Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 55 of 153
Found at i:18012661 original size:16 final size:16
Alignment explanation
Indices: 18012616--18012664 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
18012606 TATTATACAT
* *
18012616 AACTTACATAACTCAT
1 AACTTACATAACTTAC
18012632 AACTTACATAACTTAC
1 AACTTACATAACTTAC
18012648 AACTTACATAACTTAC
1 AACTTACATAACTTAC
18012664 A
1 A
18012665 TTTTTTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:18012731 original size:34 final size:34
Alignment explanation
Indices: 18012576--18012799 Score: 131
Period size: 34 Copynumber: 6.5 Consensus size: 34
18012566 CATTAATATT
* * * *
18012576 ATACATAAATTACATAACTTAGTTAATTAAT-ATT
1 ATACATAACTTACATAACTTACTTAATT-TTCATA
* * *
18012610 ATACATAACTTACATAAC-T-CATAACTTACATA
1 ATACATAACTTACATAACTTACTTAATTTTCATA
* * *
18012642 ACTTAC--AACTTACATAACTTACATT-TTTTTAATT
1 A--TACATAACTTACATAACTTAC-TTAATTTTCATA
* *
18012676 ATTCATAAATTACATAACTTACTTAATTTTCATA
1 ATACATAACTTACATAACTTACTTAATTTTCATA
* * *
18012710 ATAAATAACTTACATAACTTACATAA--TACATA
1 ATACATAACTTACATAACTTACTTAATTTTCATA
* *
18012742 ACTTATATGACTTACATAACTTACATAGCATAATTTTCATA
1 A--TACATAACTTACATAACTTAC-T----TAATTTTCATA
*
18012783 ATACACAACTTACATAA
1 ATACATAACTTACATAA
18012800 TTTTCATAAT
Statistics
Matches: 142, Mismatches: 30, Indels: 31
0.70 0.15 0.15
Matches are distributed among these distances:
32 27 0.19
33 4 0.03
34 88 0.62
35 1 0.01
39 16 0.11
41 6 0.04
ACGTcount: A:0.44, C:0.17, G:0.01, T:0.38
Consensus pattern (34 bp):
ATACATAACTTACATAACTTACTTAATTTTCATA
Found at i:18012739 original size:16 final size:16
Alignment explanation
Indices: 18012720--18012839 Score: 96
Period size: 16 Copynumber: 7.9 Consensus size: 16
18012710 ATAAATAACT
18012720 TACATAACTTACATAA
1 TACATAACTTACATAA
* *
18012736 TACATAACTTATATGACT
1 TACATAACTTACAT-A-A
18012754 TACATAACTTACAT-A
1 TACATAACTTACATAA
* * *
18012769 -GCATAATTTTCATAA
1 TACATAACTTACATAA
*
18012784 TACACAACTTACATAA
1 TACATAACTTACATAA
18012800 T---T---TT-CATAA
1 TACATAACTTACATAA
*
18012809 TAAATAACTTACATAA
1 TACATAACTTACATAA
18012825 TACATAACTTACATA
1 TACATAACTTACATA
18012840 GCTTAATTAT
Statistics
Matches: 80, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
9 6 0.08
10 2 0.03
12 1 0.01
14 10 0.12
15 3 0.04
16 44 0.55
17 1 0.01
18 13 0.16
ACGTcount: A:0.46, C:0.17, G:0.02, T:0.35
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:18018373 original size:66 final size:65
Alignment explanation
Indices: 18018267--18018431 Score: 215
Period size: 66 Copynumber: 2.5 Consensus size: 65
18018257 AGCAAATTAC
* * * *
18018267 ACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAG
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCAG
18018331 CT
65 -T
* *
18018333 ACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCAGT
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGT
* * *
18018398 AGCAGCTTAAAGCAGATGCGGCAGCAAGAGAAGC
1 A-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGC
18018432 AAAGGCGACA
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
65 2 0.02
66 81 0.93
67 4 0.05
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.13
Consensus pattern (65 bp):
ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGT
Found at i:18018486 original size:21 final size:21
Alignment explanation
Indices: 18018462--18018519 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
18018452 TACAGGTTGC
18018462 AGCGAGAGAAGCAGAGGCTAA
1 AGCGAGAGAAGCAGAGGCTAA
* *
18018483 AGCGAGGGAAGCAGAGGCTAC
1 AGCGAGAGAAGCAGAGGCTAA
18018504 AGCGA-AGGAAGCAGAG
1 AGCGAGA-GAAGCAGAG
18018520 CAGCATCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.40, C:0.16, G:0.41, T:0.03
Consensus pattern (21 bp):
AGCGAGAGAAGCAGAGGCTAA
Found at i:18018916 original size:43 final size:43
Alignment explanation
Indices: 18018869--18019025 Score: 181
Period size: 43 Copynumber: 3.7 Consensus size: 43
18018859 AGGTGTTGGC
* * * *
18018869 CTTTAGTGGCGTTTATGGTAAAAGCGCCGCTAAAGAT-AAGGTT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCCCTAAAGATCAAGG-T
* * *
18018912 CTTTAGCGGCGTTTGTGGAAAAAACGCCCCTAAAGATCATGGT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCCCTAAAGATCAAGGT
* * * *
18018955 CTTTCGCGGCGTTTGTGGGGAAAGCGCCCCTATAGATCAAGAT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCCCTAAAGATCAAGGT
* *
18018998 CTTTTGCGGCGTTTGTGGGAGAAGCGCC
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCC
18019026 GTTAAAGACC
Statistics
Matches: 97, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 94 0.97
44 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGGAAAAGCGCCCCTAAAGATCAAGGT
Found at i:18018946 original size:86 final size:86
Alignment explanation
Indices: 18018844--18019015 Score: 193
Period size: 86 Copynumber: 2.0 Consensus size: 86
18018834 GTTTTTTAAA
* ** * * *
18018844 AAAAAACACCACTAAAGGTGTTGGCCTTTAGTGGCGTTTATGGTAAAAGCGCCGCTAAAGAT-AA
1 AAAAAACACCACTAAAGATCATGGCCTTTAGCGGCGTTTATGGGAAAAGCGCCCCTAAAGATCAA
*
18018908 GGTTCTTTAGCGGCGTTTGTGG
66 -GATCTTTAGCGGCGTTTGTGG
* * * * * * *
18018930 AAAAAACGCCCCTAAAGATCATGGTCTTTCGCGGCGTTTGTGGGGAAAGCGCCCCTATAGATCAA
1 AAAAAACACCACTAAAGATCATGGCCTTTAGCGGCGTTTATGGGAAAAGCGCCCCTAAAGATCAA
*
18018995 GATCTTTTGCGGCGTTTGTGG
66 GATCTTTAGCGGCGTTTGTGG
18019016 GAGAAGCGCC
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
86 68 0.97
87 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (86 bp):
AAAAAACACCACTAAAGATCATGGCCTTTAGCGGCGTTTATGGGAAAAGCGCCCCTAAAGATCAA
GATCTTTAGCGGCGTTTGTGG
Found at i:18019117 original size:43 final size:42
Alignment explanation
Indices: 18019070--18019204 Score: 146
Period size: 43 Copynumber: 3.1 Consensus size: 42
18019060 AAAAACGCCG
18019070 CTAAAGACCCTGATCTATAGCGGCGCTTCGACCACAAACACCA
1 CTAAAGACCCTGATCTATAGCGGCGCTTCGACCACAAAC-CCA
* * * * * * *
18019113 CTAAAGAACCTAATCTTTAGCGGCGTTTTC-CCCACAAACGCT
1 CTAAAGACCCTGATCTATAGCGGCG-CTTCGACCACAAACCCA
* *
18019155 GTAAAAGACCCTGATCTATAGCGACGCTTCGACCACAAACGCCA
1 CT-AAAGACCCTGATCTATAGCGGCGCTTCGACCACAAAC-CCA
18019199 CTAAAG
1 CTAAAG
18019205 GTCTTAGTCT
Statistics
Matches: 71, Mismatches: 17, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
42 5 0.07
43 61 0.86
44 5 0.07
ACGTcount: A:0.33, C:0.32, G:0.16, T:0.19
Consensus pattern (42 bp):
CTAAAGACCCTGATCTATAGCGGCGCTTCGACCACAAACCCA
Found at i:18019143 original size:86 final size:86
Alignment explanation
Indices: 18019028--18019204 Score: 257
Period size: 86 Copynumber: 2.1 Consensus size: 86
18019018 GAAGCGCCGT
* **
18019028 TAAAGACCCTAATCTTTAGCAGCGCTTTCCGTAAAAACGCCGCT-AAAGACCCTGATCTATAGCG
1 TAAAGAACCTAATCTTTAGCAGCGCTTTCCCCAAAAACGCCG-TAAAAGACCCTGATCTATAGCG
*
18019092 GCGCTTCGACCACAAACACCAC
65 ACGCTTCGACCACAAACACCAC
* * * *
18019114 TAAAGAACCTAATCTTTAGCGGCGTTTTCCCCACAAACGCTGTAAAAGACCCTGATCTATAGCGA
1 TAAAGAACCTAATCTTTAGCAGCGCTTTCCCCAAAAACGCCGTAAAAGACCCTGATCTATAGCGA
*
18019179 CGCTTCGACCACAAACGCCAC
66 CGCTTCGACCACAAACACCAC
18019200 TAAAG
1 TAAAG
18019205 GTCTTAGTCT
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
85 1 0.01
86 80 0.99
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.20
Consensus pattern (86 bp):
TAAAGAACCTAATCTTTAGCAGCGCTTTCCCCAAAAACGCCGTAAAAGACCCTGATCTATAGCGA
CGCTTCGACCACAAACACCAC
Found at i:18019250 original size:86 final size:85
Alignment explanation
Indices: 18019028--18019226 Score: 238
Period size: 86 Copynumber: 2.3 Consensus size: 85
18019018 GAAGCGCCGT
* * * * ** * *
18019028 TAAAGACCCTAATCTTTAGCAGCGCTTTCCGTAAAAACGCCGCTAAAGACCCTGATCTATAGCGG
1 TAAAGAACCTAATCTTCAGCGGCGTTTTCCCCACAAACG-CGCTAAAGACCCTGATCTATAGCGA
