Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 385 of 444
Found at i:111528453 original size:30 final size:31
Alignment explanation
Indices: 111528389--111528455 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
111528379 AGTTAATCAA
* * *
111528389 TGACTATTTTGTCACTTTTTTATAATGTTGG
1 TGACTGTTTTGTAACTTTTTGATAATGTTGG
111528420 TGACTGTTTTGTAACTTTTTGA-AA-GTTGAG
1 TGACTGTTTTGTAACTTTTTGATAATGTTG-G
111528450 TGACTG
1 TGACTG
111528456 AAATGAAACC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 4 0.12
30 9 0.28
31 19 0.59
ACGTcount: A:0.21, C:0.09, G:0.21, T:0.49
Consensus pattern (31 bp):
TGACTGTTTTGTAACTTTTTGATAATGTTGG
Found at i:111528537 original size:6 final size:6
Alignment explanation
Indices: 111528526--111528567 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
111528516 TTTACCCTAT
111528526 TTAATA TTAATA -T-A-A TTAATA TTAATA TTAATA TTAATA TTA
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTA
111528568 TTTTAAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 1 0.03
4 2 0.06
5 2 0.06
6 28 0.85
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TTAATA
Found at i:111528580 original size:18 final size:18
Alignment explanation
Indices: 111528526--111528567 Score: 63
Period size: 15 Copynumber: 2.5 Consensus size: 18
111528516 TTTACCCTAT
111528526 TTAATATTAATA-T-A-A
1 TTAATATTAATATTAATA
111528541 TTAATATTAATATTAATA
1 TTAATATTAATATTAATA
111528559 TTAATATTA
1 TTAATATTA
111528568 TTTTAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.50
16 1 0.04
17 1 0.04
18 10 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAATATTAATATTAATA
Found at i:111528919 original size:28 final size:28
Alignment explanation
Indices: 111528888--111528981 Score: 82
Period size: 28 Copynumber: 3.2 Consensus size: 28
111528878 CAATCTCAAT
*
111528888 TAGTTGGTGACCAATTTTAAA-AAGTTCA
1 TAGTTGGTGACCAA-TTTAAACAAATTCA
* *** *
111528916 TAGTCGGGTGACCAAAAAAGAAACAAATCCA
1 TAGT-TGGTGACC--AATTTAAACAAATTCA
*
111528947 TAGTTGGTGACCAATTTAAATAAATTCA
1 TAGTTGGTGACCAATTTAAACAAATTCA
111528975 TAGTTGG
1 TAGTTGG
111528982 GTTACCAAAA
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
28 22 0.44
29 7 0.14
30 10 0.20
31 11 0.22
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (28 bp):
TAGTTGGTGACCAATTTAAACAAATTCA
Found at i:111528999 original size:28 final size:28
Alignment explanation
Indices: 111528907--111529018 Score: 84
Period size: 31 Copynumber: 3.8 Consensus size: 28
111528897 ACCAATTTTA
*
111528907 AAAAGTTCATAGTCGGGTGACCAAAAAAG
1 AAAA-TTCATAGTTGGGTGACCAAAAAAG
* *
111528936 AAACAAATCCATAGTT-GGTGACCAATTTAAA-
1 --A-AAATTCATAGTTGGGTGACCAA--AAAAG
* *
111528967 TAAATTCATAGTTGGGTTACCAAAAAAG
1 AAAATTCATAGTTGGGTGACCAAAAAAG
111528995 AAAATGGTCCATAGTTGGGTGACC
1 AAAAT--T-CATAGTTGGGTGACC
111529019 TGCGGTGTAG
Statistics
Matches: 64, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
27 3 0.05
28 15 0.23
29 8 0.12
30 10 0.16
31 22 0.34
32 6 0.09
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (28 bp):
AAAATTCATAGTTGGGTGACCAAAAAAG
Found at i:111529303 original size:18 final size:18
Alignment explanation
Indices: 111529276--111529310 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
111529266 TGTCACGTCA
*
111529276 ATAAATAATTTAAAATTT
1 ATAAAAAATTTAAAATTT
111529294 ATAAAAAATTTAAAATT
1 ATAAAAAATTTAAAATT
111529311 CAAAATTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAAAAAATTTAAAATTT
Found at i:111529308 original size:7 final size:7
Alignment explanation
Indices: 111529298--111529329 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
111529288 AAATTTATAA
*
111529298 AAAATTT
1 AAAATTC
111529305 AAAATTC
1 AAAATTC
111529312 AAAATTC
1 AAAATTC
111529319 AAAATTC
1 AAAATTC
111529326 AAAA
1 AAAA
111529330 AAGAATTAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.28
Consensus pattern (7 bp):
AAAATTC
Found at i:111529561 original size:24 final size:25
Alignment explanation
Indices: 111529534--111529585 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 25
111529524 TGATAAAATG
*
111529534 ATGT-AAAAATTAAGGATTAAATTT
1 ATGTAAAAAATCAAGGATTAAATTT
111529558 ATGTAAAAAAATCAAGGATTAAATTT
1 ATGT-AAAAAATCAAGGATTAAATTT
111529584 AT
1 AT
111529586 CATTATACCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 4 0.16
26 21 0.84
ACGTcount: A:0.52, C:0.02, G:0.12, T:0.35
Consensus pattern (25 bp):
ATGTAAAAAATCAAGGATTAAATTT
Found at i:111529865 original size:20 final size:21
Alignment explanation
Indices: 111529829--111529869 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
111529819 ATTTTTAAAT
111529829 TTTTTCTTAACAATAATTCTTA
1 TTTTTCTTAACAATAA-TCTTA
111529851 TTTTT-TTAA-AATAATCTTA
1 TTTTTCTTAACAATAATCTTA
111529870 AAAATAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 5 0.26
21 4 0.21
22 5 0.26
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTTCTTAACAATAATCTTA
Found at i:111539751 original size:42 final size:42
Alignment explanation
Indices: 111539692--111539774 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
111539682 AATCCTAATT
* *
111539692 GGAAAATAGTTCGCTTATTCTAACAAACTACTAAAACATAAG
1 GGAAAATAGTTCCCTTATTCTAACAAACAACTAAAACATAAG
* *
111539734 GGAAAATAGTTCCCTTATTCTAATAAACAACTAAAAGATAA
1 GGAAAATAGTTCCCTTATTCTAACAAACAACTAAAACATAA
111539775 AATAAAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.27
Consensus pattern (42 bp):
GGAAAATAGTTCCCTTATTCTAACAAACAACTAAAACATAAG
Found at i:111553057 original size:9 final size:9
Alignment explanation
Indices: 111553040--111553105 Score: 50
Period size: 8 Copynumber: 7.3 Consensus size: 9
111553030 TCAAAGTCTT
*
111553040 TATTATAAA
1 TATTTTAAA
111553049 TATTTTAAA
1 TATTTTAAA
111553058 -ATTTTAAA
1 TATTTTAAA
111553066 T-TTTTAAGA
1 TATTTTAA-A
111553075 -ATTTTTAAA
1 TA-TTTTAAA
*
111553084 TAAATTTT-AT
1 T--ATTTTAAA
111553094 TATTTTAAA
1 TATTTTAAA
111553103 TAT
1 TAT
111553106 AAAATTTTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 16
0.71 0.05 0.25
Matches are distributed among these distances:
8 19 0.41
9 14 0.30
10 8 0.17
11 4 0.09
12 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATTTTAAA
Found at i:111553077 original size:17 final size:18
Alignment explanation
Indices: 111553045--111553085 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
111553035 GTCTTTATTA
111553045 TAAATATTTTAAAA-TTT
1 TAAATATTTTAAAATTTT
111553062 TAAAT-TTTTAAGAATTTT
1 TAAATATTTTAA-AATTTT
111553080 TAAATA
1 TAAATA
111553086 AATTTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 6 0.29
17 7 0.33
18 8 0.38
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TAAATATTTTAAAATTTT
Found at i:111556246 original size:21 final size:21
Alignment explanation
Indices: 111556220--111556275 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
111556210 AATAGTAGTG
*
111556220 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
111556241 GCGGTGAGATTAGATACTGTA
1 GCGGTGAGATTAGATACTGTA
111556262 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
111556276 AACAATGGTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:111560730 original size:12 final size:12
Alignment explanation
Indices: 111560713--111560745 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
111560703 TAACCCGCTC
111560713 ATATTAATTTTT
1 ATATTAATTTTT
111560725 ATATT-ATTTTT
1 ATATTAATTTTT
111560736 ATA-TAATTTT
1 ATATTAATTTT
111560746 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:111562608 original size:13 final size:13
Alignment explanation
Indices: 111562592--111562632 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
111562582 AAGATTTTGA
*
111562592 ATTAATTAAATTT
1 ATTATTTAAATTT
111562605 ATTATTTAAAATTT
1 ATTATTT-AAATTT
111562619 ATTATTTTAAATTT
1 ATTA-TTTAAATTT
111562633 GGATTTCATC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 6 0.24
14 16 0.64
15 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTATTTAAATTT
Found at i:111562629 original size:15 final size:14
Alignment explanation
Indices: 111562599--111562632 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
111562589 TGAATTAATT
111562599 AAATTTATTATTTA
1 AAATTTATTATTTA
*
111562613 AAATTTATTATTTT
1 AAATTTATTATTTA
111562627 AAATTT
1 AAATTT
111562633 GGATTTCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
AAATTTATTATTTA
Found at i:111562730 original size:15 final size:13
Alignment explanation
Indices: 111562687--111562734 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 13
111562677 AATTATTTAC
111562687 ATATAACAATAAT
1 ATATAACAATAAT
*
111562700 ATATAAGCGAAAAAT
1 ATATAA-C-AATAAT
111562715 ACTATTAACAATAAT
1 A-TA-TAACAATAAT
111562730 ATATA
1 ATATA
111562735 TATAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 8 0.28
14 3 0.10
15 12 0.41
16 3 0.10
17 3 0.10
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.29
Consensus pattern (13 bp):
ATATAACAATAAT
Found at i:111564617 original size:112 final size:112
Alignment explanation
Indices: 111564420--111564643 Score: 430
Period size: 112 Copynumber: 2.0 Consensus size: 112
111564410 CTGAGTGGCC
111564420 ACCAATGGCCTCATTGTGGAACAACTAAAAAATTGCCTTCATGAGGTTTGTGTTGTGACTGATCA
1 ACCAATGGCCTCATTGTGGAACAACTAAAAAATTGCCTTCATGAGGTTTGTGTTGTGACTGATCA
* *
111564485 TCACTTTCCCTTTTCTCTTAAGAAACTTGCCATCCAATGAGTACTTG
66 TCACTTTCCCTTTTCTCTTAAGAAACCTACCATCCAATGAGTACTTG
