Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008183.1 Hibiscus syriacus cultivar Beakdansim tig00110783_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2364390
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 11
Found at i:3730 original size:8 final size:8
Alignment explanation
Indices: 3703--3753 Score: 54
Period size: 8 Copynumber: 6.4 Consensus size: 8
3693 ATTACATTTC
3703 ATTATATAT
1 ATTAT-TAT
3712 ATT-TTATT
1 ATTATTA-T
3720 ATTATTAT
1 ATTATTAT
3728 ATTATTAT
1 ATTATTAT
3736 ATTA-TAT
1 ATTATTAT
3743 -TTGATTAT
1 ATT-ATTAT
3751 ATT
1 ATT
3754 TCTATTTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
6 2 0.05
7 6 0.16
8 21 0.57
9 8 0.22
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (8 bp):
ATTATTAT
Found at i:3852 original size:2 final size:2
Alignment explanation
Indices: 3847--3871 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3837 TTTTACTCAT
3847 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 T
3872 GTATTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4146 original size:19 final size:21
Alignment explanation
Indices: 4107--4152 Score: 69
Period size: 19 Copynumber: 2.3 Consensus size: 21
4097 ATTTATTTCA
*
4107 TTTATTTATTTTTCCTTTTAT
1 TTTATTTATTTTTCCTATTAT
4128 TTTATTT-TTTTT-CTATTAT
1 TTTATTTATTTTTCCTATTAT
4147 TTTATT
1 TTTATT
4153 CTACATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 12 0.50
20 5 0.21
21 7 0.29
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTATTTATTTTTCCTATTAT
Found at i:16149 original size:418 final size:418
Alignment explanation
Indices: 15356--16161 Score: 1441
Period size: 418 Copynumber: 1.9 Consensus size: 418
15346 AGGTTTTACC
*
15356 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
15421 ACGAAGGGACCGCTGGTTGTCAACAACCATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
*
15486 AAGGATATTGGACTCCAGACAGCGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
* * *
15551 ACCATTTCTCGATTCCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
196 AACATTTCTCAATTCCAGAGCCAATTTCAACTTCAAAACGAAGGATATTGGACTCCAGACAACGC
* *
15616 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTTAACAAACATTTCTCAATTTCAGAGCCAGT
261 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAAT
* *** * *
15681 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGTAAGTTCAACTTCACGACGAAGGGAC
326 TTCAACTTCACAACGAAGGATATTAGACTCCAGACAACACAAGCTCAACTTCACAACGAAGGGAC
15746 CGCTGGTTGTCAACAACCATTTCAATTT
391 CGCTGGTTGTCAACAACCATTTCAATTT
*
15774 CAGAGCCAATTTCAACTTCTCAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
15839 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
15904 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
* *
15969 AACATTTCTCAATTTCAGAGCCAATTTCAACTTCAAAACGAAGGATATTGGACTCCAGACAATGC
196 AACATTTCTCAATTCCAGAGCCAATTTCAACTTCAAAACGAAGGATATTGGACTCCAGACAACGC
16034 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAAT
261 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAAT
* *
16099 TTCAACTTCACAACGAAGGATATTAGACTCGAGACAGCACAAGCTCAACTTCACAACGAAGGG
326 TTCAACTTCACAACGAAGGATATTAGACTCCAGACAACACAAGCTCAACTTCACAACGAAGGG
16162 GCGGCTGACT
Statistics
Matches: 369, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
418 369 1.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (418 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
AACATTTCTCAATTCCAGAGCCAATTTCAACTTCAAAACGAAGGATATTGGACTCCAGACAACGC
AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAAT
TTCAACTTCACAACGAAGGATATTAGACTCCAGACAACACAAGCTCAACTTCACAACGAAGGGAC
CGCTGGTTGTCAACAACCATTTCAATTT
Found at i:16180 original size:105 final size:105
Alignment explanation
Indices: 15356--16161 Score: 1418
Period size: 105 Copynumber: 7.7 Consensus size: 105
15346 AGGTTTTACC
*
15356 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
15421 ACGAAGGGACCGCTGGTTGTCAACAACCATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
15461 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAGCGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
15526 ACGAAGGGACCGCTGGTTGTCAACAACCATTTCTCGATTC
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
15566 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
15631 ACGAAGGGACCGCTGGTTGTTAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* * *
15671 CAGAGCCAGTTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
15736 ACGAAGGGACCGCTGGTTGTCAACAACCA-TT-TCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
15774 CAGAGCCAATTTCAACTTCTCAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
15839 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
15879 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
15944 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* *
15984 CAGAGCCAATTTCAACTTCAAAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
16049 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* * * * * *
16089 CAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAGCACAAGCTCAACTTCACA
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
16154 ACGAAGGG
66 ACGAAGGG
16162 GCGGCTGACT
Statistics
Matches: 669, Mismatches: 30, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
103 96 0.14
104 4 0.01
105 569 0.85
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
Found at i:17997 original size:12 final size:13
Alignment explanation
Indices: 17979--18014 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
17969 ATTACGTTTC
17979 ATTATTATATATT
1 ATTATTATATATT
17992 -TTATTAT-TATT
1 ATTATTATATATT
18003 ATTATTATATAT
1 ATTATTATATAT
18015 ATATATTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 4 0.19
12 14 0.67
13 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTATTATATATT
Found at i:18027 original size:24 final size:24
Alignment explanation
Indices: 17979--18028 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
17969 ATTACGTTTC
* *
17979 ATTATTATATATTTTATTATTATT
1 ATTATTATATATTATATTATGATT
18003 ATTATTATATATATATATT-TGATT
1 ATTATTATATAT-TATATTATGATT
18027 AT
1 AT
18029 ATTTCTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (24 bp):
ATTATTATATATTATATTATGATT
Found at i:23866 original size:16 final size:16
Alignment explanation
Indices: 23847--23878 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
23837 TATTTATTTA
23847 ATATATAAGATTGTCT
1 ATATATAAGATTGTCT
23863 ATATATAAGATTGTCT
1 ATATATAAGATTGTCT
23879 CAGTTTCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (16 bp):
ATATATAAGATTGTCT
Found at i:27189 original size:31 final size:34
Alignment explanation
Indices: 27123--27207 Score: 122
Period size: 31 Copynumber: 2.6 Consensus size: 34
27113 AATGGTAATA
* *
27123 AACAAAATTAACCAAATATATTAACAAAAAGTCC
1 AACAAAATTAACAAAATAAATTAACAAAAAGTCC
27157 AACAAAATTAACAAAATAAATT-A-AAAAA-TCC
1 AACAAAATTAACAAAATAAATTAACAAAAAGTCC
*
27188 AACCAAATTAACAAAATAAA
1 AACAAAATTAACAAAATAAA
27208 GTAAGTATTA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
31 22 0.46
32 5 0.10
33 1 0.02
34 20 0.42
ACGTcount: A:0.65, C:0.15, G:0.01, T:0.19
Consensus pattern (34 bp):
AACAAAATTAACAAAATAAATTAACAAAAAGTCC
Found at i:27260 original size:23 final size:23
Alignment explanation
Indices: 27201--27253 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
27191 CAAATTAACA
27201 AAATAAAGTAAGTATTAAATGGC
1 AAATAAAGTAAGTATTAAATGGC
*
27224 AAATAAAGTAAGTATTAAATGGT
1 AAATAAAGTAAGTATTAAATGGC
27247 AAATAAA
1 AAATAAA
27254 AAAAGTACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.57, C:0.02, G:0.15, T:0.26
Consensus pattern (23 bp):
AAATAAAGTAAGTATTAAATGGC
Found at i:27265 original size:14 final size:14
Alignment explanation
Indices: 27248--27280 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
27238 TTAAATGGTA
27248 AATAAAAAAAGTAC
1 AATAAAAAAAGTAC
27262 AAT-AAAAAAGTAC
1 AATAAAAAAAGTAC
27275 AATAAA
1 AATAAA
27281 CAACTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.73, C:0.06, G:0.06, T:0.15
Consensus pattern (14 bp):
AATAAAAAAAGTAC
Found at i:29501 original size:21 final size:23
Alignment explanation
Indices: 29470--29532 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 23
29460 TAATTGCAAA
29470 AAAATTAATTAAATAAAATA-T-T
1 AAAA-TAATTAAATAAAATACTAT
29492 AAAATAATTAAATAAAATACTAAT
1 AAAATAATTAAATAAAATACT-AT
29516 AAAATAA--AAATAAAATA
1 AAAATAATTAAATAAAATA
29533 AAATATACCT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
21 15 0.39
22 15 0.39
24 8 0.21
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.29
Consensus pattern (23 bp):
AAAATAATTAAATAAAATACTAT
Found at i:29518 original size:11 final size:11
Alignment explanation
Indices: 29480--29535 Score: 58
Period size: 11 Copynumber: 4.7 Consensus size: 11
29470 AAAATTAATT
29480 AAATAAAATATTA
1 AAATAAAA-A-TA
29493 AAATAATTAAATA
1 AAATAA--AAATA
**
29506 AAATACTAATA
1 AAATAAAAATA
29517 AAATAAAAATA
1 AAATAAAAATA
29528 AAATAAAA
1 AAATAAAA
29536 TATACCTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
11 21 0.57
13 13 0.35
14 1 0.03
15 2 0.05
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (11 bp):
AAATAAAAATA
Found at i:33442 original size:22 final size:20
Alignment explanation
Indices: 33379--33437 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
33369 AATATATAAC
*
33379 TAATATT-TTTGT-ATATAT
1 TAATATTATTTATAATATAT
33397 TAATATTATTTATAATATAT
1 TAATATTATTTATAATATAT
33417 TAATATTATTTA-AATAATAT
1 TAATATTATTTATAAT-ATAT
33437 T
1 T
33438 TTAATTTTAG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
18 7 0.19
19 7 0.19
20 23 0.62
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TAATATTATTTATAATATAT
Found at i:34667 original size:25 final size:26
Alignment explanation
Indices: 34616--34667 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
34606 CTTATTGTAA
*
34616 TTTTATTTATTAATAAAATTAGTTAC
1 TTTTATTTATTAATAAAATTAGATAC
*
34642 TTTTATTTATGTCA-AAAATTA-ATAC
1 TTTTATTTAT-TAATAAAATTAGATAC
34667 T
1 T
34668 CGATTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 4 0.17
26 17 0.74
27 2 0.09
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (26 bp):
TTTTATTTATTAATAAAATTAGATAC
Found at i:38343 original size:42 final size:42
Alignment explanation
Indices: 38284--38393 Score: 202
Period size: 42 Copynumber: 2.6 Consensus size: 42
38274 CGAATTACCG
38284 TGTTTGTTTCACGTAATTCGTTTTCCGTAAAATGTTTTCCCA
1 TGTTTGTTTCACGTAATTCGTTTTCCGTAAAATGTTTTCCCA
*
38326 TGTTTGTTTCACGTAATTCGTTTTCCGTAAAATGTTTTCCCG
1 TGTTTGTTTCACGTAATTCGTTTTCCGTAAAATGTTTTCCCA
*
38368 TGTTTGTTTCACGTAATTGGTTTTCC
1 TGTTTGTTTCACGTAATTCGTTTTCC
38394 AGAATATAAT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.16, C:0.18, G:0.16, T:0.49
Consensus pattern (42 bp):
TGTTTGTTTCACGTAATTCGTTTTCCGTAAAATGTTTTCCCA
Found at i:38612 original size:22 final size:23
