Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold618
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: 100257
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:2055 original size:75 final size:75
Alignment explanation
Indices: 1946--2102 Score: 244
Period size: 75 Copynumber: 2.1 Consensus size: 75
1936 AGGTGTTGGG
* * *
1946 TTCTGGTATGATGTGTACCTTCACCTGAAAGTAGTAGATTGGTGGATTTGTGTTCATTTGT-TTA
1 TTCTGTTATGATGTGTACCTTCACCTGAAAGTAGTAGATTGGTGGATTTGTGTTCATTTATGCTA
2010 TCTATATGAT
66 TCTATATGAT
* * *
2020 TTCTGTTATGATGTGTAACCTTCTCCTGAAGGTAGTAGATTTGTGGATTTGTGTTCATTTATGCT
1 TTCTGTTATGATGTGT-ACCTTCACCTGAAAGTAGTAGATTGGTGGATTTGTGTTCATTTATGCT
2085 ATCTATATGAT
65 ATCTATATGAT
2096 TTCTGTT
1 TTCTGTT
2103 TTAAAACTGA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
74 15 0.20
75 41 0.55
76 19 0.25
ACGTcount: A:0.20, C:0.11, G:0.22, T:0.46
Consensus pattern (75 bp):
TTCTGTTATGATGTGTACCTTCACCTGAAAGTAGTAGATTGGTGGATTTGTGTTCATTTATGCTA
TCTATATGAT
Found at i:3314 original size:12 final size:13
Alignment explanation
Indices: 3297--3329 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
3287 GTGGGGACCC
3297 TTTCTTTTTTC-T
1 TTTCTTTTTTCTT
3309 TTTCTTTTTTCTT
1 TTTCTTTTTTCTT
3322 TTTCTTTT
1 TTTCTTTT
3330 CTGCGCCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTCTTTTTTCTT
Found at i:3869 original size:34 final size:31
Alignment explanation
Indices: 3818--3916 Score: 93
Period size: 28 Copynumber: 3.3 Consensus size: 31
3808 TTATAAAAAA
*
3818 TTATTTT--ATAATTTTTTATTGAATGATTATT
1 TTATTTTAGATAATATTTTATTGAAT--TTATT
*
3849 TTGATTTTAGATAATATTTTATTTAATTTATT
1 TT-ATTTTAGATAATATTTTATTGAATTTATT
*
3881 TTATTTTAG-TAA-ATTATT-TT-ATTTTATT
1 TTATTTTAGATAATATT-TTATTGAATTTATT
3909 TTATTTTA
1 TTATTTTA
3917 ATGAATTAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
28 15 0.25
29 5 0.08
30 5 0.08
31 9 0.15
32 12 0.20
34 15 0.25
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (31 bp):
TTATTTTAGATAATATTTTATTGAATTTATT
Found at i:3902 original size:5 final size:5
Alignment explanation
Indices: 3863--3916 Score: 56
Period size: 5 Copynumber: 10.4 Consensus size: 5
3853 TTTTAGATAA
* *
3863 TATTT TA-TT TAATT TATTT TATTT TAGTAAAT TATTT TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT TA-T--TT TATTT TATTT TATTT
3910 TATTT TA
1 TATTT TA
3917 ATGAATTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
4 4 0.10
5 33 0.79
6 1 0.02
7 1 0.02
8 3 0.07
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (5 bp):
TATTT
Found at i:4009 original size:11 final size:13
Alignment explanation
Indices: 3991--4022 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
3981 TTTAATTAAG
3991 TAAATATAAA-TA
1 TAAATATAAATTA
4003 T-AATATAAATTA
1 TAAATATAAATTA
4015 TAAATATA
1 TAAATATA
4023 CAAAAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 8 0.44
12 4 0.22
13 6 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAATATAAATTA
Found at i:5577 original size:19 final size:19
Alignment explanation
Indices: 5555--5597 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
5545 TAAGCTCGAA
5555 TTTAA-TATTTAATATATAT
1 TTTAATTATTTAA-ATATAT
*
5574 TTTAATTTTTTAAATATAT
1 TTTAATTATTTAAATATAT
5593 TTTAA
1 TTTAA
5598 AGCTTAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTAATTATTTAAATATAT
Found at i:6304 original size:3 final size:3
Alignment explanation
Indices: 6296--6337 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
6286 TAAGAAAATG
6296 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6338 TATTTTAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7237 original size:14 final size:14
Alignment explanation
Indices: 7187--7230 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
7177 TTAAATAAAC
*
7187 AAATAAAATGTATATG
1 AAAT-AAAT-TATATT
*
7203 AAATATATTATATT
1 AAATAAATTATATT
7217 AAATAAATTATATT
1 AAATAAATTATATT
7231 TATTAAACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 18 0.72
15 3 0.12
16 4 0.16
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (14 bp):
AAATAAATTATATT
Found at i:8188 original size:16 final size:17
Alignment explanation
Indices: 8143--8192 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 17
8133 ATTATTATTT
*
8143 TAAAAATAATTATAACACA
1 TAAAAATAA-TATAA-AAA
8162 TAAAAATAATATAAAAA
1 TAAAAATAATATAAAAA
8179 TAAAAA-AATATAAA
1 TAAAAATAATATAAA
8193 TTATTGAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 8 0.27
17 8 0.27
18 5 0.17
19 9 0.30
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAAAATAATATAAAAA
Found at i:9513 original size:2 final size:2
Alignment explanation
Indices: 9464--9497 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
9454 CAATTGATTT
9464 TA TA -A 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 T
9498 TCGGGTTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16100 original size:10 final size:9
Alignment explanation
Indices: 16082--16120 Score: 51
Period size: 10 Copynumber: 4.1 Consensus size: 9
16072 ATTTAAATTT
16082 AATTATAAA
1 AATTATAAA
16091 AATATATAAA
1 AAT-TATAAA
*
16101 AATTATTATA
1 AATTA-TAAA
16111 AATTATAAA
1 AATTATAAA
16120 A
1 A
16121 TAAAATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 9 0.35
10 17 0.65
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
AATTATAAA
Found at i:16106 original size:19 final size:19
Alignment explanation
Indices: 16082--16120 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
16072 ATTTAAATTT
16082 AATTA-TAAAAATATATAAA
1 AATTATTAAAAAT-TATAAA
*
16101 AATTATTATAAATTATAAA
1 AATTATTAAAAATTATAAA
16120 A
1 A
16121 TAAAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AATTATTAAAAATTATAAA
Found at i:17234 original size:20 final size:22
Alignment explanation
Indices: 17211--17256 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 22
17201 GTCAAATAAT
17211 TAAATAAAAAAAT-TAATT-AA
1 TAAATAAAAAAATATAATTAAA
* *
17231 TAAA-AAATATATATAATTAAA
1 TAAATAAAAAAATATAATTAAA
17252 TAAAT
1 TAAAT
17257 TTAACATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
19 6 0.29
20 9 0.43
21 6 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAATAAAAAAATATAATTAAA
Found at i:17545 original size:24 final size:24
Alignment explanation
Indices: 17516--17570 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
17506 CCTAGTGATT
*
17516 ATTTTTAATTATATAATACA-TATTA
1 ATTTTGAATT-TAT-ATACATTATTA
*
17541 ATTTTGTATTTATATACATTATATA
1 ATTTTGAATTTATATACATTAT-TA
17566 ATTTT
1 ATTTT
17571 TATGTCATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 5 0.19
24 6 0.23
25 15 0.58
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (24 bp):
ATTTTGAATTTATATACATTATTA
Found at i:17580 original size:25 final size:23
Alignment explanation
Indices: 17531--17581 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 23
17521 TAATTATATA
*
17531 ATACATATTAATTTTGTATTTAT
1 ATACATATTAATTTTGTATTCAT
17554 ATACATTATATAATTTT-TATGTCAT
1 ATACA-TAT-TAATTTTGTAT-TCAT
17579 ATA
1 ATA
17582 AAAAATGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 5 0.21
24 6 0.25
25 13 0.54
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (23 bp):
