Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 46 of 345
Found at i:13176862 original size:3 final size:3
Alignment explanation
Indices: 13176856--13176906 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
13176846 AGGTAAGTAG
13176856 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13176904 TAA
1 TAA
13176907 AGGTAAATAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13176951 original size:4 final size:4
Alignment explanation
Indices: 13176944--13176968 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
13176934 AAAAAAAGGT
13176944 AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA A
13176969 TAGAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:13176975 original size:12 final size:11
Alignment explanation
Indices: 13176943--13176982 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
13176933 AAAAAAAAGG
13176943 TAATAAATAAA
1 TAATAAATAAA
13176954 TAAATAAATAAA
1 T-AATAAATAAA
13176966 TAATAGAAT-AA
1 TAATA-AATAAA
13176977 TAATAA
1 TAATAA
13176983 CAATAGTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 1 0.04
11 12 0.44
12 14 0.52
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
TAATAAATAAA
Found at i:13177101 original size:12 final size:12
Alignment explanation
Indices: 13177071--13177108 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
13177061 AAAGTAAAGG
13177071 AATAATAAAT-A
1 AATAATAAATAA
13177082 AATAAATAAATAA
1 AAT-AATAAATAA
*
13177095 AATAATATATAA
1 AATAATAAATAA
13177107 AA
1 AA
13177109 AATCTATACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 3 0.12
12 17 0.71
13 4 0.17
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
AATAATAAATAA
Found at i:13178034 original size:15 final size:17
Alignment explanation
Indices: 13178016--13178049 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
13178006 AATTTTGTTG
13178016 TTTTCTT-TTTTT-GTA
1 TTTTCTTCTTTTTCGTA
13178031 TTTTCTTCTTTTTCGTA
1 TTTTCTTCTTTTTCGTA
13178048 TT
1 TT
13178050 CGCTAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 5 0.29
17 5 0.29
ACGTcount: A:0.06, C:0.12, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTTCTTCTTTTTCGTA
Found at i:13181128 original size:20 final size:20
Alignment explanation
Indices: 13181082--13181130 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
13181072 TTCCCCTTAA
*
13181082 ATTATTTTATTTATAAGAGT
1 ATTATTTTATTTATAAAAGT
* *
13181102 ATGATTTTATTTATAAAATT
1 ATTATTTTATTTATAAAAGT
13181122 ATTATTTTA
1 ATTATTTTA
13181131 ACAAATAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (20 bp):
ATTATTTTATTTATAAAAGT
Found at i:13183511 original size:2 final size:2
Alignment explanation
Indices: 13183504--13183530 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13183494 CATCTTCTTT
13183504 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
13183531 TTTTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13184827 original size:14 final size:14
Alignment explanation
Indices: 13184808--13184837 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
13184798 GTGGTTATGG
13184808 TGGGGTTATATCCA
1 TGGGGTTATATCCA
13184822 TGGGGTTATATCCA
1 TGGGGTTATATCCA
13184836 TG
1 TG
13184838 TATGTATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.13, G:0.30, T:0.37
Consensus pattern (14 bp):
TGGGGTTATATCCA
Found at i:13184963 original size:4 final size:4
Alignment explanation
Indices: 13184954--13184982 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
13184944 TCATGAACAT
13184954 TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG T
13184983 TTGCTGAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:13189132 original size:28 final size:28
Alignment explanation
Indices: 13189094--13189149 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
13189084 TATTTATTTT
13189094 CTTTTTCATTTTGCCT-TTTTTCTTCTTCC
1 CTTTTTCATTTT-CCTCTTTTTCTT-TTCC
*
13189123 CTTTTT-ATTTTCTTCTTTTTCTTTTCC
1 CTTTTTCATTTTCCTCTTTTTCTTTTCC
13189150 TACCCTAGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 6 0.24
28 13 0.52
29 6 0.24
ACGTcount: A:0.04, C:0.25, G:0.02, T:0.70
Consensus pattern (28 bp):
CTTTTTCATTTTCCTCTTTTTCTTTTCC
Found at i:13191138 original size:24 final size:23
Alignment explanation
Indices: 13191078--13191138 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
13191068 TTGAACTAAC
*
13191078 ATAATAAATAATGCAAAATATAAA
1 ATAA-AAATAATACAAAATATAAA
*
13191102 ATAAATTAA-AATACAATATATAAA
1 ATAAA--AATAATACAAAATATAAA
13191126 ACTAAAAATAATA
1 A-TAAAAATAATA
13191139 ACTATAACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
23 3 0.10
24 22 0.71
25 6 0.19
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (23 bp):
ATAAAAATAATACAAAATATAAA
Found at i:13195606 original size:39 final size:39
Alignment explanation
Indices: 13195552--13195677 Score: 216
Period size: 39 Copynumber: 3.2 Consensus size: 39
13195542 TTCAGTGATG
13195552 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
13195591 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * *
13195630 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
13195669 TATGTCCGG
1 TATATCCGG
13195678 GCTAAAGTCC
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:13195691 original size:39 final size:39
Alignment explanation
Indices: 13195552--13195715 Score: 206
Period size: 39 Copynumber: 4.2 Consensus size: 39
13195542 TTCAGTGATG
* *
13195552 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* *
13195591 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
*
13195630 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* * * * * *
13195669 TATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGGTAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTACGTGCTGGAAT
13195708 TATA-CCGG
1 TATATCCGG
13195716 GTTTAAATTC
Statistics
Matches: 113, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 9 0.08
39 104 0.92
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
Found at i:13195730 original size:78 final size:78
Alignment explanation
Indices: 13195552--13195742 Score: 201
Period size: 78 Copynumber: 2.5 Consensus size: 78
13195542 TTCAGTGATG
** * **
13195552 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAAGTCCGCAGGCTATGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
*
13195617 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* * * *
13195630 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGG
1 TATATCCGGACTTAAAGTCCGCAGGCTATGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGG
*
13195694 CT-TCGAGCTGGTAT
65 CTAT-GAGCTGGAAT
** *
13195708 TATA-CCGGGTTTAAATTCCCGCAGGCT-TGTGCTGG
1 TATATCCGGACTTAAAGT-CCGCAGGCTATGTGCTGG
13195743 TAATTGGTTT
Statistics
Matches: 96, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
77 21 0.22
78 75 0.78
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (78 bp):
TATATCCGGACTTAAAGTCCGCAGGCTATGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGAGCTGGAAT
Found at i:13195742 original size:38 final size:38
Alignment explanation
Indices: 13195570--13195747 Score: 148
Period size: 39 Copynumber: 4.6 Consensus size: 38
13195560 GACTTAGGGT
* **
13195570 CCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGT-
1 CCGCAGGCTATGTGCTGGAATTATA-CCGG-GTTAAAGTC
* *
13195609 CCGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGT-
1 CCGCAGGCTATGTGCTGGAATTATA-CCGG-GTTAAAGTC
* * * *
13195648 CCGCAGGCTACGTGCTGGAAATATGTCCGGGCTAAAGTC
1 CCGCAGGCTATGTGCTGGAATTAT-ACCGGGTTAAAGTC
* * *
13195687 CCGCAGGCT-TCGAGCTGGTATTATACCGGGTTTAAATTC
1 CCGCAGGCTAT-GTGCTGGAATTATACCGGG-TTAAAGTC
13195726 CCGCAGGCT-TGTGCTGGTAATT
1 CCGCAGGCTATGTGCTGG-AATT
13195748 GGTTTCAAGT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 16 0.14
39 102 0.86
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (38 bp):
CCGCAGGCTATGTGCTGGAATTATACCGGGTTAAAGTC
Found at i:13202212 original size:39 final size:39
Alignment explanation
Indices: 13202158--13202263 Score: 194
Period size: 39 Copynumber: 2.7 Consensus size: 39
13202148 TTCAATGATG
13202158 TATATCCGGACTTAGGGTCCGCAGGTTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGTTATGTGCTGGAAT
*
13202197 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGTTATGTGCTGGAAT
*
13202236 TATATCCGGACTTAAGGTCCGCAGGTTA
1 TATATCCGGACTTAGGGTCCGCAGGTTA
13202264 CGTTGTAACG
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 64 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGTTATGTGCTGGAAT
Found at i:13203518 original size:53 final size:53
Alignment explanation
Indices: 13203437--13203587 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
13203427 CTTACACGGT
* *
13203437 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
13203492 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
13203545 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
13203588 GCGCACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:13211033 original size:53 final size:53
Alignment explanation
Indices: 13210952--13211102 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
13210942 CTTACACGGT
* *
13210952 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
13211007 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
13211060 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
13211103 GCACTTATCA
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:13213764 original size:24 final size:25
Alignment explanation
Indices: 13213737--13213794 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
13213727 TACATTGATG
*
13213737 ATTTTAAATTG-TTTCATACTATTT
1 ATTTTAAATTGCTTTCATAATATTT
**
13213761 ATTTTAAATTGCTTTTTGTAATATTT
1 ATTTTAAATTGC-TTTCATAATATTT
13213787 ATTTTAAA
1 ATTTTAAA
13213795 CGTGTTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 11 0.38
26 18 0.62
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (25 bp):
ATTTTAAATTGCTTTCATAATATTT
Found at i:13213811 original size:27 final size:27
Alignment explanation
Indices: 13213751--13213812 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
13213741 TAAATTGTTT
* *
13213751 CATACTATTTATTTTAAATTGCTTTTTG
1 CATA-TATTTATTTTAAAGTGCTTTTTA
*
13213779 TA-ATATTTATTTTAAACGTG-TTTTTA
1 CATATATTTATTTTAAA-GTGCTTTTTA
13213805 CATATATT
1 CATATATT
13213813 ACTCATCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
26 19 0.68
27 8 0.29
28 1 0.04
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.56
Consensus pattern (27 bp):
CATATATTTATTTTAAAGTGCTTTTTA
Found at i:13218116 original size:27 final size:27
Alignment explanation
Indices: 13218064--13218117 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
13218054 TATATTATAT
**
13218064 TATATAATAATAATTTAATGTTTAATA
1 TATATAATAATAATTTAATGAATAATA
13218091 TATATAATAATAATTTAATGAATAATA
1 TATATAATAATAATTTAATGAATAATA
13218118 AAACAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (27 bp):
TATATAATAATAATTTAATGAATAATA
Found at i:13218202 original size:15 final size:15
Alignment explanation
Indices: 13218182--13218219 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
13218172 TACGAACCAG
13218182 AAAGAAAAGAAA-GAA
