Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 63 of 295
Found at i:18203984 original size:18 final size:18
Alignment explanation
Indices: 18203955--18204007 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
18203945 TGGTGTCAGC
*
18203955 TCATTTTCATCTCTACCG
1 TCATCTTCATCTCTACCG
* *
18203973 TCATCTTTATCT-TCACCT
1 TCATCTTCATCTCT-ACCG
18203991 TCATCTTCATCTCTACC
1 TCATCTTCATCTCTACC
18204008 CTCAGTTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.03
18 27 0.93
19 1 0.03
ACGTcount: A:0.17, C:0.36, G:0.02, T:0.45
Consensus pattern (18 bp):
TCATCTTCATCTCTACCG
Found at i:18205393 original size:30 final size:31
Alignment explanation
Indices: 18205334--18205397 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
18205324 ACTTAACAAG
18205334 CAAATGCTTCTAAAATAATAAAAAAAATTAA
1 CAAATGCTTCTAAAATAATAAAAAAAATTAA
* *
18205365 CAAATGCCTT-TAAAATGAT-AAGAAAATTAA
1 CAAATG-CTTCTAAAATAATAAAAAAAATTAA
18205395 CAA
1 CAA
18205398 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 13 0.43
31 14 0.47
32 3 0.10
ACGTcount: A:0.58, C:0.11, G:0.06, T:0.25
Consensus pattern (31 bp):
CAAATGCTTCTAAAATAATAAAAAAAATTAA
Found at i:18209958 original size:21 final size:21
Alignment explanation
Indices: 18209911--18209973 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
18209901 CCTTACTCCA
18209911 TGTTGTGGATAAACCACTCAT
1 TGTTGTGGATAAACCACTCAT
** ** *
18209932 CATTGTGGATAAACTGCTTAT
1 TGTTGTGGATAAACCACTCAT
* *
18209953 TGTTGTAGATGAACCACTCAT
1 TGTTGTGGATAAACCACTCAT
18209974 CGATGTAGAT
Statistics
Matches: 30, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (21 bp):
TGTTGTGGATAAACCACTCAT
Found at i:18210041 original size:42 final size:40
Alignment explanation
Indices: 18209977--18210110 Score: 128
Period size: 42 Copynumber: 3.2 Consensus size: 40
18209967 CACTCATCGA
* *
18209977 TGTAGAT-AAATTCCATTGGGTTGTAGATGCACAACATATT
1 TGTAGATAAAATTCCACTAGGTTGT-GATGCACAACATATT
* *
18210017 TGTAGATAAAATTACCACTAGGTTGTGGGTGAACAACATATT
1 TGTAGATAAAATT-CCACTAGGTTGT-GATGCACAACATATT
* * * *
18210059 TGTAGATAAAACTGT-CAGTAAGTTGTGCATGCATAATATATT
1 TGTAGATAAAA-T-TCCACTAGGTTGTG-ATGCACAACATATT
18210101 TGTAGATAAA
1 TGTAGATAAA
18210111 TTGTCACTGG
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
40 7 0.09
41 6 0.08
42 63 0.81
43 1 0.01
44 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (40 bp):
TGTAGATAAAATTCCACTAGGTTGTGATGCACAACATATT
Found at i:18216021 original size:21 final size:21
Alignment explanation
Indices: 18215997--18216043 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
18215987 ACAGTAGGGG
*
18215997 TAAACCACTCATC-GATGTAGA
1 TAAACCACTCATCTG-TGCAGA
18216018 TAAACCACTCATCTGTGCAGA
1 TAAACCACTCATCTGTGCAGA
18216039 TAAAC
1 TAAAC
18216044 TGCTCTTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (21 bp):
TAAACCACTCATCTGTGCAGA
Found at i:18217031 original size:18 final size:18
Alignment explanation
Indices: 18216989--18217022 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18216979 AGAATGAGAG
18216989 AAAAGA-AAAGAAAAGAT
1 AAAAGAGAAAGAAAAGAT
18217006 AAAAGAGAAAGAAAAGA
1 AAAAGAGAAAGAAAAGA
18217023 AATAGGAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (18 bp):
AAAAGAGAAAGAAAAGAT
Found at i:18223628 original size:10 final size:10
Alignment explanation
Indices: 18223613--18223644 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
18223603 TAAATACATT
18223613 TAATTAAAGA
1 TAATTAAAGA
18223623 TAATTAAAGA
1 TAATTAAAGA
18223633 TAATTAAA-A
1 TAATTAAAGA
18223642 TAA
1 TAA
18223645 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:18223656 original size:19 final size:18
Alignment explanation
Indices: 18223632--18223675 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
18223622 ATAATTAAAG
18223632 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
18223652 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
18223669 ATAATTA
1 ATAATTA
18223676 TCTTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:18231779 original size:10 final size:10
Alignment explanation
Indices: 18231764--18231795 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
18231754 TAAATACATT
18231764 TAATTAAAGA
1 TAATTAAAGA
18231774 TAATTAAAGA
1 TAATTAAAGA
18231784 TAATTAAA-A
1 TAATTAAAGA
18231793 TAA
1 TAA
18231796 AATCTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:18242151 original size:59 final size:59
Alignment explanation
Indices: 18242076--18242208 Score: 230
Period size: 59 Copynumber: 2.2 Consensus size: 59
18242066 AAATTTTTAG
*
18242076 GCGAGATTTCCTCATCATTATCCCTTAAAATTATTTCCCCTTTTTTAGACGATATCTGTA
1 GCGA-ATTCCCTCATCATTATCCCTTAAAATTATTTCCCCTTTTTTAGACGATATCTGTA
*
18242136 GCGAATTCCCTCATCATTATCCCTTAAAATTATTTCCCTTTTTTTAGACGATATCTGTA
1 GCGAATTCCCTCATCATTATCCCTTAAAATTATTTCCCCTTTTTTAGACGATATCTGTA
18242195 GCGAATTCCTCTCA
1 GCGAATTCC-CTCA
18242209 ACTATATCTC
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
59 62 0.89
60 8 0.11
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.41
Consensus pattern (59 bp):
GCGAATTCCCTCATCATTATCCCTTAAAATTATTTCCCCTTTTTTAGACGATATCTGTA
Found at i:18244442 original size:22 final size:22
Alignment explanation
Indices: 18244417--18244460 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
18244407 CATCTCCTTC
18244417 CATAGGTACTATTACTTTCCCT
1 CATAGGTACTATTACTTTCCCT
18244439 CATAGGTACTATTACTTTCCCT
1 CATAGGTACTATTACTTTCCCT
18244461 TCAATCTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.27, G:0.09, T:0.41
Consensus pattern (22 bp):
CATAGGTACTATTACTTTCCCT
Found at i:18244470 original size:6 final size:6
Alignment explanation
Indices: 18244461--18244489 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
18244451 TACTTTCCCT
18244461 TCAATC TCAATC TCAATC TCAATC TCAAT
1 TCAATC TCAATC TCAATC TCAATC TCAAT
18244490 AAAATAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (6 bp):
TCAATC
Found at i:18248250 original size:15 final size:15
Alignment explanation
Indices: 18248220--18248254 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
18248210 TTTTATCATC
18248220 TCTTCGTTTTCTTTT
1 TCTTCGTTTTCTTTT
18248235 TCTTCTGTTTTCTTTT
1 TCTTC-GTTTTCTTTT
18248251 TCTT
1 TCTT
18248255 TATTTCATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.00, C:0.20, G:0.06, T:0.74
Consensus pattern (15 bp):
TCTTCGTTTTCTTTT
Found at i:18248455 original size:59 final size:59
Alignment explanation
Indices: 18248388--18248499 Score: 154
Period size: 59 Copynumber: 1.9 Consensus size: 59
18248378 ATTGTTTATA
* * * *
18248388 AATTTTAAAATATTATTTATTTAAATTAGGTCTTAT-ACTAACTATCATATTTTAAAAAC
1 AATTTTAAAATATTATTCATTTAAAATAAGTCTCATAAC-AACTATCATATTTTAAAAAC
* *
18248447 AATTTTAAAATATTGTTCATTTAAAATAAGTCTCATAACAATTATCATATTTT
1 AATTTTAAAATATTATTCATTTAAAATAAGTCTCATAACAACTATCATATTTT
18248500 TAAATTAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
59 44 0.96
60 2 0.04
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.46
Consensus pattern (59 bp):
AATTTTAAAATATTATTCATTTAAAATAAGTCTCATAACAACTATCATATTTTAAAAAC
Found at i:18258562 original size:23 final size:25
Alignment explanation
Indices: 18258536--18258582 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
18258526 TATCATTCAT
*
18258536 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
18258559 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
18258583 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:18258910 original size:46 final size:46
Alignment explanation
Indices: 18258843--18259012 Score: 252
Period size: 46 Copynumber: 3.7 Consensus size: 46
18258833 TTTGACATGA
* * * * * *
18258843 TGCCATAGTGTCTTTCAACCATGGTTTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* *
18258889 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
18258935 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
18258981 TGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACAC
18259013 GGTATCTTTC
Statistics
Matches: 113, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 3 0.03
46 110 0.97
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:18259017 original size:26 final size:26
Alignment explanation
Indices: 18258987--18259038 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
18258977 AGGTTGCCAT
18258987 GGTATCTTTCAACCATGGTCTTACAC
1 GGTATCTTTCAACCATGGTCTTACAC
18259013 GGTATCTTTCAACCATGGTCTTACAC
1 GGTATCTTTCAACCATGGTCTTACAC
18259039 ACAAGTTGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (26 bp):
GGTATCTTTCAACCATGGTCTTACAC
Found at i:18270501 original size:49 final size:49
Alignment explanation
Indices: 18270445--18270626 Score: 265
Period size: 49 Copynumber: 3.7 Consensus size: 49
18270435 CTGGTACGCA
*
18270445 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* * * *
18270494 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCCGGTACACG
* *
18270545 TAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* *
18270594 TAGTAGCCTGCACTTAGTACTACATACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
18270627 TCACAATAGA
Statistics
Matches: 116, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
49 71 0.61
50 6 0.05
51 39 0.34