111564532 ACCAATGGCCTCATTGTGGAACAACTAAAAAATTGCCTTCATGAGGTTTGTGTTGTGACTGATCA
1 ACCAATGGCCTCATTGTGGAACAACTAAAAAATTGCCTTCATGAGGTTTGTGTTGTGACTGATCA
111564597 TCACTTTCCCTTTTCTCTTAAGAAACCTACCATCCAATGAGTACTTG
66 TCACTTTCCCTTTTCTCTTAAGAAACCTACCATCCAATGAGTACTTG
111564644 GGATGGGATT
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
112 110 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (112 bp):
ACCAATGGCCTCATTGTGGAACAACTAAAAAATTGCCTTCATGAGGTTTGTGTTGTGACTGATCA
TCACTTTCCCTTTTCTCTTAAGAAACCTACCATCCAATGAGTACTTG
Found at i:111566416 original size:44 final size:42
Alignment explanation
Indices: 111566256--111566424 Score: 155
Period size: 43 Copynumber: 4.0 Consensus size: 42
111566246 AGAAAGCTCG
* * *
111566256 TACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAA
1 TACAATGCCGACGTCCCAGACGTGGTCTTACACGAAATCAAA
** *
111566298 TATTGATGCC-ATTGTCCCAGACAG-GGTCTTACACGAAATCAAA
1 TA-CAATGCCGA-CGTCCCAGAC-GTGGTCTTACACGAAATCAAA
* *
111566341 TACAATGCCGATGTCCCAGACATGGTCTTACACGTAAATCTCAAA
1 TACAATGCCGACGTCCCAGACGTGGTCTTACACG-AAA--TCAAA
* * * *
111566386 T-CGATGCTGACGTCCCAGACGTGGTTTTACACAAAATCA
1 TACAATGCCGACGTCCCAGACGTGGTCTTACACGAAATCA
111566425 CATATCAGAA
Statistics
Matches: 105, Mismatches: 14, Indels: 17
0.77 0.10 0.12
Matches are distributed among these distances:
41 3 0.03
42 29 0.28
43 40 0.38
44 27 0.26
45 6 0.06
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
TACAATGCCGACGTCCCAGACGTGGTCTTACACGAAATCAAA
Found at i:111572875 original size:54 final size:54
Alignment explanation
Indices: 111572793--111572899 Score: 187
Period size: 54 Copynumber: 2.0 Consensus size: 54
111572783 GCTTTGTGCC
* *
111572793 GCACACAGCCAGCAGACACGCCCGTGTGTCTAGGCCGTGCTCGAGACTAACTTG
1 GCACACAGCCACCAGACACGCCCGTGTGTCTAGGCCGTGCTCAAGACTAACTTG
*
111572847 GCACACAGCCACCAGACACGCCCGTGTGTCTAGGTCGTGCTCAAGACTAACTT
1 GCACACAGCCACCAGACACGCCCGTGTGTCTAGGCCGTGCTCAAGACTAACTT
111572900 TAAATTGTAG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.23, C:0.34, G:0.25, T:0.18
Consensus pattern (54 bp):
GCACACAGCCACCAGACACGCCCGTGTGTCTAGGCCGTGCTCAAGACTAACTTG
Found at i:111573876 original size:42 final size:44
Alignment explanation
Indices: 111573776--111573926 Score: 113
Period size: 43 Copynumber: 3.5 Consensus size: 44
111573766 TCCCAGATGT
* *
111573776 GGTCTTACATGT-AATCAAATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACATGTAAATCAAATATCAATGCCACTGTCCCAAACAG
* *
111573819 GGTCTTACACG-AAATCAAATA-CAATGCCGA-TGTTCCAAACA-
1 GGTCTTACATGTAAATCAAATATCAATGCC-ACTGTCCCAAACAG
* * * *
111573860 TGTCTTACATGTAAATCTCAA-ATCGATGCTGAC-GTCCCAAAC-G
1 GGTCTTACATGTAAATC-AAATATCAATGC-CACTGTCCCAAACAG
**
111573903 TGGTCTTACA-CAAAATCAAATATC
1 -GGTCTTACATGTAAATCAAATATC
111573927 GGAATCCTAT
Statistics
Matches: 84, Mismatches: 14, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
41 9 0.11
42 23 0.27
43 44 0.52
44 8 0.10
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (44 bp):
GGTCTTACATGTAAATCAAATATCAATGCCACTGTCCCAAACAG
Found at i:111590425 original size:21 final size:21
Alignment explanation
Indices: 111590401--111590444 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
111590391 CTGAAGTATG
111590401 CTAAAATGTCACATGAACTTA
1 CTAAAATGTCACATGAACTTA
111590422 CTAAAATGTCACATGAACTTA
1 CTAAAATGTCACATGAACTTA
111590443 CT
1 CT
111590445 TACCACTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (21 bp):
CTAAAATGTCACATGAACTTA
Found at i:111595127 original size:24 final size:25
Alignment explanation
Indices: 111595099--111595162 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
111595089 TCAACCAAAT
* * *
111595099 TCGCACACATAGTGCTA-ATTAAGC
1 TCGCACACATAGTGCCATACTAAAC
111595123 TCGCACACATAGTGCCATACTAAAC
1 TCGCACACATAGTGCCATACTAAAC
111595148 -CGCACACATAGTGCC
1 TCGCACACATAGTGCC
111595163 TGAAATTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (25 bp):
TCGCACACATAGTGCCATACTAAAC
Found at i:111595213 original size:24 final size:24
Alignment explanation
Indices: 111595186--111595235 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
111595176 CATTCATCGA
*
111595186 CATTCAAATCTGCACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
* *
111595210 CATTTAATTCCGCACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
111595234 CA
1 CA
111595236 ATGTTAACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.26
Consensus pattern (24 bp):
CATTCAAATCCGCACACATAGTGC
Found at i:111598263 original size:5 final size:5
Alignment explanation
Indices: 111598244--111598283 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
111598234 ATAATGTTAA
*
111598244 ATTAT AATA- ATTAT ATTAT AATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT -ATTAT ATTAT ATTAT ATTAT
111598284 GAAATAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 3 0.10
5 23 0.74
6 5 0.16
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (5 bp):
ATTAT
Found at i:111598266 original size:11 final size:11
Alignment explanation
Indices: 111598250--111598283 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
111598240 TTAAATTATA
111598250 ATAATTATATT
1 ATAATTATATT
111598261 ATAATTATATT
1 ATAATTATATT
111598272 AT-ATTATATT
1 ATAATTATATT
111598282 AT
1 AT
111598284 GAAATAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATAATTATATT
Found at i:111598795 original size:16 final size:17
Alignment explanation
Indices: 111598754--111598788 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
111598744 TAATAAAGTA
111598754 AAATAAAA-AAAGAAAG
1 AAATAAAACAAAGAAAG
111598770 AAATAAAACAAAG-AAG
1 AAATAAAACAAAGAAAG
111598786 AAA
1 AAA
111598789 AGAAACATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.80, C:0.03, G:0.11, T:0.06
Consensus pattern (17 bp):
AAATAAAACAAAGAAAG
Found at i:111598849 original size:12 final size:12
Alignment explanation
Indices: 111598818--111598851 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
111598808 AAACAGGGGG
111598818 AAAGGAAAGAAGA
1 AAAGGAAA-AAGA
111598831 AAA-GAAAAAGA
1 AAAGGAAAAAGA
111598842 AAAGGAAAAA
1 AAAGGAAAAA
111598852 TTAGGGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 7 0.35
12 10 0.50
13 3 0.15
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAGGAAAAAGA
Found at i:111599660 original size:70 final size:75
Alignment explanation
Indices: 111599572--111599747 Score: 184
Period size: 70 Copynumber: 2.3 Consensus size: 75
111599562 ATGTGAACAA
* * *
111599572 ATTGTAAATTAAAAGTGATTTGAATT-AAGT-AATTGAATT-AT-G-AATTATGTGAATATTTGA
1 ATTGAAAACTAAAAGTGATTTGAATTGAA-TAAATTGAATTAATAGAAAATATGTGAATATTTGA
*
111599632 AA-GTTTATTG
65 AATGTATATTG
* *
111599642 ATTGGAAACTAAAAGTGATTTGAATTGAATAAAATTGAATTGAATGAAGAAAATATGTGACTATT
1 ATTGAAAACTAAAAGTGATTTGAATTGAAT-AAATTGAATT-AAT--AGAAAATATGTGAATATT
111599707 TGAAATGTATATTG
62 TGAAATGTATATTG
* *
111599721 ATTGAAAAGTAATTAGTGATTTGAATT
1 ATTGAAAACTAA-AAGTGATTTGAATT
111599748 TAATTGGAAA
Statistics
Matches: 87, Mismatches: 8, Indels: 12
0.81 0.07 0.11
Matches are distributed among these distances:
70 25 0.29
71 2 0.02
72 9 0.10
74 2 0.02
77 1 0.01
78 18 0.21
79 17 0.20
80 13 0.15
ACGTcount: A:0.42, C:0.01, G:0.18, T:0.39
Consensus pattern (75 bp):
ATTGAAAACTAAAAGTGATTTGAATTGAATAAATTGAATTAATAGAAAATATGTGAATATTTGAA
ATGTATATTG
Found at i:111599684 original size:20 final size:19
Alignment explanation
Indices: 111599651--111599695 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
111599641 GATTGGAAAC
* *
111599651 TAAAAGTGATTTGAATTGAA
1 TAAAATTGAATTGAA-TGAA
111599671 TAAAATTGAATTGAATGAA
1 TAAAATTGAATTGAATGAA
*
111599690 GAAAAT
1 TAAAAT
111599696 ATGTGACTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.51, C:0.00, G:0.18, T:0.31
Consensus pattern (19 bp):
TAAAATTGAATTGAATGAA
Found at i:111600098 original size:21 final size:20
Alignment explanation
Indices: 111600068--111600137 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 20
111600058 TTATCGGCTT
111600068 TGTCG-ATCAGGCACTATATG
1 TGTCGTATCAGGCACT-TATG
*
111600088 TGTCGTATCAGGCACCTTGTG
1 TGTCGTATCAGGCA-CTTATG
* *
111600109 TGTCGTTTTAGGCACTTTATG
1 TGTCGTATCAGGCAC-TTATG
111600130 TGTCGTAT
1 TGTCGTAT
111600138 ACTATTTCTA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
20 6 0.14
21 34 0.81
22 2 0.05
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.39
Consensus pattern (20 bp):
TGTCGTATCAGGCACTTATG
Found at i:111600617 original size:13 final size:15
Alignment explanation
Indices: 111600599--111600630 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
111600589 TATGTGAAAT
111600599 AATGATT-TT-ATGA
1 AATGATTATTGATGA
111600612 AATGATTATTGATGA
1 AATGATTATTGATGA
111600627 AATG
1 AATG
111600631 CATGAATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 2 0.12
15 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (15 bp):
AATGATTATTGATGA
Found at i:111600664 original size:13 final size:13
Alignment explanation
Indices: 111600646--111600678 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
111600636 ATTGAATATT
111600646 GATATAGTAAGAA
1 GATATAGTAAGAA
111600659 GATATAGTAAGAA
1 GATATAGTAAGAA
111600672 GATATAG
1 GATATAG
111600679 AAATTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (13 bp):
GATATAGTAAGAA
Found at i:111601048 original size:21 final size:22
Alignment explanation
Indices: 111601004--111601053 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
111600994 AAATATTAAG
111601004 TATGTTCCAAGTGTCCATTTTT
