Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 50 of 226
Found at i:20582002 original size:2 final size:2
Alignment explanation
Indices: 20581995--20582028 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
20581985 TACAATCAAA
20581995 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
20582029 GCCACTACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:20589833 original size:5 final size:5
Alignment explanation
Indices: 20589823--20589848 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
20589813 TTTATTCCTA
20589823 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
20589849 TTCTAGCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:20593419 original size:35 final size:37
Alignment explanation
Indices: 20593374--20593443 Score: 126
Period size: 36 Copynumber: 1.9 Consensus size: 37
20593364 AGAACAACTA
20593374 AATTATACAAAACTT-AAAGAAATCATGACACTGGTT
1 AATTATACAAAACTTAAAAGAAATCATGACACTGGTT
20593410 AATT-TACAAAACTTAAAAGAAATCATGACACTGG
1 AATTATACAAAACTTAAAAGAAATCATGACACTGG
20593444 AAGCTATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
35 10 0.30
36 23 0.70
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (37 bp):
AATTATACAAAACTTAAAAGAAATCATGACACTGGTT
Found at i:20594615 original size:28 final size:28
Alignment explanation
Indices: 20594575--20594631 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
20594565 AGAGAATTCA
20594575 AGTTAATAGAGCGTATGTATACTTACCT
1 AGTTAATAGAGCGTATGTATACTTACCT
20594603 AGTTAATAGAGCGTATGTATACTTACCT
1 AGTTAATAGAGCGTATGTATACTTACCT
20594631 A
1 A
20594632 TAATTGATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (28 bp):
AGTTAATAGAGCGTATGTATACTTACCT
Found at i:20598849 original size:31 final size:29
Alignment explanation
Indices: 20598774--20598852 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
20598764 TGTTTGGCTC
* *
20598774 ATGTTACATTTTAGTCACTTATGTTTGAA
1 ATGTAACATTTTAGTCACTTATGTTTCAA
* * *
20598803 ATGTTACGTTTTAGTCACTTATGTTTTCACG
1 ATGTAACATTTTAGTCACTTATG-TTTCA-A
*
20598834 TTGTAACATTTTAGTCACT
1 ATGTAACATTTTAGTCACT
20598853 GAGCCGTTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 22 0.52
30 4 0.10
31 16 0.38
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.48
Consensus pattern (29 bp):
ATGTAACATTTTAGTCACTTATGTTTCAA
Found at i:20599526 original size:2 final size:2
Alignment explanation
Indices: 20599514--20599546 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
20599504 ATTATCTATC
*
20599514 TA TA CA 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 T
20599547 TAAGCTAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:20600000 original size:15 final size:16
Alignment explanation
Indices: 20599980--20600018 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
20599970 ACCAAAATAT
20599980 ATAAAAAACA-AAAAA
1 ATAAAAAACAGAAAAA
*
20599995 ATAAAAAACAGAAGAA
1 ATAAAAAACAGAAAAA
20600011 A-AAAAAAC
1 ATAAAAAAC
20600019 CTGAACTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.82, C:0.08, G:0.05, T:0.05
Consensus pattern (16 bp):
ATAAAAAACAGAAAAA
Found at i:20600086 original size:27 final size:27
Alignment explanation
Indices: 20600048--20600124 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 27
20600038 CCCTAGGTGG
*
20600048 AGGGAAGTAGGTTGGCGGCACCAAACA
1 AGGGAAGCAGGTTGGCGGCACCAAACA
****
20600075 AGGGAAGCAGGTTGGCGGCACCAGTGG
1 AGGGAAGCAGGTTGGCGGCACCAAACA
*
20600102 AGGGAACCAGGTTGGCGGCACCA
1 AGGGAAGCAGGTTGGCGGCACCA
20600125 CCCTTGAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.27, C:0.21, G:0.42, T:0.10
Consensus pattern (27 bp):
AGGGAAGCAGGTTGGCGGCACCAAACA
Found at i:20600194 original size:18 final size:17
Alignment explanation
Indices: 20600171--20600279 Score: 80
Period size: 18 Copynumber: 6.1 Consensus size: 17
20600161 GAAGGAGAGG
20600171 GGAAG-AAGAAGAAAGAAA
1 GGAAGAAAGAA-AAAG-AA
20600189 GGAAGAAAGAAAAAGAA
1 GGAAGAAAGAAAAAGAA
* *
20600206 GG-A-AAAGGAAATGAGA
1 GGAAGAAAGAAAAAGA-A
20600222 GGAAAGAAAGAAAAAGAA
1 GG-AAGAAAGAAAAAGAA
* *
20600240 GGAAAGAAAAGGAAAAGGGA
1 GG-AAG-AAA-GAAAAAGAA
*
20600260 GGAAAGAAAGAAAAATAA
1 GG-AAGAAAGAAAAAGAA
20600278 GG
1 GG
20600280 CATTTGGAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
15 9 0.12
16 4 0.05
17 4 0.05
18 25 0.33
19 20 0.27
20 13 0.17
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (17 bp):
GGAAGAAAGAAAAAGAA
Found at i:20600204 original size:10 final size:10
Alignment explanation
Indices: 20600173--20600274 Score: 55
Period size: 10 Copynumber: 9.8 Consensus size: 10
20600163 AGGAGAGGGG
*
20600173 AAGAAGAAGA
1 AAGAAAAAGA
20600183 AAGAAAGGAAGA
1 AAGAAA--AAGA
20600195 AAGAAAAAGA
1 AAGAAAAAGA
* *
20600205 AGGAAAAGGA
1 AAGAAAAAGA
20600215 AATGAGAGGAAAGA
1 AA-GA-A--AAAGA
20600229 AAGAAAAAGA
1 AAGAAAAAGA
* *
20600239 AGGAAAGA-A
1 AAGAAAAAGA
* *
20600248 AAGGAAAAGG
1 AAGAAAAAGA
* *
20600258 GAG-GAAAGA
1 AAGAAAAAGA
20600267 AAGAAAAA
1 AAGAAAAA
20600275 TAAGGCATTT
Statistics
Matches: 68, Mismatches: 16, Indels: 16
0.68 0.16 0.16
Matches are distributed among these distances:
9 12 0.18
10 34 0.50
11 2 0.03
12 12 0.18
13 2 0.03
14 6 0.09
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:20600230 original size:20 final size:20
Alignment explanation
Indices: 20600207--20600268 Score: 83
Period size: 19 Copynumber: 3.2 Consensus size: 20
20600197 GAAAAAGAAG
*
20600207 GAAAAGGAAATGAGAGGAAA
1 GAAAAGGAAAAGAGAGGAAA
*
20600227 G-AAAGAAAAAGA-AGGAAA
1 GAAAAGGAAAAGAGAGGAAA
*
20600245 GAAAAGGAAAAGGGAGGAAA
1 GAAAAGGAAAAGAGAGGAAA
20600265 GAAA
1 GAAA
20600269 GAAAAATAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 7 0.19
19 18 0.50
20 11 0.31
ACGTcount: A:0.65, C:0.00, G:0.34, T:0.02
Consensus pattern (20 bp):
GAAAAGGAAAAGAGAGGAAA
Found at i:20600249 original size:38 final size:35
Alignment explanation
Indices: 20600182--20600279 Score: 119
Period size: 38 Copynumber: 2.8 Consensus size: 35
20600172 GAAGAAGAAG
*
20600182 AAAGAAAGG-AAGAAAGAAAAAGAA-GGAAAAGGA
1 AAAGAGAGGAAAGAAAGAAAAAGAAGGGAAAAGGA
*
20600215 AATGAGAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGA
1 AAAGAGAGGAAAGAAAGAAAAAGAAGG---GAAAAGGA
* *
20600253 AAAGGGAGGAAAGAAAGAAAAATAAGG
1 AAAGAGAGGAAAGAAAGAAAAAGAAGG
20600280 CATTTGGAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
33 7 0.13
34 15 0.27
35 1 0.02
38 32 0.58
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (35 bp):
AAAGAGAGGAAAGAAAGAAAAAGAAGGGAAAAGGA
Found at i:20600513 original size:15 final size:15
Alignment explanation
Indices: 20600489--20600527 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
20600479 CAATAAGCAC
*
20600489 AATAACTAAAACTAG
1 AATAATTAAAACTAG
*
20600504 AATAATT-AAATTAG
1 AATAATTAAAACTAG
20600518 AATAATTAAA
1 AATAATTAAA
20600528 TTGATACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (15 bp):
AATAATTAAAACTAG
Found at i:20600520 original size:14 final size:14
Alignment explanation
Indices: 20600501--20600529 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
20600491 TAACTAAAAC
20600501 TAGAATAATTAAAT
1 TAGAATAATTAAAT
20600515 TAGAATAATTAAAT
1 TAGAATAATTAAAT
20600529 T
1 T
20600530 GATACAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (14 bp):
TAGAATAATTAAAT
Found at i:20601557 original size:17 final size:17
Alignment explanation
Indices: 20601535--20601571 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
20601525 AGTAAGATGT
20601535 CATGAATATTAGAATAG
1 CATGAATATTAGAATAG
20601552 CATGAATATTAGAATAG
1 CATGAATATTAGAATAG
20601569 CAT
1 CAT
20601572 CTTACCCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (17 bp):
CATGAATATTAGAATAG
Found at i:20603798 original size:10 final size:10
Alignment explanation
Indices: 20603783--20603845 Score: 60
Period size: 10 Copynumber: 6.5 Consensus size: 10
20603773 TTCTCTTCTC
20603783 CTTTCCTTTT
1 CTTTCCTTTT
20603793 CTTTCCTTATT
1 CTTTCCTT-TT
20603804 -TTT-C-TTT
1 CTTTCCTTTT
* *
20603811 CTTTCCTCTC
1 CTTTCCTTTT
20603821 CTTTCCTTTT
1 CTTTCCTTTT
* *
20603831 CCTTCTTTTT
1 CTTTCCTTTT
20603841 CTTTC
1 CTTTC
20603846 TTCCTTTCTT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
7 2 0.05
8 4 0.10
9 2 0.05
10 32 0.76
11 2 0.05
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.67
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:20603806 original size:34 final size:35
Alignment explanation
Indices: 20603767--20603848 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 35
20603757 TCTTCTTTTT
* * *
20603767 TTTTTTTTCTCTTCTCCTTTCCTTTTC-TTTCCTTA
1 TTTTTCTT-TCTTCTCCTCTCCTTTCCTTTTCCTTA
*
20603802 TTTTTCTTTCTT-TCCTCTCCTTTCCTTTTCCTTC