18019093 CGCTTCGACCACAAACACCAC
65 CGCTTCGACCACAAACACCAC
*
18019114 TAAAGAACCTAATCTTTAGCGGCGTTTTCCCCACAAACGCTG-TAAAAGACCCTGATCTATAGCG
1 TAAAGAACCTAATCTTCAGCGGCGTTTTCCCCACAAACGC-GCT-AAAGACCCTGATCTATAGCG
*
18019178 ACGCTTCGACCACAAACGCCAC
64 ACGCTTCGACCACAAACACCAC
** * *
18019200 TAAAGGTCTTAGTCTTCAGCGGCGTTT
1 TAAAGAACCTAATCTTCAGCGGCGTTT
18019227 GTGCTAGAAG
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
85 2 0.02
86 96 0.98
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.23
Consensus pattern (85 bp):
TAAAGAACCTAATCTTCAGCGGCGTTTTCCCCACAAACGCGCTAAAGACCCTGATCTATAGCGAC
GCTTCGACCACAAACACCAC
Found at i:18024734 original size:22 final size:20
Alignment explanation
Indices: 18024684--18024734 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
18024674 TTGAATATAA
18024684 AATTTTTATTTTTTATTGTT
1 AATTTTTATTTTTTATTGTT
18024704 AA-TTTTATTTATTTATT-TT
1 AATTTTTATTT-TTTATTGTT
18024723 GATATTTTTATT
1 -A-ATTTTTATT
18024735 GTTAAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 10 0.37
20 9 0.33
21 1 0.04
22 7 0.26
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.73
Consensus pattern (20 bp):
AATTTTTATTTTTTATTGTT
Found at i:18026252 original size:29 final size:28
Alignment explanation
Indices: 18026172--18026276 Score: 149
Period size: 28 Copynumber: 3.7 Consensus size: 28
18026162 AAAAATAAAA
*
18026172 ATTTACCAAAATATTATAACTTTTTTTT
1 ATTTACCAAAATATTAAAACTTTTTTTT
*
18026200 ATTTACCAAAATATTACAACTTTTTTTT
1 ATTTACCAAAATATTAAAACTTTTTTTT
18026228 ATTTACCAAAATATATAAAA-TTTTTTATT
1 ATTTACCAAAATAT-TAAAACTTTTTT-TT
*
18026257 ATTTACCAACATATATAAAA
1 ATTTACCAAAATAT-TAAAA
18026277 AAAACACACA
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
28 47 0.65
29 25 0.35
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (28 bp):
ATTTACCAAAATATTAAAACTTTTTTTT
Found at i:18026469 original size:22 final size:22
Alignment explanation
Indices: 18026431--18026593 Score: 108
Period size: 22 Copynumber: 7.3 Consensus size: 22
18026421 GGGGGCAGAA
*
18026431 GAGAAAAAAGGAAAGAAAGAAAG
1 GAGAAGAAA-GAAAGAAAGAAAG
*
18026454 GAGAGGAAAGAAAGAAAGAAAG
1 GAGAAGAAAGAAAGAAAGAAAG
* *
18026476 GAGAGGAAAGAAAGAAAGGAGAG
1 GAGAAGAAAGAAAGAAA-GAAAG
18026499 GAGAAAAGAAA-AAAGGAAAGAAAG
1 GAG--AAGAAAGAAA-GAAAGAAAG
*
18026523 AAGAAGAAAAGGAGAAGAGAAGAAA-
1 GAGAAG-AAA-GA-AAGA-AAGAAAG
*
18026548 -A-AAGAAAGAAAG--GGAAAG
1 GAGAAGAAAGAAAGAAAGAAAG
*
18026566 GAGAAGAGAA-AAAAAAAG-AAG
1 GAGAAGA-AAGAAAGAAAGAAAG
*
18026587 AAGAAGA
1 GAGAAGA
18026594 GGGAAGAAAG
Statistics
Matches: 115, Mismatches: 10, Indels: 32
0.73 0.06 0.20
Matches are distributed among these distances:
17 4 0.03
19 1 0.01
20 10 0.09
21 13 0.11
22 37 0.32
23 20 0.17
24 10 0.09
25 12 0.10
26 8 0.07
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (22 bp):
GAGAAGAAAGAAAGAAAGAAAG
Found at i:18026485 original size:40 final size:39
Alignment explanation
Indices: 18026438--18026565 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 39
18026428 GAAGAGAAAA
18026438 AAGGAAAGAAAGAAAGGAGAGGAAAGAAAGAAAGAAAGG
1 AAGGAAAGAAAGAAAGGAGAGGAAAGAAAGAAAGAAAGG
*
18026477 AGAGGAAAGAAAGAAAGGAGAGGAGA-AAAGAAA-AAAGG
1 A-AGGAAAGAAAGAAAGGAGAGGAAAGAAAGAAAGAAAGG
* * *
18026515 AAAGAAAGAAGAAGAAAAGGAGAAGAGAAGAAA-AAAGAAAGA
1 AAGGAAAG-A-AAG-AAAGGAGAGGA-AAGAAAGAAAGAAAGG
18026557 AAGGGAAAG
1 AA-GGAAAG
18026566 GAGAAGAGAA
Statistics
Matches: 75, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
37 6 0.08
38 7 0.09
39 11 0.15
40 33 0.44
41 4 0.05
42 9 0.12
43 5 0.07
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (39 bp):
AAGGAAAGAAAGAAAGGAGAGGAAAGAAAGAAAGAAAGG
Found at i:18026550 original size:18 final size:17
Alignment explanation
Indices: 18026427--18026591 Score: 108
Period size: 18 Copynumber: 9.2 Consensus size: 17
18026417 TGGTGGGGGC
18026427 AGAAGAGAAAAAAGGA-A
1 AGAA-AGAAAAAAGGAGA
*
18026444 AGAAAGAAAGGAGAGGA-A
1 AGAAAGAAA--AAAGGAGA
18026462 AGAAAGAAAGAAAGGAGA
1 AGAAAGAAA-AAAGGAGA
*
18026480 GGAAAGAAAGAAAGGAGA
1 AGAAAGAAA-AAAGGAGA
18026498 GGAGAAAAGAAAAAAGGA-A
1 --AG-AAAGAAAAAAGGAGA
18026517 AGAAAGAAGAAGAAAAGGAGA
1 AG--A-AAGAA-AAAAGGAGA
18026538 AGAGAAGAAAAAA-GA-A
1 AGA-AAGAAAAAAGGAGA
**
18026554 AGAAAG-GGAAAGGAGA
1 AGAAAGAAAAAAGGAGA
* *
18026570 AGAGAAAAAAAAAGAAGA
1 AGA-AAGAAAAAAGGAGA
18026588 AGAA
1 AGAA
18026592 GAGGGAAGAA
Statistics
Matches: 124, Mismatches: 10, Indels: 28
0.77 0.06 0.17
Matches are distributed among these distances:
14 3 0.02
15 5 0.04
16 13 0.10
17 17 0.14
18 49 0.40
19 13 0.10
20 14 0.11
21 10 0.08
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (17 bp):
AGAAAGAAAAAAGGAGA
Found at i:18026571 original size:32 final size:31
Alignment explanation
Indices: 18026482--18026585 Score: 127
Period size: 32 Copynumber: 3.2 Consensus size: 31
18026472 AAAGGAGAGG
* *
18026482 AAAGAAAGAAAGGAGAGGAGAAAAGAAAAAA
1 AAAGAAAGAAAGGAAAGGAGAAGAGAAAAAA
* *
18026513 GGAAAGAAAGAAGAAGAAAAGGAGAAGAGAAGAAA
1 --AAAGAAAG-A-AAGGAAAGGAGAAGAGAAAAAA
18026548 AAAGAAAGAAAGGGAAAGGAGAAGAGAAAAAA
1 AAAGAAAGAAA-GGAAAGGAGAAGAGAAAAAA
18026580 AAAGAA
1 AAAGAA
18026586 GAAGAAGAGG
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
31 2 0.03
32 25 0.40
33 16 0.26
34 1 0.02
35 18 0.29
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (31 bp):
AAAGAAAGAAAGGAAAGGAGAAGAGAAAAAA
Found at i:18026582 original size:33 final size:32
Alignment explanation
Indices: 18026482--18026582 Score: 114
Period size: 33 Copynumber: 3.1 Consensus size: 32
18026472 AAAGGAGAGG
* * *
18026482 AAAGAAAGAAAGGAGAGGAGAAAAGAAAAAAGG
1 AAAGAAAGAAAGGAAAGGAGAAGAGAAAAAA-A
* *
18026515 AAAGAAAGAAGAAGAAAAGGAGAAGAG-AAGAAA
1 AAAGAAAG-A-AAGGAAAGGAGAAGAGAAAAAAA
18026548 AAAGAAAGAAAGGGAAAGGAGAAGAGAAAAAAA
1 AAAGAAAGAAA-GGAAAGGAGAAGAGAAAAAAA
18026581 AA
1 AA
18026583 GAAGAAGAAG
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
31 2 0.04
32 14 0.25
33 23 0.40
34 5 0.09
35 13 0.23
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (32 bp):
AAAGAAAGAAAGGAAAGGAGAAGAGAAAAAAA
Found at i:18026609 original size:32 final size:31
Alignment explanation
Indices: 18026519--18026612 Score: 97
Period size: 32 Copynumber: 3.0 Consensus size: 31
18026509 AAAAGGAAAG
* *
18026519 AAAGAAGAAGAAAAGG-AG-AAGAGAAGAAA
1 AAAGAAGAAGAAAGGGAAGAAAGAGAAAAAA
18026548 AAAG-A-AAGAAAGGGAAAGGAGAAGAGAAAAAA
1 AAAGAAGAAGAAAGGG-AA-GA-AAGAGAAAAAA
*
18026580 AAAGAAGAAGAAGAGGGAAGAAAGGGAAAAAA
1 AAAGAAGAAGAA-AGGGAAGAAAGAGAAAAAA
18026612 A
1 A
18026613 GGGAAAAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
27 8 0.15
28 1 0.02
29 5 0.09
30 1 0.02
32 25 0.46
33 3 0.06
34 7 0.13
35 4 0.07
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (31 bp):
AAAGAAGAAGAAAGGGAAGAAAGAGAAAAAA
Found at i:18026618 original size:10 final size:10
Alignment explanation
Indices: 18026600--18026624 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
18026590 AAGAGGGAAG
18026600 AAAGGGAAAA
1 AAAGGGAAAA
18026610 AAAGGGAAAA
1 AAAGGGAAAA
18026620 AAAGG
1 AAAGG
18026625 TAATTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (10 bp):
AAAGGGAAAA
Found at i:18033136 original size:430 final size:430
Alignment explanation
Indices: 18032324--18033185 Score: 1661
Period size: 430 Copynumber: 2.0 Consensus size: 430
18032314 AGCGTCACTA
18032324 TTGACCTCTTCATCCCAATGATCGCCACCACCTTCTTCTTTGCCAACACATTCTTCTTCACCACC
1 TTGACCTCTTCATCCCAATGATCGCCACCACCTTCTTCTTTGCCAACACATTCTTCTTCACCACC
18032389 AACCATGTCAACATCGGGTGTAAAATTCAGGTCGATACCAATCCCACCCATAGTTGATTCACTAT
66 AACCATGTCAACATCGGGTGTAAAATTCAGGTCGATACCAATCCCACCCATAGTTGATTCACTAT
18032454 CAACGTATGATATTGGAGCCACCATCCGCGGTTCTTCAGCCCCGTCTTCTTCATCAGATGCATTT
