Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 275 of 335
Found at i:83419703 original size:26 final size:26
Alignment explanation
Indices: 83419637--83419712 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 26
83419627 AAAAGTAGAT
* * *
83419637 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTATTATACCCCTA-G-GTGCA
*
83419665 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTATTATACCCCTAGGTGCA
*
83419691 AAATTACTATTATACCCGTAGG
1 AAATTACTATTATACCCCTAGG
83419713 GTTAATTTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 23 0.55
27 1 0.02
28 18 0.43
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.32
Consensus pattern (26 bp):
AAATTACTATTATACCCCTAGGTGCA
Found at i:83419858 original size:27 final size:27
Alignment explanation
Indices: 83419819--83419904 Score: 129
Period size: 27 Copynumber: 3.2 Consensus size: 27
83419809 GGAAGCGTCT
83419819 TGGTGGCTATGCCACAATTATCTGATC
1 TGGTGGCTATGCCACAATTATCTGATC
* *
83419846 TGGTGGCTCTGCCAC-ATATATCTGTTC
1 TGGTGGCTATGCCACAAT-TATCTGATC
*
83419873 TGGTGGCTATGCCACAAATATCTGATC
1 TGGTGGCTATGCCACAATTATCTGATC
83419900 TGGTG
1 TGGTG
83419905 AACTGGACAT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
26 2 0.04
27 49 0.94
28 1 0.02
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.34
Consensus pattern (27 bp):
TGGTGGCTATGCCACAATTATCTGATC
Found at i:83423541 original size:26 final size:25
Alignment explanation
Indices: 83423505--83423637 Score: 214
Period size: 26 Copynumber: 5.2 Consensus size: 25
83423495 TGATACAAAT
*
83423505 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTT-CA
*
83423531 TGATAATAGGTTAGGTAAAT-TTCA
1 TGATAATGGGTTAGGTAAATGTTCA
83423555 TGATAATGGGTTAGGTAAATGTTCA
1 TGATAATGGGTTAGGTAAATGTTCA
83423580 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATG-TTCA
83423606 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATG-TTCA
83423632 TGATAA
1 TGATAA
83423638 GAATTTCATG
Statistics
Matches: 104, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
24 21 0.20
25 27 0.26
26 56 0.54
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (25 bp):
TGATAATGGGTTAGGTAAATGTTCA
Found at i:83425133 original size:26 final size:26
Alignment explanation
Indices: 83425070--83425145 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 26
83425060 AAAAGTAGCT
* * *
83425070 AAATTACTATAATACCCCTATGTATGAA
1 AAATTACTGTTATACCCCTA-G-GTGAA
*
83425098 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGGTGAA
*
83425124 AAATTACTGTTATACCCGTAGG
1 AAATTACTGTTATACCCCTAGG
83425146 GTTAATTTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 24 0.56
27 1 0.02
28 18 0.42
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGGTGAA
Found at i:83425290 original size:27 final size:27
Alignment explanation
Indices: 83425250--83425336 Score: 131
Period size: 27 Copynumber: 3.2 Consensus size: 27
83425240 AAGAAGCGTC
83425250 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
* *
83425277 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
*
83425304 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
83425331 CTGGTG
1 CTGGTG
83425337 AACTGGACAT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
26 2 0.04
27 50 0.94
28 1 0.02
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:83428927 original size:27 final size:28
Alignment explanation
Indices: 83428890--83429029 Score: 166
Period size: 27 Copynumber: 5.2 Consensus size: 28
83428880 AGCATGGCTG
* *
83428890 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
83428916 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
*
83428944 CCAGA-ATAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
83428971 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* * *
83428998 CTAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
83429025 CCAGA
1 CCAGA
83429030 ACGCTTCCTC
Statistics
Matches: 102, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
26 5 0.05
27 80 0.78
28 17 0.17
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:83430681 original size:26 final size:26
Alignment explanation
Indices: 83430645--83430754 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
83430635 CATGAAATTC
83430645 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
83430671 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
83430697 TTATCATGGAACATTTACCTGACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
83430723 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
83430749 TTATCA
1 TTATCA
83430755 ATTTGTACAA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 77 0.97
27 2 0.03
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:83434769 original size:27 final size:28
Alignment explanation
Indices: 83434732--83434871 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
83434722 AGCATGGCTG
* *
83434732 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
83434758 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
83434786 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
83434813 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
83434840 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
83434867 CCAGA
1 CCAGA
83434872 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:83435568 original size:26 final size:26
Alignment explanation
Indices: 83435532--83435667 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
83435522 TGATACAAAT
* *
83435532 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
83435558 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
83435584 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
83435610 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
83435636 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
83435662 TGATAA
1 TGATAA
83435668 GAATTTCATG
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 108 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:83437128 original size:28 final size:26
Alignment explanation
Indices: 83437083--83437157 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
83437073 AAAAGTAGCT
* * *
83437083 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGCA
* *
83437111 AAATTACTGTTATGCCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGCA
*
83437137 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
83437158 GGTTAATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 22 0.55
27 1 0.03
28 17 0.43
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGCA
Found at i:83437302 original size:27 final size:27
Alignment explanation
Indices: 83437261--83437400 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 27
83437251 GAGGAAGCGT
*
83437261 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
83437288 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
83437315 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
83437342 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
83437370 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
83437396 TCTGG
1 TCTGG
83437401 CAGCCATGCT
Statistics
Matches: 102, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
26 5 0.05
27 82 0.80
28 15 0.15
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:83437346 original size:54 final size:55
Alignment explanation
Indices: 83437261--83437400 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 55
83437251 GAGGAAGCGT
* * *
83437261 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
83437315 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
83437370 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
83437401 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 60 0.77
55 18 0.23
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:83438602 original size:26 final size:26
Alignment explanation
Indices: 83438566--83438622 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
83438556 TGGTACAAAT
83438566 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83438592 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83438618 TGATA
1 TGATA
83438623 GAAATTTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:83442722 original size:53 final size:54
Alignment explanation
Indices: 83442652--83442851 Score: 212
Period size: 53 Copynumber: 3.8 Consensus size: 54
83442642 AACTTACCAT
* * * *
83442652 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGTCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGTCTTATAGAACTCATCAA
** * **
83442705 TGAAATGCCTTGGCATGGTCTTACATGGGA-CCTT-TGCTTATAGTAACTCATC-A
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGT-CTTATAG-AACTCATCAA
* * * *
83442758 TGCCATGTCTTGACATGGTCTTACATGAT-TCCTTGCCTTATAAAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGTCTTATAGAACTCATCAA
* *
83442811 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGTCTTA
83442852 CCAAATGCCA
Statistics
Matches: 120, Mismatches: 20, Indels: 13
0.78 0.13 0.08
Matches are distributed among these distances:
51 1 0.01
52 16 0.13
53 87 0.73
54 16 0.13
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGATATCCTTGTCTTATAGAACTCATCAA
Found at i:83442879 original size:47 final size:47
Alignment explanation
Indices: 83442824--83442945 Score: 226
Period size: 47 Copynumber: 2.6 Consensus size: 47