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:18270572 original size:100 final size:100
Alignment explanation
Indices: 18270432--18270617 Score: 336
Period size: 100 Copynumber: 1.9 Consensus size: 100
18270422 TAGCCAAAGC
* *
18270432 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCAGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAG
18270497 TAGCCTGCACTTAGTACTACACATGTGATCGAAGT
66 TAGCCTGCACTTAGTACTACACATGTGATCGAAGT
* *
18270532 TATCGGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAG
18270597 TAGCCTGCACTTAGTACTACA
66 TAGCCTGCACTTAGTACTACA
18270618 TACGTGACCT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (100 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAG
TAGCCTGCACTTAGTACTACACATGTGATCGAAGT
Found at i:18273130 original size:16 final size:16
Alignment explanation
Indices: 18273111--18273141 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18273101 TTGTAAAGGA
*
18273111 ATTTTAAACTATTATT
1 ATTTAAAACTATTATT
18273127 ATTTAAAACTATTAT
1 ATTTAAAACTATTAT
18273142 CATACCTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTTAAAACTATTATT
Found at i:18277411 original size:182 final size:182
Alignment explanation
Indices: 18277099--18277467 Score: 684
Period size: 182 Copynumber: 2.0 Consensus size: 182
18277089 AAATGATAAA
*
18277099 ATATAGTACTAAACCATACAATCAACTCAAACAACATGTACTTAGCTTAACCATGCATTTAGCCT
1 ATATAGTACTAAACCATACAATCAACTCAAACAACATGTACTTAGCTTAACCATGCATCTAGCCT
*
18277164 TTTCATGCCTTTCTTATTCCATGCATTTCCATTTACCAAATACTATCCATACAACTAGCCATCAA
66 TTTCATGCCTTTCTTATTCCATGCATTTCCATTCACCAAATACTATCCATACAACTAGCCATCAA
*
18277229 TCAAGCAATTTACCAACTTGTAACTATGACAAAATCAAATTCATTTATTCAT
131 TCAAGCAATTTACCAACTTGTAACTATAACAAAATCAAATTCATTTATTCAT
* *
18277281 ATATGGTACTAAACCATACAATCAACTCAAACAACATGTACTTAGCTTAACCGTGCATCTAGCCT
1 ATATAGTACTAAACCATACAATCAACTCAAACAACATGTACTTAGCTTAACCATGCATCTAGCCT
18277346 TTTCATGCCTTTCTTATTCCATGCATTTCCATTCACCAAATACTATCCATACAACTAGCCATCAA
66 TTTCATGCCTTTCTTATTCCATGCATTTCCATTCACCAAATACTATCCATACAACTAGCCATCAA
*
18277411 TCAAGCAATTTGCCAACTTGTAACTATAACAAAATCAAATTCATTTATTCAT
131 TCAAGCAATTTACCAACTTGTAACTATAACAAAATCAAATTCATTTATTCAT
18277463 ATATA
1 ATATA
18277468 CCATATTAAT
Statistics
Matches: 180, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
182 180 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.33
Consensus pattern (182 bp):
ATATAGTACTAAACCATACAATCAACTCAAACAACATGTACTTAGCTTAACCATGCATCTAGCCT
TTTCATGCCTTTCTTATTCCATGCATTTCCATTCACCAAATACTATCCATACAACTAGCCATCAA
TCAAGCAATTTACCAACTTGTAACTATAACAAAATCAAATTCATTTATTCAT
Found at i:18278065 original size:22 final size:22
Alignment explanation
Indices: 18278026--18278079 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
18278016 AGAGCACCGT
*
18278026 AGTGCTAAACAAATGGAAAT-AA
1 AGTGCTAAACAAA-GGGAATCAA
* *
18278048 AGTGCTAAACAGAGGGAATCGA
1 AGTGCTAAACAAAGGGAATCAA
18278070 AGTGCTAAAC
1 AGTGCTAAAC
18278080 CTATACAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 5 0.18
22 23 0.82
ACGTcount: A:0.46, C:0.13, G:0.24, T:0.17
Consensus pattern (22 bp):
AGTGCTAAACAAAGGGAATCAA
Found at i:18284309 original size:17 final size:18
Alignment explanation
Indices: 18284279--18284318 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
18284269 ACTGTTACAA
18284279 AAAAGAGAAAAAAAAAAG
1 AAAAGAGAAAAAAAAAAG
18284297 AAAAGAG-AAAAAAAAAG
1 AAAAGAGAAAAAAAAAAG
18284314 AAAAG
1 AAAAG
18284319 GCTTATAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (18 bp):
AAAAGAGAAAAAAAAAAG
Found at i:18293392 original size:48 final size:48
Alignment explanation
Indices: 18293340--18293435 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
18293330 TTAATAATCT
*
18293340 ATCTCATCTAATAGTCAATTTAAGGATCTTAATGGGGATAAACATCAA
1 ATCTCATCTAATAGTCAATTTAAGGATCTTAATGGAGATAAACATCAA
*
18293388 ATCTCATCTAATAGTCAATTTAAGGATCTTAATGGATATAAACATCAA
1 ATCTCATCTAATAGTCAATTTAAGGATCTTAATGGAGATAAACATCAA
18293436 GGTATAAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (48 bp):
ATCTCATCTAATAGTCAATTTAAGGATCTTAATGGAGATAAACATCAA
Found at i:18302732 original size:79 final size:79
Alignment explanation
Indices: 18302636--18302824 Score: 279
Period size: 79 Copynumber: 2.4 Consensus size: 79
18302626 TTAACATATG
* * * *
18302636 CAAATATCGTATGTTCTTCATCAATAGAGTAACGTAAAGGGTTATAAATCAGAACCGGTAACAAT
1 CAAATATCGTATATTCTTCATCAATAGAATAACATAAAGGGTTATAAATCAGAACCAGTAACAAT
18302701 CAATCCAACATTTT
66 CAATCCAACATTTT
* * * *
18302715 CAGATATCGTATATTCTTCATCAATAGAATAATATAAAGGGTTATAAATTAGAATCAGTAACAAT
1 CAAATATCGTATATTCTTCATCAATAGAATAACATAAAGGGTTATAAATCAGAACCAGTAACAAT
18302780 CAATCCAACATTTT
66 CAATCCAACATTTT
* * *
18302794 CAAATATCGCATATTCTTTATCAACAGAATA
1 CAAATATCGTATATTCTTCATCAATAGAATA
18302825 GCGCAGAGGC
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 98 1.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.31
Consensus pattern (79 bp):
CAAATATCGTATATTCTTCATCAATAGAATAACATAAAGGGTTATAAATCAGAACCAGTAACAAT
CAATCCAACATTTT
Found at i:18307436 original size:15 final size:15
Alignment explanation
Indices: 18307416--18307446 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
18307406 CCAACCTTCA
18307416 AATTTTACCTCAATT
1 AATTTTACCTCAATT
18307431 AATTTTACCTCAATT
1 AATTTTACCTCAATT
18307446 A
1 A
18307447 TACATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTTACCTCAATT
Found at i:18309706 original size:11 final size:11
Alignment explanation
Indices: 18309690--18309716 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
18309680 TAGAAATTAG
18309690 TTTGTGAAACT
1 TTTGTGAAACT
18309701 TTTGTGAAACT
1 TTTGTGAAACT
18309712 TTTGT
1 TTTGT
18309717 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:18311242 original size:93 final size:93
Alignment explanation
Indices: 18311132--18311308 Score: 268
Period size: 93 Copynumber: 1.9 Consensus size: 93
18311122 TATAAGAACA
* *
18311132 TTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTATATTTAAT-ATTAATTAT
1 TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTATATGTAATAATT-ATTAT
* *
18311195 TTTAAATTGTATAAATTCATATACCCAAAT
64 TTTAAATTATACAAATTCATATACCCAAAT
* *
18311225 TTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATATGTAATAATTATTATTT
1 TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATATGTAATAATTATTATTT
18311290 TAAATTATACAAATTCATA
66 TAAATTATACAAATTCATA
18311309 AACTATAATC
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
93 71 0.93
94 5 0.07
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.49
Consensus pattern (93 bp):
TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATATGTAATAATTATTATTT
TAAATTATACAAATTCATATACCCAAAT
Found at i:18311356 original size:48 final size:52
Alignment explanation
Indices: 18311286--18311384 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 52
18311276 AATAATTATT
18311286 ATTTTAAATTATACAAATTCATA-AACT-A-T-AATCATATTAGTTATAATA
1 ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
* * **
18311334 ATTTTAAATTTTATTAAA-TCATATATTTAATTAAATCATATTAGTTATAAT
1 ATTTTAAATTATA-CAAATTCATATAACTAATTAAATCATATTAGTTATAAT
18311385 CATATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
48 17 0.40
49 5 0.12
50 1 0.02
51 1 0.02
52 18 0.43
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (52 bp):
ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
Found at i:18311366 original size:17 final size:17
Alignment explanation
Indices: 18311341--18311374 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
18311331 ATAATTTTAA
*
18311341 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
18311358 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
18311375 TAGTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:18311391 original size:17 final size:16
Alignment explanation
Indices: 18311346--18311393 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
18311336 TTTAAATTTT
18311346 ATTAAATCATATATTTA
1 ATTAAATCATATA-TTA
18311363 ATTAAATC--ATATTA
1 ATTAAATCATATATTA
*
18311377 GTTATAATCATATATTA
1 ATTA-AATCATATATTA
18311394 TGATTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
17 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAAATCATATATTA
Found at i:18311451 original size:61 final size:60
Alignment explanation
Indices: 18311386--18311573 Score: 179
Period size: 61 Copynumber: 3.1 Consensus size: 60
18311376 AGTTATAATC
18311386 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAA-AATTTTATTAAATT
* * * * * * * * * * *
18311447 ATATATTTTAATTAT-ATTATATTTA-ATAATAATTATGTTATT-TT-ATATTTTA-CAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAA-TAT-TAATTATTAAAATTTTATTA-AATT
*
18311506 ATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAAAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATT-AAAATTTTATTAAATT
18311567 ATATATT
1 ATATATT
18311574 TTAATTCAAA
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 30 0.32
60 13 0.14
61 39 0.41
62 6 0.06
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (60 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAAATTTTATTAAATT
Found at i:18311465 original size:18 final size:17
Alignment explanation
Indices: 18311434--18311468 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18311424 ATTATTAAGA