ATACATATTAATTTTGTATTCAT
Found at i:18521 original size:4 final size:4
Alignment explanation
Indices: 18502--18534 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
18492 TCGATAAAAA
18502 AATT -ATT AATTT AATT AATT AATT AATT AATT A
1 AATT AATT AA-TT AATT AATT AATT AATT AATT A
18535 TATAGTAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 3 0.11
4 20 0.74
5 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
AATT
Found at i:20740 original size:9 final size:9
Alignment explanation
Indices: 20701--20731 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
20691 CAACATAATA
*
20701 ATCAACATC
1 ATCAATATC
20710 ATCAATATC
1 ATCAATATC
20719 ATCAATATC
1 ATCAATATC
20728 ATCA
1 ATCA
20732 TCAAAATCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (9 bp):
ATCAATATC
Found at i:20780 original size:24 final size:24
Alignment explanation
Indices: 20748--20797 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
20738 TCAGCTGCAG
* *
20748 CAACAACAACGAG-AACATCAGCAT
1 CAACAACAA-GAGCAAAATCAACAT
*
20772 CAACCACAAGAGCAAAATCAACAT
1 CAACAACAAGAGCAAAATCAACAT
20796 CA
1 CA
20798 TCTAAATCAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.52, C:0.30, G:0.10, T:0.08
Consensus pattern (24 bp):
CAACAACAAGAGCAAAATCAACAT
Found at i:24924 original size:2 final size:2
Alignment explanation
Indices: 24917--24963 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
24907 AGGCCAGTCT
24917 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
24959 TC TC T
1 TC TC T
24964 TTTATATAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:33384 original size:34 final size:34
Alignment explanation
Indices: 33338--33404 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
33328 GTTTGAGACC
* *
33338 AAGTGCAGTCCTTGCTTTCGTAGATTCTTTAACT
1 AAGTGCAATCCTTGCTTTCCTAGATTCTTTAACT
33372 AAGTGCAATCCTTGCTTTCCTAGATTCTTTAAC
1 AAGTGCAATCCTTGCTTTCCTAGATTCTTTAAC
33405 CTTTAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.40
Consensus pattern (34 bp):
AAGTGCAATCCTTGCTTTCCTAGATTCTTTAACT
Found at i:33634 original size:2 final size:2
Alignment explanation
Indices: 33627--33677 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
33617 GCACTGTGAT
*
33627 GA GA GA GA GA GA GA GA GC GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
33669 GA GA GA GA G
1 GA GA GA GA G
33678 CTTAAAGAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.47, C:0.02, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:33889 original size:8 final size:8
Alignment explanation
Indices: 33876--33983 Score: 54
Period size: 8 Copynumber: 13.8 Consensus size: 8
33866 TTTATACATA
33876 ATATAATT
1 ATATAATT
33884 ATATAATAT
1 ATATAAT-T
* * *
33893 AAAAAATA
1 ATATAATT
33901 ATATAA-T
1 ATATAATT
33908 ATA-AA-T
1 ATATAATT
33914 ATATAAATAT
1 ATAT-AAT-T
*
33924 ATCAAAATTT
1 AT-ATAA-TT
33934 ATATAA-T
1 ATATAATT
33941 ATA-AATT
1 ATATAATT
33948 AT-TAATT
1 ATATAATT
33955 AT-TAAATTT
1 ATAT-AA-TT
33964 ATATAA-T
1 ATATAATT
33971 -TATAATT
1 ATATAATT
33978 ATATAA
1 ATATAA
33984 ATTCATAAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 28
0.68 0.07 0.25
Matches are distributed among these distances:
6 13 0.17
7 19 0.24
8 20 0.26
9 15 0.19
10 9 0.12
11 2 0.03
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (8 bp):
ATATAATT
Found at i:33905 original size:25 final size:25
Alignment explanation
Indices: 33873--33945 Score: 80
Period size: 25 Copynumber: 2.9 Consensus size: 25
33863 AAATTTATAC
33873 ATAATATAATTATATAATATAAAAA
1 ATAATATAATTATATAATATAAAAA
*
33898 ATAATATAA-TATA-AATAT-ATAA
1 ATAATATAATTATATAATATAAAAA
*
33920 ATATATCAAAATTTATATAATATAAA
1 ATA-AT-ATAA-TTATATAATATAAA
33946 TTATTAATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
22 6 0.15
23 7 0.18
24 7 0.18
25 9 0.23
26 4 0.10
27 5 0.13
28 1 0.03
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (25 bp):
ATAATATAATTATATAATATAAAAA
Found at i:33909 original size:30 final size:31
Alignment explanation
Indices: 33863--33983 Score: 131
Period size: 30 Copynumber: 3.8 Consensus size: 31
33853 AGAATAAACC
33863 AAATTTATACATAATATAATTATATAATATA-A
1 AAATTTAT--ATAATATAATTATATAATATATA
* * *
33895 AAAATAATATAATATAAATATATAAATATATCA
1 AAATTTATATAATATAATTATAT-AATATAT-A
*
33928 AAATTTATATAATATAAATTAT-TAAT-TATT
1 AAATTTATATAATAT-AATTATATAATATATA
33958 AAATTTATATAATTATAATTATATAA
1 AAATTTATATAA-TATAATTATATAA
33984 ATTCATAAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
30 32 0.42
31 15 0.20
32 9 0.12
33 15 0.20
34 5 0.07
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (31 bp):
AAATTTATATAATATAATTATATAATATATA
Found at i:33976 original size:23 final size:26
Alignment explanation
Indices: 33939--33995 Score: 75
Period size: 24 Copynumber: 2.3 Consensus size: 26
33929 AATTTATATA
33939 ATATAAATTATTAATTAT-TAAATTT
1 ATATAAATTATTAATTATATAAATTT
*
33964 ATAT-AATTA-TAATTATATAAATTC
1 ATATAAATTATTAATTATATAAATTT
*
33988 ATAAAAAT
1 ATATAAAT
33996 ATAAAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 7 0.25
24 14 0.50
25 7 0.25
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (26 bp):
ATATAAATTATTAATTATATAAATTT
Found at i:34056 original size:22 final size:22
Alignment explanation
Indices: 34031--34074 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
34021 CAACCTGAGC
34031 ATTTCTTAGTTGTTTATCATAT
1 ATTTCTTAGTTGTTTATCATAT
34053 ATTTCTTAGTTGTTTATCATAT
1 ATTTCTTAGTTGTTTATCATAT
34075 GTAGTTGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.59
Consensus pattern (22 bp):
ATTTCTTAGTTGTTTATCATAT
Found at i:41320 original size:97 final size:97
Alignment explanation
Indices: 41147--41483 Score: 389
Period size: 97 Copynumber: 3.5 Consensus size: 97
41137 ATTGAAAAAA
* * **
41147 GGGGTT-GAGTATCTCCTCGAAGGAAT-GGGATT-AGAGTATCCCCGATGATTACAATTTAAGCA
1 GGGGTTGGAGTATCCCCTCGAAGGAATAGGG-TTGA-AGTATCCCCGATGATGACAATTTAAGTG
* *
41209 AGAAGAAGAA-TTAAACTTTGATAGGGTTAAAAGC
64 AGAATAA-AATTTAAACTTTGATAGGTTTAAAAGC
* * *
41243 GGGGTTGGAGTATCCCCTCGGAGGAATAAGGTT-AGAGTGTCCCCGATGATGACAATTTAAGTGA
1 GGGGTTGGAGTATCCCCTCGAAGGAATAGGGTTGA-AGTATCCCCGATGATGACAATTTAAGTGA
*
41307 GAATAAAATTTAAACTTTGATACGTTTAAAAGC
65 GAATAAAATTTAAACTTTGATAGGTTTAAAAGC
* * * * * *
41340 AGGGTTGGAGTATCTCCTCGGAGGAATGGGGTTGAAGTGTCCCCGATGGTGACAATTTAAGTGAG
1 GGGGTTGGAGTATCCCCTCGAAGGAATAGGGTTGAAGTATCCCCGATGATGACAATTTAAGTGAG
* *
41405 AATAAGATTTAAACTTTGAT-GTATTTAAAAGC
66 AATAAAATTTAAACTTTGATAG-GTTTAAAAGC
* * * *
41437 GAGGTTGAAATATCCCCTCGAATGAATAGGGTTGAAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCTCGAAGGAATAGGGTTGAAGTATCCCCGAT
41484 AAATAAAATT
Statistics
Matches: 209, Mismatches: 27, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
96 8 0.04
97 198 0.95
98 3 0.01
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (97 bp):
GGGGTTGGAGTATCCCCTCGAAGGAATAGGGTTGAAGTATCCCCGATGATGACAATTTAAGTGAG
AATAAAATTTAAACTTTGATAGGTTTAAAAGC
Found at i:42702 original size:20 final size:20
Alignment explanation
Indices: 42677--42728 Score: 88
Period size: 19 Copynumber: 2.6 Consensus size: 20
42667 TACAAGCCAA
*
42677 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATATTTTG
42697 TGTATCGATAC-ATATTTTG
1 TGTATCGATACAATATTTTG
42716 TGTATCGATACAA
1 TGTATCGATACAA
42729 GTTTGGCTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (20 bp):
TGTATCGATACAATATTTTG
Found at i:42832 original size:20 final size:20
Alignment explanation
Indices: 42779--42834 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
42769 ACATCTTTTT
*
42779 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
42799 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
42818 CTGTGTATCGATACTTT
1 C-ATGTATCGATACTTT
42835 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:45262 original size:13 final size:13
Alignment explanation
Indices: 45244--45281 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
45234 ATAATCCCCC
45244 TGTATCGATACAG
1 TGTATCGATACAG
*
45257 TGTATCGATACAT
1 TGTATCGATACAG
45270 TGTATCGATACA
1 TGTATCGATACA
45282 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:51421 original size:20 final size:20
Alignment explanation
Indices: 51379--51417 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
51369 CGTGTGAATG
* *
51379 TATCGATACAATTTTTGATA
1 TATCGATACAATATTTGAAA
51399 TATCGATAC-ATATTTGAAA
1 TATCGATACAATATTTGAAA
51418 ATATAGCCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (20 bp):
TATCGATACAATATTTGAAA
Found at i:51473 original size:20 final size:20
Alignment explanation
Indices: 51448--51499 Score: 88
Period size: 19 Copynumber: 2.6 Consensus size: 20
51438 TACAAGCCAA
*
51448 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATATTTTG
51468 TGTATCGATAC-ATATTTTG
1 TGTATCGATACAATATTTTG
51487 TGTATCGATACAA
1 TGTATCGATACAA
51500 GTTTGGCTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (20 bp):
TGTATCGATACAATATTTTG
Found at i:54492 original size:28 final size:28
Alignment explanation
Indices: 54453--54529 Score: 72
Period size: 30 Copynumber: 2.8 Consensus size: 28
54443 TGCATTTTTT
54453 AAATAT-TATTAATAAAAAAACTTAA-TAA
1 AAATATAT-TTAATAAAAAAA-TTAATTAA
* *
54481 AAATATATTTAATTATTAAAAATTAATTTA
1 AAATATATTTAA-TA-AAAAAATTAATTAA
54511 AAATATATTT--TAAAAAAAT
1 AAATATATTTAATAAAAAAAT
54530 ATGAGTGAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
26 6 0.14
27 2 0.05
28 10 0.24
29 7 0.17
30 17 0.40
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (28 bp):
AAATATATTTAATAAAAAAATTAATTAA
Found at i:54832 original size:2 final size:2
Alignment explanation
Indices: 54825--54864 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
54815 GAGCATTTTC
54825 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
54865 TGAAATAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55245 original size:21 final size:21
Alignment explanation
Indices: 55218--55266 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
55208 TTAATATTAA
*
55218 TTAAATTA-AATTAAATTATT
1 TTAAATTATAAATAAATTATT
*
55238 TATAAATTATAAATAATTTATT
1 T-TAAATTATAAATAAATTATT
55260 TTAAATT
1 TTAAATT
55267 TAACTCGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 13 0.52
22 11 0.44
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTAAATTATAAATAAATTATT
Found at i:58227 original size:17 final size:17
Alignment explanation
Indices: 58195--58239 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
58185 TATTTTTATA
*
58195 TTTATTTTTT-TCGCAT
1 TTTATTTTTTATTGCAT
58211 TTTATTTTTTATTGCAT
1 TTTATTTTTTATTGCAT
*
58228 TTT-TTTATTATT
1 TTTATTTTTTATT
58240 TAATATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 18 0.69
17 8 0.31
ACGTcount: A:0.16, C:0.07, G:0.04, T:0.73
Consensus pattern (17 bp):
TTTATTTTTTATTGCAT
Found at i:60752 original size:23 final size:22
Alignment explanation
Indices: 60717--60762 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
60707 TTAATGATAA
* * *
60717 TAAATTTATTTATTTATTTATT
1 TAAATTTAATTATGTAATTATT
60739 TAAATTTTAATTATGTAATTATT
1 TAAA-TTTAATTATGTAATTATT
60762 T
1 T
60763 TAAAATATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
TAAATTTAATTATGTAATTATT
Found at i:60954 original size:21 final size:23
Alignment explanation
Indices: 60918--60962 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
60908 GCAATTTAAA
*
60918 ATAATTAAAGTTTTAAAATAATT
1 ATAATTAAAGTTTTAAAAAAATT
60941 ATAATT-AA-TTTTAAAAAAATT
1 ATAATTAAAGTTTTAAAAAAATT
60962 A
1 A
60963 AACCATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.62
22 2 0.10
23 6 0.29
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
ATAATTAAAGTTTTAAAAAAATT
Found at i:61002 original size:17 final size:17
Alignment explanation
Indices: 60912--61005 Score: 62
Period size: 17 Copynumber: 4.9 Consensus size: 17
60902 GGTTTAGCAA
*
60912 TTTAAAATAATTAAAGT
1 TTTAAAATAATTAAAAT
60929 TTTAAAATAATTATAATTAAT
1 TTTAAAATAA-T-TAA--AAT
*
60950 TTTAAAAAAATTAAACCAT
1 TTTAAAATAATTAAA--AT
*
60969 TATAACTTAATTGAATTAAAAT
1 TTTAA---AA-T-AATTAAAAT
60991 TTTAAAATAATTAAA
1 TTTAAAATAATTAAA
61006 TGATTACAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 22
0.69 0.06 0.25
Matches are distributed among these distances:
17 18 0.30
18 2 0.03
19 14 0.23
20 1 0.02
21 11 0.18
22 8 0.13
24 7 0.11
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.40
Consensus pattern (17 bp):
TTTAAAATAATTAAAAT
Found at i:61174 original size:17 final size:19
Alignment explanation
Indices: 61152--61202 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
61142 TAAAAATTAT
61152 TATTAT-GTTTA-TAATAA
1 TATTATCGTTTATTAATAA
*
61169 TATTATCTTTTATTAATAA
1 TATTATCGTTTATTAATAA
* *
61188 TATAATCTTTTATTA
1 TATTATCGTTTATTA
61203 TTTTAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.20
18 4 0.13
19 20 0.67
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (19 bp):
TATTATCGTTTATTAATAA
Found at i:61204 original size:22 final size:19
Alignment explanation
Indices: 61159--61202 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
61149 TATTATTATG
*
61159 TTTA-TAATAATATTATCT
1 TTTATTAATAATATAATCT
61177 TTTATTAATAATATAATCT
1 TTTATTAATAATATAATCT
61196 TTTATTA
1 TTTATTA
61203 TTTTAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTATTAATAATATAATCT
Found at i:61511 original size:13 final size:13
Alignment explanation
Indices: 61493--61539 Score: 67
Period size: 13 Copynumber: 3.4 Consensus size: 13
61483 AAAATAATAA
61493 TATTTTAATAATT
1 TATTTTAATAATT
61506 TATTTTAAATTAATAT
1 TATTTT-AA-TAAT-T
61522 TATTTTAATAATT
1 TATTTTAATAATT
61535 TATTT
1 TATTT
61540 AAAAATTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
13 12 0.39
14 6 0.19
15 6 0.19
16 7 0.23
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTTTAATAATT
Found at i:61526 original size:16 final size:15
Alignment explanation
Indices: 61484--61539 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 15
61474 TTATTAATTA
*
61484 AAATAATAATATTTT
1 AAATAATATTATTTT
61499 -AATAAT-TTATTTT
1 AAATAATATTATTTT
61512 AAATTAATATTATTTT
1 AAA-TAATATTATTTT
61528 -AATAAT-TTATTT
1 AAATAATATTATTT
61540 AAAAATTAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
13 12 0.32
14 12 0.32
15 6 0.16
16 7 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AAATAATATTATTTT
Found at i:61541 original size:28 final size:29
Alignment explanation