Alignment explanation
Indices: 38581--38624 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
38571 ATTATTTATT
38581 TATTAATATTTATAATAATATAA
1 TATTAATATTTATAATAATATAA
* *
38604 TATT-ATATTTTTAATATTATA
1 TATTAATATTTATAATAATATA
38625 TAAAATAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTAATATTTATAATAATATAA
Found at i:38621 original size:31 final size:31
Alignment explanation
Indices: 38566--38631 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
38556 CATTTTCATC
38566 AAAATAT--TATTTATTTATTAATATT-TAT
1 AAAATATAATATTTATTTATTAATATTATAT
38594 AATAATATAATATTATATTT-TTAATATTATAT
1 AA-AATATAATATT-TATTTATTAATATTATAT
38626 AAAATA
1 AAAATA
38632 ATCAATTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
28 2 0.06
29 5 0.15
31 16 0.48
32 10 0.30
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (31 bp):
AAAATATAATATTTATTTATTAATATTATAT
Found at i:38640 original size:31 final size:32
Alignment explanation
Indices: 38573--38653 Score: 89
Period size: 31 Copynumber: 2.6 Consensus size: 32
38563 ATCAAAATAT
38573 TATT-TATTTATTAATATTTATAATAATATAA
1 TATTATATTTATTAATATTTATAATAATATAA
*
38604 TATTATATTT-TTAATA-TTAT-ATAAAATAA
1 TATTATATTTATTAATATTTATAATAATATAA
*
38633 TCAATTATATTATAATAATAT
1 T--ATTATATT-TATTAATAT
38654 AAGATATTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
29 9 0.21
30 4 0.10
31 18 0.43
32 6 0.14
33 5 0.12
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (32 bp):
TATTATATTTATTAATATTTATAATAATATAA
Found at i:38703 original size:26 final size:26
Alignment explanation
Indices: 38669--38763 Score: 76
Period size: 26 Copynumber: 3.7 Consensus size: 26
38659 ATTATATTTT
38669 TTTAT-TTTAATAATATATAATAAAA
1 TTTATATTTAATAATATATAATAAAA
* *
38694 TTTATATTTAATAATGA-ATAATATTAT
1 TTTATATTTAATAAT-ATATAATA-AAA
*
38721 TTATATATTTAAATAATATTTTAAT-AAA
1 TT-TATATTT-AATAATA-TATAATAAAA
38749 --TATATTTAA-AATATA
1 TTTATATTTAATAATATA
38764 CTCATTAATA
Statistics
Matches: 57, Mismatches: 6, Indels: 17
0.71 0.08 0.21
Matches are distributed among these distances:
22 1 0.02
23 4 0.07
24 2 0.04
25 12 0.21
26 15 0.26
27 4 0.07
28 9 0.16
29 6 0.11
30 4 0.07
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (26 bp):
TTTATATTTAATAATATATAATAAAA
Found at i:38761 original size:15 final size:14
Alignment explanation
Indices: 38723--38758 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
38713 AATATTATTT
38723 ATATATTTAAAT-A
1 ATATATTTAAATAA
38736 ATAT-TTT-AATAA
1 ATATATTTAAATAA
38748 ATATATTTAAA
1 ATATATTTAAA
38759 ATATACTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
11 3 0.15
12 8 0.40
13 7 0.35
14 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATATTTAAATAA
Found at i:38761 original size:23 final size:23
Alignment explanation
Indices: 38723--38786 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
38713 AATATTATTT
**
38723 ATATATTTAAATAATATTTTAATAA
1 ATATATTT-AA-AATATACTAATAA
* *
38748 ATATATTTAAAATATACTCATTA
1 ATATATTTAAAATATACTAATAA
*
38771 ATATTTTTAAAATATA
1 ATATATTTAAAATATA
38787 ATATAACACT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 24 0.71
24 2 0.06
25 8 0.24
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (23 bp):
ATATATTTAAAATATACTAATAA
Found at i:39048 original size:14 final size:14
Alignment explanation
Indices: 39029--39063 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
39019 AAATATAATT
39029 CATTTTCCGGAAAA
1 CATTTTCCGGAAAA
39043 CATTTTCCGGAAAA
1 CATTTTCCGGAAAA
*
39057 CGTTTTC
1 CATTTTC
39064 TAGAAATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (14 bp):
CATTTTCCGGAAAA
Found at i:39122 original size:30 final size:30
Alignment explanation
Indices: 39071--39152 Score: 121
Period size: 30 Copynumber: 2.8 Consensus size: 30
39061 TTCTAGAAAT
* *
39071 GTAATTCATTTT-TAATAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
39100 GTAATTCATTTTCCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
**
39130 GTAATTCAAATTCCAGTAATTCA
1 GTAATTCATTTTCCAGTAATTCA
39153 TTTTCCGGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
29 12 0.25
30 36 0.75
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:39158 original size:15 final size:15
Alignment explanation
Indices: 39086--39152 Score: 116
Period size: 15 Copynumber: 4.5 Consensus size: 15
39076 TCATTTTTAA
39086 TAATTCAAATTCCAG
1 TAATTCAAATTCCAG
**
39101 TAATTCATTTTCCAG
1 TAATTCAAATTCCAG
39116 TAATTCAAATTCCAG
1 TAATTCAAATTCCAG
39131 TAATTCAAATTCCAG
1 TAATTCAAATTCCAG
39146 TAATTCA
1 TAATTCA
39153 TTTTCCGGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 48 1.00
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.37
Consensus pattern (15 bp):
TAATTCAAATTCCAG
Found at i:40391 original size:25 final size:22
Alignment explanation
Indices: 40344--40391 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 22
40334 TTATATAATT
40344 TTGAAAATTTTATTTAAAAAAA
1 TTGAAAATTTTATTTAAAAAAA
40366 TTGAAATATTATTATATTAAAAAAA
1 TTGAAA-ATT-TTAT-TTAAAAAAA
40391 T
1 T
40392 AATTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.26
23 3 0.13
24 4 0.17
25 10 0.43
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (22 bp):
TTGAAAATTTTATTTAAAAAAA
Found at i:42631 original size:60 final size:59
Alignment explanation
Indices: 42450--42632 Score: 183
Period size: 60 Copynumber: 3.1 Consensus size: 59
42440 TATTTGGATG
* * *** *
42450 AATTTAGGGATGAAATTGGAAGTTTCAAAAGTTTGGGGACCAATTTAGAAA-GA-GGTCAT
1 AATTTAGGGATGAAATT-AAAGTTTTAAAAGTTTAAAGACTAATTTA-AAATGAGGGTCAT
* * * * *
42509 AGTTTGGGGATGAAATTAAAATGTGTAAAAGTTTAAAGACTAATTTAAAATG-GGAGACAT
1 AATTTAGGGATGAAATTAAAGT-TTTAAAAGTTTAAAGACTAATTTAAAATGAGG-GTCAT
* *
42569 AATTTAGGGATGAAATTAAAGTATTTAAAAGTTTAAAAACTAATTTAAAATGAGGGTTAT
1 AATTTAGGGATGAAATTAAAGT-TTTAAAAGTTTAAAGACTAATTTAAAATGAGGGTCAT
42629 AATT
1 AATT
42633 AGAGACACAT
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
58 6 0.06
59 35 0.35
60 57 0.57
61 2 0.02
ACGTcount: A:0.43, C:0.04, G:0.22, T:0.32
Consensus pattern (59 bp):
AATTTAGGGATGAAATTAAAGTTTTAAAAGTTTAAAGACTAATTTAAAATGAGGGTCAT
Found at i:43051 original size:19 final size:20
Alignment explanation
Indices: 43023--43065 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
43013 TTAATCTCGA
*
43023 AAATTAAAAATTTAAATT-G
1 AAATTAAAAAATTAAATTCG
* *
43042 AAATTTAAAAATTCAATTCG
1 AAATTAAAAAATTAAATTCG
43062 AAAT
1 AAAT
43066 AATTACATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.35
Consensus pattern (20 bp):
AAATTAAAAAATTAAATTCG
Found at i:43064 original size:20 final size:21
Alignment explanation
Indices: 43019--43065 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
43009 TGTCTTAATC
*
43019 TCGAAAATTAAAAATTTAAAT
1 TCGAAATTTAAAAATTTAAAT
*
43040 T-GAAATTTAAAAA-TTCAAT
1 TCGAAATTTAAAAATTTAAAT
43059 TCGAAAT
1 TCGAAAT
43066 AATTACATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 6 0.26
20 16 0.70
21 1 0.04
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (21 bp):
TCGAAATTTAAAAATTTAAAT
Found at i:43181 original size:2 final size:2
Alignment explanation
Indices: 43174--43224 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
43164 TTAAATCAAG
43174 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
43216 AT AT AT AT A
1 AT AT AT AT A
43225 AATGAAAATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:44848 original size:19 final size:19
Alignment explanation
Indices: 44824--44863 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
44814 CCCTGAACAG
*
44824 AATAAATAAATTA-AAAAAT
1 AATAAA-AAATAATAAAAAT
44843 AATAAAAAATAATAAAAAT
1 AATAAAAAATAATAAAAAT
44862 AA
1 AA
44864 AAACAATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (19 bp):
AATAAAAAATAATAAAAAT
Found at i:44862 original size:16 final size:18
Alignment explanation
Indices: 44824--44866 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 18
44814 CCCTGAACAG
44824 AATAAATAAATTAAAAAAT
1 AATAAA-AAATTAAAAAAT
*
44843 AATAAAAAA-TAATAAA-
1 AATAAAAAATTAAAAAAT
44859 AATAAAAA
1 AATAAAAA
44867 CAATTTCGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 8 0.35
17 6 0.26
18 3 0.13
19 6 0.26
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (18 bp):
AATAAAAAATTAAAAAAT
Found at i:44863 original size:9 final size:10
Alignment explanation
Indices: 44835--44860 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
44825 ATAAATAAAT
44835 TAAAAAATAA
1 TAAAAAATAA
44845 TAAAAAATAA
1 TAAAAAATAA
44855 TAAAAA
1 TAAAAA
44861 TAAAAACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
TAAAAAATAA
Found at i:44971 original size:43 final size:41
Alignment explanation
Indices: 44921--45151 Score: 141
Period size: 35 Copynumber: 6.1 Consensus size: 41
44911 TAAAAACTAC
*
44921 ATATTATATGCAT-TTTCCAAAAAGATTTTTCAAAAACTATATA
1 ATATTATATACATATTTCCAAAAAG--TTTT-AAAAACTATATA
* * *
44964 ATATTATATATATATTTTCAAAATGTTTTAAAAACTATAT-
1 ATATTATATACATATTTCCAAAAAGTTTTAAAAACTATATA
45004 A-A-TATAT--AT-TTT-CAAAAATGTTTTAAAAAC--TAT-
1 ATATTATATACATATTTCCAAAAA-GTTTTAAAAACTATATA
* * * *
45037 ATATTATAT--TTATTTTCAAAATGTTTTAAAAATTATATA
1 ATATTATATACATATTTCCAAAAAGTTTTAAAAACTATATA
*
45076 ATA-TATAT--AT-TTTCAAAAAATGTTTTAAAAA-T-TAT-
1 ATATTATATACATATTTCCAAAAA-GTTTTAAAAACTATATA
* * *
45111 ATTTTAT-TA-GT-TTT-CAAAATGTTTTAAAAACTATATA
1 ATATTATATACATATTTCCAAAAAGTTTTAAAAACTATATA
45148 ATAT
1 ATAT
45152 ATAAATGTTC
Statistics
Matches: 156, Mismatches: 17, Indels: 36
0.75 0.08 0.17
Matches are distributed among these distances:
33 4 0.03
34 16 0.10
35 28 0.18
36 28 0.18
37 16 0.10
38 24 0.15
39 4 0.03
40 1 0.01
41 11 0.07
42 4 0.03
43 11 0.07
44 9 0.06
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (41 bp):
ATATTATATACATATTTCCAAAAAGTTTTAAAAACTATATA
Found at i:45096 original size:38 final size:37
Alignment explanation
Indices: 44875--45234 Score: 294
Period size: 36 Copynumber: 9.6 Consensus size: 37
44865 AACAATTTCG
* *
44875 AAAA-TATATAATATAT-TAATTTCTAAAATGTTATTTTA
1 AAAACTATATAATATATATATTTTCAAAAATG---TTTTA
* * **
44913 AAAACTACATATTATATGCATTTTCCAAAAA-GATTTTTCA
1 AAAACTATATAATATATATATTTT-CAAAAATG--TTTT-A
44953 AAAACTATATAATATTATATATATATTTTC-AAAATGTTTTA
1 AAAAC--TAT-ATA--ATATATATATTTTCAAAAATGTTTTA
44994 AAAACTATAT-A-ATATATATTTTCAAAAATGTTTTA
1 AAAACTATATAATATATATATTTTCAAAAATGTTTTA
* *
45029 AAAACTATATATTATATTTATTTTC-AAAATGTTTTA
1 AAAACTATATAATATATATATTTTCAAAAATGTTTTA
*
45065 AAAATTATATAATATATATATTTTCAAAAAATGTTTTA
1 AAAACTATATAATATATATATTTTC-AAAAATGTTTTA
* *
45103 AAAA-T-TATATTTTAT-TAGTTTTC-AAAATGTTTTA
1 AAAACTATATAATATATATA-TTTTCAAAAATGTTTTA
* * * * *
45137 AAAACTATATAATATATAAATGTTCTTAAACATGCTTGTC
1 AAAACTATATAATATATATAT-TT-TCAAAAATG-TTTTA
* * *
45177 AAAACTATATATTATATATATTTTTTAAAAATGTTTTC
1 AAAACTATATAATATATATA-TTTTCAAAAATGTTTTA
*
45215 AAAA-TATATAATTTATATAT
1 AAAACTATATAATATATATAT