18311434 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
18311451 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
18311469 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:18311507 original size:120 final size:120
Alignment explanation
Indices: 18311383--18311605 Score: 403
Period size: 120 Copynumber: 1.9 Consensus size: 120
18311373 ATTAGTTATA
*
18311383 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAAAATTTTATTAAATTA
*
18311448 TATATTTTAATT-ATATTATATTTAATAATAATTATGTTATTTTATATTTTACAGT
66 TATATTTTAATTCA-AATATATTTAATAATAATTATGTTATTTTATATTTTACAGT
*
18311503 ATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAAAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAAAATTTTATTAAATTA
18311568 TATATTTTAATTCAAATATATTTAATAATAATTATGTT
66 TATATTTTAATTCAAATATATTTAATAATAATTATGTT
18311606 TAAATATGAT
Statistics
Matches: 99, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
120 98 0.99
121 1 0.01
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (120 bp):
ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAAAATTTTATTAAATTA
TATATTTTAATTCAAATATATTTAATAATAATTATGTTATTTTATATTTTACAGT
Found at i:18311710 original size:144 final size:147
Alignment explanation
Indices: 18311542--18311813 Score: 469
Period size: 144 Copynumber: 1.9 Consensus size: 147
18311532 ATAAGAATAT
* *
18311542 TAATTATTAAAAATTTTATTAAATTATATATTTTAATTCAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
18311607 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAA-AATAATTTA
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
18311669 CCAAAACAAATTTCTGC
131 CCAAAACAAATTTCTGC
*
18311686 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
18311751 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAAT--ATAATCTTATTAAAATTTAAATAACAATAA
18311814 CAATAATCAT
Statistics
Matches: 119, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
144 89 0.75
145 2 0.02
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TAATTATTAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
CCAAAACAAATTTCTGC
Found at i:18311726 original size:18 final size:17
Alignment explanation
Indices: 18311698--18311732 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18311688 ATTATTAAGA
*
18311698 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
18311715 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
18311733 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:18311943 original size:44 final size:45
Alignment explanation
Indices: 18311894--18311988 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
18311884 TTACACCTCT
* *
18311894 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
18311938 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
18311983 ATTACA
1 ATTACA
18311989 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:18311988 original size:16 final size:16
Alignment explanation
Indices: 18311967--18311999 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
18311957 TTGATTTGCT
*
18311967 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
18311983 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
18311999 A
1 A
18312000 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:18312009 original size:21 final size:21
Alignment explanation
Indices: 18311980--18312022 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
18311970 ACACCTCTAT
*
18311980 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
18312001 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
18312022 T
1 T
18312023 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:18313994 original size:11 final size:11
Alignment explanation
Indices: 18313980--18314055 Score: 59
Period size: 11 Copynumber: 6.8 Consensus size: 11
18313970 GATAATCATT
18313980 TTAATATTAAA
1 TTAATATTAAA
*
18313991 TTAATAAAATAATA
1 TTAAT--ATTAA-A
*
18314005 TTAATATAAAA
1 TTAATATTAAA
18314016 TTAA-ATTAAA
1 TTAATATTAAA
18314026 TTTAATATTAAA
1 -TTAATATTAAA
*
18314038 -T-CTATTAAA
1 TTAATATTAAA
*
18314047 ATAATATTA
1 TTAATATTA
18314056 TTTTTGAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
9 7 0.13
10 7 0.13
11 19 0.37
12 9 0.17
13 4 0.08
14 6 0.12
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:18313995 original size:20 final size:20
Alignment explanation
Indices: 18313944--18313995 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
18313934 TTCAACTATA
*
18313944 ATTAAACTTAATTACTTTAAT
1 ATTAAA-TTAATCACTTTAAT
* *
18313965 ATTATGA-TAATCATTTTAAT
1 ATTA-AATTAATCACTTTAAT
18313985 ATTAAATTAAT
1 ATTAAATTAAT
18313996 AAAATAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
19 1 0.04
20 19 0.76
21 4 0.16
22 1 0.04
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (20 bp):
ATTAAATTAATCACTTTAAT
Found at i:18318843 original size:25 final size:25
Alignment explanation
Indices: 18318808--18318858 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
18318798 GATGATGGTG
18318808 TAAGTTCTGTATTGAATATTCAAGA
1 TAAGTTCTGTATTGAATATTCAAGA
*
18318833 TAAGTTTTGTATTGAATATTCAAGA
1 TAAGTTCTGTATTGAATATTCAAGA
18318858 T
1 T
18318859 GAATTATGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.43
Consensus pattern (25 bp):
TAAGTTCTGTATTGAATATTCAAGA
Found at i:18328450 original size:18 final size:18
Alignment explanation
Indices: 18328426--18328500 Score: 123
Period size: 18 Copynumber: 4.2 Consensus size: 18
18328416 CCCAACTACT
*
18328426 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* *
18328444 ATATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
18328462 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
18328480 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
18328498 GTA
1 GTA
18328501 AACGGTCGTA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 52 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:18332578 original size:100 final size:105
Alignment explanation
Indices: 18332457--18332696 Score: 287
Period size: 108 Copynumber: 2.3 Consensus size: 105
18332447 TAAAAAAAAA
*
18332457 CTAAAACCGAAAACCCATCTTTACTCCATGGATATC-A-GTTTC-AT-TTAATT-TATTTTTTTT
1 CTAAAACTGAAAACCCATCTTTACTCCATGGATATCAATGTTTCTATGTTAATTCTATTTTTTTT
***
18332517 AATTTCTCGAGCTTTTATGGTTCAAAAATGGC-AGACAAAG
66 AATTTCTCGAGCTTTTACAATTCAAAAATGGCGA-ACAAAG
* * * * ** *
18332557 CTAAAACTGAAAACCTATCTTTACTCCATGGGTATCAATTTCTTTTCTTTGTTTTTTCTTTTTTT
1 CTAAAACTGAAAACCCATCTTTACTCCATGGATATCAA--T-GTTTCTATGTTAATTCTATTTTT
18332622 TTTAATTTCTCGAGCTTTTACAATTCAAAAATGGCGAACAAAG
63 TTTAATTTCTCGAGCTTTTACAATTCAAAAATGGCGAACAAAG
18332665 CTAAAA-TCGAAAACCCATCTTTACTCCATGGA
1 CTAAAACT-GAAAACCCATCTTTACTCCATGGA
18332697 AAATACAAGC
Statistics
Matches: 117, Mismatches: 13, Indels: 12
0.82 0.09 0.08
Matches are distributed among these distances:
100 33 0.28
101 1 0.01
105 4 0.03
106 1 0.01
107 5 0.04
108 72 0.62
109 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (105 bp):
CTAAAACTGAAAACCCATCTTTACTCCATGGATATCAATGTTTCTATGTTAATTCTATTTTTTTT
AATTTCTCGAGCTTTTACAATTCAAAAATGGCGAACAAAG
Found at i:18332630 original size:16 final size:18
Alignment explanation
Indices: 18332593--18332631 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
18332583 CATGGGTATC
18332593 AATTTCTTTTCTTTGTTT
1 AATTTCTTTTCTTTGTTT
18332611 --TTTCTTTT-TTT-TTT
1 AATTTCTTTTCTTTGTTT
18332625 AATTTCT
1 AATTTCT
18332632 CGAGCTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
14 3 0.16
15 3 0.16
16 13 0.68
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.77
Consensus pattern (18 bp):
AATTTCTTTTCTTTGTTT
Found at i:18333386 original size:20 final size:20
Alignment explanation
Indices: 18333361--18333438 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 20
18333351 AAAAAAAAAG
18333361 GGAAGAGAAAGAGGAGTTGA
1 GGAAGAGAAAGAGGAGTTGA
*
18333381 GGAAGAGAGGAAGGGAGGAAGTTATA
1 GGAAGAGA--AA--GAGG-AGTT-GA
*
18333407 GGGAAGATAAAGAGGAGTTGA
1 -GGAAGAGAAAGAGGAGTTGA
*
18333428 GGAAGGGAAAG
1 GGAAGAGAAAG
18333439 GAAGAATGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
20 17 0.37
21 1 0.02
22 6 0.13
23 4 0.09
24 4 0.09
25 6 0.13
26 1 0.02
27 7 0.15
ACGTcount: A:0.44, C:0.00, G:0.46, T:0.10
Consensus pattern (20 bp):
GGAAGAGAAAGAGGAGTTGA
Found at i:18333936 original size:22 final size:22
Alignment explanation
Indices: 18333894--18333936 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
18333884 AAATTAATAT
* *
18333894 ATATTTATATTATTTTAATTTA
1 ATATTTATATAATTTAAATTTA
18333916 ATATTTA-ATAATTTAATATTT
1 ATATTTATATAATTTAA-ATTT
18333937 TTTTATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATTTATATAATTTAAATTTA
Found at i:18333941 original size:26 final size:27
Alignment explanation
Indices: 18333871--18333941 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 27
18333861 GGCCCGTCAA
18333871 TAATATTTTTTTTAAATTAATATATATT
1 TAATA-TTTTTTTAAATTAATATATATT
* *
18333899 T-ATATTATTTTAATTTAATATTTAATAATT
1 TAATATTTTTTTAAATTAATA--T-AT-ATT
18333929 TAATATTTTTTTA
1 TAATATTTTTTTA
18333942 TTAAAACTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
26 14 0.40
27 3 0.09
28 2 0.06
29 2 0.06
30 4 0.11
31 10 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
