-T-TATATATAATTGTCTTA
1 ATTATAATTATATATATAATTGTCTTA
34355859 ATTATAATTAAATATATATAATTGTCTTA
1 ATTATAATT--ATATATATAATTGTCTTA
34355888 ATTA
1 ATTA
34355892 AGTTAATTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 7 0.24
26 1 0.03
29 21 0.72
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (27 bp):
ATTATAATTATATATATAATTGTCTTA
Found at i:34359004 original size:26 final size:26
Alignment explanation
Indices: 34358975--34359028 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
34358965 CATCCTTATG
*
34358975 TTACCCCTAGCAAAATTTTGATGATT
1 TTACCCCTAGCAAAATTTTGATCATT
* * *
34359001 TTACCTCTGGTAAAATTTTGATCATT
1 TTACCCCTAGCAAAATTTTGATCATT
34359027 TT
1 TT
34359029 GCTCTTGGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.44
Consensus pattern (26 bp):
TTACCCCTAGCAAAATTTTGATCATT
Found at i:34359037 original size:26 final size:26
Alignment explanation
Indices: 34358986--34359044 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
34358976 TACCCCTAGC
*
34358986 AAAATTTTGATGATTTTACCTCTGGT
1 AAAATTTTGATCATTTTACCTCTGGT
*
34359012 AAAATTTTGATCATTTT-GCTCTTGGT
1 AAAATTTTGATCATTTTACCTC-TGGT
34359038 AAAATTT
1 AAAATTT
34359045 CGAAAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 3 0.10
26 27 0.90
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (26 bp):
AAAATTTTGATCATTTTACCTCTGGT
Found at i:34359207 original size:6 final size:6
Alignment explanation
Indices: 34359191--34359232 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
34359181 TGCAAATGGA
* * *
34359191 TCATTT CCATTT TCATTT TCATTT CCATTT CCATTT TCATTT
1 TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT
34359233 CTAGAAACCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.17, C:0.24, G:0.00, T:0.60
Consensus pattern (6 bp):
TCATTT
Found at i:34359208 original size:12 final size:12
Alignment explanation
Indices: 34359191--34359233 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
34359181 TGCAAATGGA
34359191 TCATTTCCATTT
1 TCATTTCCATTT
*
34359203 TCATTTTCATTT
1 TCATTTCCATTT
*
34359215 CCATTTCCATTT
1 TCATTTCCATTT
34359227 TCATTTC
1 TCATTTC
34359234 TAGAAACCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:34359214 original size:18 final size:18
Alignment explanation
Indices: 34359191--34359233 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
34359181 TGCAAATGGA
*
34359191 TCATTTCCATTTTCATTT
1 TCATTTCCATTTCCATTT
34359209 TCATTTCCATTTCCATTT
1 TCATTTCCATTTCCATTT
34359227 TCATTTC
1 TCATTTC
34359234 TAGAAACCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (18 bp):
TCATTTCCATTTCCATTT
Found at i:34362677 original size:24 final size:25
Alignment explanation
Indices: 34362631--34362677 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
34362621 TGGCTCTTAT
* * *
34362631 GAGCTTTCCGTTATATGGTTCTTGC
1 GAGCTTCCCGTTATATAGCTCTTGC
34362656 GAGCTTCCCGTTA-ATAGCTCTT
1 GAGCTTCCCGTTATATAGCTCTT
34362678 TGGAACATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 7 0.37
25 12 0.63
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.40
Consensus pattern (25 bp):
GAGCTTCCCGTTATATAGCTCTTGC
Found at i:34362780 original size:25 final size:25
Alignment explanation
Indices: 34362752--34362823 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 25
34362742 CCCGTTATAT
34362752 GGCTCTTCGGAGCTTTCCGATTAAA
1 GGCTCTTCGGAGCTTTCCGATTAAA
** * *
34362777 GGCTCTTTATGAGC-TTCTTGATTAAT
1 GGCTC-TTCGGAGCTTTC-CGATTAAA
*
34362803 GGCTCTTCGGAGCTTCCCGAT
1 GGCTCTTCGGAGCTTTCCGAT
34362824 ATTGGCTTGC
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
25 17 0.47
26 19 0.53
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.36
Consensus pattern (25 bp):
GGCTCTTCGGAGCTTTCCGATTAAA
Found at i:34362866 original size:24 final size:24
Alignment explanation
Indices: 34362783--34362866 Score: 57
Period size: 24 Copynumber: 3.5 Consensus size: 24
34362773 TAAAGGCTCT
* *
34362783 TTATGAGCTTCTTGATTAATGGCTC
1 TTATGAGCTTCTCGATT-ATGGTTC
** *
34362808 TTCGGAGCTTCCCGA-TATTGGCTTGC
1 TTATGAGCTTCTCGATTA-TGG-TT-C
*
34362834 -T-TGAACTTCTCGATTATGGTTC
1 TTATGAGCTTCTCGATTATGGTTC
34362856 TTATGAGCTTC
1 TTATGAGCTTC
34362867 CCGTTATAAG
Statistics
Matches: 44, Mismatches: 9, Indels: 13
0.67 0.14 0.20
Matches are distributed among these distances:
22 1 0.02
23 4 0.09
24 23 0.52
25 15 0.34
26 1 0.02
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.42
Consensus pattern (24 bp):
TTATGAGCTTCTCGATTATGGTTC
Found at i:34370048 original size:27 final size:26
Alignment explanation
Indices: 34370002--34370066 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
34369992 TTATATGGTT
*
34370002 TTTCAGAGCTTCCCGGTTAAAGGCTC
1 TTTCAGAGCTTCCCGATTAAAGGCTC
* *
34370028 TTTCATGAGCTTCCTGATTAATGGCTC
1 TTTCA-GAGCTTCCCGATTAAAGGCTC
*
34370055 -TTCGGAGCTTCC
1 TTTCAGAGCTTCC
34370067 AAATATTGGC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 8 0.24
26 8 0.24
27 18 0.53
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.35
Consensus pattern (26 bp):
TTTCAGAGCTTCCCGATTAAAGGCTC
Found at i:34370152 original size:25 final size:24
Alignment explanation
Indices: 34370094--34370152 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
34370084 AACATCCCGA
* *
34370094 TTATGGCTCTCATGAGCTTTCAAT
1 TTATGGCTCACATGAGCTTCCAAT
* *
34370118 TACATGGCTCACATGAGCTTCCCAT
1 T-TATGGCTCACATGAGCTTCCAAT
34370143 TTATGTGCTC
1 TTATG-GCTC
34370153 GTATGAGCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 4 0.14
25 24 0.86
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.37
Consensus pattern (24 bp):
TTATGGCTCACATGAGCTTCCAAT
Found at i:34372919 original size:35 final size:37
Alignment explanation
Indices: 34372878--34372950 Score: 96
Period size: 40 Copynumber: 1.9 Consensus size: 37
34372868 AATATTTGTA
*
34372878 TGATTGCAC-GTG-CCCTGTTTGTACTTCGGTACCTC
1 TGATTGCACAGTGCCCCTGTTTGTACTTCGATACCTC
34372913 TGATTGCACATAGGTGCCCCTGTTTGTACTTCGATACC
1 TGATTGCAC--A-GTGCCCCTGTTTGTACTTCGATACC
34372951 CTTGAAATCA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
35 9 0.28
39 3 0.09
40 20 0.62
ACGTcount: A:0.15, C:0.27, G:0.22, T:0.36
Consensus pattern (37 bp):
TGATTGCACAGTGCCCCTGTTTGTACTTCGATACCTC
Found at i:34376163 original size:38 final size:38
Alignment explanation
Indices: 34376087--34376171 Score: 93
Period size: 38 Copynumber: 2.2 Consensus size: 38
34376077 CTGGATGACT
* *
34376087 AGTAGATAACCGTCGTCACAGTGTCACCTCGAATGACC
1 AGTAGATAACCATCGTCACAGTGTCACCTCGAAAGACC
* *
34376125 AGTAGATAACCATTGTCACGGTGTTGC-CCT-GAAAGACC
1 AGTAGATAACCATCGTCACAGTG-T-CACCTCGAAAGACC
*
34376163 AGAAGATAA
1 AGTAGATAA
34376172 TCGTTCCACA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
38 35 0.88
39 4 0.10
40 1 0.03
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.21
Consensus pattern (38 bp):
AGTAGATAACCATCGTCACAGTGTCACCTCGAAAGACC
Found at i:34382742 original size:35 final size:35
Alignment explanation
Indices: 34382678--34382745 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
34382668 GAATGACATG
* *
34382678 TATATCGTTTACATGGTGTTACCCTAAAGGACCTA
1 TATATCGTTTACACGGTGATACCCTAAAGGACCTA
34382713 TATATCGTTTACACGGT-AT-CGCCTCAAAGGACC
1 TATATCGTTTACACGGTGATAC-CCT-AAAGGACC
34382746 AATAGTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 1 0.03
34 4 0.14
35 24 0.83
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (35 bp):
TATATCGTTTACACGGTGATACCCTAAAGGACCTA
Found at i:34386539 original size:30 final size:30
Alignment explanation
Indices: 34386503--34386608 Score: 169
Period size: 30 Copynumber: 3.5 Consensus size: 30
34386493 TAAATTGTAT
*
34386503 AAGGTATGATATGTAATTGAAAATGATTAG
1 AAGGTATGATATGTAATTGAAAATCATTAG
*
34386533 AAGGTATGATATGTAATTGGAAATCATTAG
1 AAGGTATGATATGTAATTGAAAATCATTAG
*
34386563 AAGGTATGATATGTAATT-AGAAATTATTAG
1 AAGGTATGATATGTAATTGA-AAATCATTAG
34386593 AAGGTATGATATGTAA
1 AAGGTATGATATGTAA
34386609 CTATGAATGA
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
30 71 1.00
ACGTcount: A:0.42, C:0.01, G:0.23, T:0.34
Consensus pattern (30 bp):
AAGGTATGATATGTAATTGAAAATCATTAG
Found at i:34388048 original size:41 final size:41
Alignment explanation
Indices: 34387986--34388094 Score: 148
Period size: 41 Copynumber: 2.7 Consensus size: 41
34387976 TTTAACATAT
*
34387986 TCACCGGCACTTAGCCTGCTAGGCTTATAGCATGATTCCA-A
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACATGATT-CAGA
* * *
34388027 TCACTGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACATGATTCAGA
* *
34388068 TCACCGGTACTTAGCCTGCTAGACTTA
1 TCACCGGCACTTAGCCTGCTAGGCTTA
34388095 AAGTCTGAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
40 2 0.03
41 57 0.97
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACATGATTCAGA
Found at i:34390413 original size:41 final size:41
Alignment explanation
Indices: 34390376--34390470 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
34390366 AACACCGACA
*
34390376 TTAAGCCTGCTAGACATATAGTCCGAAATTTTTCACCGGCG
1 TTAAGCCTGCTAGACATATAGTCCGAAATATTTCACCGGCG
*
34390417 TTAAGCCTGCTAGACGTATAGTCCGAAATATTTCACCGGCG
1 TTAAGCCTGCTAGACATATAGTCCGAAATATTTCACCGGCG
34390458 TTAAGCCTGCTAG
1 TTAAGCCTGCTAG