83442814 CATGCCTTGG
*
83442824 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
*
83442871 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
83442918 CATGGTCTTACATGGTATCCTTATCTTA
1 CATGGTCTTACATGGTATCCTTATCTTA
83442946 GTGCCAATGC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:83443036 original size:47 final size:48
Alignment explanation
Indices: 83442917--83443036 Score: 138
Period size: 47 Copynumber: 2.5 Consensus size: 48
83442907 CATGTTCCAA
*
83442917 ACATGGTCTTACATGGTATCCTT-ATCTTAGTGCCAATGCCACATCTTG
1 ACATGGTCTTACATGGTATCCTTAATC-TAATGCCAATGCCACATCTTG
** ** *
83442965 ATGTGGTCTTACATGG-AGTCCTTAATC-AATGCTGATGCCATATCTTG
1 ACATGGTCTTACATGGTA-TCCTTAATCTAATGCCAATGCCACATCTTG
*
83443012 ACATGGTCTTACAGGGTATCCTTAA
1 ACATGGTCTTACATGGTATCCTTAA
83443037 CCGTCAATTC
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
47 37 0.62
48 20 0.33
49 3 0.05
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (48 bp):
ACATGGTCTTACATGGTATCCTTAATCTAATGCCAATGCCACATCTTG
Found at i:83445472 original size:13 final size:13
Alignment explanation
Indices: 83445454--83445481 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
83445444 ATTTCTCATT
83445454 AACACATTTCTAG
1 AACACATTTCTAG
83445467 AACACATTTCTAG
1 AACACATTTCTAG
83445480 AA
1 AA
83445482 ACCATAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (13 bp):
AACACATTTCTAG
Found at i:83445972 original size:2 final size:2
Alignment explanation
Indices: 83445965--83445990 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
83445955 TAACTCACTG
83445965 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
83445991 CAAGGTTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:83449092 original size:54 final size:53
Alignment explanation
Indices: 83448968--83449169 Score: 237
Period size: 54 Copynumber: 3.8 Consensus size: 53
83448958 AACTTACCAT
* * * *
83448968 TGCCATGTCTTGACACGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* * *
83449021 TGCCATGCCTTGGCATGGTCTTACACGGGACCTTTGCCTTATAGTAA-TCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * *
83449075 TGCCATGCCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
* *
83449129 TGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGTCTTA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTA
83449170 CCAAATGCCA
Statistics
Matches: 126, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
52 2 0.02
53 36 0.29
54 84 0.67
55 4 0.03
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:83449307 original size:47 final size:48
Alignment explanation
Indices: 83449188--83449307 Score: 138
Period size: 47 Copynumber: 2.5 Consensus size: 48
83449178 CATGTTCCAA
*
83449188 ACATGGTCTTACATGGTATCCTT-ATCTTAGTGCCAATGCCACATCTTG
1 ACATGGTCTTACATGGTATCCTTAATC-TAATGCCAATGCCACATCTTG
** * **
83449236 ATGTGGTCTTACATGG-AGTCCTTAATC-AATGCCGATGCCATGTCTTG
1 ACATGGTCTTACATGGTA-TCCTTAATCTAATGCCAATGCCACATCTTG
*
83449283 ACATGGTCTTACAGGGTATCCTTAA
1 ACATGGTCTTACATGGTATCCTTAA
83449308 CCGTCAATTC
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
47 37 0.62
48 20 0.33
49 3 0.05
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (48 bp):
ACATGGTCTTACATGGTATCCTTAATCTAATGCCAATGCCACATCTTG
Found at i:83451809 original size:21 final size:22
Alignment explanation
Indices: 83451784--83451845 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
83451774 TACAATATAG
83451784 TATTTAAAAATATATGCAT-AA
1 TATTTAAAAATATATGCATAAA
* * *
83451805 TATTTACATATATATGAAATAAA
1 TATTTAAAAATATATG-CATAAA
* *
83451828 TATTGAAAAATGTATGCA
1 TATTTAAAAATATATGCA
83451846 CATAAGAAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
21 14 0.45
22 3 0.10
23 14 0.45
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (22 bp):
TATTTAAAAATATATGCATAAA
Found at i:83451818 original size:36 final size:35
Alignment explanation
Indices: 83451716--83451818 Score: 100
Period size: 36 Copynumber: 2.9 Consensus size: 35
83451706 GGGGTAAAAA
* *
83451716 TAAATATATATACATAATATATACGTAATATAGTAC
1 TAAAAATATATACATAATATATACAT-ATATAGTAC
* * * *
83451752 TAAGAATATATATATATACATATACA-ATATAGTATT
1 TAAAAATATATACATA-ATATATACATATATAGTA-C
* *
83451788 TAAAAATATATGCATAATATTTACATATATA
1 TAAAAATATATACATAATATATACATATATA
83451819 TGAAATAAAT
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
35 15 0.28
36 31 0.58
37 7 0.13
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (35 bp):
TAAAAATATATACATAATATATACATATATAGTAC
Found at i:83452526 original size:3 final size:3
Alignment explanation
Indices: 83452502--83452564 Score: 92
Period size: 3 Copynumber: 20.7 Consensus size: 3
83452492 AAGTACCTAT
*
83452502 TAA TAA TAT TATA TAA -ATA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
83452548 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
83452565 CAAAAGAAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
2 1 0.02
3 51 0.93
4 3 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:83452753 original size:22 final size:24
Alignment explanation
Indices: 83452707--83452755 Score: 75
Period size: 22 Copynumber: 2.1 Consensus size: 24
83452697 AAATATACAC
*
83452707 TAATATTTATAAATGACAATCAAA
1 TAATATTTATAAATGACAATAAAA
83452731 TAATATTTA-AAATGA-AATAAAA
1 TAATATTTATAAATGACAATAAAA
83452753 TAA
1 TAA
83452756 CAAAAATACT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 9 0.38
23 6 0.25
24 9 0.38
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (24 bp):
TAATATTTATAAATGACAATAAAA
Found at i:83454768 original size:87 final size:87
Alignment explanation
Indices: 83454663--83454826 Score: 213
Period size: 87 Copynumber: 1.9 Consensus size: 87
83454653 AAAGTGGAAA
* * * *
83454663 TTGAAAAACAGAAATTGAAAGTAGCTC-ATCACATGAGCCAAGACTCAACTCACTTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAATACCTCGA-CACATGACCCAAGACTCAACTCACTTCTCACAATA
83454727 TCAGTTGGTTTTTGAAAAATAAT
65 TCAGTTGGTTTTTGAAAAATAAT
** ** * *
83454750 TTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACTTCTCACAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCGACACATGACCCAAGACTCAACTCACTTCTCACAATAT
*
83454815 GAGTTGGTTTTT
66 CAGTTGGTTTTT
83454827 TTGACAAACA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
87 64 0.98
88 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (87 bp):
TTGAAAAACAGAAATTGAAAATACCTCGACACATGACCCAAGACTCAACTCACTTCTCACAATAT
CAGTTGGTTTTTGAAAAATAAT
Found at i:83455106 original size:73 final size:72
Alignment explanation
Indices: 83454957--83455605 Score: 414
Period size: 73 Copynumber: 8.5 Consensus size: 72
83454947 ACATGAGCCA
* * *** *
83454957 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTGA-AAGTGGAATTTGAAAATACCTCG
1 AGGCTCAACTCACCTCCCGCAATATGAGTTGA--TTTTTGACAAACAGAA-TTGAAAATACCTCA
83455021 GCGTGCCCCG
63 GCGTGCCCCG
*
83455031 AGGCTCAACTCACCTCCCGCAACATGAGTTGATTTTTGACAAACAGCAATTGAAAATACCTCAGC
1 AGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTGACAAACAG-AATTGAAAATACCTCAGC
83455096 GTGCCCCG
65 GTGCCCCG
* *** * ** * ** *
83455104 AGGCTCAACTCACCTCCTGCAATATGAGTTGATTTAAAAAAAAC-GACATAAAAACAGAAATTGA
1 AGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTGACAAACAGA-ATTGAAA-A-TACCTCA
**
83455168 AAGTGACTCAACACG
63 GCGTG-C-C--C-CG
* * * **
83455183 TAAGC-CAAGGCTCAACTCACCTCTCATAATATGAGTTGATTTTTTCTGA-AAGTAGAATTTGAA
1 -AGGCTCAA--CTC-AC-CTCC-CGC--AATATGAGTTGA--TTTT-TGACAAACAGAA-TTGAA
*
83455246 AATACCTCGGCGTG-CCCG
54 AATACCTCAGCGTGCCCCG
*
83455264 AGGCTCAACTCACCTCCCGCAACATGAGTTGATTTTTGACAAACAGCAATTGAAAATACCTCAGC
1 AGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTGACAAACAG-AATTGAAAATACCTCAGC
83455329 GTGCCCCG
65 GTGCCCCG
** * ** * ** *
83455337 AGGCTCAACTCACCTCCCGCAATATGAGTTGA-TTTAAAAAAACAGACATAAAAACAGAAATTGA
1 AGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTGACAAACAGA-ATTGAAA-A-TACCTCA
**
83455401 AAGTGACTCAACACG
63 GCGTG-C-C--C-CG
* * **
83455416 CGAGC-CAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTCTGA-AAGTAGAATTTGAA
1 AG-GCTCAA--CT-----CACCTCCCGCAATATGAGTTGA--TTTT-TGACAAACAGAA-TTGAA
*
83455479 AATACCTCGGCGTGCCCCG
54 AATACCTCAGCGTGCCCCG
** *
83455498 AGGCTCAACTCACCTCCTACAACATGAGTTGATTTTTGACAAACAGCAATTGAAAATACCTCAGC
1 AGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTGACAAACAG-AATTGAAAATACCTCAGC
83455563 GTGCCCCG
65 GTGCCCCG
83455571 AGGCTCAACTCACCTCCCGCAATATGAGTTGATTT
1 AGGCTCAACTCACCTCCCGCAATATGAGTTGATTT
83455606 AACAAACAAA
Statistics
Matches: 440, Mismatches: 84, Indels: 103
0.70 0.13 0.16
Matches are distributed among these distances:
71 5 0.01
72 57 0.13
73 166 0.38
74 56 0.13
75 20 0.05
76 4 0.01
77 3 0.01
78 4 0.01
79 14 0.03
80 10 0.02
81 12 0.03
82 9 0.02
83 4 0.01
84 2 0.00
85 1 0.00
86 34 0.08
87 10 0.02
88 9 0.02
89 19 0.04
90 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (72 bp):
AGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTGACAAACAGAATTGAAAATACCTCAGCG
TGCCCCG
Found at i:83455201 original size:233 final size:232
Alignment explanation
Indices: 83454763--83455698 Score: 1475
Period size: 233 Copynumber: 4.0 Consensus size: 232
83454753 AAAAACAGAT
* * * * * *
83454763 TTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACTTCTCACAATATGAGTTGGTTTTTT
1 TTTGAAAATACCTCGGC--GTGCCCCGAGGCTCAACTCACCTCCCACAACATGAGTT-G-ATTTT
* ** *