131 CAACGTATGATATTGGAGCCACCATCCGCGGTTCTTCAGCCCCGTCTTCTTCATCAGATGCATTT
18032519 TGCTCCATACCGACTAACTCAGCAAATAAGTGAATCGGTGCATTCTTCTCACTCCCATTCCCACA
196 TGCTCCATACCGACTAACTCAGCAAATAAGTGAATCGGTGCATTCTTCTCACTCCCATTCCCACA
18032584 GTACAGATCGACCATTGTCTCCACGTCTTCGTCGTCTACAAGTTCCATTTCGACGAATTTGACCG
261 GTACAGATCGACCATTGTCTCCACGTCTTCGTCGTCTACAAGTTCCATTTCGACGAATTTGACCG
* * * *
18032649 GGTTTGTTGAAACTGGAAACTTGTAGAAAATTTTTGATATCATTCTCTCATAACGTCTATGGATT
326 GATTTGTCGAAACTGGAAACTTGTAGAAAATTTTTGATATCATTCTCCCACAACGTCTATGGATT
18032714 TTTGCATTAATCCTTGCATTCATTTCATCGAACGATACAT
391 TTTGCATTAATCCTTGCATTCATTTCATCGAACGATACAT
18032754 TTGACCTCTTCATCCCAATGATCGCCACCACCTTCTTCTTTGCCAACACATTCTTCTTCACCACC
1 TTGACCTCTTCATCCCAATGATCGCCACCACCTTCTTCTTTGCCAACACATTCTTCTTCACCACC
18032819 AACCATGTCAACATCGGGTGTAAAATTCAGGTCGATACCAATCCCACCCATAGTTGATTCACTAT
66 AACCATGTCAACATCGGGTGTAAAATTCAGGTCGATACCAATCCCACCCATAGTTGATTCACTAT
18032884 CAACGTATGATATTGGAGCCACCATCCGCGGTTCTTCAGCCCCGTCTTCTTCATCAGATGCATTT
131 CAACGTATGATATTGGAGCCACCATCCGCGGTTCTTCAGCCCCGTCTTCTTCATCAGATGCATTT
18032949 TGCTCCATACCGACTAACTCAGCAAATAAGTGAATCGGTGCATTCTTCTCACTCCCATTCCCACA
196 TGCTCCATACCGACTAACTCAGCAAATAAGTGAATCGGTGCATTCTTCTCACTCCCATTCCCACA
*
18033014 GTAGAGATCGACCATTGTCTCCACGTCTTCGTCGTCTACAAGTTCCATTTCGACGAATTTGACCG
261 GTACAGATCGACCATTGTCTCCACGTCTTCGTCGTCTACAAGTTCCATTTCGACGAATTTGACCG
*
18033079 GATTTGTCGAAACTGGAAACTTGTAGAAAATTTTTGATATCCTTCTCCCACAACGTCTATGGATT
326 GATTTGTCGAAACTGGAAACTTGTAGAAAATTTTTGATATCATTCTCCCACAACGTCTATGGATT
*
18033144 TTTGCATTAATCCTTGCCTTCATTTCATCGAACGATACAT
391 TTTGCATTAATCCTTGCATTCATTTCATCGAACGATACAT
18033184 TT
1 TT
18033186 CTATTAAATC
Statistics
Matches: 425, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
430 425 1.00
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (430 bp):
TTGACCTCTTCATCCCAATGATCGCCACCACCTTCTTCTTTGCCAACACATTCTTCTTCACCACC
AACCATGTCAACATCGGGTGTAAAATTCAGGTCGATACCAATCCCACCCATAGTTGATTCACTAT
CAACGTATGATATTGGAGCCACCATCCGCGGTTCTTCAGCCCCGTCTTCTTCATCAGATGCATTT
TGCTCCATACCGACTAACTCAGCAAATAAGTGAATCGGTGCATTCTTCTCACTCCCATTCCCACA
GTACAGATCGACCATTGTCTCCACGTCTTCGTCGTCTACAAGTTCCATTTCGACGAATTTGACCG
GATTTGTCGAAACTGGAAACTTGTAGAAAATTTTTGATATCATTCTCCCACAACGTCTATGGATT
TTTGCATTAATCCTTGCATTCATTTCATCGAACGATACAT
Found at i:18033460 original size:26 final size:26
Alignment explanation
Indices: 18033402--18033463 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
18033392 CAAAATAATA
* * *
18033402 CAAACTAAAATTATTAATTTTATACT
1 CAAAATAATATTAATAATTTTATACT
*
18033428 -ACGAATAATATTAATAATTTTATACT
1 CA-AAATAATATTAATAATTTTATACT
18033454 CAAAATAATA
1 CAAAATAATA
18033464 CACACTAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
25 1 0.03
26 27 0.93
27 1 0.03
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.39
Consensus pattern (26 bp):
CAAAATAATATTAATAATTTTATACT
Found at i:18033647 original size:3 final size:3
Alignment explanation
Indices: 18033639--18033682 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
18033629 TCTTAATACT
18033639 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
18033683 TAATAATAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:18033865 original size:26 final size:25
Alignment explanation
Indices: 18033836--18033895 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 25
18033826 TCTGCGCCAA
18033836 CTCTTCTTTTGCTTTTTGAATTTTCT
1 CTCTTCTTTT-CTTTTTGAATTTTCT
* *
18033862 CTCTTCAGCTTTTTTTTTTGATTTTTCT
1 CTCTT---CTTTTCTTTTTGAATTTTCT
18033890 CTCTTC
1 CTCTTC
18033896 AGCTGGGTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
25 1 0.03
26 5 0.17
28 18 0.62
29 5 0.17
ACGTcount: A:0.07, C:0.22, G:0.07, T:0.65
Consensus pattern (25 bp):
CTCTTCTTTTCTTTTTGAATTTTCT
Found at i:18033965 original size:27 final size:27
Alignment explanation
Indices: 18033927--18034056 Score: 197
Period size: 27 Copynumber: 4.8 Consensus size: 27
18033917 ATAATACGAG
*
18033927 TGGTGCCGCCAATGGCATTGGCACCAT
1 TGGTGCCGCCAATGGTATTGGCACCAT
18033954 TGGTGCCGCCAATGGTATTGGCACCAT
1 TGGTGCCGCCAATGGTATTGGCACCAT
* *
18033981 TGGTGCCGCCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATGGTATTGGCACCAT
* *
18034008 TGGTGCCGCCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATGGTATTGGCACCAT
**
18034035 TGGTGCCGCCAATACTATTGGC
1 TGGTGCCGCCAATGGTATTGGC
18034057 GTGACCAGTA
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.15, C:0.27, G:0.29, T:0.28
Consensus pattern (27 bp):
TGGTGCCGCCAATGGTATTGGCACCAT
Found at i:18034185 original size:28 final size:28
Alignment explanation
Indices: 18034125--18034251 Score: 202
Period size: 28 Copynumber: 4.5 Consensus size: 28
18034115 GTTTTTTTAT
* *
18034125 ATATTTTGGTAAATAATAAAAAAATT-TA
1 ATATTTTGATAAATAA-AAAAAAGTTGTA
*
18034153 TATATTTTGGTAAATAAAAAAAAGTTGTA
1 -ATATTTTGATAAATAAAAAAAAGTTGTA
18034182 ATATTTTGATAAATAAAAAAAAGTTGTA
1 ATATTTTGATAAATAAAAAAAAGTTGTA
18034210 ATATTTTGATAAATAAAAAAAAGTTGTA
1 ATATTTTGATAAATAAAAAAAAGTTGTA
18034238 ATATTTTGATAAAT
1 ATATTTTGATAAAT
18034252 TTTTATTTTT
Statistics
Matches: 95, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
28 77 0.81
29 18 0.19
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (28 bp):
ATATTTTGATAAATAAAAAAAAGTTGTA
Found at i:18044544 original size:46 final size:46
Alignment explanation
Indices: 18044491--18044582 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
18044481 TCATAGCATC
18044491 TTATTACTCGGGTCTGACGATTAGGTCGGGTATGGGGTGTTACATG
1 TTATTACTCGGGTCTGACGATTAGGTCGGGTATGGGGTGTTACATG
18044537 TTATTACTCGGGTCTGACGATTAGGTCGGGTATGGGGTGTTACATG
1 TTATTACTCGGGTCTGACGATTAGGTCGGGTATGGGGTGTTACATG
18044583 GTATGTGAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.17, C:0.13, G:0.35, T:0.35
Consensus pattern (46 bp):
TTATTACTCGGGTCTGACGATTAGGTCGGGTATGGGGTGTTACATG
Found at i:18046889 original size:23 final size:23
Alignment explanation
Indices: 18046862--18046910 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
18046852 TTGAACTCCT
18046862 TAAATGTTATTGTATGATTTAGA
1 TAAATGTTATTGTATGATTTAGA
18046885 TAAATGTTATTGTATGATTTAGA
1 TAAATGTTATTGTATGATTTAGA
18046908 TAA
1 TAA
18046911 TATTGATGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (23 bp):
TAAATGTTATTGTATGATTTAGA
Found at i:18047683 original size:13 final size:13
Alignment explanation
Indices: 18047662--18047725 Score: 101
Period size: 13 Copynumber: 4.9 Consensus size: 13
18047652 ACACTCAAAT
18047662 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
18047675 TTCTGAAAAGCAC
1 TTCTCAAAAGCAC
*
18047688 TTTTCAAAAGCAC
1 TTCTCAAAAGCAC
18047701 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
18047714 TTCGCAAAAGCA
1 TTCTCAAAAGCA
18047726 ATAAAGAACT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 46 1.00
ACGTcount: A:0.39, C:0.27, G:0.11, T:0.23
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:18050950 original size:28 final size:28
Alignment explanation
Indices: 18050883--18050950 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
18050873 AGAAGTTTGT
* * *
18050883 CCTTCAAGGCACGCTTTGTTGTGTATAG
1 CCTTCAAGGCATGCTTTGTTGTATATAA
* *
18050911 CCTTCAAGGCATGCTTTGTTTTATTTAA
1 CCTTCAAGGCATGCTTTGTTGTATATAA
18050939 CCTTCAAGGCAT
1 CCTTCAAGGCAT
18050951 ATTTTATCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (28 bp):
CCTTCAAGGCATGCTTTGTTGTATATAA
Found at i:18055316 original size:19 final size:19
Alignment explanation
Indices: 18055270--18055316 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 19
18055260 AGCCCTTTTT
*
18055270 AAAATTAAAAGTAATAATG
1 AAAATTAAAAGTAATAATC
18055289 ATAAGATTAAAGAGTAATAA-C
1 A-AA-ATTAAA-AGTAATAATC
18055310 AAAATTA