34390471 GCACAAAGCC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (41 bp):
TTAAGCCTGCTAGACATATAGTCCGAAATATTTCACCGGCG
Found at i:34392125 original size:16 final size:13
Alignment explanation
Indices: 34392112--34392140 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
34392102 TCAAACGATC
34392112 AAATTTTCACACG
1 AAATTTTCACACG
34392125 AAATTTTCACAC-
1 AAATTTTCACACG
34392137 AAAT
1 AAAT
34392141 AACTTAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.31
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:34394293 original size:14 final size:13
Alignment explanation
Indices: 34394266--34394296 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
34394256 CAGGAAAGGG
34394266 AAGGGGTAGGGAA
1 AAGGGGTAGGGAA
*
34394279 AAGGGGTAGGGGA
1 AAGGGGTAGGGAA
34394292 AAGGG
1 AAGGG
34394297 AAGGAGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.58, T:0.06
Consensus pattern (13 bp):
AAGGGGTAGGGAA
Found at i:34394322 original size:18 final size:18
Alignment explanation
Indices: 34394288--34394322 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34394278 AAAGGGGTAG
*
34394288 GGGAAAGGGAAGGAGAAA
1 GGGAAAGGGAAGAAGAAA
*
34394306 GGGAAAGGGGAGAAGAA
1 GGGAAAGGGAAGAAGAA
34394323 TGGGTCATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (18 bp):
GGGAAAGGGAAGAAGAAA
Found at i:34403624 original size:19 final size:19
Alignment explanation
Indices: 34403600--34403645 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
34403590 TAAAAAATAG
34403600 TAAAAATAGT-AAATATTATT
1 TAAAAAT-GTGAAA-ATTATT
34403620 TAAAAATGTGAAAATTATT
1 TAAAAATGTGAAAATTATT
34403639 TAAAAAT
1 TAAAAAT
34403646 AATATTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (19 bp):
TAAAAATGTGAAAATTATT
Found at i:34403682 original size:31 final size:30
Alignment explanation
Indices: 34403630--34403706 Score: 113
Period size: 30 Copynumber: 2.6 Consensus size: 30
34403620 TAAAAATGTG
*
34403630 AAAATTATTTAA-AAATAATATTTTTATTTA
1 AAAATTATTTAATAATTAATATTTTTA-TTA
*
34403660 AAAATTAATTAATAATTAATATTTTTATTA
1 AAAATTATTTAATAATTAATATTTTTATTA
34403690 AAAA-TATTTAATAATTA
1 AAAATTATTTAATAATTA
34403707 TTGTAAACTT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 12 0.28
30 18 0.42
31 13 0.30
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (30 bp):
AAAATTATTTAATAATTAATATTTTTATTA
Found at i:34403738 original size:20 final size:20
Alignment explanation
Indices: 34403600--34403762 Score: 63
Period size: 19 Copynumber: 8.2 Consensus size: 20
34403590 TAAAAAATAG
*
34403600 TAAAAA-TAGTAAATATTATT
1 TAAAAATTAATAAA-ATTATT
*
34403620 TAAAAATGT--GAAAATTATT
1 TAAAAAT-TAATAAAATTATT
***
34403639 TAAAAA-TAATATTTTTATT
1 TAAAAATTAATAAAATTATT
*
34403658 TAAAAATTAATTAATAATTA-A
1 TAAAAATTAA-TAA-AATTATT
*** * *
34403679 T-ATTTTTATTAAAAATATT
1 TAAAAATTAATAAAATTATT
* * *
34403698 TAATAATTATTGTAAACTTATT
1 TAAAAATTA--ATAAAATTATT
34403720 TAAAAATTAATAAAATTA-T
1 TAAAAATTAATAAAATTATT
*
34403739 TAAAAAGTT-GTAAAAGTTATT
1 TAAAAA-TTAATAAAA-TTATT
34403760 TAA
1 TAA
34403763 GTTATAAAAA
Statistics
Matches: 105, Mismatches: 24, Indels: 27
0.67 0.15 0.17
Matches are distributed among these distances:
17 1 0.01
18 4 0.04
19 40 0.38
20 33 0.31
21 7 0.07
22 20 0.19
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.44
Consensus pattern (20 bp):
TAAAAATTAATAAAATTATT
Found at i:34403742 original size:29 final size:29
Alignment explanation
Indices: 34403653--34403742 Score: 67
Period size: 32 Copynumber: 3.0 Consensus size: 29
34403643 AATAATATTT
* * *
34403653 TTATTTAAAAATTAAT-TAATAATTAATAT
1 TTATTTAAAAATTAATAAAATTATTAA-AC
* *
34403682 TTTTATTAAAAA-TATTTAATAATTATTGTAAAC
1 TTAT-TTAAAAATTA-ATAA-AATTA-T-TAAAC
34403715 TTATTTAAAAATTAATAAAATTATTAAA
1 TTATTTAAAAATTAATAAAATTATTAAA
34403743 AAGTTGTAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 14
0.69 0.10 0.21
Matches are distributed among these distances:
29 9 0.19
30 9 0.19
31 5 0.11
32 14 0.30
33 7 0.15
34 3 0.06
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (29 bp):
TTATTTAAAAATTAATAAAATTATTAAAC
Found at i:34406097 original size:16 final size:17
Alignment explanation
Indices: 34406076--34406124 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
34406066 ACTATAGGCT
*
34406076 TTTTATATAAGTTTA-A
1 TTTTATATAAATTTATA
**
34406092 TTTTATATACTTTTATA
1 TTTTATATAAATTTATA
34406109 TTTT-TATAAATTTATA
1 TTTTATATAAATTTATA
34406125 AATTTATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 23 0.82
17 5 0.18
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (17 bp):
TTTTATATAAATTTATA
Found at i:34406146 original size:16 final size:16
Alignment explanation
Indices: 34406097--34406146 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
34406087 TTTAATTTTA
34406097 TATACTTTTATAT-TTT
1 TATA-TTTTATATATTT
* *
34406113 TATAAATTTATA-AATT
1 TAT-ATTTTATATATTT
34406129 TATATTTTATATATTT
1 TATATTTTATATATTT
34406145 TA
1 TA
34406147 AAATAATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
15 7 0.26
16 19 0.70
17 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
TATATTTTATATATTT
Found at i:34406150 original size:23 final size:24
Alignment explanation
Indices: 34406103--34406148 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
34406093 TTTATATACT
34406103 TTTATATTTTTATAAATTTATAAA
1 TTTATATTTTTATAAATTTATAAA
*
34406127 TTTATA-TTTTATATATTT-TAAA
1 TTTATATTTTTATAAATTTATAAA
34406149 ATAATAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.19
23 11 0.52
24 6 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TTTATATTTTTATAAATTTATAAA
Found at i:34407046 original size:91 final size:91
Alignment explanation
Indices: 34406883--34407059 Score: 219
Period size: 91 Copynumber: 1.9 Consensus size: 91
34406873 TGGGATGGGA
** * *
34406883 CACACGGCCGTGTAAGCAAGCTGTGCAATAGATTGATCTCATGTGGAGTTAGAGTCACAAGACTG
1 CACACGGCCGTGTAAGCAAGCCATGCAACAGATTGATCTCATGTGGAGTTAGAGTCACAAGACCG
34406948 TGCGAACAACCATGTACACTCGGGGT
66 TGCGAACAACCATGTACACTCGGGGT
* * * * * * * *
34406974 CACACGGTCGTGTAGGCAAGCCATGCAACAGATTGATGTCGTGTGGGGTTGGAGTCACATGGCCG
1 CACACGGCCGTGTAAGCAAGCCATGCAACAGATTGATCTCATGTGGAGTTAGAGTCACAAGACCG
* * *
34407039 TGTGAACAATCGTGTACACTC
66 TGCGAACAACCATGTACACTC
34407060 ACCAAGGCCG
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
91 71 1.00
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (91 bp):
CACACGGCCGTGTAAGCAAGCCATGCAACAGATTGATCTCATGTGGAGTTAGAGTCACAAGACCG
TGCGAACAACCATGTACACTCGGGGT
Found at i:34417714 original size:51 final size:51
Alignment explanation
Indices: 34417638--34417914 Score: 451
Period size: 51 Copynumber: 5.6 Consensus size: 51
34417628 TTTGAGTACT
*
34417638 TCTGATCAGTGACAAGTGACAAGTGATAAGTAGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
34417689 TCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* * *
34417740 TCTGATCAGTGACAAATAACAAGTGATAAATGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
34417791 TCTG---A-T--C-AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
34417835 TCTGATCAGTGACAAGTAACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
34417886 TCTGATCAGGGACAAGTGACAAGTGATAA
1 TCTGATCAGTGACAAGTGACAAGTGATAA
34417915 ATGTGATCTG
Statistics
Matches: 209, Mismatches: 10, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
44 38 0.18
45 1 0.00
47 2 0.01
48 2 0.01
50 1 0.00
51 165 0.79
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (51 bp):
TCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:34417825 original size:95 final size:95
Alignment explanation
Indices: 34417638--34417910 Score: 429
Period size: 95 Copynumber: 2.8 Consensus size: 95
34417628 TTTGAGTACT
* *
34417638 TCTGATCAGTGACAAGTGACAAGTGATAAGTAGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 TCTGATCAGTGACAAGTAACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG---A-T--C-
34417703 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
59 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
34417740 TCTGATCAGTGACAAATAACAAGTGATAAATGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 TCTGATCAGTGACAAGTAACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
34417805 AGTGATAAGTGGTAGCTTTAGCTACACTTA
66 AGTGATAAGTGGTAGCTTTAGCTACACTTA
*
34417835 TCTGATCAGTGACAAGTAACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGGGACA
1 TCTGATCAGTGACAAGTAACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
*
34417900 AGTGACAAGTG
66 AGTGATAAGTG
34417911 ATAAATGTGA
Statistics
Matches: 163, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
95 109 0.67
96 1 0.01
98 1 0.01
99 1 0.01
102 51 0.31
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (95 bp):
TCTGATCAGTGACAAGTAACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
AGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:34417909 original size:146 final size:146
Alignment explanation
Indices: 34417652--34417917 Score: 487
Period size: 146 Copynumber: 1.8 Consensus size: 146
34417642 ATCAGTGACA
*
34417652 AGTGACAAGTGATAAGTAGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATA
1 AGTGACAAGTGATAAGTAGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTAACAAGTGATA
*