TAATATTTTTTTAAATTAATATATATT
Found at i:18335317 original size:40 final size:40
Alignment explanation
Indices: 18335242--18335338 Score: 103
Period size: 40 Copynumber: 2.5 Consensus size: 40
18335232 AACACACAAG
**
18335242 TTTGACACCCAGTGCCTCATTGCATAATTCAAAGTAATTA
1 TTTGACACCCAGTGCCTCATTGCATAAACCAAAGTAATTA
* * *
18335282 TTTGACACCTAGTGTCTCATTGGC-TAAACCGAAGTAA--A
1 TTTGACACCCAGTGCCTCATT-GCATAAACCAAAGTAATTA
*
18335320 -TTGGCACCCAGTGCCTCAT
1 TTTGACACCCAGTGCCTCAT
18335339 CGAATTAATT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
37 16 0.33
38 1 0.02
40 29 0.60
41 2 0.04
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATTGCATAAACCAAAGTAATTA
Found at i:18336134 original size:28 final size:28
Alignment explanation
Indices: 18336102--18336157 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
18336092 TTATTCAACA
*
18336102 TAGACAACACTTGAAAACTCAATAATTT
1 TAGACAACACTTAAAAACTCAATAATTT
18336130 TAGACAACACTTAAAAACTCAATAATTT
1 TAGACAACACTTAAAAACTCAATAATTT
18336158 CTAAAATTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.48, C:0.18, G:0.05, T:0.29
Consensus pattern (28 bp):
TAGACAACACTTAAAAACTCAATAATTT
Found at i:18336390 original size:8 final size:8
Alignment explanation
Indices: 18336369--18336465 Score: 64
Period size: 8 Copynumber: 12.4 Consensus size: 8
18336359 TATATTTTCT
18336369 TATTATAA
1 TATTATAA
18336377 TA-TATAA
1 TATTATAA
18336384 TATTATAA
1 TATTATAA
18336392 TATTAT-A
1 TATTATAA
*
18336399 TCTTAATTATA
1 TATT-A-TA-A
18336410 TATGATATAA
1 TAT--TATAA
18336420 TA-TAT-A
1 TATTATAA
*
18336426 TACT-TAA
1 TATTATAA
*
18336433 TAAT-TAA
1 TATTATAA
*
18336440 GA-TATAA
1 TATTATAA
18336447 TATTATAA
1 TATTATAA
18336455 TATTATAA
1 TATTATAA
18336463 TAT
1 TAT
18336466 ATTTATTTTA
Statistics
Matches: 73, Mismatches: 5, Indels: 22
0.73 0.05 0.22
Matches are distributed among these distances:
6 5 0.07
7 27 0.37
8 30 0.41
9 1 0.01
10 3 0.04
11 5 0.07
12 1 0.01
13 1 0.01
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.47
Consensus pattern (8 bp):
TATTATAA
Found at i:18336425 original size:27 final size:27
Alignment explanation
Indices: 18336387--18336453 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 27
18336377 TATATAATAT
* *
18336387 TATAATAT-TATATCTTAATTATATATGA
1 TATAATATATATA-CTTAATAAT-TAAGA
18336415 TATAATATATATACTTAATAATTAAGA
1 TATAATATATATACTTAATAATTAAGA
18336442 TATAATAT-TATA
1 TATAATATATATA
18336454 ATATTATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
26 4 0.11
27 12 0.33
28 16 0.44
29 4 0.11
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (27 bp):
TATAATATATATACTTAATAATTAAGA
Found at i:18336466 original size:13 final size:13
Alignment explanation
Indices: 18336378--18336457 Score: 55
Period size: 13 Copynumber: 6.3 Consensus size: 13
18336368 TTATTATAAT
18336378 ATATAATATTATA
1 ATATAATATTATA
*
18336391 ATATTATATCT-TA
1 ATATAATAT-TATA
*
18336404 AT-T-ATA-TATG
1 ATATAATATTATA
18336414 ATATAATATATATA
1 ATATAATAT-TATA
*
18336428 CT-TAATAATTA-A
1 ATATAAT-ATTATA
18336440 GATATAATATTATA
1 -ATATAATATTATA
18336454 ATAT
1 ATAT
18336458 TATAATATAT
Statistics
Matches: 52, Mismatches: 5, Indels: 20
0.68 0.06 0.26
Matches are distributed among these distances:
9 1 0.02
10 3 0.06
11 4 0.08
12 5 0.10
13 27 0.52
14 12 0.23
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (13 bp):
ATATAATATTATA
Found at i:18338858 original size:50 final size:49
Alignment explanation
Indices: 18338758--18338923 Score: 188
Period size: 50 Copynumber: 3.3 Consensus size: 49
18338748 ATATGATGAA
* * * * * *
18338758 TAAGAGCAGGCTACTATGCGTACCCGATAACTTCGATCATGTGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCACGTGTGTAGTAC
** **
18338809 TAAGTGCAGGCTACTACGTGTATTAGATGGTTAGGTCACGTGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACGTGTGTAGTAC
* * *
18338859 TAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACGTGTGTAGTAC
18338908 TAAGTGCAGGCTACTA
1 TAAGTGCAGGCTACTA
18338924 TGCGTACTAG
Statistics
Matches: 97, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
49 31 0.32
50 44 0.45
51 22 0.23
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACGTGTGTAGTAC
Found at i:18342156 original size:172 final size:172
Alignment explanation
Indices: 18341864--18342205 Score: 605
Period size: 172 Copynumber: 2.0 Consensus size: 172
18341854 ATAACCCCGT
* * *
18341864 TTTCAAAATCTATTCCATATGACATCACTAGATTTGACCATAACGTTTAGGCCGAGTTTGGAGTG
1 TTTCAAAATCTATTCCATATGACATCACTAAATTTGACCATAACATCTAGGCCGAGTTTGGAGTG
18341929 TTACATTTAGTGGTATCAGAGCCAGGTTGTAAAACTTGACTGTGAATTCTGGGTTTCAAAATATG
66 TTACATTTAGTGGTATCAGAGCCAGGTTGTAAAACTTGACTGTGAATTCTGGGTTTCAAAATATG
18341994 TTTTAAAGAATTGGTTTTCAAATGGTTTAAAAATATTTTGGG
131 TTTTAAAGAATTGGTTTTCAAATGGTTTAAAAATATTTTGGG
* *
18342036 TTTCAAAATCTATTCCATATGACATCGCTAAATTTGACCATAACATCTAGGCTGAGTTTAGG-GT
1 TTTCAAAATCTATTCCATATGACATCACTAAATTTGACCATAACATCTAGGCCGAGTTT-GGAGT
* *
18342100 GTTACATTTAGTGGTATCAGAGCCAGGTTGTAAAACTTGACTGTGCATTTTGGGTTTCAAAATAT
65 GTTACATTTAGTGGTATCAGAGCCAGGTTGTAAAACTTGACTGTGAATTCTGGGTTTCAAAATAT
18342165 GTTTTAAAGAATTGGTTTTCAAATGGTTTAAAAATATTTTG
130 GTTTTAAAGAATTGGTTTTCAAATGGTTTAAAAATATTTTG
18342206 ATTAAGAAGG
Statistics
Matches: 162, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
172 160 0.99
173 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (172 bp):
TTTCAAAATCTATTCCATATGACATCACTAAATTTGACCATAACATCTAGGCCGAGTTTGGAGTG
TTACATTTAGTGGTATCAGAGCCAGGTTGTAAAACTTGACTGTGAATTCTGGGTTTCAAAATATG
TTTTAAAGAATTGGTTTTCAAATGGTTTAAAAATATTTTGGG
Found at i:18344636 original size:2 final size:2
Alignment explanation
Indices: 18344591--18344627 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
18344581 CAAAAGAAAA
*
18344591 AG AG AG AG AG AG AG AG AG GG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
18344628 AACAGAGAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18345817 original size:38 final size:39
Alignment explanation
Indices: 18345715--18345823 Score: 98
Period size: 38 Copynumber: 2.8 Consensus size: 39
18345705 GACCTCGAGT
**
18345715 CGATGAGACACTGGGTGTCATACTGTTACTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-ACT-TTACTTCGGATAGAGC
* * * * *
18345756 CAATGACG-TACTGGGT-ACCACTTTACTTCGGCTAG-GC
1 CGATGA-GACACTGGGTGTCAACTTTACTTCGGATAGAGC
*
18345793 CGATGAGACACTGGGTGTCAACTTTGCTTCG
1 CGATGAGACACTGGGTGTCAACTTTACTTCG
18345824 AACTATCCGA
Statistics
Matches: 53, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
36 1 0.02
37 12 0.23
38 23 0.43
39 3 0.06
40 1 0.02
41 12 0.23
42 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTTTACTTCGGATAGAGC
Found at i:18354455 original size:34 final size:34
Alignment explanation
Indices: 18354402--18354469 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
18354392 GAATAGTTGA
* *
18354402 ACAGTCTTGGGCCTAAGCCCTTTTCAATATCAGTG
1 ACAGTCTTGGACCTAAGCCCATTTCAATA-CAGTG
*
18354437 ACAGT-TTGGACCTTAGCCCATTTCAATACAGTG
1 ACAGTCTTGGACCTAAGCCCATTTCAATACAGTG
18354470 TCAAAAATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (34 bp):
ACAGTCTTGGACCTAAGCCCATTTCAATACAGTG
Found at i:18356993 original size:23 final size:23
Alignment explanation
Indices: 18356949--18356997 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
18356939 TGAGTTTTTA
*
18356949 AATGTATATATTTAATTGAATTG
1 AATGTATATATTTAATTAAATTG
*
18356972 AATGTATATAATTTGA-TAAATTG
1 AATGTATAT-ATTTAATTAAATTG
18356995 AAT
1 AAT
18356998 TATTGATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (23 bp):
AATGTATATATTTAATTAAATTG
Found at i:18357213 original size:23 final size:23
Alignment explanation
Indices: 18357172--18357241 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
18357162 TAACTTGTGA
**
18357172 GAGCTTACTATTTTCAGCTCAAT
1 GAGCTTACCGTTTTCAGCTCAAT
*
18357195 GGAGCTTACCG-TTTCAGCTCGTAT
1 -GAGCTTACCGTTTTCAGCTC-AAT
*
18357219 GAGCTTACTGTTTATCAGCTCAA
1 GAGCTTACCGTTT-TCAGCTCAA
18357242 GAGAAGCTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
23 18 0.47
24 13 0.34
25 7 0.18
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.36
Consensus pattern (23 bp):
GAGCTTACCGTTTTCAGCTCAAT
Found at i:18357441 original size:20 final size:20
Alignment explanation
Indices: 18357418--18357479 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
18357408 GATTAATTAT
*
18357418 TGTTAATACAGATGAATTAC
1 TGTTAATACAGATGAACTAC
* *
18357438 TGTTATTACTGATGAACTAC
1 TGTTAATACAGATGAACTAC
* * *
18357458 TATTTATACGGATGAACTAC
1 TGTTAATACAGATGAACTAC
18357478 TG
1 TG
18357480 GTTATATGAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (20 bp):
TGTTAATACAGATGAACTAC
Found at i:18357492 original size:20 final size:20
Alignment explanation
Indices: 18357449--18357510 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
18357439 GTTATTACTG
* *
18357449 ATGAACTACTATTTATACGG
1 ATGAACTACTAGTTATACGA
* *
18357469 ATGAACTACTGGTTATATGA
1 ATGAACTACTAGTTATACGA
*
18357489 ATGAATTAC-AGTTTATACGA
1 ATGAACTACTAG-TTATACGA
18357509 AT
1 AT
18357511 AGAAATGAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 1 0.03
20 33 0.97
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.35
