Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001561.1 Hibiscus syriacus cultivar Beakdansim tig00003090_pilon, whole genome shotgun sequence
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: 151830
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:3335 original size:16 final size:17
Alignment explanation
Indices: 3314--3349 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
3304 CCGAGATGTC
3314 ACATTGACTTTT-CAAA
1 ACATTGACTTTTACAAA
3330 ACATTGACTTTTACAAA
1 ACATTGACTTTTACAAA
3347 ACA
1 ACA
3350 ATTAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.33
Consensus pattern (17 bp):
ACATTGACTTTTACAAA
Found at i:4144 original size:41 final size:42
Alignment explanation
Indices: 4098--4181 Score: 116
Period size: 41 Copynumber: 2.0 Consensus size: 42
4088 GGCACATAGA
* * *
4098 ATTTGTCCCGAAGGACCACATA-TTGTCCCGGATGACCACAT
1 ATTTGTCCCGAAGGACCACATATTTATCCCGAAGGACCACAT
* *
4139 ATTTGTCCCGGAGGACCATATATTTATCCCGAAGGACCACAT
1 ATTTGTCCCGAAGGACCACATATTTATCCCGAAGGACCACAT
4181 A
1 A
4182 AAATCCTCGA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 20 0.54
42 17 0.46
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (42 bp):
ATTTGTCCCGAAGGACCACATATTTATCCCGAAGGACCACAT
Found at i:4146 original size:21 final size:21
Alignment explanation
Indices: 4098--4181 Score: 116
Period size: 21 Copynumber: 4.0 Consensus size: 21
4088 GGCACATAGA
4098 ATTTGTCCCGAAGGACCACAT
1 ATTTGTCCCGAAGGACCACAT
* *
4119 A-TTGTCCCGGATGACCACAT
1 ATTTGTCCCGAAGGACCACAT
* *
4139 ATTTGTCCCGGAGGACCATAT
1 ATTTGTCCCGAAGGACCACAT
*
4160 ATTTATCCCGAAGGACCACAT
1 ATTTGTCCCGAAGGACCACAT
4181 A
1 A
4182 AAATCCTCGA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
20 18 0.33
21 37 0.67
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (21 bp):
ATTTGTCCCGAAGGACCACAT
Found at i:6724 original size:81 final size:81
Alignment explanation
Indices: 6625--6957 Score: 522
Period size: 81 Copynumber: 4.1 Consensus size: 81
6615 GGACATTTAG
* * * *
6625 TCTTTTACCCAAAGGTATTTAACCTTTCATCTAACTGACATAATTGACACCTTTATGCCAAAGGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
* * * ** *
6690 ATAGTTAGACTTTTAG
66 ACAGCTAGGCCATTAA
* *
6706 TCTTTTACTCAAAGGTATTTAATCTTTCATCTAACTGGCATGATTGACACCTTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
6771 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
*
6787 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
6852 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
*
6868 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACAGGCATAATTGACACCTTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
* *
6933 AAAGCTAGGTCATTAA
66 ACAGCTAGGCCATTAA
6949 TCTTTTACT
1 TCTTTTACT
6958 TTAGAATTTT
Statistics
Matches: 233, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 233 1.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
ACAGCTAGGCCATTAA
Found at i:7874 original size:18 final size:18
Alignment explanation
Indices: 7851--7886 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
7841 ACTGAATATT
7851 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
7869 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
7887 ATAAATCCTC
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:0.28, C:0.33, G:0.22, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:8593 original size:35 final size:36
Alignment explanation
Indices: 8554--8625 Score: 110
Period size: 35 Copynumber: 2.0 Consensus size: 36
8544 GTTCAAAAGA
*
8554 TGGTATCGATACCATTCTT-AAGGTATCGGTACCCT
1 TGGTATCGATACCATTCTTCAAGGTATCAGTACCCT
**
8589 TGGTATCGATACTGTTCTTCAAGGTATCAGTACCCT
1 TGGTATCGATACCATTCTTCAAGGTATCAGTACCCT
8625 T
1 T
8626 TGAATTCCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 17 0.52
36 16 0.48
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (36 bp):
TGGTATCGATACCATTCTTCAAGGTATCAGTACCCT
Found at i:19326 original size:105 final size:105
Alignment explanation
Indices: 19138--19337 Score: 258
Period size: 105 Copynumber: 1.9 Consensus size: 105
19128 GAGTTGAGGG
* * * *
19138 TCTACGCGGTCCTTCGGGACATATAGGTATCCTATGGAACATCTATGAGGTCCTTTGCGACACAT
1 TCTACGCGGACCTTCGGGACATATAGATATCCTATGGAACATCTATGAAGTCCTTTGAGACACAT
* * *
19203 ATTTGGTCCTTAGCATATGTATATGATTCTTAAGGAATTT
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTT
* * * * * *
19243 TCTACGCGGACCTTCGGGATATATATATATTCTTTGGAACATGTGTGAAGT-CTTGTGAGACACA
1 TCTACGCGGACCTTCGGGACATATAGATATCCTATGGAACATCTATGAAGTCCTT-TGAGACACA
*
19307 TACTTGATCCCTAGTATATGTATATGATTCT
65 TACTTGATCCCTAGCATATGTATATGATTCT
19338 CAATGAATGA
Statistics
Matches: 80, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
104 3 0.04
105 77 0.96
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (105 bp):
TCTACGCGGACCTTCGGGACATATAGATATCCTATGGAACATCTATGAAGTCCTTTGAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTT
Found at i:19402 original size:23 final size:23
Alignment explanation
Indices: 19376--19443 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
19366 ATTATTATAT
*
19376 GGCACTACGGTGCAATTCTATGC
1 GGCACTACGGTGCAATTCTACGC
* *
19399 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
19422 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
19444 AGCTGTGGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:19495 original size:16 final size:17