1 TTTTTCTTTCTTCTCCTCTCCTTTCCTTTTCCTTA
20603836 TTTTTCTTTCTTC
1 TTTTTCTTTCTTC
20603849 CTTTCTTTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
33 11 0.27
34 23 0.56
35 7 0.17
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.68
Consensus pattern (35 bp):
TTTTTCTTTCTTCTCCTCTCCTTTCCTTTTCCTTA
Found at i:20603824 original size:14 final size:13
Alignment explanation
Indices: 20603807--20603857 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 13
20603797 CCTTATTTTT
20603807 CTTTCTTTCCTCTC
1 CTTTCTTTCCT-TC
20603821 CTTTCCTTTTCCTTC
1 CTTT-C-TTTCCTTC
*
20603836 TTTTTCTTT-CTTC
1 -CTTTCTTTCCTTC
20603849 CTTTCTTTC
1 CTTTCTTTC
20603858 TTCTTCTTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
12 7 0.23
13 4 0.13
14 7 0.23
15 4 0.13
16 9 0.29
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (13 bp):
CTTTCTTTCCTTC
Found at i:20603836 original size:28 final size:28
Alignment explanation
Indices: 20603783--20603865 Score: 73
Period size: 28 Copynumber: 3.0 Consensus size: 28
20603773 TTCTCTTCTC
* * *
20603783 CTTTCCTTTTCTTTCCTTATTTTTCTTT
1 CTTTCCTCTCCTTTCCTTATTCTTCTTT
20603811 CTTTCCTCTCCTTTCCTT-TTCCTTCTTTTT
1 CTTTCCTCTCCTTTCCTTATT-CTTC--TTT
* *
20603841 CTTT-CT-TCCTTTCTTTCTTCTTCTT
1 CTTTCCTCTCCTTTCCTTATTCTTCTT
20603866 CCCCTCTCCT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
26 2 0.04
27 2 0.04
28 32 0.68
29 4 0.09
30 7 0.15
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.67
Consensus pattern (28 bp):
CTTTCCTCTCCTTTCCTTATTCTTCTTT
Found at i:20603847 original size:38 final size:35
Alignment explanation
Indices: 20603721--20603840 Score: 116
Period size: 38 Copynumber: 3.3 Consensus size: 35
20603711 ATAAAAATTA
* * *
20603721 CCTTATTTTCTTTTTTTTTCCT-TCCTTCCCTCTTCT
1 CCTTCTTTTTTTTTTTTTTCCTCTCCTTTCCT-TT-T
* *
20603757 TCTTCTTTTTTTTTTTTTCTCTTCTCCTTTCCTTTT
1 CCTTCTTTTTTTTTTTTT-TCCTCTCCTTTCCTTTT
* *
20603793 CTTTCCTTATTTTTCTTTCTTTCCTCTCCTTTCCTTTT
1 CCTT-CTT-TTTTT-TTTTTTTCCTCTCCTTTCCTTTT
20603831 CCTTCTTTTT
1 CCTTCTTTTT
20603841 CTTTCTTCCT
Statistics
Matches: 69, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
36 21 0.30
37 11 0.16
38 32 0.46
39 5 0.07
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.68
Consensus pattern (35 bp):
CCTTCTTTTTTTTTTTTTTCCTCTCCTTTCCTTTT
Found at i:20603853 original size:38 final size:38
Alignment explanation
Indices: 20603779--20603853 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
20603769 TTTTTTCTCT
* *
20603779 TCTCCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCC
1 TCTCCTTTCCTTTTCCTTCCTTATTTTTCTTCCTTTCC
*
20603817 TCTCCTTTCCTTTTCCTT-CTTTTTCTTTCTTCCTTTC
1 TCTCCTTTCCTTTTCCTTCCTTATT-TTTCTTCCTTTC
20603854 TTTCTTCTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 5 0.15
38 28 0.85
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.65
Consensus pattern (38 bp):
TCTCCTTTCCTTTTCCTTCCTTATTTTTCTTCCTTTCC
Found at i:20603858 original size:22 final size:23
Alignment explanation
Indices: 20603823--20603865 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
20603813 TTCCTCTCCT
*
20603823 TTCCTTTTCCTTCTTTTTCTTTC
1 TTCCTTTTCCTTCTTCTTCTTTC
*
20603846 TTCC-TTTCTTTCTTCTTCTT
1 TTCCTTTTCCTTCTTCTTCTT
20603866 CCCCTCTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (23 bp):
TTCCTTTTCCTTCTTCTTCTTTC
Found at i:20603864 original size:18 final size:17
Alignment explanation
Indices: 20603790--20603867 Score: 63
Period size: 18 Copynumber: 4.5 Consensus size: 17
20603780 CTCCTTTCCT
*
20603790 TTTCTTTCCTTATTTTTC
1 TTTC-TTCCTTCTTTTTC
*
20603808 TTTCTTTCC-TCTCCTTTC
1 TTTC-TTCCTTCT-TTTTC
*
20603826 CTT-TTCCTTCTTTTTC
1 TTTCTTCCTTCTTTTTC
20603842 TTTCTTCCTTTCTTTCTTC
1 TTTCTTCC-TTCTTT-TTC
20603861 -TTCTTCC
1 TTTCTTCC
20603868 CCTCTCCTTC
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
16 10 0.20
17 9 0.18
18 28 0.56
19 3 0.06
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTCTTCCTTCTTTTTC
Found at i:20603952 original size:27 final size:27
Alignment explanation
Indices: 20603914--20603966 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
20603904 AATTCAAGGG
*
20603914 TGGTGCCGCCAACCTGGTTCCCTCCAT
1 TGGTGCCGCCAACCTGCTTCCCTCCAT
20603941 TGGTGCCGCCAACCTGCTTCCCTCCA
1 TGGTGCCGCCAACCTGCTTCCCTCCA
20603967 CCCAGGGAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.11, C:0.43, G:0.21, T:0.25
Consensus pattern (27 bp):
TGGTGCCGCCAACCTGCTTCCCTCCAT
Found at i:20604039 original size:27 final size:27
Alignment explanation
Indices: 20604001--20604072 Score: 101
Period size: 27 Copynumber: 2.6 Consensus size: 27
20603991 AGGTTTTTTA
20604001 TATATATATTTTGGTAAATAAAAAAAT
1 TATATATATTTTGGTAAATAAAAAAAT
*
20604028 TATATATTTTTTGGTAAATAAAAAAAAGT
1 TATATATATTTTGGTAAAT-AAAAAAA-T
*
20604057 TATA-ACATTTTGGTAA
1 TATATATATTTTGGTAA
20604073 TATTTTGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 18 0.45
28 17 0.43
29 5 0.12
ACGTcount: A:0.47, C:0.01, G:0.10, T:0.42
Consensus pattern (27 bp):
TATATATATTTTGGTAAATAAAAAAAT
Found at i:20605261 original size:16 final size:16
Alignment explanation
Indices: 20605236--20605266 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20605226 TATTATAAAA
20605236 GTATAAATGTACATAC
1 GTATAAATGTACATAC
*
20605252 GTATATATGTACATA
1 GTATAAATGTACATA
20605267 GAAACTAAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (16 bp):
GTATAAATGTACATAC
Found at i:20605386 original size:3 final size:3
Alignment explanation
Indices: 20605378--20605460 Score: 130
Period size: 3 Copynumber: 27.3 Consensus size: 3
20605368 TATATGTAAG
* *
20605378 AAT AAT AAT ACT ATAT AAT AAT AAT AAG AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
20605424 AAT ACT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
20605461 GAAATCAAGT
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
3 71 0.97
4 2 0.03
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:20606691 original size:13 final size:14
Alignment explanation
Indices: 20606660--20606691 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
20606650 AAATTAATTG
20606660 TTAA-TATTATTTA
1 TTAATTATTATTTA
20606673 TTAATTATT-TTTA
1 TTAATTATTATTTA
20606686 TTAATT
1 TTAATT
20606692 TAATCTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTAATTATTATTTA
Found at i:20624097 original size:22 final size:22
Alignment explanation
Indices: 20624072--20624114 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
20624062 ATCTTTGCTA
20624072 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTC
20624094 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
20624115 GAACAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTC
Found at i:20628772 original size:43 final size:43
Alignment explanation
Indices: 20628725--20628809 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
20628715 TAGGTTATCA
* * * *
20628725 CATATCTATGCCACTGTCCCGGACAGGGTCTTACACGCAATCT
1 CATATCGATGCCAATGTCCCAGACAGGGTCTTACACGAAATCT
*
20628768 CATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAATC
1 CATATCGATGCCAATGTCCCAGACAGGGTCTTACACGAAATC
20628810 ACACCTCGGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.25
Consensus pattern (43 bp):
CATATCGATGCCAATGTCCCAGACAGGGTCTTACACGAAATCT
Found at i:20630800 original size:12 final size:13
Alignment explanation
Indices: 20630783--20630815 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
20630773 CTGATGTGGG
20630783 TTTATTTATT-TA
1 TTTATTTATTGTA
20630795 TTTATTTATTGTA
1 TTTATTTATTGTA
20630808 TGTTATTT
1 T-TTATTT
20630816 TTAAACACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.53
13 3 0.16
14 6 0.32
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (13 bp):
TTTATTTATTGTA
Found at i:20634750 original size:17 final size:17
Alignment explanation
Indices: 20634728--20634767 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
20634718 GGCTAGGTAC
* *
20634728 CTCTTTGGGTAAGGCTA
1 CTCTTTGGGCAAGGCAA
*
20634745 CTCTTTGGGCGAGGCAA
1 CTCTTTGGGCAAGGCAA
20634762 CTCTTT
1 CTCTTT
20634768 TTGGATGAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.23, G:0.28, T:0.35
Consensus pattern (17 bp):
CTCTTTGGGCAAGGCAA
Found at i:20635596 original size:2 final size:2
Alignment explanation
Indices: 20635589--20635657 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
20635579 TCACCAAAAC
20635589 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20635631 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
20635658 ACTTGAATAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20644760 original size:43 final size:43
Alignment explanation