1 AAAGAAAA-AAATGAA
13218197 AAAGAAAAAAATGAA
1 AAAGAAAAAAATGAA
13218212 AGAAGAAA
1 A-AAGAAA
13218220 GGAGAAAGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.14
15 12 0.57
16 6 0.29
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (15 bp):
AAAGAAAAAAATGAA
Found at i:13218212 original size:19 final size:20
Alignment explanation
Indices: 13218180--13218220 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
13218170 CATACGAACC
13218180 AGAAAGAAAAGAAAGAA-AA
1 AGAAAGAAAAGAAAGAAGAA
13218199 AGAAA-AAAATGAAAGAAGAA
1 AGAAAGAAAA-GAAAGAAGAA
13218219 AG
1 AG
13218221 GAGAAAGACG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 12 0.60
20 4 0.20
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (20 bp):
AGAAAGAAAAGAAAGAAGAA
Found at i:13219207 original size:37 final size:37
Alignment explanation
Indices: 13219157--13219238 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
13219147 GTTGATGAAG
* * * *
13219157 CACTGGGTGCCAATTTACTTTGGTTTAACCTATGAGA
1 CACTGGGTACCAATTTACTTCGATTTAACCGATGAGA
13219194 CACTGGGTACCAATTTACTTCGATTTAACCGATGAGA
1 CACTGGGTACCAATTTACTTCGATTTAACCGATGAGA
13219231 CACTGGGT
1 CACTGGGT
13219239 GTCAAATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (37 bp):
CACTGGGTACCAATTTACTTCGATTTAACCGATGAGA
Found at i:13220650 original size:35 final size:35
Alignment explanation
Indices: 13220606--13220772 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
13220596 TCCTCATTGA
** *
13220606 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
13220641 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
13220681 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
13220716 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
13220751 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
13220773 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:13220689 original size:75 final size:73
Alignment explanation
Indices: 13220601--13220772 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
13220591 GGTTTTCCTC
** * * **
13220601 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
13220665 TCAGTATGG
65 TCAGTATGG
*
13220674 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
13220739 CTCAGTATGG
64 CTCAGTATGG
13220749 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
13220773 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:13226039 original size:35 final size:35
Alignment explanation
Indices: 13225995--13226161 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
13225985 TCCTCATTGA
** *
13225995 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
13226030 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
13226070 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
13226105 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
13226140 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
13226162 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:13226078 original size:75 final size:73
Alignment explanation
Indices: 13225990--13226161 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
13225980 GGTTTTCCTC
** * * **
13225990 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
13226054 TCAGTATGG
65 TCAGTATGG
*
13226063 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
13226128 CTCAGTATGG
64 CTCAGTATGG
13226138 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
13226162 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:13228863 original size:15 final size:14
Alignment explanation
Indices: 13228840--13228883 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
13228830 TAGATTGATG
*
13228840 TTTAGTTAATTATAA
1 TTTAATTAATTA-AA
*
13228855 TTTAATTAAATAAA
1 TTTAATTAATTAAA
13228869 TTGTAATTAATTAAA
1 TT-TAATTAATTAAA
13228884 GTATATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 4 0.16
15 21 0.84
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (14 bp):
TTTAATTAATTAAA
Found at i:13229050 original size:16 final size:17
Alignment explanation
Indices: 13229016--13229048 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13229006 GGTAAGTAAT
13229016 TTTTAGTTTCTTAAAAA
1 TTTTAGTTTCTTAAAAA
13229033 TTTTATGTTT-TTAAAA
1 TTTTA-GTTTCTTAAAA
13229049 TTGTGGGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (17 bp):
TTTTAGTTTCTTAAAAA
Found at i:13237708 original size:11 final size:11
Alignment explanation
Indices: 13237679--13237726 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
13237669 CCTAGCTCAC
* *
13237679 TGCTGTTTTGC
1 TGCTGTTTGGG
*
13237690 TGCAGTTTGGG
1 TGCTGTTTGGG
*
13237701 TGCTGTTTTGG
1 TGCTGTTTGGG
13237712 TGCTGTTTGGG
1 TGCTGTTTGGG
13237723 TGCT
1 TGCT
13237727 ATTTTGCTGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.02, C:0.12, G:0.38, T:0.48
Consensus pattern (11 bp):
TGCTGTTTGGG
Found at i:13237737 original size:22 final size:22
Alignment explanation
Indices: 13237679--13237737 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
13237669 CCTAGCTCAC
*
13237679 TGCTGTTTTGCTGCAGTTTGGG
1 TGCTGTTTTGCTGCTGTTTGGG
*
13237701 TGCTGTTTTGGTGCTGTTTGGG
1 TGCTGTTTTGCTGCTGTTTGGG
*
13237723 TGCTATTTTGCTGCT
1 TGCTGTTTTGCTGCT
13237738 ATTTTTTGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.03, C:0.14, G:0.34, T:0.49
Consensus pattern (22 bp):
TGCTGTTTTGCTGCTGTTTGGG
Found at i:13238420 original size:5 final size:5
Alignment explanation
Indices: 13238389--13238413 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
13238379 AATAATTAAG
13238389 TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT
13238414 ATTATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:13241860 original size:7 final size:7
Alignment explanation
Indices: 13241848--13241872 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13241838 AGAGACGAGG
13241848 GTGGGGA
1 GTGGGGA
13241855 GTGGGGA
1 GTGGGGA
13241862 GTGGGGA
1 GTGGGGA
13241869 GTGG
1 GTGG
13241873 TGGGATTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.72, T:0.16
Consensus pattern (7 bp):
GTGGGGA
Found at i:13241937 original size:17 final size:18
Alignment explanation
Indices: 13241886--13241961 Score: 72
Period size: 17 Copynumber: 4.4 Consensus size: 18
13241876 GATTCTTATT
13241886 TTAT-TTAATATTATATAA
1 TTATATTAATATTATAT-A
*
13241904 TTATATTTAT-TTA-ATA
1 TTATATTAATATTATATA
13241920 TTAATATTAATATTATATA
1 TT-ATATTAATATTATATA
* *
13241939 TAAT-TTAATTTTAT-TA
1 TTATATTAATATTATATA
13241955 TTATATT
1 TTATATT
13241962 TTTATGAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
16 8 0.17
17 20 0.42
18 12 0.25
19 8 0.17
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTATATTAATATTATATA
Found at i:13241946 original size:23 final size:24
Alignment explanation
Indices: 13241882--13241960 Score: 74
Period size: 23 Copynumber: 3.3 Consensus size: 24
13241872 GTGGGATTCT
* *
13241882 TATTTTATTTAATATTATATAATT-A
1 TATTATATATAATATTA-AT-ATTAA
*
13241907 TATT-TATTTAATATTAATATTAA
1 TATTATATATAATATTAATATTAA
* *
13241930 TATTATATATAAT-TTAATTTTAT
1 TATTATATATAATATTAATATTAA
13241953 TATTATAT
1 TATTATAT
13241961 TTTTATGAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
22 3 0.06
23 23 0.47
24 19 0.39
25 4 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TATTATATATAATATTAATATTAA
Found at i:13242303 original size:2 final size:2
Alignment explanation
Indices: 13242296--13242331 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
13242286 GAAAATAAGC
13242296 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
13242332 GTTAAGAGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13243168 original size:18 final size:17
Alignment explanation
Indices: 13243145--13243180 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
13243135 AATAAATATA
*
13243145 TATATTTTTATTTTTAAT
1 TATATTTATA-TTTTAAT
13243163 TATATTTATATTTTAAT
1 TATATTTATATTTTAAT
13243180 T
1 T
13243181 TTAATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TATATTTATATTTTAAT
Found at i:13243172 original size:24 final size:23
Alignment explanation
Indices: 13243140--13243213 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
13243130 TATATAATAA
*
13243140 ATATATATATTTTTATTTTTAATT
1 ATATATATA-TTTTAATTTTAATT
*
13243164 ATATTTATATTTTAATTTTAATT
1 ATATATATATTTTAATTTTAATT
* * * *
13243187 TTA-ATATA-ATCAATTTTTATT
1 ATATATATATTTTAATTTTAATT
13243208 ATATAT
1 ATATAT
13243214 TTTCAATTTG
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 12 0.29
22 6 0.15
23 15 0.37
24 8 0.20
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (23 bp):
ATATATATATTTTAATTTTAATT
Found at i:13243219 original size:20 final size:19
Alignment explanation
Indices: 13243147--13243222 Score: 57
Period size: 20 Copynumber: 3.9 Consensus size: 19
13243137 TAAATATATA
* * *
13243147 TATTTTTATTTTTAA-TTA
1 TATTTATATTTTCAATTTT
13243165 TATTTATATTTT-AATTTT
1 TATTTATATTTTCAATTTT
* **
13243183 AATTTTAATATAATCAATTTT
1 TA-TTT-ATATTTTCAATTTT
13243204 TATTATATATTTTCAATTT
1 TATT-TATATTTTCAATTT
13243223 GTGTATTGTT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
17 2 0.04
18 14 0.31
19 3 0.07
20 18 0.40
21 8 0.18
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTTATATTTTCAATTTT
Found at i:13243252 original size:40 final size:40
Alignment explanation
Indices: 13243208--13243288 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
13243198 AATTTTTATT
*
13243208 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
1 ATATATTTTCAATTTGTGTATTATTTTAAGAATTGTTTTA
** * * * *
13243248 ATATATTTTTTATTTGTTTCTTATTTTAATATTTGTTTTA
1 ATATATTTTCAATTTGTGTATTATTTTAAGAATTGTTTTA
13243288 A
1 A
13243289 ATGTATTTGA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.63
Consensus pattern (40 bp):
ATATATTTTCAATTTGTGTATTATTTTAAGAATTGTTTTA
Found at i:13248397 original size:5 final size:5
Alignment explanation
Indices: 13248389--13248421 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
13248379 AATGCAATGT
13248389 AAAGC AAAGC AAAGC AAAGC AAAGC AAAGC AAA
1 AAAGC AAAGC AAAGC AAAGC AAAGC AAAGC AAA
13248422 AAAAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.64, C:0.18, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAGC
Found at i:13248425 original size:1 final size:1
Alignment explanation
Indices: 13248419--13248473 Score: 74
Period size: 1 Copynumber: 55.0 Consensus size: 1
13248409 AAAGCAAAGC
** * *
13248419 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAATCAAAAACAAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13248474 CAAGAGCTGA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.93, C:0.05, G:0.00, T:0.02
Consensus pattern (1 bp):
A
Found at i:13249532 original size:45 final size:45
Alignment explanation
Indices: 13249468--13249672 Score: 365
Period size: 45 Copynumber: 4.6 Consensus size: 45
13249458 CTTCTGTTCT
*
13249468 CACCATCCTCAGGTTCCTTCCTAGTATGCACTCCTCCCTCCAACC
1 CACCATCCTCAGGCTCCTTCCTAGTATGCACTCCTCCCTCCAACC
*
13249513 CACCATCCTCAGGCTCCTTCCTTGTATGCACTCCTCCCTCCAACC
1 CACCATCCTCAGGCTCCTTCCTAGTATGCACTCCTCCCTCCAACC
13249558 CACCATCCTCAGGCTCCTTCCTAGTATGCACTCCTCCCTCCAACC