Alignment explanation
Indices: 19474--19506 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19464 TGCACAACCT
19474 CTATAG-ACTCACATAC
1 CTATAGTACTCACATAC
*
19490 CTATAGTTCTCACATAC
1 CTATAGTACTCACATAC
19507 GTCCATGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.30, G:0.06, T:0.30
Consensus pattern (17 bp):
CTATAGTACTCACATAC
Found at i:24815 original size:22 final size:23
Alignment explanation
Indices: 24756--24823 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
24746 CATTATTATA
*
24756 TGGCACTACGGTACAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
* *
24779 CGGCACTCCGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
*
24802 TGGCACT-CGGTGCAATTATACG
1 TGGCACTACGGTGCAATTCTACG
24824 AGCTGTGGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
22 14 0.35
23 26 0.65
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:24875 original size:16 final size:17
Alignment explanation
Indices: 24854--24886 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24844 TGCACAACCT
24854 CTATAG-ACTCACATAC
1 CTATAGTACTCACATAC
*
24870 CTATAGTTCTCACATAC
1 CTATAGTACTCACATAC
24887 GTCCATGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.30, G:0.06, T:0.30
Consensus pattern (17 bp):
CTATAGTACTCACATAC
Found at i:44171 original size:30 final size:32
Alignment explanation
Indices: 44125--44202 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 32
44115 TTTAAATAGT
44125 TATTATATTTTATATT-AAT-ATAATTATATAAA
1 TATTAT-TTTT-TATTAAATAATAATTATATAAA
* *
44157 TATTATTTTTTATTAAAATAATATTTATATAAT
1 TATTATTTTTTATT-AAATAATAATTATATAAA
44190 TATTATTTATTTA
1 TATTATTT-TTTA
44203 ATTTATTAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
30 4 0.10
31 4 0.10
32 9 0.22
33 19 0.47
34 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (32 bp):
TATTATTTTTTATTAAATAATAATTATATAAA
Found at i:44194 original size:33 final size:30
Alignment explanation
Indices: 44115--44202 Score: 86
Period size: 33 Copynumber: 2.7 Consensus size: 30
44105 TCAGTTATTT
* *
44115 TTTAAATAGTTATTATATTTTATATTAATATA
1 TTTATATAATTATTAT-TTTT-TATTAATATA
* *
44147 ATTATATAAATATTATTTTTTATTAAAATAATA
1 TTTATATAATTATTATTTTTTATT--AAT-ATA
44180 TTTATATAATTATTATTTATTTA
1 TTTATATAATTATTATTT-TTTA
44203 ATTTATTAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
30 4 0.09
31 4 0.09
32 15 0.33
33 19 0.41
34 4 0.09
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (30 bp):
TTTATATAATTATTATTTTTTATTAATATA
Found at i:44391 original size:27 final size:26
Alignment explanation
Indices: 44361--44420 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
44351 ATTGTTATGT
*
44361 TTAATTTAAATTTATTATGAATTTATA
1 TTAATTTAAATTTATTAT-AATGTATA
** *
44388 TTAATTTTGATTTTTTATAATGTATA
1 TTAATTTAAATTTATTATAATGTATA
44414 TT-ATTTA
1 TTAATTTA
44421 GGATACTGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 4 0.14
26 9 0.32
27 15 0.54
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (26 bp):
TTAATTTAAATTTATTATAATGTATA
Found at i:46034 original size:21 final size:21
Alignment explanation
Indices: 46004--46076 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
45994 TATGTCATCT
*
46004 CCGCACGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
46025 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
* * *
46046 CCGCCA-TGTTATATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
46067 CCGCAGGGTT
1 CCGCAGGGTT
46077 TTATACCATA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
20 2 0.04
21 41 0.91
22 2 0.04
ACGTcount: A:0.18, C:0.34, G:0.23, T:0.25
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:46629 original size:34 final size:34
Alignment explanation
Indices: 46586--46692 Score: 160
Period size: 34 Copynumber: 3.1 Consensus size: 34
46576 ATAAATGTTT
46586 TTAAAATACAAATTATAGTATTCGAAATTTAAAA
1 TTAAAATACAAATTATAGTATTCGAAATTTAAAA
* * * *
46620 TTAAAATACAAATAATATTATTCAAAATTTAAAT
1 TTAAAATACAAATTATAGTATTCGAAATTTAAAA
* *
46654 TTAAAATATAAATTATAGTATTCGAAATTTAACA
1 TTAAAATACAAATTATAGTATTCGAAATTTAAAA
46688 TTAAA
1 TTAAA
46693 TTCAAGTTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 63 1.00
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.37
Consensus pattern (34 bp):
TTAAAATACAAATTATAGTATTCGAAATTTAAAA
Found at i:47295 original size:127 final size:127
Alignment explanation
Indices: 47115--47493 Score: 645
Period size: 127 Copynumber: 3.0 Consensus size: 127
47105 GCGCTTTAAA
* *
47115 GTCCCCTAAGGAATAATATGTATTGACATGAATAGTTTTCGGGGGACATAAGTGACATAATAGGG
1 GTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTTCCGGGGGACATAAGTGACATAATAGGG
*
47180 TAATGATATCATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCACG
66 TAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCACG
47242 GTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTTCCGGGGGACATAAGTGACATAATAGGG
1 GTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTTCCGGGGGACATAAGTGACATAATAGGG
* *
47307 TAATGATAACATATTCTCTGACAAAATAATGGAAGACGCGCCCCAGGGAACGCGCCTTCACG
66 TAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCACG
* ** *
47369 GTCCCCTAAGGAATAATAGG-ATTGACATGAATAGTTCCCAAGGGACATAAGCGACATAATAGGG
1 GTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTTCCGGGGGACATAAGTGACATAATAGGG