Indices: 20644645--20644770 Score: 121
Period size: 43 Copynumber: 2.9 Consensus size: 43
20644635 AAGGCTCGTA
* * * * *
20644645 CAATGCCAACGTCCTAGACGTGATCTTACATGTAATCACAGAT
1 CAATGCCAACGTCCTAGACGTGGTCTTACACGAAAACACAAAT
* * *
20644688 CGATGCC-ACTGTCCTAAACAG-GGTCTTACAGGAAAACACAAAT
1 CAATGCCAAC-GTCCTAGAC-GTGGTCTTACACGAAAACACAAAT
* * *
20644731 CAATGCCAACGTCCCAGACGTGGTTTTACACAAAAACACA
1 CAATGCCAACGTCCTAGACGTGGTCTTACACGAAAACACA
20644771 TATCGGAAAT
Statistics
Matches: 66, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
42 3 0.05
43 60 0.91
44 3 0.05
ACGTcount: A:0.36, C:0.27, G:0.17, T:0.21
Consensus pattern (43 bp):
CAATGCCAACGTCCTAGACGTGGTCTTACACGAAAACACAAAT
Found at i:20646909 original size:19 final size:19
Alignment explanation
Indices: 20646885--20646933 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
20646875 CTTACGCTCT
* * *
20646885 AGGATGCACTTGGTGTGCC
1 AGGATGCACTTCGAGCGCC
*
20646904 AGGATGCGCTTCGAGCGCC
1 AGGATGCACTTCGAGCGCC
*
20646923 AGTATGCACTT
1 AGGATGCACTT
20646934 TACATGTCAG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.18, C:0.24, G:0.33, T:0.24
Consensus pattern (19 bp):
AGGATGCACTTCGAGCGCC
Found at i:20649470 original size:3 final size:3
Alignment explanation
Indices: 20649462--20649489 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
20649452 TGTAGACCAT
20649462 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
20649490 GTTTTTTCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:20655006 original size:12 final size:12
Alignment explanation
Indices: 20654989--20655013 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20654979 AGATAAAAAA
20654989 GCTGTTACCAAT
1 GCTGTTACCAAT
20655001 GCTGTTACCAAT
1 GCTGTTACCAAT
20655013 G
1 G
20655014 TCGGCATGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (12 bp):
GCTGTTACCAAT
Found at i:20657971 original size:13 final size:13
Alignment explanation
Indices: 20657953--20657980 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
20657943 ATAACTCCTT
20657953 AAATATTTAATAA
1 AAATATTTAATAA
20657966 AAATATTTAATAA
1 AAATATTTAATAA
20657979 AA
1 AA
20657981 TTGACTATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATATTTAATAA
Found at i:20657980 original size:69 final size:69
Alignment explanation
Indices: 20657906--20658044 Score: 269
Period size: 69 Copynumber: 2.0 Consensus size: 69
20657896 CACTAATTCG
*
20657906 ATAAAATTGACTATTCAAACTTCAAGTCATCTACAATATAACTCCTTAAATATTTAATAAAAATA
1 ATAAAATTGACTATCCAAACTTCAAGTCATCTACAATATAACTCCTTAAATATTTAATAAAAATA
20657971 TTTA
66 TTTA
20657975 ATAAAATTGACTATCCAAACTTCAAGTCATCTACAATATAACTCCTTAAATATTTAATAAAAATA
1 ATAAAATTGACTATCCAAACTTCAAGTCATCTACAATATAACTCCTTAAATATTTAATAAAAATA
20658040 TTTA
66 TTTA
20658044 A
1 A
20658045 GATCTCGATG
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (69 bp):
ATAAAATTGACTATCCAAACTTCAAGTCATCTACAATATAACTCCTTAAATATTTAATAAAAATA
TTTA
Found at i:20667321 original size:18 final size:19
Alignment explanation
Indices: 20667285--20667323 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
20667275 ACTAAATAAT
20667285 AAAATATAATAATTATTTA
1 AAAATATAATAATTATTTA
20667304 AAAATAT-AT-ATTACTTTA
1 AAAATATAATAATTA-TTTA
20667322 AA
1 AA
20667324 TTTTAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 8 0.42
19 7 0.37
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATATAATAATTATTTA
Found at i:20668481 original size:12 final size:12
Alignment explanation
Indices: 20668464--20668488 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20668454 AATTTATGCT
20668464 TATGATATGTGA
1 TATGATATGTGA
20668476 TATGATATGTGA
1 TATGATATGTGA
20668488 T
1 T
20668489 GCATATTGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (12 bp):
TATGATATGTGA
Found at i:20668892 original size:50 final size:52
Alignment explanation
Indices: 20668838--20668938 Score: 152
Period size: 51 Copynumber: 2.0 Consensus size: 52
20668828 TATGAGTCAT
*
20668838 TGGTTGTGTTT-GAAGGGTGTTAGCTATATGCTACAC-GTCACGGGATATGC
1 TGGTTGTGTTTGGAAGGGTGTTAGCTATATACTACACAGTCACGGGATATGC
* * *
20668888 TGGTTGTGTTTGGAGGGGTGTTAGCTATATACTACACATTCATGGGATATG
1 TGGTTGTGTTTGGAAGGGTGTTAGCTATATACTACACAGTCACGGGATATG
20668939 TTAGACTCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 11 0.24
51 23 0.51
52 11 0.24
ACGTcount: A:0.21, C:0.12, G:0.32, T:0.36
Consensus pattern (52 bp):
TGGTTGTGTTTGGAAGGGTGTTAGCTATATACTACACAGTCACGGGATATGC
Found at i:20670359 original size:20 final size:20
Alignment explanation
Indices: 20670331--20670369 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20670321 ATGATTGATG
* *
20670331 TATGGTGTGATTGGTGGTTC
1 TATGATGTGATTAGTGGTTC
20670351 TATGATGTGATTAGTGGTT
1 TATGATGTGATTAGTGGTT
20670370 GGTGAGGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.03, G:0.36, T:0.46
Consensus pattern (20 bp):
TATGATGTGATTAGTGGTTC
Found at i:20670513 original size:12 final size:12
Alignment explanation
Indices: 20670496--20670523 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
20670486 ATATTTAGTA
20670496 TGAATTTAAACT
1 TGAATTTAAACT
20670508 TGAATTTAAACT
1 TGAATTTAAACT
20670520 TGAA
1 TGAA
20670524 ATTAGAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (12 bp):
TGAATTTAAACT
Found at i:20691040 original size:21 final size:22
Alignment explanation
Indices: 20691001--20691053 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
20690991 TTCTCTTAAA
20691001 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
20691023 CTCTCAATTTCCTTCAAAAAAT-
1 CTCTCAAATTCCTTC-CAAAATC
20691045 CTCTCAAAT
1 CTCTCAAAT
20691054 CCATATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:20691123 original size:29 final size:28
Alignment explanation
Indices: 20691079--20691142 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 28
20691069 TTTTCCATTC
*
20691079 AATTTCATTTTTTTAAGAA-AATTTTAAAT
1 AATTTTATTTTTTTAA-AATAATTTT-AAT
*
20691108 ATTTTTATTTTTTTAAAATAATTTTAAT
1 AATTTTATTTTTTTAAAATAATTTTAAT
20691136 AATTTTA
1 AATTTTA
20691143 ATATTTTCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 11 0.35
29 20 0.65
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (28 bp):
AATTTTATTTTTTTAAAATAATTTTAAT
Found at i:20691149 original size:29 final size:29
Alignment explanation
Indices: 20691088--20691149 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
20691078 CAATTTCATT
* *
20691088 TTTTTAAGAAAATTTTAAATATTTTTATT
1 TTTTTAAGAAAATTTTAAATATTTTAATA
20691117 TTTTTAA-AATAATTTT-AATAATTTTAATA
1 TTTTTAAGAA-AATTTTAAAT-ATTTTAATA
20691146 TTTT
1 TTTT
20691150 CAACAATGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (29 bp):
TTTTTAAGAAAATTTTAAATATTTTAATA
Found at i:20691269 original size:14 final size:15
Alignment explanation
Indices: 20691240--20691273 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
20691230 AAATTTTAAA
20691240 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
20691255 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
20691269 TTTTA
1 TTTTA
20691274 GATAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:20692242 original size:7 final size:7
Alignment explanation
Indices: 20692230--20692261 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
20692220 AGTGGATTGA
20692230 TATTTAG
1 TATTTAG
20692237 TATTTAG
1 TATTTAG
20692244 TATTTAG
1 TATTTAG
20692251 TATTTAG
1 TATTTAG
20692258 TATT
1 TATT
20692262 ATGTATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:20693141 original size:24 final size:24
Alignment explanation
Indices: 20693114--20693169 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
20693104 GCATGGCTTT
* *
20693114 CAAACTCCGTCGCCGTTCATGATG
1 CAAACACCGTCGCCGTTCATAATG
20693138 CAAACACCGTCGCCGTTCATAATG
1 CAAACACCGTCGCCGTTCATAATG
20693162 CAAACACC
1 CAAACACC
20693170 TTCACATACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.29, C:0.36, G:0.16, T:0.20
Consensus pattern (24 bp):
CAAACACCGTCGCCGTTCATAATG
Found at i:20695512 original size:125 final size:126
Alignment explanation
Indices: 20695302--20695572 Score: 352
Period size: 125 Copynumber: 2.2 Consensus size: 126
20695292 GATTTGACAT
* * *
20695302 TATTTGCTTAGAAACGTCAAAAAATAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGTCC
1 TATTTGCTCAGAAACGTCAAAAAATAATTATTTCCTACATGACCAACTGTACCGAAATCGCATCC
** * **
20695367 ACGAGGGTGCGATTTCACAA-TTTCTTCTCAT-ATAGCATCCTAGTATCAGCGATTTTATAC
66 ACGAGGGCACGATTTCACAATTTTCTTCTC-TGATAACATCCTAGTAGAAGCGATTTTATAC
* * *
20695427 TATTTGCTCAGAAAATGTCAAAAAA-AATTATTTCTTACATGAGCAACTGTACCGAAATCGCATC
1 TATTTGCTCAG-AAACGTCAAAAAATAATTATTTCCTACATGACCAACTGTACCGAAATCGCATC
* * *