1 TATGTTCCAAGTGTCCATTTTT
*
111601026 TATGTTCCAAGTGTCTA-TTTT
1 TATGTTCCAAGTGTCCATTTTT
111601047 TATGTTC
1 TATGTTC
111601054 AAATATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.18, C:0.16, G:0.14, T:0.52
Consensus pattern (22 bp):
TATGTTCCAAGTGTCCATTTTT
Found at i:111610746 original size:19 final size:20
Alignment explanation
Indices: 111610707--111610748 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
111610697 CTCTTCTTCC
*
111610707 TTCTTTCCTTCCCTTTTTCT
1 TTCTTTCCTTCCCTCTTTCT
*
111610727 TTCTTTCTTTCCC-CTTTCT
1 TTCTTTCCTTCCCTCTTTCT
111610746 TTC
1 TTC
111610749 CCTTTCTCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (20 bp):
TTCTTTCCTTCCCTCTTTCT
Found at i:111610785 original size:18 final size:16
Alignment explanation
Indices: 111610744--111610786 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
111610734 TTTCCCCTTT
111610744 CTTTCC-CTTTCTCCC
1 CTTTCCTCTTTCTCCC
*
111610759 CTCTCCTCTTTCTCCC
1 CTTTCCTCTTTCTCCC
111610775 ACTTTTCCTCTT
1 -C-TTTCCTCTT
111610787 ACCCACACGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 5 0.22
16 9 0.39
17 1 0.04
18 8 0.35
ACGTcount: A:0.02, C:0.49, G:0.00, T:0.49
Consensus pattern (16 bp):
CTTTCCTCTTTCTCCC
Found at i:111611051 original size:3 final size:3
Alignment explanation
Indices: 111611043--111611093 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
111611033 ATTTTTAGAT
111611043 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
111611091 TTA
1 TTA
111611094 CCCTTGTTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:111612676 original size:6 final size:6
Alignment explanation
Indices: 111612661--111612763 Score: 77
Period size: 6 Copynumber: 17.3 Consensus size: 6
111612651 ATTGAGTCCA
* * * * * *
111612661 TTTATC TTTATG TTTATT TTTA-T TTTATC GTTATT TTTATT TTTCTC
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* ** *
111612708 TTTATG TTT-TT TTTAGG TTTATT TTTATT TTTATG TTTATT TTGT-TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT-TATT
111612755 TTATATT TT
1 TT-TATT TT
111612764 GAAATTTATT
Statistics
Matches: 75, Mismatches: 18, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
5 9 0.12
6 61 0.81
7 5 0.07
ACGTcount: A:0.15, C:0.04, G:0.07, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:111612712 original size:35 final size:35
Alignment explanation
Indices: 111612661--111612758 Score: 110
Period size: 35 Copynumber: 2.8 Consensus size: 35
111612651 ATTGAGTCCA
* *
111612661 TTTATCTTTATGTTTATTTTTATTTTATCG-TTATT
1 TTTATTTTTATCTTTATTTTT-TTTTATCGTTTATT
* *
111612696 TTTATTTTTCTCTTTATGTTTTTTTTA-GGTTTATT
1 TTTATTTTTATCTTTAT-TTTTTTTTATCGTTTATT
*
111612731 TTTATTTTTATGTTTATTTTGTTTTTAT
1 TTTATTTTTATCTTTATTTT-TTTTTAT
111612759 ATTTTGAAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
34 4 0.08
35 45 0.85
36 4 0.08
ACGTcount: A:0.14, C:0.04, G:0.07, T:0.74
Consensus pattern (35 bp):
TTTATTTTTATCTTTATTTTTTTTTATCGTTTATT
Found at i:111612755 original size:17 final size:16
Alignment explanation
Indices: 111612667--111612758 Score: 78
Period size: 17 Copynumber: 5.3 Consensus size: 16
111612657 TCCATTTATC
111612667 TTTATGTTTATTTTTAT
1 TTTATGTTTATTTTT-T
111612684 TTTATCG-TTATTTTTATT
1 TTTAT-GTTTA-TTTT-TT
* *
111612702 TTTCTCTTTATGTTTTT
1 TTTATGTTTAT-TTTTT
*
111612719 TTTAGGTTTATTTTTATT
1 TTTATGTTTA-TTTT-TT
111612737 TTTATGTTTATTTTGTT
1 TTTATGTTTATTTT-TT
111612754 TTTAT
1 TTTAT
111612759 ATTTTGAAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
17 32 0.52
18 28 0.46
19 1 0.02
ACGTcount: A:0.14, C:0.03, G:0.08, T:0.75
Consensus pattern (16 bp):
TTTATGTTTATTTTTT
Found at i:111613084 original size:59 final size:59
Alignment explanation
Indices: 111613013--111613135 Score: 219
Period size: 59 Copynumber: 2.1 Consensus size: 59
111613003 ATGTACATCG
* *
111613013 TAAGTGTGGGGAGGTTATTTATATGATTATTTGAAAATTCCTGACTTATGCCTTATGTT
1 TAAGTGTAGGGAGGTTATTTATATGATTATTTGAAAATCCCTGACTTATGCCTTATGTT
*
111613072 TAAGTGTAGGGAGGTTATTTATATGATTATTTGAAAATCCCTGACTTATGCCTTGTGTT
1 TAAGTGTAGGGAGGTTATTTATATGATTATTTGAAAATCCCTGACTTATGCCTTATGTT
111613131 TAAGT
1 TAAGT
111613136 AATTTGCTCA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.43
Consensus pattern (59 bp):
TAAGTGTAGGGAGGTTATTTATATGATTATTTGAAAATCCCTGACTTATGCCTTATGTT
Found at i:111621227 original size:30 final size:31
Alignment explanation
Indices: 111621086--111621221 Score: 165
Period size: 30 Copynumber: 4.5 Consensus size: 31
111621076 ATTTCCATAG
*
111621086 GGGCTGGGC-ACACGCCCGTGTAAACCACAC
1 GGGCTGGGCTACACGCCCGTGTGAACCACAC
* *
111621116 GGGCTCGG-TATACGCCCGTGTGAACCACAC
1 GGGCTGGGCTACACGCCCGTGTGAACCACAC
* *
111621146 GGGCTGGG-TACACGCCCGTGTGAGCCACAT
1 GGGCTGGGCTACACGCCCGTGTGAACCACAC
* * *
111621176 GGGCTGGGC-ACATGCCCATGTGAACCACAT
1 GGGCTGGGCTACACGCCCGTGTGAACCACAC
111621206 GGGCT-GGCTACACGCC
1 GGGCTGGGCTACACGCC
111621222 TATGTGTCAG
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
29 3 0.03
30 89 0.97
ACGTcount: A:0.20, C:0.33, G:0.32, T:0.15
Consensus pattern (31 bp):
GGGCTGGGCTACACGCCCGTGTGAACCACAC
Found at i:111627017 original size:13 final size:13
Alignment explanation
Indices: 111626999--111627025 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
111626989 TCAGTAATCG
111626999 CACACGGGCGTGT
1 CACACGGGCGTGT
111627012 CACACGGGCGTGT
1 CACACGGGCGTGT
111627025 C
1 C
111627026 TCTACCGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:111634051 original size:21 final size:19
Alignment explanation
Indices: 111634027--111634076 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
111634017 CTGCTACTGC
111634027 AGAAGAGGAAATTGTTGCTGA
1 AGAAGAGGAAA--GTTGCTGA
*
111634048 AGAAAAGG-AAGTTGCTGA
1 AGAAGAGGAAAGTTGCTGA
111634066 AGAAG-GGAAAG
1 AGAAGAGGAAAG
111634077 AAATAGAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 2 0.08
18 15 0.58
20 2 0.08
21 7 0.27
ACGTcount: A:0.44, C:0.04, G:0.36, T:0.16
Consensus pattern (19 bp):
AGAAGAGGAAAGTTGCTGA
Found at i:111634089 original size:365 final size:365
Alignment explanation
Indices: 111633419--111634506 Score: 1987
Period size: 365 Copynumber: 3.0 Consensus size: 365
111633409 AGCTCGTCTT
* *
111633419 TAATACCAAACTTCCCAGTATTTCCACCAATCATTTGAAACTATAAGCATTCATTTACGAATGAC
1 TAATACCGAACTTCCCAGTATTTCCACCAATCATTTGAAACTATAAGCATTCATTTACAAATGAC
* * * *
111633484 GACTTCAAAGATTGAGACCGATCGGTGGCATCTCCTCCCATCGTGCGAGTCTTTGATAATGACAA
66 GACTTCAAAGATTGAGACCGATCGGTGGCATCTTCTCCTATCGTGCAAGTCTCTGATAATGACAA
*
111633549 AGATGAAGAATCCATAGGCTTTGAGGAATGTCTACACAAGATTGATAGCTTGTTCGAAATGGTAT
131 AGATGAAGAATCCATAGGCTTTGAGGAATGTCTACACAAGATTGATAGCTTGTTCGAAATGATAT
* *
111633614 TTTTGCTGATCAATAGGGCACTATTGTTGACAAGGAAGCTGCTACTGTAAAAGAGGAAATTGTTG
196 TTTTGCTGATCAATAGGGCACTATTGTTGACAAGGAAGCTGCTACTGCAGAAGAGGAAATTGTTG
111633679 CTGAAGAAAAGGAAGTTGCTGAAGAAGAGAAAGAAATAGAAGAGAAAGATTCTGATGTGAATATT
261 CTGAAGAAAAGGAAGTTGCTGAAGAAGAGAAAGAAATAGAAGAGAAAGATTCTGATGTGAATATT
111633744 GTCACCACACTAGAATCTGTGGGTGTAAATATTGAAACTA
326 GTCACCACACTAGAATCTGTGGGTGTAAATATTGAAACTA
111633784 TAATACCGAACTTCCCAGTATTTCCACCAATCATTTGAAACTATAAGCATTCATTTACAAATGAC
1 TAATACCGAACTTCCCAGTATTTCCACCAATCATTTGAAACTATAAGCATTCATTTACAAATGAC
*
111633849 GACTTTAAAGATTGAGACCGATCGGTGGCATCTTCTCCTATCGTGCAAGTCTCTGATAATGACAA
66 GACTTCAAAGATTGAGACCGATCGGTGGCATCTTCTCCTATCGTGCAAGTCTCTGATAATGACAA
111633914 AGATGAAGAATCCATAGGCTTTGAGGAATGTCTACACAAGATTGATAGCTTGTTCGAAATGATAT
131 AGATGAAGAATCCATAGGCTTTGAGGAATGTCTACACAAGATTGATAGCTTGTTCGAAATGATAT
111633979 TTTTGCTGATCAATAGGGCACTATTGTTGACAAGGAAGCTGCTACTGCAGAAGAGGAAATTGTTG
196 TTTTGCTGATCAATAGGGCACTATTGTTGACAAGGAAGCTGCTACTGCAGAAGAGGAAATTGTTG
* *
111634044 CTGAAGAAAAGGAAGTTGCTGAAGAAGGGAAAGAAATAGAAGAGAAAAATTCTGATGTGAATATT
261 CTGAAGAAAAGGAAGTTGCTGAAGAAGAGAAAGAAATAGAAGAGAAAGATTCTGATGTGAATATT
*
111634109 GTCACCACACTAGAATCTATGGGTGTAAATATTGAAACTA
326 GTCACCACACTAGAATCTGTGGGTGTAAATATTGAAACTA
111634149 TAATACCGAACTTCCCAGTATTTCCACCAATCATTTGAAACTATAAGCATTCATTTACAAATGAC
1 TAATACCGAACTTCCCAGTATTTCCACCAATCATTTGAAACTATAAGCATTCATTTACAAATGAC
* * *
111634214 GACTTCAAAGATTGAGACCGATTGGAGGCATCTTCTCCTATCGTGCAAGTCTCTCATAATGACAA
66 GACTTCAAAGATTGAGACCGATCGGTGGCATCTTCTCCTATCGTGCAAGTCTCTGATAATGACAA
111634279 AGATGAAGAATCCATAGGCTTTGAGGAATGTCTACACAAGATTGATAGCTTGTTCGAAATGATAT
131 AGATGAAGAATCCATAGGCTTTGAGGAATGTCTACACAAGATTGATAGCTTGTTCGAAATGATAT
* * *
111634344 TTTTGCTAATCAATAGGGCATTATTGTTGACAAGGAAGCTGCTACTGCAGAATAGGAAATTGTTG
196 TTTTGCTGATCAATAGGGCACTATTGTTGACAAGGAAGCTGCTACTGCAGAAGAGGAAATTGTTG
* *
111634409 CTGAAGAAAAGAAAGTTGCTGAAGAAGAGAAAGAAATAGAAGAGAAAGATTCTAATGTGAATATT
261 CTGAAGAAAAGGAAGTTGCTGAAGAAGAGAAAGAAATAGAAGAGAAAGATTCTGATGTGAATATT
111634474 GTCACCACACTAGAATCTGTGGGTGTAAATATT
326 GTCACCACACTAGAATCTGTGGGTGTAAATATT
111634507 AAAAATCTAG
Statistics
Matches: 698, Mismatches: 25, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
365 698 1.00
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.28
Consensus pattern (365 bp):
TAATACCGAACTTCCCAGTATTTCCACCAATCATTTGAAACTATAAGCATTCATTTACAAATGAC
GACTTCAAAGATTGAGACCGATCGGTGGCATCTTCTCCTATCGTGCAAGTCTCTGATAATGACAA
AGATGAAGAATCCATAGGCTTTGAGGAATGTCTACACAAGATTGATAGCTTGTTCGAAATGATAT
TTTTGCTGATCAATAGGGCACTATTGTTGACAAGGAAGCTGCTACTGCAGAAGAGGAAATTGTTG
CTGAAGAAAAGGAAGTTGCTGAAGAAGAGAAAGAAATAGAAGAGAAAGATTCTGATGTGAATATT
GTCACCACACTAGAATCTGTGGGTGTAAATATTGAAACTA