Consensus pattern (20 bp):
ATGAACTACTAGTTATACGA
Found at i:18357493 original size:40 final size:40
Alignment explanation
Indices: 18357423--18357507 Score: 95
Period size: 40 Copynumber: 2.1 Consensus size: 40
18357413 ATTATTGTTA
* *
18357423 ATACAGATGAATTACTGTTATTACTGATGAACTACTA-TTT
1 ATACGGATGAACTACTGTTATTACTGATGAACTAC-AGTTT
*
18357463 ATACGGATGAACTACTGGTTA-TA-TGAATGAATTACAGTTT
1 ATACGGATGAACTACT-GTTATTACTG-ATGAACTACAGTTT
18357503 ATACG
1 ATACG
18357508 AATAGAAATG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
39 3 0.08
40 32 0.82
41 4 0.10
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.36
Consensus pattern (40 bp):
ATACGGATGAACTACTGTTATTACTGATGAACTACAGTTT
Found at i:18360444 original size:40 final size:41
Alignment explanation
Indices: 18360392--18360488 Score: 128
Period size: 40 Copynumber: 2.4 Consensus size: 41
18360382 TAAGTTGGTA
* *
18360392 TCGCACACTTAGTGCC-TTATATAGCCGAAGCTAT-TCCAAC
1 TCGCACACTTAGTGCCATT-TATAGCCGAAACTATATCAAAC
* *
18360432 TCGCACACTTAGTGCCATTTGTAGCCGAAACTATATTAAAC
1 TCGCACACTTAGTGCCATTTATAGCCGAAACTATATCAAAC
18360473 -CGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
18360489 AGCATAGTTG
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 45 0.88
41 6 0.12
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (41 bp):
TCGCACACTTAGTGCCATTTATAGCCGAAACTATATCAAAC
Found at i:18361310 original size:17 final size:19
Alignment explanation
Indices: 18361285--18361326 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
18361275 TATTTACATA
18361285 ATAAACATT-TT-ACCATT
1 ATAAACATTGTTAACCATT
*
18361302 ATAACCATTGTTAAACCATT
1 ATAAACATTGTT-AACCATT
18361322 ATAAA
1 ATAAA
18361327 ATCACATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 8 0.40
18 2 0.10
20 10 0.50
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (19 bp):
ATAAACATTGTTAACCATT
Found at i:18365790 original size:25 final size:23
Alignment explanation
Indices: 18365731--18365802 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
18365721 GGTATATCGA
18365731 TTGTGTTTGGAGGGTATACTTAG
1 TTGTGTTTGGAGGGTATACTTAG
* ** * *
18365754 TTGTATGCGGAGGTTATACATTTGG
1 TTGTGTTTGGAGGGTATAC--TTAG
* *
18365779 TTGTGTTTGGAGAGTATATTTAG
1 TTGTGTTTGGAGGGTATACTTAG
18365802 T
1 T
18365803 ATCAAATTAA
Statistics
Matches: 35, Mismatches: 12, Indels: 4
0.69 0.24 0.08
Matches are distributed among these distances:
23 19 0.54
25 16 0.46
ACGTcount: A:0.19, C:0.04, G:0.32, T:0.44
Consensus pattern (23 bp):
TTGTGTTTGGAGGGTATACTTAG
Found at i:18365911 original size:6 final size:7
Alignment explanation
Indices: 18365895--18365919 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18365885 TGTGTCGTCT
18365895 AAAAGGA
1 AAAAGGA
18365902 AAAAGGA
1 AAAAGGA
18365909 AAAAGGA
1 AAAAGGA
18365916 AAAA
1 AAAA
18365920 AAAAGTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (7 bp):
AAAAGGA
Found at i:18366686 original size:16 final size:16
Alignment explanation
Indices: 18366665--18366710 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
18366655 TAATTTTATA
18366665 AATAAATTTTATTAAT
1 AATAAATTTTATTAAT
* *
18366681 AATAAAATATATT-AT
1 AATAAATTTTATTAAT
*
18366696 TA-AAATTTTATTAAT
1 AATAAATTTTATTAAT
18366711 TCCCCAGGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
14 8 0.33
15 5 0.21
16 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATAAATTTTATTAAT
Found at i:18379859 original size:20 final size:20
Alignment explanation
Indices: 18379812--18379861 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
18379802 ATGCCACATC
18379812 AATATTCTTATCCTGAATTTT
1 AATATT-TTATCCTGAATTTT
** *
18379833 AGGATTTTATTCTGAATTTT
1 AATATTTTATCCTGAATTTT
18379853 AATATTTTA
1 AATATTTTA
18379862 ATTTGGATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.54
Consensus pattern (20 bp):
AATATTTTATCCTGAATTTT
Found at i:18380413 original size:28 final size:28
Alignment explanation
Indices: 18380381--18380438 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
18380371 TAATCTTAAT
18380381 GTAAACAATCAAGCAAAAAAGGAGGAGA
1 GTAAACAATCAAGCAAAAAAGGAGGAGA
*
18380409 GTAAACAATCAAGTAAAAAAGGAGGAGA
1 GTAAACAATCAAGCAAAAAAGGAGGAGA
18380437 GT
1 GT
18380439 TCCAAATAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.55, C:0.09, G:0.26, T:0.10
Consensus pattern (28 bp):
GTAAACAATCAAGCAAAAAAGGAGGAGA
Found at i:18385450 original size:24 final size:23
Alignment explanation
Indices: 18385417--18385461 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
18385407 TAAAACTATA
* *
18385417 CTAATGACAATGATAATAATAAGC
1 CTAATAACAATAATAA-AATAAGC
18385441 CTAATAACAATAATAAAATAA
1 CTAATAACAATAATAAAATAA
18385462 CAATAATAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.58, C:0.11, G:0.07, T:0.24
Consensus pattern (23 bp):
CTAATAACAATAATAAAATAAGC
Found at i:18385462 original size:14 final size:14
Alignment explanation
Indices: 18385443--18385469 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18385433 TAATAAGCCT
18385443 AATAACAATAATAA
1 AATAACAATAATAA
18385457 AATAACAATAATA
1 AATAACAATAATA
18385470 GTAATAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (14 bp):
AATAACAATAATAA
Found at i:18388879 original size:20 final size:20
Alignment explanation
Indices: 18388851--18388888 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18388841 ATGTAAAAAA
*
18388851 TAAATTAAAAACAAAAATAT
1 TAAAATAAAAACAAAAATAT
*
18388871 TAAAATAAAAATAAAAAT
1 TAAAATAAAAACAAAAAT
18388889 GGCTAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (20 bp):
TAAAATAAAAACAAAAATAT
Found at i:18394587 original size:15 final size:14
Alignment explanation
Indices: 18394567--18394600 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
18394557 TTGTTAGTTA
18394567 ATTTTTATTTTTATT
1 ATTTTTA-TTTTATT
18394582 ATTTTTATTTTATT
1 ATTTTTATTTTATT
18394596 -TTTTT
1 ATTTTT
18394601 CAAATTCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 7 0.37
15 7 0.37
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (14 bp):
ATTTTTATTTTATT
Found at i:18398318 original size:30 final size:29
Alignment explanation
Indices: 18398279--18398339 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
18398269 GTAGCCGAAG
18398279 CTAGTTAAATCACACACTTAGTGCCAAAA
1 CTAGTTAAATCACACACTTAGTGCCAAAA
*
18398308 CTAGTTTAAATCGCACACTTAGTGCCAAAA
1 CTAG-TTAAATCACACACTTAGTGCCAAAA
18398338 CT
1 CT
18398340 TCCGTTTCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 4 0.13
30 26 0.87
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.26
Consensus pattern (29 bp):
CTAGTTAAATCACACACTTAGTGCCAAAA
Found at i:18403859 original size:40 final size:39
Alignment explanation
Indices: 18403790--18403926 Score: 120
Period size: 37 Copynumber: 3.5 Consensus size: 39
18403780 CCAGTTTGGT
* *
18403790 ACCCAGTGCCTCATCGGA-TAATTCAAAGTAATAATTTGAC
1 ACCCAGTGCCTCATC-GACTAAATCGAAGTAATAA-TTGAC
*
18403830 ACCCAGT-CTCTCATCGACTAAATCGAAGT-A-AATTGGC
1 ACCCAGTGC-CTCATCGACTAAATCGAAGTAATAATTGAC
* * * *
18403867 ACCCAGTGCCTCATCCAATTAATCCGAAGTAGTAAATTGAC
1 ACCCAGTGCCTCATCGACTAAAT-CGAAGTAAT-AATTGAC
* *
18403908 ACCTAGTGTCTCATCGACT
1 ACCCAGTGCCTCATCGACT
18403927 CGAAGTCGAA
Statistics
Matches: 78, Mismatches: 12, Indels: 13
0.76 0.12 0.13
Matches are distributed among these distances:
37 22 0.28
38 9 0.12
39 4 0.05
40 22 0.28
41 21 0.27
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (39 bp):
ACCCAGTGCCTCATCGACTAAATCGAAGTAATAATTGAC
Found at i:18405387 original size:23 final size:23
Alignment explanation
Indices: 18405353--18405396 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
18405343 CGACATGATC
*
18405353 GGTGCAAATGAAAGTGGCACTTT
1 GGTGCAAATGAAAGTGACACTTT
* *
18405376 GGTGCAATTGAATGTGACACT
1 GGTGCAAATGAAAGTGACACT
18405397 AATGGCACTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.27
Consensus pattern (23 bp):
GGTGCAAATGAAAGTGACACTTT
Found at i:18412285 original size:43 final size:43
Alignment explanation
Indices: 18412202--18412328 Score: 159
Period size: 43 Copynumber: 2.9 Consensus size: 43
18412192 TTCAGGCCTC
* * *
18412202 GGCCTAGCAAGCTTTAA-GCTGGTGAACAATATTATCGGGCTACG
1 GGCCTAGCAGGCTATAATGCTGGTG-A-AATAATATCGGGCTACG
* *
18412246 GGCCTAGCAGGCTATAATG-TCGGTGAGATAATATCGGGCTTCG
1 GGCCTAGCAGGCTATAATGCT-GGTGAAATAATATCGGGCTACG
*
18412289 GGCCTAGCAGGCTATAATGCTGGTGAAATGATATCGGGCT
1 GGCCTAGCAGGCTATAATGCTGGTGAAATAATATCGGGCT
18412329 TCAAGCATAG
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
43 50 0.68
44 18 0.25
45 5 0.07
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (43 bp):
GGCCTAGCAGGCTATAATGCTGGTGAAATAATATCGGGCTACG
Found at i:18412340 original size:43 final size:43
Alignment explanation
Indices: 18412250--18412342 Score: 125
Period size: 43 Copynumber: 2.2 Consensus size: 43
18412240 GCTACGGGCC
* ** *
18412250 TAGCAGGCTATAATGTCGGTGAGATAATATCGGGCTTCGGGCC
1 TAGCAGGCTATAATGTCGGTGAAATAATATCGGGCTTCAAGCA
*
18412293 TAGCAGGCTATAATG-CTGGTGAAATGATATCGGGCTTCAAGCA
1 TAGCAGGCTATAATGTC-GGTGAAATAATATCGGGCTTCAAGCA
18412336 TAGCAGG
1 TAGCAGG
18412343 TGAAATGCCG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 1 0.02
43 43 0.98
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (43 bp):