20695491 CACGAGGGCACGATTTCACAATTTTTTTTTCTGATAACATCCTGGTAGAAGCGATTTTATAC
65 CACGAGGGCACGATTTCACAATTTTCTTCTCTGATAACATCCTAGTAGAAGCGATTTTATAC
*
20695553 TATTTGAC-CAAAAACGTCAA
1 TATTTG-CTCAGAAACGTCAA
20695573 CTCGAAATAA
Statistics
Matches: 126, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
125 73 0.58
126 52 0.41
127 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (126 bp):
TATTTGCTCAGAAACGTCAAAAAATAATTATTTCCTACATGACCAACTGTACCGAAATCGCATCC
ACGAGGGCACGATTTCACAATTTTCTTCTCTGATAACATCCTAGTAGAAGCGATTTTATAC
Found at i:20695851 original size:29 final size:28
Alignment explanation
Indices: 20695789--20695850 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
20695779 ACGATTTCGC
*
20695789 AAAAAATGGCCCATTCCGGTAAATAATT
1 AAAAAATGGCCCATTCCGATAAATAATT
* *
20695817 AAAAAAGTGGCCCATTTCGATAAAT-TTT
1 AAAAAA-TGGCCCATTCCGATAAATAATT
20695845 AAAAAA
1 AAAAAA
20695851 AAAAGGTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 14 0.47
29 16 0.53
ACGTcount: A:0.47, C:0.15, G:0.13, T:0.26
Consensus pattern (28 bp):
AAAAAATGGCCCATTCCGATAAATAATT
Found at i:20701111 original size:21 final size:22
Alignment explanation
Indices: 20701085--20701133 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
20701075 TGAAAAACTT
20701085 ATATTAAGTAAA-A-ATTTAAA
1 ATATTAAGTAAACATATTTAAA
*
20701105 ATAATT-ATTAAACATATTTAAA
1 AT-ATTAAGTAAACATATTTAAA
20701127 ATATTAA
1 ATATTAA
20701134 ATGTTGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 7 0.29
21 7 0.29
22 10 0.42
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
ATATTAAGTAAACATATTTAAA
Found at i:20704250 original size:51 final size:51
Alignment explanation
Indices: 20704181--20704658 Score: 658
Period size: 48 Copynumber: 9.6 Consensus size: 51
20704171 TATCCTCCAC
* * *
20704181 CCCCTTACGAGTACAAGTCTCCTCCGCCACCCCCGCCATCACCACCCAAGCA
1 CCCC-TACAAGTACAAGTCTCCTCCACCACCCCCACCATCACCACCCAAGCA
* * * * *
20704233 TCCCTATAAGTACAAGTCTCCACCTCCACCTCCACCATCACCACCCAAGCA
1 CCCCTACAAGTACAAGTCTCCTCCACCACCCCCACCATCACCACCCAAGCA
*
20704284 CCCTTACAAGTACAAG--T-CTCCACCACCCCCACCATCACCACCCAAGCA
1 CCCCTACAAGTACAAGTCTCCTCCACCACCCCCACCATCACCACCCAAGCA
*
20704332 CCCCTACAAGTACAAGTCTCCTCCACCACCTCCACCATCACCACCCAAGCA
1 CCCCTACAAGTACAAGTCTCCTCCACCACCCCCACCATCACCACCCAAGCA
*
20704383 CCCCTACAAGTATAAG--T-CTCCACCACCCCCACCATCACCACCCAAGCA
1 CCCCTACAAGTACAAGTCTCCTCCACCACCCCCACCATCACCACCCAAGCA
* * * *
20704431 TCCTTACAAGTACAAGTCTCCACCACCACCACCACCATCACCACCCAAGCA
1 CCCCTACAAGTACAAGTCTCCTCCACCACCCCCACCATCACCACCCAAGCA
*
20704482 CCCCTACAAGTACAAGTCTCCT---CCACCTCCACCATCACCACCCAAGCA
1 CCCCTACAAGTACAAGTCTCCTCCACCACCCCCACCATCACCACCCAAGCA
* *
20704530 TCCCTACAAGTACAAG--T-CTCCACCACCCCCACCCTCACCACCCAAGCA
1 CCCCTACAAGTACAAGTCTCCTCCACCACCCCCACCATCACCACCCAAGCA
* *
20704578 CCCCTACAAGTACAAGTCTCCACC-CCACCCCCACCCTCACCACCCAAGCA
1 CCCCTACAAGTACAAGTCTCCTCCACCACCCCCACCATCACCACCCAAGCA
* *
20704628 CCCTTACAAGTACAAGTCTCCCCCACCACCC
1 CCCCTACAAGTACAAGTCTCCTCCACCACCC
20704659 ACTCCAGTCT
Statistics
Matches: 380, Mismatches: 33, Indels: 27
0.86 0.08 0.06
Matches are distributed among these distances:
45 2 0.01
46 1 0.00
48 165 0.43
49 2 0.01
50 51 0.13
51 156 0.41
52 3 0.01
ACGTcount: A:0.29, C:0.51, G:0.07, T:0.14
Consensus pattern (51 bp):
CCCCTACAAGTACAAGTCTCCTCCACCACCCCCACCATCACCACCCAAGCA
Found at i:20704329 original size:48 final size:48
Alignment explanation
Indices: 20704115--20704660 Score: 639
Period size: 48 Copynumber: 10.9 Consensus size: 48
20704105 TACTCCCCAC
* * *
20704115 CACCACCCAAGGAGCCTTACAAGTATAAGTCTCCACCACCTCCTCCACCAGT
1 CACCACCCAAGCACCCTTACAAGTACAAGTCTCCACCA-C-CC-CCACCA-T
** * * * * *
20704167 GCATTATCCTCCA-CCCCCTTACGAGTACAAGTCTCCTCCGCCACCCCCGCCAT
1 -CACCA-CC-CAAGCACCCTTACAAGTACAAG--T-CTCCACCACCCCCACCAT
* *
20704220 CACCACCCAAGCATCCC-TATAAGTACAAGTCTCCACCTCCACCTCCACCAT
1 CACCACCCAAGCA-CCCTTACAAGTACAAGTCTCCA---CCACCCCCACCAT
20704271 CACCACCCAAGCACCCTTACAAGTACAAGTCTCCACCACCCCCACCAT
1 CACCACCCAAGCACCCTTACAAGTACAAGTCTCCACCACCCCCACCAT
* *
20704319 CACCACCCAAGCACCCCTACAAGTACAAGTCTCCTCCACCACCTCCACCAT
1 CACCACCCAAGCACCCTTACAAGTACAAG--T-CTCCACCACCCCCACCAT
* *
20704370 CACCACCCAAGCACCCCTACAAGTATAAGTCTCCACCACCCCCACCAT
1 CACCACCCAAGCACCCTTACAAGTACAAGTCTCCACCACCCCCACCAT
*
20704418 CACCACCCAAGCATCCTTACAAGTACAAGTCTCCACCACCACCACCACCAT
1 CACCACCCAAGCACCCTTACAAGTACAAGTCTCCACCA-C-CC-CCACCAT
* * *
20704469 CACCACCCAAGCACCCCTACAAGTACAAGTCTCCTCCACCTCCACCAT
1 CACCACCCAAGCACCCTTACAAGTACAAGTCTCCACCACCCCCACCAT
*
20704517 CACCACCCAAGCATCCC-TACAAGTACAAGTCTCCACCACCCCCACCCT
1 CACCACCCAAGCA-CCCTTACAAGTACAAGTCTCCACCACCCCCACCAT
* *
20704565 CACCACCCAAGCACCCCTACAAGTACAAGTCTCCACCCCACCCCCACCCT
1 CACCACCCAAGCACCCTTACAAGTACAAGTCTCCA--CCACCCCCACCAT
*
20704615 CACCACCCAAGCACCCTTACAAGTACAAGTCTCCCCCACCACCCAC
1 CACCACCCAAGCACCCTTACAAGTACAAGTCTCCACCACC-CCCAC
20704661 TCCAGTCTAC
Statistics
Matches: 434, Mismatches: 37, Indels: 48
0.84 0.07 0.09
Matches are distributed among these distances:
47 3 0.01
48 180 0.41
49 12 0.03
50 55 0.13
51 141 0.32
52 6 0.01
53 4 0.01
54 20 0.05
55 4 0.01
56 2 0.00
57 7 0.02
ACGTcount: A:0.29, C:0.50, G:0.07, T:0.14
Consensus pattern (48 bp):
CACCACCCAAGCACCCTTACAAGTACAAGTCTCCACCACCCCCACCAT
Found at i:20704329 original size:99 final size:99
Alignment explanation
Indices: 20704115--20704657 Score: 729
Period size: 99 Copynumber: 5.4 Consensus size: 99
20704105 TACTCCCCAC
* * * * * ** *
20704115 CACCACCCAAGGAGCCTTACAAGTATAAGTCTCCACCACCTCCTCCACCAGTGCATTATCCTCCA
1 CACCACCCAAGCATCCCTACAAGTACAAGTCTCCACCACCACCTCCACCA-T-CACCA-CC-CAA
* * *
20704180 -C-CCCCTTACGAGTACAAGTCTCCTCCGCCACCCCCGCCAT
62 GCACCCC-TACAAGTACAAG--T-CTCCACCACCCCCACCAT
* *
20704220 CACCACCCAAGCATCCCTATAAGTACAAGTCTCCACCTCCACCTCCACCATCACCACCCAAGCAC
1 CACCACCCAAGCATCCCTACAAGTACAAGTCTCCACCACCACCTCCACCATCACCACCCAAGCAC
*
20704285 CCTTACAAGTACAAGTCTCCACCACCCCCACCAT
66 CCCTACAAGTACAAGTCTCCACCACCCCCACCAT
* *
20704319 CACCACCCAAGCACCCCTACAAGTACAAGTCTCCTCCACCACCTCCACCATCACCACCCAAGCAC
1 CACCACCCAAGCATCCCTACAAGTACAAGTCTCCACCACCACCTCCACCATCACCACCCAAGCAC
*
20704384 CCCTACAAGTATAAGTCTCCACCACCCCCACCAT
66 CCCTACAAGTACAAGTCTCCACCACCCCCACCAT
* *
20704418 CACCACCCAAGCATCCTTACAAGTACAAGTCTCCACCACCACCACCACCATCACCACCCAAGCAC
1 CACCACCCAAGCATCCCTACAAGTACAAGTCTCCACCACCACCTCCACCATCACCACCCAAGCAC
* *
20704483 CCCTACAAGTACAAGTCTCCTCCACCTCCACCAT
66 CCCTACAAGTACAAGTCTCCACCACCCCCACCAT
*
20704517 CACCACCCAAGCATCCCTACAAGTACAAGTCTCCACCA-C-CC-CCACCCTCACCACCCAAGCAC
1 CACCACCCAAGCATCCCTACAAGTACAAGTCTCCACCACCACCTCCACCATCACCACCCAAGCAC
*
20704579 CCCTACAAGTACAAGTCTCCACCCCACCCCCACCCT
66 CCCTACAAGTACAAGTCTCCA--CCACCCCCACCAT
*
20704615 CACCACCCAAGCA-CCCTTACAAGTACAAGTCTCCCCCACCACC
1 CACCACCCAAGCATCCC-TACAAGTACAAGTCTCCACCACCACC
20704658 CACTCCAGTC
Statistics
Matches: 398, Mismatches: 33, Indels: 19
0.88 0.07 0.04
Matches are distributed among these distances:
96 40 0.10
97 5 0.01
98 45 0.11
99 239 0.60
100 3 0.01
101 2 0.01
102 14 0.04
103 6 0.02
104 1 0.00
105 43 0.11
ACGTcount: A:0.29, C:0.50, G:0.07, T:0.14
Consensus pattern (99 bp):
CACCACCCAAGCATCCCTACAAGTACAAGTCTCCACCACCACCTCCACCATCACCACCCAAGCAC
CCCTACAAGTACAAGTCTCCACCACCCCCACCAT
Found at i:20724213 original size:3 final size:3
Alignment explanation
Indices: 20724205--20724272 Score: 93
Period size: 3 Copynumber: 23.0 Consensus size: 3
20724195 AAACCTATTG
*
20724205 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CCT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
* * *
20724253 CCT CCT C-T CTT TTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT
20724273 TCCTTCTATT
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
2 2 0.03
3 59 0.97
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
CTT
Found at i:20725614 original size:18 final size:18
Alignment explanation
Indices: 20725580--20725615 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
20725570 GGGATAGGAT
*
20725580 TTTTAGTTAATATAAATA
1 TTTTAGTTAATAAAAATA
*
20725598 TTTTAGTTAGTAAAAATA
1 TTTTAGTTAATAAAAATA
20725616 AGAAATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.47
Consensus pattern (18 bp):
TTTTAGTTAATAAAAATA
Found at i:20728925 original size:29 final size:30
Alignment explanation
Indices: 20728866--20728923 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
20728856 TCCGAGCCTT
*
20728866 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
20728896 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
20728924 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:20729154 original size:13 final size:13
Alignment explanation