Indices: 61481--61545 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
61471 TTTTTATTAA
61481 TTAAAATAATAATATTTTAATAATTTATT
1 TTAAAATAATAATATTTTAATAATTTATT
* *
61510 TTAAATTAATATTATTTTAATAATTTATT
1 TTAAAATAATAATATTTTAATAATTTATT
*
61539 TAAAAAT
1 TTAAAAT
61546 TAACAGTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
TTAAAATAATAATATTTTAATAATTTATT
Found at i:64194 original size:11 final size:11
Alignment explanation
Indices: 64175--64231 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
64165 TACAATTAAT
64175 TATAAAAATAA
1 TATAAAAATAA
*
64186 TATATAAAT--
1 TATAAAAATAA
* *
64195 TA-AAATATGA
1 TATAAAAATAA
64205 TATAAAAATAA
1 TATAAAAATAA
64216 TATAAAAATAA
1 TATAAAAATAA
64227 T-TAAA
1 TATAAA
64232 CCATGCTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
8 4 0.11
9 2 0.05
10 6 0.16
11 26 0.68
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (11 bp):
TATAAAAATAA
Found at i:64592 original size:17 final size:16
Alignment explanation
Indices: 64567--64602 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
64557 ATCTAACCCA
64567 AAAAAAATTTTAAAATT
1 AAAAAAA-TTTAAAATT
*
64584 AAAATAATTTAAAATT
1 AAAAAAATTTAAAATT
64600 AAA
1 AAA
64603 TTTAAATCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAAAAATTTAAAATT
Found at i:65086 original size:18 final size:18
Alignment explanation
Indices: 65060--65129 Score: 60
Period size: 18 Copynumber: 4.0 Consensus size: 18
65050 TAATAAATAA
65060 TAAAA-AAATATTAAATT
1 TAAAATAAATATTAAATT
*
65077 TAAAATAAATAATT-TATT
1 TAAAATAAAT-ATTAAATT
65095 TAAAATAAA-A-TAAATAT
1 TAAAATAAATATTAAAT-T
*
65112 T-AATTAAATATATAAATT
1 TAAAATAAATAT-TAAATT
65130 AATTATTTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
15 1 0.02
16 9 0.21
17 8 0.19
18 17 0.40
19 8 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATAAATATTAAATT
Found at i:65138 original size:42 final size:40
Alignment explanation
Indices: 65058--65142 Score: 111
Period size: 42 Copynumber: 2.1 Consensus size: 40
65048 GTTAATAAAT
*
65058 AATAAAAAAATATTAAATTTAAAATAAATAATTTATTTAA
1 AATAAAAAAATATTAAATTAAAAATAAATAATTTATTTAA
65098 AATAAAATAAATATT-AATTAAATATATAAATTAA-TTATTTAA
1 AATAAAA-AAATATTAAATTAAA-A-ATAAA-TAATTTATTTAA
65140 AAT
1 AAT
65143 CATAATTTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
40 13 0.32
41 8 0.20
42 16 0.40
43 3 0.08
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (40 bp):
AATAAAAAAATATTAAATTAAAAATAAATAATTTATTTAA
Found at i:65147 original size:21 final size:20
Alignment explanation
Indices: 65081--65147 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
65071 TAAATTTAAA
65081 ATAAA-TAATTTATTTAAAAT
1 ATAAATTAA-TTATTTAAAAT
* *
65101 A-AAATAAATATTAATTAAATAT
1 ATAAAT-TA-ATTATTTAAA-AT
65123 ATAAATTAATTATTTAAAAT
1 ATAAATTAATTATTTAAAAT
65143 CATAA
1 -ATAA
65148 TTTTAAAACT
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
19 3 0.08
20 3 0.08
21 22 0.59
22 5 0.14
23 4 0.11
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAAATTAATTATTTAAAAT
Found at i:67576 original size:21 final size:22
Alignment explanation
Indices: 67531--67584 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
67521 TGGACATGTT
67531 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
67553 AAAAATGCATGAAACATAAT-A
1 AAAAATGCATGAAACATAATAA
67574 AAAAATGCATG
1 AAAAATGCATG
67585 GTCAAAGGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 12 0.38
22 20 0.62
ACGTcount: A:0.61, C:0.09, G:0.11, T:0.19
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:68522 original size:20 final size:20
Alignment explanation
Indices: 68475--68549 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
68465 AAAAAGACAT
*
68475 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
68494 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
68515 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
68535 AATGTATCGATACAT
1 AATGTATCGATACAT
68550 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:68543 original size:40 final size:39
Alignment explanation
Indices: 68472--68549 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
68462 GGTAAAAAGA
* *
68472 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
68511 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
68550 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:69149 original size:32 final size:32
Alignment explanation
Indices: 69106--70119 Score: 1600
Period size: 32 Copynumber: 31.7 Consensus size: 32
69096 TTTTTTTAAA
** * *
69106 AAAAGGG-TGCCACTAACTTATGTGGGCCTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
** *
69137 AAAAGAATTGCCACCGACTCGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
69169 AAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
69201 AAAAGGGTTGCCATCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
69233 AAAAGGGTTGCCATCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
69265 AAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
* * *
69297 GAATGGGTTGCCACCGACTTGTGTAGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
69329 AAAAGGGTTACCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
69361 AAAATGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
* *
69393 AAATGGGTTGCCACCAACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
69425 AAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
69457 AAAAGGGTTGCCACTGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
69489 AAAATGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
69521 AAAATGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
* *
69553 AAATGGGTTGCCACCGACTTGTGTGGGCTTGG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
69585 AAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
* *
69617 AAAAGGGTTGCCACTGACTTGTGTGGGTTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
* *
69649 AAAATGGTTGCCACCAACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
69681 AAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
69713 AAAAAGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
69745 AAAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAA-GGGTTGCCACCGACTTGTGTGGGCTTTG
*
69778 AAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
69810 AAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
* *
69842 AAATGGGTTGCCACCGACTTGTGTGGGCTTCG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
* *
69874 AAATGGGTTGCCACCGACTTGTGTGGGCTTCG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
69906 AAAAGGGTTGCCACCGACTTGTGTGGGCTTCG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
69938 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
69970 AAAATGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
70002 AAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
70034 AAAAAGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
70066 AAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
* * *
70098 AAATGGG-TGCCACAGAGTTGTG
1 AAAAGGGTTGCCACCGACTTGTG
70120 GATTTTAAAA
Statistics
Matches: 920, Mismatches: 61, Indels: 4
0.93 0.06 0.00
Matches are distributed among these distances:
31 18 0.02
32 872 0.95
33 30 0.03