* *
47433 CAATAATAACATATTCTCTGACAAAATAATGGAAGGCGC-CCCCCGGGAACGCGCCTTCACG
66 TAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCACG
47494 TGAATAGTAC
Statistics
Matches: 239, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
125 21 0.09
126 76 0.32
127 142 0.59
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.22
Consensus pattern (127 bp):
GTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTTCCGGGGGACATAAGTGACATAATAGGG
TAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCACG
Found at i:60627 original size:54 final size:54
Alignment explanation
Indices: 60545--60666 Score: 217
Period size: 54 Copynumber: 2.3 Consensus size: 54
60535 TTACAAAGGG
* *
60545 ATGTACCGATACACTCTTGAATGCATCGATACACACCAACATCGAATGTATTTT
1 ATGTACCGATACACTCTTGAATGCATCGATACACACCAACATCAAATGCATTTT
*
60599 ATGTACCAATACACTCTTGAATGCATCGATACACACCAACATCAAATGCATTTT
1 ATGTACCGATACACTCTTGAATGCATCGATACACACCAACATCAAATGCATTTT
60653 ATGTACCGATACAC
1 ATGTACCGATACAC
60667 AACTGATGCA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.28
Consensus pattern (54 bp):
ATGTACCGATACACTCTTGAATGCATCGATACACACCAACATCAAATGCATTTT
Found at i:71806 original size:18 final size:19
Alignment explanation
Indices: 71779--71815 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
71769 ATATACAGAA
*
71779 AGTAAGTTAAT-TATAGTT
1 AGTAAATTAATATATAGTT
71797 AGTAAATTAATATATAGTT
1 AGTAAATTAATATATAGTT
71816 GATTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (19 bp):
AGTAAATTAATATATAGTT
Found at i:71848 original size:22 final size:22
Alignment explanation
Indices: 71818--71894 Score: 100
Period size: 22 Copynumber: 3.5 Consensus size: 22
71808 ATATAGTTGA
71818 TTAAAATATATTAATAAATTAT
1 TTAAAATATATTAATAAATTAT
* * * *
71840 TTAATATATATAAAGTAAGTTAA
1 TTAAAATATATTAA-TAAATTAT
71863 TTAAAATATATTAATAAATTAT
1 TTAAAATATATTAATAAATTAT
*
71885 TTAATATATA
1 TTAAAATATA
71895 GAAAGTATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 27 0.60
23 18 0.40
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (22 bp):
TTAAAATATATTAATAAATTAT
Found at i:71867 original size:45 final size:46
Alignment explanation
Indices: 71809--71942 Score: 171
Period size: 45 Copynumber: 2.8 Consensus size: 46
71799 TAAATTAATA
* *
71809 TATAGTTGATTAAAATATATTAATAAATTATTTAATATATATAAAG
1 TATAGTTAATTAAAATATATTAATAAATTATTTAATATATAGAAAG
71855 TA-AGTTAATTAAAATATATTAATAAATTATTTAATATATAGAAAG
1 TATAGTTAATTAAAATATATTAATAAATTATTTAATATATAGAAAG
*
71900 TATGTTAGTAAATTATTTAAAATATATTAATAAATTATTTAAT
1 TA---TAG----TTAATTAAAATATATTAATAAATTATTTAAT
71943 TATTTAATAT
Statistics
Matches: 77, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
45 43 0.56
46 2 0.03
49 2 0.03
53 30 0.39
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (46 bp):
TATAGTTAATTAAAATATATTAATAAATTATTTAATATATAGAAAG
Found at i:71964 original size:53 final size:53
Alignment explanation
Indices: 71834--71974 Score: 171
Period size: 53 Copynumber: 2.6 Consensus size: 53
71824 TATATTAATA
* * *
71834 AATTATTTAATATATA-TAAAGTAAGTTAATTAAAATATATTAATAAATTATTT
1 AATTATTTAATATATAGT-TAGTAAATTATTTAAAATATATTAATAAATTATTT
* *
71887 AA-TATATAGAAAGTAT-GTTAGTAAATTATTTAAAATATATTAATAAATTATTT
1 AATTATTTA-ATA-TATAGTTAGTAAATTATTTAAAATATATTAATAAATTATTT
*
71940 AATTATTTAATATATAGTTGGTAAATTATTATAAA
1 AATTATTTAATATATAGTTAGTAAATTATT-TAAA
71975 TTATGATGTA
Statistics
Matches: 74, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
52 8 0.11
53 53 0.72
54 13 0.18
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (53 bp):
AATTATTTAATATATAGTTAGTAAATTATTTAAAATATATTAATAAATTATTT
Found at i:72857 original size:53 final size:47
Alignment explanation
Indices: 72794--72915 Score: 167
Period size: 45 Copynumber: 2.5 Consensus size: 47
72784 AAAAATCATA
*
72794 AAATTATTTATTAATATATTTTAAAAAATTTACTAACTTACTTTCTATATATT
1 AAATAATTTATTAATATATTTT--AAAA--T--TAACTTACTTTCTATATATT
72847 AAATAATTTATTAATATATTTT--AATTAACTTACTTTCTATATATT
1 AAATAATTTATTAATATATTTTAAAATTAACTTACTTTCTATATATT
72892 AAATAATTTATTAATATATTTTAA
1 AAATAATTTATTAATATATTTTAA
72916 TCAACTATAT
Statistics
Matches: 66, Mismatches: 1, Indels: 10
0.86 0.01 0.13
Matches are distributed among these distances:
45 42 0.64
47 1 0.02
49 2 0.03
53 21 0.32
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.52
Consensus pattern (47 bp):
AAATAATTTATTAATATATTTTAAAATTAACTTACTTTCTATATATT
Found at i:72870 original size:22 final size:22
Alignment explanation
Indices: 72839--72990 Score: 99
Period size: 22 Copynumber: 6.5 Consensus size: 22
72829 ACTTACTTTC
72839 TATATATTAAATAATTTATTAA
1 TATATATTAAATAATTTATTAA
* * * **
72861 TATATTTTAATTAACTTACTTTC
1 TATATATTAAATAATTTA-TTAA
72884 TATATATTAAATAATTTATTAA
1 TATATATTAAATAATTTATTAA
*
72906 TATAT-TTTAATCAACTATATATTAA
1 TATATATTAAAT-AA-T-T-TATTAA
* * * **
72931 TTTACTAACTATAATTAACTTACTTTC
1 TATA-T-A-T-TAAATAATTTA-TTAA
72958 TATATATTAAATAATTTATTAA
1 TATATATTAAATAATTTATTAA
*
72980 TATATTTTAAA
1 TATATATTAAA
72991 GAACTTTTTA
Statistics
Matches: 96, Mismatches: 23, Indels: 22
0.68 0.16 0.16
Matches are distributed among these distances:
21 5 0.05
22 36 0.38
23 27 0.28
24 2 0.02
25 10 0.10
26 4 0.04
27 6 0.06
29 3 0.03
30 3 0.03
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.51