Indices: 20729136--20729166 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
20729126 TTCCAGCAAC
20729136 TATGAATTTATTT
1 TATGAATTTATTT
20729149 TATGAATTTATTT
1 TATGAATTTATTT
*
20729162 GATGA
1 TATGA
20729167 TGATCTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
TATGAATTTATTT
Found at i:20729319 original size:50 final size:50
Alignment explanation
Indices: 20729261--20729502 Score: 340
Period size: 50 Copynumber: 4.8 Consensus size: 50
20729251 ATTTGGGTAA
* *
20729261 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
20729311 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATTGGCACCGGGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
20729361 AGAGGTCTCATGTAAGACCATATCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
20729411 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
20729461 AGAACATCCCATGTAAGACCATGTTTGGGACATGGCTTTGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGC
20729503 GTGTTATTAT
Statistics
Matches: 168, Mismatches: 23, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
50 136 0.81
51 32 0.19
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:20736515 original size:29 final size:30
Alignment explanation
Indices: 20736456--20736513 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
20736446 TCCGAGCCTT
*
20736456 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
20736486 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
20736514 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:20736744 original size:13 final size:13
Alignment explanation
Indices: 20736726--20736756 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
20736716 TTCCAGCAAC
20736726 TATGAATTTATTT
1 TATGAATTTATTT
20736739 TATGAATTTATTT
1 TATGAATTTATTT
*
20736752 GATGA
1 TATGA
20736757 TGATCTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
TATGAATTTATTT
Found at i:20736909 original size:50 final size:50
Alignment explanation
Indices: 20736851--20737022 Score: 290
Period size: 50 Copynumber: 3.4 Consensus size: 50
20736841 ATTTGGGTAA
* *
20736851 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
20736901 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGGGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
20736951 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
**
20737001 AGAGGTCCCCCGTAAGACCATG
1 AGAGGTCCCATGTAAGACCATG
20737023 NNNNNNNNNN
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 115 1.00
ACGTcount: A:0.26, C:0.23, G:0.32, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:20740125 original size:24 final size:23
Alignment explanation
Indices: 20740065--20740127 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 23
20740055 TTTTTAGCAG
* *
20740065 TTTTATATTTTTATTTATTTTAAA
1 TTTTATA-TATTATTTATATTAAA
*
20740089 TTTTATATATTATTTATATTAGA
1 TTTTATATATTATTTATATTAAA
*
20740112 TTGTTTTATATTATTT
1 TT-TTATATATTATTT
20740128 TAGATATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 15 0.44
24 19 0.56
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (23 bp):
TTTTATATATTATTTATATTAAA
Found at i:20740135 original size:36 final size:37
Alignment explanation
Indices: 20740088--20740165 Score: 79
Period size: 36 Copynumber: 2.1 Consensus size: 37
20740078 TTTATTTTAA
* * * *
20740088 ATTTTATATATTATTTATATTAGATTGTTTTATAT--T
1 ATTTTAGATATTATGTATATTAAATT-ATTTATATATT
*
20740124 ATTTTAGATATTATGTATTTTAAATTATTTCATATATT
1 ATTTTAGATATTATGTATATTAAATTATTT-ATATATT
20740162 ATTT
1 ATTT
20740166 ATTATGAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
35 3 0.09
36 26 0.76
38 5 0.15
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (37 bp):
ATTTTAGATATTATGTATATTAAATTATTTATATATT
Found at i:20740144 original size:26 final size:26
Alignment explanation
Indices: 20740115--20740168 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
20740105 TATTAGATTG
* *
20740115 TTTTATATTATTTTAGATATTATGTA
1 TTTTAAATTATTTCAGATATTATGTA
* *
20740141 TTTTAAATTATTTCATATATTATTTA
1 TTTTAAATTATTTCAGATATTATGTA
20740167 TT
1 TT
20740169 ATGAATGGCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (26 bp):
TTTTAAATTATTTCAGATATTATGTA
Found at i:20740376 original size:14 final size:14
Alignment explanation
Indices: 20740359--20740392 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
20740349 GAAACCTCTT
20740359 TTTTATATTATTTA
1 TTTTATATTATTTA
* *
20740373 TTTTAAATTTTTTA
1 TTTTATATTATTTA
20740387 TTTTAT
1 TTTTAT
20740393 GTACTTTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTATATTATTTA
Found at i:20740423 original size:23 final size:22
Alignment explanation
Indices: 20740361--20740423 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 22
20740351 AACCTCTTTT
* *
20740361 TTATATTATTTATTTTAAATTTT
1 TTATTTTA-TTATTTTAAATTTG
*
20740384 TTATTTTATGTACTTTAAA-TTG
1 TTATTTTAT-TATTTTAAATTTG
20740406 TTATTGTATATTATTTTA
1 TTATT-T-TATTATTTTA
20740424 TATCATTTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
22 8 0.24
23 22 0.67
24 3 0.09
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.65
Consensus pattern (22 bp):
TTATTTTATTATTTTAAATTTG
Found at i:20751435 original size:18 final size:19
Alignment explanation
Indices: 20751402--20751441 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
20751392 TTATTATTTT
20751402 TATATCTTATAAATAAAAA
1 TATATCTTATAAATAAAAA
*
20751421 TATATCTTA-AAATAATAA
1 TATATCTTATAAATAAAAA
20751439 TAT
1 TAT
20751442 TTAAATACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (19 bp):
TATATCTTATAAATAAAAA
Found at i:20752681 original size:16 final size:18
Alignment explanation
Indices: 20752660--20752692 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
20752650 TATTATTAGA
20752660 TTAAATA-AAA-AATTAT
1 TTAAATATAAATAATTAT
20752676 TTAAATATAAATAATTA
1 TTAAATATAAATAATTA
20752693 ATAATTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TTAAATATAAATAATTAT
Found at i:20756327 original size:27 final size:30
Alignment explanation
Indices: 20756273--20756327 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
20756263 GTAGTAAAAT
*
20756273 AAATAAAAATAATCAATAATTTGCTTTAAA
1 AAATAAAAATAATCAATAATTTGATTTAAA
*
20756303 AAATTAAAAT-AT-AATAA-TTGATTTA
1 AAATAAAAATAATCAATAATTTGATTTA
20756328 TTCATTACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 7 0.30
28 5 0.22
29 2 0.09
30 9 0.39
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (30 bp):
AAATAAAAATAATCAATAATTTGATTTAAA
Found at i:20756564 original size:14 final size:14
Alignment explanation
Indices: 20756547--20756577 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
20756537 AATAAACATT
20756547 AAAAAATTATTTTA
1 AAAAAATTATTTTA
20756561 AAAAAATTATTTTA
1 AAAAAATTATTTTA
20756575 AAA
1 AAA
20756578 GTATTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAAAAATTATTTTA
Found at i:20756577 original size:11 final size:11
Alignment explanation
Indices: 20756549--20756591 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
20756539 TAAACATTAA
20756549 AAAATTATTTT
1 AAAATTATTTT
20756560 AAAAAAATTATTTT
1 ---AAAATTATTTT
*
20756574 AAAAGTATTTT
1 AAAATTATTTT
20756585 AAAATTA
1 AAAATTA
20756592 AAAAATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 16 0.59
14 11 0.41
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (11 bp):
AAAATTATTTT
Found at i:20758898 original size:26 final size:24
Alignment explanation
Indices: 20758852--20758904 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 24
20758842 AAATTTTAAA
* *
20758852 ATATTTATAAAAATTCCAAAATTT
1 ATATTTATAAAAATTCAAAAATGT
20758876 ATATTTATAAAAAATTCTAAAAATGT
1 ATATTTAT-AAAAATTC-AAAAATGT
20758902 ATA
1 ATA
20758905 AAGAAAGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 8 0.32
25 8 0.32
26 9 0.36
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.40
Consensus pattern (24 bp):
ATATTTATAAAAATTCAAAAATGT
Found at i:20761344 original size:20 final size:20
Alignment explanation
Indices: 20761319--20761362 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
20761309 AAAATTAAAA
20761319 TAATT-ATTTAATTTATGACT
1 TAATTAATTTAATTTATGA-T
20761339 TAATTAATTTAATTTATGAT
1 TAATTAATTTAATTTATGAT
20761359 TAAT
1 TAAT
20761363 ATAAAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (20 bp):
TAATTAATTTAATTTATGAT
Found at i:20768063 original size:11 final size:11
Alignment explanation
Indices: 20768047--20768072 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
20768037 AATTGATTGC
20768047 ATTTTCATGTT
1 ATTTTCATGTT
20768058 ATTTTCATGTT
1 ATTTTCATGTT
20768069 ATTT
1 ATTT
20768073 GCCCATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.08, G:0.08, T:0.65