83454828 TGACAAACAGAAATTAAAATTGAAAATACCTCAGCACGTGAGCCGAGGGTCAACTCACCTCCCGC
62 TGACAAACAG------CAATTGAAAATACCTCAG--CGTGCCCCGAGGCTCAACTCACCTCCCGC
* *
83454893 AATATGAGTTGATTTAAAAACAGACATAAAAACAGAAATTGAAAGTGACTCAACACATGAGCCAA
119 AATATGAGTTGATTTAAAAAAAGACATAAAAACAGAAATTGAAAGTGACTCAACACGTGAGCCAA
* *
83454958 GGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTT-TGAAAGTGGAA
184 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTCTGAAAGTAGAA
*
83455006 TTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCCCGCAACATGAGTTGATTTTTGAC
1 TTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCCCACAACATGAGTTGATTTTTGAC
*
83455071 AAACAGCAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCTGCAATATGAGTTGA
66 AAACAGCAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGA
*
83455136 TTTAAAAAAAACGACATAAAAACAGAAATTGAAAGTGACTCAACACGTAAGCCAAGGCTCAACTC
131 TTT-AAAAAAA-GACATAAAAACAGAAATTGAAAGTGACTCAACACGTGAGCCAAGGCTCAACTC
**
83455201 ACCTCTCATAATATGAGTTGATTTTTTCTGAAAGTAGAA
194 ACCTCTCGCAATATGAGTTGATTTTTTCTGAAAGTAGAA
*
83455240 TTTGAAAATACCTCGGCGTG-CCCGAGGCTCAACTCACCTCCCGCAACATGAGTTGATTTTTGAC
1 TTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCCCACAACATGAGTTGATTTTTGAC
83455304 AAACAGCAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGA
66 AAACAGCAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGA
*
83455369 TTTAAAAAAACAGACATAAAAACAGAAATTGAAAGTGACTCAACACGCGAGCCAAGGCTCAACTC
131 TTT-AAAAAA-AGACATAAAAACAGAAATTGAAAGTGACTCAACACGTGAGCCAAGGCTCAACTC
83455434 ACCTCTCGCAATATGAGTTGATTTTTTCTGAAAGTAGAA
194 ACCTCTCGCAATATGAGTTGATTTTTTCTGAAAGTAGAA
*
83455473 TTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCCTACAACATGAGTTGATTTTTGAC
1 TTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCCCACAACATGAGTTGATTTTTGAC
83455538 AAACAGCAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGA
66 AAACAGCAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGA
*
83455603 TTTAACAAACAA-ACATAAAAACAGAAATTGAAAGTGACTCAACGCGTGAGCCAAGGCTCAACTC
131 TTTAA-AAA-AAGACATAAAAACAGAAATTGAAAGTGACTCAACACGTGAGCCAAGGCTCAACTC
83455667 ACCTCTCGCAATATGAGTTGATTTTTT-TGAAA
194 ACCTCTCGCAATATGAGTTGATTTTTTCTGAAA
83455699 ACAGAAATGA
Statistics
Matches: 658, Mismatches: 28, Indels: 25
0.93 0.04 0.04
Matches are distributed among these distances:
231 40 0.06
232 11 0.02
233 397 0.60
234 145 0.22
235 1 0.00
239 14 0.02
240 1 0.00
241 33 0.05
243 16 0.02
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (232 bp):
TTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCCCACAACATGAGTTGATTTTTGAC
AAACAGCAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGA
TTTAAAAAAAGACATAAAAACAGAAATTGAAAGTGACTCAACACGTGAGCCAAGGCTCAACTCAC
CTCTCGCAATATGAGTTGATTTTTTCTGAAAGTAGAA
Found at i:83468000 original size:40 final size:36
Alignment explanation
Indices: 83467954--83468059 Score: 106
Period size: 36 Copynumber: 2.8 Consensus size: 36
83467944 GGGTAAAAAT
83467954 AAATATATATACATAATATATACGTAATATAGTACTAA
1 AAATATATATACATAATATATAC--AATATAGTACTAA
* * * *
83467992 GAATATATATATATATATACATATACAATATAGTATTTA
1 -AA-ATATATATACATA-ATATATACAATATAGTACTAA
*
83468031 AAA-ATATATACATAATATTTACATATATA
1 AAATATATATACATAATATATACA-ATATA
83468060 TGAAATAAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
35 7 0.12
36 15 0.26
37 1 0.02
38 2 0.04
39 13 0.23
40 12 0.21
41 7 0.12
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.38
Consensus pattern (36 bp):
AAATATATATACATAATATATACAATATAGTACTAA
Found at i:83468051 original size:21 final size:23
Alignment explanation
Indices: 83468025--83468084 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
83468015 TACAATATAG
*
83468025 TATTTAAAAATATAT-ACAT-AA
1 TATTTAAAAATATATGAAATAAA
* *
83468046 TATTTACATATATATGAAATAAA
1 TATTTAAAAATATATGAAATAAA
* *
83468069 TATTGAAAAATGTATG
1 TATTTAAAAATATATG
83468085 CACATAAGAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
21 13 0.43
22 3 0.10
23 14 0.47
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.38
Consensus pattern (23 bp):
TATTTAAAAATATATGAAATAAA
Found at i:83468338 original size:27 final size:25
Alignment explanation
Indices: 83468305--83468370 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 25
83468295 AGTATAGACA
83468305 TATACATATATAATAATAA-AAAAT
1 TATACATATATAATAATAAGAAAAT
*
83468329 GTATGTACATA-ACAA-AATAAGAAAAT
1 -TA--TACATATATAATAATAAGAAAAT
*
83468355 TATACATTTATAATAA
1 TATACATATATAATAA
83468371 GTACATGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
23 5 0.15
24 3 0.09
25 11 0.33
26 8 0.24
27 6 0.18
ACGTcount: A:0.58, C:0.06, G:0.05, T:0.32
Consensus pattern (25 bp):
TATACATATATAATAATAAGAAAAT
Found at i:83468765 original size:3 final size:3
Alignment explanation
Indices: 83468744--83468811 Score: 75
Period size: 3 Copynumber: 21.7 Consensus size: 3
83468734 AAGTACCTAT
* *
83468744 TAA TAA TAT TATA TAAA TAA TAAA TAA TAA TAA TAA TAA TAA CAA TAA
1 TAA TAA TAA TA-A T-AA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
83468792 TAGA -AA TAA TAA TAA TAA TA
1 TA-A TAA TAA TAA TAA TAA TA
83468812 CAAAAGAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
2 1 0.02
3 47 0.84
4 7 0.12
5 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:83469000 original size:22 final size:24
Alignment explanation
Indices: 83468954--83469002 Score: 75
Period size: 22 Copynumber: 2.1 Consensus size: 24
83468944 AAATATACAC
*
83468954 TAATATTTATAAATGATAATCAAA
1 TAATATTTATAAATGATAATAAAA
83468978 TAATATTTA-AAATGA-AATAAAA
1 TAATATTTATAAATGATAATAAAA
83469000 TAA
1 TAA
83469003 CGAAAATACT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 9 0.38
23 6 0.25
24 9 0.38
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (24 bp):
TAATATTTATAAATGATAATAAAA
Found at i:83470622 original size:14 final size:15
Alignment explanation
Indices: 83470598--83470630 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
83470588 ACTACACATT
*
83470598 ATAATATAAATATTC
1 ATAATATAAATATCC
83470613 ATAA-ATAAATATCC
1 ATAATATAAATATCC
83470627 ATAA
1 ATAA
83470631 GGGTAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAATATAAATATCC
Found at i:83472424 original size:26 final size:26
Alignment explanation
Indices: 83472391--83472498 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
83472381 TGATACAAAT
83472391 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
83472417 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83472443 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
83472469 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83472495 TGAT
1 TGAT
83472499 GGGAATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:83475802 original size:14 final size:15
Alignment explanation
Indices: 83475783--83475819 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
83475773 ATAATTTAAA
83475783 ATATAATAATAAT-G
1 ATATAATAATAATAG
83475797 ATATAAT-ATAATAG
1 ATATAATAATAATAG
*
83475811 TTATAATAA
1 ATATAATAA
83475820 ATAAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 14 0.70
15 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (15 bp):
ATATAATAATAATAG
Found at i:83475899 original size:16 final size:17
Alignment explanation
Indices: 83475871--83475914 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 17
83475861 ACGAATAAGC
83475871 AGGGAAAGAAAGAAGGAAAA
1 AGGGAAAGAAA-AA-G-AAA
83475891 AGGGAAAGAAAAAGAAA
1 AGGGAAAGAAAAAGAAA
83475908 AGGGAAA
1 AGGGAAA
83475915 ATTAGGGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.42
18 1 0.04
19 2 0.08
20 11 0.46
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (17 bp):
AGGGAAAGAAAAAGAAA
Found at i:83499881 original size:61 final size:58
Alignment explanation
Indices: 83499770--83499909 Score: 167
Period size: 61 Copynumber: 2.4 Consensus size: 58
83499760 TTAATTCATA
* * * *
83499770 TAATAATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTGTA-TT
1 TAATAATAATTATATTAA-AATATGATTAAATTATATATTATTTTATTAAAATATATTT
*
83499828 TAATAATAATTATATTAAAATATGATTAAATTATTTATTTTTATTTTTATTAAAATATATTT
1 TAATAATAATTATATTAAAATATGATTAAATTA--TA-TATTA-TTTTATTAAAATATATTT
*
83499890 TAA-AATAATTTTATTAAAAT
1 TAATAATAATTATATTAAAAT
83499910 TTAATAACAA
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
57 13 0.18
58 18 0.25
59 2 0.03
60 4 0.06
61 29 0.41
62 5 0.07
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (58 bp):
TAATAATAATTATATTAAAATATGATTAAATTATATATTATTTTATTAAAATATATTT
Found at i:83500059 original size:16 final size:16
Alignment explanation
Indices: 83500038--83500092 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
83500028 GGAATTACTG
83500038 ATTACAGCTTTATTCC
1 ATTACAGCTTTATTCC
*
83500054 ATTACA-ATTCTATTCC
1 ATTACAGCTT-TATTCC
* *
83500070 ATTACAGCTCTATTCA
1 ATTACAGCTTTATTCC
83500086 ATTACAG
1 ATTACAG
83500093 TGAACCAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 2 0.06
16 30 0.91
17 1 0.03
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (16 bp):
ATTACAGCTTTATTCC
Found at i:83500520 original size:22 final size:20
Alignment explanation
Indices: 83500492--83500532 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 20
83500482 TTTAAGAATT
83500492 AAAATTAAATTTTAATTTTTAA
1 AAAATTAAA--TTAATTTTTAA
83500514 AAAATTAAATTAATTTTTA