34417717 AGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAATAACAAGTGATAAATGGTAGCTTTAG
66 AGTGGTAGCTTTAGCTACACTTATCTGATCAGGGACAAATAACAAGTGATAAATGGTAGCTTTAG
34417782 CTACACTTATCTGATC
131 CTACACTTATCTGATC
*
34417798 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTAACAAGTGATA
1 AGTGACAAGTGATAAGTAGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTAACAAGTGATA
* *
34417863 AGTGGTAGCTTTAGCTACACTTATCTGATCAGGGACAAGTGACAAGTGATAAATG
66 AGTGGTAGCTTTAGCTACACTTATCTGATCAGGGACAAATAACAAGTGATAAATG
34417918 TGATCTGTGT
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
146 115 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (146 bp):
AGTGACAAGTGATAAGTAGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTAACAAGTGATA
AGTGGTAGCTTTAGCTACACTTATCTGATCAGGGACAAATAACAAGTGATAAATGGTAGCTTTAG
CTACACTTATCTGATC
Found at i:34419375 original size:19 final size:20
Alignment explanation
Indices: 34419351--34419400 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
34419341 GATACTATTT
34419351 TATCGATATT-TTTGAAAAA-
1 TATCGATATTATTT-AAAAAG
34419370 TATCGATACTTATTTAAAAAG
1 TATCGATA-TTATTTAAAAAG
*
34419391 TATTGATATT
1 TATCGATATT
34419401 CATCTTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 8 0.30
20 9 0.33
21 10 0.37
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (20 bp):
TATCGATATTATTTAAAAAG
Found at i:34422880 original size:2 final size:2
Alignment explanation
Indices: 34422873--34422913 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
34422863 GAAAGAAATA
34422873 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
34422914 AAGAATAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:34423009 original size:18 final size:19
Alignment explanation
Indices: 34422986--34423022 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
34422976 TGTGGAAAGC
*
34422986 GTATATGTGT-TATAAAAT
1 GTATATGTATATATAAAAT
34423004 GTATATGTATATATAAAAT
1 GTATATGTATATATAAAAT
34423023 ATAAAGTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (19 bp):
GTATATGTATATATAAAAT
Found at i:34423188 original size:16 final size:15
Alignment explanation
Indices: 34423161--34423199 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
34423151 ACAACAAAAA
34423161 AAATAAAAAATAACT
1 AAATAAAAAATAACT
34423176 AAATAATAAAATAACT
1 AAATAA-AAAATAACT
34423192 AAA-AAAAA
1 AAATAAAAA
34423200 GGACTAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.13
15 8 0.35
16 12 0.52
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (15 bp):
AAATAAAAAATAACT
Found at i:34425608 original size:35 final size:35
Alignment explanation
Indices: 34425567--34425635 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
34425557 ACACTATCAT
* *
34425567 AAATATAATAAATGTTTTATTATATTAAAAATAAA
1 AAATATAAAAAATATTTTATTATATTAAAAATAAA
* *
34425602 AAATATAAAAAATATTTTATTGTATTAAATATAA
1 AAATATAAAAAATATTTTATTATATTAAAAATAA
34425636 TTTTTTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (35 bp):
AAATATAAAAAATATTTTATTATATTAAAAATAAA
Found at i:34425803 original size:18 final size:19
Alignment explanation
Indices: 34425766--34425805 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
34425756 ATAAATACAA
*
34425766 ATATATAATTATTATTTAAC
1 ATATATAATTA-TATATAAC
34425786 ATATATAATTA-ATATAAC
1 ATATATAATTATATATAAC
34425804 AT
1 AT
34425806 TTTTTATAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
20 11 0.58
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
ATATATAATTATATATAAC
Found at i:34426362 original size:3 final size:3
Alignment explanation
Indices: 34426348--34426393 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
34426338 CGAAGCAAAT
*
34426348 AAG AAA AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
34426394 CCTTTGAACT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:34431954 original size:56 final size:58
Alignment explanation
Indices: 34431859--34431982 Score: 153
Period size: 56 Copynumber: 2.1 Consensus size: 58
34431849 TTGTAATAAG
* * * * *
34431859 ATTATTATTAAATATATTTTAATAACAAATAATAAATAATTTAATCATATT-TTAACGTA
1 ATTATTATTAAATACAATTTAAT-A-AAATAATAAATAATTTAATAAAATTCTTAACATA
* *
34431918 ATTATTATTAAATACAATTTAAT-AAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAATACAATTTAATAAAATAATAAATAATTTAATAAAATTCTTAACATA
34431975 ATTATTAT
1 ATTATTAT
34431983 ATGAATTAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
56 22 0.39
57 14 0.25
59 21 0.37
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (58 bp):
ATTATTATTAAATACAATTTAATAAAATAATAAATAATTTAATAAAATTCTTAACATA
Found at i:34431997 original size:33 final size:33
Alignment explanation
Indices: 34431942--34432016 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 33
34431932 CAATTTAATA
* * *
34431942 AATAATATATAATTTAATAAAATTCTTAATATA-
1 AATATTATATAATTTAA-AAAAATCATAATATAT
*
34431975 ATTATTATATGAA-TTAAAAAAATCATAATATAT
1 AATATTATAT-AATTTAAAAAAATCATAATATAT
34432008 AATATTATA
1 AATATTATA
34432017 AAAATAATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
32 13 0.37
33 20 0.57
34 2 0.06
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (33 bp):
AATATTATATAATTTAAAAAAATCATAATATAT
Found at i:34435717 original size:93 final size:92
Alignment explanation
Indices: 34435487--34435775 Score: 553
Period size: 93 Copynumber: 3.1 Consensus size: 92
34435477 GTTTAAAAGC
34435487 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
1 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
34435552 TTACTA-TTTTTTAATATTATACATAT
66 TTACTATTTTTTTAATATTATACATAT
34435578 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
1 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
34435643 TTACTATTTTTTTTAATATTATACATAT
66 TTACTA-TTTTTTTAATATTATACATAT
34435671 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
1 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
*
34435736 TTACTATTTTTTTAATAATATACATAT
66 TTACTATTTTTTTAATATTATACATAT
34435763 ATTCATTTACGTA
1 ATTCATTTACGTA
34435776 ACACATAACT
Statistics
Matches: 195, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
91 71 0.36
92 33 0.17
93 91 0.47
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.48
Consensus pattern (92 bp):
ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
TTACTATTTTTTTAATATTATACATAT
Found at i:34435792 original size:9 final size:9
Alignment explanation
Indices: 34435778--34436171 Score: 143
Period size: 9 Copynumber: 45.7 Consensus size: 9
34435768 TTTACGTAAC
34435778 ACATAACTT
1 ACATAACTT
*
34435787 ACATAACCT
1 ACATAACTT
*
34435796 ACTTAA--T
1 ACATAACTT
*
34435803 ATATAACTT
1 ACATAACTT
*
34435812 GCATAACTT
1 ACATAACTT
* *
34435821 AAATAAGTT
1 ACATAACTT
*
34435830 ACGTAA-TAAT
1 ACATAACT--T
34435840 ACATAA--T
1 ACATAACTT
*
34435847 ACACAACTT
1 ACATAACTT
* *
34435856 ACAT-GCGT
1 ACATAACTT
*
34435864 AAATAA--T
1 ACATAACTT
* *
34435871 ACAGAGCTT
1 ACATAACTT
34435880 ACATAACTT
1 ACATAACTT
* *
34435889 ACATACCCT
1 ACATAACTT
*
34435898 ACATAAATT
1 ACATAACTT
* *
34435907 AAATAAGTT
1 ACATAACTT
34435916 ACATAA-TAAT
1 ACATAACT--T
* *
34435926 ACATACCCT
1 ACATAACTT
*
34435935 ACATAAATT
1 ACATAACTT
* *
34435944 AAATAAGTT
1 ACATAACTT
*
34435953 ACATAAATT
1 ACATAACTT
* *
34435962 AAATAAGTT
1 ACATAACTT
34435971 ACATAA-TAAT
1 ACATAACT--T
* *
34435981 ACATACCCT
1 ACATAACTT
34435990 ACATAACTT
1 ACATAACTT
*
34435999 ACATAA--G
1 ACATAACTT
34436006 ACATAACTT
1 ACATAACTT
*
34436015 TCATAA--T
1 ACATAACTT
*
34436022 ACACAACTT
1 ACATAACTT
**
34436031 ACGCAACTT
1 ACATAACTT
*
34436040 ACATAA--G
1 ACATAACTT
34436047 ACATAACTT
1 ACATAACTT
*
34436056 ACAT--GTGT
1 ACATAACT-T
*
34436064 AAATAA--T
1 ACATAACTT
**
34436071 ACATATTTT
1 ACATAACTT
34436080 ACATAACTT
1 ACATAACTT
*
34436089 ACATAA--G
1 ACATAACTT
34436096 ACATAACTT
1 ACATAACTT
*
34436105 ACATAAGTT
1 ACATAACTT
*
34436114 TCATAA--T
1 ACATAACTT
* *
34436121 ACACATCTT
1 ACATAACTT
**
34436130 ACGCAACTT
1 ACATAACTT
*
34436139 ACACAACTT
1 ACATAACTT
34436148 ACATAACTT
1 ACATAACTT
34436157 ACATAACTT
1 ACATAACTT
34436166 ACATAA
1 ACATAA
34436172 TGTATACCTT
Statistics
Matches: 281, Mismatches: 74, Indels: 60
0.68 0.18 0.14
Matches are distributed among these distances:
7 48 0.17
8 12 0.04
9 203 0.72
10 18 0.06
ACGTcount: A:0.46, C:0.19, G:0.05, T:0.30
Consensus pattern (9 bp):
ACATAACTT
Found at i:34435932 original size:37 final size:37
Alignment explanation
Indices: 34435888--34435958 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
34435878 TTACATAACT
34435888 TACATACCCTACATAAATTAAATAAGTTACATAATAA
1 TACATACCCTACATAAATTAAATAAGTTACATAATAA
34435925 TACATACCCTACATAAATTAAATAAGTTACATAA
1 TACATACCCTACATAAATTAAATAAGTTACATAA
34435959 ATTAAATAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.51, C:0.17, G:0.03, T:0.30
Consensus pattern (37 bp):
TACATACCCTACATAAATTAAATAAGTTACATAATAA
Found at i:34436005 original size:55 final size:55
Alignment explanation
Indices: 34435865--34436005 Score: 210
Period size: 55 Copynumber: 2.6 Consensus size: 55
34435855 TACATGCGTA
* * * **
34435865 AATAATACAGAGCTTACATAACTTACATACCCTACATAAATTAAATAAGTTACAT
1 AATAATACATACCCTACATAACTTACATAAGCTACATAAATTAAATAAGTTACAT
* * *