1 CACCATCCTCAGGCTCCTTCCTAGTATGCACTCCTCCCTCCAACC
* * *
13249603 CACCATCCTCAGGTTCCTTCCAAATATGCACTCCTCCCTCCAACC
1 CACCATCCTCAGGCTCCTTCCTAGTATGCACTCCTCCCTCCAACC
13249648 CACCATCCTCAGGCTCCTTCCTAGT
1 CACCATCCTCAGGCTCCTTCCTAGT
13249673 CTTCAGGACA
Statistics
Matches: 151, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 151 1.00
ACGTcount: A:0.18, C:0.47, G:0.09, T:0.26
Consensus pattern (45 bp):
CACCATCCTCAGGCTCCTTCCTAGTATGCACTCCTCCCTCCAACC
Found at i:13249881 original size:17 final size:17
Alignment explanation
Indices: 13249861--13249895 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
13249851 AATAGAAGAA
13249861 ATGGTTTCCTCCACTGG
1 ATGGTTTCCTCCACTGG
13249878 ATGGTTTCCTCCACTGG
1 ATGGTTTCCTCCACTGG
13249895 A
1 A
13249896 AATACATTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.14, C:0.29, G:0.23, T:0.34
Consensus pattern (17 bp):
ATGGTTTCCTCCACTGG
Found at i:13258643 original size:34 final size:34
Alignment explanation
Indices: 13258605--13258678 Score: 80
Period size: 35 Copynumber: 2.1 Consensus size: 34
13258595 AATTGATAGA
13258605 GATAATAA-ATATGCATAAT-AAATTTTGGTTAAGT
1 GATAA-AAGATAT-CATAATGAAATTTTGGTTAAGT
* * *
13258639 GATAAAAGGATATTATGATGAAGTTTTGGTTAAGT
1 GATAAAA-GATATCATAATGAAATTTTGGTTAAGT
13258674 GATAA
1 GATAA
13258679 GTTGAAGGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
33 2 0.06
34 9 0.26
35 23 0.68
ACGTcount: A:0.42, C:0.01, G:0.20, T:0.36
Consensus pattern (34 bp):
GATAAAAGATATCATAATGAAATTTTGGTTAAGT
Found at i:13260385 original size:25 final size:23
Alignment explanation
Indices: 13260333--13260427 Score: 73
Period size: 25 Copynumber: 3.8 Consensus size: 23
13260323 TGACTCATAT
***
13260333 GAGCTTCCTGTTAATGGCTCTTTA
1 GAGCTTCC-GTTAATGGCTCACAA
*
13260357 GAGCTTCTCGTTACATGGCTCACAT
1 GAGCTTC-CGTTA-ATGGCTCACAA
* *
13260382 GAGCTTCCTGTTATATGGCTTAGAA
1 GAGCTTCC-GTTA-ATGGCTCACAA
13260407 GAGCTTCCCGTTAATGTGCTC
1 GAGCTT-CCGTTAATG-GCTC
13260428 GTATGAGTAT
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
24 15 0.26
25 40 0.70
26 2 0.04
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (23 bp):
GAGCTTCCGTTAATGGCTCACAA
Found at i:13260419 original size:50 final size:49
Alignment explanation
Indices: 13260326--13260427 Score: 127
Period size: 49 Copynumber: 2.1 Consensus size: 49
13260316 CCAATATTGA
* ** *
13260326 CTCATATGAGCTTCCTGTTAATGGCTCTTTAGAGCTTCTCGTTACATG-G
1 CTCACATGAGCTTCCTGTTAATGGCTCTGAAGAGCTTCCCGTTA-ATGTG
13260375 CTCACATGAGCTTCCTGTTATATGGCT-TAGAAGAGCTTCCCGTTAATGTG
1 CTCACATGAGCTTCCTGTTA-ATGGCTCT-GAAGAGCTTCCCGTTAATGTG
13260425 CTC
1 CTC
13260428 GTATGAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
49 23 0.50
50 23 0.50
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (49 bp):
CTCACATGAGCTTCCTGTTAATGGCTCTGAAGAGCTTCCCGTTAATGTG
Found at i:13260434 original size:50 final size:50
Alignment explanation
Indices: 13260326--13260448 Score: 137
Period size: 50 Copynumber: 2.5 Consensus size: 50
13260316 CCAATATTGA
** *
13260326 CTCATATGAGCTTCCTGTTA-ATGGCTCTTTAGAGCTTCTCGTTACATGG
1 CTCATATGAGCTTCCTGTTATATGGCTCTGAAGAGCTTCCCGTTACATGG
*
13260375 CTCACATGAGCTTCCTGTTATATGGCT-TAGAAGAGCTTCCCGTTA-ATGTG
1 CTCATATGAGCTTCCTGTTATATGGCTCT-GAAGAGCTTCCCGTTACATG-G
* *
13260425 CTCGTATGAGTATTCCTG-TATATG
1 CTCATATGAG-CTTCCTGTTATATG
13260449 AATTGACGGA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
49 23 0.37
50 34 0.54
51 6 0.10
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.37
Consensus pattern (50 bp):
CTCATATGAGCTTCCTGTTATATGGCTCTGAAGAGCTTCCCGTTACATGG
Found at i:13263848 original size:39 final size:39
Alignment explanation
Indices: 13263796--13263888 Score: 159
Period size: 39 Copynumber: 2.4 Consensus size: 39
13263786 GACTTTAAGC
* *
13263796 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCAAGT
1 CCGGATATGTTTCCAGCACATAGCCTGCGGACCTCAAGT
*
13263835 CCGGATATGTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATGTTTCCAGCACATAGCCTGCGGACCTCAAGT
13263874 CCGGATATGTTTCCA
1 CCGGATATGTTTCCA
13263889 AGTATCATGC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 51 1.00
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATGTTTCCAGCACATAGCCTGCGGACCTCAAGT
Found at i:13265295 original size:25 final size:23
Alignment explanation
Indices: 13265254--13265312 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
13265244 ATATTTAATA
*
13265254 TATTATTATTACTCTAACTTATTAT
1 TATTATTATTACTCTAA--TATTAC
*
13265279 TATTATTATT-TTGCTAATATTAC
1 TATTATTATTACT-CTAATATTAC
*
13265302 TATTATGATTA
1 TATTATTATTA
13265313 TATTTCATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 14 0.48
24 1 0.03
25 14 0.48
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.56
Consensus pattern (23 bp):
TATTATTATTACTCTAATATTAC
Found at i:13265339 original size:13 final size:13
Alignment explanation
Indices: 13265316--13265350 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
13265306 ATGATTATAT
13265316 TTCATTTTTGTGTA
1 TTCA-TTTTGTGTA
*
13265330 TTTATTTTGTGTA
1 TTCATTTTGTGTA
13265343 TTCATTTT
1 TTCATTTT
13265351 ATATTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 16 0.84
14 3 0.16
ACGTcount: A:0.14, C:0.06, G:0.11, T:0.69
Consensus pattern (13 bp):
TTCATTTTGTGTA
Found at i:13265417 original size:16 final size:15
Alignment explanation
Indices: 13265392--13265430 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
13265382 ATGTCCTTGG
*
13265392 TATTTTTATTTCTAT
1 TATTTTTATTACTAT
13265407 TATTATTTATTACTAT
1 TATT-TTTATTACTAT
13265423 TATTTTTA
1 TATTTTTA
13265431 ACTTGATACC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTTTTATTACTAT
Found at i:13265642 original size:20 final size:21
Alignment explanation
Indices: 13265593--13265648 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 21
13265583 TTATTACTAC
*
13265593 TATTATTTTCATATATTAGTGTA
1 TATTATTTT-ATAT-TTAGTATA
13265616 TA-T-TTTTATATTTA-TATA
1 TATTATTTTATATTTAGTATA
*
13265634 TATTATTTTTTATTT
1 TATTATTTTATATTT
13265649 TAATTCAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
18 5 0.17
19 4 0.14
20 13 0.45
21 4 0.14
22 1 0.03
23 2 0.07
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.66
Consensus pattern (21 bp):
TATTATTTTATATTTAGTATA
Found at i:13267104 original size:24 final size:24
Alignment explanation
Indices: 13267077--13267130 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
13267067 TTTCTTTCAT
*
13267077 TTGCATT-CATCCCATGCATTTGCA
1 TTGCATTGCATCACATGCA-TTGCA
**
13267101 TTGCATTGCATCATGTGCATTGCA
1 TTGCATTGCATCACATGCATTGCA
13267125 TTGCAT
1 TTGCAT
13267131 CATGTGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (24 bp):
TTGCATTGCATCACATGCATTGCA
Found at i:13267106 original size:5 final size:5
Alignment explanation
Indices: 13267091--13267149 Score: 54
Period size: 5 Copynumber: 12.0 Consensus size: 5
13267081 ATTCATCCCA
*
13267091 TGCATT TGCAT TGCAT TGCA- T-CAT GTGCAT TGCAT TGCA- T-CAT GTGTAT
1 TGCA-T TGCAT TGCAT TGCAT TGCAT -TGCAT TGCAT TGCAT TGCAT -TGCAT
13267140 TGCAT TGCAT
1 TGCAT TGCAT
13267150 CATTTGCATT
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
3 4 0.09
4 2 0.04
5 30 0.67
6 9 0.20
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (5 bp):
TGCAT
Found at i:13267119 original size:19 final size:19
Alignment explanation
Indices: 13267097--13267159 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
13267087 CCCATGCATT
13267097 TGCATTGCATTGCATCATG
1 TGCATTGCATTGCATCATG
13267116 TGCATTGCATTGCATCATG
1 TGCATTGCATTGCATCATG
* *
13267135 TGTATTGCATTGCATCATT
1 TGCATTGCATTGCATCATG
13267154 TGCATT
1 TGCATT
13267160 AGATTTTCCC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (19 bp):
TGCATTGCATTGCATCATG
Found at i:13271199 original size:44 final size:44
Alignment explanation
Indices: 13271149--13272715 Score: 2070
Period size: 44 Copynumber: 36.4 Consensus size: 44
13271139 TATCTAAGAT
* *
13271149 GATTTGGCGTCTCTGTAGTGGCGGAGAACAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
13271193 GATTTGGTGTCTCTGTAACGGCGGAGAGCAGATCGAA-ATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
13271236 GATTTGGCGTCTCTGTAGTGGCAGAGAGTAGATCGAATATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * * *
13271280 GATTTAGCGTCTCTGTAGTGGTGGAGAGCAGATCAAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
13271324 GATTTGGCGTGTCTGTAGCGGCAGAGAGTAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
** *
13271368 GATTTGGAATCTCTGTAGCGGCGGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
13271412 GATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
13271456 GATTTGGCGTCTCTATAGCGGCGGAGAGCAGATCGAAAATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
13271500 GATTTGGCGTCTCTGTAGCCGCGAAAAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
13271540 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACC
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
13271584 GATTTGGCGTCTCTGTAGCGACAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
13271628 GATTTGGCGTCTCTGTAG-AGCGGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
13271667 GATTTGGCATCTCTGTAGTGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
13271711 AATTTGGCGTCTCTATAGCGGCAGAGAGCAGAACGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
13271751 GATTTGCCATCTCTGTAGCGACAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
13271795 GATTTGGCGTCTCTGTAGCGGTGGATAGCAGATTGAAGATAAAA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
13271839 GATTTGACGTCTATGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
13271883 TATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGAT---A
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
13271924 -ATTTGGCATCTCTGTAGTGGCGGAGAGCAGATCGAAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
13271967 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
13272007 GATTCGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
**
13272051 GATTTGGCGTCTCTGTAGCGGTAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
13272095 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
13272139 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
13272179 GATTTGGCATTTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
13272223 AATTTGGCGTCTCTATAGCGGCAGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
13272263 GATTTGGCATCTCTGTAGCGACGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
13272307 GATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
** *
13272351 GATTTGGCGTCTCAATAGCGGCAGAGAGCAGATCGAA-AGTAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGA-TAACA
* **
13272395 TATTTGGCGTCTCTGTAGCGGTAGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
13272435 GATTTGGCATCTCTGTAGCGGCGAAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
13272479 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
13272523 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
13272567 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAATATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* ** *