1 AAAATTAAATTAATTTTTA
83500533 TTATTTTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
22 9 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AAAATTAAATTAATTTTTAA
Found at i:83503320 original size:51 final size:51
Alignment explanation
Indices: 83503244--83503358 Score: 194
Period size: 51 Copynumber: 2.3 Consensus size: 51
83503234 AATCGATGGA
* *
83503244 GGCTATCCACGACCATTTCACAATGCGAAGAGTAAACAGCTGAATGTAGGG
1 GGCTATCCACGGCCATTTCACAATGCAAAGAGTAAACAGCTGAATGTAGGG
*
83503295 GGCTATCCACGGCCATTTCACAATGCAAAGAGTAAACAGCTGAATGTCGGG
1 GGCTATCCACGGCCATTTCACAATGCAAAGAGTAAACAGCTGAATGTAGGG
*
83503346 GGCTATCTACGGC
1 GGCTATCCACGGC
83503359 TACTCCTTGC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.20
Consensus pattern (51 bp):
GGCTATCCACGGCCATTTCACAATGCAAAGAGTAAACAGCTGAATGTAGGG
Found at i:83507767 original size:18 final size:18
Alignment explanation
Indices: 83507752--83507787 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
83507742 TATATTTGAT
83507752 GAAAATTATTTATTTGTC
1 GAAAATTATTTATTTGTC
83507770 GAAAATTATTTATTTGTC
1 GAAAATTATTTATTTGTC
83507788 CATAAAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.50
Consensus pattern (18 bp):
GAAAATTATTTATTTGTC
Found at i:83509128 original size:26 final size:26
Alignment explanation
Indices: 83509092--83509201 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
83509082 TGATACAAAT
83509092 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
83509118 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
83509144 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
83509170 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
83509196 TGATAA
1 TGATAA
83509202 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:83510857 original size:27 final size:27
Alignment explanation
Indices: 83510822--83510957 Score: 136
Period size: 27 Copynumber: 5.0 Consensus size: 27
83510812 GCATCTTGGC
*
83510822 GGCTATGCCACAATTATCTGATCTGGT
1 GGCTCTGCCACAATTATCTGATCTGGT
* *
83510849 GGCTCTGCCAC-ATATATCTGTTCTGGC
1 GGCTCTGCCACAAT-TATCTGATCTGGT
* * * *
83510876 GGTTGTGCCACAAATATCTAATCTGGT
1 GGCTCTGCCACAATTATCTGATCTGGT
*
83510903 GGCTCTGCCAC-ATATATCTGTTCTGGT
1 GGCTCTGCCACAAT-TATCTGATCTGGT
83510930 GGCTCTGCCACGAA--ATCTGTATCTGGT
1 GGCTCTGCCAC-AATTATCTG-ATCTGGT
83510957 G
1 G
83510958 ACTTCGTCAC
Statistics
Matches: 88, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
26 8 0.09
27 78 0.89
28 1 0.01
29 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (27 bp):
GGCTCTGCCACAATTATCTGATCTGGT
Found at i:83510954 original size:54 final size:54
Alignment explanation
Indices: 83510818--83510957 Score: 201
Period size: 54 Copynumber: 2.6 Consensus size: 54
83510808 GGAAGCATCT
* *
83510818 TGGCGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTC
1 TGGCGGCTCTGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTTC
* * *
83510872 TGGCGGTTGTGCCACAAATATCTAATCTGGTGGCTCTGCCACATATATCTGTTC
1 TGGCGGCTCTGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTTC
* *
83510926 TGGTGGCTCTGCCACGAA-ATCTGTATCTGGTG
1 TGGCGGCTCTGCCACAAATATCTG-ATCTGGTG
83510958 ACTTCGTCAC
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
53 4 0.05
54 72 0.95
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (54 bp):
TGGCGGCTCTGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTTC
Found at i:83510969 original size:81 final size:79
Alignment explanation
Indices: 83510822--83510974 Score: 179
Period size: 81 Copynumber: 1.9 Consensus size: 79
83510812 GCATCTTGGC
*
83510822 GGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGCGGTTGTGCCAC
1 GGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGCGCTTGT-CCAC
83510887 AAATATCTAATCTGGT
65 -AATATCTAATCTGGT
* * *
83510903 GGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACGA-A-ATCTGTATCTGGTGACTTCGT
1 GGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCAC-ATATATCTGT-TCTGGCG-CTT-GT
83510965 -CACAATATCT
61 CCACAATATCT
83510975 GCAGCCTCGC
Statistics
Matches: 63, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
80 15 0.24
81 43 0.68
82 3 0.05
83 2 0.03
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (79 bp):
GGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGCGCTTGTCCACA
ATATCTAATCTGGT
Found at i:83510974 original size:27 final size:26
Alignment explanation
Indices: 83510827--83510975 Score: 122
Period size: 27 Copynumber: 5.5 Consensus size: 26
83510817 TTGGCGGCTA
* *
83510827 TGCCACAATTATCTGATCTGGTGGCTC
1 TGCCACAA-TATCTGTTCTGGTGACTC
* ** *
83510854 TGCCACATATATCTGTTCTGGCGGTTG
1 TGCCACA-ATATCTGTTCTGGTGACTC
** *
83510881 TGCCACAAATATCTAATCTGGTGGCTC
1 TGCCAC-AATATCTGTTCTGGTGACTC
*
83510908 TGCCACATATATCTGTTCTGGTGGCTC
1 TGCCACA-ATATCTGTTCTGGTGACTC
83510935 TGCCACGAA-ATCTGTATCTGGTGACT-
1 TGCCAC-AATATCTGT-TCTGGTGACTC
*
83510961 TCGTCACAATATCTG
1 T-GCCACAATATCTG
83510976 CAGCCTCGCT
Statistics
Matches: 102, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
26 10 0.10
27 89 0.87
28 3 0.03
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGACTC
Found at i:83514966 original size:26 final size:26
Alignment explanation
Indices: 83514930--83515039 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
83514920 TGATACAAAT
83514930 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
83514956 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
83514982 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
83515008 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
83515034 TGATAA
1 TGATAA
83515040 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:83516688 original size:27 final size:27
Alignment explanation
Indices: 83516648--83516789 Score: 173
Period size: 27 Copynumber: 5.2 Consensus size: 27
83516638 AGGAAGCGTC
*
83516648 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
83516675 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
83516702 CTGGTGGCTGTGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* *
83516729 CTGGTGGCTTTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
83516756 CTGGTGGCTCTGCCACGAA-TATCTGTAT
1 CTGGTGGCTCTGCCAC-AATTATCTG-AT
83516784 CTGGTG
1 CTGGTG
83516790 ACTTCGTCAC
Statistics
Matches: 99, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
26 3 0.03
27 87 0.88
28 8 0.08
29 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:83516730 original size:54 final size:54
Alignment explanation
Indices: 83516648--83516789 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
83516638 AGGAAGCGTC
*
83516648 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
83516702 CTGGTGGCTGTGCCACAAATATCTGATCTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
83516756 CTGGTGGCTCTGCCACGAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACAAATATCTG-ATCTGGTG
83516790 ACTTCGTCAC
Statistics
Matches: 82, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
54 74 0.90
55 8 0.10
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:83516803 original size:27 final size:27
Alignment explanation
Indices: 83516648--83516806 Score: 154
Period size: 27 Copynumber: 5.9 Consensus size: 27
83516638 AGGAAGCGTC
83516648 CTGGTGGCTAT-GCCACAATTATCTG-AT
1 CTGGTGGCT-TCGCCACAA-TATCTGTAT
83516675 CTGGTGGC-TCTGCCACATATATCTGT-T
1 CTGGTGGCTTC-GCCACA-ATATCTGTAT
83516702 CTGGTGGCTGT-GCCACAAATATCTG-AT
1 CTGGTGGCT-TCGCCAC-AATATCTGTAT
*
83516729 CTGGTGGCTTTGCCACATATATCTGT-T
1 CTGGTGGCTTCGCCACA-ATATCTGTAT
83516756 CTGGTGGC-TCTGCCACGAATATCTGTAT
1 CTGGTGGCTTC-GCCAC-AATATCTGTAT
* *
83516784 CTGGTGACTTCGTCACAATATCT
1 CTGGTGGCTTCGCCACAATATCT
83516807 AGCAGCCTCG
Statistics
Matches: 114, Mismatches: 3, Indels: 30
0.78 0.02 0.20
Matches are distributed among these distances:
25 1 0.01
26 3 0.03
27 92 0.81
28 15 0.13
29 3 0.03
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTTCGCCACAATATCTGTAT
Found at i:83516805 original size:54 final size:53
Alignment explanation
Indices: 83516648--83516806 Score: 214
Period size: 54 Copynumber: 2.9 Consensus size: 53
83516638 AGGAAGCGTC
83516648 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGC-TCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAA-TATCTGATCTGGTGGCTTC-GCCACATATATCTGTT
* *
83516702 CTGGTGGCTGTGCCACAAATATCTGATCTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-AATATCTGATCTGGTGGCTTCGCCACATATATCTGTT
* * *
83516756 CTGGTGGCTCTGCCACGAATATCTGTATCTGGTGACTTCGTCACA-ATATCT
1 CTGGTGGCTATGCCAC-AATATCTG-ATCTGGTGGCTTCGCCACATATATCT
83516807 AGCAGCCTCG
Statistics
Matches: 95, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
54 76 0.80
55 19 0.20
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATATCTGATCTGGTGGCTTCGCCACATATATCTGTT
Found at i:83519343 original size:17 final size:18
Alignment explanation
Indices: 83519321--83519355 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
83519311 GCTTCACGGC
*
83519321 AACGATA-CATCAAGTTT
1 AACGATACCATAAAGTTT
83519338 AACGATACCATAAAGTTT
1 AACGATACCATAAAGTTT
83519356 TTTGGCTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (18 bp):
AACGATACCATAAAGTTT
Found at i:83520909 original size:137 final size:137
Alignment explanation
Indices: 83520675--83520949 Score: 478
Period size: 137 Copynumber: 2.0 Consensus size: 137
83520665 GCCCATTCAA