34435920 AATAATACATACCCTACATAAATTAAATAAGTTACATAAATTAAATAAGTTACAT
1 AATAATACATACCCTACATAACTTACATAAGCTACATAAATTAAATAAGTTACAT
34435975 AATAATACATACCCTACATAACTTACATAAG
1 AATAATACATACCCTACATAACTTACATAAG
34436006 ACATAACTTT
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 76 1.00
ACGTcount: A:0.50, C:0.17, G:0.04, T:0.29
Consensus pattern (55 bp):
AATAATACATACCCTACATAACTTACATAAGCTACATAAATTAAATAAGTTACAT
Found at i:34436009 original size:16 final size:16
Alignment explanation
Indices: 34435990--34436111 Score: 82
Period size: 16 Copynumber: 8.0 Consensus size: 16
34435980 TACATACCCT
34435990 ACATAACTTACATAAG
1 ACATAACTTACATAAG
* *
34436006 ACATAACTTTCATAAT
1 ACATAACTTACATAAG
*
34436022 ACACAACTTAC----G
1 ACATAACTTACATAAG
34436034 -C--AACTTACATAAG
1 ACATAACTTACATAAG
**
34436047 ACATAACTTACATGTG
1 ACATAACTTACATAAG
* **
34436063 TAAATAA--TACATATTTT
1 -ACATAACTTACATA--AG
34436080 ACATAACTTACATAAG
1 ACATAACTTACATAAG
34436096 ACATAACTTACATAAG
1 ACATAACTTACATAAG
34436112 TTTCATAATA
Statistics
Matches: 81, Mismatches: 13, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
9 7 0.09
11 1 0.01
13 1 0.01
14 1 0.01
15 5 0.06
16 54 0.67
17 6 0.07
18 6 0.07
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.30
Consensus pattern (16 bp):
ACATAACTTACATAAG
Found at i:34436038 original size:25 final size:25
Alignment explanation
Indices: 34436010--34436141 Score: 70
Period size: 25 Copynumber: 5.3 Consensus size: 25
34436000 CATAAGACAT
* *
34436010 AACTTTCATAATACACAACTTACGC
1 AACTTACATAAGACACAACTTACGC
*
34436035 AACTTACATAAGACATAACTTA--C
1 AACTTACATAAGACACAACTTACGC
** * * * ** **
34436058 ATGTGTAAATAATACATATTTTACAT
1 AACT-TACATAAGACACAACTTACGC
* **
34436084 AACTTACATAAGACATAACTTACAT
1 AACTTACATAAGACACAACTTACGC
* * * *
34436109 AAGTTTCATAATACACATCTTACGC
1 AACTTACATAAGACACAACTTACGC
34436134 AACTTACA
1 AACTTACA
34436142 CAACTTACAT
Statistics
Matches: 79, Mismatches: 25, Indels: 6
0.72 0.23 0.05
Matches are distributed among these distances:
23 3 0.04
24 14 0.18
25 60 0.76
26 2 0.03
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.31
Consensus pattern (25 bp):
AACTTACATAAGACACAACTTACGC
Found at i:34442771 original size:22 final size:22
Alignment explanation
Indices: 34442743--34442785 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
34442733 TTGCGGCGCT
*
34442743 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
34442765 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
34442786 GTTTTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:34452980 original size:63 final size:62
Alignment explanation
Indices: 34452842--34453004 Score: 175
Period size: 63 Copynumber: 2.6 Consensus size: 62
34452832 ATATCTTTGT
34452842 CCCATGTGACTCTAATTTCAAAACAGTGAGTTACACAGCCTAGACACACACTCGTGTCCCTAA
1 CCCATGTGACTCTAATTT-AAAACAGTGAGTTACACAGCCTAGACACACACTCGTGTCCCTAA
* ** * * * * **
34452905 CCCGTGCAACTCTAATTCTAAAGCAGTGAGTTACGC-GACCTGGACGCACACTCGTGTCCCTGG
1 CCCATGTGACTCTAATT-TAAAACAGTGAGTTACACAG-CCTAGACACACACTCGTGTCCCTAA
* * *
34452968 TCCATGTGACTCTAATTTTAAAATAGTGTGTTACACA
1 CCCATGTGACTCTAA-TTTAAAACAGTGAGTTACACA
34453005 ATCGTGTTGC
Statistics
Matches: 79, Mismatches: 17, Indels: 7
0.77 0.17 0.07
Matches are distributed among these distances:
62 1 0.01
63 75 0.95
64 3 0.04
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (62 bp):
CCCATGTGACTCTAATTTAAAACAGTGAGTTACACAGCCTAGACACACACTCGTGTCCCTAA
Found at i:34462919 original size:25 final size:25
Alignment explanation
Indices: 34462885--34462934 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
34462875 TTCTTAGTGT
34462885 GCTCATCTACATATATATATATATA
1 GCTCATCTACATATATATATATATA
34462910 GCTCATCTACATATATATATATATA
1 GCTCATCTACATATATATATATATA
34462935 TATATAAAAG
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:0.16, G:0.04, T:0.40
Consensus pattern (25 bp):
GCTCATCTACATATATATATATATA
Found at i:34466633 original size:34 final size:34
Alignment explanation
Indices: 34466554--34466633 Score: 106
Period size: 34 Copynumber: 2.4 Consensus size: 34
34466544 ATATCATATT
* *
34466554 AGAATGTCACATTACCAAAAACATATATCAAATC
1 AGAATGTCATATTACCAAAAACATATACCAAATC
* * *
34466588 AAAATGTCATATTCCCAAAAACATATACCAGATC
1 AGAATGTCATATTACCAAAAACATATACCAAATC
*
34466622 AGAATGCCATAT
1 AGAATGTCATAT
34466634 CAAATTAGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.47, C:0.21, G:0.07, T:0.24
Consensus pattern (34 bp):
AGAATGTCATATTACCAAAAACATATACCAAATC
Found at i:34475622 original size:22 final size:22
Alignment explanation
Indices: 34475597--34475638 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
34475587 GCTGAGATAA
*
34475597 GAGAAATGGTTGGAAAGGTTAG
1 GAGAAATGGTTAGAAAGGTTAG
34475619 GAGAAATGGTTAGAAAGGTT
1 GAGAAATGGTTAGAAAGGTT
34475639 GTCAAGTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.24
Consensus pattern (22 bp):
GAGAAATGGTTAGAAAGGTTAG
Found at i:34481528 original size:16 final size:16
Alignment explanation
Indices: 34481507--34481538 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34481497 TTTTTTGTAT
*
34481507 TTTTTAATATTAAATA
1 TTTTTAAAATTAAATA
34481523 TTTTTAAAATTAAATA
1 TTTTTAAAATTAAATA
34481539 ACATTAATAT
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTTAAAATTAAATA
Found at i:34491732 original size:25 final size:25
Alignment explanation
Indices: 34491698--34491751 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
34491688 AAAAGAAACT
* *
34491698 AAAACAAAATTAAAAAGAAAGAT-AA
1 AAAACAAAATGAAAAA-AAAAATGAA
*
34491723 AAAATAAAATGAAAAAAAAAATGAA
1 AAAACAAAATGAAAAAAAAAATGAA
34491748 AAAA
1 AAAA
34491752 AACTTAATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (25 bp):
AAAACAAAATGAAAAAAAAAATGAA
Found at i:34491737 original size:13 final size:12
Alignment explanation
Indices: 34491698--34491753 Score: 60
Period size: 12 Copynumber: 4.6 Consensus size: 12
34491688 AAAAGAAACT
* *
34491698 AAAACAAAATTA
1 AAAAAAAAATGA
*
34491710 AAAAGAAAGAT-A
1 AAAA-AAAAATGA
34491722 AAAAATAAAATGA
1 AAAAA-AAAATGA
34491735 AAAAAAAAATGA
1 AAAAAAAAATGA
34491747 AAAAAAA
1 AAAAAAA
34491754 CTTAATGGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
11 1 0.03
12 27 0.71
13 10 0.26
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (12 bp):
AAAAAAAAATGA
Found at i:34491752 original size:11 final size:10
Alignment explanation
Indices: 34491672--34491753 Score: 56
Period size: 11 Copynumber: 7.3 Consensus size: 10
34491662 TAAGTTTAAG
34491672 AAAATAAATAA
1 AAAATAAA-AA
*
34491683 AAAATAAAAG
1 AAAATAAAAA
*
34491693 AAACTAAAACA
1 AAAATAAAA-A
*
34491704 AAATTAAAAA
1 AAAATAAAAA
34491714 GAAAGATAAAAAA
1 -AAA-AT-AAAAA
34491727 TAAAATGAAAAAA
1 -AAAAT--AAAAA
34491740 AAAATGAAAAA
1 AAAAT-AAAAA
34491751 AAA
1 AAA
34491754 CTTAATGGTA
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
10 10 0.17
11 27 0.46
12 8 0.14
13 14 0.24
ACGTcount: A:0.79, C:0.02, G:0.06, T:0.12
Consensus pattern (10 bp):
AAAATAAAAA
Found at i:34491927 original size:4 final size:4
Alignment explanation
Indices: 34491914--34491943 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
34491904 AAAATATAAC
34491914 AAAT -AAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
34491944 AGGGGTAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:34492075 original size:21 final size:21
Alignment explanation
Indices: 34492049--34492091 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
34492039 TGCAATTAAA
34492049 AATTAACCCAATTTTCACATG
1 AATTAACCCAATTTTCACATG
34492070 AATTAACCCAATTTTCACATG
1 AATTAACCCAATTTTCACATG
34492091 A
1 A
34492092 CTATGTGCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.33
Consensus pattern (21 bp):
AATTAACCCAATTTTCACATG
Found at i:34495550 original size:2 final size:2
Alignment explanation
Indices: 34495543--34495584 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
34495533 AAGTAGAATA
*
34495543 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34495585 GTAAGGTGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34495756 original size:38 final size:39
Alignment explanation
Indices: 34495684--34495761 Score: 115
Period size: 38 Copynumber: 2.0 Consensus size: 39
34495674 ATAGAATTAT
34495684 ACATTTACAAAAAGTGGAAAACGTTTTTGAAATTAAAATA
1 ACATTTACAAAAAGT-GAAAACGTTTTTGAAATTAAAATA
*
34495724 ACATTTAC-AAAAGT-AAAACGTTTTTTGAAATTAGAATA
1 ACATTTACAAAAAGTGAAAACG-TTTTTGAAATTAAAATA
34495762 TATATATATA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
37 6 0.17
38 16 0.44
39 6 0.17
40 8 0.22
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.32
Consensus pattern (39 bp):
ACATTTACAAAAAGTGAAAACGTTTTTGAAATTAAAATA
Found at i:34500742 original size:20 final size:20
Alignment explanation
Indices: 34500717--34500756 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
34500707 ACATCTACAC
34500717 CTCTCCCAGTAAACTGAAAT
1 CTCTCCCAGTAAACTGAAAT
34500737 CTCTCCCAGTAAACTGAAAT
1 CTCTCCCAGTAAACTGAAAT
34500757 AGAAGGTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.30, G:0.10, T:0.25
Consensus pattern (20 bp):
CTCTCCCAGTAAACTGAAAT
Found at i:34504357 original size:14 final size:14
Alignment explanation