ACGTcount: A:0.18, C:0.19, G:0.33, T:0.30
Consensus pattern (32 bp):
AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
Found at i:70227 original size:27 final size:27
Alignment explanation
Indices: 70102--71141 Score: 1614
Period size: 27 Copynumber: 38.0 Consensus size: 27
70092 GCTTTGAAAT
* *
70102 GGGTGCCACAGAGTTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAA
* * *
70130 GAGTGCCACAGAGTTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAA
70158 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
70185 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
*
70213 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
70240 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
70267 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
70294 GGGTGCCACGGAGTTATGGA-TTAAAAA
1 GGGTGCCACGGAGTTGTGGACTT-AAAA
70321 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
70349 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
70376 GAGATGCCATGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
70404 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
70431 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
70458 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
70486 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
70513 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
70540 GGGATGCCACAGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
*
70568 GGGTGCCGCGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
70595 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
70622 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
70649 GGATGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
70676 GAGATGCCACGGAGTTGTGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
*
70704 GGGTGCCACGGCGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
70731 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
70758 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
70786 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
70813 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
70841 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
70868 GGGTGCCACAGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
70895 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
70923 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
70950 TGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
** * *
70977 GAATGCCACGGAGTTATGGACTTTAGAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
71005 GGATGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
71032 GGGATGCCACGGAGTTATGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
*
71060 GGGTGCCACGGAGTTATGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
71087 CGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
71114 GGGTGCCACAGAGTTGTGGGCTTTAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
71141 G
1 G
71142 AGGTCACACT
Statistics
Matches: 940, Mismatches: 59, Indels: 27
0.92 0.06 0.03
Matches are distributed among these distances:
26 2 0.00
27 616 0.66
28 320 0.34
29 2 0.00
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.23
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:70256 original size:82 final size:81
Alignment explanation
Indices: 70102--71141 Score: 1614
Period size: 82 Copynumber: 12.7 Consensus size: 81
70092 GCTTTGAAAT
* * * * *
70102 GGGTGCCACAGAGTTGTGGATTTTAAAAGAGTGCCACAGAGTTGTGGATTTTAAAAGGGTGCCAC
1 GGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCAC
70167 GGAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
* * *
70185 GAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGTGCCACG
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
70250 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
*
70267 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGA-TTAAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACG
70331 GAGTTGTGGACTTTAAAA
65 GAGTTGTGGAC-TTAAAA
* * * *
70349 GGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCATGGAGTTATGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
70414 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
70431 GGGTGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
70496 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* * *
70513 GGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCGCG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
70578 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
70595 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
70660 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
* *
70676 GAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGCGTTGTGGACTTAAAAGGGTGCCACG
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
70741 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
*
70758 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAGATGCCAC
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCAC
*
70823 GGAGTTATGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
* *
70841 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGTCTTAAAAGGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACG
70906 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* **
70923 GGGTGCCACGGAGTTGTGGACTTAAAATGGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* *
70988 AGTTATGGACTTTAGAA
66 AGTTGTGGAC-TTAAAA
* * *
71005 GGATGCCACGAAGTTGTGGACTTAAAAGGGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
71070 GAGTTATGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* * * *
71087 CGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGGCTTTAAAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
71142 AGGTCACACT
Statistics
Matches: 885, Mismatches: 60, Indels: 26
0.91 0.06 0.03
Matches are distributed among these distances:
80 2 0.00
81 174 0.20
82 538 0.61
83 153 0.17
84 18 0.02
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.23
Consensus pattern (81 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAA
Found at i:70481 original size:219 final size:218
Alignment explanation
Indices: 70102--71141 Score: 1658
Period size: 219 Copynumber: 4.8 Consensus size: 218
70092 GCTTTGAAAT
* * * * *
70102 GGGTGCCACAGAGTTGTGGATTTTAAAAGAGTGCCACAGAGTTGTGGATTTTAAAAGGGTGCCAC
1 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGA-CTTAAAAGGATGCCAC
* * *
70167 GGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGG
65 GGAGTTATGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGG
*
70232 TCTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG
129 ACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG
*
70296 GTGCCACGGAGTTATGGA-TTAAAAA
194 GTGCCACGGAGTTGTGGACTT-AAAA
*
70321 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCAT
1 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAG-GATGCCAC
70386 GGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
65 GGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
70451 CTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
130 CTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
*
70516 TGCCACGGAGTTGTGGTCTTAAAA