45235 ATATATAATA
Statistics
Matches: 267, Mismatches: 31, Indels: 50
0.77 0.09 0.14
Matches are distributed among these distances:
34 27 0.10
35 25 0.09
36 56 0.21
37 28 0.10
38 30 0.11
39 30 0.11
40 34 0.13
41 12 0.04
42 6 0.02
43 7 0.03
44 2 0.01
45 10 0.04
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (37 bp):
AAAACTATATAATATATATATTTTCAAAAATGTTTTA
Found at i:45915 original size:84 final size:84
Alignment explanation
Indices: 45821--47095 Score: 1148
Period size: 84 Copynumber: 15.4 Consensus size: 84
45811 GTTTTCCTCT
* * * * * *
45821 GAGCTGAGCGTAATCGAACTCGAAGGTCTTCGGTTGGCAAATAGCCCTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATG
*
45886 CTGCAAATGATGTGCCTTG
66 CTGCAAATGATATGCCTTG
* * * * * * * * *
45905 TAGCTAAGCGTAGTCGAACTCGAAGGTATTTAG-TGACAGATAACCTTTCTAGCCTTGAGTTATA
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATG
* * * *
45969 CTGTAAATGATGTGCCCTC
66 CTGCAAATGATATGCCTTG
* * ** * *
45988 GATGCTGAGTGTAATCGAACTCGGGGGGTC--T--TTGGCAAATAACCCTTCTCGACTTAAGTTA
1 GA-GCTGAGCGTAGTCGAACTC-GAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTA
*
46049 TGCTGCAAATGATGTGCCTTG
64 TGCTGCAAATGATATGCCTTG
* * * *
46070 GAGCTGAGCATAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATA
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATG
* *
46135 CTGCAAATGATGTGCCCTCG
66 CTGCAAATGATATG-CCTTG
* * * ** * *
46155 AAGCTGAGTGTAATCGAACTCGGGGGTC--T--TTGGCAGATAACCCTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATG
* *
46216 ATGCAAATGATGTGCCGTT-
66 CTGCAAATGATATGCC-TTG
* * * *
46235 GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATG
46300 CTGCAAATGATATGCCTTG
66 CTGCAAATGATATGCCTTG
* * * * *
46319 GAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTACG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATG
* * *
46383 CTGTAAATGATATACCCTCG
66 CTGCAAATGATAT-GCCTTG
* * * * * * * * *
46403 AAGCTGAGTGTAATCAAACTCGAGGGTC--T--TTGGCAGATAGCCTTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATG
46464 CTGCAAATGATATGCCTTG
66 CTGCAAATGATATGCCTTG
* * * *
46483 GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATG
*
46548 TTGCAAATGATATGCCTTG
66 CTGCAAATGATATGCCTTG
* * * * *
46567 GAGCTTAGCGTAGTCGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTACG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATG
* * *
46631 ATGTAAATGATATGCCCTCG
66 CTGCAAATGATATG-CCTTG
* * * * * * * *
46651 AAGCTGAGTGTAATCGAACTC-AAGGGTC--T--ATGGCAGATAGCCTTTCTCGACTTAAGCTAT
1 GAGCTGAGCGTAGTCGAACTCGAA-GGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTAT
46711 GCTGCAAATGATATGCCTTG
65 GCTGCAAATGATATGCCTTG
* * * *
46731 GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTAGCAGACAACCCTTCTAGACTTAAGTTGA-
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTT-AT
** *
46795 GCTTTAAATGATATGCATTG
65 GCTGCAAATGATATGCCTTG
* * * * * * *
46815 GAGCTTAGCGTAGTCGAACTAGAAGGTCTTTAG-TGACATATAACCCTTCTAGCCTTGAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATG
* **
46879 CTGTAAATGATATGCCCTCA
66 CTGCAAATGATATG-CCTTG
* * * ** * * * *
46899 AAGCTGAGTGTAATCGAACTCGGGGGTC--T--TTGGCATATAGCCCTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATG
**
46960 CTGCAAATGACGTGCCTTG
66 CTGCAAATGATATGCCTTG
* * * *
46979 GAGCTGAGCGTAGTCGAACTCGAAGGGCTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATG
* * * *
47043 ATGTAAATGATGTGCCCTCG
66 CTGCAAATGATATG-CCTTG
* * * *
47063 AAGCTGAGTGTAATCGAACTCGAAGGTGTTTGG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
47096 CAGGTAGCCT
Statistics
Matches: 953, Mismatches: 201, Indels: 74
0.78 0.16 0.06
Matches are distributed among these distances:
80 106 0.11
81 167 0.18
82 51 0.05
83 190 0.20
84 409 0.43
85 30 0.03
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (84 bp):
GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATG
CTGCAAATGATATGCCTTG
Found at i:46457 original size:164 final size:164
Alignment explanation
Indices: 45821--47131 Score: 1133
Period size: 164 Copynumber: 7.9 Consensus size: 164
45811 GTTTTCCTCT
* * * * * * *
45821 GAGCTGAGCGTAATCGAACTCGAAGGTCTTCGGTTGGCAAATAGCCCTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGACTTAAGTTATG
* * * * * *
45886 CTGCAAATGATGTG-CCTTGTAGCTAAGCGTAGTCGAACTCGAAGGTATTTAGTGACAGATAACC
65 CTGCAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTT-G-G-CAGATAACC
* * * * * * * * *
45950 TTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCCTC
127 CTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTG
* * ** * *
45988 GATGCTGAGTGTAATCGAACTCGGGGGGTCTTT-G-G-CAAATAACCCTTCTCGACTTAAGTTAT
1 GA-GCTGAGCGTAGTCGAACTC-GAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTAT
* * * * * *
46050 GCTGCAAATGATGTG-CCTTGGAGCTGAGCATAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAA
64 GCTGCAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTC--T--TTGGCAGATAA
* * *
46114 CCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCCTCG
125 CCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTTG
* * * ** * * *
46155 AAGCTGAGTGTAATCGAACTCGGGGGTCTTT-G-G-CAGATAACCCTTCTCGACTTAAGCTATGA
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATGC
* * * * * *
46217 TGCAAATGATGTGCCGTTG-AGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACC
66 TGCAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTC---T-TTGGCAGATAACC
* *
46281 CTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTG
127 CTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTG
* * * *
46319 GAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTACGC
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATGC
* * * * * * *
46384 TGTAAATGATATACCCTCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGGCAGATAGCCTTTC
66 TGCAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTC
*
46449 TCGACTTAAGCTATGCTGCAAATGATATGCCTTG
131 TCGACTTAAGTTATGCTGCAAATGATATGCCTTG
* * * * *
46483 GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTAGACTTAAGTTATG
* * * * *
46548 TTGCAAATGATATG-CCTTGGAGCTTAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACC
65 CTGCAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTT-G-G-CAGATAACC
* * * * * * *
46612 CTTCTAGCCTTGAGTTACGATGTAAATGATATGCCCTCG
127 CTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTTG
* * * * * * * *
46651 AAGCTGAGTGTAATCGAACTC-AAGGGTCTAT-G-G-CAGATAGCCTTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAA-GGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATG
* * * * *
46712 CTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTAGCAGACAAC
65 CTGCAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTC-TTTG---GCAGATAAC
* ** *
46776 CCTTCTAGACTTAAGTTGA-GCTTTAAATGATATGCATTG
126 CCTTCTCGACTTAAGTT-ATGCTGCAAATGATATGCCTTG
* * * * * *
46815 GAGCTTAGCGTAGTCGAACTAGAAGGTCTTTAGTGACATATAACCCTTCTAGCCTTGAGTTATGC
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATGC
* * * ** * *
46880 TGTAAATGATATGCCCTCAAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCATATAGCCCTTC
66 TGCAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTC
* **
46945 TCGACTTAAGCTATGCTGCAAATGACGTGCCTTG
131 TCGACTTAAGTTATGCTGCAAATGATATGCCTTG
* * * *
46979 GAGCTGAGCGTAGTCGAACTCGAAGGGCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGA
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATGC
* * * * * * *
47044 TGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTGTTTGGCAGGTAGCCTTTC
66 TGCAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTC
*
47109 TCGACTTAAGCTATGCTGCAAAT
131 TCGACTTAAGTTATGCTGCAAAT
47132 AGTTTGTTTA
Statistics
Matches: 959, Mismatches: 156, Indels: 61
0.82 0.13 0.05
Matches are distributed among these distances:
163 1 0.00
164 398 0.42
165 270 0.28
166 69 0.07
167 119 0.12
168 93 0.10
169 9 0.01
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (164 bp):
GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATGC
TGCAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTC
TCGACTTAAGTTATGCTGCAAATGATATGCCTTG
Found at i:46471 original size:248 final size:248
Alignment explanation
Indices: 46019--47095 Score: 1573
Period size: 248 Copynumber: 4.3 Consensus size: 248
46009 CGGGGGGTCT
* * * * * *
46019 TTGGCAAATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCATAGT
1 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
* * * * * ** * *
46084 CAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTG
66 CGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTACGCTGTAAATGATATG
* *
46149 CCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTA
130 CCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTA
* *
46214 TGATGCAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
195 TGCTGCAAATGATATGCC-TTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
*
46268 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGTGTAGT
1 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
*
46333 CGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTACGCTGTAAATGATATAC
66 CGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTACGCTGTAAATGATATGC
* *
46398 CCTCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGGCAGATAGCCTTTCTCGACTTAAGCTAT
131 CCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
46463 GCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
196 GCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
* *
46516 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGTTGCAAATGATATGCCTTGGAGCTTAGCGTAGT
1 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
*
46581 CGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTACGATGTAAATGATATGC
66 CGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTACGCTGTAAATGATATGC
* * *
46646 CCTCGAAGCTGAGTGTAATCGAACTCAAGGGTCTATGGCAGATAGCCTTTCTCGACTTAAGCTAT
131 CCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
46711 GCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
196 GCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
* * ** * *
46764 TTAGCAGACAACCCTTCTAGACTTAAGTTGAGCTTTAAATGATATGCATTGGAGCTTAGCGTAGT
1 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
* * * *
46829 CGAACTAGAAGGTCTTTAGTGACATATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGC
66 CGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTACGCTGTAAATGATATGC
* * *
46894 CCTCAAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCATATAGCCCTTCTCGACTTAAGCTAT
131 CCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
** * *
46959 GCTGCAAATGACGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGGC-TTTG
196 GCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
* * * * * * * * * * * * *
47011 GTGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGTGCCCTCGAAGCTGAGTGTAA
1 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAG
*
47076 TCGAACTCGAAGGTGTTTGG
65 TCGAACTCGAAGGTCTTTGG
47096 CAGGTAGCCT
Statistics
Matches: 754, Mismatches: 72, Indels: 5
0.91 0.09 0.01
Matches are distributed among these distances:
247 41 0.05
248 637 0.84
249 76 0.10
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (248 bp):
TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
CGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTACGCTGTAAATGATATGC
CCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
GCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
Found at i:53965 original size:4 final size:4
Alignment explanation
Indices: 53956--53982 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
53946 ACCCTGAACA
53956 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
53983 AATAAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:54093 original size:43 final size:39
Alignment explanation
Indices: 54072--54348 Score: 241
Period size: 38 Copynumber: 7.5 Consensus size: 39
54062 CAAAAAGATT
*
54072 TTTTGAAAACTATATAATATTATATATATTTCCAAAATG
1 TTTTAAAAACTATATAATATTATATATATTTCCAAAATG
*
54111 TTTTAAAAACTATAT-A-A-TATATAT-TTTCAAAAATG
1 TTTTAAAAACTATATAATATTATATATATTTCCAAAATG
* *
54146 TTTTAAAAAC--TAT-ATATTATATTTATTTTCAAAATG
1 TTTTAAAAACTATATAATATTATATATATTTCCAAAATG
* *
54182 TTTTAAAAATTATATAATA-TATATATA-TTCAAAAAATG
1 TTTTAAAAACTATATAATATTATATATATTTC-CAAAATG
*
54220 TTTTAAAAA-T-TAT-ATATTATAT-TAGTTTTCAAAATG
1 TTTTAAAAACTATATAATATTATATATA-TTTCCAAAATG
* *
54256 TTTTAAAAACTATATAATA-TA-A-AT-GTTCTTAAACATG
1 TTTTAAAAACTATATAATATTATATATATTTC-CAAA-ATG
* * * **
54293 CTTGTCAAAACTATATATTA-TATATATATTTTAAAAATG
1 -TTTTAAAAACTATATAATATTATATATATTTCCAAAATG
*
54332 TTTT-CAAACTATATAAT
1 TTTTAAAAACTATATAAT
54349 GTGTGTATAT
Statistics
Matches: 195, Mismatches: 23, Indels: 42
0.75 0.09 0.16
Matches are distributed among these distances:
33 4 0.02
34 1 0.01
35 33 0.17
36 51 0.26
37 23 0.12
38 52 0.27
39 24 0.12
40 5 0.03
41 2 0.01
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (39 bp):
TTTTAAAAACTATATAATATTATATATATTTCCAAAATG
Found at i:54218 original size:38 final size:37
Alignment explanation
Indices: 54072--54348 Score: 282
Period size: 36 Copynumber: 7.5 Consensus size: 37
54062 CAAAAAGATT
* *
54072 TTTTGAAAACTATATAATATTATATATATTTCCAAAATG
1 TTTTAAAAACTATATAATA-TATATATA-TTCAAAAATG
54111 TTTTAAAAACTATATAATATATAT-T-TTCAAAAATG
1 TTTTAAAAACTATATAATATATATATATTCAAAAATG
* * *
54146 TTTTAAAAACTATATATTATATTTATTTTC-AAAATG
1 TTTTAAAAACTATATAATATATATATATTCAAAAATG
*
54182 TTTTAAAAATTATATAATATATATATATTCAAAAAATG
1 TTTTAAAAACTATATAATATATATATATTC-AAAAATG
* * *
54220 TTTTAAAAATTATATATTATAT-TAGTTTTC-AAAATG
1 TTTTAAAAACTATATAATATATATA-TATTCAAAAATG
* *
54256 TTTTAAAAACTATATAATATA-A-ATGTTCTTAAACATG
1 TTTTAAAAACTATATAATATATATATATTC--AAAAATG
* * * *
54293 CTTGTCAAAACTATATATTATATATATATTTTAAAAATG
1 -TTTTAAAAACTATATAATATATATATA-TTCAAAAATG
*
54332 TTTT-CAAACTATATAAT
1 TTTTAAAAACTATATAAT
54349 GTGTGTATAT
Statistics
Matches: 202, Mismatches: 23, Indels: 28
0.80 0.09 0.11
Matches are distributed among these distances:
34 4 0.02
35 32 0.16
36 58 0.29
37 22 0.11
38 57 0.28
39 25 0.12
40 2 0.01
41 2 0.01
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (37 bp):
TTTTAAAAACTATATAATATATATATATTCAAAAATG
Found at i:54227 original size:74 final size:73
Alignment explanation
Indices: 54032--54348 Score: 333
Period size: 74 Copynumber: 4.2 Consensus size: 73
54022 TAATATGTTA
* * * *
54032 TTTTAAAAATTATATATTATATGCAT-TTTCCAAAAAGATTTTTTGAAAACTATATAATATTATA
1 TTTTAAAAACTATATAATATAT--ATATTT-CAAAAA-ATGTTTTAAAAAC--TAT-ATATTATA
* *
54096 TATATTTCCAAAATG
59 TTTATTTTCAAAATG
54111 TTTTAAAAACTATATAATATATAT-TTTC-AAAAATGTTTTAAAAACTATATATTATATTTATTT
1 TTTTAAAAACTATATAATATATATATTTCAAAAAATGTTTTAAAAACTATATATTATATTTATTT
54174 TCAAAATG
66 TCAAAATG
* *
54182 TTTTAAAAATTATATAATATATATATATTCAAAAAATGTTTTAAAAATTATATATTATA-TTAGT
1 TTTTAAAAACTATATAATATATATAT-TTCAAAAAATGTTTTAAAAACTATATATTATATTTA-T
54246 TTTCAAAATG
64 TTTCAAAATG
* * * *
54256 TTTTAAAAACTATATAATATA-A-ATGTTCTTAAACATGCTTGTCAAAACTATATATTATATATA
1 TTTTAAAAACTATATAATATATATAT-TTC-AAAAAATG-TTTTAAAAACTATATATTATAT-T-
*
54319 TATTTTAAAAATG
61 TATTTTCAAAATG
*
54332 TTTT-CAAACTATATAAT
1 TTTTAAAAACTATATAAT
54349 GTGTGTATAT
Statistics
Matches: 212, Mismatches: 17, Indels: 22
0.84 0.07 0.09
Matches are distributed among these distances:
71 44 0.21
72 9 0.04
73 13 0.06
74 87 0.41
75 16 0.08
76 16 0.08
77 7 0.03
79 20 0.09
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (73 bp):
TTTTAAAAACTATATAATATATATATTTCAAAAAATGTTTTAAAAACTATATATTATATTTATTT
TCAAAATG
Found at i:55458 original size:2 final size:2
Alignment explanation
Indices: 55451--55476 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
55441 TGATAAATCC
55451 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
55477 CAACAAGATC
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):
TA
Found at i:56881 original size:2 final size:2
Alignment explanation
Indices: 56874--56922 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
56864 CTCATACGGC
56874 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
56916 AT AT AT A
1 AT AT AT A
56923 CATTGATGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:62635 original size:19 final size:19
Alignment explanation
Indices: 62586--62635 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
62576 GAAAGTGTGA
*
62586 TATGAGTTATATGTTATTG
1 TATGAATTATATGTTATTG
* *
62605 TATGCATGATATGTT-TTG
1 TATGAATTATATGTTATTG
62623 TATGAATATATAT
1 TATGAAT-TATAT
62636 ACACTAGTGT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.30, C:0.02, G:0.18, T:0.50
Consensus pattern (19 bp):
TATGAATTATATGTTATTG
Found at i:63024 original size:32 final size:31
Alignment explanation
Indices: 62983--63055 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 31
62973 GAGTCGAGGG
62983 TTACCTATGTCTTTC-GAGACATATGGACATGA
1 TTACCTATGTCTTTCGGA-ACATATGGACA-GA
* *
63015 TTACCTATGTCTTTCGGAACATATGGATAGT
1 TTACCTATGTCTTTCGGAACATATGGACAGA
63046 TTACCTATGT
1 TTACCTATGT
63056 TCTAAGAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
31 11 0.29
32 25 0.66
33 2 0.05
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (31 bp):
TTACCTATGTCTTTCGGAACATATGGACAGA
Found at i:63053 original size:31 final size:31
Alignment explanation
Indices: 62983--63083 Score: 116
Period size: 31 Copynumber: 3.2 Consensus size: 31
62973 GAGTCGAGGG
* *
62983 TTACCTATGTCTTTC-GAGACATATGGACATGA
1 TTACCTATGTCTTTCGGA-ACATATGGATA-GT
63015 TTACCTATGTCTTTCGGAACATATGGATAGT
1 TTACCTATGTCTTTCGGAACATATGGATAGT
** *
63046 TTACCTATGT-TCTAAGAAACATATGGATAGT
1 TTACCTATGTCT-TTCGGAACATATGGATAGT
63077 TTACCTA
1 TTACCTA
63084 GGTTCTTCGG
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
30 1 0.02
31 34 0.55
32 25 0.40
33 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (31 bp):
TTACCTATGTCTTTCGGAACATATGGATAGT
Found at i:63102 original size:31 final size:31
Alignment explanation
Indices: 63001--63108 Score: 101
Period size: 31 Copynumber: 3.5 Consensus size: 31
62991 GTCTTTCGAG
* * *
63001 ACATATGGACATGATTACCTATG-TCTTTCGGA
1 ACATATGGATA-GTTTACCTAGGTTC-TTCGGA
* ** *
63033 ACATATGGATAGTTTACCTATGTTCTAAGAA
1 ACATATGGATAGTTTACCTAGGTTCTTCGGA
*
63064 ACATATGGATAGTTTACCTAGGTTCTTCGGG
1 ACATATGGATAGTTTACCTAGGTTCTTCGGA
* *
63095 ACCTATGGACAGTT
1 ACATATGGATAGTT
63109 GTTGAGGTTC
Statistics
Matches: 63, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
31 51 0.81
32 12 0.19
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (31 bp):
ACATATGGATAGTTTACCTAGGTTCTTCGGA
Found at i:77566 original size:23 final size:23
Alignment explanation
Indices: 77506--77567 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 23
77496 TAAAATAATT
*
77506 TTATTTTATAA-A-TTTTAAATA
1 TTATTTCATAATATTTTTAAATA
* * *
77527 TTATTTGATAATCTTTTTAAGTA
1 TTATTTCATAATATTTTTAAATA
77550 TT-TTTCATAAATATTTTT
1 TTATTTCAT-AATATTTTT
77568 TAAAATTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
21 10 0.30
22 5 0.15
23 18 0.55
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (23 bp):
TTATTTCATAATATTTTTAAATA
Found at i:78696 original size:2 final size:2
Alignment explanation
Indices: 78689--78735 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
78679 TTGATATAAT
78689 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
78731 T- TA TA
1 TA TA TA
78736 GTTTAATTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:81837 original size:18 final size:17
Alignment explanation
Indices: 81804--81837 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
81794 GAATAATTAA
81804 ATAAAATATCAAAATAT
1 ATAAAATATCAAAATAT
*
81821 ATAAAATCATTAAAATA
1 ATAAAAT-ATCAAAATA
81838 AAACAGACTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAATATCAAAATAT
Found at i:84981 original size:21 final size:22
Alignment explanation
Indices: 84955--84995 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
84945 CCAGGACAGG
84955 GAGTATCGATA-TTCCTTTAAA
1 GAGTATCGATACTTCCTTTAAA
*
84976 GAGTATCGGTACTTCCTTTA
1 GAGTATCGATACTTCCTTTA
84996 TAATTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (22 bp):
GAGTATCGATACTTCCTTTAAA
Found at i:89751 original size:13 final size:14
Alignment explanation
Indices: 89728--89758 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
89718 ATACTGAAAA
89728 TAAAGGCATTAAAT
1 TAAAGGCATTAAAT
89742 TAAAGG-ATTAAAT
1 TAAAGGCATTAAAT
89755 TAAA
1 TAAA
89759 ATTACATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.55, C:0.03, G:0.13, T:0.29
Consensus pattern (14 bp):
TAAAGGCATTAAAT
Found at i:93270 original size:2 final size:2
Alignment explanation
Indices: 93263--93314 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
93253 TATTTTATTG
93263 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
93305 AT AT AT AT AT
1 AT AT AT AT AT
93315 TATTTTTATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93429 original size:17 final size:16
Alignment explanation
Indices: 93407--93438 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
93397 TATATTACTT
93407 TATTATTATTTTTTTAA
1 TATTA-TATTTTTTTAA
93424 TATTATATTTTTTTA
1 TATTATATTTTTTTA
93439 CTTAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TATTATATTTTTTTAA
Found at i:95758 original size:16 final size:15
Alignment explanation
Indices: 95735--95766 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
95725 TTTCATTTCA
95735 TTTCATTTTTTTTAT
1 TTTCATTTTTTTTAT
95750 TTTCTATTTTTTTTAT
1 TTTC-ATTTTTTTTAT
95766 T
1 T
95767 CATTTTCACG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTCATTTTTTTTAT
Found at i:96151 original size:19 final size:19
Alignment explanation
Indices: 96127--96170 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