Consensus pattern (11 bp):
ATTTTCATGTT
Found at i:20772345 original size:26 final size:27
Alignment explanation
Indices: 20772305--20772398 Score: 88
Period size: 29 Copynumber: 3.5 Consensus size: 27
20772295 GCCTAAAATA
20772305 TATATATATTAAAAATATGCATATGTAC
1 TATATATA-TAAAAATATGCATATGTAC
*
20772333 TATATATATAAAAAAATATGCGTATGTAC
1 TATATATAT--AAAAATATGCATATGTAC
* *
20772362 TATAT-GA-AAAAA-ATGCATATATA-
1 TATATATATAAAAATATGCATATGTAC
*
20772385 TATATTATGTAAAA
1 TATA-TATATAAAA
20772399 GCCCTGCGTG
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
23 4 0.07
24 10 0.18
25 5 0.09
26 4 0.07
27 1 0.02
28 9 0.16
29 22 0.40
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (27 bp):
TATATATATAAAAATATGCATATGTAC
Found at i:20772358 original size:29 final size:30
Alignment explanation
Indices: 20772303--20772366 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 30
20772293 AAGCCTAAAA
*
20772303 TATATATATATTAAAAATATGCATATGTAC
1 TATATATATATAAAAAATATGCATATGTAC
*
20772333 TATATATATA-AAAAAATATGCGTATGTAC
1 TATATATATATAAAAAATATGCATATGTAC
20772362 TATAT
1 TATAT
20772367 GAAAAAAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 22 0.69
30 10 0.31
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (30 bp):
TATATATATATAAAAAATATGCATATGTAC
Found at i:20772428 original size:3 final size:3
Alignment explanation
Indices: 20772420--20772448 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
20772410 CTGAATATAG
20772420 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
20772449 GTAACACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:20773467 original size:17 final size:18
Alignment explanation
Indices: 20773445--20773488 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
20773435 AAATTAGTTG
*
20773445 TTGGGCCTG-TTAATGGT
1 TTGGGCCCGTTTAATGGT
*
20773462 TTGGGCCCGTTTATTGGT
1 TTGGGCCCGTTTAATGGT
*
20773480 TTGTGCCCG
1 TTGGGCCCG
20773489 GGCATTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.07, C:0.18, G:0.34, T:0.41
Consensus pattern (18 bp):
TTGGGCCCGTTTAATGGT
Found at i:20774019 original size:44 final size:44
Alignment explanation
Indices: 20773840--20774033 Score: 150
Period size: 44 Copynumber: 4.5 Consensus size: 44
20773830 ATCTGCTCTG
* * * *
20773840 CTGCAACGTCAGAGAGATGAGATATGTGGTTTTAATCCACTCCA
1 CTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCA
* * * ** *
20773884 TTGCAACTTCA-AGGAGATAGGAT-TG-GTTTCTTCTGTCTGCTCCA
1 CTGCAACTTCAGA-GAGATAAGATCTGTGGTT-TT-AATCCGCTCCA
* * *** *
20773928 CTGCAACTTCAGGGAGATAAGA-C--TGGATGCGATCCGC-CCT
1 CTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCA
*
20773968 CTGCAACTTCAGAGAGATAAAATCTGTGGTTTTAATCCGCTCCA
1 CTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCA
*
20774012 CTGCAACTTCAGGGAGATAAGA
1 CTGCAACTTCAGAGAGATAAGA
20774034 CTTGTATATT
Statistics
Matches: 111, Mismatches: 29, Indels: 20
0.69 0.18 0.12
Matches are distributed among these distances:
40 22 0.20
41 5 0.05
42 3 0.03
43 17 0.15
44 64 0.58
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (44 bp):
CTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCA
Found at i:20774293 original size:132 final size:132
Alignment explanation
Indices: 20774152--20775072 Score: 1329
Period size: 132 Copynumber: 7.0 Consensus size: 132
20774142 CCACAATCGA
** * * *
20774152 CCAGGGAGATAGAATTGTTGGTTTCAATATACTCCACTGTAACCTCAGGGAGGTAAAATTTGCCA
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCA
*
20774217 TCATTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCT
20774282 GC
131 GC
* * *
20774284 CTAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCA
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCA
* * * *
20774349 TTTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGTCTATTCCACTGTT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCT
20774414 GC
131 GC
*
20774416 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGTCA
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCA
* * * *
20774481 TCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCT
20774546 GC
131 GC
*
20774548 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAAT-TCACC
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCT-GCC
* * *
20774612 ATCTTTGATCTGTTCCACCACTGCTTAGGGAGACAAGATCTGA-AATCTTCAATCTATTCCACTG
65 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ATAATCTTCAATCTATTCCACTG
20774676 CTGC
129 CTGC
*
20774680 CCAGGGA-AGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCAT-AGGGAGGTAAAATCCGC
1 CCAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACC-TCAGGGAGGTAAAATCTGC
* * *
20774743 CATCTTTGATCTGCTCCACTACTGCTTAGGGATACAAGATCTGA-AATCTTTAATCTATTCCACT
64 CATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ATAATCTTCAATCTATTCCACT
*
20774807 GATGC
128 GCTGC
* * *
20774812 CTAGGGA-AGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACATGGAGGTAAAAT-TCGC
1 CCAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCT-GC
* * *
20774875 CATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAATATCTGA-AATCTTCAATCTATTCCGCT
64 CATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ATAATCTTCAATCTATTCCACT
20774939 GCTGC
128 GCTGC
** *
20774944 TGAGGGA-AGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCC
1 CCAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCC
* * * * *
20775008 ATCTTTTATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTATCTTCAATTTATTCAACTGC
65 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGC
20775073 AATATTGTGG
Statistics
Matches: 723, Mismatches: 57, Indels: 18
0.91 0.07 0.02
Matches are distributed among these distances:
131 2 0.00
132 719 0.99
133 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (132 bp):
CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCA
TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCT
GC
Found at i:20774686 original size:44 final size:44
Alignment explanation
Indices: 20774242--20774686 Score: 223
Period size: 44 Copynumber: 10.1 Consensus size: 44
20774232 ACTACTGCTT
* *
20774242 AGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCTGCCT
1 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCC
* * * * **
20774286 AGGGAGAT-AGA-AT-TACTGGCTTCAATATACTCCACTGCAACCTC
1 AGGGAGATAAGATCTGTAAT--CTTCAATCTATTCCACTGCTGCC-C
* * ** * ** ** * **
20774330 AGGGAGGTAAAATCTGCCATTTTTGATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCC
* *
20774374 AGGGAGATAAGATCTGTAATCTTCAGTCTATTCCACTGTTGCCC
1 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCC
* * * * *
20774418 AGGGAGAT-AGA-AT-TACTGGCTTCAATGTACTCCACTG-TAACCTC
1 AGGGAGATAAGATCTGTAAT--CTTCAATCTATTCCACTGCT-GCC-C
* * * * * * *
20774462 AGGGAGGTAAAATCTGTCATCTTCGATCTACTCCACTACTGCCT
1 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCC
20774506 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCC
1 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCC
* * * * *
20774550 AGGGAGAT-AGA-AT-TACTGGCTTCAATGTACTCCACTG-TAACCTC
1 AGGGAGATAAGATCTGTAAT--CTTCAATCTATTCCACTGCT-GCC-C
* * * ** * ** **
20774594 AGGGAGGTAAAAT-T-CACCATCTTTGATCTGTTCCACCACTGCTT
1 AGGGAGATAAGATCTGTA--ATCTTCAATCTATTCCACTGCTGCCC
* *
20774638 AGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCC
1 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCC
20774682 AGGGA
1 AGGGA
20774687 AGTAGAATTA
Statistics
Matches: 286, Mismatches: 90, Indels: 50
0.67 0.21 0.12
Matches are distributed among these distances:
41 9 0.03
42 5 0.02
43 63 0.22
44 148 0.52
45 52 0.18
46 5 0.02
47 4 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCC
Found at i:20776500 original size:13 final size:13
Alignment explanation
Indices: 20776484--20776526 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
20776474 CACCTTAGCC
20776484 TTTCTATTTTACT
1 TTTCTATTTTACT
*
20776497 TTTCTATTTTCAGT
1 TTTCTATTTT-ACT
20776511 TTTC-ATTTTTACT
1 TTTCTA-TTTTACT
20776524 TTT
1 TTT
20776527 TTACATCACT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 16 0.62
14 10 0.38
ACGTcount: A:0.14, C:0.14, G:0.02, T:0.70
Consensus pattern (13 bp):
TTTCTATTTTACT
Found at i:20777502 original size:22 final size:22
Alignment explanation
Indices: 20777474--20777515 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
20777464 GGTTTGGCAG
20777474 AAAAATCCAAAAGAATGAAAGA
1 AAAAATCCAAAAGAATGAAAGA
**
20777496 AAAAATCGTAAAGAATGAAA
1 AAAAATCCAAAAGAATGAAA
20777516 TAACATTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.07, G:0.14, T:0.12
Consensus pattern (22 bp):
AAAAATCCAAAAGAATGAAAGA