Consensus pattern (22 bp):
TATATATTAAATAATTTATTAA
Found at i:72877 original size:45 final size:45
Alignment explanation
Indices: 72827--72921 Score: 181
Period size: 45 Copynumber: 2.1 Consensus size: 45
72817 AAAAATTTAC
72827 TAACTTACTTTCTATATATTAAATAATTTATTAATATATTTTAAT
1 TAACTTACTTTCTATATATTAAATAATTTATTAATATATTTTAAT
72872 TAACTTACTTTCTATATATTAAATAATTTATTAATATATTTTAAT
1 TAACTTACTTTCTATATATTAAATAATTTATTAATATATTTTAAT
*
72917 CAACT
1 TAACT
72922 ATATATTAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (45 bp):
TAACTTACTTTCTATATATTAAATAATTTATTAATATATTTTAAT
Found at i:72929 original size:37 final size:36
Alignment explanation
Indices: 72883--72989 Score: 99
Period size: 37 Copynumber: 2.9 Consensus size: 36
72873 AACTTACTTT
72883 CTATATATTAAATAATTTATTAATATATTTTAATCAA
1 CTATATATTAAATAATTTATTAATATATTTTAAT-AA
* * * * ** * **
72920 CTATATATTAATTTACTAACTATAAT-TAACTTACTTT
1 CTATATATTAAATAATTTA-T-TAATATATTTTAATAA
72957 CTATATATTAAATAATTTATTAATATATTTTAA
1 CTATATATTAAATAATTTATTAATATATTTTAA
72990 AGAACTTTTT
Statistics
Matches: 51, Mismatches: 16, Indels: 7
0.69 0.22 0.09
Matches are distributed among these distances:
35 4 0.08
36 6 0.12
37 30 0.59
38 7 0.14
39 4 0.08
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (36 bp):
CTATATATTAAATAATTTATTAATATATTTTAATAA
Found at i:72953 original size:18 final size:19
Alignment explanation
Indices: 72918--72967 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
72908 TATTTTAATC
*
72918 AACTATATATTAATTTACT
1 AACTATATATTAACTTACT
72937 AACTATA-ATTAACTTACT
1 AACTATATATTAACTTACT
**
72955 TTCTATATATTAA
1 AACTATATATTAA
72968 ATAATTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (19 bp):
AACTATATATTAACTTACT
Found at i:74837 original size:19 final size:18
Alignment explanation
Indices: 74792--74842 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
74782 TTGGACACTT
* *
74792 TTAATATTTATTATAAAG
1 TTAATTTTTATTTTAAAG
*
74810 TTTATTTTTATTTTAAAG
1 TTAATTTTTATTTTAAAG
74828 TATAATTTTTATTTT
1 T-TAATTTTTATTTT
74843 TGAAATCATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 16 0.57
19 12 0.43
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (18 bp):
TTAATTTTTATTTTAAAG
Found at i:76213 original size:2 final size:2
Alignment explanation
Indices: 76208--76293 Score: 172
Period size: 2 Copynumber: 43.0 Consensus size: 2
76198 ATACATATAT
76208 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
76250 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
76292 AC
1 AC
76294 TTATATCGAA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 84 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:78036 original size:35 final size:35
Alignment explanation
Indices: 77935--78039 Score: 167
Period size: 35 Copynumber: 3.0 Consensus size: 35
77925 AACATCTACC
77935 AAAC-TTTACCAAACTTTGAAAAACATTTTTCAAAG
1 AAACATTTACCAAACTTTGAAAAACA-TTTTCAAAG
* *
77970 AAACATTTACCAAACTTTGAAAAAAAATTTCAAAG
1 AAACATTTACCAAACTTTGAAAAACATTTTCAAAG
*
78005 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
1 AAACATTTACCAAACTTTGAAAAACATTTTCAAAG
78040 TTGGTTGCCA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
35 44 0.69
36 20 0.31
ACGTcount: A:0.49, C:0.17, G:0.06, T:0.29
Consensus pattern (35 bp):
AAACATTTACCAAACTTTGAAAAACATTTTCAAAG
Found at i:79796 original size:912 final size:912
Alignment explanation
Indices: 78286--80111 Score: 3323
Period size: 912 Copynumber: 2.0 Consensus size: 912
78276 AAATGATATC
*
78286 ACAATTGTATGTGCTTTGTCCTGGAATGAAAAGACGAATTCTTTGCTAGATGGATAGCACTTTGA
1 ACAATTGTATGTGCTTTGTCCTAGAATGAAAAGACGAATTCTTTGCTAGATGGATAGCACTTTGA
***
78351 CTATTGTAATACAAGACATTATTTTCTTGTTTCTTGCCTAACTCTTCCAAGAAACTTTGGAGCCA
66 CTATCACAATACAAGACATTATTTTCTTGTTTCTTGCCTAACTCTTCCAAGAAACTTTGGAGCCA
78416 AACCATCTCCTTGCTAGCTTCCGTAACAGCGACATATTCTGCTTCAGTTGTGGAGAGAGCAACTA
131 AACCATCTCCTTGCTAGCTTCCGTAACAGCGACATATTCTGCTTCAGTTGTGGAGAGAGCAACTA
*
78481 TCTTCTGTAGTTGAGAAACCCAACTCACTGCAGTTCCTCCTAGAGTATAGACATACCCTGTAGTG
196 TCTTCTGTAGTTGAGAAACCCAACTCACTACAGTTCCTCCTAGAGTATAGACATACCCTGTAGTG
78546 CTCCTTCTGATGTCAATATTTCCGGCTAAGTCAGCATCTACATAGCCTGTCAATATCGTATCCCC
261 CTCCTTCTGATGTCAATATTTCCGGCTAAGTCAGCATCTACATAGCCTGTCAATATCGTATCCCC
*
78611 ACCTTTGAAACAAAGTACTTTGTTTATGGTACCTCGCAGATATCTGAGGATCCATTTGGCTGCTT
326 ACCTTTGAAACAAAGTACTTTGTTTATGGTACCTCGCAGATATCTGAGGATCCATTTGACTGCTT
*
78676 CCCAGTGTACCTTGCCCGGATTATTCATGTACCTGCTAACATCTCCCACTGCATGAGCAATATCT
391 CCCAGTGTACCTTGCCCGGATTATTCATGTACCTGCTAACAACTCCCACTGCATGAGCAATATCT
* *
78741 GGTCTGGTACATACCATGGCATACATCAGACTTCCAATTACTGAGGCATACGGCACCTTTACCAT
456 GGTCTGGTACATACCATGACATACATCAAACTTCCAATTACTGAGGCATACGGCACCTTTACCAT
* *
78806 GTGTGCACGTTCTTCATCCGTCTTTGGTGACTGTTCTTTGGAGAGTCTAAAATGAAGACCTAAAG
521 GTGTGCACGTTCTTCATCCGTCTTTGGTGACTGTTATTTGGAGAGTCTAAAATGAACACCTAAAG
*
78871 GTGTACTTACTGGTTTAACATCTTGCATGTTGAACCTGGAGAGTACTTTGTTGATGTACTCAGCC
586 GTGTACTTACTGGTTTAACATCTTGCATGTTGAACCTGGAGAGTACTTTGTTGATGTACTCAGCA
78936 TGTGATAACATCAAAGT-CCTCGAATTTGTGTCTCTCTTGATCCTCATCCCAAGAATATGCTTTG
651 TGTGATAACATCAAAGTCCCT-GAATTTGTGTCTCTCTTGATCCTCATCCCAAGAATATGCTTTG
*
79000 CAGCGCCCAGATCCTTCATAGCAAACTGCTTCAACAATTTTTTCTTCAAGTTTATAATCTCTTGC
715 CAGCGCCCAGATCCTTCATAGCAAACTGCTTCAACAATTTTTACTTCAAGTTTATAATCTCTTGC