13272611 GATTTGGCATCTCTGTAGCGGTAGAGAGCAGATCGAAGATAACG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
****** * * *
13272655 GATTTGGCGTCTCTGTATTATTAGAGGGCAGATCAAAGATGACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
13272699 GATTTGGCGTCTCTGTA
1 GATTTGGCGTCTCTGTA
13272716 ATTAGACGTG
Statistics
Matches: 1338, Mismatches: 149, Indels: 72
0.86 0.10 0.05
Matches are distributed among these distances:
39 17 0.01
40 273 0.20
41 1 0.00
43 58 0.04
44 988 0.74
45 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:13271613 original size:172 final size:172
Alignment explanation
Indices: 13271149--13272715 Score: 1912
Period size: 172 Copynumber: 9.1 Consensus size: 172
13271139 TATCTAAGAT
* * * *
13271149 GATTTGGCGTCTCTGTAGTGGCGGAGAACAGATCGAAGATAACAGATTTGGTGTCTCTGTAACGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT---AGATTTGGCGTCTCTGTAGCGG
* * * * *
13271214 CGGAGAGCAGATCGAA-ATAACAGATTTGGCGTCTCTGTAGTGGCAGAGAGTAGATCGAATATAA
63 CAGAGAGCAGATCGAAGATAAC-GATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAA
* * * * *
13271278 CAGATTTAGCGTCTCTGTAGTGGTGGAGAGCAGATCAAAGATAGCA
127 CAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * **
13271324 GATTTGGCGTGTCTGTAGCGGCAGAGAGTAGATCGAAGATAACAGATTTGGAATCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT---AGATTTGGCGTCTCTGTAGCGG
* * * * * *
13271389 CGGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCGAAGATAG
63 CAGAGAGCAGATCGAAGATAAC-GATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAA
* *
13271454 CAGATTTGGCGTCTCTATAGCGGCGGAGAGCAGATCGAAAATAACA
127 CAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * * *
13271500 GATTTGGCGTCTCTGTAGCCGCGAAAAGCAGATCGAAGAT-GATTTGGCATCTCTGTAGCGGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGATTTGGCGTCTCTGTAGCGGCAG
* *
13271564 AGAGCAGATCGAAGATAACCGATTTGGCGTCTCTGTAGCGACAGAGAGCAGATCGAAGATAACAG
66 AGAGCAGATCGAAGATAA-CGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAG
*
13271629 ATTTGGCGTCTCTGTAG-AGCGGAGAGCAGATCGAAGAT----
130 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
13271667 GATTTGGCATCTCTGTAGTGGCGGAGAGCAGATCGAAGATAACAAATTTGGCGTCTCTATAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT---AGATTTGGCGTCTCTGTAGCGG
* * *
13271732 CAGAGAGCAGAACGAAGAT---GATTTGCCATCTCTGTAGCGACAGAGAGCAGATCGAAGATAAC
63 CAGAGAGCAGATCGAAGATAACGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAAC
* * * *
13271794 AGATTTGGCGTCTCTGTAGCGGTGGATAGCAGATTGAAGATAAAA
128 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
13271839 GATTTGACGTCTATGTAGCGGCGGAGAGCAGATCGAAGATAACATATTTGGCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT---AGATTTGGCGTCTCTGTAGCGG
* * *
13271904 CAGAGAGCAGATCGAAGAT-A--ATTTGGCATCTCTGTAGTGGCGGAGAGCAGATCGAAGATAAT
63 CAGAGAGCAGATCGAAGATAACGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAAC
13271966 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT----
128 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
13272007 GATTCGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT---AGATTTGGCGTCTCTGTAGCGG
* *
13272072 TAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAA
63 CAGAGAGCAGATCGAAGATAAC-GATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAA
*
13272137 CAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGAT----
127 CAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
13272179 GATTTGGCATTTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAAATTTGGCGTCTCTATAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT---AGATTTGGCGTCTCTGTAGCGG
* *
13272244 CAGAGAGCAGATCGAAGAT---GATTTGGCATCTCTGTAGCGACGGAGAGCAGATCGAAGATAAC
63 CAGAGAGCAGATCGAAGATAACGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAAC
*
13272306 AGATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCGAAGATAACA
128 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
** * * *
13272351 GATTTGGCGTCTCAATAGCGGCAGAGAGCAGATCGAAAGTAACATATTTGGCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG-AAG--ATAGATTTGGCGTCTCTGTAGCGG
*
13272416 TAGAGAGCAGATCGAAGAT---GATTTGGCATCTCTGTAGCGGC-GAAGAGCAGATCGAAGATAA
63 CAGAGAGCAGATCGAAGATAACGATTTGGCATCTCTGTAGCGGCAG-AGAGCAGATCGAAGATAA
13272477 CAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
127 CAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
13272523 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACGGATTTGGCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT-A--GATTTGGCGTCTCTGTAGCGG
* * * *
13272588 CGGAGAGCAGATCAAATATAACAGATTTGGCATCTCTGTAGCGGTAGAGAGCAGATCGAAGATAA
63 CAGAGAGCAGATCGAAGATAAC-GATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAA
* ****** * * *
13272653 CGGATTTGGCGTCTCTGTATTATTAGAGGGCAGATCAAAGATGACA
127 CAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
13272699 GATTTGGCGTCTCTGTA
1 GATTTGGCGTCTCTGTA
13272716 ATTAGACGTG
Statistics
Matches: 1240, Mismatches: 120, Indels: 63
0.87 0.08 0.04
Matches are distributed among these distances:
167 95 0.08
168 174 0.14
169 2 0.00
170 1 0.00
171 58 0.05
172 625 0.50
173 4 0.00
175 73 0.06
176 207 0.17
177 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (172 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGATTTGGCGTCTCTGTAGCGGCAG
AGAGCAGATCGAAGATAACGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGA
TTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:13271997 original size:256 final size:257
Alignment explanation
Indices: 13271144--13272671 Score: 2194
Period size: 256 Copynumber: 5.9 Consensus size: 257
13271134 GAAGATATCT
* * * * *
13271144 AAGATGATTTGGCGTCTCTGTAGTGGCGGAGAACAGATCGAAGATAACAGATTTGGTGTCTCTGT
1 AAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTAT
* * * * *
13271209 AACGGCGGAGAGCAGATCGAA-ATAACAGATTTGGCGTCTCTGTAGTGGCAGAGAGTAGATCGAA
66 AGCGGCGGAGAGCAGATCGAAGAT---AGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAA
* * * * * *
13271273 TATAACAGATTTAGCGTCTCTGTAGTGGTGGAGAGCAGATCAAAGATAGCAGATTTGGCGTGTCT
128 GATAACAGATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
* ** *
13271338 GTAGCGGCAGAGAGTAGATCGAAGATAACAGATTTGGAATCTCTGTAGCGGCGGAGAGCAGATCA
193 GTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
* * *
13271403 AAGATAACAGATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCT
1 AAGAT----GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCT
* * * * *
13271468 CTATAGCGGCGGAGAGCAGATCGAAAATAACAGATTTGGCGTCTCTGTAGCCGCGAAAAGCAGAT
62 CTATAGCGGCGGAGAGCAGATCGAAGAT---AGATTTGGCATCTCTGTAGCGGCGGAGAGCAGAT
* * *
13271533 CGAAGAT----GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACCGATTTGGCGT
124 CGAAGATAACAGATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCGAAGATAACAGATTTGGCGT
* *
13271594 CTCTGTAGCGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAG-AGCGGAGAGCAG
189 CTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
13271658 ATCG
254 ATCG
* *
13271662 AAGATGATTTGGCATCTCTGTAGTGGCGGAGAGCAGATCGAAGATAACAAATTTGGCGTCTCTAT
1 AAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTAT
* * * * *
13271727 AGCGGCAGAGAGCAGAACGAAGAT-GATTTGCCATCTCTGTAGCGACAGAGAGCAGATCGAAGAT
66 AGCGGCGGAGAGCAGATCGAAGATAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGAT
* * * * *
13271791 AACAGATTTGGCGTCTCTGTAGCGGTGGATAGCAGATTGAAGATAAAAGATTTGACGTCTATGTA
131 AACAGATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
* * *
13271856 GCGGCGGAGAGCAGATCGAAGATAACATATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCG
196 GCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
* * * *
13271918 AAGATAATTTGGCATCTCTGTAGTGGCGGAGAGCAGATCGAAGATAATAGATTTGGCGTCTCTGT
1 AAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTAT
*
13271983 AGCGGCGGAGAGCAGATCGAAGAT-GATTCGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGAT
66 AGCGGCGGAGAGCAGATCGAAGATAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGAT
*
13272047 AACAGATTTGGCGTCTCTGTAGCGGTAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
131 AACAGATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
*
13272112 GCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCG
196 GCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
* *
13272174 AAGATGATTTGGCATTTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAAATTTGGCGTCTCTAT
1 AAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTAT
* *
13272239 AGCGGCAGAGAGCAGATCGAAGAT-GATTTGGCATCTCTGTAGCGACGGAGAGCAGATCGAAGAT
66 AGCGGCGGAGAGCAGATCGAAGATAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGAT
**
13272303 AACAGATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCAATA
131 AACAGATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
* **
13272368 GCGGCAGAGAGCAGATCGAA-AGTAACATATTTGGCGTCTCTGTAGCGGTAGAGAGCAGATCG
196 GCGGCAGAGAGCAGATCGAAGA-TAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
* *
13272430 AAGATGATTTGGCATCTCTGTAGCGGCGAAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGT
1 AAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTAT
*
13272495 AGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAA
66 AGCGGCGGAGAGCAGATCGAAGAT---AGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAA
* * * * *
13272560 GATAACGGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAATATAACAGATTTGGCATCTCT
128 GATAACAGATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
* *
13272625 GTAGCGGTAGAGAGCAGATCGAAGATAACGGATTTGGCGTCTCTGTA
193 GTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
13272672 TTATTAGAGG
Statistics
Matches: 1144, Mismatches: 109, Indels: 31
0.89 0.08 0.02
Matches are distributed among these distances:
251 33 0.03
255 172 0.15
256 572 0.50
259 24 0.02
260 229 0.20
261 1 0.00
263 74 0.06
264 39 0.03
ACGTcount: A:0.29, C:0.17, G:0.32, T:0.22
Consensus pattern (257 bp):
AAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTAT
AGCGGCGGAGAGCAGATCGAAGATAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGAT
AACAGATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
GCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
Found at i:13274068 original size:13 final size:13
Alignment explanation
Indices: 13274045--13274079 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
13274035 ATGATTATAT
13274045 TTCATTTTTGTGTA
1 TTCA-TTTTGTGTA
*
13274059 TTTATTTTGTGTA
1 TTCATTTTGTGTA
13274072 TTCATTTT
1 TTCATTTT
13274080 ATATTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 16 0.84
14 3 0.16
ACGTcount: A:0.14, C:0.06, G:0.11, T:0.69
Consensus pattern (13 bp):
TTCATTTTGTGTA
Found at i:13274146 original size:16 final size:15
Alignment explanation
Indices: 13274121--13274160 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
13274111 ATGTCCTTGG
*
13274121 TATTTTTATTTCTAT
1 TATTTTTATTACTAT
13274136 TATTATTTATTACTAT
1 TATT-TTTATTACTAT
13274152 TATTTTTAT
1 TATTTTTAT
13274161 CTTGATACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTTTTATTACTAT
Found at i:13274390 original size:26 final size:27
Alignment explanation
Indices: 13274345--13274396 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
13274335 TATTAGTGTA
13274345 TTTTTTTTAGATTTATATATATTATTT
1 TTTTTTTTAGATTTATATATATTATTT