1 AAAATTA
18055317 GAGCCCTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 5 0.21
20 4 0.17
21 7 0.29
22 8 0.33
ACGTcount: A:0.62, C:0.02, G:0.11, T:0.26
Consensus pattern (19 bp):
AAAATTAAAAGTAATAATC
Found at i:18056752 original size:29 final size:30
Alignment explanation
Indices: 18056703--18056781 Score: 106
Period size: 29 Copynumber: 2.6 Consensus size: 30
18056693 TTTGGACCAC
*
18056703 AATTAAAGTTTCATGTGTATAATTGCAC-TA
1 AATTAAAG-TTCATGTATATAATTGCACATA
18056733 AATTAAAGTTCATGTATATAATTGCACATTA
1 AATTAAAGTTCATGTATATAATTGCACA-TA
* *
18056764 AATCAAAATTCATGTATA
1 AATTAAAGTTCATGTATA
18056782 ATTTTAAGAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 18 0.41
30 8 0.18
31 18 0.41
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (30 bp):
AATTAAAGTTCATGTATATAATTGCACATA
Found at i:18060636 original size:3 final size:3
Alignment explanation
Indices: 18060628--18060689 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
18060618 ATTACCCCCT
18060628 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
18060676 TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TT
18060690 TAAGGGTATT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:18061457 original size:5 final size:5
Alignment explanation
Indices: 18061447--18061487 Score: 82
Period size: 5 Copynumber: 8.2 Consensus size: 5
18061437 TATATAACAT
18061447 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA T
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA T
18061488 CACATTATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTTAA
Found at i:18062550 original size:30 final size:30
Alignment explanation
Indices: 18062514--18062574 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
18062504 GGTTTGTACT
18062514 CTAGTTAAACTGGCAAATCAATTTATCATG
1 CTAGTTAAACTGGCAAATCAATTTATCATG
* *
18062544 CTAGTTAAACTGGTAAATTAATTTATCATG
1 CTAGTTAAACTGGCAAATCAATTTATCATG
18062574 C
1 C
18062575 CAAGGTGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (30 bp):
CTAGTTAAACTGGCAAATCAATTTATCATG
Found at i:18064917 original size:13 final size:13
Alignment explanation
Indices: 18064899--18064928 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
18064889 AGCCCAAACT
18064899 CAATTACCCAACC
1 CAATTACCCAACC
18064912 CAATTACCCAACC
1 CAATTACCCAACC
18064925 CAAT
1 CAAT
18064929 AAAACTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (13 bp):
CAATTACCCAACC
Found at i:18065108 original size:9 final size:9
Alignment explanation
Indices: 18065094--18065134 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
18065084 TATTTTTCAA
*
18065094 TAATTCGGT
1 TAATTCGGG
18065103 TAATTCGGG
1 TAATTCGGG
18065112 TAATTCGGG
1 TAATTCGGG
*
18065121 TAATTCAGG
1 TAATTCGGG
18065130 TAATT
1 TAATT
18065135 TTTAACCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (9 bp):
TAATTCGGG
Found at i:18072615 original size:18 final size:22
Alignment explanation
Indices: 18072574--18072618 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 22
18072564 AAAGAAATCA
18072574 TATTTATATATAAAATTATATT
1 TATTTATATATAAAATTATATT
18072596 TATTTA-AT-TAAAATT-T-TT
1 TATTTATATATAAAATTATATT
18072614 TATTT
1 TATTT
18072619 TTATTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 7 0.30
19 1 0.04
20 7 0.30
21 2 0.09
22 6 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTTATATATAAAATTATATT
Found at i:18078570 original size:25 final size:25
Alignment explanation
Indices: 18078542--18078606 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
18078532 CTGTGCATGT
* *
18078542 ATGCTCACACGAGCTGTAAATCAGA
1 ATGCTTACACGAGCTGTAAATCAAA
* *
18078567 ATGCTTGCACGAGCTTTAAATCAAA
1 ATGCTTACACGAGCTGTAAATCAAA
*
18078592 ATGCTTACACAAGCT
1 ATGCTTACACGAGCT
18078607 ATGAAAATGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (25 bp):
ATGCTTACACGAGCTGTAAATCAAA
Found at i:18083561 original size:43 final size:43
Alignment explanation
Indices: 18083491--18083683 Score: 255
Period size: 43 Copynumber: 4.5 Consensus size: 43
18083481 TGTCTTAGAC
* ** * *
18083491 ATGGTCTTACAAGGAAATCTCGTATCGATTCCAATAGCCCAACT
1 ATGGTCTTAC-ACGAAATCTCAAATCGATGCCAATAGCCCAGCT
* *
18083535 ATTGTCTTACACGAAATCTCAAATCGATGCCAATAGCTCAGCT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
*
18083578 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCTAGCT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
**
18083621 ATGGTCTTACAAAAAATAC-CAAATCGATGCCAATAG-CCAGCT
1 ATGGTCTTACACGAAAT-CTCAAATCGATGCCAATAGCCCAGCT
*
18083663 ATGGTCTTACATGAAATCTCA
1 ATGGTCTTACACGAAATCTCA
18083684 CCTCGGAAGT
Statistics
Matches: 132, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
41 1 0.01
42 22 0.17
43 99 0.75
44 10 0.08
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
Found at i:18086324 original size:20 final size:21
Alignment explanation
Indices: 18086274--18086315 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
18086264 CCTTTCAAAT
18086274 TTTC-TTA-TTTTCACTTGCA
1 TTTCATTACTTTTCACTTGCA
18086293 TTTCATTACTTTTCA-TTGCA
1 TTTCATTACTTTTCACTTGCA
18086313 TTT
1 TTT
18086316 ACTTTCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 11 0.52
21 6 0.29
ACGTcount: A:0.17, C:0.19, G:0.05, T:0.60
Consensus pattern (21 bp):
TTTCATTACTTTTCACTTGCA
Found at i:18086987 original size:25 final size:25
Alignment explanation
Indices: 18086959--18087023 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
18086949 GTGCATGCAC
*
18086959 GCTCACACGAGCTGTAAATCAGAAT
1 GCTCACACGAGCTGTAAATCAAAAT
*
18086984 GCTCACACGAGCTGTTAATCAAAAT
1 GCTCACACGAGCTGTAAATCAAAAT
18087009 GCTCACACGAGCTGT
1 GCTCACACGAGCTGT
18087024 GAAAATGGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (25 bp):
GCTCACACGAGCTGTAAATCAAAAT
Found at i:18087048 original size:27 final size:27
Alignment explanation
Indices: 18087008--18087059 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
18086998 TTAATCAAAA
* *
18087008 TGCTCACACGAGCTGTGAAAATGGGTC
1 TGCTCACACAAGCTATGAAAATGGGTC
*
18087035 TGCTCATACAAGCTATGAAAATGGG
1 TGCTCACACAAGCTATGAAAATGGG
18087060 CCTATTCACA
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:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (27 bp):
TGCTCACACAAGCTATGAAAATGGGTC
Found at i:18092421 original size:40 final size:41
Alignment explanation
Indices: 18092366--18092466 Score: 125
Period size: 40 Copynumber: 2.5 Consensus size: 41
18092356 AATTGATATA
* * *
18092366 TGATTTGCATGTTAAGCATATTTATTGTACT-A-ATCAAATC
1 TGATTCGCATGTTAAGCATATTGAATGTACTGACAT-AAATC
*
18092406 TGATTCGCATGTTAAGCATATTGAATGTATTGACTATAAATC
1 TGATTCGCATGTTAAGCATATTGAATGTACTGAC-ATAAATC
*
18092448 TGATTCGTATGTTAAGCAT
1 TGATTCGCATGTTAAGCAT
18092467 GCCCACTGAA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
40 27 0.51
41 1 0.02
42 23 0.43
43 2 0.04
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.41
Consensus pattern (41 bp):
TGATTCGCATGTTAAGCATATTGAATGTACTGACATAAATC
Found at i:18092643 original size:63 final size:63
Alignment explanation
Indices: 18092557--18092679 Score: 169
Period size: 63 Copynumber: 2.0 Consensus size: 63
18092547 TTTACTACAA
*
18092557 TATTGAGTGGCTTGACCAGAACGTGCAGCTTG-TCTGTAATATTG-AGTGGCTTGGCCACAATGT
1 TATTGAGTGGCTTGACCAGAACGTGCAGCTTGAT-TGCAATA-TGCAGTGGCTTGGCCACAATGT
* * * *
18092620 TATTTAGTGGTTTGACCATAACGTGTAGCTTGATTGCAATATGCAGTGGCTTGGCCACAA
1 TATTGAGTGGCTTGACCAGAACGTGCAGCTTGATTGCAATATGCAGTGGCTTGGCCACAA
18092680 CATGGAGTGT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
62 2 0.04
63 50 0.94
64 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (63 bp):
TATTGAGTGGCTTGACCAGAACGTGCAGCTTGATTGCAATATGCAGTGGCTTGGCCACAATGT