* * *
79065 ATGTCTGAGCCTGCAACGATCATGTCATCAACGTACAACAATAAAATAATGAAGCTATCGTCGAA
780 ATGTCTCAGCCTGCAACGAGCATGTCATCAACGTACAACAATAAAATAATGAAACTATCGTCGAA
* *
79130 CCTCTTGATGTAGCAACAATGATC-TGCTTGGCATCTGGTAAAATAACTGCTACTCATGAAGCTA
845 CCTCTTGATGTAACAACAATGA-CATGCTTGGCATCTGGTAAAACAACTGCTACTCATGAAGCTA
79194 TCGA
909 TCGA
* *
79198 ACAATTGTATGTGCTTTGTCCTAGAATGAAAAGACGGATTCTTTTCTAGATGGATAGCACTTTGA
1 ACAATTGTATGTGCTTTGTCCTAGAATGAAAAGACGAATTCTTTGCTAGATGGATAGCACTTTGA
*
79263 CTGTCACAATACAAGACATTATTTTCTTGTTTCTTGCCTAACTCTTCCAAGAAACTTTGGAGCCA
66 CTATCACAATACAAGACATTATTTTCTTGTTTCTTGCCTAACTCTTCCAAGAAACTTTGGAGCCA
79328 AACCATCTCCTTGCTAGCTTCCGTAACAGCGACATATTCTGCTTCAGTTGTGGAGAGAGCAACTA
131 AACCATCTCCTTGCTAGCTTCCGTAACAGCGACATATTCTGCTTCAGTTGTGGAGAGAGCAACTA
79393 TCTTCTGTAGTTGAGAAACCCAACTCACTACAGTTCCTCCTAGAGTATAGACATACCCTGTAGTG
196 TCTTCTGTAGTTGAGAAACCCAACTCACTACAGTTCCTCCTAGAGTATAGACATACCCTGTAGTG
* *
79458 CTCCTTCTGATGTCAATATTTTCGGCTAAGTCAGCATCTACATAGTCTGTCAATATCGTATCCCC
261 CTCCTTCTGATGTCAATATTTCCGGCTAAGTCAGCATCTACATAGCCTGTCAATATCGTATCCCC
79523 ACCTTTGAAACAAAGTACTTTGTTTATGGTACCTCGCAGATATCTGAGGATCCATTTGACTGCTT
326 ACCTTTGAAACAAAGTACTTTGTTTATGGTACCTCGCAGATATCTGAGGATCCATTTGACTGCTT
*
79588 CCCAGTGTACCTTGCCCGGATTATTCATGTACCTGCTAACAACTCCCATTGCATGAGCAATATCT
391 CCCAGTGTACCTTGCCCGGATTATTCATGTACCTGCTAACAACTCCCACTGCATGAGCAATATCT
**
79653 GGTCTGGTACATACCATGACATACATCAAACTTCCAATTGTTGAGGCATACGGCACCTTTACCAT
456 GGTCTGGTACATACCATGACATACATCAAACTTCCAATTACTGAGGCATACGGCACCTTTACCAT
*
79718 GTGTGCACGTTCTTCCTCCGTCTTTGGTGACTGTTATTTGGAGAGTCTAAAATGAACACCTAAAG
521 GTGTGCACGTTCTTCATCCGTCTTTGGTGACTGTTATTTGGAGAGTCTAAAATGAACACCTAAAG
* *
79783 GTGTACTTACTGGTTTAGCATCTTGCATGTTGAACCTGGAGAGTACTTTGTTGATGTACTCAGTA
586 GTGTACTTACTGGTTTAACATCTTGCATGTTGAACCTGGAGAGTACTTTGTTGATGTACTCAGCA
*
79848 TGTGATAACATCAAAGTCCCTGACTTTGTGTCTCTCTTGATCCTCATCCCAAGAATATGCTTTGC
651 TGTGATAACATCAAAGTCCCTGAATTTGTGTCTCTCTTGATCCTCATCCCAAGAATATGCTTTGC
* *
79913 AGCGCCCAGATCCTTCATAGCAAACTGCTTCGATAATTTTTACTTCAAGTTTATAATCTCTTGCA
716 AGCGCCCAGATCCTTCATAGCAAACTGCTTCAACAATTTTTACTTCAAGTTTATAATCTCTTGCA
79978 TGTCTCAGCCTGCAACGAGCATGTCATCAACGTACAACAATAAAATAATGAAACTATCGTCGAAC
781 TGTCTCAGCCTGCAACGAGCATGTCATCAACGTACAACAATAAAATAATGAAACTATCGTCGAAC
*
80043 CTCTTGATGTAACAACAATGACATGCTTGGCATCTGGTAAAACAACTGCTACTCATGAATCTATC
846 CTCTTGATGTAACAACAATGACATGCTTGGCATCTGGTAAAACAACTGCTACTCATGAAGCTATC
80108 GA
911 GA
80110 AC
1 AC
80112 TTCTTGTACC
Statistics
Matches: 879, Mismatches: 33, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
911 1 0.00
912 875 1.00
913 3 0.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32
Consensus pattern (912 bp):
ACAATTGTATGTGCTTTGTCCTAGAATGAAAAGACGAATTCTTTGCTAGATGGATAGCACTTTGA
CTATCACAATACAAGACATTATTTTCTTGTTTCTTGCCTAACTCTTCCAAGAAACTTTGGAGCCA
AACCATCTCCTTGCTAGCTTCCGTAACAGCGACATATTCTGCTTCAGTTGTGGAGAGAGCAACTA
TCTTCTGTAGTTGAGAAACCCAACTCACTACAGTTCCTCCTAGAGTATAGACATACCCTGTAGTG
CTCCTTCTGATGTCAATATTTCCGGCTAAGTCAGCATCTACATAGCCTGTCAATATCGTATCCCC
ACCTTTGAAACAAAGTACTTTGTTTATGGTACCTCGCAGATATCTGAGGATCCATTTGACTGCTT
CCCAGTGTACCTTGCCCGGATTATTCATGTACCTGCTAACAACTCCCACTGCATGAGCAATATCT
GGTCTGGTACATACCATGACATACATCAAACTTCCAATTACTGAGGCATACGGCACCTTTACCAT
GTGTGCACGTTCTTCATCCGTCTTTGGTGACTGTTATTTGGAGAGTCTAAAATGAACACCTAAAG
GTGTACTTACTGGTTTAACATCTTGCATGTTGAACCTGGAGAGTACTTTGTTGATGTACTCAGCA
TGTGATAACATCAAAGTCCCTGAATTTGTGTCTCTCTTGATCCTCATCCCAAGAATATGCTTTGC
AGCGCCCAGATCCTTCATAGCAAACTGCTTCAACAATTTTTACTTCAAGTTTATAATCTCTTGCA
TGTCTCAGCCTGCAACGAGCATGTCATCAACGTACAACAATAAAATAATGAAACTATCGTCGAAC
CTCTTGATGTAACAACAATGACATGCTTGGCATCTGGTAAAACAACTGCTACTCATGAAGCTATC
GA
Found at i:83516 original size:21 final size:21
Alignment explanation
Indices: 83492--83552 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
83482 TTCAAAGAAA
83492 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
83513 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
83527 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
83548 CATTT
1 CATTT
83553 TCAAAGTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:83526 original size:35 final size:35
Alignment explanation
Indices: 83453--83558 Score: 176
Period size: 35 Copynumber: 3.0 Consensus size: 35
83443 TATTTTCGAC
* **
83453 AAACATCTACCAAACTTTGAAAAATATTTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCA-TTTTCAAAG
83489 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
83524 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
83559 TTGGTTGCCA
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 44 0.66
36 23 0.34
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.29
Consensus pattern (35 bp):
AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
Found at i:85164 original size:2 final size:2
Alignment explanation
Indices: 85157--85198 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
85147 AGAAATTGTA
85157 AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
85198 A
1 A
85199 ATTGTAAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:91700 original size:16 final size:17
Alignment explanation
Indices: 91679--91714 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
91669 CTGAGATGTC
91679 ACATTGACTTTT-CAAA
1 ACATTGACTTTTACAAA
91695 ACATTGACTTTTACAAA