96117 CACTGAGGAC
*
96127 AGGTAAGTGAGTCAAGCTA
1 AGGTAAGCGAGTCAAGCTA
96146 AGGTAAGCGAGTCAAGCTA
1 AGGTAAGCGAGTCAAGCTA
96165 AGGTAA
1 AGGTAA
96171 TTTACGGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.39, C:0.11, G:0.32, T:0.18
Consensus pattern (19 bp):
AGGTAAGCGAGTCAAGCTA
Found at i:99996 original size:32 final size:32
Alignment explanation
Indices: 99926--100002 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
99916 GCACCTTTGA
* * **
99926 AGATTCAACATCAAATGTTGGGGCATTTTTGG
1 AGATTCAACATCAAATATTGGGGCATCTCCGG
*
99958 AAATTCAACATCAAATATTGGGGCATCTCCGG
1 AGATTCAACATCAAATATTGGGGCATCTCCGG
* *
99990 GGATTCAAAATCA
1 AGATTCAACATCA
100003 TGATGCGAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (32 bp):
AGATTCAACATCAAATATTGGGGCATCTCCGG
Found at i:100716 original size:110 final size:110
Alignment explanation
Indices: 100523--101144 Score: 951
Period size: 110 Copynumber: 5.7 Consensus size: 110
100513 AGAAAAGTTT
* * *
100523 ACTGTTAACAAACAACTTTTCAGTTTCATTCAGAGTTAATTTCAACTTCACAGCGAAAGATATT-
1 ACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTG
* * *
100587 AGACTCGACACAACACAAGCTCAACTTCACAGCCAAAGGGCGACTG
66 A-ACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTG
* * * *
100633 ACTGTCAACAAACAACTTTTCAGTTTTATTCAGAGTCAATTTCAACTTCATAACAAAGGATATTG
1 ACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTG
100698 AACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTG
66 AACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTG
* * * * * *
100743 ACTGTTAACAAAAAAAATTTT-AGTTTCATTCAGAATCAATTTTAACTTCACAGTGAAGGATATT
1 ACTGTCAAC-AAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATT
* * *
100807 GGACTCGAGACAACACAAGCTTAACTTCACAACGAAGGGGCGACTG
65 GAACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTG
* * *
100853 TCTGTTAACAAACAACTTTTCGGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTG
1 ACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTG
* * *
100918 GACTCGAGACAACACAAGCTTAACTTCACAGTGAAGGGGCGACTG
66 AACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTG
*
100963 ACTATCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTG
1 ACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTG
*
101028 GACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTG
66 AACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTG
* *
101073 ACTATCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAATGATATTG
1 ACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTG
101138 AACTCGA
66 AACTCGA
101145 AGGGAAACAA
Statistics
Matches: 469, Mismatches: 40, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
109 9 0.02
110 450 0.96
111 10 0.02
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.26
Consensus pattern (110 bp):
ACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTG
AACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTG
Found at i:109357 original size:3 final size:3
Alignment explanation
Indices: 109349--109392 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
109339 ATATACATGA
* * * *
109349 AGG AGG AGG AGA AGG AGA AGA AGG AGG AGG AGG AAG AGG AGG AG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AG
109393 AATGGGTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:120653 original size:2 final size:2
Alignment explanation
Indices: 120646--120674 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
120636 AGAAATCCAA
120646 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
120675 ACTAAAAAGG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:122621 original size:18 final size:17
Alignment explanation
Indices: 122600--122643 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
122590 ATATATGAGC
* *
122600 ATTAATTATTAAATGATT
1 ATTAATT-TTAAATAAAT
122618 ATTAATCTTTAAATAAAT
1 ATTAAT-TTTAAATAAAT
122636 ATTAATTT
1 ATTAATTT
122644 ATATTCATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 20 0.87
19 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
ATTAATTTTAAATAAAT
Found at i:122928 original size:4 final size:4
Alignment explanation
Indices: 122919--122943 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
122909 GTAATTTTAA
122919 ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT A
122944 ACAATAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:123192 original size:23 final size:22
Alignment explanation
Indices: 123157--123207 Score: 84
Period size: 23 Copynumber: 2.3 Consensus size: 22
123147 TTTTGTCCTC
123157 TATTTTATTTTATTTTATGAAA
1 TATTTTATTTTATTTTATGAAA
*
123179 TATTTCTATTTTATTTTTTGAAA
1 TATTT-TATTTTATTTTATGAAA
123202 TATTTT
1 TATTTT
123208 GGCTCATAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 6 0.22
23 21 0.78
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (22 bp):
TATTTTATTTTATTTTATGAAA
Found at i:123527 original size:20 final size:21
Alignment explanation
Indices: 123502--123541 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
123492 TGTTTACTGT
123502 TAAATG-GAACCATTCAGCGA
1 TAAATGAGAACCATTCAGCGA
*
123522 TAAATGATGAACCGTTCAGC
1 TAAATGA-GAACCATTCAGC
123542 ACTGAATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
22 11 0.65
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (21 bp):
TAAATGAGAACCATTCAGCGA
Found at i:123539 original size:22 final size:22
Alignment explanation
Indices: 123508--123561 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
123498 CTGTTAAATG
*
123508 GAACCATTCAGCGA-TAAATGAT
1 GAACCGTTCAGC-ACTAAATGAT
* *
123530 GAACCGTTCAGCACTGAATGTT
1 GAACCGTTCAGCACTAAATGAT
123552 GAACCGTTCA
1 GAACCGTTCA
123562 TCATTTAGCG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.24
Consensus pattern (22 bp):
GAACCGTTCAGCACTAAATGAT
Found at i:123857 original size:18 final size:17
Alignment explanation
Indices: 123831--123873 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
123821 CAGAGTCAAT
* *
123831 TCATACAGAACAATTGAA
1 TCATTCAGAAC-ATTAAA
*
123849 TCATTCAGATCATTAAA
1 TCATTCAGAACATTAAA
123866 TCATTCAG
1 TCATTCAG
123874 CGCTTAATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (17 bp):
TCATTCAGAACATTAAA
Found at i:124633 original size:70 final size:70
Alignment explanation
Indices: 124520--124672 Score: 252
Period size: 70 Copynumber: 2.2 Consensus size: 70
124510 GCTTCTTGGC
* * * *
124520 TGTTGTCCACAGTTAGCCTTCCTCTTCTTCCTCAACTTGTTGGTGCTAAGACTGCGGTAGAGGTG
1 TGTTGTCAACCGTGAGCCTTCCTCTTCTTCCTCAACTTGTTGGTGCTAAGAATGCGGTAGAGGTG
*
124585 TGGGG
66 TGGAG
*
124590 TGTTGTCAACCGTGAGCCTTCCTCTTCTTCCTCAACTTGTTGGTGCTGAGAATGCGGTAGAGGTG
1 TGTTGTCAACCGTGAGCCTTCCTCTTCTTCCTCAACTTGTTGGTGCTAAGAATGCGGTAGAGGTG
124655 TGGAG
66 TGGAG
124660 TGTTGTCAACCGT
1 TGTTGTCAACCGT
124673 TTCTTTGCCA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 77 1.00
ACGTcount: A:0.15, C:0.22, G:0.29, T:0.34
Consensus pattern (70 bp):
TGTTGTCAACCGTGAGCCTTCCTCTTCTTCCTCAACTTGTTGGTGCTAAGAATGCGGTAGAGGTG
TGGAG
Found at i:134673 original size:2 final size:2
Alignment explanation
Indices: 134666--134694 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
134656 ATGCTTTCAA
134666 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
134695 CACACACACT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:136347 original size:61 final size:61
Alignment explanation
Indices: 136185--136349 Score: 253
Period size: 61 Copynumber: 2.7 Consensus size: 61
136175 AATAGTTGTT
* *
136185 GACCATTTTGTAACTTTTAATAGTCG-AGGAACTCAACAAAACAGTTCCTTATAATTTAGGG
1 GACCATTTTGTAACTTTTAATAGTCGAAGG-ACTCAACAAAGCAGTTCCCTATAATTTAGGG
*
136246 GACCATTTTGTAACCTTTAATAGTCGAAGGACTCAACAAAGCAGTTCCCTATAATTT-GGG
1 GACCATTTTGTAACTTTTAATAGTCGAAGGACTCAACAAAGCAGTTCCCTATAATTTAGGG
* *
136306 GAATCATTTTGTAACTTTTAATAGTCGAATGACTCAACAAAGCA
1 G-ACCATTTTGTAACTTTTAATAGTCGAAGGACTCAACAAAGCA
136350 TCATCCTATA
Statistics
Matches: 96, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
60 4 0.04
61 89 0.93
62 3 0.03
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (61 bp):
GACCATTTTGTAACTTTTAATAGTCGAAGGACTCAACAAAGCAGTTCCCTATAATTTAGGG
Found at i:136705 original size:71 final size:67
Alignment explanation
Indices: 136623--136773 Score: 230
Period size: 71 Copynumber: 2.2 Consensus size: 67
136613 AAATTGAAAG
*
136623 AAAAATAATAATTTGTACAACATTGATAAATTAAGCATAGTTCATATACTGAACAAGTAAGTAAT
1 AAAAATAATAATTTGTACAACATTGATAAATTAAGCATAGTCCATATACTGAAC----AAGTAAT
136688 TAACCA
62 TAACCA
* *
136694 AAAAATAATAATTTGTACAACATTGATAAATTAAGTATAGTCCATGTACTGAACAAGTAATTAAC
1 AAAAATAATAATTTGTACAACATTGATAAATTAAGCATAGTCCATATACTGAACAAGTAATTAAC
136759 CA
66 CA
*
136761 AAAAATAACAATT
1 AAAAATAATAATT
136774 AGTTTAGAAA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
67 25 0.33
71 51 0.67
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.29
Consensus pattern (67 bp):
AAAAATAATAATTTGTACAACATTGATAAATTAAGCATAGTCCATATACTGAACAAGTAATTAAC
CA
Found at i:141424 original size:369 final size:372
Alignment explanation
Indices: 140739--141483 Score: 1442
Period size: 369 Copynumber: 2.0 Consensus size: 372
140729 TATCGTATGA
140739 AGGTTCCGTTGGTATAATTGAACTTAATCAAATGAGAAATCGATCTAATTAGTGATAAAAAAAAT
1 AGGTTCCGTTGGTATAATTGAACTTAATCAAATGAGAAATCGATCTAATTAGTG---AAAAAAAT
140804 AAAATTTTAAAATTGAGATGTTTTGAGAGGGATATTGAGTGTAATTTTCCTAGTGGGGGAATTCA
63 AAAATTTTAAAATTGAGATGTTTTGAGAGGGATATTGAGTGTAATTTTCCTAGTGGGGGAATTCA
140869 TGACATTTTTGGAGAGATTTTATGTCAAACCCCCAATTTTTTCAGTTTAAAATTTATAGAATTAA
128 TGACATTTTTGGAGAGATTTTATGTCAAACCCCCAATTTTTTCAGTTTAAAATTTATAGAATTAA
140934 TTAATTGATTTATGGATTAAATTGTGAATTTCTGAAGCTTTTAGGCTAGTTTTGAAAATATAAAA
193 TTAATTGATTTATGGATTAAATTGTGAATTTCTGAAGCTTTTAGGCTAGTTTTGAAAATATAAAA
140999 AATTAGGGACTAGTCTTATAATTCACTCATAAATCACCTGATACCAAAAATAAAATTTGGGGTGA
258 AATTAGGGACTAGTCTTATAATTCACTCATAAATCACCTGATACCAAAAATAAAATTTGGGGTGA
141064 TTGGAGGGTTTGAACCCATAACCCATGGAGTAAATGGCTATCACCCAACC
323 TTGGAGGGTTTGAACCCATAACCCATGGAGTAAATGGCTATCACCCAACC
141114 AGGTTCCGTTGGTATAATTGAACTTAATCAAATGAGAAATCGATCTAATTAGTG-AAAAAA-AAA
1 AGGTTCCGTTGGTATAATTGAACTTAATCAAATGAGAAATCGATCTAATTAGTGAAAAAAATAAA
141177 A-TTTAAAATTGAGATGTTTTGAGAGGGATATTGAGTGTAATTTTCCTAGTGGGGGAATTCATGA
66 ATTTTAAAATTGAGATGTTTTGAGAGGGATATTGAGTGTAATTTTCCTAGTGGGGGAATTCATGA
141241 CATTTTTGGAGAGATTTTATGTCAAACCCCCAATTTTTTCAGTTTAAAATTTATAGAATTAATTA
131 CATTTTTGGAGAGATTTTATGTCAAACCCCCAATTTTTTCAGTTTAAAATTTATAGAATTAATTA
141306 ATTGATTTATGGATTAAATTGTGAATTTCTGAAGCTTTTAGGCTAGTTTTGAAAATATAAAAAAT
196 ATTGATTTATGGATTAAATTGTGAATTTCTGAAGCTTTTAGGCTAGTTTTGAAAATATAAAAAAT
141371 TAGGGACTAGTCTTATAATTCACTCATAAATCACCTGATACCAAAAATAAAATTTGGGGTGATTG
261 TAGGGACTAGTCTTATAATTCACTCATAAATCACCTGATACCAAAAATAAAATTTGGGGTGATTG
141436 GAGGGTTTGAACCCATAACCCATGGAGTAAATGGCTATCACCCAACC
326 GAGGGTTTGAACCCATAACCCATGGAGTAAATGGCTATCACCCAACC
141483 A
1 A
141484 ACTAACCTAA