Indices: 34504338--34504365 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
34504328 TTCAAACACT
34504338 ACATGTTCGATAGA
1 ACATGTTCGATAGA
34504352 ACATGTTCGATAGA
1 ACATGTTCGATAGA
34504366 GGCTTGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (14 bp):
ACATGTTCGATAGA
Found at i:34505026 original size:23 final size:24
Alignment explanation
Indices: 34504987--34505034 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
34504977 TTTATTTGAT
34504987 AATATGTTTTGATATAACAAATTAA
1 AATATGTTTTGATATAA-AAATTAA
*
34505012 AATAT-TTTTGA-ATAAAAGTTAA
1 AATATGTTTTGATATAAAAATTAA
34505034 A
1 A
34505035 GTTGAAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 4 0.18
24 6 0.27
25 5 0.23
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (24 bp):
AATATGTTTTGATATAAAAATTAA
Found at i:34505162 original size:20 final size:18
Alignment explanation
Indices: 34505137--34505188 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
34505127 TCAACATTTA
34505137 AATCAAGTTAAAATGGTTTT
1 AATCAAGTTAAAAT--TTTT
*
34505157 AATCAAGTTAGAACTTTTT
1 AATCAAGTTA-AAATTTTT
34505176 AATCAAAGTTAAA
1 AATC-AAGTTAAA
34505189 TTGTCTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 10 0.34
20 16 0.55
21 3 0.10
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.37
Consensus pattern (18 bp):
AATCAAGTTAAAATTTTT
Found at i:34505197 original size:20 final size:18
Alignment explanation
Indices: 34505137--34505197 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 18
34505127 TCAACATTTA
*
34505137 AATCAAGTTAAAATGGTTTT
1 AATCAAGTT-AAATTG-TTT
34505157 AATCAAGTTAGAACTT-TTT
1 AATCAAGTTA-AA-TTGTTT
34505176 AATCAAAGTTAAATTGTCTT
1 AATC-AAGTTAAATTGT-TT
34505196 AA
1 AA
34505198 AACAAGTTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
18 2 0.06
19 11 0.31
20 21 0.60
21 1 0.03
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.39
Consensus pattern (18 bp):
AATCAAGTTAAATTGTTT
Found at i:34507900 original size:41 final size:41
Alignment explanation
Indices: 34507849--34508033 Score: 210
Period size: 41 Copynumber: 4.5 Consensus size: 41
34507839 TATATACCAT
* ** *
34507849 TAGTGGCGTTTTTCTTATAAACGCCGCAAAAGGTAAAGCAA
1 TAGTGGCGTTTTCCCCATAAACACCGCAAAAGGTAAAGCAA
*
34507890 TAGTGGCG-TTTCTCCCATAAACACCGCAAAAGATAAAGCAA
1 TAGTGGCGTTTTC-CCCATAAACACCGCAAAAGGTAAAGCAA
* ** * *
34507931 TAGTGGCGCTTTCCCCATAAATGCCGCAAAAGGTGAGGCAA
1 TAGTGGCGTTTTCCCCATAAACACCGCAAAAGGTAAAGCAA
* * * * *
34507972 TAGCGGCATTTTCCCCATAAACATCGTAAAAGGTAAGGCAA
1 TAGTGGCGTTTTCCCCATAAACACCGCAAAAGGTAAAGCAA
*
34508013 TAGCGGCGTTTTCCCCATAAA
1 TAGTGGCGTTTTCCCCATAAA
34508034 TGTCGCGAAT
Statistics
Matches: 123, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
40 3 0.02
41 116 0.94
42 4 0.03
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.23
Consensus pattern (41 bp):
TAGTGGCGTTTTCCCCATAAACACCGCAAAAGGTAAAGCAA
Found at i:34517256 original size:19 final size:18
Alignment explanation
Indices: 34517215--34517257 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
34517205 CGTCTCTTTT
34517215 TGCATTCATTTCATGCATC
1 TGCATTCATTTCATGCA-C
34517234 TGCATTACATTTCATTGCA-
1 TGCATT-CATTTCA-TGCAC
34517253 TGCAT
1 TGCAT
34517258 CAAATTTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 11 0.50
20 7 0.32
21 4 0.18
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (18 bp):
TGCATTCATTTCATGCAC
Found at i:34519528 original size:10 final size:10
Alignment explanation
Indices: 34519515--34519577 Score: 67
Period size: 10 Copynumber: 6.4 Consensus size: 10
34519505 AATTGTTAAA
34519515 AAAAAAGAAG
1 AAAAAAGAAG
34519525 -AAAAA-AAG
1 AAAAAAGAAG
34519533 AAAAAAGAAG
1 AAAAAAGAAG
* *
34519543 GAAAAAGAAA
1 AAAAAAGAAG
*
34519553 AAAAAAGAAT
1 AAAAAAGAAG
*
34519563 AAGAAAAAAAG
1 AA-AAAAGAAG
34519574 AAAA
1 AAAA
34519578 GGAGAGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
8 3 0.07
9 10 0.23
10 23 0.52
11 8 0.18
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.02
Consensus pattern (10 bp):
AAAAAAGAAG
Found at i:34519538 original size:18 final size:18
Alignment explanation
Indices: 34519515--34519575 Score: 72
Period size: 17 Copynumber: 3.5 Consensus size: 18
34519505 AATTGTTAAA
34519515 AAAAAAGAAGAAAAAAAG
1 AAAAAAGAAGAAAAAAAG
*
34519533 AAAAAAGAAG-GAAAAAG
1 AAAAAAGAAGAAAAAAAG
* * *
34519550 AAAAAAAAAGAATAAGA-
1 AAAAAAGAAGAAAAAAAG
34519567 AAAAAAGAA
1 AAAAAAGAA
34519576 AAGGAGAGGC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
17 23 0.64
18 13 0.36
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (18 bp):
AAAAAAGAAGAAAAAAAG
Found at i:34519547 original size:17 final size:17
Alignment explanation
Indices: 34519515--34519571 Score: 71
Period size: 16 Copynumber: 3.4 Consensus size: 17
34519505 AATTGTTAAA
*
34519515 AAAAAAGAAGAAAAAAAG
1 AAAAAAGAAG-GAAAAAG
34519533 AAAAAAGAAGGAAAAAG
1 AAAAAAGAAGGAAAAAG
* *
34519550 AAAAAA-AAAGAATAAG
1 AAAAAAGAAGGAAAAAG
34519566 AAAAAA
1 AAAAAA
34519572 AGAAAAGGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
16 14 0.39
17 12 0.33
18 10 0.28
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (17 bp):
AAAAAAGAAGGAAAAAG
Found at i:34519572 original size:17 final size:17
Alignment explanation
Indices: 34519513--34519572 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 17
34519503 AAAATTGTTA
34519513 AAAAAAAAGAAGAAAAA-
1 AAAAAAAA-AAGAAAAAG
34519530 AAGAAAAAAGAAGGAAAAAG
1 AA-AAAAAA-AA-GAAAAAG
*
34519550 -AAAAAAAAAGAATAAG
1 AAAAAAAAAAGAAAAAG
34519566 AAAAAAA
1 AAAAAAA
34519573 GAAAAGGAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
16 6 0.16
17 10 0.26
18 15 0.39
19 7 0.18
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (17 bp):
AAAAAAAAAAGAAAAAG
Found at i:34520919 original size:45 final size:45
Alignment explanation
Indices: 34520809--34521023 Score: 177
Period size: 44 Copynumber: 4.8 Consensus size: 45
34520799 AACAGATCAG
* * * * * *
34520809 TGAAGATAGCAGATCTTACCTTCCTGTACTAACGGTGAAGAAGA-
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGGAGCAGAC
* * * * *
34520853 TCGAAGACATCAG-CCTTGCCTTCATGTATTGACAGCGGAGCAGAC
1 T-GAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGGAGCAGAC
* ** * * *
34520898 TGAAGATAGCAGATCTTGCCTTTCTGTACTGATGGTGAAGTAGA-
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGGAGCAGAC
* * * *
34520942 TCGAAGACACCAG-CCTTGCTTTCCTGTACTGACAGCGGAGCAGAC
1 T-GAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGGAGCAGAC
* *
34520987 TGAAGATAGCAGATCATGCCTTCCTGTACTGGCAGCG
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCG
34521024 AAGTAGATCG
Statistics
Matches: 127, Mismatches: 38, Indels: 11
0.72 0.22 0.06
Matches are distributed among these distances:
44 65 0.51
45 62 0.49
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (45 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGGAGCAGAC
Found at i:34520960 original size:89 final size:89
Alignment explanation
Indices: 34520809--34521035 Score: 337
Period size: 89 Copynumber: 2.6 Consensus size: 89
34520799 AACAGATCAG
* * * *
34520809 TGAAGATAGCAGATCTTACCTTCCTGTACTAACGGTGAAGAAGATCGAAGACATCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGTAGATCGAAGACACCAGCCTTGCCT
*
34520874 TCATGTATTGACAGCGGAGCAGAC
66 TCATGTACTGACAGCGGAGCAGAC
* * *
34520898 TGAAGATAGCAGATCTTGCCTTTCTGTACTGATGGTGAAGTAGATCGAAGACACCAGCCTTGCTT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGTAGATCGAAGACACCAGCCTTGCCT
*
34520963 TCCTGTACTGACAGCGGAGCAGAC
66 TCATGTACTGACAGCGGAGCAGAC
* * * *
34520987 TGAAGATAGCAGATCATGCCTTCCTGTACTGGCAGCGAAGTAGATCGAA
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGTAGATCGAA
34521036 AAATAACGAA
Statistics
Matches: 123, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 123 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (89 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGTAGATCGAAGACACCAGCCTTGCCT
TCATGTACTGACAGCGGAGCAGAC
Found at i:34521414 original size:115 final size:115
Alignment explanation
Indices: 34521197--34521414 Score: 287
Period size: 115 Copynumber: 1.9 Consensus size: 115
34521187 AGTGGACCAA
* * * *
34521197 ACTAAAACCACGAATCTCATCCCCCTGAAGTTGCTGCGAAGAAGATTGAAGTTACAAGTCGTATC
1 ACTAAAACCACGAATCTCATCCCCCTAAAGTTGCTGCGAAGAAGATTGAAGCTACAACTCATATC
* * * *
34521262 TCTCTGAAGTGCAATAGAGTGGATTGAAGCTAGAAGACACAGTGAAGCAG
66 TCTCTGAAGTGCAATAGAGTGGATCGAAACAACAAGACACAGTGAAGCAG
* ** *
34521312 ACTAAAACCATGAATCTTGTCCCCTTAAAGTTGCTGCGAAGAAGATT-AATGCTACAACTCATAT
1 ACTAAAACCACGAATCTCATCCCCCTAAAGTTGCTGCGAAGAAGATTGAA-GCTACAACTCATAT
*
34521376 CTCTCTGAAGTG-AAGTAGAGTGTATCGAAACAACAAGAC
65 CTCTCTGAAGTGCAA-TAGAGTGGATCGAAACAACAAGAC
34521415 CCAATGGACT
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
114 4 0.05
115 84 0.95
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (115 bp):
ACTAAAACCACGAATCTCATCCCCCTAAAGTTGCTGCGAAGAAGATTGAAGCTACAACTCATATC
TCTCTGAAGTGCAATAGAGTGGATCGAAACAACAAGACACAGTGAAGCAG
Found at i:34522936 original size:32 final size:30
Alignment explanation
Indices: 34522874--34522933 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
34522864 TATCAACACT
34522874 TTTTATATTTTTAATTTTAATTTTGATTTTA
1 TTTTATATTTTTAATTTTAATTTT-ATTTTA
* *