*
13274372 TTTTATTTTA-ATTTA-ATATTTTATT
1 TTTT-TTTTAGATTTATATATATTATT
13274397 ATATTTGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 9 0.39
27 9 0.39
28 5 0.22
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (27 bp):
TTTTTTTTAGATTTATATATATTATTT
Found at i:13274435 original size:3 final size:3
Alignment explanation
Indices: 13274427--13274499 Score: 146
Period size: 3 Copynumber: 24.3 Consensus size: 3
13274417 TACATTACTG
13274427 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13274475 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
13274500 CATCATTTTT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13277026 original size:19 final size:19
Alignment explanation
Indices: 13277004--13277085 Score: 119
Period size: 19 Copynumber: 4.3 Consensus size: 19
13276994 CCCATGCATT
*
13277004 TGCATTGTATTGCATCATG
1 TGCATTGCATTGCATCATG
13277023 TGCATTGCATTGCATCATG
1 TGCATTGCATTGCATCATG
* *
13277042 TACATTGCATTGCATCGTG
1 TGCATTGCATTGCATCATG
* *
13277061 TGTATTGCATTGCATCATT
1 TGCATTGCATTGCATCATG
13277080 TGCATT
1 TGCATT
13277086 AGATTTTCCC
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 55 1.00
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (19 bp):
TGCATTGCATTGCATCATG
Found at i:13281152 original size:44 final size:44
Alignment explanation
Indices: 13281096--13281404 Score: 428
Period size: 44 Copynumber: 7.1 Consensus size: 44
13281086 TATCTAAGAT
* * *
13281096 GATTTGGCGTCTCTGTAGCGGTGGAGAACAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
13281140 GATTTGGTGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
13281184 GATTTGGCATCTCTGTAGCGGCGGAGAGTAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
13281228 GATTCGGCGTCTTTGTAGCGGCGGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
13281272 GATTTGGAGTCTCTGTAGCGGCGGAGAGTAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
13281316 GATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * * *
13281356 GATTTGGCATCACTGTAGAGGCGGAGAGCAGATCAAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
13281400 GATTT
1 GATTT
13281405 TGTAACGCCC
Statistics
Matches: 234, Mismatches: 27, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
40 35 0.15
44 199 0.85
ACGTcount: A:0.29, C:0.16, G:0.33, T:0.22
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:13282623 original size:75 final size:73
Alignment explanation
Indices: 13282535--13282706 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
13282525 GGTTTTCCTC
*** * * **
13282535 ATTGAAATACCATACCTACATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
13282599 TCAGTATGG
65 TCAGTATGG
*
13282608 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
13282673 CTCAGTATGG
64 CTCAGTATGG
13282683 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
13282707 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:13282704 original size:35 final size:35
Alignment explanation
Indices: 13282540--13282706 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
13282530 TCCTCATTGA
*** *
13282540 AATACCATACCTACATTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
13282575 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
13282615 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
13282650 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
13282685 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
13282707 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:13290095 original size:75 final size:73
Alignment explanation
Indices: 13290007--13290178 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
13289997 GGTTTTCCTC
*** * * **
13290007 ATTGAAATACCATACCTACATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
13290071 TCAGTATGG
65 TCAGTATGG
*
13290080 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
13290145 CTCAGTATGG
64 CTCAGTATGG
13290155 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
13290179 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:13290176 original size:35 final size:35
Alignment explanation
Indices: 13290012--13290178 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
13290002 TCCTCATTGA
*** *
13290012 AATACCATACCTACATTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
13290047 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
13290087 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
13290122 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
13290157 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
13290179 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:13291610 original size:44 final size:44
Alignment explanation
Indices: 13291545--13292808 Score: 1683
Period size: 44 Copynumber: 29.5 Consensus size: 44
13291535 TTATGCCGTT
* *
13291545 ACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCAAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* * *
13291589 ATAGATTTGGCGTCTCTGTAGCAGTGGAGAGCAGATCGAAGAT-
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* * *
13291632 ---GATTTGGCATCTTTGTAGCGGCAGAGAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* *
13291673 ACAGATTTGGCGTCTCTGTAGCGACAGAGAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* *
13291717 ACAGATTTGGCGTCTCTGTAGTGGTGGAGAGCAGATCGAAGAT-
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
*
13291760 ---GATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGAT-
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* *
13291800 ---GATTTGGCGTCTCTGTAGCCGCGGAGAGCAGATCGAAAATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* *
13291841 ACAGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGAT-
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* *
13291884 ---GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCAAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* *
13291925 ACAGATTTGGTGTCTCTGTAGCGGTGGAGAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
*
13291969 AAAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* **
13292013 ACATATTTGGCGTCTCTGTAGCGGTAGAGAGCAGATCGAAGAT-
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* * * *
13292056 ---GATTTGGCATCTCTGTAGTGGCGGTGAGTAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
13292097 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
*
13292141 ACAGATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
*
13292185 ACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
*
13292229 ACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGAT-
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* * *
13292272 ---GATTTGGCATCTCTATAGTGGCGGAGAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* * * *
13292313 ACAAATTTGACGTCTCTATAGCGGCAGAGAGCAGATCGAAGAT-
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* *
13292356 ---GATTTGGCATCTCTGTAGCGACGGAGAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* * *
13292397 ACAGATTTGGCATCTCTGTAGCGGTGGAGAGCAGATCAAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
*
13292441 ACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* * *
13292485 ACATATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGGAGAT-
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* *
13292528 ---GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATTGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
*
13292569 ACAGATTTGGCGTCTCTGTAGCGGGGGAGAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
*
13292613 ACAGATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* * *
13292657 ACGGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAATATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* ***
13292701 ACAGATTTGGCATCTCTGTAGCGTTAGAGAGCAGATCGAAGATA
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* * **** * * * *
13292745 ACGGATTTGGTGTCTCTGTATTATCAGAGGGCAGATCAAAGATG
1 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
13292789 ACAGATTTGGCGTCTCTGTA
1 ACAGATTTGGCGTCTCTGTA
13292809 TTAGACGGGG
Statistics
Matches: 1083, Mismatches: 109, Indels: 56
0.87 0.09 0.04
Matches are distributed among these distances:
40 287 0.27
44 796 0.73
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.23
Consensus pattern (44 bp):
ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
Found at i:13291777 original size:128 final size:128
Alignment explanation
Indices: 13291545--13292764 Score: 1699
Period size: 128 Copynumber: 9.5 Consensus size: 128
13291535 TTATGCCGTT
* *
13291545 ACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCAAAGATAATAGATTTGGCGTCTCTGTAG
1 ACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAG
* * * *
13291610 CAGTGGAGAGCAGATCGAAGATGATTTGGCATCTTTGTAGCGGCAGAGAGCAGATCGAAGATA
66 CGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
*
13291673 ACAGATTTGGCGTCTCTGTAGCGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAG
1 ACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAG
* * * *
13291738 TGGTGGAGAGCAGATCGAAGATGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGAT-
66 CGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* * * *
13291800 ---GATTTGGCGTCTCTGTAGCCGCGGAGAGCAGATCGAAAATAACAGATTTGGCATCTCTGTAG
1 ACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAG
* *
13291862 CGGCAGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCAAAGATA
66 CGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* ** *
13291925 ACAGATTTGGTGTCTCTGTAGCGGTGGAGAGCAGATCGAAGATAAAAGATTTGGCGTCTCTGTAG
1 ACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAG
* * **
13291990 CGGCGGAGAGCAGATCGAAGATAACATATTTGGCGTCTCTGTAGCGGTAGAGAGCAGATCGAAGA
66 CGGCGGAGAGCAGATCGAAGAT----GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGA
13292055 T-
127 TA
* * * * *
13292056 ---GATTTGGCATCTCTGTAGTGGCGGTGAGTAGATCGAAGATAACAGATTTGGCGTCTCTGTAG
1 ACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAG
* *
13292118 CGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCGAAGA
66 CGGCGGAGAGCAGATCGAAGAT----GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGA
13292183 TA
127 TA
13292185 ACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAG
1 ACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAG
* * *
13292250 CGGCAGAGAGCAGATCGAAGATGATTTGGCATCTCTATAGTGGCGGAGAGCAGATCGAAGATA
66 CGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* * * *
13292313 ACAAATTTGACGTCTCTATAGCGGCAGAGAGCAGATCGAAGAT----GATTTGGCATCTCTGTAG
1 ACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAG
* * *
13292374 CGACGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGTGGAGAGCAGATCAAAGA
66 CGGCGGAGAGCAGATCGAAGAT----GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGA
13292439 TA
127 TA
*
13292441 ACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACATATTTGGCGTCTCTGTAG
1 ACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAG
* * *
13292506 CGGCAGAGAGCAGATCGGAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATTGAAGATA
66 CGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
**
13292569 ACAGATTTGGCGTCTCTGTAGCGGGGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAG
1 ACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAG
* * * *
13292634 CAGCGGAGAGCAGATCGAAGATAACGGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAATA
66 CGGCGGAGAGCAGATCGAAGAT----GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGA
13292699 TA
127 TA
* ** * *
13292701 ACAGATTTGGCATCTCTGTAGCGTTAGAGAGCAGATCGAAGATAACGGATTTGGTGTCTCTGTA
1 ACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
13292765 TTATCAGAGG
Statistics
Matches: 980, Mismatches: 88, Indels: 44
0.88 0.08 0.04
Matches are distributed among these distances:
124 150 0.15
128 587 0.60
132 243 0.25
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.23
Consensus pattern (128 bp):
ACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAG
CGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
Found at i:13292035 original size:172 final size:173
Alignment explanation
Indices: 13291547--13292808 Score: 1631
Period size: 172 Copynumber: 7.4 Consensus size: 173
13291537 ATGCCGTTAC
* * *
13291547 AGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCAAAGATAATAGATTTGGCGTCTCTGTAGCA
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCG
* * * *
13291612 GTGGAGAGCAGATCGAAGAT----GATTTGGCATCTTTGTAGCGGCAGAGAGCAGATCGAAGATA
66 GCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* *
13291673 ACAGATTTGGCGTCTCTGTAGCGACAGAGAGCAGATCGAAGAT
131 ACAGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGAT
* * *
13291716 AACAGATTTGGCGTCTCTGTAGTGGTGGAGAGCAGATCGAAGAT----GATTTGGCGTCTCTGTA
1 ---AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTA
* * *
13291777 GTGGCGGAGAGCAGATCGAAGAT----GATTTGGCGTCTCTGTAGCCGCGGAGAGCAGATCGAAA
63 GCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAG
13291838 ATAACAGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGAT
128 ATAACAGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGAT
* *
13291884 -GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCAAAGATAACAGATTTGGTGTCTCTGTAGCG
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCG
* *
13291948 GTGGAGAGCAGATCGAAGATAAAAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
66 GCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
* * *
13292013 ACATATTTGGCGTCTCTGTAGCGGTAGAGAGCAGATCGAAGAT
131 ACAGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGAT
* * * * *
13292056 -GATTTGGCATCTCTGTAGTGGCGGTGAGTAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCG
1 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCG
*
13292120 GCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCGAAGATA
66 GCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
*
13292185 ACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGAT
131 ACAGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGAT
* * * *
13292228 AACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGAT----GATTTGGCATCTCTATA
1 ---AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTA
* * * * *
13292289 GTGGCGGAGAGCAGATCGAAGATAACAAATTTGACGTCTCTATAGCGGCAGAGAGCAGATCGAAG
63 GCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAG
* *
13292354 AT----GATTTGGCATCTCTGTAGCGACGGAGAGCAGATCGAAGAT
128 ATAACAGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGAT
* *
13292396 AACAGATTTGGCATCTCTGTAGCGGTGGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTA
1 ---AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTA
* * * *
13292461 GCGGCAGAGAGCAGATCGAAGATAACATATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGGAG
63 GCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAG
* *
13292526 AT----GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATTGAAGAT
128 ATAACAGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGAT
* *
13292568 AACAGATTTGGCGTCTCTGTAGCGGGGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
1 ---AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTA
* * * *
13292633 GCAGCGGAGAGCAGATCGAAGATAACGGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAT
63 GCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAG
**
13292698 ATAACAGATTTGGCATCTCTGTAGCGTTAGAGAGCAGATCGAAGAT
128 ATAACAGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGAT
* **** * * *
13292744 AACGGATTTGGTGTCTCTGTATTATCAGAGGGCAGATCAAAGATGACAGATTTGGCGTCTCTGTA
1 -A--GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTA
13292809 TTAGACGGGG
Statistics
Matches: 976, Mismatches: 92, Indels: 40
0.88 0.08 0.04
Matches are distributed among these distances:
164 36 0.04
168 228 0.23
172 589 0.60
174 1 0.00
176 122 0.12
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.23
Consensus pattern (173 bp):
AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCG
GCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
ACAGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGAT
Found at i:13294113 original size:25 final size:23
Alignment explanation
Indices: 13294072--13294130 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
13294062 ATATTTAATA
*
13294072 TATTATTATTACTCTAACTTATTAT
1 TATTATTATTACTCTAA--TATTAC
*
13294097 TATTATTATT-TTGCTAATATTAC
1 TATTATTATTACT-CTAATATTAC
*
13294120 TATTATGATTA
1 TATTATTATTA
13294131 TATTTCATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 14 0.48
24 1 0.03
25 14 0.48
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.56
Consensus pattern (23 bp):
TATTATTATTACTCTAATATTAC
Found at i:13294157 original size:13 final size:13
Alignment explanation
Indices: 13294134--13294168 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
13294124 ATGATTATAT
13294134 TTCATTTTTGTGTA
1 TTCA-TTTTGTGTA
*
13294148 TTTATTTTGTGTA
1 TTCATTTTGTGTA
13294161 TTCATTTT
1 TTCATTTT
13294169 ATATTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 16 0.84
14 3 0.16
ACGTcount: A:0.14, C:0.06, G:0.11, T:0.69
Consensus pattern (13 bp):
TTCATTTTGTGTA
Found at i:13294235 original size:16 final size:15
Alignment explanation
Indices: 13294210--13294249 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
13294200 ATGTCCTTGG
*
13294210 TATTTTTATTTCTAT
1 TATTTTTATTACTAT
13294225 TATTATTTATTACTAT
1 TATT-TTTATTACTAT
13294241 TATTTTTAT
1 TATTTTTAT
13294250 CTTGATACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTTTTATTACTAT
Found at i:13294460 original size:22 final size:21
Alignment explanation
Indices: 13294432--13294488 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
13294422 TATATTAGTG
*
13294432 TATTTTTTATATTTATATAT-AT
1 TATTTTTTATATTTA-AT-TCAA
13294454 TATTTTTTAT-TTTAATTCAA
1 TATTTTTTATATTTAATTCAA
13294474 TATTTTATTATATTT
1 TATTTT-TTATATTT
13294489 GCTTTTTGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 1 0.03
20 9 0.29
21 8 0.26
22 13 0.42
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (21 bp):
TATTTTTTATATTTAATTCAA
Found at i:13294521 original size:3 final size:3
Alignment explanation
Indices: 13294513--13294561 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
13294503 TACATTACTG
13294513 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13294561 T
1 T
13294562 CATCATTTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13296436 original size:2 final size:2
Alignment explanation
Indices: 13296423--13296457 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
13296413 TAAGGCATAA
*
13296423 AT AT AC 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 A
13296458 GTGCATGCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:13296436 original size:10 final size:10
Alignment explanation
Indices: 13296418--13296457 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
13296408 ATACATAAGG
*
13296418 CATAAATATA
1 CATATATATA
13296428 CATATATATA
1 CATATATATA
*
13296438 TATATATATA
1 CATATATATA
*
13296448 TATATATATA
1 CATATATATA
13296458 GTGCATGCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (10 bp):
CATATATATA
Found at i:13301587 original size:14 final size:15
Alignment explanation
Indices: 13301540--13301591 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
13301530 ATATTATTTT
* *
13301540 GTAATCAAACACAAA
1 GTAAACAAAGACAAA
**
13301555 GTAAACAAATTCAAA
1 GTAAACAAAGACAAA
13301570 -TAAA-AAAGACAAA
1 GTAAACAAAGACAAA
13301583 GTAAACAAA
1 GTAAACAAA
13301592 TTCAAATAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 7 0.23
14 8 0.27
15 15 0.50
ACGTcount: A:0.65, C:0.13, G:0.08, T:0.13
Consensus pattern (15 bp):
GTAAACAAAGACAAA
Found at i:13304590 original size:6 final size:6
Alignment explanation
Indices: 13304579--13304616 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
13304569 GAGGATATGA
13304579 AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG AA
1 AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG AA
13304617 CTGGGGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (6 bp):
AAGAGG
Found at i:13306277 original size:93 final size:90
Alignment explanation
Indices: 13306120--13306302 Score: 242
Period size: 93 Copynumber: 2.0 Consensus size: 90
13306110 AATCATGACA
* * * *
13306120 GTTAGCATATGGTAAATTAAAAACCTATCAGGAGACATTGCAACGGTTGACCTCAAACCACCAAA
1 GTTAGCATATAGTAAATCAAAAACCCATCAGGAGACATTGCAACGGATGACCTCAAACCACCAAA
*
13306185 GCTAAACCATCAGTAAGTTTATTGC
66 GCTAAACCATCAGTAAGCTTATTGC
* * * *
13306210 GTTAGCATATAGTAAATCAAAAACCCATGAGGTGGAGACATTGTAACGGATGA-TTCCAAGCCAC
1 GTTAGCATATAGTAAATCAAAAACCCATCA---GGAGACATTGCAACGGATGACCT-CAAACCAC
13306274 CAAAGCTAAACCATCAGTAAGCTTATTGC
62 CAAAGCTAAACCATCAGTAAGCTTATTGC
13306303 CTTCCCTGTA
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
90 26 0.32
92 1 0.01
93 53 0.66
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (90 bp):
GTTAGCATATAGTAAATCAAAAACCCATCAGGAGACATTGCAACGGATGACCTCAAACCACCAAA
GCTAAACCATCAGTAAGCTTATTGC
Found at i:13310873 original size:19 final size:21
Alignment explanation
Indices: 13310829--13310874 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
13310819 ATACAAGATT
13310829 ACAAAATCAAACAGTTTACGTA
1 ACAAAATCAAACAG-TTACGTA
*
13310851 ACAACATCAAACAG-TAC-TA
1 ACAAAATCAAACAGTTACGTA
13310870 ACAAA
1 ACAAA
13310875 GACAAACTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 6 0.27
20 3 0.14
22 13 0.59
ACGTcount: A:0.54, C:0.22, G:0.07, T:0.17
Consensus pattern (21 bp):
ACAAAATCAAACAGTTACGTA
Found at i:13318750 original size:38 final size:38
Alignment explanation
Indices: 13318625--13318741 Score: 180
Period size: 38 Copynumber: 3.0 Consensus size: 38
13318615 ATTTGATGTG
*
13318625 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTATTA
*
13318665 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* *
13318703 TATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTGTTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
13318741 T
1 T
13318742 GTTTGGGTTT
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
38 59 0.82
39 5 0.07
40 8 0.11
ACGTcount: A:0.19, C:0.23, G:0.27, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
Found at i:13323621 original size:51 final size:51
Alignment explanation
Indices: 13323545--13323643 Score: 189
Period size: 51 Copynumber: 1.9 Consensus size: 51