Statistics
Matches: 370, Mismatches: 0, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
369 306 0.83
370 4 0.01
371 6 0.02
375 54 0.15
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (372 bp):
AGGTTCCGTTGGTATAATTGAACTTAATCAAATGAGAAATCGATCTAATTAGTGAAAAAAATAAA
ATTTTAAAATTGAGATGTTTTGAGAGGGATATTGAGTGTAATTTTCCTAGTGGGGGAATTCATGA
CATTTTTGGAGAGATTTTATGTCAAACCCCCAATTTTTTCAGTTTAAAATTTATAGAATTAATTA
ATTGATTTATGGATTAAATTGTGAATTTCTGAAGCTTTTAGGCTAGTTTTGAAAATATAAAAAAT
TAGGGACTAGTCTTATAATTCACTCATAAATCACCTGATACCAAAAATAAAATTTGGGGTGATTG
GAGGGTTTGAACCCATAACCCATGGAGTAAATGGCTATCACCCAACC
Found at i:144986 original size:17 final size:19
Alignment explanation
Indices: 144964--145001 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
144954 TTTTACGGAC
144964 ATATTGATCTG-ATAA-AA
1 ATATTGATCTGCATAAGAA
144981 ATATTGATCTGCATAAGAA
1 ATATTGATCTGCATAAGAA
145000 AT
1 AT
145002 GTTAGTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 11 0.58
18 4 0.21
19 4 0.21
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (19 bp):
ATATTGATCTGCATAAGAA
Found at i:146166 original size:17 final size:17
Alignment explanation
Indices: 146144--146179 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
146134 GATATCGTAG
146144 AAGCGTGGAAATGAAAT
1 AAGCGTGGAAATGAAAT
146161 AAGCGTGGAAATGAAAT
1 AAGCGTGGAAATGAAAT
146178 AA
1 AA
146180 AGACCATTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.06, G:0.28, T:0.17
Consensus pattern (17 bp):
AAGCGTGGAAATGAAAT
Found at i:146713 original size:24 final size:24
Alignment explanation
Indices: 146605--146713 Score: 92
Period size: 24 Copynumber: 4.5 Consensus size: 24
146595 GAATATTTTA
*
146605 TCTGATTTCTGGTCTGAATTATGT
1 TCTGATTTCTGATCTGAATTATGT
* ** * *
146629 TTTGACATCTGATCTGAAATCTGT
1 TCTGATTTCTGATCTGAATTATGT
* * * * *
146653 TCTGATTCCTAACCTGGATTCTGT
1 TCTGATTTCTGATCTGAATTATGT
*
146677 TCTGATATCTGATCTGAATTATGT
1 TCTGATTTCTGATCTGAATTATGT
* *
146701 TTTGATTTTTGAT
1 TCTGATTTCTGAT
146714 ATCTCCGTTT
Statistics
Matches: 62, Mismatches: 23, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
24 62 1.00
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.48
Consensus pattern (24 bp):
TCTGATTTCTGATCTGAATTATGT
Found at i:150119 original size:37 final size:37
Alignment explanation
Indices: 150066--150170 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
150056 CATTTTCGTC
*
150066 CTACTAGGATTCAAACTCCTAAAAATAGGATATAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
150103 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
150140 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
150171 CCACAAGCAC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:150619 original size:2 final size:2
Alignment explanation
Indices: 150612--150641 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
150602 CTTAATTAGT
150612 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
150642 CATACTTGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:150797 original size:8 final size:8
Alignment explanation
Indices: 150779--150819 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
150769 CTTATTTATA
150779 TTATA-TT
1 TTATATTT
150786 TTATATTT
1 TTATATTT
150794 TTATA-TT
1 TTATATTT
*
150801 TTATTATTA
1 TTA-TATTT
150810 TTATATTT
1 TTATATTT
150818 TT
1 TT
150820 TACTTTCTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
7 10 0.34
8 15 0.52
9 4 0.14
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
TTATATTT
Found at i:150797 original size:15 final size:16
Alignment explanation
Indices: 150777--150818 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
150767 TACTTATTTA
150777 TATTATATTTTA-TAT
1 TATTATATTTTATTAT
*
150792 TTTTATATTTTATTAT
1 TATTATATTTTATTAT
150808 TATTATATTTT
1 TATTATATTTT
150819 TTACTTTCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTATATTTTATTAT
Found at i:150812 original size:31 final size:30
Alignment explanation
Indices: 150777--150882 Score: 83
Period size: 34 Copynumber: 3.4 Consensus size: 30
150767 TACTTATTTA
150777 TATTATATTTTATATTTTTATATTTTATTAT
1 TATTATATTTTATATTTTTAT-TTTTATTAT
* *
150808 TATTATATTTTTTACTTTCTCTTTCTTTTATTAT
1 TATTATATTTTATA-TTT-T-TAT-TTTTATTAT
* *
150842 TCTTGTATTATTACT-TGTTTTATTTTTA-TAT
1 TATTATATT-TTA-TAT-TTTTATTTTTATTAT
150873 TATT-TATTTT
1 TATTATATTTT
150883 GTTATATATA
Statistics
Matches: 61, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
29 2 0.03
30 4 0.07
31 19 0.31
32 8 0.13
33 3 0.05
34 20 0.33
35 4 0.07
36 1 0.02
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.71
Consensus pattern (30 bp):
TATTATATTTTATATTTTTATTTTTATTAT
Found at i:151101 original size:2 final size:2
Alignment explanation
Indices: 151096--151128 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
151086 TACATTTTAC
151096 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
151129 TCTACACAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:156077 original size:7 final size:7
Alignment explanation
Indices: 156067--156134 Score: 50
Period size: 7 Copynumber: 8.9 Consensus size: 7
156057 AACAAAAAGG
156067 GAAAAAA
1 GAAAAAA
156074 GAAAAAA
1 GAAAAAA
156081 GAAAAGAA
1 GAAAA-AA
156089 GCAAAAAA
1 G-AAAAAA
156097 GAAGAACAA
1 GAA-AA-AA
156106 -AAAGAAA
1 GAAA-AAA
156113 GAACAAAA
1 GAA-AAAA
156121 -ATCAAAAA
1 GA--AAAAA
156129 GAAAAA
1 GAAAAA
156135 GGGATAAAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 20
0.72 0.00 0.28
Matches are distributed among these distances:
7 22 0.43
8 20 0.39
9 9 0.18
ACGTcount: A:0.78, C:0.06, G:0.15, T:0.01
Consensus pattern (7 bp):
GAAAAAA
Found at i:156108 original size:13 final size:13
Alignment explanation
Indices: 156068--156121 Score: 55
Period size: 12 Copynumber: 4.4 Consensus size: 13
156058 ACAAAAAGGG
156068 AAAAAAGAA-AA-
1 AAAAAAGAAGAAC
156079 AAGAAAAGAAG--C
1 AA-AAAAGAAGAAC
156091 AAAAAAGAAGAAC
1 AAAAAAGAAGAAC
156104 -AAAAAGAAAGAAC
1 AAAAAAG-AAGAAC
156117 AAAAA
1 AAAAA
156122 TCAAAAAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
11 10 0.28
12 15 0.42
13 7 0.19
14 4 0.11
ACGTcount: A:0.80, C:0.06, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAGAAC
Found at i:156108 original size:23 final size:23
Alignment explanation
Indices: 156055--156111 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
156045 AGATTCAATC
*
156055 AGAACAAAAAG--GGAAAAAAGA
1 AGAACAAAAAGAAGCAAAAAAGA
*
156076 A-AAAAGAAAAGAAGCAAAAAAGA
1 AGAACA-AAAAGAAGCAAAAAAGA
156099 AGAACAAAAAGAA
1 AGAACAAAAAGAA
156112 AGAACAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 3 0.10
21 6 0.21
23 17 0.59
24 3 0.10
ACGTcount: A:0.75, C:0.05, G:0.19, T:0.00
Consensus pattern (23 bp):
AGAACAAAAAGAAGCAAAAAAGA
Found at i:156767 original size:22 final size:22
Alignment explanation
Indices: 156736--156791 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
156726 AGCTACCCCA
156736 TCAAACCTTTGAGCATCAAATG
1 TCAAACCTTTGAGCATCAAATG
*
156758 TCAAATCTTTGAGCATCAAATG
1 TCAAACCTTTGAGCATCAAATG
*
156780 TAAAACCTTTGA
1 TCAAACCTTTGA
156792 CCAAACACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (22 bp):
TCAAACCTTTGAGCATCAAATG
Found at i:157835 original size:106 final size:106
Alignment explanation
Indices: 157616--159247 Score: 2524
Period size: 106 Copynumber: 15.4 Consensus size: 106
157606 ATATCTTGCC
* * * * * * * *
157616 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAA-CAATAATTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* * *
157680 AATTTCGGAGCCAATTTCAACTTCACAGTGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCAAAGCGAAGGATATTGG
*
157721 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
157786 AATTTCAGATCCAATTTCAACTTCAAAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCAAAGCGAAGGATATTGG
* *
157827 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
** *
157892 AATTTCAGAGCCAATTTCAACTTCGCAGCGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCAAAGCGAAGGATATTGG
* * *
157933 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
157998 AGTTTCAGAGCCAATTTCAACTTCACAA-CGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCA-AAGCGAAGGATATTGG
*
158039 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
158104 AATTTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCAAAGCGAAGGATATTGG
* *
158145 ACTCAAGACAACGCAAGTTTAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
158210 AATTTCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCAAAGCGAAGGATATTGG
* *
158251 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
158316 GATTTTAGAGCCAATTTCAACTTCACAA-CGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCA-AAGCGAAGGATATTGG
* *
158357 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTATCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* * *
158422 AATTTCAGAGCCAATTTTAACTTCACAGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCAAAGCGAAGGATATTGG
* *
158463 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* * *
158528 AATTTCAGAGCCAATTTCAACTTCACAGTGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCAAAGCGAAGGATATTGG
*
158569 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
158634 AATTTCAGAGCCAATTTCAACTTCACAA-CGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCA-AAGCGAAGGATATTGG
* ** * *
158675 ACTCCAGACAATGCAAGTTCAACTTCACGGTGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
158740 AATTTCAGAGCCAATTTCAACTTCACAA-CGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCA-AAGCGAAGGATATTGG
* * * * * *
158781 ACTCTAGACAACGCAAGTTCAACTTTACGACGAAGGGACCGCTGGTTCTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
158846 AATTTCAGAGCCGATTTCAACTTCACAA-CGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCA-AAGCGAAGGATATTGG
* * *
158887 ACTCAAGACAATGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
158952 AATTTCAGAGCCAATTTCAACTTCACAA-CGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCA-AAGCGAAGGATATTGG
* *
158993 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
159058 AATTTTAGAGCCAATTTCAACTTCACAA-CGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCA-AAGCGAAGGATATTGG
* *
159099 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
159164 AATTTCAGAGCCAATTTCAACTTCACAGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCAAAGCGAAGGATATTGG
* *
159205 ACTCAACACAACGCAAGTTCAACTTCACGACGAAGGGACCGCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCT
159248 TGTAAAACCC
Statistics
Matches: 1416, Mismatches: 104, Indels: 13
0.92 0.07 0.01
Matches are distributed among these distances:
105 51 0.04
106 1362 0.96
107 3 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCAAAGCGAAGGATATTGG
Found at i:160030 original size:31 final size:31
Alignment explanation
Indices: 159972--160127 Score: 224
Period size: 31 Copynumber: 5.0 Consensus size: 31