34522905 TTTTATTTTTTATAATTTTAA-ATTATTTT
1 TTTTATATTTT-TAATTTTAATTTTATTTT
34522934 TTAATGTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 5 0.19
31 12 0.46
32 9 0.35
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.72
Consensus pattern (30 bp):
TTTTATATTTTTAATTTTAATTTTATTTTA
Found at i:34522975 original size:8 final size:8
Alignment explanation
Indices: 34522962--34523007 Score: 62
Period size: 8 Copynumber: 6.1 Consensus size: 8
34522952 CTATGTTAAA
34522962 TTATAATT
1 TTATAATT
34522970 TTATAATT
1 TTATAATT
34522978 TTAT--TT
1 TTATAATT
*
34522984 TTTTAATT
1 TTATAATT
34522992 TTATAATT
1 TTATAATT
34523000 TTA-AATT
1 TTATAATT
34523007 T
1 T
34523008 AGCTAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
6 5 0.15
7 5 0.15
8 24 0.71
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TTATAATT
Found at i:34523371 original size:6 final size:6
Alignment explanation
Indices: 34523362--34523390 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
34523352 TTTAAAAGTA
34523362 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
34523391 AAGAAGCTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:34523422 original size:13 final size:13
Alignment explanation
Indices: 34523406--34523447 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
34523396 GCTTGAAAAA
34523406 AATATTTGTAACT
1 AATATTTGTAACT
*
34523419 AATATTCGTAACT
1 AATATTTGTAACT
*
34523432 AACT-TTTGTAATT
1 AA-TATTTGTAACT
34523445 AAT
1 AAT
34523448 TAGGTTGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 1 0.04
13 23 0.92
14 1 0.04
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (13 bp):
AATATTTGTAACT
Found at i:34523832 original size:35 final size:35
Alignment explanation
Indices: 34523784--34523850 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
34523774 ATATTTAAAG
34523784 ATGATAATCATAACTTACATAAACATTTAAAGTTT
1 ATGATAATCATAACTTACATAAACATTTAAAGTTT
* * *
34523819 ATGATTATGATAACTTATATAAACATTTAAAG
1 ATGATAATCATAACTTACATAAACATTTAAAG
34523851 AATATAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.37
Consensus pattern (35 bp):
ATGATAATCATAACTTACATAAACATTTAAAGTTT
Found at i:34530057 original size:14 final size:14
Alignment explanation
Indices: 34530038--34530064 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34530028 ATGCTGCCAA
34530038 AGAACATGACCTTT
1 AGAACATGACCTTT
34530052 AGAACATGACCTT
1 AGAACATGACCTT
34530065 AAGCGGTGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (14 bp):
AGAACATGACCTTT
Found at i:34542099 original size:30 final size:30
Alignment explanation
Indices: 34542027--34542091 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
34542017 ATAATAATGA
34542027 CACACG-ACTGTGTAGGGTGGCCATGTGTGG
1 CACACGAAC-GTGTAGGGTGGCCATGTGTGG
* *
34542057 CACACGAACGTGTAGGGTGGTCGTGTGTGG
1 CACACGAACGTGTAGGGTGGCCATGTGTGG
34542087 CACAC
1 CACAC
34542092 AGCCGTGTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 30 0.94
31 2 0.06
ACGTcount: A:0.18, C:0.22, G:0.38, T:0.22
Consensus pattern (30 bp):
CACACGAACGTGTAGGGTGGCCATGTGTGG
Found at i:34547852 original size:17 final size:18
Alignment explanation
Indices: 34547830--34547868 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
34547820 TATCATTAAC
34547830 ATTAAAA-TCCTTAATAA
1 ATTAAAATTCCTTAATAA
*
34547847 ATTAAAATTCCTTAATCA
1 ATTAAAATTCCTTAATAA
34547865 ATTA
1 ATTA
34547869 TTTTTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTAAAATTCCTTAATAA
Found at i:34548487 original size:9 final size:9
Alignment explanation
Indices: 34548470--34548506 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
34548460 TGAGTTTTCG
34548470 AATTCGAAT
1 AATTCGAAT
*
34548479 AACTCGAAT
1 AATTCGAAT
34548488 AATTCGAAT
1 AATTCGAAT
34548497 AATTCGAAT
1 AATTCGAAT
34548506 A
1 A
34548507 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:34549542 original size:5 final size:5
Alignment explanation
Indices: 34549532--34549557 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
34549522 CTCGAAAATT
34549532 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
34549558 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:34559382 original size:50 final size:49
Alignment explanation
Indices: 34559308--34559409 Score: 134
Period size: 50 Copynumber: 2.1 Consensus size: 49
34559298 AACTCATATA
* * *
34559308 AGCTTACCTATTTCAGCTCGTGAGAGCTTACCAATTC-TCAGCTCGTATG
1 AGCTTACCGATTTCAGCTCATGAGAGCATACCAATTCAT-AGCTCGTATG
**
34559357 AGCTTACCGATTTTCAGCTCATGAGAGCATACTGATTCATAGCTCGTATG
1 AGCTTACCGA-TTTCAGCTCATGAGAGCATACCAATTCATAGCTCGTATG
34559407 AGC
1 AGC
34559410 ATACATGTAC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
49 9 0.20
50 36 0.78
51 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.31
Consensus pattern (49 bp):
AGCTTACCGATTTCAGCTCATGAGAGCATACCAATTCATAGCTCGTATG
Found at i:34559393 original size:25 final size:25
Alignment explanation
Indices: 34559308--34559393 Score: 95
Period size: 25 Copynumber: 3.5 Consensus size: 25
34559298 AACTCATATA
*
34559308 AGCTTACCTA-TTTCAGCTCGTGAG
1 AGCTTACCGATTTTCAGCTCGTGAG
* *
34559332 AGCTTACCAATTCTCAGCTCGT-ATG
1 AGCTTACCGATTTTCAGCTCGTGA-G
*
34559357 AGCTTACCGATTTTCAGCTCATGAG
1 AGCTTACCGATTTTCAGCTCGTGAG
* *
34559382 AGCATACTGATT
1 AGCTTACCGATT
34559394 CATAGCTCGT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
24 10 0.19
25 41 0.79
26 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (25 bp):
AGCTTACCGATTTTCAGCTCGTGAG
Found at i:34559409 original size:25 final size:25
Alignment explanation
Indices: 34559312--34559413 Score: 77
Period size: 25 Copynumber: 4.1 Consensus size: 25
34559302 CATATAAGCT
* *
34559312 TACCTATT-TCAGCTCGTGA-GAGCT
1 TACCGATTATCAGCTCGT-ATGAGCA
* * *
34559336 TACCAATTCTCAGCTCGTATGAGCT
1 TACCGATTATCAGCTCGTATGAGCA
* *
34559361 TACCGATTTTCAGCTCATGA-GAGCA
1 TACCGATTATCAGCTCGT-ATGAGCA
*
34559386 TACTGATTCAT-AGCTCGTATGAGCA
1 TACCGATT-ATCAGCTCGTATGAGCA
34559411 TAC
1 TAC
34559414 ATGTACAAGA
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
24 9 0.14
25 54 0.83
26 2 0.03
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (25 bp):
TACCGATTATCAGCTCGTATGAGCA
Found at i:34566511 original size:134 final size:134
Alignment explanation
Indices: 34566349--34567146 Score: 838
Period size: 134 Copynumber: 6.0 Consensus size: 134
34566339 GAACCTAAAC
* * *
34566349 TGTGATCGTAAATCAGCTAACTATTTGAATGGAGTTGTGATCGTAAATCAGCTAACTCAAAATAA
1 TGTGATCGTAAATCAACTAACTGTTTGAATGGAGTTGCGATCGTAAATCAGCTAACTCAAAATAA
* * * *
34566414 ATTGTTCATGATTGTAAATCAGTGAACTTAGGTTGTGCTCGTAATTCAGCGAGCCTTAATAATAT
66 ATTGTTCATGATCGTAAATCAATGAACTTAGGTTGTGATCGTAAATCAGCGAGCCTTAATAATAT
*
34566479 TAGT
131 CAGT
* * * * *
34566483 CGTGATCGTAAATCAACTAGCTGTTTGAATGGAGTTACGATCGTAAATTAGGTAACTCAAAATAA
1 TGTGATCGTAAATCAACTAACTGTTTGAATGGAGTTGCGATCGTAAATCAGCTAACTCAAAATAA
* * * * * * *
34566548 AATGTTCATGATCGTAAAGCAGTGAACTTAGGTTGTGATTGTAAAACAACGAGCCTTAATATTAT
66 ATTGTTCATGATCGTAAATCAATGAACTTAGGTTGTGATCGTAAATCAGCGAGCCTTAATAATAT
*
34566613 TAGT
131 CAGT
* * * *
34566617 TATGGTCGTAAATCAA-TGAACTGTTTGAATGGAGTTGCGATCGTAAATTAGCTAACTCAGAATA
1 TGTGATCGTAAATCAACT-AACTGTTTGAATGGAGTTGCGATCGTAAATCAGCTAACTCAAAATA
* * * *
34566681 AATCT-TTTATGATCGTAAAGT-AGA-GAAGTTAGGCTGTGATCATAAATCAGCGAGCCTTAATA
65 AAT-TGTTCATGATCGTAAA-TCA-ATGAACTTAGGTTGTGATCGTAAATCAGCGAGCCTTAATA
34566743 ATATCAGT
127 ATATCAGT
* * * * * *
34566751 TGTGATCATAAATC-ATTAAATTATTTGAATGGATTTGCGATCGTAAATCACCTAACTCAAAATA
1 TGTGATCGTAAATCAACT-AACTGTTTGAATGGAGTTGCGATCGTAAATCAGCTAACTCAAAATA
* * * * * * *
34566815 AATTGTTCAAGATCGTAAATCAATGGACTTAGGCTGTGATCGTAAATTAGTGAGGCTTAATAGTA
65 AATTGTTCATGATCGTAAATCAATGAACTTAGGTTGTGATCGTAAATCAGCGAGCCTTAATAATA
34566880 TCAGT
130 TCAGT
* * * * * * ** * * * *
34566885 TGTGATCATAAATCATCGAACAGTTTCACTGGAGTTATGATTGTAAAACAACTAACTCATAAT-A
1 TGTGATCGTAAATCAACTAACTGTTTGAATGGAGTTGCGATCGTAAATCAGCTAACTCAAAATAA
* * * *
34566949 ATTGTTCATGATCATAAATCAATGAACTTA-ATCTGTTATCGTAAATCAACGAGCCTTAATAATA
66 ATTGTTCATGATCGTAAATCAATGAACTTAGGT-TGTGATCGTAAATCAGCGAGCCTTAATAATA
*
34567013 TAAGT
130 TCAGT
* * * * * * * * *
34567018 CGTGATGGTAAACCATCGAACTGTTTGAATGGAGTTGCAATCGTTAATCGGCTAACTCAGAATAA
1 TGTGATCGTAAATCAACTAACTGTTTGAATGGAGTTGCGATCGTAAATCAGCTAACTCAAAATAA
* * *
34567083 ATTGTTCATGCA-CGTAAATCAATGAACTTAGGTTGTGATCATAAATTACCGAGCCTTAATAATA
66 ATTGTTCATG-ATCGTAAATCAATGAACTTAGGTTGTGATCGTAAATCAGCGAGCCTTAATAATA
34567147 ATGTAACACC
Statistics
Matches: 547, Mismatches: 104, Indels: 26
0.81 0.15 0.04
Matches are distributed among these distances:
133 109 0.20
134 435 0.80
135 3 0.01
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (134 bp):
TGTGATCGTAAATCAACTAACTGTTTGAATGGAGTTGCGATCGTAAATCAGCTAACTCAAAATAA
ATTGTTCATGATCGTAAATCAATGAACTTAGGTTGTGATCGTAAATCAGCGAGCCTTAATAATAT
CAGT
Found at i:34567409 original size:17 final size:17
Alignment explanation
Indices: 34567387--34567428 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
34567377 AGAACAGGGG
*
34567387 TCACACGGTAGTCTGAC
1 TCACACGGTAGTATGAC
* *
34567404 TCACACTGTCGTATGAC
1 TCACACGGTAGTATGAC
34567421 TCACACGG
1 TCACACGG
34567429 CTGAGACACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (17 bp):