Found at i:18096867 original size:11 final size:11
Alignment explanation
Indices: 18096853--18096902 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
18096843 GTAAATTGTA
18096853 TTAAATTTATG
1 TTAAATTTATG
18096864 TTAAA-TTATG
1 TTAAATTTATG
18096874 -TAAATTGTA--
1 TTAAATT-TATG
*
18096883 TTAAATTGATG
1 TTAAATTTATG
18096894 TTAAATTTA
1 TTAAATTTA
18096903 CTCGTATAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
9 5 0.16
10 12 0.38
11 15 0.47
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (11 bp):
TTAAATTTATG
Found at i:18096877 original size:30 final size:30
Alignment explanation
Indices: 18096841--18096900 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
18096831 ATTGAATTGA
*
18096841 ATGTAAATTGTATTAAATTTATGTTAAATT
1 ATGTAAATTGTATTAAATTGATGTTAAATT
18096871 ATGTAAATTGTATTAAATTGATGTTAAATT
1 ATGTAAATTGTATTAAATTGATGTTAAATT
18096901 TACTCGTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (30 bp):
ATGTAAATTGTATTAAATTGATGTTAAATT
Found at i:18097383 original size:26 final size:25
Alignment explanation
Indices: 18097354--18097413 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 25
18097344 CTTATAAGCG
*
18097354 TCTCGTTATATGGATCTTCGTGAGCT
1 TCTCGTTA-AAGGATCTTCGTGAGCT
* *
18097380 TCTCGATTAAAGGCTCTTTGTGAGCT
1 TCTCG-TTAAAGGATCTTCGTGAGCT
18097406 TCTCGTTA
1 TCTCGTTA
18097414 GTGCTCGCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 3 0.10
26 24 0.80
27 3 0.10
ACGTcount: A:0.17, C:0.20, G:0.22, T:0.42
Consensus pattern (25 bp):
TCTCGTTAAAGGATCTTCGTGAGCT
Found at i:18113560 original size:6 final size:6
Alignment explanation
Indices: 18113535--18113572 Score: 58
Period size: 6 Copynumber: 6.0 Consensus size: 6
18113525 NNTAAATGGA
18113535 TCATTT CTCATTT CTCATTT TCATTT TCATTT TCATTT
1 TCATTT -TCATTT -TCATTT TCATTT TCATTT TCATTT
18113573 CTTTTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 18 0.58
7 13 0.42
ACGTcount: A:0.16, C:0.21, G:0.00, T:0.63
Consensus pattern (6 bp):
TCATTT
Found at i:18113579 original size:12 final size:13
Alignment explanation
Indices: 18113535--18113574 Score: 64
Period size: 12 Copynumber: 3.1 Consensus size: 13
18113525 NNTAAATGGA
18113535 TCATTTCTCATTTC
1 TCATTT-TCATTTC
18113549 TCATTTTCATTT-
1 TCATTTTCATTTC
18113561 TCATTTTCATTTC
1 TCATTTTCATTTC
18113574 T
1 T
18113575 TTTTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.48
13 7 0.28
14 6 0.24
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (13 bp):
TCATTTTCATTTC
Found at i:18115827 original size:4 final size:4
Alignment explanation
Indices: 18115818--18115849 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
18115808 TTTAAACTTC
18115818 AATT AATT AATT AATT AATT AATT AA-T AATT A
1 AATT AATT AATT AATT AATT AATT AATT AATT A
18115850 GAAAAATCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
AATT
Found at i:18120573 original size:21 final size:21
Alignment explanation
Indices: 18120539--18120578 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
18120529 TATTAAAGCT
*
18120539 AGTTACAATCAAACTAAACTA
1 AGTTACAATCAAACAAAACTA
18120560 AGTTAC-ATCAAAACAAAAC
1 AGTTACAATC-AAACAAAAC
18120579 AGCAATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.55, C:0.20, G:0.05, T:0.20
Consensus pattern (21 bp):
AGTTACAATCAAACAAAACTA
Found at i:18124902 original size:21 final size:21
Alignment explanation
Indices: 18124868--18124907 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
18124858 TATTAAAGCT
*
18124868 AGTTACAATCAAACTAAACTA
1 AGTTACAATCAAACAAAACTA
18124889 AGTTAC-ATCAAAACAAAAC
1 AGTTACAATC-AAACAAAAC
18124908 AGCAATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.55, C:0.20, G:0.05, T:0.20
Consensus pattern (21 bp):
AGTTACAATCAAACAAAACTA
Found at i:18129280 original size:25 final size:25
Alignment explanation
Indices: 18129252--18129302 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
18129242 CCATCTTAAG
18129252 ATAGTTCAAAAACATTCTGCTTAGA
1 ATAGTTCAAAAACATTCTGCTTAGA
18129277 ATAGTTCAAAAACATTCTGCTTAGA
1 ATAGTTCAAAAACATTCTGCTTAGA
18129302 A
1 A
18129303 GATGTTCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (25 bp):
ATAGTTCAAAAACATTCTGCTTAGA
Found at i:18129309 original size:26 final size:26
Alignment explanation
Indices: 18129249--18129309 Score: 97
Period size: 25 Copynumber: 2.3 Consensus size: 26
18129239 GTCCCATCTT
18129249 AAGATAGTTCAAAAACATTCTGCTTAG
1 AAGAT-GTTCAAAAACATTCTGCTTAG
*
18129276 AATA-GTTCAAAAACATTCTGCTTAG
1 AAGATGTTCAAAAACATTCTGCTTAG
18129301 AAGATGTTC
1 AAGATGTTC
18129310 TTAGCAGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 24 0.77
26 4 0.13
27 3 0.10
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (26 bp):
AAGATGTTCAAAAACATTCTGCTTAG
Found at i:18142518 original size:18 final size:19
Alignment explanation
Indices: 18142495--18142546 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
18142485 ATAAAAATTG
18142495 AAAAAAATTATAAATTACAA
1 AAAAAAATTATAAATTAC-A
**
18142515 AAAAAAATTATAAATTGTA
1 AAAAAAATTATAAATTACA
18142534 AAAAAAA-TATAAA
1 AAAAAAATTATAAA
18142547 AATTATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 6 0.20
19 8 0.27
20 16 0.53
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAAAAATTATAAATTACA
Found at i:18142520 original size:20 final size:20
Alignment explanation
Indices: 18142495--18142540 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
18142485 ATAAAAATTG
18142495 AAAAAAATTATAAATTACAA
1 AAAAAAATTATAAATTACAA
**
18142515 AAAAAAATTATAAATTGTAA
1 AAAAAAATTATAAATTACAA
18142535 AAAAAA
1 AAAAAA
18142541 TATAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (20 bp):
AAAAAAATTATAAATTACAA
Found at i:18142529 original size:27 final size:28
Alignment explanation
Indices: 18142482--18142566 Score: 77
Period size: 27 Copynumber: 3.0 Consensus size: 28
18142472 AGACTTTTTC
* *
18142482 AATATAAAAATTGAAAAAAATTATAAATTACA
1 AATATAAAAATT--ATAAAATTATAAA--AAA
*
18142514 AA-A-AAAAATTAT-AAATTGTAAAAAA
1 AATATAAAAATTATAAAATTATAAAAAA
*
18142539 AATATAAAAATTATAAAATTATTAAAAA
1 AATATAAAAATTATAAAATTATAAAAAA
18142567 TTATGTAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
25 4 0.09
26 1 0.02
27 18 0.40
28 12 0.27
30 7 0.16
31 1 0.02
32 2 0.04
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.28
Consensus pattern (28 bp):
AATATAAAAATTATAAAATTATAAAAAA
Found at i:18142549 original size:20 final size:20
Alignment explanation
Indices: 18142482--18142556 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
18142472 AGACTTTTTC
*
18142482 AATATAAAAA-T-TGAAAAA
1 AATATAAAAATTATAAAAAA
* *
18142500 AAT-TATAAATTACAAAAAA
1 AATATAAAAATTATAAAAAA
* *
18142519 AA-ATTATAAATTGTAAAAAA
1 AATA-TAAAAATTATAAAAAA
18142539 AATATAAAAATTATAAAA
1 AATATAAAAATTATAAAA
18142557 TTATTAAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
17 5 0.11
18 4 0.09
19 7 0.16
20 28 0.62
21 1 0.02
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (20 bp):
AATATAAAAATTATAAAAAA
Found at i:18142556 original size:18 final size:18
Alignment explanation
Indices: 18142482--18142569 Score: 63
Period size: 18 Copynumber: 4.7 Consensus size: 18
18142472 AGACTTTTTC
*
18142482 AATATAAAAATTGAAAAA
1 AATATAAAAATTAAAAAA
*
18142500 AAT-TATAAATTACAAAAA
1 AATATAAAAATTA-AAAAA
* *
18142518 AAAATTATAAATTGTAAAAAA
1 AATA-TA-AAAAT-TAAAAAA
*
18142539 AATATAAAAATT-ATAAA
1 AATATAAAAATTAAAAAA
*
18142556 ATTATTAAAAATTA
1 AATA-TAAAAATTA
18142570 TGTAAAAGAG
Statistics
Matches: 54, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
17 14 0.26
18 19 0.35
19 4 0.07
20 4 0.07
21 11 0.20
22 2 0.04
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.30