* * *
83520675 GTAACAGTGGTACTGGGCCAGAGCTCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
1 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTAGGCCTTAGCCCCTTATTC
* * *
83520740 AGGTAACATTATGGCCTATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
66 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
83520805 CATTTGG
131 CATTTGG
*
83520812 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTAGGCCTTAGCCCCTTATTG
1 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTAGGCCTTAGCCCCTTATTC
*
83520877 AGATAACAGTATGGCCCATTGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
66 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
83520942 CATTTGG
131 CATTTGG
83520949 G
1 G
83520950 GAGACTACTC
Statistics
Matches: 130, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
137 130 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (137 bp):
GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTAGGCCTTAGCCCCTTATTC
AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
CATTTGG
Found at i:83522765 original size:26 final size:26
Alignment explanation
Indices: 83522734--83522841 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
83522724 TGAAATTCCC
* *
83522734 ATCATGGAATATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
83522760 ATCATGGAACATTTATCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
83522786 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
83522812 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
83522838 ATCA
1 ATCA
83522842 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:83522791 original size:52 final size:52
Alignment explanation
Indices: 83522734--83522841 Score: 198
Period size: 52 Copynumber: 2.1 Consensus size: 52
83522724 TGAAATTCCC
*
83522734 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTATCTAACCCATT
1 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
*
83522786 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
83522838 ATCA
1 ATCA
83522842 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (52 bp):
ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:83524815 original size:21 final size:22
Alignment explanation
Indices: 83524791--83524835 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
83524781 ATGTATTATT
83524791 TATAAAA-AATTATATATG-AAA
1 TATAAAATAATTAT-TATGTAAA
*
83524812 TATAAAATTATTATTATGTAAA
1 TATAAAATAATTATTATGTAAA
83524834 TA
1 TA
83524836 ATTAAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (22 bp):
TATAAAATAATTATTATGTAAA
Found at i:83524834 original size:22 final size:21
Alignment explanation
Indices: 83524796--83524844 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 21
83524786 TTATTTATAA
83524796 AAAATTATATATGAAAT-A-T
1 AAAATTATATATGAAATAATT
83524815 AAAATTATTATTATGTAAATAATT
1 AAAATTA-TA-TATG-AAATAATT
83524839 AAAATT
1 AAAATT
83524845 TACTATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.28
20 2 0.08
21 4 0.16
22 4 0.16
23 1 0.04
24 7 0.28
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (21 bp):
AAAATTATATATGAAATAATT
Found at i:83525011 original size:21 final size:20
Alignment explanation
Indices: 83524987--83525025 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
83524977 ATTTACTGAT
*
83524987 TTTTTATAGATTTCTTTAATG
1 TTTTTATAGAATT-TTTAATG
83525008 TTTTTATAGAATTTTTAA
1 TTTTTATAGAATTTTTAA
83525026 AATTTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.62
Consensus pattern (20 bp):
TTTTTATAGAATTTTTAATG
Found at i:83525032 original size:21 final size:20
Alignment explanation
Indices: 83524985--83525033 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
83524975 GTATTTACTG
*
83524985 ATTTTTTATAGATTTCTTTA
1 ATTTTTTATAGATTTCTTAA
83525005 ATGTTTTTATAGAATTT-TTAA
1 AT-TTTTTATAG-ATTTCTTAA
*
83525026 AATTTTTA
1 ATTTTTTA
83525034 AAATTTTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 8 0.32
21 13 0.52
22 4 0.16
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (20 bp):
ATTTTTTATAGATTTCTTAA
Found at i:83525501 original size:19 final size:19
Alignment explanation
Indices: 83525477--83525520 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
83525467 TAAATTTTAA
83525477 AATTTTTATAAA-TATTTTG
1 AATTTTTA-AAATTATTTTG
83525496 AA-TTTTAAAATTATTTTG
1 AATTTTTAAAATTATTTTG
83525514 AATTTTT
1 AATTTTT
83525521 TTTTTGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.13
18 14 0.61
19 6 0.26
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
AATTTTTAAAATTATTTTG
Found at i:83526144 original size:15 final size:12
Alignment explanation
Indices: 83526124--83526155 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
83526114 TTTAATTAAT
83526124 AAATTATTAAAA
1 AAATTATTAAAA
*
83526136 ATATTATTAAAA
1 AAATTATTAAAA
83526148 AAATTATT
1 AAATTATT
83526156 CAACTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AAATTATTAAAA
Found at i:83526279 original size:16 final size:16
Alignment explanation
Indices: 83526258--83526288 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
83526248 ATAAAATGTT
83526258 ACAACATTGGGCCAAA
1 ACAACATTGGGCCAAA
*
83526274 ACAACATTGGTCCAA
1 ACAACATTGGGCCAA
83526289 GACCAGTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.26, G:0.16, T:0.16
Consensus pattern (16 bp):
ACAACATTGGGCCAAA
Found at i:83532641 original size:31 final size:30
Alignment explanation
Indices: 83532606--83532673 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
83532596 CATTTAGGGG
* *
83532606 TAAAACTGTATTTTAATCTTCTTAAAAACAA
1 TAAAAATGTAATTTAATCTT-TTAAAAACAA
* * **
83532637 TAAAAATTTAATTTGATCTTTTAAAAATTA
1 TAAAAATGTAATTTAATCTTTTAAAAACAA
83532667 TAAAAAT
1 TAAAAAT
83532674 ATAAATTATT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
30 15 0.48
31 16 0.52
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (30 bp):
TAAAAATGTAATTTAATCTTTTAAAAACAA
Found at i:83532681 original size:15 final size:17
Alignment explanation
Indices: 83532660--83532701 Score: 61
Period size: 15 Copynumber: 2.6 Consensus size: 17
83532650 TGATCTTTTA
83532660 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
83532676 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
83532692 AAAATTATAA
1 AAAATTATAA
83532702 TTTTACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 12 0.55
16 2 0.09
17 8 0.36
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:83533255 original size:22 final size:22
Alignment explanation
Indices: 83533232--83533274 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
83533222 TTAATAGATA
*
83533232 AAAATAAAATTAT-TAAATATT
1 AAAATAAAATAATATAAATATT
*
83533253 AAATTAAAATAATATAAATATT
1 AAAATAAAATAATATAAATATT
83533275 TTTTTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AAAATAAAATAATATAAATATT
Found at i:83534226 original size:14 final size:14
Alignment explanation
Indices: 83534204--83534238 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
83534194 ATATACACAT
83534204 TAAAAATATAAAAA
1 TAAAAATATAAAAA
* *
83534218 TATAAATATAAATA
1 TAAAAATATAAAAA
83534232 TAAAAAT
1 TAAAAAT
83534239 TCAGAAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAAAATATAAAAA
Found at i:83534607 original size:41 final size:41
Alignment explanation
Indices: 83534547--83534630 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
83534537 TTGAAGAGAA
* *
83534547 GTTTATTTATTCATTTTGGATTATTAGATGTGATGAATTTG
1 GTTTATTTATTCATATTGGAATATTAGATGTGATGAATTTG
*
83534588 GTTTATTTATTCATATTGGAATCTTAGATGTGATGAATTTG
1 GTTTATTTATTCATATTGGAATATTAGATGTGATGAATTTG
83534629 GT
1 GT
83534631 ATAGTTTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.25, C:0.04, G:0.20, T:0.51
Consensus pattern (41 bp):
GTTTATTTATTCATATTGGAATATTAGATGTGATGAATTTG
Found at i:83536410 original size:2 final size:2
Alignment explanation
Indices: 83536397--83536433 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
83536387 GGATCTTCTA
*
83536397 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
83536434 ATTAGTATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:83543259 original size:6 final size:6
Alignment explanation
Indices: 83543248--83543281 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
83543238 ATAAAATATA
*
83543248 ATAATT ATAATT ATAATT ATAATT ATAACT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAA
83543282 AAAATCACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (6 bp):
ATAATT
Found at i:83544778 original size:24 final size:24
Alignment explanation
Indices: 83544751--83544800 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
83544741 TAAAAACTAG
* *
83544751 TTTCTATTGCTTTTGGATTGCTTT
1 TTTCTATTGATTTTGGAATGCTTT
*
83544775 TTTCTGTTGATTTTGGAATGCTTT
1 TTTCTATTGATTTTGGAATGCTTT
83544799 TT
1 TT
83544801 CTTTTTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.10, C:0.10, G:0.18, T:0.62
Consensus pattern (24 bp):
TTTCTATTGATTTTGGAATGCTTT
Found at i:83546868 original size:11 final size:11
Alignment explanation
Indices: 83546842--83546909 Score: 52
Period size: 11 Copynumber: 6.4 Consensus size: 11
83546832 AAATGGTAGC
*
83546842 AAAATAGTGA-
1 AAAATAGTAAG
*
83546852 AAAATAATAAG
1 AAAATAGTAAG
* *
83546863 AAAATAGCAAC
1 AAAATAGTAAG
*
83546874 AAAATAGTAAC
1 AAAATAGTAAG
*
83546885 AAACA-A-CAAG
1 AAA-ATAGTAAG