Found at i:111634428 original size:18 final size:18
Alignment explanation
Indices: 111634405--111634441 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
111634395 ATAGGAAATT
111634405 GTTGCTGAAGAAAAGAAA
1 GTTGCTGAAGAAAAGAAA
*
111634423 GTTGCTGAAGAAGAGAAA
1 GTTGCTGAAGAAAAGAAA
111634441 G
1 G
111634442 AAATAGAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.05, G:0.32, T:0.16
Consensus pattern (18 bp):
GTTGCTGAAGAAAAGAAA
Found at i:111635540 original size:47 final size:47
Alignment explanation
Indices: 111635471--111635565 Score: 163
Period size: 47 Copynumber: 2.0 Consensus size: 47
111635461 TGCCATAGAG
*
111635471 TAAGTTTTCGGGCTGAAATTGAAGAATGTGATAAATTAATTATTTAA
1 TAAGTTTTCGGGCTGAAATTGAAGAATGTGATAAATTAATAATTTAA
* *
111635518 TAAGTTTTCGGGTTGAAATTGAAGAATGTGATGAATTAATAATTTAA
1 TAAGTTTTCGGGCTGAAATTGAAGAATGTGATAAATTAATAATTTAA
111635565 T
1 T
111635566 TTGTTTATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.39
Consensus pattern (47 bp):
TAAGTTTTCGGGCTGAAATTGAAGAATGTGATAAATTAATAATTTAA
Found at i:111637080 original size:16 final size:16
Alignment explanation
Indices: 111637054--111637091 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
111637044 TGTTTTTTGT
*
111637054 TGTAT-AATGAGCATA
1 TGTATAAATGAGCAGA
111637069 TGTATAAATGAGCAGA
1 TGTATAAATGAGCAGA
111637085 TGTATAA
1 TGTATAA
111637092 TTGGTCCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.32
Consensus pattern (16 bp):
TGTATAAATGAGCAGA
Found at i:111648890 original size:29 final size:29
Alignment explanation
Indices: 111648855--111649047 Score: 323
Period size: 29 Copynumber: 6.7 Consensus size: 29
111648845 ATAAACGATC
*** *
111648855 TCGCACACTTAGTGCCATGCGATTTAAGC
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
111648884 TCGCACACATAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
111648913 TTGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
111648942 TCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
111648971 TCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
111649000 TCGCACACTTAATGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
111649029 TCGCACACTTAGTGCCATA
1 TCGCACACTTAGTGCCATA
111649048 CCTTCCAAGC
Statistics
Matches: 154, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 154 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.33
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATATAATTTAAGT
Found at i:111648958 original size:87 final size:87
Alignment explanation
Indices: 111648855--111649074 Score: 325
Period size: 87 Copynumber: 2.5 Consensus size: 87
111648845 ATAAACGATC
* * *
111648855 TCGCACACTTAGTGCCATGCGATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTTGCACA
1 TCGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTCGCACA
*
111648920 CTTAGTGCCATATAATTTAAGT
66 CTTAATGCCATATAATTTAAGT
* * *
111648942 TCGCACACTTAGTGCCATATAATTTAAGTTCGCACACTTAGTGCCATATAATTTAAGTTCGCACA
1 TCGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTCGCACA
111649007 CTTAATGCCATATAATTTAAGT
66 CTTAATGCCATATAATTTAAGT
* * * *
111649029 TCGCACACTTAGTGCCATAC-CTTCCAAGCCCGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCATACAATT-TAAGCTCGCACACATAGTGCCA
111649075 ATCTTGTCAC
Statistics
Matches: 120, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
86 2 0.02
87 118 0.98
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (87 bp):
TCGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTCGCACA
CTTAATGCCATATAATTTAAGT
Found at i:111649063 original size:58 final size:58
Alignment explanation
Indices: 111648855--111649074 Score: 316
Period size: 58 Copynumber: 3.8 Consensus size: 58
111648845 ATAAACGATC
*** *
111648855 TCGCACACTTAGTGCCATGCGATTTAAGCTCGCACACATAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGCTCGCACACTTAGTGCCATATAATTTAAGT
* *
111648913 TTGCACACTTAGTGCCATATAATTTAAGTTCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGCTCGCACACTTAGTGCCATATAATTTAAGT
* *
111648971 TCGCACACTTAGTGCCATATAATTTAAGTTCGCACACTTAATGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGCTCGCACACTTAGTGCCATATAATTTAAGT
** * *
111649029 TCGCACACTTAGTGCCATA-CCTTCCAAGCCCGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCATATAATT-TAAGCTCGCACACTTAGTGCCA
111649075 ATCTTGTCAC
Statistics
Matches: 147, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
57 2 0.01
58 145 0.99
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATATAATTTAAGCTCGCACACTTAGTGCCATATAATTTAAGT
Found at i:111661928 original size:2 final size:2
Alignment explanation
Indices: 111661921--111661964 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
111661911 GTATAATAAC
111661921 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
111661963 AT
1 AT
111661965 CACATTCATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111665858 original size:9 final size:9
Alignment explanation
Indices: 111665819--111665878 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
111665809 GCCCAGAGCT
111665819 ACTTCTTTC
1 ACTTCTTTC
**
111665828 TTTTCTTTC
1 ACTTCTTTC
* *
111665837 TCTTGTTTC
1 ACTTCTTTC
*
111665846 ACTTCTTTT
1 ACTTCTTTC
*
111665855 ACTTCCTTC
1 ACTTCTTTC
111665864 ACTTCTTTC
1 ACTTCTTTC
*
111665873 TCTTCT
1 ACTTCT
111665879 GCTGGAATTG
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.07, C:0.30, G:0.02, T:0.62
Consensus pattern (9 bp):
ACTTCTTTC
Found at i:111666380 original size:96 final size:96
Alignment explanation
Indices: 111666270--111666458 Score: 315
Period size: 96 Copynumber: 2.0 Consensus size: 96
111666260 CTAACGCTTC
* * * *
111666270 CTTCTTCTGCAGATTTCGGAACAGAACTTACTGCTTTTGGTTCATTGGCTTCCTTTGCAGATTTC
1 CTTCTTCTGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCATCGGCTTCCTCTACAGATTTC
111666335 GGAACAGAACTTACTGCTTTCGATTCATTGG
66 GGAACAGAACTTACTGCTTTCGATTCATTGG
* *
111666366 CTTCTTCTGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCATCGGCTTTCTCTACAGATTTT
1 CTTCTTCTGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCATCGGCTTCCTCTACAGATTTC
*
111666431 GGAACAGAACTTATTGCTTTCGATTCAT
66 GGAACAGAACTTACTGCTTTCGATTCAT
111666459 CGGCCATGGC
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 86 1.00
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.39
Consensus pattern (96 bp):
CTTCTTCTGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCATCGGCTTCCTCTACAGATTTC
GGAACAGAACTTACTGCTTTCGATTCATTGG
Found at i:111666459 original size:48 final size:48
Alignment explanation
Indices: 111666275--111666462 Score: 270
Period size: 48 Copynumber: 3.9 Consensus size: 48
111666265 GCTTCCTTCT
* * * *
111666275 TCTGCAGATTTCGGAACAGAACTTACTGCTTTTGGTTCATTGGCTTCC
1 TCTGCAGATTTCGGAACAGAACTTACTGCTTTCGATTCATCGGCTTTC
* *
111666323 TTTGCAGATTTCGGAACAGAACTTACTGCTTTCGATTCATTGGC-TTC
1 TCTGCAGATTTCGGAACAGAACTTACTGCTTTCGATTCATCGGCTTTC
*
111666370 TTCTGCAGATTTCGGAACAGAACTTACTGCTTTCGGTTCATCGGCTTTC
1 -TCTGCAGATTTCGGAACAGAACTTACTGCTTTCGATTCATCGGCTTTC
* * *
111666419 TCTACAGATTTTGGAACAGAACTTATTGCTTTCGATTCATCGGC
1 TCTGCAGATTTCGGAACAGAACTTACTGCTTTCGATTCATCGGC
111666463 CATGGCAGTG
Statistics
Matches: 127, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
47 2 0.02
48 122 0.96
49 3 0.02
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (48 bp):
TCTGCAGATTTCGGAACAGAACTTACTGCTTTCGATTCATCGGCTTTC
Found at i:111666533 original size:24 final size:24
Alignment explanation
Indices: 111666501--111666552 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
111666491 TGGACGTGTT
*
111666501 CTTCAGACCTTTTTTCGGATTCGA
1 CTTCAGACCCTTTTTCGGATTCGA
* *
111666525 CTTCAGACCCTTTTTCGGTTTTGA
1 CTTCAGACCCTTTTTCGGATTCGA
111666549 CTTC
1 CTTC
111666553 TACCGGGGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.13, C:0.27, G:0.15, T:0.44
Consensus pattern (24 bp):
CTTCAGACCCTTTTTCGGATTCGA
Found at i:111671726 original size:18 final size:18
Alignment explanation
Indices: 111671677--111671729 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
111671667 TTAAGTTTCA
111671677 CATA-TCATTTCATCATTT
1 CATATTCATTTC-TCATTT
*
111671695 CATATTTTATTTCTCATTT
1 CATA-TTCATTTCTCATTT
111671714 CATATTCATTTCTCAT
1 CATATTCATTTCTCAT
111671730 CTTTGTCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 15 0.48
19 10 0.32
20 6 0.19
ACGTcount: A:0.25, C:0.21, G:0.00, T:0.55
Consensus pattern (18 bp):
CATATTCATTTCTCATTT
Found at i:111674992 original size:46 final size:44
Alignment explanation
Indices: 111674933--111675047 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
111674923 ACAGGACAGA
* *
111674933 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
111674979 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
111675023 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
111675048 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:111675028 original size:44 final size:45
Alignment explanation
Indices: 111674933--111675066 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
111674923 ACAGGACAGA
* *
111674933 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
111674979 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
111675023 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
111675067 TAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:111683437 original size:16 final size:16
Alignment explanation
Indices: 111683416--111683447 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