Consensus pattern (18 bp):
AATATAAAAATTAAAAAA
Found at i:18142761 original size:10 final size:10
Alignment explanation
Indices: 18142735--18142845 Score: 68
Period size: 10 Copynumber: 11.0 Consensus size: 10
18142725 CCATAAAAAA
*
18142735 TATAATTTGT
1 TATAATTTTT
**
18142745 TAT-ATTTCA
1 TATAATTTTT
18142754 TATAATTTTT
1 TATAATTTTT
18142764 TATAATTTTT
1 TATAATTTTT
*
18142774 TATAATTTTC
1 TATAATTTTT
*
18142784 TAAAATTCTATATT
1 TATAA-T-T-T-TT
* *
18142798 TGTCATTTTT
1 TATAATTTTT
* *
18142808 AATAATTTTC
1 TATAATTTTT
18142818 TAGT-A-TTTT
1 TA-TAATTTTT
18142827 TAT-ATTTTT
1 TATAATTTTT
18142836 TATAATTTTT
1 TATAATTTTT
18142846 AAAAAATCTC
Statistics
Matches: 77, Mismatches: 16, Indels: 16
0.71 0.15 0.15
Matches are distributed among these distances:
8 2 0.03
9 19 0.25
10 46 0.60
11 3 0.04
12 2 0.03
13 2 0.03
14 3 0.04
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.63
Consensus pattern (10 bp):
TATAATTTTT
Found at i:18142777 original size:20 final size:20
Alignment explanation
Indices: 18142735--18142845 Score: 68
Period size: 19 Copynumber: 5.5 Consensus size: 20
18142725 CCATAAAAAA
* **
18142735 TATAATTTGTTAT-ATTTCA
1 TATAATTTTTTATAATTTTT
18142754 TATAATTTTTTATAATTTTT
1 TATAATTTTTTATAATTTTT
* *
18142774 TATAATTTTCTAAAATTCTATATT
1 TATAATTTTTTATAA-T-T-T-TT
* * * *
18142798 TGTCATTTTTAATAATTTTC
1 TATAATTTTTTATAATTTTT
18142818 TAGT-A-TTTTTAT-ATTTTT
1 TA-TAATTTTTTATAATTTTT
18142836 TATAATTTTT
1 TATAATTTTT
18142846 AAAAAATCTC
Statistics
Matches: 70, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
17 1 0.01
18 8 0.11
19 22 0.31
20 20 0.29
21 3 0.04
22 2 0.03
23 2 0.03
24 12 0.17
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.63
Consensus pattern (20 bp):
TATAATTTTTTATAATTTTT
Found at i:18142782 original size:8 final size:9
Alignment explanation
Indices: 18142735--18142846 Score: 56
Period size: 9 Copynumber: 12.2 Consensus size: 9
18142725 CCATAAAAAA
18142735 TATAATTTGT
1 TATAATTT-T
*
18142745 TAT-ATTTCA
1 TATAATTT-T
18142754 TATAATTTTT
1 TATAA-TTTT
18142764 TATAATTTTT
1 TATAA-TTTT
18142774 TATAATTTT
1 TATAATTTT
* *
18142783 CTA-AAATTC
1 -TATAATTTT
18142792 TAT-ATTTGT
1 TATAATTT-T
*
18142801 CAT--TTTT
1 TATAATTTT
*
18142808 AATAATTTT
1 TATAATTTT
18142817 CTAGT-ATTTT
1 -TA-TAATTTT
*
18142827 TATATTTTT
1 TATAATTTT
18142836 TATAATTTT
1 TATAATTTT
18142845 TA
1 TA
18142847 AAAAATCTCT
Statistics
Matches: 80, Mismatches: 12, Indels: 21
0.71 0.11 0.19
Matches are distributed among these distances:
7 3 0.04
8 9 0.11
9 37 0.46
10 27 0.34
11 4 0.05
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.62
Consensus pattern (9 bp):
TATAATTTT
Found at i:18142875 original size:25 final size:26
Alignment explanation
Indices: 18142830--18142892 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 26
18142820 GTATTTTTAT
*
18142830 ATTT-TTTATAATTTTTAAAAAATCT-
1 ATTTATTT-TAATTTTCAAAAAATCTA
* * *
18142855 CTTTATTTTAATTTTCCAAAATTCTA
1 ATTTATTTTAATTTTCAAAAAATCTA
18142881 ATTTATTTTAAT
1 ATTTATTTTAAT
18142893 AATTATATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
25 17 0.55
26 14 0.45
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTTATTTTAATTTTCAAAAAATCTA
Found at i:18143207 original size:9 final size:9
Alignment explanation
Indices: 18143195--18143228 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
18143185 ATTTTCTATT
18143195 TTTTTTAAA
1 TTTTTTAAA
*
18143204 TTTTTTATA
1 TTTTTTAAA
18143213 TTTTTGTAAA
1 TTTTT-TAAA
18143223 TTTTTT
1 TTTTTT
18143229 TATAACTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:18143216 original size:19 final size:18
Alignment explanation
Indices: 18143185--18143228 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
18143175 TTAAAATTCT
* *
18143185 ATTTTCTATTTTTTTTAA
1 ATTTTTTATTTTTTGTAA
18143203 ATTTTTTATATTTTTGTAA
1 ATTTTTTAT-TTTTTGTAA
18143222 ATTTTTT
1 ATTTTTT
18143229 TATAACTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTTTTATTTTTTGTAA
Found at i:18143582 original size:26 final size:27
Alignment explanation
Indices: 18143553--18143622 Score: 70
Period size: 32 Copynumber: 2.4 Consensus size: 27
18143543 TATATTAAAC
18143553 CAAATT-TAAAATATATTAACTTCTAA
1 CAAATTATAAAATATATTAACTTCTAA
*
18143579 CAAATTCAAAAACTAAATATATTAACTTCTAA
1 CAAATT---ATA--AAATATATTAACTTCTAA
*
18143611 CAAATTCTAAAA
1 CAAATTATAAAA
18143623 CTTCAAAAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 11
0.71 0.06 0.22
Matches are distributed among these distances:
26 6 0.17
27 3 0.09
29 1 0.03
30 1 0.03
32 24 0.69
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (27 bp):
CAAATTATAAAATATATTAACTTCTAA
Found at i:18143602 original size:32 final size:32
Alignment explanation
Indices: 18143561--18143624 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
18143551 ACCAAATTTA
18143561 AAATATATTAACTTCTAACAAATTCAAAAACT
1 AAATATATTAACTTCTAACAAATTCAAAAACT
*
18143593 AAATATATTAACTTCTAACAAATTCTAAAACT
1 AAATATATTAACTTCTAACAAATTCAAAAACT
18143625 TCAAAAACAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.33
Consensus pattern (32 bp):
AAATATATTAACTTCTAACAAATTCAAAAACT
Found at i:18150066 original size:25 final size:25
Alignment explanation
Indices: 18150025--18150081 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
18150015 ACAATCCATG
** * *
18150025 TAAATCATGTATTTCATGTAACTTT
1 TAAATCATGTAAATCATATAACATT
18150050 TAAATCATGTAAATCATATAACATT
1 TAAATCATGTAAATCATATAACATT
*
18150075 TATATCA
1 TAAATCA
18150082 ATTCTTTCCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (25 bp):
TAAATCATGTAAATCATATAACATT
Found at i:18150409 original size:23 final size:23
Alignment explanation
Indices: 18150319--18150410 Score: 98
Period size: 23 Copynumber: 3.9 Consensus size: 23
18150309 GAGCCATGAT
*
18150319 CGGTAAGCTCATTCCGAGCTGATAAA
1 CGGTAAGCTCA-TACGAGCTG--AAA
18150345 CGGTAAGCTC-TATCGAGCTGAAA
1 CGGTAAGCTCATA-CGAGCTGAAA
*
18150368 CGGTAAGCTCCGTA-GAGCTGAAA
1 CGGTAAGCT-CATACGAGCTGAAA
*
18150391 CGGTAAGCTCATACAAGCTG
1 CGGTAAGCTCATACGAGCTG
18150411 TGGTGAGTCC
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
22 3 0.05
23 35 0.59
24 2 0.03
25 9 0.15
26 10 0.17
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (23 bp):
CGGTAAGCTCATACGAGCTGAAA
Found at i:18154879 original size:9 final size:9
Alignment explanation
Indices: 18154865--18154901 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
18154855 TGAGGAACTT
18154865 AAAATTTTA
1 AAAATTTTA
18154874 AAAATTTTA
1 AAAATTTTA
* *
18154883 AAAATCTTC
1 AAAATTTTA
18154892 AAAATTTTA
1 AAAATTTTA
18154901 A
1 A
18154902 TTTTTTTATC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (9 bp):
AAAATTTTA
Found at i:18157263 original size:31 final size:32
Alignment explanation
Indices: 18157228--18157300 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
18157218 TATTCGAGTT
18157228 AATCAAGTTATTT-GGACTAACTCGAATAAAA
1 AATCAAGTTATTTCGGACTAACTCGAATAAAA
* * *
18157259 AATCAA-TTTTTTCTGATTAACTCGAATAAAA
1 AATCAAGTTATTTCGGACTAACTCGAATAAAA
* *
18157290 ATTCGAGTTAT
1 AATCAAGTTAT
18157301 CTGAAAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
30 5 0.15
31 26 0.76
32 3 0.09
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (32 bp):
AATCAAGTTATTTCGGACTAACTCGAATAAAA
Found at i:18160966 original size:20 final size:19
Alignment explanation
Indices: 18160927--18160964 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
18160917 AATACGTTTA
18160927 GTTTTTTTTTTATTTTTTT
1 GTTTTTTTTTTATTTTTTT
18160946 GTTTTTTTTTTATTTTTTT
1 GTTTTTTTTTTATTTTTTT
18160965 TGAAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.05, C:0.00, G:0.05, T:0.89