1 ACATTGACTTTTACAAA
91712 ACA
1 ACA
91715 ATTAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.33
Consensus pattern (17 bp):
ACATTGACTTTTACAAA
Found at i:92487 original size:21 final size:21
Alignment explanation
Indices: 92463--92543 Score: 126
Period size: 21 Copynumber: 3.9 Consensus size: 21
92453 GGCACATAGA
92463 ATTTGTCCTGAAGGACCATAT
1 ATTTGTCCTGAAGGACCATAT
* * *
92484 ATTTGTCCTGGATGACCACAT
1 ATTTGTCCTGAAGGACCATAT
92505 ATTTGTCCTGAAGGACCATAT
1 ATTTGTCCTGAAGGACCATAT
*
92526 ATTTGTCCCGAAGGACCA
1 ATTTGTCCTGAAGGACCA
92544 CATAAAACCC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (21 bp):
ATTTGTCCTGAAGGACCATAT
Found at i:92517 original size:42 final size:42
Alignment explanation
Indices: 92463--92547 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
92453 GGCACATAGA
* * *
92463 ATTTGTCCTGAAGGACCATATATTTGTCCTGGATGACCACAT
1 ATTTGTCCTGAAGGACCATATATTTGTCCCGAAGGACCACAT
92505 ATTTGTCCTGAAGGACCATATATTTGTCCCGAAGGACCACAT
1 ATTTGTCCTGAAGGACCATATATTTGTCCCGAAGGACCACAT
92547 A
1 A
92548 AAACCCTCGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (42 bp):
ATTTGTCCTGAAGGACCATATATTTGTCCCGAAGGACCACAT
Found at i:94694 original size:2 final size:2
Alignment explanation
Indices: 94687--94725 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
94677 TTATGCATGT
94687 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
94726 CCCTTTATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:95084 original size:81 final size:81
Alignment explanation
Indices: 94878--95203 Score: 468
Period size: 81 Copynumber: 4.1 Consensus size: 81
94868 AGACATTTAG
* * * *
94878 TCTTTTACCCAAAGGTATTTAACCTTTCATCTAACTGACATAATTGACACCTTTATGCCAAAGGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
* * ** *
94943 ATAG-TAGACTTTTAG
66 ACAGCTAGGCCATTAA
* *
94958 TCTTTTACTCAAAGGTA-TTAATCTTTCATCTAACTGGCATGATTGACACCTTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
95022 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* *
95038 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAATTGGCATAATTGACACATTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
95103 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
*
95119 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC---AATAA-TGACACCTTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
*
95180 AAAGCTAGG-CATTAA
66 ACAGCTAGGCCATTAA
95195 TCTTTTACT
1 TCTTTTACT
95204 TTAGAAATTT
Statistics
Matches: 225, Mismatches: 19, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
76 15 0.07
77 28 0.12
78 4 0.02
79 45 0.20
80 40 0.18
81 93 0.41
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
ACAGCTAGGCCATTAA
Found at i:96693 original size:35 final size:36
Alignment explanation
Indices: 96653--96724 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
96643 CGTTCAAAGA
* *
96653 TGGTATCGATACCATTC-TGAAGGTATCGGTACCCT
1 TGGTATCAATACCATTCTTCAAGGTATCGGTACCCT
**
96688 TGGTATCAATACTGTTCTTCAAGGTATCGGTACCCT
1 TGGTATCAATACCATTCTTCAAGGTATCGGTACCCT
96724 T
1 T
96725 TGAATTCCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 14 0.44
36 18 0.56
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (36 bp):
TGGTATCAATACCATTCTTCAAGGTATCGGTACCCT
Found at i:100793 original size:21 final size:21
Alignment explanation
Indices: 100767--100809 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
100757 GGGAAAGTGA
100767 ATTCCATCCAAAAATAGATGG
1 ATTCCATCCAAAAATAGATGG
*
100788 ATTCCATCCAAAAATGGATGG
1 ATTCCATCCAAAAATAGATGG
100809 A
1 A
100810 ATTCAATTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (21 bp):
ATTCCATCCAAAAATAGATGG
Found at i:101210 original size:37 final size:38
Alignment explanation
Indices: 101157--101228 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
101147 TTTTGTTCGG
101157 GTCGGGTC-GGGTTTTTTAAGTGTGATATTCGGGTCGA
1 GTCGGGTCGGGGTTTTTTAAGTGTGATATTCGGGTCGA
101194 GTCGGGTCGGGGTTTTTTAAGTGTGATATTCGGGT
1 GTCGGGTCGGGGTTTTTTAAGTGTGATATTCGGGT
101229 TATATCGGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 8 0.24
38 26 0.76
ACGTcount: A:0.12, C:0.10, G:0.39, T:0.39
Consensus pattern (38 bp):
GTCGGGTCGGGGTTTTTTAAGTGTGATATTCGGGTCGA
Found at i:101216 original size:38 final size:37
Alignment explanation
Indices: 101157--101245 Score: 135
Period size: 38 Copynumber: 2.4 Consensus size: 37
101147 TTTTGTTCGG
101157 GTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGA
1 GTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGA
*
101194 GTCGGGTCGGGGTTTTTTAAGTGTGATATTCGGGT-TA
1 GTCGGGTC-GGGTTTTTTAAGTGTGATATTCGGGTCGA
*
101231 TATCGGGTCGGGTTT
1 -GTCGGGTCGGGTTT
101246 GGGTTTAGGG
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
37 15 0.31
38 33 0.69
ACGTcount: A:0.12, C:0.10, G:0.38, T:0.39
Consensus pattern (37 bp):
GTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGA
Found at i:101432 original size:257 final size:257
Alignment explanation
Indices: 100945--101812 Score: 1266
Period size: 257 Copynumber: 3.4 Consensus size: 257
100935 ACTTTATTTT
* * *
100945 GGTCGGGTCGGATCGGGTTTTTCTAAGTGTGATATTC-GG---G-TCGGGTCGAGTTCGGGTTTA
1 GGTCGAGTCGGGTCGGGTTTTT-TAAGTGTGATATTCGGGTCAGATCGGGTCGGGTTCGGGTTTA
*
101005 GGGTGAAAAAAACCGGACCGACCCGAAAATATATATAA-T---TCAGGTC-GATTAAGTCACTAT