TCACACGGTAGTATGAC
Found at i:34579637 original size:222 final size:222
Alignment explanation
Indices: 34579242--34580351 Score: 2058
Period size: 222 Copynumber: 5.0 Consensus size: 222
34579232 TTAATAACAC
*
34579242 TCCGTAAATATTTAGTAAAATATTTATAACTCAGTTTATAGAAACTAGATCTCGATACCTCATTT
1 TCCGTAAATATTTAGTAAAATATTTATAGCTCAGTTTATAGAAACTAGATCTCGATACCTCATTT
34579307 TCTAACACCACTTGACTTTAGGGTAAGACTACTTAAACCTAATTATTCATTCAAATAACATAAAT
66 TCTAACACCACTTGACTTTAGGGTAAGACTACTTAAACCTAATTATTCATTCAAATAACATAAAT
34579372 TGCCAATTCAAATTTATTTTAATACCATATTTGACTCATAAATATTAAATAATATCATTTACGAA
131 TGCCAATTCAAATTTATTTTAATACCATATTTGACTCATAAATATTAAATAATATCATTTACGAA
*
34579437 CTTGCTCGTTGGATTTGTGGCCACAAA
196 CTTACTCGTTGGATTTGTGGCCACAAA
* *
34579464 TCCGTAAATATTTAGTAAAATATTTATAGCTCAGTTTATAGAAACTAGATCTCAATATCTCATTT
1 TCCGTAAATATTTAGTAAAATATTTATAGCTCAGTTTATAGAAACTAGATCTCGATACCTCATTT
*
34579529 TCTAACACCACTTGGCTTTAGGGTAAGACTACTTAAACCTAATTATTCATTCAAATAACATAAAT
66 TCTAACACCACTTGACTTTAGGGTAAGACTACTTAAACCTAATTATTCATTCAAATAACATAAAT
* * * * * *
34579594 TTCCAATTCAAATTTATTTTAATATCATATTTGCCTGATAAATATTAAATAATATCACTTAGGAA
131 TGCCAATTCAAATTTATTTTAATACCATATTTGACTCATAAATATTAAATAATATCATTTACGAA
34579659 CTTACTCGTTGGATTTGTGGCCACAAA
196 CTTACTCGTTGGATTTGTGGCCACAAA
*
34579686 TCCGTAAATATTTAGTAAAATATTTATAGCTCGGTTTATAGAAACTAGATCTCGATACCTCATTT
1 TCCGTAAATATTTAGTAAAATATTTATAGCTCAGTTTATAGAAACTAGATCTCGATACCTCATTT
*
34579751 TCTAACACCACTTGACTTTAGGGTAAGACTACTTAAACCTAATTATTCATTCAAAAAACATAAAT
66 TCTAACACCACTTGACTTTAGGGTAAGACTACTTAAACCTAATTATTCATTCAAATAACATAAAT
34579816 TGCCAATTCAAATTTATTTTAATACCATATTTGACTCATAAATATTAAATAATATCATTTACGAA
131 TGCCAATTCAAATTTATTTTAATACCATATTTGACTCATAAATATTAAATAATATCATTTACGAA
34579881 CTTACTCGTTGGATTTGTGGCCACAAA
196 CTTACTCGTTGGATTTGTGGCCACAAA
*
34579908 TCCGTAAATATTTAATAAAATATTTATAGCTCAGTTTATAGAAACTAGATCTCGATACCTCATTT
1 TCCGTAAATATTTAGTAAAATATTTATAGCTCAGTTTATAGAAACTAGATCTCGATACCTCATTT
*
34579973 TCTAACACCACTTGACTTTAGGGTAAGACTACTTAAACCTAATTATTCATTCAAATGACATAAAT
66 TCTAACACCACTTGACTTTAGGGTAAGACTACTTAAACCTAATTATTCATTCAAATAACATAAAT
*
34580038 TGCCAATTCAAATTTATTTTAATACCATATTTGACTCATAAATATTAAATAATATCATTTACAAA
131 TGCCAATTCAAATTTATTTTAATACCATATTTGACTCATAAATATTAAATAATATCATTTACGAA
34580103 CTTACTCGTTGGATTTGTGGCCACAAA
196 CTTACTCGTTGGATTTGTGGCCACAAA
*
34580130 TCCGTAAATATTTAGTAAAATATTTATAGCTCAGTTTATAGAAACTAGATATCGATACCTCATTT
1 TCCGTAAATATTTAGTAAAATATTTATAGCTCAGTTTATAGAAACTAGATCTCGATACCTCATTT
34580195 TCTAACACCACTTGACTTTAGGGTAAGACTACTTAAACCTAATTATTCATTCAAATAACATAAAT
66 TCTAACACCACTTGACTTTAGGGTAAGACTACTTAAACCTAATTATTCATTCAAATAACATAAAT
*
34580260 TGCCAATTCAAATTTATTTTAATACCATATTTGAATCATAAATATTAAATAATATCATTTACGAA
131 TGCCAATTCAAATTTATTTTAATACCATATTTGACTCATAAATATTAAATAATATCATTTACGAA
34580325 CTTACTCGTTGGATTTGTGGCCACAAA
196 CTTACTCGTTGGATTTGTGGCCACAAA
34580352 ACCACTATTT
Statistics
Matches: 856, Mismatches: 32, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
222 856 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (222 bp):
TCCGTAAATATTTAGTAAAATATTTATAGCTCAGTTTATAGAAACTAGATCTCGATACCTCATTT
TCTAACACCACTTGACTTTAGGGTAAGACTACTTAAACCTAATTATTCATTCAAATAACATAAAT
TGCCAATTCAAATTTATTTTAATACCATATTTGACTCATAAATATTAAATAATATCATTTACGAA
CTTACTCGTTGGATTTGTGGCCACAAA
Found at i:34582579 original size:22 final size:22
Alignment explanation
Indices: 34582554--34582597 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
34582544 TTAAGTATAT
*
34582554 AAGAACTA-TATTTAATCTAAAC
1 AAGAACTAGT-TTTAAACTAAAC
*
34582576 AAGAAGTAGTTTTAAACTAAAC
1 AAGAACTAGTTTTAAACTAAAC
34582598 TTTCTTGCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (22 bp):
AAGAACTAGTTTTAAACTAAAC
Found at i:34588937 original size:36 final size:35
Alignment explanation
Indices: 34588890--34588958 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 35
34588880 GGTAAACTCT
*
34588890 ATTCAATTTAGCAACCTTTTGGATCTATTCTGACTG
1 ATTCAATTTAGCAACCTTTCGGA-CTATTCTGACTG
*
34588926 ATTCATTTTAGCAACCTTTCGGACTATTCTGAC
1 ATTCAATTTAGCAACCTTTCGGACTATTCTGAC
34588959 AGATGCGCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 10 0.32
36 21 0.68
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.41
Consensus pattern (35 bp):
ATTCAATTTAGCAACCTTTCGGACTATTCTGACTG
Found at i:34590618 original size:18 final size:18
Alignment explanation
Indices: 34590595--34590630 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
34590585 TTAGGTTTCC
*
34590595 AAAAATGGAAATGGAAAT
1 AAAAATGAAAATGGAAAT
*
34590613 AAAAATGAAAATTGAAAT
1 AAAAATGAAAATGGAAAT
34590631 TATCTATTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.17, T:0.19
Consensus pattern (18 bp):
AAAAATGAAAATGGAAAT
Found at i:34600306 original size:25 final size:25
Alignment explanation
Indices: 34600271--34600341 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
34600261 ACACACCACA
*
34600271 GCTCTCTTGAGCTTCCCGATACTTG
1 GCTCTCATGAGCTTCCCGATACTTG
* *
34600296 GCTCTCATGAGCTTCTCGATATTTG
1 GCTCTCATGAGCTTCCCGATACTTG
* *
34600321 GCTCACAAGAGCTTCCCGATA
1 GCTCTCATGAGCTTCCCGATA
34600342 TACAGCTTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.18, C:0.30, G:0.20, T:0.32
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCCGATACTTG
Found at i:34606688 original size:22 final size:23
Alignment explanation
Indices: 34606599--34606712 Score: 97
Period size: 23 Copynumber: 4.8 Consensus size: 23
34606589 CAACTCGTAT
*
34606599 GAGCTTACCGATATATCAGCTCGTAA
1 GAGCTTACCG-T-T-TCAGCTCGTTA
* * * * *
34606625 GAGCCTACTGTTTTCAACTCATTG
1 GAGCTTACCG-TTTCAGCTCGTTA
34606649 GAGCTTACCGTTTCAGCTCGTGT-
1 GAGCTTACCGTTTCAGCTCGT-TA
*
34606672 GAGCTTACTG-TTCAGCTCGTTA
1 GAGCTTACCGTTTCAGCTCGTTA
*
34606694 GAGCTTACCATTTCAGCTC
1 GAGCTTACCGTTTCAGCTC
34606713 AATAGAGCCT
Statistics
Matches: 71, Mismatches: 14, Indels: 9
0.76 0.15 0.10
Matches are distributed among these distances:
21 1 0.01
22 18 0.25
23 26 0.37
24 16 0.23
25 1 0.01
26 9 0.13
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.33
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCGTTA
Found at i:34606710 original size:45 final size:46
Alignment explanation
Indices: 34606599--34606729 Score: 131
Period size: 45 Copynumber: 2.8 Consensus size: 46
34606589 CAACTCGTAT
*
34606599 GAGCTTACCGATATATCAGCTCGTAAGAGCCTACTGTTTTCAACTCATTG
1 GAGCTTACC-AT-T-TCAGCTCGTAAGAGCCTACTG-TTTCAACTCATTA
* ** * * *
34606649 GAGCTTACCGTTTCAGCTCGTGTGAGCTTACTG-TTCAGCTCGTTA
1 GAGCTTACCATTTCAGCTCGTAAGAGCCTACTGTTTCAACTCATTA
*
34606694 GAGCTTACCATTTCAGCTC-AATAGAGCCTACTGTTT
1 GAGCTTACCATTTCAGCTCGTA-AGAGCCTACTGTTT
34606730 ATTAGCTCAG
Statistics
Matches: 67, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
45 36 0.54
46 2 0.03
47 18 0.27
48 1 0.01
49 1 0.01
50 9 0.13
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (46 bp):
GAGCTTACCATTTCAGCTCGTAAGAGCCTACTGTTTCAACTCATTA
Found at i:34606718 original size:23 final size:21
Alignment explanation
Indices: 34606649--34606720 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 21
34606639 CAACTCATTG
* *
34606649 GAGCTTACCGTTTCAGCTCGTGT
1 GAGCTTACC-TTTCAGCTCAT-A
*
34606672 GAGCTTA-CTGTTCAGCTCGTTA
1 GAGCTTACCT-TTCAGCTC-ATA
34606694 GAGCTTACCATTTCAGCTCAATA
1 GAGCTTACC-TTTCAGCTC-ATA
34606717 GAGC
1 GAGC
34606721 CTACTGTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
21 1 0.02
22 16 0.39
23 23 0.56
24 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.32
Consensus pattern (21 bp):
GAGCTTACCTTTCAGCTCATA
Found at i:34606942 original size:20 final size:20
Alignment explanation
Indices: 34606899--34606943 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
34606889 AGATATGTGT
** * *
34606899 TTATACAGATGAATTATTGT
1 TTATACAGATGAACCACTGG
34606919 TTATACAGATGAACCACTGG
1 TTATACAGATGAACCACTGG
34606939 TTATA
1 TTATA
34606944 TGAATGAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.38
Consensus pattern (20 bp):
TTATACAGATGAACCACTGG
Found at i:34608531 original size:7 final size:7
Alignment explanation
Indices: 34608511--34608549 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
34608501 GTTTAACATT
34608511 TATT-TA
1 TATTATA
34608517 TATCTATA
1 TAT-TATA
34608525 TATTATA
1 TATTATA
34608532 TATTATA
1 TATTATA
34608539 TATTATA
1 TATTATA
34608546 TATT
1 TATT
34608550 TTCAATTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 3 0.10
7 23 0.74
8 5 0.16
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (7 bp):
TATTATA
Found at i:34608769 original size:31 final size:31
Alignment explanation
Indices: 34608734--34608793 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
34608724 ACTAAGCACT
* * *
34608734 AATTTGGATCAAAAAGCCAATTTTAGGTATC
1 AATTTGAACCAAAAAGCCAAGTTTAGGTATC
*
34608765 AATTTGAACCAAGAAGCCAAGTTTAGGTA
1 AATTTGAACCAAAAAGCCAAGTTTAGGTA
34608794 CCTAATTAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.28
Consensus pattern (31 bp):
AATTTGAACCAAAAAGCCAAGTTTAGGTATC
Found at i:34608807 original size:31 final size:31
Alignment explanation
Indices: 34608747--34608807 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
34608737 TTGGATCAAA
* * *
34608747 AAGCCAATTTTAGGTATCAATTTGAACCAAG