Found at i:20780917 original size:25 final size:27
Alignment explanation
Indices: 20780889--20780984 Score: 89
Period size: 29 Copynumber: 3.7 Consensus size: 27
20780879 AAAGCCTAAA
20780889 ATATA-TATATAT-TAAAAATATGCAT
1 ATATACTATATATATAAAAATATGCAT
*
20780914 ATATACTATATATATAAAAAAATATGCGT
1 ATATACTATATATAT--AAAAATATGCAT
*
20780943 ATGTACTATATGA-A-AAAAA-ATGCAT
1 ATATACTATAT-ATATAAAAATATGCAT
*
20780968 ATATA-TAT-TATGTAAAA
1 ATATACTATATATATAAAA
20780985 GCCCTGCGTG
Statistics
Matches: 59, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
22 1 0.02
23 1 0.02
24 7 0.12
25 14 0.24
26 12 0.20
27 1 0.02
29 22 0.37
30 1 0.02
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.35
Consensus pattern (27 bp):
ATATACTATATATATAAAAATATGCAT
Found at i:20780949 original size:29 final size:30
Alignment explanation
Indices: 20780890--20780953 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
20780880 AAGCCTAAAA
*
20780890 TATATATATATTAAAAATATGCATATATAC
1 TATATATATATAAAAAATATGCATATATAC
* *
20780920 TATATATATA-AAAAAATATGCGTATGTAC
1 TATATATATATAAAAAATATGCATATATAC
20780949 TATAT
1 TATAT
20780954 GAAAAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 21 0.68
30 10 0.32
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (30 bp):
TATATATATATAAAAAATATGCATATATAC
Found at i:20782063 original size:17 final size:18
Alignment explanation
Indices: 20782041--20782084 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
20782031 AAATTAGTTG
*
20782041 TTGGGCCTG-TTAATGGT
1 TTGGGCCCGTTTAATGGT
*
20782058 TTGGGCCCGTTTATTGGT
1 TTGGGCCCGTTTAATGGT
*
20782076 TTGTGCCCG
1 TTGGGCCCG
20782085 GGCATTATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.07, C:0.18, G:0.34, T:0.41
Consensus pattern (18 bp):
TTGGGCCCGTTTAATGGT
Found at i:20785068 original size:104 final size:103
Alignment explanation
Indices: 20784775--20785145 Score: 600
Period size: 105 Copynumber: 3.6 Consensus size: 103
20784765 TAGCCGTTAT
** *
20784775 TGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
20784840 AATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
20784878 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
20784943 AATCAGCACATAGCAACCCCCCTTTTCATTTCAAAGATA
66 AATCAGCACATAGCAA-CCCCCTTTTCATTTCAAAGATA
*
20784982 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGAGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
20785047 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * * **
20785087 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
20785146 TTTATATACA
Statistics
Matches: 252, Mismatches: 12, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
103 78 0.31
104 85 0.34
105 88 0.35
106 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:20785507 original size:29 final size:29
Alignment explanation
Indices: 20785474--20785537 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
20785464 TAATCCACCA
20785474 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
20785503 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
20785533 CCCAA
1 CCCAA
20785538 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:20785511 original size:30 final size:30
Alignment explanation
Indices: 20785481--20785537 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
20785471 CCACCCAACT
20785481 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
20785510 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
20785538 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:20786551 original size:44 final size:44
Alignment explanation
Indices: 20786488--20786578 Score: 157
Period size: 44 Copynumber: 2.1 Consensus size: 44
20786478 AACTCTGTTT
*
20786488 TTAGTTTTCTACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
1 TTAGTTTTCTACTTAAACTCTAATTAGTGTAGGTTATTTTAATA
20786532 TTAG-TTTCTCACTTAAACTCTAATTAGTGTAGGTTATTTTAATA
1 TTAGTTTTCT-ACTTAAACTCTAATTAGTGTAGGTTATTTTAATA
20786576 TTA
1 TTA
20786579 TTTGACCTAC
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
43 5 0.11
44 40 0.89
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.49
Consensus pattern (44 bp):
TTAGTTTTCTACTTAAACTCTAATTAGTGTAGGTTATTTTAATA
Found at i:20788509 original size:44 final size:44
Alignment explanation
Indices: 20788443--20788527 Score: 143
Period size: 44 Copynumber: 1.9 Consensus size: 44
20788433 CTCTATTTTA
*
20788443 AGTTTCCCACTTAAACTCTGATTAGTATAGGTTATTTTAATGTT
1 AGTTTCCCACTTAAACTCTGATTAGTATAGCTTATTTTAATGTT
* *
20788487 AGTTTCCCACTTAAACTTTGATTAGTGTAGCTTATTTTAAT
1 AGTTTCCCACTTAAACTCTGATTAGTATAGCTTATTTTAAT
20788528 ATTATTTGGC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.27, C:0.14, G:0.13, T:0.46
Consensus pattern (44 bp):
AGTTTCCCACTTAAACTCTGATTAGTATAGCTTATTTTAATGTT
Found at i:20789231 original size:21 final size:20
Alignment explanation
Indices: 20789209--20789246 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
20789199 GCATAGTATA
20789209 AAAAAATAATTTTAAAATAT
1 AAAAAATAATTTTAAAATAT
* *
20789229 AAAATATTATTTTAAAAT
1 AAAAAATAATTTTAAAAT
20789247 TTATTTCAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAAAATAATTTTAAAATAT
Found at i:20802226 original size:35 final size:35
Alignment explanation
Indices: 20802186--20802256 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
20802176 TAATTGAATT
20802186 AGTCTCGAGTTGACTTATGACATCAACTTGATACA
1 AGTCTCGAGTTGACTTATGACATCAACTTGATACA
20802221 AGTCTCGAGTTGACTTATGACATCAACTTGATACA
1 AGTCTCGAGTTGACTTATGACATCAACTTGATACA
20802256 A
1 A
20802257 CACTTTAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (35 bp):
AGTCTCGAGTTGACTTATGACATCAACTTGATACA
Found at i:20813330 original size:94 final size:93
Alignment explanation
Indices: 20813163--20813436 Score: 284
Period size: 94 Copynumber: 2.9 Consensus size: 93
20813153 CGTAACCCTA
* * *
20813163 AACCCCAAATCCTGATTTATTTGAGTTTTTACTTAAAAACCCTAAACACTAAACCCTAATCTAAT
1 AACCCTAAACCCTAATTTATTTGA-TTTTT--TTAAAAACCCTAAACACTAAACCCTAATCTAAT
*
20813228 TTTATAAAAATTTATAATTAATTTACTCAAGT
63 TTTATAAAAATTT-TAATTAAATTACTCAAGT
* * * * *
20813260 AACCCTGAACCCTAATTTATTTGATTTTTTTAAAAACCCTTAACTCTAAACCCTAATTTGATTTT
1 AACCCTAAACCCTAATTTATTTGATTTTTTTAAAAACCCTAAACACTAAACCCTAATCTAATTTT
* *
20813325 TTAAAAATTTTAATTAAATTACTTAAGT
66 ATAAAAATTTTAATTAAATTACTCAAGT
* * * ** *
20813353 GACCTTAAACCCTAATTTAATTGATTTTTTCTTAAAAAACAATAAACA-TGAAA-CCTAATCCAA
1 AACCCTAAACCCTAATTTATTTGA-TTTTT-TT-AAAAACCCTAAACACT-AAACCCTAATCTAA
*
20813416 TTTT-GAAAAATTTATAATTAA
62 TTTTATAAAAATTT-TAATTAA
20813437 TTTAATTGAC
Statistics
Matches: 149, Mismatches: 23, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
93 36 0.24
94 54 0.36
95 21 0.14
96 18 0.12
97 20 0.13
ACGTcount: A:0.41, C:0.16, G:0.04, T:0.39
Consensus pattern (93 bp):
AACCCTAAACCCTAATTTATTTGATTTTTTTAAAAACCCTAAACACTAAACCCTAATCTAATTTT
ATAAAAATTTTAATTAAATTACTCAAGT
Found at i:20814595 original size:2 final size:2
Alignment explanation
Indices: 20814583--20814613 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
20814573 GACAAATACT
*
20814583 TA TA AA 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 T
20814614 TGATATTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:20819515 original size:13 final size:13
Alignment explanation
Indices: 20819497--20819521 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20819487 TTTGTGATTT
20819497 TCTCTTTTAATAA
1 TCTCTTTTAATAA
20819510 TCTCTTTTAATA
1 TCTCTTTTAATA
20819522 CTCGACCATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.16, G:0.00, T:0.56
Consensus pattern (13 bp):
TCTCTTTTAATAA
Found at i:20822013 original size:24 final size:24
Alignment explanation
Indices: 20821964--20822014 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
20821954 ATTTCTAATA
*
20821964 TTTGTCTTCAATTTCTATCATCTTT
1 TTTGTCTTCAATTTC-ATCATATTT
*
20821989 TTTGTCTTCACCTTTC-TCATATTT
1 TTTGTCTTCA-ATTTCATCATATTT
20822013 TT
1 TT
20822015 ACTTGTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 9 0.39
25 10 0.43
26 4 0.17
ACGTcount: A:0.14, C:0.22, G:0.04, T:0.61
Consensus pattern (24 bp):
TTTGTCTTCAATTTCATCATATTT
Found at i:20830728 original size:3 final size:3
Alignment explanation
Indices: 20830720--20830753 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
20830710 AGTATCCCCA
20830720 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
20830754 GGGTGTGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:20837481 original size:29 final size:28
Alignment explanation
Indices: 20837449--20837509 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
20837439 AAAAGCCGTT
20837449 TTTTTTCAAAATTTACCGAAATGGGCCGA