195 TGCCACGGAGTTGTGGACTTAAAA
* * * *
70540 GGGATGCCACAGAGTTGTGGAC-TTAAAAGGGTGCCGCGGAGTTGTGGACTTAAAAGGGTGCCAC
1 GGG-TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGATGCCAC
* * *
70604 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGAAGTTGTGGA
65 GGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
* *
70669 CTTAAAAGAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGCGTTGTGGACTTAAAAGGG
130 CTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
70734 TGCCACGGAGTTGTGGACTTAAAA
195 TGCCACGGAGTTGTGGACTTAAAA
*
70758 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAGATGCCAC
1 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAG-GATGCCAC
* *
70823 GGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGT
65 GGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
*
70888 CTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAATGG
130 CTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
70953 TGCCACGGAGTTGTGGACTTAAAA
195 TGCCACGGAGTTGTGGACTTAAAA
** * * *
70977 GAATGCCACGGAGTTATGGACTTTAGAAGGATGCCAC-GAAGTTGTGGACTTAAAAGGGATGCCA
1 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAG-AGTTGTGGACTTAAAA-GGATGCCA
* *
71041 CGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAACGGTGCCACGGAGTTGTGG
64 CGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGG
* * *
71106 ACTTAAAAGGG-TGCCACAGAGTTGTGGGCTTTAAAG
129 ACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAG
71142 AGGTCACACT
Statistics
Matches: 767, Mismatches: 46, Indels: 17
0.92 0.06 0.02
Matches are distributed among these distances:
217 17 0.02
218 273 0.36
219 457 0.60
220 20 0.03
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.23
Consensus pattern (218 bp):
GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACG
GAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
TTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGT
GCCACGGAGTTGTGGACTTAAAA
Found at i:72173 original size:13 final size:12
Alignment explanation
Indices: 72155--72187 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
72145 GGTGAAAAGG
*
72155 TTTTTTTTTGGT
1 TTTTTTTTTTGT
72167 TTTTTTTTTTGT
1 TTTTTTTTTTGT
72179 TTTTTTTTT
1 TTTTTTTTT
72188 AGGATTGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (12 bp):
TTTTTTTTTTGT
Found at i:72187 original size:11 final size:11
Alignment explanation
Indices: 72154--72187 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
72144 GGGTGAAAAG
*
72154 GTTTTTTTTTG
1 GTTTTTTTTTT
72165 GTTTTTTTTTTT
1 G-TTTTTTTTTT
72177 GTTTTTTTTTT
1 GTTTTTTTTTT
72188 AGGATTGGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (11 bp):
GTTTTTTTTTT
Found at i:72494 original size:23 final size:24
Alignment explanation
Indices: 72468--72519 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
72458 TTTTATTTTG
*
72468 TTTTTGCACTTTTTCTTTTCA-TT
1 TTTTTGCACTTTTGCTTTTCAGTT
** *
72491 TTTTTGTGCTTTTGCTTTTGAGTT
1 TTTTTGCACTTTTGCTTTTCAGTT
72515 TTTTT
1 TTTTT
72520 TTGTCATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.06, C:0.12, G:0.12, T:0.71
Consensus pattern (24 bp):
TTTTTGCACTTTTGCTTTTCAGTT
Found at i:78677 original size:21 final size:22
Alignment explanation
Indices: 78632--78685 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
78622 TGGACATGTT
78632 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
78654 AAAAATGCATGAAACATAAT-A
1 AAAAATGCATGAAACATAATAA
78675 AAAAATGCATG
1 AAAAATGCATG
78686 GTCAAAGGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 12 0.38
22 20 0.62
ACGTcount: A:0.61, C:0.09, G:0.11, T:0.19
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:79648 original size:20 final size:19
Alignment explanation
Indices: 79601--79675 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 19
79591 AAAAAGATAT
*
79601 AATGTATCGATACATTGTA
1 AATGTATCGATACATTATA
*
79620 GAATATATCGATACATTCATA
1 -AATGTATCGATACATT-ATA
* * *
79641 CATGTATCGATATATTGAAA
1 AATGTATCGATACATT-ATA
79661 AATGTATCGATACAT
1 AATGTATCGATACAT
79676 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (19 bp):
AATGTATCGATACATTATA
Found at i:80314 original size:2 final size:2
Alignment explanation
Indices: 80307--80345 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
80297 ACTCTTGAAT
*
80307 AG AG AG AG AG AG AG GG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
80346 TGAAACTTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:84248 original size:2 final size:2
Alignment explanation
Indices: 84241--84266 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
84231 AAGTTACGTG
84241 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
84267 TTAACAAGAT
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:84543 original size:2 final size:2
Alignment explanation
Indices: 84536--84564 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
84526 TCAAAGAGCA
84536 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
84565 GATATATCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:88484 original size:22 final size:23
Alignment explanation
Indices: 88456--88511 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
88446 TGGACATGTT
88456 AAAAATGCATGAAACATAAT-AA
1 AAAAATGCATGAAACATAATAAA
88478 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
88501 AAAAATGCATG
1 AAAAATGCATG
88512 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:89451 original size:20 final size:19
Alignment explanation
Indices: 89426--89496 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
89416 AGACATAATG
89426 TATCGATACATTGTAGAATA
1 TATCGATACATTGTA-AATA
* * *
89446 TATCGATACATTCATACATG
1 TATCGATACATT-GTAAATA
* *
89466 TATCGATATATTGAAAAATA
1 TATCGATACATTG-TAAATA
89486 TATCGATACAT
1 TATCGATACAT
89497 CAGGGTATGA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 38 0.95
21 2 0.05
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (19 bp):
TATCGATACATTGTAAATA
Found at i:89486 original size:40 final size:39
Alignment explanation
Indices: 89419--89496 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
89409 GGTAAAAAGA
* *
89419 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
*
89458 CATACATGTATCGATATATTGAAAAATATATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
89497 CAGGGTATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:90104 original size:28 final size:28
Alignment explanation
Indices: 90066--90134 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
90056 ACTGACTTGA
90066 GTGGGCTTTGAAAGAATGCCACTAACTC
1 GTGGGCTTTGAAAGAATGCCACTAACTC
* * *
90094 GTGGGCTTTGAAAGGATGCCACTGACTT
1 GTGGGCTTTGAAAGAATGCCACTAACTC
90122 GTGGGCTTTGAAA
1 GTGGGCTTTGAAA
90135 TGGGTTGCCA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (28 bp):
GTGGGCTTTGAAAGAATGCCACTAACTC
Found at i:90162 original size:32 final size:32
Alignment explanation
Indices: 90010--90409 Score: 543
Period size: 32 Copynumber: 12.8 Consensus size: 32
90000 ACAGTGGTGA
* ** **
90010 TTTGAAAAGGGTTGCCATTGACTTGCATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
90042 TTT-AAAAGGG-TGCCACTGACTTGAGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