159962 CCCGAAGGAC
* * *
159972 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
* *
160003 CAGTGCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* *
160034 CAGTCCGTATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
160065 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
160096 CAGTCCATATGTCCCGAAAAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
160127 C
1 C
160128 CCTCGACCCT
Statistics
Matches: 112, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
31 111 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:160369 original size:23 final size:24
Alignment explanation
Indices: 160343--160389 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
160333 ATATACTTGT
*
160343 TTTCACATATATA-TTTCATATCA
1 TTTCACATATACACTTTCATATCA
160366 TTTCACATATACACTTTCATATCA
1 TTTCACATATACACTTTCATATCA
160390 CATGCCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTCACATATACACTTTCATATCA
Found at i:161051 original size:21 final size:21
Alignment explanation
Indices: 161021--161065 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
161011 ATTCTATCGT
* *
161021 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
161042 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
161063 TTG
1 TTG
161066 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:164228 original size:31 final size:31
Alignment explanation
Indices: 164192--164347 Score: 226
Period size: 31 Copynumber: 5.0 Consensus size: 31
164182 CCCGAAGGAT
* *
164192 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
164223 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
*
164254 CAGTCCGTATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
164285 CAGTCCATATG-TCCTGAAGAACATAGGTAAA
1 CAGTCCATATGTTCC-GAAGAACATAGGTAAA
*
164316 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
164347 C
1 C
164348 CCTCGACCCT
Statistics
Matches: 113, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
30 3 0.03
31 107 0.95
32 3 0.03
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:164589 original size:23 final size:24
Alignment explanation
Indices: 164563--164609 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
164553 ATATACTTGT
*
164563 TTTCACATATATA-TTTCATATCA
1 TTTCACATATACACTTTCATATCA
164586 TTTCACATATACACTTTCATATCA
1 TTTCACATATACACTTTCATATCA
164610 CATGCCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTCACATATACACTTTCATATCA
Found at i:165269 original size:21 final size:21
Alignment explanation
Indices: 165239--165283 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
165229 ATTCTATCGT
* *
165239 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
165260 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
165281 TTG
1 TTG
165284 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:166149 original size:100 final size:100
Alignment explanation
Indices: 166006--166191 Score: 282
Period size: 100 Copynumber: 1.9 Consensus size: 100
165996 ATTTCACAGC
* * *
166006 CAATTTCAACTTCTCAGCGAAGGATCTTGGACCCAAGACAACACAAGCTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCACAACGAAG
** *
166071 GGGTGGCTGGTTGTCAACAAAATTTTATTCAGAGT
66 GGACGGCTAGTTGTCAACAAAATTTTATTCAGAGT
* * * *
166106 CAATTTCAGCTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCACAACGAAG
166171 GGACGGCTAGTTGTCAACAAA
66 GGACGGCTAGTTGTCAACAAA
166192 TAATTTCCCG
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 76 1.00
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (100 bp):
CAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCACAACGAAG
GGACGGCTAGTTGTCAACAAAATTTTATTCAGAGT
Found at i:167030 original size:37 final size:37
Alignment explanation
Indices: 166978--167081 Score: 136
Period size: 37 Copynumber: 2.8 Consensus size: 37
166968 ATTTTCGTCC
* *
166978 TACTAGGATTTAAACTCCTAAAAATAGGATATAATTT
1 TACTAGGATTTAAACTCCTAAAAATAGGATAGAATTA
* * *
167015 TGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTA
1 TACTAGGATTTAAACTCCTAAAAATAGGATAGAATTA
** *
167052 TACTATTATTTAAACTCCTAAAGATAGGAT
1 TACTAGGATTTAAACTCCTAAAAATAGGAT
167082 CCACAAGCAC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (37 bp):
TACTAGGATTTAAACTCCTAAAAATAGGATAGAATTA
Found at i:167700 original size:22 final size:25
Alignment explanation
Indices: 167672--167725 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 25
167662 TTTATTCTAC
167672 TTAT-TTATATTATATATTTATATTTT
1 TTATATTATATTAT-TA-TTATATTTT
*
167698 TTATATTTTATTATTATTATATTTT
1 TTATATTATATTATTATTATATTTT
167723 TTA
1 TTA
167726 CTTTCTCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 12 0.46
26 6 0.23
27 8 0.31
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (25 bp):
TTATATTATATTATTATTATATTTT
Found at i:167717 original size:16 final size:16
Alignment explanation
Indices: 167675--167722 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
167665 ATTCTACTTA
167675 TTTA-TATTA-TATAT
1 TTTATTATTATTATAT
167689 TTATATT-TT-TTATAT
1 TT-TATTATTATTATAT
167704 TTTATTATTATTATAT
1 TTTATTATTATTATAT
167720 TTT
1 TTT
167723 TTACTTTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 6 0.21
15 13 0.45
16 10 0.34
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTATTATTATTATAT
Found at i:167763 original size:12 final size:11
Alignment explanation
Indices: 167741--167781 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
167731 TCTTTCTTTT
167741 TATTATTCTTG
1 TATTATTCTTG
167752 TATTATTACTTG
1 TATTATT-CTTG
* *
167764 TATTATTTTTA
1 TATTATTCTTG
167775 TATTATT
1 TATTATT
167782 TATTTTGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (11 bp):
TATTATTCTTG
Found at i:168274 original size:25 final size:25
Alignment explanation
Indices: 168246--168297 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
168236 TCTTTTCGTC
168246 ATTTAATTTATTAATTTA-TATATAT
1 ATTTAATTT-TTAATTTATTATATAT
* * *
168271 ATTTACTTTTTTATTTATTTTATAT
1 ATTTAATTTTTAATTTATTATATAT
168296 AT
1 AT
168298 ATATATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (25 bp):
ATTTAATTTTTAATTTATTATATAT
Found at i:168405 original size:27 final size:27
Alignment explanation
Indices: 168340--168405 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
168330 TTGTTTATTT
168340 TATTTT-TCTTT-TTCTTTTTTATATA
1 TATTTTATCTTTGTTCTTTTTTATATA
*
168365 TATTTTATTATTTGTT-TTTTTTACT-TA
1 TATTTTA-TCTTTGTTCTTTTTTA-TATA
168392 CTATTTTATCTTTG
1 -TATTTTATCTTTG
168406 CTTTCTTCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
25 6 0.18
27 18 0.53
28 10 0.29
ACGTcount: A:0.17, C:0.08, G:0.03, T:0.73
Consensus pattern (27 bp):
TATTTTATCTTTGTTCTTTTTTATATA
Found at i:170155 original size:24 final size:24
Alignment explanation
Indices: 170068--170164 Score: 88
Period size: 24 Copynumber: 4.0 Consensus size: 24
170058 ATTTCTGGTT
* *
170068 TGAATTCTGTTTTGACATCTGATC
1 TGAATTCTGTTTTGATATCTGATA
* * **
170092 TGAAATCTGTTTTGAT-TCCTAACC
1 TGAATTCTGTTTTGATAT-CTGATA
* *
170116 TGGATTCTGTTCTGATATCTGATA
1 TGAATTCTGTTTTGATATCTGATA
* *
170140 TGAATTATGTTTTGATTTCTGATA
1 TGAATTCTGTTTTGATATCTGATA
170164 T
1 T
170165 CTCCGTTTAC
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
23 1 0.02
24 55 0.96
25 1 0.02
ACGTcount: A:0.23, C:0.13, G:0.16, T:0.47
Consensus pattern (24 bp):
TGAATTCTGTTTTGATATCTGATA
Found at i:171730 original size:72 final size:72
Alignment explanation
Indices: 171628--171769 Score: 212
Period size: 72 Copynumber: 2.0 Consensus size: 72
171618 ATGAAGTCTC
* * * *
171628 TGCAGGTTCAATTCTGATCAAATTGGTAATTCCTCATATAGGTTCAGCATCGATCGGCTGGTAAT
1 TGCAGGTTCAATTCTGATCAAACTGGTAATTCCTCATATAGGTTCAGCACCGATCAGCTGATAAT
171693 TCTTTTT
66 TCTTTTT
* * * *
171700 TGCAGGTTCAATTCTGATCAAGCTGGTAATTCCTTATATAGGTTCATCACCGATCATCTGATAAT
1 TGCAGGTTCAATTCTGATCAAACTGGTAATTCCTCATATAGGTTCAGCACCGATCAGCTGATAAT
171765 TCTTT
66 TCTTT
171770 ATAGACCTAA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.39
Consensus pattern (72 bp):
TGCAGGTTCAATTCTGATCAAACTGGTAATTCCTCATATAGGTTCAGCACCGATCAGCTGATAAT
TCTTTTT
Found at i:171743 original size:36 final size:36
Alignment explanation
Indices: 171631--171745 Score: 112
Period size: 36 Copynumber: 3.2 Consensus size: 36
171621 AAGTCTCTGC
** *
171631 AGGTTCAATTCTGATCAAATTGGTAATTCCTCATAT
1 AGGTTCAATTCTGATCAAGCTGGTAATTCCTTATAT
* * *
171667 AGGTTCAGCA-TC-GATC-GGCTGGTAATT-CTTTTTT
1 AGGTTCA--ATTCTGATCAAGCTGGTAATTCCTTATAT
171701 GCAGGTTCAATTCTGATCAAGCTGGTAATTCCTTATAT
1 --AGGTTCAATTCTGATCAAGCTGGTAATTCCTTATAT
171739 AGGTTCA
1 AGGTTCA
171746 TCACCGATCA
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
34 5 0.08
35 10 0.16
36 29 0.47
37 12 0.19
38 6 0.10
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.38
Consensus pattern (36 bp):
AGGTTCAATTCTGATCAAGCTGGTAATTCCTTATAT
Found at i:171755 original size:36 final size:35
Alignment explanation
Indices: 171651--171772 Score: 95
Period size: 35 Copynumber: 3.4 Consensus size: 35
171641 CTGATCAAAT
* * * *
171651 TGGTAATTCCTCATATAGGTTCAGCATCGATCGGC
1 TGGTAATTCCTTATATAGGTTCATCACCGATCAGC
* * * *
171686 TGGTAATT-CTTTTTTGCAGGTTCAAT-TCTGATCAAGC
1 TGGTAATTCCTTATAT--AGGTTC-ATCACCGATC-AGC
*
171723 TGGTAATTCCTTATATAGGTTCATCACCGATCATC
1 TGGTAATTCCTTATATAGGTTCATCACCGATCAGC
* *
171758 TGATAATTCTTTATA
1 TGGTAATTCCTTATA
171773 GACCTAAGGT
Statistics
Matches: 66, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
34 4 0.06
35 25 0.38
36 21 0.32
37 11 0.17
38 5 0.08
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (35 bp):
TGGTAATTCCTTATATAGGTTCATCACCGATCAGC
Found at i:189856 original size:15 final size:15
Alignment explanation
Indices: 189819--189859 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
189809 GAGATTCAGA
*
189819 ATCAGGGGTCAACAC
1 ATCAGGGTTCAACAC
189834 ATCAGGGTTCAACAC
1 ATCAGGGTTCAACAC
189849 ATCAGGGTTCA
1 ATCAGGGTTCA
189860 GGAATAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (15 bp):
ATCAGGGTTCAACAC
Found at i:193990 original size:31 final size:31
Alignment explanation
Indices: 193955--194026 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
193945 AAAACATAAT
* * *
193955 ATTTGATTATTTTTGTTTTTATTTAATTAAG
1 ATTTGGTTATTTTGGTTCTTATTTAATTAAG
* *
193986 ATTTGGTCACTTTGGTTCTTATTTAATTAAG
1 ATTTGGTTATTTTGGTTCTTATTTAATTAAG
194017 ATTTGGTTAT
1 ATTTGGTTAT
194027 AAAGGGTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.24, C:0.04, G:0.14, T:0.58
Consensus pattern (31 bp):
ATTTGGTTATTTTGGTTCTTATTTAATTAAG
Found at i:196966 original size:20 final size:20
Alignment explanation
Indices: 196941--196981 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
196931 TGATGAGAAT
*
196941 CCATGAAAAGAACATGTCAG
1 CCATGAAAAAAACATGTCAG
196961 CCATGAAAAAAACATGTCAG
1 CCATGAAAAAAACATGTCAG
196981 C
1 C
196982 TACTAAGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.46, C:0.22, G:0.17, T:0.15