83546895 AAAATAGTAAG
1 AAAATAGTAAG
83546906 AAAA
1 AAAA
83546910 AAACAACAGT
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
9 1 0.02
10 14 0.31
11 29 0.64
12 1 0.02
ACGTcount: A:0.68, C:0.07, G:0.12, T:0.13
Consensus pattern (11 bp):
AAAATAGTAAG
Found at i:83546877 original size:32 final size:32
Alignment explanation
Indices: 83546841--83546901 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
83546831 GAAATGGTAG
* *
83546841 CAAAATAGTGAA-AAATAATAAGAAAATAGCAA
1 CAAAATAGT-AACAAACAACAAGAAAATAGCAA
83546873 CAAAATAGTAACAAACAACAAGAAAATAG
1 CAAAATAGTAACAAACAACAAGAAAATAG
83546902 TAAGAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 2 0.08
32 24 0.92
ACGTcount: A:0.66, C:0.10, G:0.11, T:0.13
Consensus pattern (32 bp):
CAAAATAGTAACAAACAACAAGAAAATAGCAA
Found at i:83549713 original size:24 final size:23
Alignment explanation
Indices: 83549686--83549745 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
83549676 TGGATGTATG
83549686 TATATAAATAGTTATTATTTAATA
1 TATATAAATA-TTATTATTTAATA
* *
83549710 TATAATTAATATTATTATTTTATA
1 TAT-ATAAATATTATTATTTAATA
83549734 -ATATAATATATT
1 TATATAA-ATATT
83549746 CGGGTTAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 3 0.10
23 7 0.23
24 15 0.48
25 6 0.19
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TATATAAATATTATTATTTAATA
Found at i:83549724 original size:21 final size:21
Alignment explanation
Indices: 83549698--83549742 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
83549688 TATAAATAGT
83549698 TATTATTTAATATATAAT-TAA
1 TATTA-TTAATATATAATATAA
* *
83549719 TATTATTATTTTATAATATAA
1 TATTATTAATATATAATATAA
83549740 TAT
1 TAT
83549743 ATTCGGGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TATTATTAATATATAATATAA
Found at i:83549731 original size:25 final size:25
Alignment explanation
Indices: 83549692--83549740 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
83549682 TATGTATATA
83549692 AATAGTTATTATTTA-ATATATAATT
1 AATAGTTATTATTTATA-ATATAATT
83549717 AATA-TTATTATTTTATAATATAAT
1 AATAGTTATTA-TTTATAATATAAT
83549741 ATATTCGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 6 0.27
25 15 0.68
26 1 0.05
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
AATAGTTATTATTTATAATATAATT
Found at i:83551330 original size:135 final size:136
Alignment explanation
Indices: 83551087--83551370 Score: 525
Period size: 135 Copynumber: 2.1 Consensus size: 136
83551077 TATTGGGCCT
** *
83551087 AAGCCCATTCAGGTAACAGTGGTACAGGGCCAGAGCCCTTTTCAGATTACAATAAAGTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACAGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
83551152 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
83551217 ATATGC
131 ATATGC
*
83551223 AAGCCCATTTGGGTAACAGTGGTACTGGG-CAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACAGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
83551287 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
83551352 ATATGC
131 ATATGC
83551358 AAGCCCATTTGGG
1 AAGCCCATTTGGG
83551371 GAGACTACTC
Statistics
Matches: 144, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
135 118 0.82
136 26 0.18
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACAGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:83551655 original size:25 final size:27
Alignment explanation
Indices: 83551618--83551671 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
83551608 TCAAACATGC
83551618 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
83551644 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
83551670 AT
1 AT
83551672 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:83553188 original size:26 final size:26
Alignment explanation
Indices: 83553152--83553261 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
83553142 CATGAATTTC
*
83553152 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
83553178 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
83553204 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
83553230 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
83553256 TTATCA
1 TTATCA
83553262 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:83554068 original size:17 final size:17
Alignment explanation
Indices: 83554043--83554105 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 17
83554033 TAACCGTAAA
83554043 TATAATAAATATTTTAT
1 TATAATAAATATTTTAT
* ** * *
83554060 TATATTAAA-AAATAAA
1 TATAATAAATATTTTAT
*
83554076 TATAAAAAATATTTTAT
1 TATAATAAATATTTTAT
*
83554093 TATATTAAATATT
1 TATAATAAATATT
83554106 ATTTTAAAAG
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
16 10 0.31
17 22 0.69
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TATAATAAATATTTTAT
Found at i:83554079 original size:33 final size:33
Alignment explanation
Indices: 83554039--83554101 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
83554029 AACATAACCG
*
83554039 TAAATATAATAAATATTTTATTATATTAAAAAA
1 TAAATATAAAAAATATTTTATTATATTAAAAAA
83554072 TAAATATAAAAAATATTTTATTATATTAAA
1 TAAATATAAAAAATATTTTATTATATTAAA
83554102 TATTATTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (33 bp):
TAAATATAAAAAATATTTTATTATATTAAAAAA
Found at i:83560077 original size:11 final size:11
Alignment explanation
Indices: 83560063--83560087 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
83560053 GTAAAGTAAA
83560063 TTTCTTCCCAT
1 TTTCTTCCCAT
83560074 TTTCTTCCCAT
1 TTTCTTCCCAT
83560085 TTT
1 TTT
83560088 TTAAACTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.32, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTCTTCCCAT
Found at i:83563200 original size:5 final size:5
Alignment explanation
Indices: 83563190--83563249 Score: 97
Period size: 5 Copynumber: 12.2 Consensus size: 5
83563180 AAGTATAAAT
83563190 TTATA TTATA TTATA TT-TCA TTATA TTATA TTATA -TATA TTATA TTATA
1 TTATA TTATA TTATA TTAT-A TTATA TTATA TTATA TTATA TTATA TTATA
83563239 TTATA TTATA T
1 TTATA TTATA T
83563250 ATAATAAAAC
Statistics
Matches: 52, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
4 5 0.10
5 46 0.88
6 1 0.02
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:83563296 original size:25 final size:24
Alignment explanation
Indices: 83563252--83563298 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
83563242 TATTATATAT
83563252 AATAAAACAAATAAAGAAAGAATA
1 AATAAAACAAATAAAGAAAGAATA
*
83563276 AATAAATAGAAATAGAA-AAAGAA
1 AATAAA-ACAAATA-AAGAAAGAA
83563299 AGCCAAAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 6 0.30
25 12 0.60
26 2 0.10
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.13
Consensus pattern (24 bp):
AATAAAACAAATAAAGAAAGAATA
Found at i:83563336 original size:25 final size:25
Alignment explanation
Indices: 83563308--83563355 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
83563298 AAGCCAAAGC
* * *
83563308 AGAAACGAAATAGAGAAGGAAAGAA
1 AGAAAAGAAAAAGAGAAAGAAAGAA
83563333 AGAAAAGAAAAAGAGAAAGAAAG
1 AGAAAAGAAAAAGAGAAAGAAAG
83563356 GAGAAAAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.69, C:0.02, G:0.27, T:0.02
Consensus pattern (25 bp):
AGAAAAGAAAAAGAGAAAGAAAGAA
Found at i:83563776 original size:29 final size:29
Alignment explanation
Indices: 83563743--83563809 Score: 116
Period size: 29 Copynumber: 2.3 Consensus size: 29
83563733 TTTAGGGACT
83563743 AAATTAAAATTTAGGCAAATATTAAGTAA
1 AAATTAAAATTTAGGCAAATATTAAGTAA
* *
83563772 AAATTGAAATTTAGGCAAATATTGAGTAA
1 AAATTAAAATTTAGGCAAATATTAAGTAA
83563801 AAATTAAAA
1 AAATTAAAA
83563810 ATTTTCAGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.55, C:0.03, G:0.12, T:0.30
Consensus pattern (29 bp):
AAATTAAAATTTAGGCAAATATTAAGTAA
Found at i:83566493 original size:21 final size:21
Alignment explanation
Indices: 83566469--83566512 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
83566459 GGAACTATTA
*
83566469 AAAGACTATGATTTGGTTATC
1 AAAGACTATGATTTGATTATC
83566490 AAAGACTATGATTTGATTATC
1 AAAGACTATGATTTGATTATC
83566511 AA
1 AA
83566513 CTATCATCCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (21 bp):
AAAGACTATGATTTGATTATC
Found at i:83581304 original size:3 final size:3
Alignment explanation
Indices: 83581277--83581341 Score: 98
Period size: 3 Copynumber: 21.7 Consensus size: 3
83581267 AGTTAAGATA
83581277 ATT ATT -TT ATT AATT -TT ACTT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT -ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
83581322 ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT AT
83581342 GGTTATCTTG
Statistics
Matches: 58, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.07
3 48 0.83
4 6 0.10
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:83584758 original size:14 final size:13
Alignment explanation
Indices: 83584734--83584781 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
83584724 CAAAATGTAC
83584734 AATATAATTAAAT
1 AATATAATTAAAT
83584747 AATATAAATTAAAT
1 AATAT-AATTAAAT
83584761 --TA-AATTAAAT
1 AATATAATTAAAT
*
83584771 AATTTAATTAA
1 AATATAATTAA
83584782 TTATATACCC
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
10 8 0.27
12 3 0.10
13 11 0.37
14 8 0.27
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AATATAATTAAAT
Found at i:83584772 original size:19 final size:18
Alignment explanation