111683406 TTAATAAAAT
*
111683416 AAAAAATCTAACCCTA
1 AAAAAACCTAACCCTA
111683432 AAAAAACCTAACCCTA
1 AAAAAACCTAACCCTA
111683448 GAGAGAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAAAACCTAACCCTA
Found at i:111686091 original size:27 final size:27
Alignment explanation
Indices: 111686051--111686162 Score: 129
Period size: 27 Copynumber: 4.1 Consensus size: 27
111686041 AGGAAGCGTC
*
111686051 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* *
111686078 CTGGTGGCTCTGCCATATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
111686105 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
111686133 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
111686159 CTGG
1 CTGG
111686163 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 8 0.11
27 47 0.64
28 18 0.25
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:111686157 original size:54 final size:54
Alignment explanation
Indices: 111686051--111686162 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
111686041 AGGAAGCGTC
* * *
111686051 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCATATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
111686105 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
111686159 CTGG
1 CTGG
111686163 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:111689044 original size:25 final size:25
Alignment explanation
Indices: 111689010--111689057 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
111689000 ATCACTAGTT
111689010 TAGTGACATTGATCCACAAGAAGGG
1 TAGTGACATTGATCCACAAGAAGGG
111689035 TAGTGACATTGATCCACAAGAAG
1 TAGTGACATTGATCCACAAGAAG
111689058 CTCAGCAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.21
Consensus pattern (25 bp):
TAGTGACATTGATCCACAAGAAGGG
Found at i:111694897 original size:18 final size:18
Alignment explanation
Indices: 111694876--111694918 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
111694866 CATTTCCCCC
*
111694876 TTCTTTCATTTGTTTATT
1 TTCTTTCATTTATTTATT
**
111694894 TTCTTTTGTTTATTTATT
1 TTCTTTCATTTATTTATT
*
111694912 TGCTTTC
1 TTCTTTC
111694919 TTTTTATGCG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.09, C:0.12, G:0.07, T:0.72
Consensus pattern (18 bp):
TTCTTTCATTTATTTATT
Found at i:111694901 original size:14 final size:14
Alignment explanation
Indices: 111694879--111694908 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
111694869 TTCCCCCTTC
111694879 TTTCATTTGTTTAT
1 TTTCATTTGTTTAT
*
111694893 TTTCTTTTGTTTAT
1 TTTCATTTGTTTAT
111694907 TT
1 TT
111694909 ATTTGCTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.07, G:0.07, T:0.77
Consensus pattern (14 bp):
TTTCATTTGTTTAT
Found at i:111695828 original size:34 final size:37
Alignment explanation
Indices: 111695765--111695833 Score: 99
Period size: 34 Copynumber: 1.9 Consensus size: 37
111695755 ATTACCAGAC
* *
111695765 TCATTATTTAAATAAACATACATTTCACATTCAATTT
1 TCATTATTCAAATAAAAATACATTTCACATTCAATTT
111695802 TCATT-TTCAAATAAAAAT-CA-TTCACATTCAAT
1 TCATTATTCAAATAAAAATACATTTCACATTCAAT
111695834 CATATTGTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
34 12 0.40
35 2 0.07
36 11 0.37
37 5 0.17
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.41
Consensus pattern (37 bp):
TCATTATTCAAATAAAAATACATTTCACATTCAATTT
Found at i:111700786 original size:46 final size:46
Alignment explanation
Indices: 111700736--111700911 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
111700726 TGTTTGGGCA
111700736 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
111700782 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
111700827 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
111700875 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
111700912 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:111700842 original size:93 final size:93
Alignment explanation
Indices: 111700732--111700903 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
111700722 AGGATGTTTG
* *
111700732 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
111700797 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
111700825 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
111700890 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
111700904 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:111703897 original size:15 final size:15
Alignment explanation
Indices: 111703858--111703936 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
111703848 GTATCTTGGG
*
111703858 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
111703873 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
111703888 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
111703902 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
111703917 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
111703931 TTTCTT
1 TTTCTT
111703937 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:111703921 original size:29 final size:29
Alignment explanation
Indices: 111703849--111703935 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
111703839 CATAGTATCG
* * * *
111703849 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
111703879 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
111703908 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
111703936 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:111706368 original size:46 final size:45
Alignment explanation
Indices: 111706318--111706493 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
111706308 TGTTTGGGCA
111706318 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
111706364 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
111706411 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
111706457 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
111706494 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:111706425 original size:93 final size:93
Alignment explanation
Indices: 111706314--111706485 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
111706304 AGGATGTTTG
* *
111706314 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
111706379 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
111706407 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
111706472 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
111706486 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:111716624 original size:36 final size:35
Alignment explanation
Indices: 111716497--111716625 Score: 132
Period size: 36 Copynumber: 3.6 Consensus size: 35
111716487 ACTCTCTGTT
* * * **
111716497 TTGGTGTGTTCAGGTTGGACTAGCTCTTCGGAGCCA
1 TTGGTGTGTTTAGGATGGATTAGCTCTTATGAG-CA
* * *
111716533 TTGGTGTGTTTCGGATAGATTAGCTTTTATGAGCA
1 TTGGTGTGTTTAGGATGGATTAGCTCTTATGAGCA
*
111716568 TTTGGTATGTTTAGGATGGATTAGCTCTTATGAGCA
1 -TTGGTGTGTTTAGGATGGATTAGCTCTTATGAGCA
* *
111716604 TATGGTGTGTTTTGGTTGGATT
1 T-TGGTGTGTTTAGGATGGATT
111716626 GTCGATTTAC
Statistics
Matches: 76, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
35 3 0.04
36 73 0.96
ACGTcount: A:0.17, C:0.10, G:0.31, T:0.42
Consensus pattern (35 bp):
TTGGTGTGTTTAGGATGGATTAGCTCTTATGAGCA
Found at i:111720111 original size:27 final size:27
Alignment explanation
Indices: 111720081--111720132 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
111720071 AACAACTCAC
*
111720081 GTTTTATTTCAAATATCTATATCCAAT
1 GTTTCATTTCAAATATCTATATCCAAT
* *
111720108 GTTTCATTTCATATATCTATTTCCA
1 GTTTCATTTCAAATATCTATATCCA
111720133 TATAACTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.29, C:0.17, G:0.04, T:0.50
Consensus pattern (27 bp):
GTTTCATTTCAAATATCTATATCCAAT
Found at i:111720156 original size:40 final size:40
Alignment explanation
Indices: 111720112--111720649 Score: 710
Period size: 40 Copynumber: 13.4 Consensus size: 40
111720102 TCCAATGTTT
111720112 CATTTCATATATCTATTTCCATATAACTGATTCATATAAC
1 CATTTCATATATCTATTTCCATATAACTGATTCATATAAC
* *
111720152 CATTTCATATATCTATTTCCATATAATTGATTCATACAAC
1 CATTTCATATATCTATTTCCATATAACTGATTCATATAAC
*
111720192 CATTTCATATATCTATTTCCATATAACCGATTCATATAAC
1 CATTTCATATATCTATTTCCATATAACTGATTCATATAAC
* * *
111720232 CATTTCATATATCTACTTCCATATAACCGATTCATACAAC
1 CATTTCATATATCTATTTCCATATAACTGATTCATATAAC
*
111720272 CATTTCATATATCTACTTT-CATACAA-TCGATTCATATAAC
1 CATTTCATATATCTA-TTTCCATATAACT-GATTCATATAAC
* * *
111720312 CATTTCATTTATCTATTTTCATATAACTGATTCATATAAT
1 CATTTCATATATCTATTTCCATATAACTGATTCATATAAC
*
111720352 CATTTCATATATCTACTTCCATATAACTGATTCATATAAC
1 CATTTCATATATCTATTTCCATATAACTGATTCATATAAC
* *
111720392 CATTTCATTTATCTATTTCCATATAAAC-GATTCGTATAAC
1 CATTTCATATATCTATTTCCATAT-AACTGATTCATATAAC
* * * * *
111720432 CATTTTATGTATCTACTTCCATATAACCGGTTCATATAAC
1 CATTTCATATATCTATTTCCATATAACTGATTCATATAAC
* *
111720472 CATTTCATTTATCTATTTCCATATAATTGATTCATATAAC
1 CATTTCATATATCTATTTCCATATAACTGATTCATATAAC
* *
111720512 AATTTCATTTATCTATTTCCATATAA-TCGATTCATATAAC
1 CATTTCATATATCTATTTCCATATAACT-GATTCATATAAC
* *
111720552 CATTTCATATATTTATTTTTCATATAA-TCGATTCATATAAC
1 CATTTCATATATCTA-TTTCCATATAACT-GATTCATATAAC
* * *
111720593 TATTTCATTTATCTATTTCCATATAA-TCAATTCATATAAC
1 CATTTCATATATCTATTTCCATATAACT-GATTCATATAAC
* *
111720633 CATTTTATATGTCTATT
1 CATTTCATATATCTATT
111720650 CTTCACCCGA
Statistics
Matches: 444, Mismatches: 46, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
39 7 0.02
40 395 0.89
41 42 0.09
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.44