** ** *
90072 TTTGAAA--GAATGCCACTAAC-T-CGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
90100 TTTGAAA--GGATGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
90128 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
90160 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
90192 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
90224 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
90256 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
90288 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
90320 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
90352 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
90384 TTTGAAATGGG-TGCCACGGAGTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
90410 GATTTAAAAG
Statistics
Matches: 343, Mismatches: 19, Indels: 13
0.91 0.05 0.03
Matches are distributed among these distances:
28 38 0.11
29 2 0.01
30 40 0.12
31 24 0.07
32 239 0.70
ACGTcount: A:0.17, C:0.18, G:0.34, T:0.30
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:90426 original size:27 final size:27
Alignment explanation
Indices: 90392--91568 Score: 1847
Period size: 27 Copynumber: 43.0 Consensus size: 27
90382 GCTTTGAAAT
*
90392 GGGTGCCACGGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
90419 GGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
90446 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
90473 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
90500 GGGTGCCACAGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
90527 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
90555 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
90582 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
90609 GAGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
90636 AGGTGCTACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
90663 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
90690 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
90717 GAGATGCCACGGAGTTGTGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
90745 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
90773 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
90801 GGGTGCCACGGAGTTGTGGACTTAAAGA
1 GGGTGCCACGGAGTTGTGGACTTAAA-A
90829 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* * *
90857 GAGCGCTACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
90884 GGGTGCCACGGAGTTGTGGACTTTGAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
90912 -GGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
90938 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
90966 GAGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
90993 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
91020 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
91048 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
91075 GGGTGCCACGGAGTTGTGGACTTAAAGA
1 GGGTGCCACGGAGTTGTGGACTTAAA-A
*
91103 GGGTGCCACGGAGTTGTAGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* * *
91131 GAGCGCTACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
91158 GGGTGCCACGGAGTTGTGGACTTTGAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
91186 -GGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
91212 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
91240 GAGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
91267 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
91295 GAGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
91322 GGGTGCCACAGAGTTGTGGACTTTGAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
91350 -GGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
91376 GGGTGCCACGGAGTTGTGAACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* **
91404 GAGTGCCACGGAGTTGTGGACTTTGAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
91431 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
91458 GGGTACCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
91486 GAGTGCCACGGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
91513 GGGTGCCACAGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
91541 GGATGCCACGGAGTTGTGGACTTCAAAA
1 GGGTGCCACGGAGTTGTGGACTT-AAAA
91569 AGAAATGCCA
Statistics
Matches: 1063, Mismatches: 66, Indels: 41
0.91 0.06 0.04
Matches are distributed among these distances:
26 15 0.01
27 654 0.62
28 384 0.36
29 10 0.01
ACGTcount: A:0.27, C:0.14, G:0.35, T:0.23
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:90560 original size:55 final size:54
Alignment explanation
Indices: 90392--91568 Score: 1847
Period size: 55 Copynumber: 21.5 Consensus size: 54
90382 GCTTTGAAAT
* *
90392 GGGTGCCACGGAGTTGTGGATTTAAAAGGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
90446 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
90500 GGGTGCCACAGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAA
90555 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * *
90609 GAGTGCCACGGAGTTGTGGACTTAAAAAGGTGCTACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
90663 GGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
90717 GAGATGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAA
90773 GGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAGA
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAA-A
* * *
90829 GGGTGCCACGGAGTTGTGGACTTTAAAAGAGCGCTACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
90884 GGGTGCCACGGAGTTGTGGACTTTGAAA-GGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
90938 GGGTGCCACGGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
90993 GGGTGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAA
91048 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAGA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAA-A
* * * *
91103 GGGTGCCACGGAGTTGTAGACTTTAAAAGAGCGCTACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
91158 GGGTGCCACGGAGTTGTGGACTTTGAAA-GGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
91212 GGGTGCCACGGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
91267 GGGTGCCACGGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * *
91322 GGGTGCCACAGAGTTGTGGACTTTGAAA-GGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * **
91376 GGGTGCCACGGAGTTGTGAACTTTAAAAGAGTGCCACGGAGTTGTGGACTTTGAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
91431 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTACCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAA
* * *
91486 GAGTGCCACGGAGTTGTGGATTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAA
*
91541 GGATGCCACGGAGTTGTGGACTTCAAAA
1 GGGTGCCACGGAGTTGTGGACTT-AAAA
91569 AGAAATGCCA
Statistics
Matches: 1045, Mismatches: 64, Indels: 26
0.92 0.06 0.02
Matches are distributed among these distances:
54 409 0.39
55 518 0.50
56 118 0.11
ACGTcount: A:0.27, C:0.14, G:0.35, T:0.23
Consensus pattern (54 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:90573 original size:82 final size:81
Alignment explanation
Indices: 90392--91568 Score: 1847
Period size: 82 Copynumber: 14.3 Consensus size: 81
90382 GCTTTGAAAT
* *