Indices: 83584739--83584781 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
83584729 TGTACAATAT
83584739 AATTAAATAATATAAATTA
1 AATTAAATAATAT-AATTA
*
83584758 AATTAAATTAA-ATAATTT
1 AATTAAA-TAATATAATTA
83584776 AATTAA
1 AATTAA
83584782 TTATATACCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 10 0.45
19 9 0.41
20 3 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATTAAATAATATAATTA
Found at i:83586385 original size:40 final size:40
Alignment explanation
Indices: 83586341--83586525 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
83586331 CTACTCGTTT
*
83586341 AAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTAGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTAGCAC
* * *
83586381 AAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGCAC
* *
83586421 AAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCAC
1 AAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTAGCAC
* * * * *
83586461 GAATGCCTTC-GGATCTTAGTCTGGATATAGTCACTTAGCAC
1 AAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TAGCAC
83586502 AAA-GCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGA
83586526 CATCATTCGA
Statistics
Matches: 126, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.02
40 111 0.88
41 12 0.10
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGCAC
Found at i:83593685 original size:48 final size:48
Alignment explanation
Indices: 83593588--83593686 Score: 112
Period size: 48 Copynumber: 2.1 Consensus size: 48
83593578 ATTCATAAGT
* ** *
83593588 TGTCTAAACTGGTGCTTAGGTGCTGTCCATTTTTGAGCATATAATTGC
1 TGTCCAAACTGGTGCTTAAATGCTGTCCATTTTTGAGCAAATAATTGC
* *
83593636 TGTCCAAATTGGTGCTTAAATGCTGTCGATTTTTGTA-CAAATTAA-TGC
1 TGTCCAAACTGGTGCTTAAATGCTGTCCATTTTTG-AGCAAA-TAATTGC
83593684 TGT
1 TGT
83593687 TCGAATGTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
48 39 0.91
49 4 0.09
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.40
Consensus pattern (48 bp):
TGTCCAAACTGGTGCTTAAATGCTGTCCATTTTTGAGCAAATAATTGC
Found at i:83594071 original size:68 final size:69
Alignment explanation
Indices: 83593992--83594138 Score: 188
Period size: 68 Copynumber: 2.1 Consensus size: 69
83593982 ATTGCTTGTG
* * * * *
83593992 CAAATTTGTTAAATTCACTGTCCTAATGTCCCGTCATTTATGTTGTTTTA-TTAGTCAATAAAGC
1 CAAATGTGTTAAATTCACTGTCCAAATGTCCCGTCAATTATGTGGTTTTATTTAATCAATAAAGC
83594056 TATC
66 TATC
* * * *
83594060 CAAATGTGTTAAATTCACTGTCCAAATGTGCTGTCAATTATGTGGTTTTATTTAATTAATTAAGC
1 CAAATGTGTTAAATTCACTGTCCAAATGTCCCGTCAATTATGTGGTTTTATTTAATCAATAAAGC
* *
83594125 TGTT
66 TATC
83594129 CAAATGTGTT
1 CAAATGTGTT
83594139 GATTTTCACT
Statistics
Matches: 67, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
68 44 0.66
69 23 0.34
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (69 bp):
CAAATGTGTTAAATTCACTGTCCAAATGTCCCGTCAATTATGTGGTTTTATTTAATCAATAAAGC
TATC
Found at i:83595935 original size:11 final size:11
Alignment explanation
Indices: 83595875--83595922 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
83595865 AAATTGTAGC
*
83595875 AAAATAGTGAA
1 AAAATAGTAAA
* *
83595886 AAAATAATAAG
1 AAAATAGTAAA
* *
83595897 AAAATAGCAAC
1 AAAATAGTAAA
83595908 AAAATAGTAAA
1 AAAATAGTAAA
83595919 AAAA
1 AAAA
83595923 AAAATAGTAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.71, C:0.04, G:0.10, T:0.15
Consensus pattern (11 bp):
AAAATAGTAAA
Found at i:83596250 original size:60 final size:59
Alignment explanation
Indices: 83596125--83596252 Score: 134
Period size: 60 Copynumber: 2.1 Consensus size: 59
83596115 AAAAAATTGG
* * *
83596125 TAATTAAATTGATAGAATTTAAAAATATAGAGAATTAAAATTTATTAAAATTTTTAAAA
1 TAATTAAATTGATAGAATATAAAAATATAGAGAATTAAAATTAATTAAAATGTTTAAAA
** * * *
83596184 TCAATTAAATTGATA-AAGTATGTAAATATTGAGAATTAAATATGTAATTATAA-GTTTATAA
1 T-AATTAAATTGATAGAA-TATAAAAATATAGAGAATTAAA-AT-TAATTAAAATGTTTAAAA
83596245 TAATTAAA
1 TAATTAAA
83596253 AAAATCATAT
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
59 3 0.05
60 38 0.67
61 9 0.16
62 7 0.12
ACGTcount: A:0.52, C:0.01, G:0.09, T:0.39
Consensus pattern (59 bp):
TAATTAAATTGATAGAATATAAAAATATAGAGAATTAAAATTAATTAAAATGTTTAAAA
Found at i:83597611 original size:26 final size:26
Alignment explanation
Indices: 83597572--83597633 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
83597562 AAAAGAGGGA
83597572 ATTTGGATAACAAGACTTTCATTAAC
1 ATTTGGATAACAAGACTTTCATTAAC
* *
83597598 ATTTGGATATCAAGACTTTCATTAGC
1 ATTTGGATAACAAGACTTTCATTAAC
83597624 ATTTGGATAA
1 ATTTGGATAA
83597634 TAGTAGCTCG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (26 bp):
ATTTGGATAACAAGACTTTCATTAAC
Found at i:83597902 original size:32 final size:32
Alignment explanation
Indices: 83597859--83597925 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
83597849 AAAACTATTG
*
83597859 TAAATAAAATAAATATTTTATTATATTAAAAA
1 TAAATAAAATAAATATTATATTATATTAAAAA
* * * * *
83597891 TAAATATAATAATTGTTATATTGTATTAAATA
1 TAAATAAAATAAATATTATATTATATTAAAAA
83597923 TAA
1 TAA
83597926 TTTTTAAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (32 bp):
TAAATAAAATAAATATTATATTATATTAAAAA
Found at i:83598334 original size:21 final size:21
Alignment explanation
Indices: 83598308--83598363 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
83598298 CAAACAATGA
83598308 CAAAAAGTATTGATACCTTTT
1 CAAAAAGTATTGATACCTTTT
83598329 CAAAAAGTATCT-ATACCTTTT
1 CAAAAAGTAT-TGATACCTTTT
**
83598350 -AGCAAGTATTGATA
1 CAAAAAGTATTGATA
83598364 TCTCTGCTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 1 0.03
20 10 0.32
21 19 0.61
22 1 0.03
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (21 bp):
CAAAAAGTATTGATACCTTTT
Found at i:83601021 original size:29 final size:29
Alignment explanation
Indices: 83600987--83601043 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
83600977 AAACTACACA
83600987 GATAGTCACACAATCCGAACTACGTACCG
1 GATAGTCACACAATCCGAACTACGTACCG
*
83601016 GATAGTCACACAATCTGAACTACGTACC
1 GATAGTCACACAATCCGAACTACGTACC
83601044 ATGGATGCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.35, C:0.30, G:0.16, T:0.19
Consensus pattern (29 bp):
GATAGTCACACAATCCGAACTACGTACCG
Found at i:83603484 original size:8 final size:8
Alignment explanation
Indices: 83603473--83603499 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
83603463 AAAATAAAAT
83603473 AATTTTAA
1 AATTTTAA
83603481 AATTTTAA
1 AATTTTAA
83603489 AATTTTAA
1 AATTTTAA
83603497 AAT
1 AAT
83603500 GATTTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
AATTTTAA
Found at i:83603497 original size:27 final size:28
Alignment explanation
Indices: 83603467--83603540 Score: 82
Period size: 27 Copynumber: 2.7 Consensus size: 28
83603457 TACAAAAAAA
*
83603467 TAAAATAATTTTAAAATTTTAAAAT-TT
1 TAAAATAATTTTAAAATTTCAAAATATT
*
83603494 TAAAATGATTTTTAAAA-TTCAAAATATT
1 TAAAAT-AATTTTAAAATTTCAAAATATT
*
83603522 TATAAA-AATTCTAAAATTT
1 TA-AAATAATTTTAAAATTT
83603541 ATATTTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
27 21 0.54
28 15 0.38
29 3 0.08
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (28 bp):
TAAAATAATTTTAAAATTTCAAAATATT
Found at i:83603504 original size:19 final size:18
Alignment explanation
Indices: 83603473--83603538 Score: 57
Period size: 20 Copynumber: 3.6 Consensus size: 18
83603463 AAAATAAAAT
83603473 AATTTT-AAA-ATTTTAA
1 AATTTTAAAATATTTTAA
83603489 AATTTTAAAATGATTTTTAA
1 AATTTTAAAAT-A-TTTTAA
*
83603509 AA-TTCAAAATATTTATAAA
1 AATTTTAAAATATTT-T-AA
*
83603528 AATTCTAAAAT
1 AATTTTAAAAT
83603539 TTATATTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
16 6 0.15
17 6 0.15
18 2 0.05
19 12 0.30
20 14 0.35
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (18 bp):
AATTTTAAAATATTTTAA
Found at i:83603508 original size:20 final size:19
Alignment explanation
Indices: 83603483--83603538 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
83603473 AATTTTAAAA
83603483 TTTTAAAATTTTAAAATGAT
1 TTTTAAAATTTTAAAAT-AT
*
83603503 TTTTAAAA-TTCAAAATAT
1 TTTTAAAATTTTAAAATAT
* *
83603521 TTATAAAAATTCTAAAAT
1 TT-TTAAAATTTTAAAAT
83603539 TTATATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
18 4 0.13
19 12 0.40
20 14 0.47
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (19 bp):
TTTTAAAATTTTAAAATAT
Found at i:83603527 original size:18 final size:18
Alignment explanation
Indices: 83603482--83603543 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
83603472 TAATTTTAAA
*
83603482 ATTT-TAAAATTTTAAAAT
1 ATTTATAAAA-TTCAAAAT
*
83603500 GATTTTTAAAATTCAAAAT
1 -ATTTATAAAATTCAAAAT
*
83603519 ATTTATAAAAATTCTAAA-
1 ATTTAT-AAAATTCAAAAT
83603537 ATTTATA
1 ATTTATA
83603544 TTTTTTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
17 1 0.03
18 11 0.29
19 21 0.55
20 5 0.13
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTTATAAAATTCAAAAT
Found at i:83603574 original size:11 final size:10
Alignment explanation
Indices: 83603551--83603590 Score: 62
Period size: 10 Copynumber: 3.8 Consensus size: 10
83603541 ATATTTTTTT
83603551 AAAAATTATA
1 AAAAATTATA
83603561 AAAAATTATA
1 AAAAATTATA
83603571 AAAAATATATA
1 AAAAAT-TATA
83603582 AAGAAATTA
1 AA-AAATTA
83603591 AAACATTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 16 0.57
11 8 0.29
12 4 0.14
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (10 bp):