Consensus pattern (40 bp):
CATTTCATATATCTATTTCCATATAACTGATTCATATAAC
Found at i:111720596 original size:28 final size:28
Alignment explanation
Indices: 111720542--111720597 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
111720532 ATATAATCGA
**
111720542 TTCATATAACCATTTCATATATTTATTT
1 TTCATATAACCATTTCATATAACTATTT
*
111720570 TTCATATAATCGA-TTCATATAACTATTT
1 TTCATATAA-CCATTTCATATAACTATTT
111720598 CATTTATCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.34, C:0.14, G:0.02, T:0.50
Consensus pattern (28 bp):
TTCATATAACCATTTCATATAACTATTT
Found at i:111726973 original size:15 final size:15
Alignment explanation
Indices: 111726932--111726974 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
111726922 GTGTTTTTGG
111726932 AATAATTTGAATGAA
1 AATAATTTGAATGAA
* *
111726947 AATATGTTTGAATGAG
1 AATA-ATTTGAATGAA
*
111726963 ATTAATTTGAAT
1 AATAATTTGAAT
111726975 ATGTTTAGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (15 bp):
AATAATTTGAATGAA
Found at i:111736452 original size:17 final size:17
Alignment explanation
Indices: 111736430--111736468 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
111736420 TCATTGAATA
*
111736430 CCTAAAATCTTTAAATC
1 CCTAAAATCTTGAAATC
111736447 CCT-AAATCTTGAAATC
1 CCTAAAATCTTGAAATC
111736463 CCTAAA
1 CCTAAA
111736469 TCATTAGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.41, C:0.26, G:0.03, T:0.31
Consensus pattern (17 bp):
CCTAAAATCTTGAAATC
Found at i:111736455 original size:16 final size:16
Alignment explanation
Indices: 111736434--111736470 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
111736424 TGAATACCTA
*
111736434 AAATCTTTAAATCCCT
1 AAATCTTGAAATCCCT
111736450 AAATCTTGAAATCCCT
1 AAATCTTGAAATCCCT
111736466 AAATC
1 AAATC
111736471 ATTAGCATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.41, C:0.24, G:0.03, T:0.32
Consensus pattern (16 bp):
AAATCTTGAAATCCCT
Found at i:111737958 original size:211 final size:210
Alignment explanation
Indices: 111737590--111738012 Score: 706
Period size: 211 Copynumber: 2.0 Consensus size: 210
111737580 GTAAGAGGCA
* *
111737590 TATGTAGCTAGCAGTTGCAAATGTTGATTGACAAATATTTATTGTTTTTTATGTAATTTAACATT
1 TATGCAGCTAGCAGTTGCAAATGTTGATTGACAAATATTGATTGTTTTTTATGTAATTTAACATT
* * * *
111737655 ATGCTTGGCAGTAATGACCAATATTTTTTGTTTATGCCTAATTTAATTTAGCTTAGTAAATAATG
66 ATGCTTGGAAGTAATGACCAATATTTGTTGTTTAAGCCTAATTTAATTTAGCTTAATAAATAATG
* * * *
111737720 CAGTGACAATAAAGATAAGATTAAAAGGATAAATTTGATCATTTAAGCATATGA-TTTCCCTATT
131 CAGTGACAATAAACATAAGACTAAAAGGACAAATTTGATCATTGAAGCATATGATTTTCCC-ATT
111737784 GCAATTTGGATAAATG
195 GCAATTTGGATAAATG
*
111737800 TATGCAGCTAGCAGTTGCAAATGTTGATTGAGC-AATATTGGTTGTTTTTTTATGTAATTTAACA
1 TATGCAGCTAGCAGTTGCAAATGTTGATTGA-CAAATATTGATTG-TTTTTTATGTAATTTAACA
111737864 TTATGCTTGGAAGTAATGACCAATATTTGTTGTTTAAGCCTAATTTAATTTAGCTTAATAAATAA
64 TTATGCTTGGAAGTAATGACCAATATTTGTTGTTTAAGCCTAATTTAATTTAGCTTAATAAATAA
111737929 TGCAGTGACAATAAACATAAGACTAAAAGGACAAATTTGATCATTGAAGCATATGATTTTCCCAT
129 TGCAGTGACAATAAACATAAGACTAAAAGGACAAATTTGATCATTGAAGCATATGATTTTCCCAT
111737994 TGCAATTTGGATAAATG
194 TGCAATTTGGATAAATG
111738011 TA
1 TA
111738013 CCTTATAAAA
Statistics
Matches: 199, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
210 39 0.20
211 154 0.77
212 6 0.03
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (210 bp):
TATGCAGCTAGCAGTTGCAAATGTTGATTGACAAATATTGATTGTTTTTTATGTAATTTAACATT
ATGCTTGGAAGTAATGACCAATATTTGTTGTTTAAGCCTAATTTAATTTAGCTTAATAAATAATG
CAGTGACAATAAACATAAGACTAAAAGGACAAATTTGATCATTGAAGCATATGATTTTCCCATTG
CAATTTGGATAAATG
Found at i:111738057 original size:16 final size:16
Alignment explanation
Indices: 111738036--111738073 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
111738026 TATGATTAGT
*
111738036 CTATACACCATTCACC
1 CTATACACCATCCACC
*
111738052 CTATACACCATCCACG
1 CTATACACCATCCACC
111738068 CTATAC
1 CTATAC
111738074 CAGCCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.42, G:0.03, T:0.24
Consensus pattern (16 bp):
CTATACACCATCCACC
Found at i:111744581 original size:33 final size:33
Alignment explanation
Indices: 111744539--111744613 Score: 141
Period size: 33 Copynumber: 2.3 Consensus size: 33
111744529 GTCAGGGAGC
*
111744539 CACACGGGCAAGGAATACGGCCGTGTGTTCGGA
1 CACACGGGCAAGGAACACGGCCGTGTGTTCGGA
111744572 CACACGGGCAAGGAACACGGCCGTGTGTTCGGA
1 CACACGGGCAAGGAACACGGCCGTGTGTTCGGA
111744605 CACACGGGC
1 CACACGGGC
111744614 GTGTGAGACA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.24, C:0.28, G:0.36, T:0.12
Consensus pattern (33 bp):
CACACGGGCAAGGAACACGGCCGTGTGTTCGGA
Found at i:111744797 original size:13 final size:13
Alignment explanation
Indices: 111744779--111744803 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
111744769 AACCCAAACG
111744779 GGCGTGTGACACA
1 GGCGTGTGACACA
111744792 GGCGTGTGACAC
1 GGCGTGTGACAC
111744804 GGCCGTGTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.24, G:0.40, T:0.16
Consensus pattern (13 bp):
GGCGTGTGACACA
Found at i:111746772 original size:17 final size:16
Alignment explanation
Indices: 111746741--111746787 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
111746731 GTCCATCTAT
111746741 TTTATTTTTATTTTTATC
1 TTTA-TTTTA-TTTTATC
111746759 TTTATTTTCATTTTATC
1 TTTATTTT-ATTTTATC
*
111746776 TTTCTTTTATTT
1 TTTATTTTATTT
111746788 ATTTTTGAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 4 0.15
17 18 0.67
18 5 0.19
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTATTTTATTTTATC
Found at i:111746779 original size:12 final size:11
Alignment explanation
Indices: 111746746--111746787 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
111746736 TCTATTTTAT
*
111746746 TTTTATTTTTA
1 TTTTATTTTCA
111746757 TCTTTATTTTCA
1 T-TTTATTTTCA
111746769 TTTTATCTTTC-
1 TTTTAT-TTTCA
111746780 TTTTATTT
1 TTTTATTT
111746788 ATTTTTGAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 2 0.07
11 12 0.43
12 14 0.50
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTATTTTCA
Found at i:111750453 original size:12 final size:12
Alignment explanation
Indices: 111750436--111750465 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
111750426 TCAGTGAGTT
111750436 ACACGAGCAGGG
1 ACACGAGCAGGG
*
111750448 ACACGAGCTGGG
1 ACACGAGCAGGG
111750460 ACACGA
1 ACACGA
111750466 CCGTGTGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.27, G:0.37, T:0.03
Consensus pattern (12 bp):
ACACGAGCAGGG
Found at i:111753009 original size:94 final size:94
Alignment explanation
Indices: 111752907--111753119 Score: 279
Period size: 94 Copynumber: 2.3 Consensus size: 94
111752897 AAGCTAACGC
* * ** *
111752907 CATGTCCCAGATAGGTCTTACACTAGCTTGTATATCAT-GGGGCCGATACATGTCCCAGACATGT
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATC-TCGAGGCCGATACATGTCCCAGACATGT
*
111752971 CTTACACTAGCTATCGT-CTCAAT-GCCGATG
65 CTTACACTAGCTATCATGCT--ATGGCCGATG
* *
111753001 CATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCTCGAGGCCGATACATGTCCCAGACATGTC
* * *
111753066 TTACACTGGCTCTCATGCTATGGCTGATG
66 TTACACTAGCTATCATGCTATGGCCGATG
111753095 CATGTCCCAGACATGTCTTACACTA
1 CATGTCCCAGACATGTCTTACACTA
111753120 CCACACATAT
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
93 3 0.03
94 99 0.95
95 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGCTTAAATATCTCGAGGCCGATACATGTCCCAGACATGTC
TTACACTAGCTATCATGCTATGGCCGATG
Found at i:111753013 original size:46 final size:45
Alignment explanation
Indices: 111752907--111753119 Score: 207
Period size: 48 Copynumber: 4.6 Consensus size: 45
111752897 AAGCTAACGC
* * * * *
111752907 CATGTCCCAGATAGGTCTTACACTAGCT-TGTATATCATGGGGCCGATA
1 CATGTCCCAGACATGTCTTACACTAGCTAT-CATCTCAT---GCCGATG
*
111752955 CATGTCCCAGACATGTCTTACACTAGCTATCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTATCATCTC-ATGCCGATG
* *
111753001 CATGTCCCAGACATGTCTTACACTGGCTTAAAT-ATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-T--ATCATCTC-ATGCCGATG
* * *
111753049 CATGTCCCAGACATGTCTTACACTGGCTCTCATGCT-ATGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTATCAT-CTCAT-GCCGATG
111753095 CATGTCCCAGACATGTCTTACACTA
1 CATGTCCCAGACATGTCTTACACTA
111753120 CCACACATAT
Statistics
Matches: 143, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
45 2 0.01
46 64 0.45
47 4 0.03
48 68 0.48
49 5 0.03
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTATCATCTCATGCCGATG
Found at i:111756498 original size:2 final size:2
Alignment explanation
Indices: 111756493--111756519 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
111756483 GCATATATGC
111756493 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
111756520 GTTAACATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:111758199 original size:45 final size:45
Alignment explanation
Indices: 111758149--111758312 Score: 238
Period size: 45 Copynumber: 3.6 Consensus size: 45
111758139 GTCCCAAAAA
* * * * * *
111758149 TGGTCTTACACGTAACCACATAGATCGATGCCAATGTTCCAGAGG
1 TGGTCTTACACGAAAACACATATATCGATGCCAACGTCCCAGACG
111758194 TGGTCTTACACGAAAACACATATATCGATGCCAACGTCCCAGACG
1 TGGTCTTACACGAAAACACATATATCGATGCCAACGTCCCAGACG
* *
111758239 TGGTCTTACACAAAAACACATATATCGATGCCAACGTCCCTGACG
1 TGGTCTTACACGAAAACACATATATCGATGCCAACGTCCCAGACG
* *
111758284 TAGTCTTACACGAAAACACATATCTCGAT
1 TGGTCTTACACGAAAACACATATATCGAT
111758313 CTTATGGTTC
Statistics