90392 GGGTGCCACGGAGTTGTGGATTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
90457 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
* *
90473 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGTCTTAAAAGGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACG
90538 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
*
90555 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
90620 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
* * *
90636 AGGTGCTACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
90701 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
*
90717 GAGATGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGATGCCA
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGG-TGCCA
90782 CGGAGTTGTGGACTTAAAA
63 CGGAGTTGTGGACTTAAAA
* * *
90801 GGGTGCCACGGAGTTGTGGACTTAAAGAGGGTGCCACGGAGTTGTGGACTTTAAAAGAGCGCTAC
1 GGGTGCCACGGAGTTGTGGACTTAAA-AGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCAC
90866 GGAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
* *
90884 GGGTGCCACGGAGTTGTGGACTTTGAAA-GGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
90948 GAGTTGTGGACTTTAAAA
65 GAGTTGTGGAC-TTAAAA
*
90966 GAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACG
91031 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
91048 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAGAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAA-AGGGTGCCACG
*
91113 GAGTTGTAGACTTTAAAA
65 GAGTTGTGGAC-TTAAAA
* * * * *
91131 GAGCGCTACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTGAAA-GGTGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
91195 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
*
91212 GGGTGCCACGGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
91277 GAGTTGTGGACTTTAAAA
65 GAGTTGTGGAC-TTAAAA
* * * *
91295 GAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTTGAAA-GGTGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
91359 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* * **
91376 GGGTGCCACGGAGTTGTGAACTTTAAAAGAGTGCCACGGAGTTGTGGACTTTGAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
91441 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* * * *
91458 GGGTACCACGGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGATTTAAAAGGGTGCCACA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
91523 GAGTTGTGGACTTTAAAA
65 GAGTTGTGGAC-TTAAAA
*
91541 GGATGCCACGGAGTTGTGGACTTCAAAA
1 GGGTGCCACGGAGTTGTGGACTT-AAAA
91569 AGAAATGCCA
Statistics
Matches: 1014, Mismatches: 61, Indels: 40
0.91 0.05 0.04
Matches are distributed among these distances:
81 241 0.24
82 482 0.48
83 246 0.24
84 45 0.04
ACGTcount: A:0.27, C:0.14, G:0.35, T:0.23
Consensus pattern (81 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAA
Found at i:95694 original size:7 final size:8
Alignment explanation
Indices: 95670--95694 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
95660 TCTCCCCCCT
95670 CCCCACCC
1 CCCCACCC
95678 CCCCACCC
1 CCCCACCC
95686 CCCCACCC
1 CCCCACCC
95694 C
1 C
95695 GCCAGCTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.88, G:0.00, T:0.00
Consensus pattern (8 bp):
CCCCACCC
Found at i:96241 original size:47 final size:48
Alignment explanation
Indices: 96183--96305 Score: 123
Period size: 47 Copynumber: 2.6 Consensus size: 48
96173 ACTACACACG
* *
96183 AAACAAGAAAAAACCCCACAAAAAACAAACACCAAAACCAC-ACCAAA
1 AAACAAAAAAAAACCCCACAAAAAACAAACACCAAAAACACGACCAAA
* * *
96230 AAACAAAAAAAAAAACCCC-CGACAAAC-AACCCCAAAAACACGACCAAA
1 AAAC--AAAAAAAAACCCCACAAAAAACAAACACCAAAAACACGACCAAA
96278 ACAA-AAAAAAAAA-CCCA-AAAGAAACAAA
1 A-AACAAAAAAAAACCCCACAAA-AAACAAA
96306 ATTAAACGTG
Statistics
Matches: 62, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
45 4 0.06
46 13 0.21
47 18 0.29
48 13 0.21
49 14 0.23
ACGTcount: A:0.67, C:0.29, G:0.03, T:0.00
Consensus pattern (48 bp):
AAACAAAAAAAAACCCCACAAAAAACAAACACCAAAAACACGACCAAA
Found at i:96244 original size:25 final size:24
Alignment explanation
Indices: 96190--96246 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
96180 ACGAAACAAG
* *
96190 AAAAAACCCCACAAAAAACAAACA
1 AAAAAACCACACAAAAAACAAAAA
**
96214 CCAAAACCACACCAAAAAACAAAAA
1 AAAAAACCACA-CAAAAAACAAAAA
96239 AAAAAACC
1 AAAAAACC
96247 CCCGACAAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.70, C:0.30, G:0.00, T:0.00
Consensus pattern (24 bp):
AAAAAACCACACAAAAAACAAAAA
Found at i:96268 original size:48 final size:47
Alignment explanation
Indices: 96190--96305 Score: 125
Period size: 46 Copynumber: 2.5 Consensus size: 47
96180 ACGAAACAAG
96190 AAAAAACCCCACAAAAAACAAACACCAAAACCAC-ACCAAAAAACAAAAA
1 AAAAAACCCCACAAAAAACAAACACCAAAA-CACGACC--AAAACAAAAA
* * *
96239 AAAAAACCCC-CGACAAAC-AACCCCAAAAACACGACCAAAACAAAAA
1 AAAAAACCCCACAAAAAACAAACACC-AAAACACGACCAAAACAAAAA
96285 AAAAAA-CCCA-AAAGAAACAAA
1 AAAAAACCCCACAAA-AAACAAA
96306 ATTAAACGTG
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
45 4 0.07
46 20 0.35
47 10 0.18
48 13 0.23
49 10 0.18
ACGTcount: A:0.67, C:0.30, G:0.03, T:0.00
Consensus pattern (47 bp):
AAAAAACCCCACAAAAAACAAACACCAAAACACGACCAAAACAAAAA
Found at i:96384 original size:6 final size:6
Alignment explanation
Indices: 96375--96429 Score: 51
Period size: 6 Copynumber: 9.5 Consensus size: 6
96365 AAAACCAAAA
* * * *
96375 AAACAC AAACAC AACCCC CAACA- AAACA- AAACAC AAACAC AAACAA
1 AAACAC AAACAC AAACAC AAACAC AAACAC AAACAC AAACAC AAACAC
*
96421 AAAAAC AAA
1 AAACAC AAA
96430 GAACGAAAAC
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
5 9 0.23
6 30 0.77
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (6 bp):
AAACAC
Found at i:96419 original size:22 final size:22
Alignment explanation
Indices: 96366--96422 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
96356 ACGCAAAAAA
96366 AAACCAAA-AAAACACAAACAC
1 AAACCAAACAAAACACAAACAC
* *
96387 AACCCCCAACAAAACA-AAACAC
1 AA-ACCAAACAAAACACAAACAC
96409 AAACACAAACAAAA
1 AAAC-CAAACAAAA
96423 AAACAAAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
21 3 0.10
22 20 0.69
23 6 0.21
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (22 bp):
AAACCAAACAAAACACAAACAC
Found at i:96531 original size:14 final size:14
Alignment explanation
Indices: 96510--96551 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
96500 AGTACACATA
96510 AAAACAAACACAAC
1 AAAACAAACACAAC
*
96524 AAACCAAAC-CAAAC
1 AAAACAAACAC-AAC
*
96538 AAAACAGACACAAC
1 AAAACAAACACAAC
96552 GACCCAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 1 0.04
14 21 0.91
15 1 0.04
ACGTcount: A:0.67, C:0.31, G:0.02, T:0.00
Consensus pattern (14 bp):
AAAACAAACACAAC
Found at i:96890 original size:21 final size:22
Alignment explanation
Indices: 96849--96901 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
96839 AAGCCTGCAC
*
96849 AAACCCAACAATAACACACGCA
1 AAACCCAACAATAACAAACGCA
96871 AAACCC-ACAACTAA-AAACGCA
1 AAACCCAACAA-TAACAAACGCA
*
96892 CAAAACCAAC
1 -AAACCCAAC
96902 TGCAACCCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 10 0.38
22 14 0.54
23 2 0.08
ACGTcount: A:0.57, C:0.36, G:0.04, T:0.04
Consensus pattern (22 bp):
AAACCCAACAATAACAAACGCA
Done.