AAAAATTATA
Found at i:83603574 original size:19 final size:19
Alignment explanation
Indices: 83603550--83603602 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
83603540 TATATTTTTT
83603550 TAAAAATTATAAAAAATTA
1 TAAAAATTATAAAAAATTA
83603569 TAAAAAATATATAAAGAAATTA
1 T-AAAAAT-TATAAA-AAATTA
*
83603591 -AAACATT-TAAAA
1 TAAAAATTATAAAA
83603603 TTTCTAGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
17 1 0.03
18 4 0.13
19 2 0.07
20 11 0.37
21 6 0.20
22 6 0.20
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (19 bp):
TAAAAATTATAAAAAATTA
Found at i:83610169 original size:10 final size:10
Alignment explanation
Indices: 83610156--83610194 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
83610146 AATTACAAAA
83610156 AAAATAATTC
1 AAAATAATTC
*
83610166 AAAATAATTTT
1 AAAATAA-TTC
83610177 AAAA-AATTC
1 AAAATAATTC
83610186 AAAATAATT
1 AAAATAATT
83610195 TTTAAATTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 6 0.24
10 13 0.52
11 6 0.24
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATAATTC
Found at i:83610186 original size:20 final size:20
Alignment explanation
Indices: 83610156--83610229 Score: 89
Period size: 20 Copynumber: 3.7 Consensus size: 20
83610146 AATTACAAAA
83610156 AAAATAATTCAAAATAATTTT
1 AAAA-AATTCAAAATAATTTT
83610177 AAAAAATTCAAAATAATTTT
1 AAAAAATTCAAAATAATTTT
* *
83610197 -TAAATTTCAAAAT-ATTTGT
1 AAAAAATTCAAAATAATTT-T
*
83610216 AAAAATTTCAAAAT
1 AAAAAATTCAAAAT
83610230 TTACATTTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.08
19 12 0.25
20 28 0.58
21 4 0.08
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.38
Consensus pattern (20 bp):
AAAAAATTCAAAATAATTTT
Found at i:83610280 original size:19 final size:17
Alignment explanation
Indices: 83610238--83610280 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
83610228 ATTTACATTT
*
83610238 TTAAAAAATATAAAAAT
1 TTAAAAAATATAAAAAG
83610255 TTGAAAAAATTATAAAAAGG
1 TT-AAAAAA-TATAAAAA-G
83610275 TTAAAA
1 TTAAAA
83610281 TTTTAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 2 0.09
18 6 0.27
19 12 0.55
20 2 0.09
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (17 bp):
TTAAAAAATATAAAAAG
Found at i:83611010 original size:26 final size:27
Alignment explanation
Indices: 83610975--83611029 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
83610965 TAACTTGAAC
* *
83610975 AATTTTATTTGATTTGACT-TGACTTG
1 AATTTTATTTCACTTGACTCTGACTTG
*
83611001 AATTTTATTTCACTTGACTCTGATTTG
1 AATTTTATTTCACTTGACTCTGACTTG
83611028 AA
1 AA
83611030 AAAATTTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.25, C:0.11, G:0.13, T:0.51
Consensus pattern (27 bp):
AATTTTATTTCACTTGACTCTGACTTG
Found at i:83611026 original size:21 final size:21
Alignment explanation
Indices: 83610981--83611028 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
83610971 GAACAATTTT
*
83610981 ATTTGATTTGACTTGACTTGA
1 ATTTGATTTCACTTGACTTGA
*
83611002 ATTTTATTTCACTTGACTCTG-
1 ATTTGATTTCACTTGACT-TGA
83611023 ATTTGA
1 ATTTGA
83611029 AAAAATTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.23, C:0.12, G:0.15, T:0.50
Consensus pattern (21 bp):
ATTTGATTTCACTTGACTTGA
Found at i:83613379 original size:23 final size:23
Alignment explanation
Indices: 83613314--83613379 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
83613304 TTAATTGCTA
*
83613314 ACATGTCAT-ACACGCGAACATTC
1 ACATGT-ATGACACGCGACCATTC
*
83613337 ACATGTATGACATGCGACCATTC
1 ACATGTATGACACGCGACCATTC
*
83613360 ACATGTATGACACGCTACCA
1 ACATGTATGACACGCGACCA
83613380 AAGTTAACAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
22 2 0.05
23 36 0.95
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (23 bp):
ACATGTATGACACGCGACCATTC
Found at i:83620152 original size:7 final size:7
Alignment explanation
Indices: 83620140--83620235 Score: 57
Period size: 7 Copynumber: 13.7 Consensus size: 7
83620130 CAAATTTTAT
83620140 CCCTAAA
1 CCCTAAA
83620147 CCCTAAA
1 CCCTAAA
***
83620154 GTTTAAA
1 CCCTAAA
* *
83620161 CACTATA
1 CCCTAAA
*
83620168 TCCTAAA
1 CCCTAAA
83620175 CCCTAAA
1 CCCTAAA
* * *
83620182 TCATATA
1 CCCTAAA
*
83620189 CCTTAAA
1 CCCTAAA
*
83620196 TCCTAAA
1 CCCTAAA
*
83620203 CCCTGAA
1 CCCTAAA
* * *
83620210 TCATACA
1 CCCTAAA
83620217 CCCTAAA
1 CCCTAAA
83620224 CCCTAAA
1 CCCTAAA
83620231 CCCTA
1 CCCTA
83620236 TATATATTAC
Statistics
Matches: 61, Mismatches: 28, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
7 61 1.00
ACGTcount: A:0.41, C:0.33, G:0.02, T:0.24
Consensus pattern (7 bp):
CCCTAAA
Found at i:83620198 original size:28 final size:28
Alignment explanation
Indices: 83620141--83620235 Score: 102
Period size: 28 Copynumber: 3.4 Consensus size: 28
83620131 AAATTTTATC
* * * *
83620141 CCTAAACCCTAAAGT-TTAAACACTATAT
1 CCTAAACCCTAAA-TCATACACCCTAAAT
* *
83620169 CCTAAACCCTAAATCATATACCTTAAAT
1 CCTAAACCCTAAATCATACACCCTAAAT
* *
83620197 CCTAAACCCTGAATCATACACCCTAAAC
1 CCTAAACCCTAAATCATACACCCTAAAT
83620225 CCTAAACCCTA
1 CCTAAACCCTA
83620236 TATATATTAC
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
27 1 0.02
28 55 0.98
ACGTcount: A:0.41, C:0.33, G:0.02, T:0.24
Consensus pattern (28 bp):
CCTAAACCCTAAATCATACACCCTAAAT
Found at i:83620211 original size:14 final size:14
Alignment explanation
Indices: 83620141--83620235 Score: 84
Period size: 14 Copynumber: 6.8 Consensus size: 14
83620131 AAATTTTATC
83620141 CCTAAACCCTAAAGT
1 CCTAAACCCTAAA-T
* * *
83620156 -TTAAACACTATAT
1 CCTAAACCCTAAAT
83620169 CCTAAACCCTAAAT
1 CCTAAACCCTAAAT
* * *
83620183 CATATACCTTAAAT
1 CCTAAACCCTAAAT
*
83620197 CCTAAACCCTGAAT
1 CCTAAACCCTAAAT
* * *
83620211 CATACACCCTAAAC
1 CCTAAACCCTAAAT
83620225 CCTAAACCCTA
1 CCTAAACCCTA
83620236 TATATATTAC
Statistics
Matches: 60, Mismatches: 19, Indels: 3
0.73 0.23 0.04
Matches are distributed among these distances:
13 1 0.02
14 59 0.98
ACGTcount: A:0.41, C:0.33, G:0.02, T:0.24
Consensus pattern (14 bp):
CCTAAACCCTAAAT
Found at i:83626863 original size:12 final size:12
Alignment explanation
Indices: 83626846--83626870 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
83626836 AGACTAAATA
83626846 TGTTCCTATGTG
1 TGTTCCTATGTG
83626858 TGTTCCTATGTG
1 TGTTCCTATGTG
83626870 T
1 T
83626871 TAGGGACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.24, T:0.52
Consensus pattern (12 bp):
TGTTCCTATGTG
Found at i:83628739 original size:15 final size:16
Alignment explanation
Indices: 83628719--83628755 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
83628709 GGATTAAATT
83628719 ATTAAATAAA-TTAA-A
1 ATTAAA-AAATTTAAGA
83628734 ATTAAAAAATTTAAGA
1 ATTAAAAAATTTAAGA
83628750 ATTAAA
1 ATTAAA
83628756 GGGGCCAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 3 0.15
15 10 0.50
16 7 0.35
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
ATTAAAAAATTTAAGA
Found at i:83629602 original size:17 final size:19
Alignment explanation
Indices: 83629566--83629604 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
83629556 TTTTATGTGA
83629566 TTGAATTTTACTCATAAACT
1 TTGAATTTTACT-ATAAACT
83629586 TTGAATTTTA-T-TAAACT
1 TTGAATTTTACTATAAACT
83629603 TT
1 TT
83629605 TCCACACCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
19 1 0.05
20 10 0.53
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.51
Consensus pattern (19 bp):
TTGAATTTTACTATAAACT
Found at i:83631662 original size:26 final size:26
Alignment explanation
Indices: 83631625--83631760 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
83631615 TGATACAAAT
* *
83631625 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
83631651 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
83631677 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
83631703 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
83631729 TGATAATGGATTAGGTAAACGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
83631755 TGATAA
1 TGATAA
83631761 GAATATCATG
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:83633350 original size:21 final size:21
Alignment explanation
Indices: 83633311--83633350 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
83633301 CATGTTTGAC
*
83633311 TGTTGTTTTTACTGCATGCCA
1 TGTTGTTATTACTGCATGCCA
83633332 TGTTGTTATTATCTG-ATGC
1 TGTTGTTATTA-CTGCATGC
83633351 ATGGGATTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.15, C:0.15, G:0.20, T:0.50
Consensus pattern (21 bp):
TGTTGTTATTACTGCATGCCA
Found at i:83633830 original size:137 final size:137
Alignment explanation
Indices: 83633544--83633830 Score: 520
Period size: 137 Copynumber: 2.1 Consensus size: 137
83633534 GAGTAGTCTC
83633544 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
83633609 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCTAGTACC
66 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
83633674 ACTGTTA
131 ACTGTTA
*
83633681 CCCAAATAGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
83633746 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACT
66 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
83633811 ACTGTTA
131 ACTGTTA
**
83633818 CCTGAATGGGCTT
1 CCCAAATGGGCTT
83633831 AGGCCCAATG
Statistics
Matches: 143, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 143 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Done.