1 TTTTTTCAAAATTTACCGAAATGGGCC-A
* * *
20837478 TTTTTTGATAATTTACCGGAATGGGCCA
1 TTTTTTCAAAATTTACCGAAATGGGCCA
20837506 TTTT
1 TTTT
20837510 CCGCGAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (28 bp):
TTTTTTCAAAATTTACCGAAATGGGCCA
Found at i:20852263 original size:23 final size:23
Alignment explanation
Indices: 20852237--20852280 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
20852227 ACATTTTACA
20852237 CAATTTAATCAATTCATTATTCC
1 CAATTTAATCAATTCATTATTCC
20852260 CAATTTAATCAATTCATTATT
1 CAATTTAATCAATTCATTATT
20852281 ATTCAACAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.45
Consensus pattern (23 bp):
CAATTTAATCAATTCATTATTCC
Found at i:20852710 original size:31 final size:30
Alignment explanation
Indices: 20852675--20852782 Score: 85
Period size: 31 Copynumber: 3.5 Consensus size: 30
20852665 ACATTAATGC
*
20852675 TAAATTGATAAAATACTATCAAGATAATTAT
1 TAAATTAATAAAATACTATCAAGATAA-TAT
* ** * *
20852706 TAAATCAAATTTAATA-TTTCACA-TTAATAT
1 TAAAT-TAATAAAATACTATCA-AGATAATAT
*
20852736 TAAATTAATAAAATACTATCAAGATAAATAA
1 TAAATTAATAAAATACTATCAAGAT-AATAT
*
20852767 TAAATTTATTAAAATA
1 TAAA-TTAATAAAATA
20852783 ATATTATTTT
Statistics
Matches: 58, Mismatches: 13, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
29 8 0.14
30 13 0.22
31 20 0.34
32 17 0.29
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.37
Consensus pattern (30 bp):
TAAATTAATAAAATACTATCAAGATAATAT
Found at i:20871626 original size:27 final size:27
Alignment explanation
Indices: 20871591--20871642 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
20871581 TCTTCTGAAT
* *
20871591 TTTTTAAATATAAAATA-ATATTTTTTG
1 TTTTAAAATAAAAAATAGA-ATTTTTTG
20871618 TTTTAAAATAAAAAATAGAATTTTT
1 TTTTAAAATAAAAAATAGAATTTTT
20871643 CTTAGATACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (27 bp):
TTTTAAAATAAAAAATAGAATTTTTTG
Found at i:20873086 original size:30 final size:31
Alignment explanation
Indices: 20873051--20873123 Score: 112
Period size: 30 Copynumber: 2.4 Consensus size: 31
20873041 TTTTTTGTCC
*
20873051 AATTTAGTACTTGAACTTGACA-TTTTTCTT
1 AATTTAGTACTTGAACTTGACACATTTTCTT
*
20873081 AATTTAGTACATGAACTTGACACATTTTCTT
1 AATTTAGTACTTGAACTTGACACATTTTCTT
*
20873112 AATTTGGTACTT
1 AATTTAGTACTT
20873124 CATCTTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
30 21 0.55
31 17 0.45
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.47
Consensus pattern (31 bp):
AATTTAGTACTTGAACTTGACACATTTTCTT
Found at i:20877494 original size:16 final size:15
Alignment explanation
Indices: 20877473--20877528 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
20877463 AATTCAGAAA
20877473 AAAAAATATAAAATCT
1 AAAAAATATAAAAT-T
*
20877489 AAAAAACATATAAATT
1 AAAAAATATA-AAATT
*
20877505 ATAAAAATA-AAATTTT
1 A-AAAAATATAAA-ATT
20877521 AAAAAATA
1 AAAAAATA
20877529 AGAATTGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 9 0.26
16 15 0.44
17 10 0.29
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAAAATATAAAATT
Found at i:20877509 original size:18 final size:18
Alignment explanation
Indices: 20877471--20877511 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
20877461 AAAATTCAGA
*
20877471 AAAAAAAATATAAAATCT
1 AAAAAAAATATAAAATAT
* *
20877489 AAAAAACATATAAATTAT
1 AAAAAAAATATAAAATAT
20877507 AAAAA
1 AAAAA
20877512 TAAAATTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAAAAAATATAAAATAT
Found at i:20877714 original size:19 final size:20
Alignment explanation
Indices: 20877683--20877721 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
20877673 AAGTTTAAAT
*
20877683 ACATTTTTAAAATTTTTATA
1 ACATTTTTAAAATTTGTATA
20877703 ACATTTTT-AAATTTGTATA
1 ACATTTTTAAAATTTGTATA
20877722 TATTATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (20 bp):
ACATTTTTAAAATTTGTATA
Found at i:20879538 original size:20 final size:21
Alignment explanation
Indices: 20879496--20879540 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
20879486 TGCTTTGTGA
**
20879496 TTTTCCCTCTATTTCTTTTTT
1 TTTTCCCTCTATTTCTTACTT
*
20879517 TTTTCCC-CTTTTTCTTACTT
1 TTTTCCCTCTATTTCTTACTT
20879537 TTTT
1 TTTT
20879541 ATCAAGAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTCCCTCTATTTCTTACTT
Found at i:20879538 original size:21 final size:21
Alignment explanation
Indices: 20879496--20879540 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
20879486 TGCTTTGTGA
*
20879496 TTTTCCCTCTATTTCTTTTTT
1 TTTTCCCTCTATTTCTTCTTT
*
20879517 TTTTCCC-CTTTTTCTTACTTT
1 TTTTCCCTCTATTTCTT-CTTT
20879538 TTT
1 TTT
20879541 ATCAAGAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTCCCTCTATTTCTTCTTT
Found at i:20883542 original size:19 final size:20
Alignment explanation
Indices: 20883520--20883573 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
20883510 TTAATTTTTT
20883520 AAAATTTTAAAAAATT-CAA
1 AAAATTTTAAAAAATTACAA
* *
20883539 AAAATATTTTATAAATTACAA
1 AAAAT-TTTAAAAAATTACAA
**
20883560 ATTATTTTAAAAAA
1 AAAATTTTAAAAAA
20883574 ATTTTAACAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 5 0.19
20 16 0.59
21 6 0.22
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAATTTTAAAAAATTACAA
Found at i:20883549 original size:21 final size:20
Alignment explanation
Indices: 20883523--20883573 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
20883513 ATTTTTTAAA
20883523 ATTTTAAAAAATTCAAAAAAT
1 ATTTTAAAAAATT-AAAAAAT
* * *
20883544 ATTTT-ATAAATTACAAATT
1 ATTTTAAAAAATTAAAAAAT
20883563 ATTTTAAAAAA
1 ATTTTAAAAAA
20883574 ATTTTAACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 10 0.40
20 10 0.40
21 5 0.20
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (20 bp):
ATTTTAAAAAATTAAAAAAT
Found at i:20884224 original size:14 final size:17
Alignment explanation
Indices: 20884192--20884229 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
20884182 TATTATAAAG
20884192 TATATTATTAAATTAAT
1 TATATTATTAAATTAAT
20884209 TATATTA-TAAA-T-AT
1 TATATTATTAAATTAAT
20884223 TATATTA
1 TATATTA
20884230 AGAAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.43
15 1 0.05
16 4 0.19
17 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTATTAAATTAAT
Found at i:20885137 original size:3 final size:3
Alignment explanation
Indices: 20885117--20885181 Score: 112
Period size: 3 Copynumber: 21.7 Consensus size: 3
20885107 GCGAGGTAAG
* *
20885117 TAT TAA TAT TAG TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
20885165 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
20885182 AGATGAGTGA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:20890156 original size:21 final size:21
Alignment explanation
Indices: 20890114--20890156 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
20890104 TTCAGTATGC
*
20890114 ATTCTTTCATCAGTATCGTTT
1 ATTCTTTCATCAGCATCGTTT
*
20890135 ATTCTTTCTTCAGACATC-TTT
1 ATTCTTTCATCAG-CATCGTTT
20890156 A
1 A
20890157 ATCTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.51
Consensus pattern (21 bp):
ATTCTTTCATCAGCATCGTTT
Found at i:20891304 original size:39 final size:37
Alignment explanation
Indices: 20891237--20891329 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
20891227 ACCAGAATGG
* *
20891237 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
20891276 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
20891313 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
20891330 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:20892483 original size:20 final size:20
Alignment explanation
Indices: 20892449--20892488 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
20892439 TGCTATTCTG
*
20892449 TTTCTTTTCTGTTTTGTTTC
1 TTTCTTTTCTGTTTTATTTC
20892469 TTTCTTTTTCT-TTTTATTTC
1 TTTC-TTTTCTGTTTTATTTC
20892489 NNNNNNNNNN
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTCTTTTCTGTTTTATTTC
Found at i:20892734 original size:14 final size:17
Alignment explanation
Indices: 20892715--20892752 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
20892705 ATTTATTTCT
20892715 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
20892729 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
20892746 TAATATA
1 TAATATA
20892753 CTTTATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:20893390 original size:20 final size:20
Alignment explanation
Indices: 20893365--20893402 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
20893355 GATGTCCTTT
*
20893365 CATTGATTCCTCCTAAATTG
1 CATTGATTCATCCTAAATTG
*
20893385 CATTGATTTATCCTAAAT
1 CATTGATTCATCCTAAAT
20893403 ATTTCATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (20 bp):
CATTGATTCATCCTAAATTG
Done.