Consensus pattern (19 bp):
GTTTTTTTTTTATTTTTTT
Found at i:18163232 original size:23 final size:23
Alignment explanation
Indices: 18163201--18163252 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
18163191 AAAAATAAAC
*
18163201 TTTTAAATATTT-TTTATTTTAAT
1 TTTTAAATATTTATTT-TTTGAAT
*
18163224 TTTTTAATATTTATTTTTTGAAT
1 TTTTAAATATTTATTTTTTGAAT
18163247 TTTTAA
1 TTTTAA
18163253 GAATCAAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 22 0.88
24 3 0.12
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (23 bp):
TTTTAAATATTTATTTTTTGAAT
Found at i:18163251 original size:15 final size:14
Alignment explanation
Indices: 18163208--18163251 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
18163198 AACTTTTAAA
18163208 TATTTTTT-ATTTT
1 TATTTTTTAATTTT
* *
18163221 AATTTTTTAATATT
1 TATTTTTTAATTTT
18163235 TATTTTTTGAATTTT
1 TATTTTTT-AATTTT
18163250 TA
1 TA
18163252 AGAATCAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 7 0.28
14 11 0.44
15 7 0.28
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (14 bp):
TATTTTTTAATTTT
Found at i:18164959 original size:11 final size:11
Alignment explanation
Indices: 18164895--18164960 Score: 50
Period size: 11 Copynumber: 5.9 Consensus size: 11
18164885 AAACTAATCC
18164895 TCTCTCAACTATT
1 TCTCTCAA--ATT
18164908 T-TCTC-AATT
1 TCTCTCAAATT
18164917 TCCTCTC-AATT
1 T-CTCTCAAATT
18164928 TGCTCTCAAATT
1 T-CTCTCAAATT
*
18164940 CCT-TCCAAATT
1 TCTCT-CAAATT
18164951 TCTCTCAAAT
1 TCTCTCAAAT
18164961 CTATGTTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
9 4 0.09
10 1 0.02
11 30 0.67
12 9 0.20
13 1 0.02
ACGTcount: A:0.24, C:0.30, G:0.02, T:0.44
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:18167421 original size:22 final size:22
Alignment explanation
Indices: 18167393--18167458 Score: 114
Period size: 22 Copynumber: 3.0 Consensus size: 22
18167383 TTTAATTGAC
*
18167393 AAACCCTAAACCCTTAACTTAG
1 AAACCCTAAACCCTTAACTTAA
*
18167415 AACCCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
18167437 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
18167459 CTTAAAAACC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.42, C:0.33, G:0.02, T:0.23
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACTTAA
Found at i:18167498 original size:14 final size:15
Alignment explanation
Indices: 18167463--18167495 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
18167453 ACTTAACTTA
18167463 AAAACCCCATAACCT
1 AAAACCCCATAACCT
18167478 AAAACCCC-TAACACT
1 AAAACCCCATAAC-CT
18167493 AAA
1 AAA
18167496 CCCTAAACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.52, C:0.36, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAACCCCATAACCT
Found at i:18170935 original size:124 final size:125
Alignment explanation
Indices: 18170629--18171191 Score: 894
Period size: 125 Copynumber: 4.5 Consensus size: 125
18170619 CCCAAACATG
** * * * * * *
18170629 CTACTATAAAAAAAGCGCGTCGACGTGGGCGCGATTTCACAAATTCTTTTGATAAAGTATCATGC
1 CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
18170694 TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGGAC
66 TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGGAC
*
18170754 CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTCTTCTCATAAAGCATCCTGC
1 CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* *
18170819 TTGAAGCGTTTTTATACTATTTGCTCAGAAATGTCAACTCGAAATTATTTTTT-CAAGAC
66 TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGGAC
* * *
18170878 CTACTGTAGCAAATGAGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
18170943 TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGGAC
66 TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGGAC
* * * *
18171003 CTACTATAGCAAAAGCGCGTACACGAGGGTGCGATTTCACAAATGCTTATCATAAAGCATCCTGC
1 CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
*
18171068 TTGAAGCGTTTTTTTATACTATGTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGGAC
66 TTGAAGCG--TTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGGAC
* * * *
18171130 CTACTGTAGCAAAAGCGCGTCCACAAGGGCGAGATTTCACAAATTCCTCTCATAAAGCATCC
1 CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCC
18171192 CCAGGGGCGC
Statistics
Matches: 402, Mismatches: 33, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
124 118 0.29
125 179 0.45
127 105 0.26
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (125 bp):
CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGGAC
Found at i:18172437 original size:44 final size:43
Alignment explanation
Indices: 18172387--18172479 Score: 118
Period size: 43 Copynumber: 2.1 Consensus size: 43
18172377 ATTATTAAAA
*
18172387 ATAATTTAATAAAATAAAAATAAATACTTT-A-AACATATTTTAAT
1 ATAATTTAAT-AAA-AAAAATAAATAATTTAATAACAT-TTTTAAT
* *
18172431 ATAATTTAATAAAAATAATATATAATTTAATAACATTTTTAAT
1 ATAATTTAATAAAAAAAATAAATAATTTAATAACATTTTTAAT
18172474 ATAATT
1 ATAATT
18172480 ATTGTTATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
42 12 0.27
43 17 0.39
44 15 0.34
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (43 bp):
ATAATTTAATAAAAAAAATAAATAATTTAATAACATTTTTAAT
Found at i:18172521 original size:33 final size:32
Alignment explanation
Indices: 18172478--18172869 Score: 263
Period size: 33 Copynumber: 13.0 Consensus size: 32
18172468 TTTAATATAA
18172478 TTATTGTTATATTAAATTATATTAAAATATTTT
1 TTATT-TTATATTAAATTATATTAAAATATTTT
* *
18172511 TTAGTTTTATATCAAATTATTTTAAAATA--TT
1 TTA-TTTTATATTAAATTATATTAAAATATTTT
* **
18172542 TTATTTTGA-ATT--A-TAT-TTTAAA-ATTAA
1 TTATTTT-ATATTAAATTATATTAAAATATTTT
*
18172569 ATATTTTATATTAAATTATATTAAAATATTTT
1 TTATTTTATATTAAATTATATTAAAATATTTT
* *
18172601 TTAGTTTTATATCAAATTATTTTAAAATA--TT
1 TTA-TTTTATATTAAATTATATTAAAATATTTT
* **
18172632 TTATTTTGA-ATT--A-TAT-TTTAAA-ATTAA
1 TTATTTT-ATATTAAATTATATTAAAATATTTT
*
18172659 ATATTTTATATTAAATTATATTAAAATATTTT
1 TTATTTTATATTAAATTATATTAAAATATTTT
* *
18172691 TTAGTTTTATATCAAATTATTTTAAAATA--TT
1 TTA-TTTTATATTAAATTATATTAAAATATTTT
* **
18172722 TTATTTTGA-ATT--A-TAT-TTTAAA-ATTAA
1 TTATTTT-ATATTAAATTATATTAAAATATTTT
*
18172749 ATATTTTATATTAAATTATATTAAAATATTTT
1 TTATTTTATATTAAATTATATTAAAATATTTT
* *
18172781 TTAGTTTTATATCAAATTATTTTAAAATA--TT
1 TTA-TTTTATATTAAATTATATTAAAATATTTT
* **
18172812 TTATTTTGA-ATT--A-TAT-TTTAAA-ATTAA
1 TTATTTT-ATATTAAATTATATTAAAATATTTT
*
18172839 ATATTTTATATTAAATTATATTAAAATATTT
1 TTATTTTATATTAAATTATATTAAAATATTT
18172870 CAAATATTTT
Statistics
Matches: 277, Mismatches: 42, Indels: 81
0.69 0.10 0.20
Matches are distributed among these distances:
25 4 0.01
26 24 0.09
27 48 0.17
28 4 0.01
29 4 0.01
30 36 0.13
31 44 0.16
32 18 0.06
33 93 0.34
34 2 0.01
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (32 bp):
TTATTTTATATTAAATTATATTAAAATATTTT
Found at i:18172574 original size:15 final size:15
Alignment explanation
Indices: 18172554--18172595 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
18172544 ATTTTGAATT
18172554 ATATTTTAAAATTAA
1 ATATTTTAAAATTAA
*
18172569 ATATTTT-ATATTAA
1 ATATTTTAAAATTAA
*
18172583 ATTATATTAAAAT
1 A-TATTTTAAAAT
18172596 ATTTTTTAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 7 0.32
15 12 0.55
16 3 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATTTTAAAATTAA
Found at i:18172578 original size:90 final size:90
Alignment explanation
Indices: 18172479--18172869 Score: 773
Period size: 90 Copynumber: 4.3 Consensus size: 90
18172469 TTAATATAAT
18172479 TATTGTTATATTAAATTATATTAAAATATTTTTTAGTTTTATATCAAATTATTTTAAAATATTTT
1 TATT-TTATATTAAATTATATTAAAATATTTTTTAGTTTTATATCAAATTATTTTAAAATATTTT
18172544 ATTTTGAATTATATTTTAAAATTAAA
65 ATTTTGAATTATATTTTAAAATTAAA