65 GGGTGAAAAAAACCGGACCGACCCGAAAATATATATAATTGGGTCAGGTCGGATTAAGTCACTGT
101065 TTTTATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATA--T-
130 TTTTATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTTG
*
101127 --TCGTGTCGGATGAAACTTTATTTTGTTCGGGTCGGGTCGGGTTTTTTAAGTGTGATATTCG
195 GGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTCGGGTCGGGTTTTTTAAGTGTGATATTCG
* * *
101188 GGTCGAGTCGGGTCGGGGTTTTTTAAGTGTGATATTCGGGTTATATCGGGTCGGGTTTGGGTTTA
1 GGTCGAGTCGGGTC-GGGTTTTTTAAGTGTGATATTCGGGTCAGATCGGGTCGGGTTCGGGTTTA
* * *
101253 GGGTGAAAAAAA-CGGATCGACCCGAAAATATATATAATTCGGGTCGGGTCGGATTAAGTAACTG
65 GGGTGAAAAAAACCGGACCGACCCGAAAATATATATAATT-GGGTCAGGTCGGATTAAGTCACTG
101317 TTTTTATTAAATAAAAATAA-TTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTT
129 TTTTTATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTT
* * *
101381 GGGTCGGGTCGGATGAAACTTTATTTTGTTTGGGTCGGGTCGGGATTTTTAAGTGTGAGATTCG
194 GGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTCGGGTCGGGTTTTTTAAGTGTGATATTCG
* * * *
101445 GGTCGAGTCGGGTCGGGTTTTTTTAAATGTGATATTCGGGTCGGATCGGGTCGGGTTTGGGTTTT
1 GGTCGAGTCGGGTCGGG-TTTTTTAAGTGTGATATTCGGGTCAGATCGGGTCGGGTTCGGGTTTA
*
101510 GGGTGAAAAAAACCGGACCGACCCGAAAATATATATAATTTGGGTCAGGTCGGATTAAGTCATTG
65 GGGTGAAAAAAACCGGACCGACCCGAAAATATATATAA-TTGGGTCAGGTCGGATTAAGTCACTG
* *
101575 TTTTTATTAAATAAAAAATAATTTTTTATTATTTCGTGTCGGTCTGGTTGGATTTCTAATTCATA
129 TTTTTATTAAAT-AAAAATAATTTTTTATTATTTC--G--GGTCGGGTCGGATTTCTAATTCATA
* *
101640 TATTCGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTTGGGTCGGGTTTTTTAAGTGTGATA
189 TATTTGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTCGGGTCGGGTTTTTTAAGTGTGATA
*
101705 TTCA
254 TTCG
* * *
101709 GGTCGAGTCGGGTCGGTTTTTTTAAGTGTGATATTCGGATCAGGTCGGGTCGGGTTCGGGTTTAG
1 GGTCGAGTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCAGATCGGGTCGGGTTCGGGTTTAG
* *
101774 GGTGAAAAACACCGGACCGACCCGAAAAAATATATAATT
66 GGTGAAAAAAACCGGACCGACCCGAAAATATATATAATT
101813 TTACCTTATA
Statistics
Matches: 560, Mismatches: 39, Indels: 33
0.89 0.06 0.05
Matches are distributed among these distances:
243 26 0.05
244 10 0.02
247 24 0.04
248 31 0.06
252 47 0.08
253 31 0.06
254 1 0.00
256 3 0.01
257 125 0.22
258 57 0.10
259 10 0.02
260 13 0.02
262 3 0.01
263 77 0.14
264 102 0.18
ACGTcount: A:0.24, C:0.12, G:0.28, T:0.36
Consensus pattern (257 bp):
GGTCGAGTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCAGATCGGGTCGGGTTCGGGTTTAG
GGTGAAAAAAACCGGACCGACCCGAAAATATATATAATTGGGTCAGGTCGGATTAAGTCACTGTT
TTTATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTTGG
GTCGGGTCGGATGAAACTTTATTTTGTTCGGGTCGGGTCGGGTTTTTTAAGTGTGATATTCG
Found at i:101482 original size:38 final size:37
Alignment explanation
Indices: 101413--101502 Score: 128
Period size: 38 Copynumber: 2.4 Consensus size: 37
101403 ATTTTGTTTG
* *
101413 GGTCGGGTCGGG-ATTTTTAAGTGTGAGATTCGGGTC
1 GGTCGGGTCGGGTTTTTTTAAATGTGAGATTCGGGTC
*
101449 GAGTCGGGTCGGGTTTTTTTAAATGTGATATTCGGGTC
1 G-GTCGGGTCGGGTTTTTTTAAATGTGAGATTCGGGTC
101487 GGATCGGGTCGGGTTT
1 GG-TCGGGTCGGGTTT
101503 GGGTTTTGGG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
36 1 0.02
37 12 0.25
38 35 0.73
ACGTcount: A:0.13, C:0.11, G:0.40, T:0.36
Consensus pattern (37 bp):
GGTCGGGTCGGGTTTTTTTAAATGTGAGATTCGGGTC
Found at i:101721 original size:42 final size:41
Alignment explanation
Indices: 101674--101771 Score: 107
Period size: 37 Copynumber: 2.4 Consensus size: 41
101664 TTTATTTTGT
101674 TCGGGTTGGGTCGGGTTTTTTAAGTGTGATA-T----TCAGG
1 TCGGG-TGGGTCGGGTTTTTTAAGTGTGATATTCGGATCAGG
* *
101711 TCGAGTCGGGTCGGTTTTTTTAAGTGTGATATTCGGATCAGG
1 TCGGGT-GGGTCGGGTTTTTTAAGTGTGATATTCGGATCAGG
101753 TCGGGTCGGGTTCGGGTTT
1 TCGGGT-GGG-TCGGGTTT
101772 AGGGTGAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
36 1 0.02
37 27 0.54
38 1 0.02
42 14 0.28
43 7 0.14
ACGTcount: A:0.12, C:0.11, G:0.38, T:0.39
Consensus pattern (41 bp):
TCGGGTGGGTCGGGTTTTTTAAGTGTGATATTCGGATCAGG
Found at i:101731 original size:37 final size:37
Alignment explanation
Indices: 101681--101764 Score: 127
Period size: 37 Copynumber: 2.3 Consensus size: 37
101671 TGTTCGGGTT
101681 GGGTCGGGTTTTTTAAGTGTGATATTCAGG-TC-GAGTC
1 GGGTCGGGTTTTTTAAGTGTGATATTC-GGATCAG-GTC
*
101718 GGGTCGGTTTTTTTAAGTGTGATATTCGGATCAGGTC
1 GGGTCGGGTTTTTTAAGTGTGATATTCGGATCAGGTC
101755 GGGTCGGGTT
1 GGGTCGGGTT
101765 CGGGTTTAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
36 2 0.05
37 40 0.93
38 1 0.02
ACGTcount: A:0.14, C:0.11, G:0.37, T:0.38
Consensus pattern (37 bp):
GGGTCGGGTTTTTTAAGTGTGATATTCGGATCAGGTC
Found at i:102335 original size:18 final size:16
Alignment explanation
Indices: 102299--102343 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 16
102289 TATGGAATTG
102299 GATTCCAATTCCTACA
1 GATTCCAATTCCTACA
*
102315 GATTTCAATTCCTTCACA
1 GATTCCAATTCC-T-ACA
*
102333 GATTCTAATTC
1 GATTCCAATTC
102344 TCTCATAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 11 0.46
17 1 0.04
18 12 0.50
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.38
Consensus pattern (16 bp):
GATTCCAATTCCTACA
Found at i:113013 original size:18 final size:18
Alignment explanation
Indices: 112987--113021 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
112977 TCGAAAGGAC
*
112987 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