13323535 TATGGCTTTG
13323545 GCCCACTCAGAAACAGAATCAGATACAAACTTAAGGCCTTAGCCCATCAAA
1 GCCCACTCAGAAACAGAATCAGATACAAACTTAAGGCCTTAGCCCATCAAA
*
13323596 GCCCACTCAGAAACAGAATCAGATACAAACTTAAGGCCTTAGGCCATC
1 GCCCACTCAGAAACAGAATCAGATACAAACTTAAGGCCTTAGCCCATC
13323644 TCAAATATAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.39, C:0.29, G:0.15, T:0.16
Consensus pattern (51 bp):
GCCCACTCAGAAACAGAATCAGATACAAACTTAAGGCCTTAGCCCATCAAA
Found at i:13323802 original size:40 final size:38
Alignment explanation
Indices: 13323711--13323804 Score: 93
Period size: 40 Copynumber: 2.4 Consensus size: 38
13323701 ACCAACTCCG
* * * *
13323711 TCCAACCCAACACACC-ATGTGGGATAAAATCGACCTA
1 TCCAACCCTACACACCAATATGGGATAAAATCAACCCA
* *
13323748 -CCTATCCCTGCACACCAAATATGGGGATAAAATCAACCCA
1 TCC-AACCCTACACACC-AATAT-GGGATAAAATCAACCCA
13323788 TCCAACCCTACACACCA
1 TCCAACCCTACACACCA
13323805 TAAAGTACCG
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
36 2 0.05
37 10 0.23
39 4 0.09
40 26 0.59
41 2 0.05
ACGTcount: A:0.37, C:0.36, G:0.11, T:0.16
Consensus pattern (38 bp):
TCCAACCCTACACACCAATATGGGATAAAATCAACCCA
Found at i:13326048 original size:21 final size:17
Alignment explanation
Indices: 13326024--13326067 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 17
13326014 GATTTGAAAA
13326024 TGAAATATACTTGTTTTGGCT
1 TGAAATA-A-TTGTTTT-G-T
13326045 TGAAATAATTGTTTTGT
1 TGAAATAATTGTTTTGT
13326062 TGAAAT
1 TGAAAT
13326068 TTTTTAGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.30
18 1 0.04
19 7 0.30
20 1 0.04
21 7 0.30
ACGTcount: A:0.30, C:0.05, G:0.18, T:0.48
Consensus pattern (17 bp):
TGAAATAATTGTTTTGT
Found at i:13326324 original size:20 final size:20
Alignment explanation
Indices: 13326299--13326351 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
13326289 ACGGCTGCAG
*
13326299 CACACGGGCATGTTCCAGGC
1 CACACGGGCATGTTCCAAGC
* *
13326319 CACACGGGCGTGTTCTAAGC
1 CACACGGGCATGTTCCAAGC
*
13326339 CACACGGACATGT
1 CACACGGGCATGT
13326352 CCCCCTATCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.23, C:0.32, G:0.28, T:0.17
Consensus pattern (20 bp):
CACACGGGCATGTTCCAAGC
Found at i:13331313 original size:2 final size:2
Alignment explanation
Indices: 13331308--13331362 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
13331298 AAATATATGA
*
13331308 AT AT AT AT AT AT AT AT AT GT 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
13331350 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
13331363 GTAGATGAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13332328 original size:21 final size:21
Alignment explanation
Indices: 13332304--13332373 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
13332294 GAATGCGTAT
13332304 TACATTTGCTTATATGGAAAA
1 TACATTTGCTTATATGGAAAA
* * * *
13332325 TACATGTTTG-ATAGAATGCG-TAT
1 TACA--TTTGCTTA-TATG-GAAAA
13332348 TACATTTGCTTATATGGAAAA
1 TACATTTGCTTATATGGAAAA
13332369 TACAT
1 TACAT
13332374 GTTTGATAGA
Statistics
Matches: 35, Mismatches: 8, Indels: 12
0.64 0.15 0.22
Matches are distributed among these distances:
20 1 0.03
21 17 0.49
22 4 0.11
23 12 0.34
24 1 0.03
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.39
Consensus pattern (21 bp):
TACATTTGCTTATATGGAAAA
Found at i:13332340 original size:44 final size:44
Alignment explanation
Indices: 13332277--13332407 Score: 244
Period size: 44 Copynumber: 3.0 Consensus size: 44
13332267 CCCTTTTCCC
13332277 AAAATACATGTTTGATAGAATGCGTATTACATTTGCTTATATGG
1 AAAATACATGTTTGATAGAATGCGTATTACATTTGCTTATATGG
13332321 AAAATACATGTTTGATAGAATGCGTATTACATTTGCTTATATGG
1 AAAATACATGTTTGATAGAATGCGTATTACATTTGCTTATATGG
* *
13332365 AAAATACATGTTTGATAGAATGCGTAGTACATTTGTTTATATG
1 AAAATACATGTTTGATAGAATGCGTATTACATTTGCTTATATG
13332408 CCCCAAATAT
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 85 1.00
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.39
Consensus pattern (44 bp):
AAAATACATGTTTGATAGAATGCGTATTACATTTGCTTATATGG
Found at i:13332351 original size:23 final size:23
Alignment explanation
Indices: 13332281--13332352 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
13332271 TTTCCCAAAA
13332281 TACATGTTTGATAGAATGCGTAT
1 TACATGTTTGATAGAATGCGTAT
* * * *
13332304 TACA--TTTGCTTA-TATG-GAAAA
1 TACATGTTTG-ATAGAATGCG-TAT
13332325 TACATGTTTGATAGAATGCGTAT
1 TACATGTTTGATAGAATGCGTAT
13332348 TACAT
1 TACAT
13332353 TTGCTTATAT
Statistics
Matches: 35, Mismatches: 8, Indels: 12
0.64 0.15 0.22
Matches are distributed among these distances:
20 1 0.03
21 12 0.34
22 4 0.11
23 17 0.49
24 1 0.03
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (23 bp):
TACATGTTTGATAGAATGCGTAT
Found at i:13340772 original size:43 final size:43
Alignment explanation
Indices: 13340711--13340796 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
13340701 CGGTAATAGC
*
13340711 ATAAATGTTCTGGTTTTTAGCTTGTTCTTATACGTGATTCTTT
1 ATAAATGTTCTGGTTTTTAGCTTCTTCTTATACGTGATTCTTT
13340754 ATAAATGTTCTGGTTTTTAGCTTCTTCTTATACGTGATTCTTT
1 ATAAATGTTCTGGTTTTTAGCTTCTTCTTATACGTGATTCTTT
13340797 CTTTCAGAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.19, C:0.13, G:0.15, T:0.53
Consensus pattern (43 bp):
ATAAATGTTCTGGTTTTTAGCTTCTTCTTATACGTGATTCTTT
Found at i:13344991 original size:18 final size:19
Alignment explanation
Indices: 13344970--13345011 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
13344960 ATAAATAAAT
*
13344970 TTTATATTTCGT-AAATAA
1 TTTATATTTCATAAAATAA
*
13344988 TTTAT-TTTCATAAAATTA
1 TTTATATTTCATAAAATAA
13345006 TTTATA
1 TTTATA
13345012 GAAAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (19 bp):
TTTATATTTCATAAAATAA
Found at i:13350452 original size:23 final size:23
Alignment explanation
Indices: 13350419--13350476 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
13350409 ACTGCCATTT
* *
13350419 TGGTGTATTTGGGTGGATTATTC
1 TGGTGTGTTTGGGAGGATTATTC
*
13350442 TGGTGTGTTTGGGAGGATTATTT
1 TGGTGTGTTTGGGAGGATTATTC
13350465 TGGTGTGTTTGG
1 TGGTGTGTTTGG
13350477 CCTCTAACCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.10, C:0.02, G:0.40, T:0.48
Consensus pattern (23 bp):
TGGTGTGTTTGGGAGGATTATTC
Found at i:13357861 original size:23 final size:23
Alignment explanation
Indices: 13357831--13357911 Score: 108
Period size: 23 Copynumber: 3.5 Consensus size: 23
13357821 AGTGCCATTC
13357831 TGGTGTGTTTGGGTGGATTATTT
1 TGGTGTGTTTGGGTGGATTATTT
* *
13357854 TGGTGTGTTTGGGAGGATTGTTT
1 TGGTGTGTTTGGGTGGATTATTT
* * * *
13357877 TGGTATGTTTGGATGGATCATTA
1 TGGTGTGTTTGGGTGGATTATTT
13357900 TGGTGTGTTTGG
1 TGGTGTGTTTGG
13357912 TTAGAATTCG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.11, C:0.01, G:0.40, T:0.48
Consensus pattern (23 bp):
TGGTGTGTTTGGGTGGATTATTT
Found at i:13367937 original size:15 final size:15
Alignment explanation
Indices: 13367917--13367946 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
13367907 GTTTTTTTAG
13367917 TCTTCGACCACTATC
1 TCTTCGACCACTATC
13367932 TCTTCGACCACTATC
1 TCTTCGACCACTATC
13367947 ACATAAGGAG
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:0.20, C:0.40, G:0.07, T:0.33
Consensus pattern (15 bp):
TCTTCGACCACTATC
Found at i:13374247 original size:2 final size:2
Alignment explanation
Indices: 13374197--13374228 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
13374187 TACATTTTTA
13374197 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
13374229 TTACTTTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13376350 original size:20 final size:20
Alignment explanation
Indices: 13376327--13376380 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
13376317 ATTAATTTTA
*
13376327 TTTAATATTTTTTTATAAAT
1 TTTAATATTTTTTTACAAAT
* *
13376347 TTTAATAATATTTTACAAAT
1 TTTAATATTTTTTTACAAAT
13376367 TTATAA-ATTTTTTT
1 TT-TAATATTTTTTT
13376381 GAAATATATC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 25 0.89
21 3 0.11
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTAATATTTTTTTACAAAT
Found at i:13376359 original size:23 final size:24
Alignment explanation
Indices: 13376314--13376360 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
13376304 TAATTTTTAA
* *
13376314 TTTATTAATTTTATTTAATATTTT
1 TTTATAAATTTTATATAATATTTT
13376338 TTTATAAATTTTA-ATAATATTTT
1 TTTATAAATTTTATATAATATTTT
13376361 ACAAATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTATAAATTTTATATAATATTTT
Found at i:13376401 original size:34 final size:35
Alignment explanation
Indices: 13376350--13376429 Score: 92
Period size: 34 Copynumber: 2.3 Consensus size: 35
13376340 TATAAATTTT
* *
13376350 AATAATATTTTACAAATTT-ATAAATTTT-TTTGA
1 AATAATCTTTTACAAATTTAAAAAATTTTATTTGA
*
13376383 AATATATCTTTTATAAATTTAAAAAATTTTAAGTTTGA
1 AATA-ATCTTTTACAAATTTAAAAAATTTT-A-TTTGA
13376421 AATAATCTT
1 AATAATCTT
13376430 GGACAACCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
33 4 0.10
34 13 0.33
35 8 0.21
37 5 0.13
38 9 0.23
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (35 bp):
AATAATCTTTTACAAATTTAAAAAATTTTATTTGA
Found at i:13376507 original size:22 final size:23
Alignment explanation
Indices: 13376472--13376524 Score: 81
Period size: 22 Copynumber: 2.3 Consensus size: 23
13376462 AAAATATGAA
13376472 TATTTTTTAAAAATATTTATTTT
1 TATTTTTTAAAAATATTTATTTT
*
13376495 TATTTTTT-TAAATATTTATTTT
1 TATTTTTTAAAAATATTTATTTT
*
13376517 TAATTTTT
1 TATTTTTT
13376525 GTTGGCGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (23 bp):
TATTTTTTAAAAATATTTATTTT
Found at i:13377620 original size:99 final size:99
Alignment explanation
Indices: 13377479--13377730 Score: 409
Period size: 99 Copynumber: 2.5 Consensus size: 99
13377469 AAAGAGTGGG
*
13377479 TAAATTTCCAAAAAATGTC-TTTTTTTTAAAGTATTAGATTAGGCTCTTTTTTAAAAAACTTATG
1 TAAATTTCCAAAAAATGTCTTTTTTTTTAAAGTATTAGATTAGGCTCTTTTTTAAAAAAATTATG
*
13377543 GGACTATTCGCGACCC-AGATTCTATAGAATGGT
66 GGACTATTCACGACCCAAGATTCTATAGAATGGT
* *
13377576 TAAATTTTCAAAAAAATGTCTTTTTTTTTAAAGTATTAGATTAGGCTCTTTTTCAAAAAAATTAT
1 TAAA-TTTCCAAAAAATGTCTTTTTTTTTAAAGTATTAGATTAGGCTCTTTTTTAAAAAAATTAT
*
13377641 GGGACTGTTCACGACCCAAGATTCTATAGAATGGT
65 GGGACTATTCACGACCCAAGATTCTATAGAATGGT
*
13377676 TAAATTTCCAAAAAATGGCTTTTTTTTTTTAAAGTATTAGATTAGGCTCTTTTTT
1 TAAATTTCCAAAAAAT-G-TCTTTTTTTTTAAAGTATTAGATTAGGCTCTTTTTT
13377731 TTTTAAATTA
Statistics
Matches: 142, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
97 4 0.03
98 14 0.10
99 68 0.48
100 22 0.15
101 34 0.24
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (99 bp):
TAAATTTCCAAAAAATGTCTTTTTTTTTAAAGTATTAGATTAGGCTCTTTTTTAAAAAAATTATG
GGACTATTCACGACCCAAGATTCTATAGAATGGT
Found at i:13377763 original size:101 final size:98
Alignment explanation
Indices: 13377479--13377764 Score: 396
Period size: 101 Copynumber: 2.9 Consensus size: 98
13377469 AAAGAGTGGG
*
13377479 TAAATTTCCAAAAAATG-TCTTTTTTTTAAAGTATTAGATTAGGCTC-TTTTTTAAAAAACTTAT
1 TAAATTTCCAAAAAATGTTTTTTTTTTTAAAGTATTAGATTAGGCTCTTTTTTTAAAAAA-TTAT
* *
13377542 GGGACTATTCGCGACCCAGATTCTATAGAATGGT
65 GGGACTGTTCGCGACCAAGATTCTATAGAATGGT
* * **
13377576 TAAATTTTCAAAAAAATGTCTTTTTTTTTAAAGTATTAGATTAGGCTCTTTTTCAAAAAAATTAT