TAGCAGGCTATAATGTCGGTGAAATAATATCGGGCTTCAAGCA
Found at i:18424292 original size:19 final size:20
Alignment explanation
Indices: 18424262--18424304 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
18424252 CCACAAACCC
*
18424262 CTTAATAAATTCGTTGTTAT
1 CTTAATAAATTCGTTATTAT
18424282 CTTAA-AAATTCGTTATTAT
1 CTTAATAAATTCGTTATTAT
18424301 CTTA
1 CTTA
18424305 GGTTGAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.49
Consensus pattern (20 bp):
CTTAATAAATTCGTTATTAT
Found at i:18424964 original size:40 final size:39
Alignment explanation
Indices: 18424887--18424968 Score: 121
Period size: 40 Copynumber: 2.1 Consensus size: 39
18424877 TTTTAATTAA
18424887 TTTATGGAAGACATTACTTAAATTATCATTCAATTTTTT
1 TTTATGGAAGACATTACTTAAATTATCATTCAATTTTTT
**
18424926 TTTATGGAAGACATTAC-TAAGGATTATCATTCGCTTTTTT
1 TTTATGGAAGACATTACTTAA--ATTATCATTCAATTTTTT
18424966 TTT
1 TTT
18424969 TTATTAAGGA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
38 3 0.08
39 17 0.44
40 19 0.49
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (39 bp):
TTTATGGAAGACATTACTTAAATTATCATTCAATTTTTT
Found at i:18429259 original size:16 final size:16
Alignment explanation
Indices: 18429240--18429272 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18429230 AAACGAAATG
18429240 ATGAAAAT-AAAAGAAA
1 ATGAAAATGAAAA-AAA
18429256 ATGAAAATGAAAAAAA
1 ATGAAAATGAAAAAAA
18429272 A
1 A
18429273 AATCTAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (16 bp):
ATGAAAATGAAAAAAA
Found at i:18429507 original size:18 final size:16
Alignment explanation
Indices: 18429460--18429499 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
18429450 AAAAGAAAAT
18429460 AAAATGAAATTTTTGA
1 AAAATGAAATTTTTGA
18429476 AAAATGAAATTTTTGA
1 AAAATGAAATTTTTGA
18429492 AAAATGAA
1 AAAATGAA
18429500 TAATTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (16 bp):
AAAATGAAATTTTTGA
Found at i:18433984 original size:265 final size:264
Alignment explanation
Indices: 18433506--18434032 Score: 919
Period size: 265 Copynumber: 2.0 Consensus size: 264
18433496 ATGATATGTT
*
18433506 AGTGCTAGCTTGGAGTGCAACACGATATCCTAACTTCACATTGTACCAACCATTTTTAGAAAAAT
1 AGTGCTAGCTTGGAGTGCAACACGATATCCTAACTTCACATTGTACCAACCATCTTTAGAAAAAT
* *
18433571 GTCATATAAGTTGGTCTAGTGGCCTAGAATACGAAAGAGGGATACTAAAAATTTTCTTAGCATCT
66 GCCATATAAGTTGGTCTAGTGGCCTAGAATACGAAAGAGGAATACTAAAAATTTTCTTAGCATCT
* * *
18433636 TGAGGTGCTAAGAGACCCTTAATTGTAATGACTCGGTTTCCAACGATGTTGAAAATTGCGATTTT
131 TAAGGTGCTAAGAAACCCTTAATTGTAATGACTCGGTTTCCAACGATGTTGAAAATTGCGATTTC
18433701 GGAGTCTCACTTGCATAAACTGAGTTTGCAAATATAAAATAAGAATATTTACATTAGAAAAATAT
196 GGAGTCTCACTTGCATAAACTGAGTTTGCAAATATAAAATAAGAATATTTACATTAG-AAAATAT
18433766 ATTAG
260 ATTAG
* * *
18433771 AGTGTTAGCTTGGAGTGCAACACGATATCCTAACTTTACATTGTCCCAACCATCTTTAGAAAAAT
1 AGTGCTAGCTTGGAGTGCAACACGATATCCTAACTTCACATTGTACCAACCATCTTTAGAAAAAT
18433836 GCCATATAAGTTGGTCTAGTGGCCTAGAATACGAAAGAGGAATACTAAAAATTTTCTTAGCATCT
66 GCCATATAAGTTGGTCTAGTGGCCTAGAATACGAAAGAGGAATACTAAAAATTTTCTTAGCATCT
* *
18433901 TAAGGTGCTAAGAAACCCTTAATTGTAATGACTCGGTTTCCAATGATGTTGAAAATTGCTATTTC
131 TAAGGTGCTAAGAAACCCTTAATTGTAATGACTCGGTTTCCAACGATGTTGAAAATTGCGATTTC
* **
18433966 GGAGTCTCACTTGCATAAACTGAGTTTGTAAATATAAAATAATTATATTTACATTAGAAAATATA
196 GGAGTCTCACTTGCATAAACTGAGTTTGCAAATATAAAATAAGAATATTTACATTAGAAAATATA
18434031 TT
261 TT
18434033 GAAGTTCGGT
Statistics
Matches: 248, Mismatches: 14, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
264 10 0.04
265 238 0.96
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (264 bp):
AGTGCTAGCTTGGAGTGCAACACGATATCCTAACTTCACATTGTACCAACCATCTTTAGAAAAAT
GCCATATAAGTTGGTCTAGTGGCCTAGAATACGAAAGAGGAATACTAAAAATTTTCTTAGCATCT
TAAGGTGCTAAGAAACCCTTAATTGTAATGACTCGGTTTCCAACGATGTTGAAAATTGCGATTTC
GGAGTCTCACTTGCATAAACTGAGTTTGCAAATATAAAATAAGAATATTTACATTAGAAAATATA
TTAG
Found at i:18436001 original size:24 final size:23
Alignment explanation
Indices: 18435968--18436014 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
18435958 CTATAAATGC
*
18435968 CAAACAGAATACACTACAAAGGT
1 CAAACAGAATACACCACAAAGGT
*
18435991 CAAACTAGAATACACCATAAAGGT
1 CAAAC-AGAATACACCACAAAGGT
18436015 GACATATATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.51, C:0.21, G:0.13, T:0.15
Consensus pattern (23 bp):
CAAACAGAATACACCACAAAGGT
Found at i:18436184 original size:23 final size:23
Alignment explanation
Indices: 18436158--18436202 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
18436148 CACAAAATGC
* *
18436158 CAAACAAAATTTGCCATAAAGGT
1 CAAACAAAATATGCCACAAAGGT
* *
18436181 CAAATAGAATATGCCACAAAGG
1 CAAACAAAATATGCCACAAAGG
18436203 CACATATAGG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.49, C:0.18, G:0.16, T:0.18
Consensus pattern (23 bp):
CAAACAAAATATGCCACAAAGGT
Found at i:18438126 original size:43 final size:43
Alignment explanation
Indices: 18438062--18438233 Score: 135
Period size: 43 Copynumber: 4.0 Consensus size: 43
18438052 CATAGGATTT
18438062 TCGATATGTG-TTCTC-ATGTAAGACCACGTCTAGGACGTTGGCA
1 TCGATATGTGATT-TCGA-GTAAGACCACGTCTAGGACGTTGGCA
* * * * * *
18438105 TCGATATGTAATTTCGAGTAAGACTATGTTTGGGACATTGGCA
1 TCGATATGTGATTTCGAGTAAGACCACGTCTAGGACGTTGGCA
*
18438148 TCG-TAATTGTGA-TTCGTGTAAGACC-CTGTC-AGGACAG-TGGCA
1 TCGAT-A-TGTGATTTCGAGTAAGACCAC-GTCTAGGAC-GTTGGCA
* * *
18438190 TCGACATGTGATTAC-ATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGATTTCGA-GTAAGACCACGTCTAGGACGTTGGCA
18438233 T
1 T
18438234 TGTACGATAT
Statistics
Matches: 100, Mismatches: 17, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
41 5 0.05
42 28 0.28
43 60 0.60
44 7 0.07
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (43 bp):
TCGATATGTGATTTCGAGTAAGACCACGTCTAGGACGTTGGCA
Found at i:18443995 original size:12 final size:12
Alignment explanation
Indices: 18443978--18444007 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18443968 CTCACACGCT
18443978 CGTGTGCTAGGC
1 CGTGTGCTAGGC
*
18443990 CGTGTGCTAGGT
1 CGTGTGCTAGGC
18444002 CGTGTG
1 CGTGTG
18444008 AAAACTGAAG
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:0.07, C:0.20, G:0.43, T:0.30
Consensus pattern (12 bp):
CGTGTGCTAGGC
Found at i:18447708 original size:16 final size:16
Alignment explanation
Indices: 18447687--18447720 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
18447677 ATATATAGTT
18447687 AATTAATT-AAAATATG
1 AATTAATTGAAAAT-TG
18447703 AATTAATTGAAAATTG
1 AATTAATTGAAAATTG
18447719 AA
1 AA
18447721 AAGTGAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (16 bp):
AATTAATTGAAAATTG
Found at i:18447916 original size:53 final size:53
Alignment explanation
Indices: 18447836--18447957 Score: 174
Period size: 53 Copynumber: 2.3 Consensus size: 53
18447826 ATGTGCCAAC
* * *
18447836 TACTGTTACTGTTACTGTTTCAGATTTGTTCCGATAAGTTACTCTGTGTACCG
1 TACTGTTACTGTTACTATTTCAGATTTGTTCCGATAAGGTACTCTATGTACCG
* *
18447889 TACTGTTACTGTTACTA-TTCTGAATTTGTTCCGATGAGGTACTCTATGTACCG
1 TACTGTTACTGTTACTATTTCAG-ATTTGTTCCGATAAGGTACTCTATGTACCG
*
18447942 TACTGCTACTGTTACT
1 TACTGTTACTGTTACT
18447958 GTTACTGTTA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
52 4 0.06
53 58 0.94
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.43
Consensus pattern (53 bp):
TACTGTTACTGTTACTATTTCAGATTTGTTCCGATAAGGTACTCTATGTACCG
Found at i:18448110 original size:19 final size:19
Alignment explanation
Indices: 18448088--18448139 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
18448078 AAAGATTGAC
18448088 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAATTTAAT
* * *
18448107 TGTTACTGTAT-ATCTGAT
1 TGTTACTGAATAATTTAAT
*
18448125 TTTTACTGAATAATT
1 TGTTACTGAATAATT
18448140 CACTGTTACT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.50
Consensus pattern (19 bp):
TGTTACTGAATAATTTAAT
Found at i:18448148 original size:18 final size:18
Alignment explanation
Indices: 18448086--18448155 Score: 52
Period size: 18 Copynumber: 3.8 Consensus size: 18
18448076 GGAAAGATTG
18448086 ACTGTTACTGAATAATTTA
1 ACTGTTACTGAATAA-TTA
* * *
18448105 ATTGTTACTGTAT-ATCTG
1 ACTGTTACTGAATAAT-TA
* * *
18448123 ATTTTTACTGAATAATTC
1 ACTGTTACTGAATAATTA
*
18448141 ACTGTTACTAAATAA
1 ACTGTTACTGAATAA
18448156 CCGATCAATT
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
17 1 0.03
18 26 0.65
19 13 0.32
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.44
Consensus pattern (18 bp):
ACTGTTACTGAATAATTA
Found at i:18448196 original size:18 final size:18
Alignment explanation
Indices: 18448175--18448235 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
18448165 TGATTGATAC
18448175 TGAATAACTGATTATTAT
1 TGAATAACTGATTATTAT
* * *
18448193 TGAATAATTGATTGTTAC
1 TGAATAACTGATTATTAT
* *
18448211 CGAATAACTGACTATTAT
1 TGAATAACTGATTATTAT
*
18448229 TAAATAA
1 TGAATAA
18448236 ATAATTGTTC
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.39
Consensus pattern (18 bp):
TGAATAACTGATTATTAT
Found at i:18448216 original size:36 final size:36
Alignment explanation
Indices: 18448162--18448244 Score: 112
Period size: 36 Copynumber: 2.3 Consensus size: 36
18448152 ATAACCGATC
* * * *
18448162 AATTGATTGATACTGAATAACTGATTATTATTGAAT
1 AATTGATTGTTACCGAATAACTGACTATTATTAAAT