Consensus pattern (20 bp):
CCATGAAAAAAACATGTCAG
Found at i:204625 original size:16 final size:16
Alignment explanation
Indices: 204604--204647 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
204594 TATTTATGAG
204604 AGAATTGGAATCTGTA
1 AGAATTGGAATCTGTA
* *
204620 AGAATTGTAATATGTA
1 AGAATTGGAATCTGTA
204636 AGAATTGGAATC
1 AGAATTGGAATC
204648 CAATTTCATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.32
Consensus pattern (16 bp):
AGAATTGGAATCTGTA
Found at i:204701 original size:44 final size:44
Alignment explanation
Indices: 204638--204749 Score: 188
Period size: 44 Copynumber: 2.5 Consensus size: 44
204628 AATATGTAAG
*
204638 AATTGGAATCCAATTTCATATTCTATTTGGTTGGCAGGAAATGA
1 AATTGGAATCCAATTTCATATTATATTTGGTTGGCAGGAAATGA
* *
204682 AATTGGAATCTAATTTCATATTATATTTGGTTGGCAGGAAATGG
1 AATTGGAATCCAATTTCATATTATATTTGGTTGGCAGGAAATGA
*
204726 AATTGGAATCCAATTTTATATTAT
1 AATTGGAATCCAATTTCATATTAT
204750 GTTTTGTAAG
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 63 1.00
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (44 bp):
AATTGGAATCCAATTTCATATTATATTTGGTTGGCAGGAAATGA
Found at i:205615 original size:36 final size:37
Alignment explanation
Indices: 205541--205616 Score: 127
Period size: 38 Copynumber: 2.1 Consensus size: 37
205531 CGATACTGAC
205541 CCGACCCGACCCGAATATCACACTTAAAAAAAACCCGA
1 CCGACCCGACCCGAATATCACACTT-AAAAAAACCCGA
*
205579 CCGACTCGACCCGAATATCACACTT-AAAAAACCCGA
1 CCGACCCGACCCGAATATCACACTTAAAAAAACCCGA
205615 CC
1 CC
205617 CAACTCGAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
36 13 0.35
38 24 0.65
ACGTcount: A:0.39, C:0.38, G:0.11, T:0.12
Consensus pattern (37 bp):
CCGACCCGACCCGAATATCACACTTAAAAAAACCCGA
Found at i:205786 original size:269 final size:265
Alignment explanation
Indices: 205274--205802 Score: 920
Period size: 269 Copynumber: 2.0 Consensus size: 265
205264 CTAAACCCGA
*
205274 ACCCGACCCGACCCGAATATCACACTTAAAAAAACCTGACCTGACTCGACCCGAATATCACACAT
1 ACCCGACCCGACCCGAATATCACACTTAAAAAAACCCGACCTGACTCGACCCGAATATCACACAT
*
205339 AAAAAACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAATC
66 AAAAAACCCGACCCGAACAAAATAAAGTTTCATCCAACCCGACCCGAATATATGAATTAGAAATC
* *
205404 CAACCCGACTCGACTCGAAATAATAAAAAAATATTTTTATTTAATAAAAACAGTGACTTAATCCG
131 CAACCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAACAGTGACTTAATCCG
*
205469 ACCCGAGCCGAATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGA
196 ACCCGAGCCGAATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCAAACCCGA
205534 TACTG
261 TACTG
*
205539 ACCCGACCCGACCCGAATATCACACTTAAAAAAAACCCGACC-GACTCGACCCGAATATCACACT
1 ACCCGACCCGACCCGAATATCACACTT-AAAAAAACCCGACCTGACTCGACCCGAATATCACACA
205603 TAAAAAACCCGACCCAACTCGAACAAAATAAAGTTTCATCCAACCCGACCCGAATATATGAATTA
65 TAAAAAACCCGA--C--C-CGAACAAAATAAAGTTTCATCCAACCCGACCCGAATATATGAATTA
205668 GAAATCCAACCCGACCCGACCCGAAATAAT-AAAAAATATTTTTATTTAATAAAAACAGTGACTT
125 GAAATCCAACCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAACAGTGACTT
205732 AATCCGACCCGA-CCTGAATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCA
190 AATCCGACCCGAGCC-GAATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCA
205796 AACCCGA
254 AACCCGA
205803 CCCGAATATC
Statistics
Matches: 251, Mismatches: 6, Indels: 10
0.94 0.02 0.04
Matches are distributed among these distances:
265 60 0.24
266 13 0.05
267 1 0.00
268 2 0.01
269 102 0.41
270 73 0.29
ACGTcount: A:0.37, C:0.28, G:0.12, T:0.22
Consensus pattern (265 bp):
ACCCGACCCGACCCGAATATCACACTTAAAAAAACCCGACCTGACTCGACCCGAATATCACACAT
AAAAAACCCGACCCGAACAAAATAAAGTTTCATCCAACCCGACCCGAATATATGAATTAGAAATC
CAACCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAACAGTGACTTAATCCG
ACCCGAGCCGAATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCAAACCCGA
TACTG
Found at i:207173 original size:19 final size:20
Alignment explanation
Indices: 207149--207218 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
207139 AAAATGTTTT
*
207149 TATGAATAGTA-TTATACTG
1 TATGAATAGTACCTATACTG
* *
207168 TATGAATAATACCTATATTG
1 TATGAATAGTACCTATACTG
* *
207188 TGTGAATAGTACCAATACTG
1 TATGAATAGTACCTATACTG
* *
207208 TGTGAACAGTA
1 TATGAATAGTA
207219 ATGAACAGTA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 10 0.24
20 32 0.76
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (20 bp):
TATGAATAGTACCTATACTG
Found at i:209529 original size:21 final size:21
Alignment explanation
Indices: 209505--209557 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
209495 CCTTTCTATT
**
209505 AAAGGACTTATTCTTTTGATG
1 AAAGGACTTAACCTTTTGATG
* *
209526 AAAGGGCTTAACCTTTTTATG
1 AAAGGACTTAACCTTTTGATG
*
209547 AAATGACTTAA
1 AAAGGACTTAA
209558 TCGTTTCATG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (21 bp):
AAAGGACTTAACCTTTTGATG
Found at i:210357 original size:44 final size:42
Alignment explanation
Indices: 210308--210490 Score: 140
Period size: 43 Copynumber: 4.3 Consensus size: 42
210298 GGGCATCAGC
* *
210308 TATAAAGATAAAAAGTGAGATTAAAACAAACTAGGACCTCAATT
1 TATAAAGATAAAAAGTGAGATTAAAA-AAACTAAGATCTCAA-T
* * * * * *
210352 TATAAAGGTATAAAGTGAAACTAAAAAAA-TCATGGAGCTCAAT
1 TATAAAGATAAAAAGTGAGATTAAAAAAACT-A-AGATCTCAAT
* * * *
210395 TATAAA-AGTATAAAGTGTGATTGAAAAAATCATAAG-TCTTAAT
1 TATAAAGA-TAAAAAGTGAGATT-AAAAAAAC-TAAGATCTCAAT
* * *
210438 TATAAAGGTAAAAAGTAAGATTAAAAAAAATAAGATC-CAAT
1 TATAAAGATAAAAAGTGAGATTAAAAAAACTAAGATCTCAAT
210479 TATAAAGATAAA
1 TATAAAGATAAA
210491 TTAAAGATCT
Statistics
Matches: 110, Mismatches: 21, Indels: 19
0.73 0.14 0.13
Matches are distributed among these distances:
41 18 0.16
42 9 0.08
43 44 0.40
44 37 0.34
45 1 0.01
46 1 0.01
ACGTcount: A:0.54, C:0.07, G:0.14, T:0.25
Consensus pattern (42 bp):
TATAAAGATAAAAAGTGAGATTAAAAAAACTAAGATCTCAAT
Found at i:210422 original size:43 final size:43
Alignment explanation
Indices: 210262--210466 Score: 141
Period size: 43 Copynumber: 4.7 Consensus size: 43
210252 TAATAGTCTT
* * * *
210262 AATTATAAAAGTAAAAAATGTGATTGAAAAAATTA-GGGGCATC
1 AATTATAAAAGTAAAAAGTGAGATTGAAAAAATCATGGAGC-TC
** * *
210305 AGCTAT-AAAGATAAAAAGTGAGATT-AAAACAAAC-TAGGACCTC
1 AATTATAAAAG-TAAAAAGTGAGATTGAAAA-AATCAT-GGAGCTC
* * * * *
210348 AATTTATAAAGGTATAAAGTGAAACTAAAAAAATCATGGAGCTC
1 AA-TTATAAAAGTAAAAAGTGAGATTGAAAAAATCATGGAGCTC
* * * *
210392 AATTATAAAAGTATAAAGTGTGATTGAAAAAATCAT-AAGTCTT
1 AATTATAAAAGTAAAAAGTGAGATTGAAAAAATCATGGAG-CTC
* * *
210435 AATTATAAAGGTAAAAAGTAAGATTAAAAAAA
1 AATTATAAAAGTAAAAAGTGAGATTGAAAAAA
210467 ATAAGATCCA
Statistics
Matches: 125, Mismatches: 28, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
42 10 0.08
43 79 0.63
44 28 0.22
45 8 0.06
ACGTcount: A:0.53, C:0.07, G:0.16, T:0.25
Consensus pattern (43 bp):
AATTATAAAAGTAAAAAGTGAGATTGAAAAAATCATGGAGCTC
Found at i:217675 original size:17 final size:17
Alignment explanation
Indices: 217640--217674 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
217630 TATCTCTTCC
217640 TTATTTATTCTGAACTT
1 TTATTTATTCTGAACTT
217657 TTATTT-TTCTGAACTT
1 TTATTTATTCTGAACTT
217673 TT
1 TT
217675 TCTTCTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.20, C:0.11, G:0.06, T:0.63
Consensus pattern (17 bp):
TTATTTATTCTGAACTT
Found at i:220443 original size:2 final size:2
Alignment explanation
Indices: 220438--220526 Score: 117
Period size: 2 Copynumber: 44.5 Consensus size: 2
220428 TTTTATAAAC
*
220438 AT AT AT TT 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
* * * *
220480 AT AT AT AT AT AT AT AT AC GT CAC AT AT AT AT -T AC 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
220522 AT AT A
1 AT AT A
220527 AATTATTTTC
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
1 1 0.01
2 74 0.99
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (2 bp):
AT
Found at i:232509 original size:9 final size:9
Alignment explanation
Indices: 232495--232539 Score: 63
Period size: 9 Copynumber: 5.0 Consensus size: 9
232485 CCCTAAATTG
232495 GAAAAAAGA
1 GAAAAAAGA
*
232504 GAAAAAGGA
1 GAAAAAAGA
*
232513 GAAAAAGGA
1 GAAAAAAGA
*
232522 GAAAAGAGA
1 GAAAAAAGA
232531 GAAAAAAGA
1 GAAAAAAGA
232540 AAAGAAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (9 bp):
GAAAAAAGA
Found at i:232530 original size:16 final size:15
Alignment explanation
Indices: 232497--232544 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 15
232487 CTAAATTGGA
232497 AAAAAGAGAAAAAGGAG
1 AAAAAGAG-AAAA-GAG
232514 AAAAAGGAGAAAAGAG
1 AAAAA-GAGAAAAGAG
*
232530 AGAAAAAAGAAAAGA
1 A-AAAAGAGAAAAGA
232545 AAATAAGGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 12 0.43
17 13 0.46
18 3 0.11
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (15 bp):
AAAAAGAGAAAAGAG
Found at i:233361 original size:43 final size:43
Alignment explanation
Indices: 233313--233472 Score: 131
Period size: 43 Copynumber: 3.4 Consensus size: 43
233303 CAGAGCCAAT
*
233313 TTCAACTTCACAACGAAGGATACTGGACTCCAGACAATGCAAG
1 TTCAACTTCACAACGAAGGATACTGGACTCTAGACAATGCAAG
* * ** * *
233356 TTCAACTTCACGACGAAGGGACCACTGGTTGTCGATAAACAATTTTAGAGCCAAT
1 TTCAACTTCACAACGAA-GGA-TACTGG-ACTC--TAGACAA---T---G-CAAG
*
233411 TTCAACTTCACAACGAAGGATATTGGACTCTAGACAATGCAAG
1 TTCAACTTCACAACGAAGGATACTGGACTCTAGACAATGCAAG
*
233454 TTCAACTTCACGACGAAGG
1 TTCAACTTCACAACGAAGG
233473 GACCGTTGGT
Statistics
Matches: 90, Mismatches: 15, Indels: 24
0.70 0.12 0.19
Matches are distributed among these distances:
43 37 0.41
44 4 0.04
45 5 0.06
46 2 0.02
47 1 0.01
48 5 0.06
50 6 0.07
51 1 0.01
52 2 0.02
53 4 0.04
54 4 0.04
55 19 0.21
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (43 bp):
TTCAACTTCACAACGAAGGATACTGGACTCTAGACAATGCAAG
Found at i:233473 original size:98 final size:98
Alignment explanation
Indices: 233303--233644 Score: 522
Period size: 98 Copynumber: 3.4 Consensus size: 98
233293 AGGTTTTACC
*
233303 CAGAGCCAATTTCAACTTCACAACGAAGGATACTGGACTCCAGACAATGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACG
* *
233368 ACGAAGGGACCACTGGTTGTCGATAAACAATTT
66 ACGAAGGGACCGCTGGTTGTCAATAAACAATTT
* *
233401 TAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAATGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACG
* *
233466 ACGAAGGGACCGTTGGTTGTCAATAAACAATTC
66 ACGAAGGGACCGCTGGTTGTCAATAAACAATTT
*
233499 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACG
233564 ACGAAGGGACCGCTGGTTGTCAATAAACAATTT
66 ACGAAGGGACCGCTGGTTGTCAATAAACAATTT
* *
233597 CCCAGTTCCAGAACCAATTTCAACTTCACAGCGGAGGATATTGGACTC
1 --CAG----AG--CCAATTTCAACTTCACAACGAAGGATATTGGACTC
233645 GGAACAATAC
Statistics
Matches: 222, Mismatches: 14, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
98 184 0.83
100 3 0.01
104 2 0.01
106 33 0.15
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (98 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAATAAACAATTT
Done.