Matches: 108, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 108 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (45 bp):
TGGTCTTACACGAAAACACATATATCGATGCCAACGTCCCAGACG
Found at i:111763621 original size:21 final size:22
Alignment explanation
Indices: 111763561--111763622 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 22
111763551 GTTCAAGTTT
*
111763561 CACACGGGCGTGTTGCCC-ATC
1 CACACGGGAGTGTTGCCCTATC
*
111763582 CATACGGGAGTGTTG-CCTATC
1 CACACGGGAGTGTTGCCCTATC
*
111763603 CACACGGGTGTG-TGCCCTAT
1 CACACGGGAGTGTTGCCCTAT
111763623 TTCAAAGGTC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 4 0.11
21 31 0.89
ACGTcount: A:0.16, C:0.31, G:0.29, T:0.24
Consensus pattern (22 bp):
CACACGGGAGTGTTGCCCTATC
Found at i:111771065 original size:112 final size:112
Alignment explanation
Indices: 111770866--111771087 Score: 374
Period size: 112 Copynumber: 2.0 Consensus size: 112
111770856 ATGCCTAGGC
*
111770866 CGTGTGTGACACATGGCCAGCCCCATAGGCATGTTGTCCGGCCGTGTGTCCCCTGCACATAAATT
1 CGTGTGTGACACATGGCCAGCCCCATAGGCATGTTGTCCGGCCGTGTGTCCCATGCACATAAATT
*
111770931 TTACAAGTCAATATGAATGGTAGTAAACACACGGGTAGAGACACGGT
66 TTACAAGTCAATATGAAAGGTAGTAAACACACGGGTAGAGACACGGT
* * *
111770978 CGTGTGTGACACATGGCCAGCCCTATGGGCATGTTGTCCGGCTGTGTGTCCCATGCACATAAATT
1 CGTGTGTGACACATGGCCAGCCCCATAGGCATGTTGTCCGGCCGTGTGTCCCATGCACATAAATT
*
111771043 TTACAAGTCAGTAT-ACAAGGTAGTAAACACACGGGTAGAGACACG
66 TTACAAGTCAATATGA-AAGGTAGTAAACACACGGGTAGAGACACG
111771088 ACCATGTGTC
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
111 1 0.01
112 102 0.99
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (112 bp):
CGTGTGTGACACATGGCCAGCCCCATAGGCATGTTGTCCGGCCGTGTGTCCCATGCACATAAATT
TTACAAGTCAATATGAAAGGTAGTAAACACACGGGTAGAGACACGGT
Found at i:111772158 original size:2 final size:2
Alignment explanation
Indices: 111772151--111772176 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
111772141 ATTTAATTTC
111772151 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
111772177 TCTAAGTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111774306 original size:23 final size:22
Alignment explanation
Indices: 111774270--111774312 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
111774260 TAATATAGAA
* *
111774270 TTTGAAATTTTTTATTATATTCT
1 TTTGAAAATATTTA-TATATTCT
111774293 TTTGAAAATATTTATATATT
1 TTTGAAAATATTTATATATT
111774313 TTTATATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (22 bp):
TTTGAAAATATTTATATATTCT
Found at i:111774318 original size:10 final size:10
Alignment explanation
Indices: 111774303--111774335 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
111774293 TTTGAAAATA
111774303 TTTATATATT
1 TTTATATATT
111774313 TTTATATATT
1 TTTATATATT
*
111774323 TTT-TATTTT
1 TTTATATATT
111774332 TTTA
1 TTTA
111774336 GGATTAGGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTATATATT
Found at i:111774759 original size:32 final size:32
Alignment explanation
Indices: 111774715--111774779 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 32
111774705 GACACCTATG
*
111774715 TTTCCTATTTTGTTTCAAT-TCCTTACCATATA
1 TTTCCTAATTTGTTTCAATAT-CTTACCATATA
111774747 TTTCCTAATTTGTTTCAATATCTTACCATATA
1 TTTCCTAATTTGTTTCAATATCTTACCATATA
111774779 T
1 T
111774780 GTATATTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 30 0.97
33 1 0.03
ACGTcount: A:0.25, C:0.20, G:0.03, T:0.52
Consensus pattern (32 bp):
TTTCCTAATTTGTTTCAATATCTTACCATATA
Found at i:111775269 original size:12 final size:13
Alignment explanation
Indices: 111775247--111775276 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
111775237 TATAAGAGCG
111775247 ATTTTTGTTAATT
1 ATTTTTGTTAATT
111775260 ATTTTT-TTAATT
1 ATTTTTGTTAATT
111775272 ATTTT
1 ATTTT
111775277 ACATTGGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (13 bp):
ATTTTTGTTAATT
Found at i:111776772 original size:34 final size:35
Alignment explanation
Indices: 111776712--111776781 Score: 90
Period size: 34 Copynumber: 2.0 Consensus size: 35
111776702 AAGGAAGGAA
* *
111776712 TTGATATATCTGTTTGCAGTTTTTGTATTTCATGT
1 TTGATATATCTGTTTGCAGTTGTTGTATTGCATGT
*
111776747 TTGAT-TATCTGTTTGTA-TTAGTTGTATTGCATGT
1 TTGATATATCTGTTTGCAGTT-GTTGTATTGCATGT
111776781 T
1 T
111776782 AGAAGGGACT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 2 0.06
34 24 0.77
35 5 0.16
ACGTcount: A:0.17, C:0.07, G:0.19, T:0.57
Consensus pattern (35 bp):
TTGATATATCTGTTTGCAGTTGTTGTATTGCATGT
Found at i:111783633 original size:23 final size:22
Alignment explanation
Indices: 111783602--111783650 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
111783592 TTAATATAAA
111783602 TTTTGAAAT-TCTTAT-TATATTT
1 TTTTGAAATAT-TTATGTAT-TTT
111783624 TTTTGAAAATATTTATGTATTTT
1 TTTTG-AAATATTTATGTATTTT
111783647 TTTT
1 TTTT
111783651 ATTTTTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 5 0.21
23 15 0.62
24 4 0.17
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (22 bp):
TTTTGAAATATTTATGTATTTT
Found at i:111784065 original size:32 final size:32
Alignment explanation
Indices: 111784022--111784084 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
111784012 GACACCTATG
* *
111784022 TTTCCTGTTTTGTTTCAATTCCTTACCATATC
1 TTTCCTATTTTGTTTCAATACCTTACCATATC
111784054 TTTCCTATTTTGTTTCAATACCTTACCATAT
1 TTTCCTATTTTGTTTCAATACCTTACCATAT
111784085 ATGTATATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.19, C:0.24, G:0.05, T:0.52
Consensus pattern (32 bp):
TTTCCTATTTTGTTTCAATACCTTACCATATC
Found at i:111784158 original size:15 final size:16
Alignment explanation
Indices: 111784130--111784163 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
111784120 TTTTATATAT
111784130 TTTTTAGAATTATTAA
1 TTTTTAGAATTATTAA
*
111784146 TTTTTAGCA-TATTAA
1 TTTTTAGAATTATTAA
111784161 TTT
1 TTT
111784164 ATTTAGCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (16 bp):
TTTTTAGAATTATTAA
Found at i:111787228 original size:24 final size:23
Alignment explanation
Indices: 111787180--111787231 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
111787170 CTTTTTTTGT
*
111787180 TATTATTATATTTCTTAATATTA
1 TATTATTATATTTCTTAATAATA
*
111787203 TATTATATATATATTCTT-TTAATA
1 TATTAT-TATAT-TTCTTAATAATA
111787227 TATTA
1 TATTA
111787232 GGTATATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTATTATATTTCTTAATAATA
Found at i:111787285 original size:25 final size:25
Alignment explanation
Indices: 111787257--111787325 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
111787247 CTATATTACG
*
111787257 TATATATATTATACTATTTTATGTA
1 TATATATATTATACTATATTATGTA
* *
111787282 TATATCT-TTAATACTATATTATTTA
1 TATATATATT-ATACTATATTATGTA
111787307 TATATATATATATA-TATAT
1 TATATATAT-TATACTATAT
111787326 ACATGTTATC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
24 2 0.05
25 30 0.81
26 4 0.11
27 1 0.03
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (25 bp):
TATATATATTATACTATATTATGTA
Found at i:111787356 original size:22 final size:22
Alignment explanation
Indices: 111787331--111787397 Score: 71
Period size: 25 Copynumber: 2.9 Consensus size: 22
111787321 TATATACATG
*
111787331 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
111787353 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTA-A
* *
111787378 CTATATTATGTACATATTTT
1 TTATATTATGTATATATTTT
111787398 TAATATTATC
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
22 11 0.30
23 6 0.16
24 8 0.22
25 12 0.32
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:111787405 original size:20 final size:20
Alignment explanation
Indices: 111787380--111787437 Score: 57
Period size: 22 Copynumber: 2.9 Consensus size: 20
111787370 TTTTTACACT
111787380 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
* *
111787400 ATATTAT-CACTATTTATTTTTT
1 ATATTATGTAC-A--TATTTTTA
111787422 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
111787438 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
19 7 0.23
20 8 0.26
21 4 0.13
22 12 0.39
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:111787436 original size:23 final size:23
Alignment explanation
Indices: 111787394--111787439 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
111787384 TATGTACATA
111787394 TTTTTAATATTATCACTATTTAT
1 TTTTTAATATTATCACTATTTAT
111787417 TTTTTATATATGTA-CA-TATTTAT
1 TTTTTA-ATAT-TATCACTATTTAT
111787440 GTAGTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 13 0.62
24 6 0.29
25 2 0.10
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (23 bp):
TTTTTAATATTATCACTATTTAT
Found at i:111787584 original size:16 final size:15
Alignment explanation
Indices: 111787560--111787594 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
111787550 TAATTATTAT
111787560 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
111787576 TATTTTAATATTTTA
1 TATTCTAATATTTTA
111787591 TATT
1 TATT
111787595 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:111790800 original size:174 final size:174
Alignment explanation
Indices: 111790493--111790983 Score: 668
Period size: 174 Copynumber: 2.8 Consensus size: 174
111790483 TAGATATTAC
* * * * *
111790493 AAGACAGCTAAACCAAAGTAATAAATCAAGAAAGAAACTGAATTTGAACAAATTTTGTTGCTCAT
1 AAGACAACTAAAACAACGTAATAAATCAACAAAGAAACTGAATTTGAACAAATTTTGTTGCTCAG
*
111790558 GTAACCGCTCAGATCGACATGGTTGTCAATGTTTCATTAAATTTTCATAAATTCTAATATAATCA
66 GTAACCGCTCAGATCGACATAGTTGTCAATGTTTCA-TAAATTTTCATAAATTCTAATATAATCA