18448198 AATTGATTGTTACCGAATAACTGACTATTATTAAAT
1 AATTGATTGTTACCGAATAACTGACTATTATTAAAT
* *
18448234 AAATAATTGTT
1 AATTGATTGTT
18448245 CTGATTGACT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (36 bp):
AATTGATTGTTACCGAATAACTGACTATTATTAAAT
Found at i:18454290 original size:4 final size:4
Alignment explanation
Indices: 18454281--18454323 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
18454271 TATAAACCAA
* * *
18454281 ATAC ATAC ATAC ATAC ATAC ATCC AGAC ATAC ATAT ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
18454324 TATGAACATC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.49, C:0.23, G:0.02, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:18454393 original size:4 final size:4
Alignment explanation
Indices: 18454384--18454431 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
18454374 GTTTATAGAA
* * * * *
18454384 ATAC ATAC ATAC ATCC AGAC ATAC ATAT ATAC ATAT ATAC ATAT ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
18454432 TATTTGATGG
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.48, C:0.21, G:0.02, T:0.29
Consensus pattern (4 bp):
ATAC
Found at i:18465750 original size:122 final size:122
Alignment explanation
Indices: 18465598--18465830 Score: 457
Period size: 122 Copynumber: 1.9 Consensus size: 122
18465588 ATTTGGTTGG
*
18465598 AATGTAAGATTATGGCTCCGTTTGTTTGCAGGGAAACATTTTCCATAAAATGTTTTCCTGATTTT
1 AATGTAAAATTATGGCTCCGTTTGTTTGCAGGGAAACATTTTCCATAAAATGTTTTCCTGATTTT
18465663 ACGGTGTTTGGAAGCTTGAAAATATTTTACATTTGGAAAATATTTTTTGATTGACAA
66 ACGGTGTTTGGAAGCTTGAAAATATTTTACATTTGGAAAATATTTTTTGATTGACAA
18465720 AATGTAAAATTATGGCTCCGTTTGTTTGCAGGGAAACATTTTCCATAAAATGTTTTCCTGATTTT
1 AATGTAAAATTATGGCTCCGTTTGTTTGCAGGGAAACATTTTCCATAAAATGTTTTCCTGATTTT
18465785 ACGGTGTTTGGAAGCTTGAAAATATTTTACATTTGGAAAATATTTT
66 ACGGTGTTTGGAAGCTTGAAAATATTTTACATTTGGAAAATATTTT
18465831 CCAAGAGACA
Statistics
Matches: 110, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
122 110 1.00
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (122 bp):
AATGTAAAATTATGGCTCCGTTTGTTTGCAGGGAAACATTTTCCATAAAATGTTTTCCTGATTTT
ACGGTGTTTGGAAGCTTGAAAATATTTTACATTTGGAAAATATTTTTTGATTGACAA
Found at i:18465994 original size:34 final size:34
Alignment explanation
Indices: 18465956--18466022 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
18465946 TTTTCATCTT
18465956 CTTTCTCTCTTTCTCAGGCAAATCTCATTCCTCA
1 CTTTCTCTCTTTCTCAGGCAAATCTCATTCCTCA
18465990 CTTTCTCTCTTTCTCAGGCAAATCTCATTCCTC
1 CTTTCTCTCTTTCTCAGGCAAATCTCATTCCTC
18466023 TTCGCAGGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.16, C:0.36, G:0.06, T:0.42
Consensus pattern (34 bp):
CTTTCTCTCTTTCTCAGGCAAATCTCATTCCTCA
Found at i:18468079 original size:29 final size:28
Alignment explanation
Indices: 18468037--18468110 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 28
18468027 TTTCTATTTA
* *
18468037 TATTTATTTTTTTATTCTAATAATATTAT
1 TATTTATCTATTTATT-TAATAATATTAT
** *
18468066 TATTTATCTATTTATATTTCTACTATTAT
1 TATTTATCTATTTAT-TTAATAATATTAT
18468095 TATATT-TCTATTTATT
1 TAT-TTATCTATTTATT
18468111 ATATTTCTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
28 1 0.03
29 34 0.89
30 3 0.08
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (28 bp):
TATTTATCTATTTATTTAATAATATTAT
Found at i:18468091 original size:15 final size:16
Alignment explanation
Indices: 18468059--18468119 Score: 65
Period size: 15 Copynumber: 3.9 Consensus size: 16
18468049 TATTCTAATA
*
18468059 ATATTATTATTTAT-CT
1 ATATTA-TATTTCTACT
18468075 AT-TTATATTTCTACT
1 ATATTATATTTCTACT
18468090 ATTATTATATTTCTA-T
1 A-TATTATATTTCTACT
*
18468106 TTATTATATTTCTA
1 ATATTATATTTCTA
18468120 TTTCTATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
14 6 0.15
15 19 0.47
16 4 0.10
17 11 0.28
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (16 bp):
ATATTATATTTCTACT
Found at i:18468096 original size:32 final size:32
Alignment explanation
Indices: 18468051--18468119 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
18468041 TATTTTTTTA
18468051 TTCTAATAATATTAT-TATT-TATCTATTTATAT
1 TTCTAATAATATTATAT-TTCTATCTA-TTATAT
* * *
18468083 TTCTACTATTATTATATTTCTATTTATTATAT
1 TTCTAATAATATTATATTTCTATCTATTATAT
18468115 TTCTA
1 TTCTA
18468120 TTTCTATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 26 0.81
33 6 0.19
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (32 bp):
TTCTAATAATATTATATTTCTATCTATTATAT
Found at i:18468120 original size:15 final size:15
Alignment explanation
Indices: 18468077--18468122 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 15
18468067 ATTTATCTAT
18468077 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
18468094 TTATATTTCTATTTA
1 TTATATTTCTATTTA
18468109 TTATATTTCTATTT
1 TTATATTTCTATTT
18468123 CTATTTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 17 0.59
16 1 0.03
17 11 0.38
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:18468270 original size:3 final size:3
Alignment explanation
Indices: 18468262--18468416 Score: 124
Period size: 3 Copynumber: 50.7 Consensus size: 3
18468252 TTTAAAACTT
18468262 TTA TTA TTA TTA TTA TTA TTA -TA TT- TCTA TGTA TTA -TA TT- TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA TTA TTA TTA T-TA
* * *
18468306 TT- TATA TTTA TGTA TTA ATA TCA TTA TT- TTT TTA TATA TTA TATA
1 TTA T-TA -TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA TTA T-TA
* * * *
18468351 TTA TTA TTA TTA TTA CTA TTA GTA CTA TTA TTA TTT TCTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
18468397 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
18468417 TATAGTATAT
Statistics
Matches: 125, Mismatches: 13, Indels: 28
0.75 0.08 0.17
Matches are distributed among these distances:
2 9 0.07
3 97 0.78
4 18 0.14
5 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:18476213 original size:19 final size:19
Alignment explanation
Indices: 18476188--18476278 Score: 134
Period size: 19 Copynumber: 4.9 Consensus size: 19
18476178 ATAATCATTA
18476188 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
18476207 GTGATATGCAACCTTAGAT
1 ATGATATGCAATCTTAGAT
*
18476226 GTGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
18476243 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
18476261 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
18476279 AGATATGATT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
17 14 0.22
18 16 0.25
19 35 0.54
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:18476259 original size:35 final size:37
Alignment explanation
Indices: 18476188--18476285 Score: 123
Period size: 35 Copynumber: 2.7 Consensus size: 37
18476178 ATAATCATTA
*
18476188 ATGATATGCAATCTTAGATGTGATATGCAACCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAACCTTAGAT
* *
18476226 GTGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAACCTTAGAT
18476261 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
18476286 ATTTTGTAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
35 20 0.38
36 18 0.34
37 10 0.19
38 5 0.09
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAACCTTAGAT
Found at i:18476304 original size:22 final size:22
Alignment explanation
Indices: 18476239--18476301 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
18476229 ATACAATCTT
18476239 AGATATGAT-TGCAATCTT---
1 AGATATGATATGCAATCTTAGA
18476257 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
18476279 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
18476302 GATTTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
18 9 0.24
19 9 0.24
22 8 0.21
23 12 0.32
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:18481921 original size:1 final size:1
Alignment explanation
Indices: 18481915--18481992 Score: 57
Period size: 1 Copynumber: 78.0 Consensus size: 1
18481905 CTTCTATTTT
** * * * * * * * *
18481915 AAAAAAAAAAGGAAAAAAAAGAAAAAAAAAAGAGAAAAAAAAGAAAAAGAAAAAAGAGAAAAAAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
18481980 AAAAAAGAAAAAA
1 AAAAAAAAAAAAA
18481993 TGGAGAGGCC
Statistics
Matches: 57, Mismatches: 20, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (1 bp):
A
Found at i:18481932 original size:11 final size:11
Alignment explanation
Indices: 18481915--18481990 Score: 84
Period size: 11 Copynumber: 6.9 Consensus size: 11
18481905 CTTCTATTTT
18481915 AAAAAAAAAAG
1 AAAAAAAAAAG
*
18481926 -GAAAAAAAAG
1 AAAAAAAAAAG
18481936 AAAAAAAAAAG
1 AAAAAAAAAAG
*
18481947 AGAAAAAAAAG
1 AAAAAAAAAAG
18481958 AAAAAGAAAAA-
1 AAAAA-AAAAAG
* *
18481969 AGAGAAAAAAG
1 AAAAAAAAAAG
18481980 AAAAAAGAAAA
1 AAAAAA-AAAA
18481991 AATGGAGAGG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
10 14 0.26
11 30 0.57
12 9 0.17
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:18481939 original size:7 final size:7
Alignment explanation
Indices: 18481929--18481992 Score: 76
Period size: 7 Copynumber: 8.9 Consensus size: 7
18481919 AAAAAAGGAA
18481929 AAAAAAG
1 AAAAAAG
18481936 AAAAAA-
1 AAAAAAG
*
18481942 AAAAGAG
1 AAAAAAG
*
18481949 AAAAAAA
1 AAAAAAG
18481956 AGAAAAAG
1 A-AAAAAG
18481964 AAAAAAGAG
1 -AAAAA-AG
18481973 AAAAAAG
1 AAAAAAG
18481980 AAAAAAG
1 AAAAAAG
18481987 AAAAAA