1 AAGCCAAGTTTAGGTACCAATTAGAACCAAG
34608778 AAGCCAAGTTTAGGTACCTAATTAG-ACCAA
1 AAGCCAAGTTTAGGTACC-AATTAGAACCAA
34608808 AATAAACTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.26
Consensus pattern (31 bp):
AAGCCAAGTTTAGGTACCAATTAGAACCAAG
Found at i:34614995 original size:17 final size:17
Alignment explanation
Indices: 34614950--34614992 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
34614940 TTATTTAATC
*
34614950 AATTAATTTAATTAACTA
1 AATTAATTT-CTTAACTA
*
34614968 AATTAATTTCTTAATTA
1 AATTAATTTCTTAACTA
34614985 AA-TAATTT
1 AATTAATTT
34614993 TCTCAACTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 6 0.26
17 8 0.35
18 9 0.39
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTAATTTCTTAACTA
Found at i:34618341 original size:20 final size:20
Alignment explanation
Indices: 34618315--34618368 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
34618305 ACAAAAGCTT
*
34618315 TAGTAATTTTGTAAGAGAT-
1 TAGTAATTTTGTAAGAAATA
* *
34618334 TCAGTAATATTGTAATAAATA
1 T-AGTAATTTTGTAAGAAATA
34618355 TAGTAATTTTGTAA
1 TAGTAATTTTGTAA
34618369 AAAGAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 1 0.03
20 27 0.93
21 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.15, T:0.43
Consensus pattern (20 bp):
TAGTAATTTTGTAAGAAATA
Found at i:34620622 original size:1 final size:1
Alignment explanation
Indices: 34620618--34620643 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
34620608 TTTTAAACCC
34620618 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
34620644 GGAAAACAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:34623901 original size:24 final size:25
Alignment explanation
Indices: 34623849--34623902 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
34623839 TGAAAACAAC
* * * *
34623849 TTTTATTGTTTTTTTTTTTACATAT
1 TTTTATTGTTTATTTTTTAAAATAA
34623874 TTTTATT-TTTATTTTTTAAAATAA
1 TTTTATTGTTTATTTTTTAAAATAA
34623898 TTTTA
1 TTTTA
34623903 AAATTTTCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (25 bp):
TTTTATTGTTTATTTTTTAAAATAA
Found at i:34636703 original size:18 final size:18
Alignment explanation
Indices: 34636664--34636705 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
34636654 ACTAAGAATT
* *
34636664 TTATCAAATTATATATTT
1 TTATTAAATTATATATTA
34636682 TTATTAAATTATAT-TTAA
1 TTATTAAATTATATATT-A
34636700 TTATTA
1 TTATTA
34636706 TTATTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATTAAATTATATATTA
Found at i:34636720 original size:24 final size:28
Alignment explanation
Indices: 34636670--34636821 Score: 111
Period size: 27 Copynumber: 5.5 Consensus size: 28
34636660 AATTTTATCA
*
34636670 AATTATATATTTTTATTAAATTATATTT
1 AATTATATATTATTATTAAATTATATTT
34636698 AATTAT-TATTATT-TTAAATTAT-TTT
1 AATTATATATTATTATTAAATTATATTT
* * * *
34636723 --TTATAGTATTATATATTATGATTTTAGTA
1 AATTATA-TATTAT-TATTA-AATTATATTT
*
34636752 AATTCATATATTTTTATTAAATTATATTT
1 AATT-ATATATTATTATTAAATTATATTT
* * * *
34636781 AATAATA-ATTA-TGTTAAAATATGATTA
1 AATTATATATTATTATTAAATTAT-ATTT
*
34636808 AATTATTTATTATT
1 AATTATATATTATT
34636822 TATATTAATA
Statistics
Matches: 95, Mismatches: 17, Indels: 23
0.70 0.13 0.17
Matches are distributed among these distances:
23 4 0.04
25 9 0.09
26 19 0.20
27 20 0.21
28 17 0.18
29 11 0.12
30 5 0.05
31 7 0.07
32 3 0.03
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (28 bp):
AATTATATATTATTATTAAATTATATTT
Found at i:34636989 original size:16 final size:16
Alignment explanation
Indices: 34636968--34637037 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
34636958 AGAATTACCT
*
34636968 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
* * *
34636984 ATTACGCATTTATTCC
1 ATTACACCTCTATTCC
34637000 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
34637016 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
34637032 ATTACA
1 ATTACA
34637038 ACGAACCAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.26, C:0.33, G:0.03, T:0.39
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:34641499 original size:47 final size:47
Alignment explanation
Indices: 34641443--34641587 Score: 122
Period size: 47 Copynumber: 3.1 Consensus size: 47
34641433 ATAAGAACAT
* *
34641443 TTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TTTAATATTAAGAATTTTATGAAATTATATATAATTATTAAATTATA
** * *
34641490 TTTAATATTAATTA-TTT-T-AAATTGTATA-AATTCATATAAGA--AAA
1 TTTAATATTAAGAATTTTATGAAATTATATATAATT-AT-TAA-ATTATA
* * * *
34641534 TTTATTATCAAGAATTTTATGAAATTATATGTTATTATTAAATTATA
1 TTTAATATTAAGAATTTTATGAAATTATATATAATTATTAAATTATA
*
34641581 TGTAATA
1 TTTAATA
34641588 ATAATTATTT
Statistics
Matches: 73, Mismatches: 16, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 23 0.32
45 8 0.11
46 8 0.11
47 28 0.38
48 3 0.04
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (47 bp):
TTTAATATTAAGAATTTTATGAAATTATATATAATTATTAAATTATA
Found at i:34641571 original size:91 final size:91
Alignment explanation
Indices: 34641424--34641631 Score: 317
Period size: 91 Copynumber: 2.3 Consensus size: 91
34641414 TTGATTTTAG
* *
34641424 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
34641489 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
* *
34641516 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATGTTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
34641581 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* * *
34641607 CAAATTCATATTAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
34641632 GTTATAATTA
Statistics
Matches: 106, Mismatches: 10, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
91 90 0.85
92 16 0.15
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:34641606 original size:44 final size:43
Alignment explanation
Indices: 34641464--34641606 Score: 112
Period size: 44 Copynumber: 3.2 Consensus size: 43
34641454 GAATTTTATG
* *
34641464 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
34641508 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
*
34641555 AAATTATATGTTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
34641599 AAATTATA
1 AAATTATA
34641607 CAAATTCATA
Statistics
Matches: 75, Mismatches: 13, Indels: 22
0.68 0.12 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 11 0.15
46 11 0.15
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:34641916 original size:18 final size:17
Alignment explanation
Indices: 34641888--34641922 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34641878 ATTATTAAGA
*
34641888 ATTTTATTATATTATAT
1 ATTTTATTATAATATAT
34641905 ATTTTAATTATAATATAT
1 ATTTT-ATTATAATATAT
34641923 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTATAATATAT
Found at i:34641927 original size:15 final size:15
Alignment explanation
Indices: 34641898--34641943 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
34641888 ATTTTATTAT
34641898 ATTAT-ATAT-TTTA
1 ATTATAATATATTTA
34641911 ATTATAATATATTTA
1 ATTATAATATATTTA
*
34641926 ATAATAAT-TATGTTA
1 ATTATAATATAT-TTA
34641941 ATT
1 ATT
34641944 TATATTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 5 0.18
14 7 0.25
15 16 0.57
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTATAATATATTTA
Found at i:34642042 original size:16 final size:16
Alignment explanation
Indices: 34642021--34642062 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
34642011 TTATTAAATT
*
34642021 ATATATTTTAATTATA
1 ATATATTTTAATAATA
34642037 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
34642052 AT-TATGTTTAA
1 ATATAT-TTTAA
34642063 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:34642047 original size:15 final size:15
Alignment explanation
Indices: 34642012--34642053 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
34642002 TTAAGAATTT
*
34642012 TATTAAATTAT-ATA
1 TATTTAATTATAATA
34642026 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
34642040 TATTTAATAATAAT
1 TATTTAATTATAAT
34642054 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:34642297 original size:16 final size:16
Alignment explanation
Indices: 34642276--34642329 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
34642266 TTGATTTGCT
34642276 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
34642292 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
* *
34642308 GTTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
34642324 AATACA
1 ATTACA
34642330 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.26, C:0.35, G:0.04, T:0.35
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:34647746 original size:13 final size:13
Alignment explanation
Indices: 34647730--34647795 Score: 87
Period size: 13 Copynumber: 5.1 Consensus size: 13
34647720 TTTAAACCAA
34647730 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
34647743 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* *
34647756 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
*
34647769 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
*
34647782 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
34647795 A
1 A
34647796 ATAAAGAACT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 44 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Done.