1 TAAA-TTTCCAAAAAATGTTTTTTTTTTTAAAGTATTAGATTAGGCTCTTTTTTTAAAAAATTAT
*
13377641 GGGACTGTTCACGACCCAAGATTCTATAGAATGGT
65 GGGACTGTTCGCGA-CCAAGATTCTATAGAATGGT
***
13377676 TAAATTTCCAAAAAATGGCTTTTTTTTTTTAAAGTATTAGATTAGGCTCTTTTTTTTTTAAATTA
1 TAAATTTCCAAAAAAT-G-TTTTTTTTTTTAAAGTATTAGATTAGGCTCTTTTTTTAAAAAATTA
*
13377741 TGGGACTGTTCGCAACCTAAGATT
64 TGGGACTGTTCGCGACC-AAGATT
13377765 TTATTTTCTC
Statistics
Matches: 165, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
97 4 0.02
98 12 0.07
99 54 0.33
100 36 0.22
101 59 0.36
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (98 bp):
TAAATTTCCAAAAAATGTTTTTTTTTTTAAAGTATTAGATTAGGCTCTTTTTTTAAAAAATTATG
GGACTGTTCGCGACCAAGATTCTATAGAATGGT
Found at i:13379025 original size:19 final size:19
Alignment explanation
Indices: 13379001--13379038 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
13378991 GAAATGAATA
*
13379001 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
13379020 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
13379039 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:13379965 original size:15 final size:15
Alignment explanation
Indices: 13379930--13379973 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
13379920 ATATATATAT
13379930 AAAAT-AAA-GAA-A
1 AAAATAAAATGAACA
13379942 AAAATAAAAT-AACA
1 AAAATAAAATGAACA
13379956 AAAATAAAAATGAACA
1 AAAAT-AAAATGAACA
13379972 AA
1 AA
13379974 GGGAATACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 5 0.19
13 5 0.19
14 6 0.22
15 5 0.19
16 6 0.22
ACGTcount: A:0.80, C:0.05, G:0.05, T:0.11
Consensus pattern (15 bp):
AAAATAAAATGAACA
Found at i:13382028 original size:21 final size:20
Alignment explanation
Indices: 13382004--13382053 Score: 55
Period size: 24 Copynumber: 2.2 Consensus size: 20
13381994 GATAATAGGT
13382004 TAGGTAAATGTTTCATGATAA
1 TAGGTAAATG-TTCATGATAA
13382025 TAGGTTAGTAAATGTTCATGATAA
1 TA-G---GTAAATGTTCATGATAA
13382049 TAGGT
1 TAGGT
13382054 TAGGTAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
20 2 0.08
21 2 0.08
22 1 0.04
23 1 0.04
24 12 0.48
25 7 0.28
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.38
Consensus pattern (20 bp):
TAGGTAAATGTTCATGATAA
Found at i:13382060 original size:25 final size:25
Alignment explanation
Indices: 13381993--13382121 Score: 176
Period size: 25 Copynumber: 5.2 Consensus size: 25
13381983 TGATACAAAT
13381993 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
13382019 TGATAATAGGTTA-GTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
*
13382043 TGATAATAGGTTAGGTAAATGTCCA
1 TGATAATAGGTTAGGTAAATGTTCA
* *
13382068 TGACAATGGGTTAGGT-AAT-TTCA
1 TGATAATAGGTTAGGTAAATGTTCA
*
13382091 TGATAA-GGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
13382116 TGATAA
1 TGATAA
13382122 GAATATCATG
Statistics
Matches: 94, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
22 9 0.10
23 11 0.12
24 20 0.21
25 41 0.44
26 13 0.14
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:13382677 original size:39 final size:39
Alignment explanation
Indices: 13382623--13382701 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
13382613 TGTTTAAATA
13382623 ACATGCATGCAAGATAGGTGTATGAAAGAGTGATTTGGT
1 ACATGCATGCAAGATAGGTGTATGAAAGAGTGATTTGGT
13382662 ACATGCATGCAAGATAGGTGTATGAAAGAGTGATTTGGT
1 ACATGCATGCAAGATAGGTGTATGAAAGAGTGATTTGGT
13382701 A
1 A
13382702 ATAAATCTGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (39 bp):
ACATGCATGCAAGATAGGTGTATGAAAGAGTGATTTGGT
Found at i:13384179 original size:133 final size:135
Alignment explanation
Indices: 13383939--13384219 Score: 478
Period size: 133 Copynumber: 2.1 Consensus size: 135
13383929 AGTAGTCTCC
13383939 CCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
13384004 GTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTA-CA
66 GTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGG-CCAGTACCA
13384068 CTGTTA
130 CTGTTA
* *
13384074 CCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGG-CTATGGGCCATACT
1 CCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
* *
13384137 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCTAGTACCAC
66 GTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCAGTACCAC
13384202 TGTTA
131 TGTTA
*
13384207 CCTGAATGGGCTT
1 CC-AAATGGGCTT
13384220 AGGCCAATGG
Statistics
Matches: 139, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
132 5 0.04
133 78 0.56
134 37 0.27
135 19 0.14
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (135 bp):
CCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCAGTACCAC
TGTTA
Found at i:13390045 original size:93 final size:93
Alignment explanation
Indices: 13389933--13390104 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
13389923 CGCCCATAAG
* *
13389933 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
13389998 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
13390026 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
13390091 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
13390105 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:13390101 original size:46 final size:46
Alignment explanation
Indices: 13389926--13390101 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
13389916 TGTAACCCGC
* * *
13389926 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
13389972 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
13390022 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
13390065 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
13390102 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:13397937 original size:25 final size:25
Alignment explanation
Indices: 13397907--13397972 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 25
13397897 TAATATATAC
13397907 ATATGTATA-AA-ATAGATATAAAAAA
1 ATATGTATATAATATAG-TAT-AAAAA
*
13397932 ATATGTATATAATATAGTGTAAAAA
1 ATATGTATATAATATAGTATAAAAA
*
13397957 ATATGTACATAATATA
1 ATATGTATATAATATA
13397973 ATTAAAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
25 29 0.78
26 4 0.11
27 4 0.11
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (25 bp):
ATATGTATATAATATAGTATAAAAA
Found at i:13397982 original size:22 final size:24
Alignment explanation
Indices: 13397928--13397995 Score: 77
Period size: 25 Copynumber: 2.9 Consensus size: 24
13397918 ATAGATATAA
* *
13397928 AAAAATATGTATATAATATAGTGT
1 AAAAATATGTACATAATATAATGT
13397952 AAAAAATATGTACATAATATAAT-T
1 -AAAAATATGTACATAATATAATGT
* *
13397976 -AAAATATATACATAAGATAA
1 AAAAATATGTACATAATATAA
13397996 CATGTAGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
22 18 0.46
24 1 0.03
25 20 0.51
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.32
Consensus pattern (24 bp):
AAAAATATGTACATAATATAATGT
Found at i:13398042 original size:26 final size:25
Alignment explanation
Indices: 13398015--13398148 Score: 86
Period size: 25 Copynumber: 5.5 Consensus size: 25
13398005 AAATATATAT
13398015 ATATATAATAATATAGTATTAAAG-
1 ATATATAATAATATAGTATTAAAGA
* * *
13398039 ATATATACATAAAATAGTATATATA-T
1 ATATATA-ATAATATAGTAT-TAAAGA
* * *
13398065 ATATATACGTAATATAGAATT-TAGA
1 ATATATA-ATAATATAGTATTAAAGA
** *
13398090 ATATA-CCTAATATA-T-TAAAAGA
1 ATATATAATAATATAGTATTAAAGA
*
13398112 ATATATATATAATATAATATT-AAGA
1 ATATATA-ATAATATAGTATTAAAGA
13398137 A-ATATAATAATA
1 ATATATAATAATA
13398149 ACAAAAAAAG
Statistics
Matches: 87, Mismatches: 14, Indels: 19
0.73 0.12 0.16
Matches are distributed among these distances:
21 1 0.01
22 8 0.09
23 13 0.15
24 21 0.24
25 23 0.26
26 21 0.24
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (25 bp):
ATATATAATAATATAGTATTAAAGA
Found at i:13398148 original size:47 final size:48
Alignment explanation
Indices: 13398013--13398148 Score: 118
Period size: 49 Copynumber: 2.8 Consensus size: 48
13398003 AAAAATATAT
* * * * *
13398013 ATATATATAATAATATAGTATTAAAGATATATACATAAAATAGTATATAT
1 ATATATAT-ATAATATAATATT-AAGAAATATACATAATATAGTATAAAA
* * *
13398063 ATATATATACGTAATATAGA-ATTTAG-AATATACCTAATATATTA-AAAGA
1 ATATATATA--TAATATA-ATATTAAGAAATATACATAATATAGTATAAA-A
13398112 ATATATATATAATATAATATTAAGAAATATA-ATAATA
1 ATATATATATAATATAATATTAAGAAATATACATAATA
13398149 ACAAAAAAAG
Statistics
Matches: 70, Mismatches: 10, Indels: 15
0.74 0.11 0.16
Matches are distributed among these distances:
46 1 0.01
47 17 0.24
48 8 0.11
49 24 0.34
50 10 0.14
51 10 0.14
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (48 bp):
ATATATATATAATATAATATTAAGAAATATACATAATATAGTATAAAA
Found at i:13398467 original size:16 final size:16
Alignment explanation
Indices: 13398429--13398467 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
13398419 TCTCCAAAAA
*
13398429 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
13398445 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
13398461 AATAACT
1 AAAAACT
13398468 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:13398663 original size:30 final size:30
Alignment explanation
Indices: 13398627--13398721 Score: 154
Period size: 30 Copynumber: 3.2 Consensus size: 30
13398617 AGGTACAAGT
*
13398627 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
* *
13398657 GGTGGTGGAGTAAGTGTGGCTAGTGGAATA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
13398687 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
13398717 GGTGG
1 GGTGG
13398722 CGGCAAAGGC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.20, C:0.05, G:0.49, T:0.25
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:13399184 original size:76 final size:74
Alignment explanation
Indices: 13399059--13399454 Score: 365
Period size: 76 Copynumber: 5.1 Consensus size: 74
13399049 TGATGTTTTT
* * * * * *
13399059 ATTTCTGTTTTCAAAAAAATTAACTCGTATTGCGAGAGGTGAGCTGAGCCTCAAGACATGCTGGG
1 ATTTCTGTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
13399124 GTAATTTTCA
65 GTAATTTTCA
13399134 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1 ATTTCTGT-TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
13399199 GGTAA-TTTCA
64 GGTAATTTTCA
* * * *
13399209 ATTTCTGTTTGTC-AAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCC-CCGGACGCGCTGAG
1 ATTTCTGTTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
13399272 GT-ATTTTCA
65 GTAATTTTCA
* * * * * *
13399281 ATGTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGGGCCTCGGGTCACAAGCCG
1 ATTTCTG-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTG
13399346 AGGT-ATTTTCAAA
63 AGGTAATTTTC--A
* * *
13399359 ATTCCGTTTTTCAATTTTCTTCCAAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTC-GGC
1 A-------TTTC--TGTT-TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-
13399423 TCACACGCTGAGGT-ATTTTCA
55 --ACACGCTGAGGTAATTTTCA
*
13399444 ATTTCTATTTT
1 ATTTCTGTTTT
13399455 TTTTTCAATT
Statistics
Matches: 272, Mismatches: 28, Indels: 42
0.80 0.08 0.12
Matches are distributed among these distances:
71 1 0.00
72 27 0.10
73 69 0.25
74 5 0.02
75 25 0.09
76 73 0.27
78 6 0.02
85 5 0.02
86 4 0.01
87 57 0.21
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (74 bp):
ATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTTCA
Done.