1 AAAAAA
18481993 TGGAGAGGCC
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
6 5 0.10
7 27 0.55
8 14 0.29
9 3 0.06
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:18481945 original size:23 final size:22
Alignment explanation
Indices: 18481915--18481992 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
18481905 CTTCTATTTT
*
18481915 AAAAAAAAAAGGAAAAAAAAGA
1 AAAAAAAAAAAGAAAAAAAAGA
*
18481937 AAAAAAAAAGAGAAAAAAAAGA
1 AAAAAAAAAAAGAAAAAAAAGA
* *
18481959 AAAAGAAAAAAGAGAAAAAAGA
1 AAAAAAAAAAAGAAAAAAAAGA
18481981 AAAAAGAAAAAA
1 AAAAA-AAAAAA
18481993 TGGAGAGGCC
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
22 43 0.88
23 6 0.12
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAAAGAAAAAAAAGA
Found at i:18481992 original size:9 final size:9
Alignment explanation
Indices: 18481917--18481978 Score: 65
Period size: 9 Copynumber: 6.7 Consensus size: 9
18481907 TCTATTTTAA
18481917 AAAAAAAAGG
1 AAAAAAAA-G
18481927 AAAAAAAAG
1 AAAAAAAAG
18481936 AAAAAAAA-
1 AAAAAAAAG
18481944 AAGAGAAAAA-
1 AA-A-AAAAAG
18481954 AAAGAAAAAG
1 AAA-AAAAAG
*
18481964 AAAAAAGAG
1 AAAAAAAAG
18481973 AAAAAA
1 AAAAAA
18481979 GAAAAAAGAA
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
8 2 0.04
9 28 0.58
10 18 0.38
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:18482951 original size:44 final size:44
Alignment explanation
Indices: 18482902--18483223 Score: 477
Period size: 44 Copynumber: 7.3 Consensus size: 44
18482892 CAGTAGGGGA
18482902 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
1 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
*
18482946 GCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATTGTCAG-GG
1 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
* * *
18482989 AGCAGGTCGAAGATAGTAGATTTGGCGTCTCTGTATTGTTAGAGG
1 -GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
*
18483034 GCAGATCGAAGATAGCAGATTTGGCGTCTCTATATTGTCAG-GG
1 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
* *
18483077 AGAAGATCGAAAATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
1 -GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
* * * *
18483122 GCAGATTGAAGATAGCAGATTTGGCATCTCTGTATTGTTAGAGA
1 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
* *
18483166 GCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGA
1 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
* *
18483210 GCAAATTGAAGATA
1 GCAGATCGAAGATA
18483224 TAACAGATTT
Statistics
Matches: 254, Mismatches: 20, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
43 4 0.02
44 246 0.97
45 4 0.02
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.29
Consensus pattern (44 bp):
GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
Found at i:18483442 original size:78 final size:78
Alignment explanation
Indices: 18483313--18483967 Score: 1060
Period size: 78 Copynumber: 8.4 Consensus size: 78
18483303 CGAAGAAATA
* * * ** * **
18483313 GATTTAGCATCTCTATATTCGACGAAGAGCAGATCGAAGACATAGTAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAA
*
18483378 GCAGATCTAAGAT
66 GCAGATCCAAGAT
*
18483391 GATTTGGCATCTTTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAA
18483456 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
18483469 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAACAGATCTGACCTTTATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAA
18483534 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
18483547 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAATAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAA
18483612 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
18483625 GATTTGGCATATCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAA
*
18483690 GTAGATCCAAGAT
66 GCAGATCCAAGAT
*
18483703 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAA
*
18483768 GCAGACCCAAGAT
66 GCAGATCCAAGAT
* * *
18483781 GATTTGGCATCTCTGTATTAGACAGGGAGTAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAA
18483846 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
18483859 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCT-GACCTTCATTGA
18483923 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
*
18483937 GATTTGGCATCTCTGTATTAGACGAGGAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCA
18483968 TAGCAGATCT
Statistics
Matches: 542, Mismatches: 34, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
77 1 0.00
78 541 1.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:18484064 original size:45 final size:45
Alignment explanation
Indices: 18484000--18484199 Score: 224
Period size: 45 Copynumber: 4.5 Consensus size: 45
18483990 TTTACATCGA
* * * *
18484000 AGCAGATCCAAGATGACAGATTTGGCATCTTTGTATTAGACAGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
** * *
18484045 AAAAAATCGAAGATAACAGATTTGACATCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * * * *
18484090 AGCAGATTGAAGA-AGCAAATTTGGCGTCTCTGTATTAGACTGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* *
18484134 AGCAGGTCGAAGATAACAGATTTGGCGTC-CATGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTC-TGTATTAGACGGGG
* *
18484179 AGCAGATCAAAGATAGCAGAT
1 AGCAGATCGAAGATAACAGAT
18484200 ATCGCCTTCC
Statistics
Matches: 128, Mismatches: 25, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
44 38 0.30
45 90 0.70
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (45 bp):
AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
Found at i:18484144 original size:89 final size:89
Alignment explanation
Indices: 18484019--18484185 Score: 237
Period size: 89 Copynumber: 1.9 Consensus size: 89
18484009 AAGATGACAG
*
18484019 ATTTGGCATCTTTGTATTAGACAGGGAAAAAATCGAAGATAACAGATTTGACATCTC-TGTATTA
1 ATTTGGCATCTCTGTATTAGACAGGGAAAAAATCGAAGATAACAGATTTGACATC-CATGTATTA
18484083 GACGGGGAGCAGATTGAAGAAGCAA
65 GACGGGGAGCAGATTGAAGAAGCAA
* * ** ** * *
18484108 ATTTGGCGTCTCTGTATTAGACTGGGAGCAGGTCGAAGATAACAGATTTGGCGTCCATGTATTAG
1 ATTTGGCATCTCTGTATTAGACAGGGAAAAAATCGAAGATAACAGATTTGACATCCATGTATTAG
18484173 ACGGGGAGCAGAT
66 ACGGGGAGCAGAT
18484186 CAAAGATAGC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
88 1 0.01
89 67 0.99
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.26
Consensus pattern (89 bp):
ATTTGGCATCTCTGTATTAGACAGGGAAAAAATCGAAGATAACAGATTTGACATCCATGTATTAG
ACGGGGAGCAGATTGAAGAAGCAA
Found at i:18484576 original size:19 final size:19
Alignment explanation
Indices: 18484551--18484632 Score: 134
Period size: 19 Copynumber: 4.5 Consensus size: 19
18484541 ATAATCTTCA
18484551 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
18484570 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
18484589 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
18484606 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
18484624 ATGATATGC
1 ATGATATGC
18484633 TGTCCTAGAA
Statistics
Matches: 58, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
17 16 0.28
18 16 0.28
19 26 0.45
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:18484591 original size:14 final size:15
Alignment explanation
Indices: 18484572--18484627 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
18484562 TCTTAGATGT
18484572 GATATG-CAATCTTA
1 GATATGACAATCTTA
18484586 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
18484603 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
18484621 GATATGA
1 GATATGA
18484628 TATGCTGTCC
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:18484621 original size:35 final size:36
Alignment explanation
Indices: 18484559--18484629 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 36
18484549 CAATGATATG
*
18484559 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
18484595 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
18484630 TGCTGTCCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 19 0.56
36 15 0.44
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (36 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGATA
Found at i:18485266 original size:20 final size:21
Alignment explanation
Indices: 18485239--18485280 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
18485229 TTTTGCATGT
*
18485239 ATTTTTTTCATTAAACGTATG
1 ATTTTTTTCATTAAACATATG
18485260 ATTTTTTTCATTAAACATATG
1 ATTTTTTTCATTAAACATATG
18485281 TTCATGTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (21 bp):
ATTTTTTTCATTAAACATATG
Found at i:18486736 original size:46 final size:46
Alignment explanation
Indices: 18486631--18486762 Score: 115
Period size: 46 Copynumber: 2.8 Consensus size: 46
18486621 TCAATTGATT
* * * * *
18486631 GAAGAAGCCACAAATCCTATACCTCTGAGTTGCAGTGGGATAGATT
1 GAAGAAACCACAAATCTTATACCCCTGAGTTGCAGTGGAATAGATA
**** *
18486677 GAAGATTGTACAAATCTTATACCCCTGAGTTGTC-GTGGAATGGATA
1 GAAGAAACCACAAATCTTATACCCCTGAGTTG-CAGTGGAATAGATA
* *
18486723 GAAGAAACCACAAATTTTAT-CTCCCTGAAGATGCAGTGGA
1 GAAGAAACCACAAATCTTATAC-CCCTG-AGTTGCAGTGGA
18486763 GTAAACCAGC
Statistics
Matches: 67, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
45 1 0.01
46 56 0.84
47 10 0.15
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (46 bp):
GAAGAAACCACAAATCTTATACCCCTGAGTTGCAGTGGAATAGATA
Done.