113005 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
113022 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:116591 original size:105 final size:105
Alignment explanation
Indices: 116403--116610 Score: 258
Period size: 105 Copynumber: 2.0 Consensus size: 105
116393 GAGTTGAGGG
* * *
116403 TCTACGCGGTCCTTCGGGACATATAAGTATCCTATGGAACATCTATGAGGTCCTTTGCGACACAT
1 TCTACGCAGTCCTTCGGGACATATAAGTATCCTATGGAACATCTATGAAGTCCTTTGAGACACAT
* * * *
116468 ATTTGGTCCTTAGCATATGTATATGATTCTTAAGGAATTT
66 ACTTGATCCCTAGCATATGTATATGATTCTCAAGGAATTT
* * * * * *
116508 TCTACGCAGTCTTTCGGGATATATATA-TATTCTTTGGAACATGTGTGAAGT-CTTGTGAGACAC
1 TCTACGCAGTCCTTCGGGACATATA-AGTATCCTATGGAACATCTATGAAGTCCTT-TGAGACAC
*
116571 ATACTTGATCCCTAGTATATGTATATGATTCTCAAGGAAT
64 ATACTTGATCCCTAGCATATGTATATGATTCTCAAGGAAT
116611 GATATGTGGT
Statistics
Matches: 87, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
104 3 0.03
105 83 0.95
106 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (105 bp):
TCTACGCAGTCCTTCGGGACATATAAGTATCCTATGGAACATCTATGAAGTCCTTTGAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTCAAGGAATTT
Found at i:116697 original size:23 final size:23
Alignment explanation
Indices: 116640--116708 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
116630 CATTATTATA
* *
116640 TGGCACTACGATGCAATTCTATG
1 TGGCACTACGGTGCAATTCTACG
* *
116663 CGGCACTCCGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
* * *
116686 TGGCACTTCGGTGCTATTATACG
1 TGGCACTACGGTGCAATTCTACG
116709 AGCTGTGGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.20, C:0.26, G:0.25, T:0.29
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:116760 original size:16 final size:17
Alignment explanation
Indices: 116739--116771 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
116729 TGCACAACCT
116739 CTATAG-ACTCACATAC
1 CTATAGTACTCACATAC
*
116755 CTATAGTTCTCACATAC
1 CTATAGTACTCACATAC
116772 GTCCATGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.30, G:0.06, T:0.30
Consensus pattern (17 bp):
CTATAGTACTCACATAC
Found at i:122051 original size:23 final size:23
Alignment explanation
Indices: 122017--122080 Score: 110
Period size: 23 Copynumber: 2.8 Consensus size: 23
122007 CATTATTATA
122017 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
*
122040 TGGCACTCCGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
*
122063 TGGCACTTCGGTGCAATT
1 TGGCACTACGGTGCAATT
122081 ATATGAGCTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.28
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:122137 original size:16 final size:17
Alignment explanation
Indices: 122116--122148 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
122106 TGCACAACCT
122116 CTATAG-ACTCACATAC
1 CTATAGTACTCACATAC
*
122132 CTATAGTTCTCACATAC
1 CTATAGTACTCACATAC
122149 GTCCATGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.30, G:0.06, T:0.30
Consensus pattern (17 bp):
CTATAGTACTCACATAC
Found at i:142264 original size:19 final size:20
Alignment explanation
Indices: 142233--142270 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
142223 TTTAAATTTA
142233 TTAATTAATTATTTTTTGTG
1 TTAATTAATTATTTTTTGTG
142253 TTAATT-ATTATTTTTTGT
1 TTAATTAATTATTTTTTGT
142271 CTACAGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (20 bp):
TTAATTAATTATTTTTTGTG
Found at i:144059 original size:21 final size:21
Alignment explanation
Indices: 144029--144101 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
144019 TATGTCATCT
*
144029 CCGCACGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
144050 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
144071 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
144092 CCGCAGGGTT
1 CCGCAGGGTT
144102 TTATACCATA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 2 0.04
21 44 0.92
22 2 0.04
ACGTcount: A:0.18, C:0.36, G:0.25, T:0.22
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:144654 original size:34 final size:34
Alignment explanation
Indices: 144611--144677 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
144601 ATAAATGTTT
*
144611 TTAAAATACAAATTATAGTATTCAAAATTTAAAA
1 TTAAAATACAAATAATAGTATTCAAAATTTAAAA
* *
144645 TTAAAATACAAATAATATTATTCGAAATTTAAA
1 TTAAAATACAAATAATAGTATTCAAAATTTAAA
144678 TTATTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (34 bp):
TTAAAATACAAATAATAGTATTCAAAATTTAAAA
Found at i:144834 original size:20 final size:20
Alignment explanation
Indices: 144796--144834 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
144786 GTTTTTATAA
*
144796 AAGTTTTTTTTTTCCTTTTC
1 AAGTTTTTTTTTTCATTTTC
144816 AAGTTCTTTTTTTT-ATTTT
1 AAGTT-TTTTTTTTCATTTT
144835 TCTTTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.13, C:0.10, G:0.05, T:0.72
Consensus pattern (20 bp):
AAGTTTTTTTTTTCATTTTC
Found at i:144835 original size:21 final size:20
Alignment explanation
Indices: 144796--144836 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
144786 GTTTTTATAA
*
144796 AAGTTTTTTTTTTCCTTTTC
1 AAGTTTTTTTTTTACTTTTC
*
144816 AAGTTCTTTTTTTTATTTTTC
1 AAGTT-TTTTTTTTACTTTTC
144837 TTTATTTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.12, C:0.12, G:0.05, T:0.71
Consensus pattern (20 bp):
AAGTTTTTTTTTTACTTTTC
Done.