111790623 TCACAGCAACAAAA-TCACAGATTCACATACAATAAAATGT-ATCAT
130 TCACAGCAACAAAACT-ACAGATTCACATACAATAAAAT-TAATCAT
* * *
111790668 AAGACAACT-AAAGAGCGTAATAAATCAACAAGGAAACTGAATTTGAACAAATTTTGTTGCTCAG
1 AAGACAACTAAAACAACGTAATAAATCAACAAAGAAACTGAATTTGAACAAATTTTGTTGCTCAG
*
111790732 GTAACCGCTCAGATCGACATAGTTGTCGATGTTTCATAAATTTTTCATAAATTCTAATATAATCA
66 GTAACCGCTCAGATCGACATAGTTGTCAATGTTTCATAAA-TTTTCATAAATTCTAATATAATCA
* * * **
111790797 TCACAGCAACAAAACTGCATATTCACATACAATAAGATTAATTGT
130 TCACAGCAACAAAACTACAGATTCACATACAATAAAATTAATCAT
* * * * * *
111790842 AAGACGATTAAAACAATGTGATAAATCTACAAAGAGA-TAGAATTTGAACAAA-TTTGTTGCTCA
1 AAGACAACTAAAACAACGTAATAAATCAACAAAGAAACT-GAATTTGAACAAATTTTGTTGCTCA
* * * *
111790905 GGTAACCGCTCAGATCGACATAGTTGCCAATGATTCACAAAATTTTCATAAATTTTAATATAATC
65 GGTAACCGCTCAGATCGACATAGTTGTCAATGTTTCA-TAAATTTTCATAAATTCTAATATAATC
111790970 ATCACAGCAACAAA
129 ATCACAGCAACAAA
111790984 TATGCAAATT
Statistics
Matches: 281, Mismatches: 29, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
173 5 0.02
174 231 0.82
175 45 0.16
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.29
Consensus pattern (174 bp):
AAGACAACTAAAACAACGTAATAAATCAACAAAGAAACTGAATTTGAACAAATTTTGTTGCTCAG
GTAACCGCTCAGATCGACATAGTTGTCAATGTTTCATAAATTTTCATAAATTCTAATATAATCAT
CACAGCAACAAAACTACAGATTCACATACAATAAAATTAATCAT
Found at i:111796748 original size:3 final size:3
Alignment explanation
Indices: 111796740--111796764 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
111796730 ATATGATATC
111796740 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
111796765 GAATTAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:111798074 original size:17 final size:17
Alignment explanation
Indices: 111798052--111798084 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
111798042 AATTTCCCAA
*
111798052 TTATAAGTTGTTTTAAT
1 TTATAAGTTGCTTTAAT
111798069 TTATAAGTTGCTTTAA
1 TTATAAGTTGCTTTAA
111798085 ATTTTCTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.03, G:0.12, T:0.55
Consensus pattern (17 bp):
TTATAAGTTGCTTTAAT
Found at i:111803420 original size:20 final size:21
Alignment explanation
Indices: 111803395--111803442 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
111803385 ATTCTATATA
111803395 AAAATTATT-TTAAA-AAATTC
1 AAAATT-TTCTTAAAGAAATTC
*
111803415 AAAATTTTCTTAAATGAAATTG
1 AAAATTTTCTTAAA-GAAATTC
111803437 AAAATT
1 AAAATT
111803443 CTAAAAGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 2 0.08
20 11 0.46
22 11 0.46
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (21 bp):
AAAATTTTCTTAAAGAAATTC
Found at i:111803456 original size:22 final size:22
Alignment explanation
Indices: 111803426--111803475 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
111803416 AAATTTTCTT
* *
111803426 AAATGAAATTGAAAATTCTAAAA
1 AAAT-AAATAGAAAATTATAAAA
*
111803449 GAATAAATAGAAAATTATAAAA
1 AAATAAATAGAAAATTATAAAA
111803471 AAATA
1 AAATA
111803476 TATAAATACA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.66, C:0.02, G:0.08, T:0.24
Consensus pattern (22 bp):
AAATAAATAGAAAATTATAAAA
Found at i:111803826 original size:29 final size:28
Alignment explanation
Indices: 111803793--111803861 Score: 77
Period size: 30 Copynumber: 2.4 Consensus size: 28
111803783 AATTAAACCA
*
111803793 AAATTTTAAAATCTAAAAA-ATAAAAAATTT
1 AAATTTTAAAAAC-AAAAATAT-AAAAA-TT
*
111803823 AATTTTTTAAAAACAAAAATATAAAAATT
1 AA-ATTTTAAAAACAAAAATATAAAAATT
111803852 AAATTTTAAA
1 AAATTTTAAA
111803862 TTTATAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
28 7 0.21
29 4 0.12
30 12 0.35
31 11 0.32
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (28 bp):
AAATTTTAAAAACAAAAATATAAAAATT
Found at i:111823154 original size:55 final size:55
Alignment explanation
Indices: 111823062--111823179 Score: 209
Period size: 55 Copynumber: 2.1 Consensus size: 55
111823052 TTTGTAAGCC
*
111823062 AGGCTCACTAGCGTATAGCTAGTCGTGTGACCCAAGTCAGTGTCGACCACGGCCA
1 AGGCACACTAGCGTATAGCTAGTCGTGTGACCCAAGTCAGTGTCGACCACGGCCA
*
111823117 AGGCACACTAGCGTATAGCTAGTCGTGTGACCTAAGTCAGTGTCGACCACGGCCA
1 AGGCACACTAGCGTATAGCTAGTCGTGTGACCCAAGTCAGTGTCGACCACGGCCA
*
111823172 AGACACAC
1 AGGCACAC
111823180 GGCATGTCTT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 60 1.00
ACGTcount: A:0.26, C:0.29, G:0.26, T:0.19
Consensus pattern (55 bp):
AGGCACACTAGCGTATAGCTAGTCGTGTGACCCAAGTCAGTGTCGACCACGGCCA
Found at i:111826113 original size:46 final size:44
Alignment explanation
Indices: 111826009--111826116 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
111825999 TGTCTTTGAC
** * * *
111826009 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
111826053 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
111826099 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
111826117 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:111832054 original size:46 final size:44
Alignment explanation
Indices: 111831950--111832057 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
111831940 TGTCTTTGAC
** * * *
111831950 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
111831994 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
111832040 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
111832058 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:111835048 original size:21 final size:23
Alignment explanation
Indices: 111835015--111835056 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
111835005 ATAGGAGAGT
111835015 AAAAAGAGAGAG-AAACGGGCCA
1 AAAAAGAGAGAGAAAACGGGCCA
*
111835037 AAAAAGCG-GAGAAAACGGGC
1 AAAAAGAGAGAGAAAACGGGC
111835057 TAACATGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.52, C:0.14, G:0.33, T:0.00
Consensus pattern (23 bp):
AAAAAGAGAGAGAAAACGGGCCA
Found at i:111835370 original size:23 final size:23
Alignment explanation
Indices: 111835340--111835387 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
111835330 ACATACAGAG
*
111835340 AGTAGGAGGCAATGAATTACTCA
1 AGTAGGAGGCAAGGAATTACTCA
111835363 AGTAGGAGGCAAGGAATTACTCA
1 AGTAGGAGGCAAGGAATTACTCA
111835386 AG
1 AG
111835388 GAAAGCCGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.12, G:0.29, T:0.19
Consensus pattern (23 bp):
AGTAGGAGGCAAGGAATTACTCA
Found at i:111843431 original size:20 final size:20
Alignment explanation
Indices: 111843408--111843448 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
111843398 AAAGAAAAAC
*
111843408 ATTATAATAGATTTAAATTT
1 ATTATAATAAATTTAAATTT
111843428 ATTATAATAAATTTAAATTT
1 ATTATAATAAATTTAAATTT
111843448 A
1 A
111843449 ATAAAGAATT
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:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
ATTATAATAAATTTAAATTT
Found at i:111849086 original size:272 final size:273
Alignment explanation
Indices: 111848429--111849248 Score: 1489
Period size: 273 Copynumber: 3.0 Consensus size: 273
111848419 GCATTTAGGC
* * *
111848429 AGCGAAAGGATTGCTCCAATTAGGCATGTGTTGGAGGGTGGGAATGAGAACTAGAATATCGATAT
1 AGCGAAAGGATTGCTCCAATTAGGCATGTGTTGGAGGATGGGAATGGGAACTAGAATATTGATAT
* *
111848494 GAAATGATGCCTGGGTGCCAAACTTGGAGAACTATGAGCTTCAAAGAAATGTAACGGGTCAAAAT
66 GAAATGACGCCTGGGTGCCAAACTTGGAGAACTATGAGCTTCAAAGAAATGTAATGGGTCAAAAT
111848559 CTAAGATTGGTTTCTGAACTTATATATCAAAATTCGAGGAAGTGGAACGAGGATGTAATTACTAG
131 CTAAGATTGGTTTCTGAACTTATATATCAAAATTCGAGGAAGTGGAACGAGGATGTAATTACTAG
*
111848624 TTTATGTCTATTGAAGAGGCAACAAAAGTCATGAGTAGTCTTCTCTCTTGTCATTTATATGAAGA
196 TTTATGTCTATTGAAGAGGCAACAAAAGTCATGAGTATTCTTCTCTCTTGTCATTTATATGAAGA
111848689 TCGACAGGCTTGG
261 TCGACAGGCTTGG
111848702 AGCGAAAGGATTGCTCCAATTAGGCATGTGTTGGAGGATGGGAATGGGAACTAGAATATTGATAT
1 AGCGAAAGGATTGCTCCAATTAGGCATGTGTTGGAGGATGGGAATGGGAACTAGAATATTGATAT
111848767 GAAATGACGCCTGGGTGCCAAACTTGGAGAACTATGAGCTTCAAAGAAATGTAATGGGTCAAAAT
66 GAAATGACGCCTGGGTGCCAAACTTGGAGAACTATGAGCTTCAAAGAAATGTAATGGGTCAAAAT
*
111848832 CTAAGATTGGTTTCTGAACTTATATATCAAAATTCAAGGAAGTGGAACGAGGATGTAATTACTAG
131 CTAAGATTGGTTTCTGAACTTATATATCAAAATTCGAGGAAGTGGAACGAGGATGTAATTACTAG
*
111848897 TTTATGTCTATTAAAGAGGCAACAAAAGT-ATGAGTATTCTTCTCTCTTGTCATTTATATGAAGA
196 TTTATGTCTATTGAAGAGGCAACAAAAGTCATGAGTATTCTTCTCTCTTGTCATTTATATGAAGA
111848961 TCGACAGGCTTGG
261 TCGACAGGCTTGG
* *
111848974 AGCGAAAGGATTGCTCCAATTAGGCATGTGTTGGAAGATAGGAATGGGAACTAGAATATTGATAT
1 AGCGAAAGGATTGCTCCAATTAGGCATGTGTTGGAGGATGGGAATGGGAACTAGAATATTGATAT
* * *
111849039 GGAATGAGGCCTGGGTGCCAAACTTGGAGAACTATGAGCTTCAAAGAAATGCAATGGGTCAAAAT
66 GAAATGACGCCTGGGTGCCAAACTTGGAGAACTATGAGCTTCAAAGAAATGTAATGGGTCAAAAT
*
111849104 CTAAGATTGGTTTCTGAACTTATAAATCAAAATTCGAGGAAGTGGAACGAGGATGTAATTACTAG
131 CTAAGATTGGTTTCTGAACTTATATATCAAAATTCGAGGAAGTGGAACGAGGATGTAATTACTAG
* *
111849169 TTTATGTCTACTGAAGAGGCAACAAAAGTCATGAGTATTCCTCTCTCTTGTCATTTATATGAAGA
196 TTTATGTCTATTGAAGAGGCAACAAAAGTCATGAGTATTCTTCTCTCTTGTCATTTATATGAAGA
111849234 TCGACAGGCTTGG
261 TCGACAGGCTTGG
111849247 AG
1 AG
111849249 AGGTAAGGCG
Statistics
Matches: 528, Mismatches: 18, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
272 262 0.50
273 266 0.50
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (273 bp):
AGCGAAAGGATTGCTCCAATTAGGCATGTGTTGGAGGATGGGAATGGGAACTAGAATATTGATAT
GAAATGACGCCTGGGTGCCAAACTTGGAGAACTATGAGCTTCAAAGAAATGTAATGGGTCAAAAT
CTAAGATTGGTTTCTGAACTTATATATCAAAATTCGAGGAAGTGGAACGAGGATGTAATTACTAG
TTTATGTCTATTGAAGAGGCAACAAAAGTCATGAGTATTCTTCTCTCTTGTCATTTATATGAAGA
TCGACAGGCTTGG
Done.