18172570 TATTTTATATTAAATTATATTAAAATATTTTTTAGTTTTATATCAAATTATTTTAAAATATTTTA
1 TATTTTATATTAAATTATATTAAAATATTTTTTAGTTTTATATCAAATTATTTTAAAATATTTTA
18172635 TTTTGAATTATATTTTAAAATTAAA
66 TTTTGAATTATATTTTAAAATTAAA
18172660 TATTTTATATTAAATTATATTAAAATATTTTTTAGTTTTATATCAAATTATTTTAAAATATTTTA
1 TATTTTATATTAAATTATATTAAAATATTTTTTAGTTTTATATCAAATTATTTTAAAATATTTTA
18172725 TTTTGAATTATATTTTAAAATTAAA
66 TTTTGAATTATATTTTAAAATTAAA
18172750 TATTTTATATTAAATTATATTAAAATATTTTTTAGTTTTATATCAAATTATTTTAAAATATTTTA
1 TATTTTATATTAAATTATATTAAAATATTTTTTAGTTTTATATCAAATTATTTTAAAATATTTTA
18172815 TTTTGAATTATATTTTAAAATTAAA
66 TTTTGAATTATATTTTAAAATTAAA
18172840 TATTTTATATTAAATTATATTAAAATATTT
1 TATTTTATATTAAATTATATTAAAATATTT
18172870 CAAATATTTT
Statistics
Matches: 300, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
90 296 0.99
91 4 0.01
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.55
Consensus pattern (90 bp):
TATTTTATATTAAATTATATTAAAATATTTTTTAGTTTTATATCAAATTATTTTAAAATATTTTA
TTTTGAATTATATTTTAAAATTAAA
Found at i:18172664 original size:15 final size:15
Alignment explanation
Indices: 18172644--18172685 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
18172634 ATTTTGAATT
18172644 ATATTTTAAAATTAA
1 ATATTTTAAAATTAA
*
18172659 ATATTTT-ATATTAA
1 ATATTTTAAAATTAA
*
18172673 ATTATATTAAAAT
1 A-TATTTTAAAAT
18172686 ATTTTTTAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 7 0.32
15 12 0.55
16 3 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATTTTAAAATTAA
Found at i:18172754 original size:15 final size:15
Alignment explanation
Indices: 18172734--18172775 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
18172724 ATTTTGAATT
18172734 ATATTTTAAAATTAA
1 ATATTTTAAAATTAA
*
18172749 ATATTTT-ATATTAA
1 ATATTTTAAAATTAA
*
18172763 ATTATATTAAAAT
1 A-TATTTTAAAAT
18172776 ATTTTTTAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 7 0.32
15 12 0.55
16 3 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATTTTAAAATTAA
Found at i:18172844 original size:15 final size:15
Alignment explanation
Indices: 18172824--18172865 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
18172814 ATTTTGAATT
18172824 ATATTTTAAAATTAA
1 ATATTTTAAAATTAA
*
18172839 ATATTTT-ATATTAA
1 ATATTTTAAAATTAA
*
18172853 ATTATATTAAAAT
1 A-TATTTTAAAAT
18172866 ATTTCAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 7 0.32
15 12 0.55
16 3 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATTTTAAAATTAA
Found at i:18174494 original size:76 final size:75
Alignment explanation
Indices: 18174253--18174507 Score: 252
Period size: 75 Copynumber: 3.4 Consensus size: 75
18174243 TTGCTTCTCA
* * * * * * * *
18174253 TTTTTTGGTAAATTGTTAGTAAGTATATATTATTGATGTAAAATACGGTAGAATATAATATAAAC
1 TTTTTTTGTAGATTGTAAATAAGTATATATTATTGATATAAAATACGATAGAATACAATACAAAC
*
18174318 AATTTTTTAT
66 AATTTTTAAT
* * *
18174328 TTTTTTCGTAGGTTGTAAATAAG--TATATTATT-A-AGAAGACATACGATAGAATACAATACAA
1 TTTTTTTGTAGATTGTAAATAAGTATATATTATTGATATAA-A-ATACGATAGAATACAATACAA
* ** *
18174389 GCCTTTTTTTAAC
64 -ACAATTTTTAAT
* * *
18174402 TTTTTTTATAGATTGTAAATAAGTATATATTATTGATATAAAATA-AATATAATACAATACAAAC
1 TTTTTTTGTAGATTGTAAATAAGTATATATTATTGATATAAAATACGATAGAATACAATACAAAC
18174466 AATTTTTAAAT
66 AATTTTT-AAT
18174477 TTTATTTTGTAGATTGTAAATAAGTAT-TATT
1 TTT-TTTTGTAGATTGTAAATAAGTATATATT
18174508 GATGCAAAAT
Statistics
Matches: 145, Mismatches: 26, Indels: 18
0.77 0.14 0.10
Matches are distributed among these distances:
71 2 0.01
72 2 0.01
73 27 0.19
74 33 0.23
75 42 0.29
76 34 0.23
77 2 0.01
78 3 0.02
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.44
Consensus pattern (75 bp):
TTTTTTTGTAGATTGTAAATAAGTATATATTATTGATATAAAATACGATAGAATACAATACAAAC
AATTTTTAAT
Found at i:18174985 original size:18 final size:19
Alignment explanation
Indices: 18174962--18175003 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
18174952 TATTATTATT
*
18174962 TTTGAA-TAATTGTTTCTA
1 TTTGAAGTAAATGTTTCTA
18174980 TTTGAAGTTAAATGTTTCTA
1 TTTGAAG-TAAATGTTTCTA
18175000 TTTG
1 TTTG
18175004 TATTGTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
20 15 0.71
ACGTcount: A:0.26, C:0.05, G:0.14, T:0.55
Consensus pattern (19 bp):
TTTGAAGTAAATGTTTCTA
Found at i:18178947 original size:141 final size:141
Alignment explanation
Indices: 18178794--18179078 Score: 570
Period size: 141 Copynumber: 2.0 Consensus size: 141
18178784 TAGCTTTTCA
18178794 CATTTCATTTCATATTTCATTGTACAATTGCAATATTCATTCCATAGTCATTTCATGAGTATATA
1 CATTTCATTTCATATTTCATTGTACAATTGCAATATTCATTCCATAGTCATTTCATGAGTATATA
18178859 ACTCATATATTCCATATATTTAGAACATATTTCACATTCTATTTTCAATTCACTATTTCACTTCC
66 ACTCATATATTCCATATATTTAGAACATATTTCACATTCTATTTTCAATTCACTATTTCACTTCC
18178924 ATTTCTCATAC
131 ATTTCTCATAC
18178935 CATTTCATTTCATATTTCATTGTACAATTGCAATATTCATTCCATAGTCATTTCATGAGTATATA
1 CATTTCATTTCATATTTCATTGTACAATTGCAATATTCATTCCATAGTCATTTCATGAGTATATA
18179000 ACTCATATATTCCATATATTTAGAACATATTTCACATTCTATTTTCAATTCACTATTTCACTTCC
66 ACTCATATATTCCATATATTTAGAACATATTTCACATTCTATTTTCAATTCACTATTTCACTTCC
18179065 ATTTCTCATAC
131 ATTTCTCATAC
18179076 CAT
1 CAT
18179079 ACCGTTTCAA
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
141 144 1.00
ACGTcount: A:0.31, C:0.21, G:0.04, T:0.45
Consensus pattern (141 bp):
CATTTCATTTCATATTTCATTGTACAATTGCAATATTCATTCCATAGTCATTTCATGAGTATATA
ACTCATATATTCCATATATTTAGAACATATTTCACATTCTATTTTCAATTCACTATTTCACTTCC
ATTTCTCATAC
Found at i:18183617 original size:16 final size:16
Alignment explanation
Indices: 18183598--18183638 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
18183588 AATTTGATAC
18183598 AATTTTAATAACAATT
1 AATTTTAATAACAATT
18183614 AATTTTAATAACAATT
1 AATTTTAATAACAATT
18183630 AATTTTAAT
1 AATTTTAAT
18183639 TTTAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (16 bp):
AATTTTAATAACAATT
Found at i:18183637 original size:22 final size:23
Alignment explanation
Indices: 18183612--18183673 Score: 99
Period size: 22 Copynumber: 2.7 Consensus size: 23
18183602 TTAATAACAA
*
18183612 TTAATTTTAATAACAAT-TAATT
1 TTAATTTTAATAAAAATATAATT
18183634 TTAATTTTAATAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
18183657 TTAATTTTAATTAAAAA
1 TTAATTTTAA-TAAAAA
18183674 ATGATCCGGG
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
22 16 0.43
23 15 0.41
24 6 0.16
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:18197458 original size:24 final size:25
Alignment explanation
Indices: 18197431--18197477 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
18197421 ATTAATTTGT
*
18197431 AAGTTGAAT-TATTATTCTGTATTA
1 AAGTTAAATGTATTATTCTGTATTA
* *
18197455 AAGTTAAATGTTTTATTTTGTAT
1 AAGTTAAATGTATTATTCTGTAT
18197478 CGTAACACTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.32, C:0.02, G:0.13, T:0.53
Consensus pattern (25 bp):
AAGTTAAATGTATTATTCTGTATTA
Found at i:18198604 original size:25 final size:24
Alignment explanation
Indices: 18198576--18198622 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
18198566 ATTTCACGAA
*
18198576 ATTGTTAAAGTTTTGAAATTTTTTC
1 ATTGATAAAG-TTTGAAATTTTTTC
* *
18198601 ATTGATAATGTTTGAAGTTTTT
1 ATTGATAAAGTTTGAAATTTTT
18198623 AATGATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.28, C:0.02, G:0.15, T:0.55
Consensus pattern (24 bp):
ATTGATAAAGTTTGAAATTTTTTC
Found at i:18203167 original size:46 final size:44
Alignment explanation
Indices: 18203114--18203219 Score: 117
Period size: 45 Copynumber: 2.4 Consensus size: 44
18203104 AGAATGAATG
* * **
18203114 GAAATGGAGAAATAGAAAACATTTATAAATGGTTATGGTTTTCTCC
1 GAAATGGAGAAAT-GAAAACATGTAGAAATGAATATGGTTTTCT-C
* * *
18203160 GAAATGGAGAAATGAAATCATGTGGAAATGAATGTGGTTTTCTC
1 GAAATGGAGAAATGAAAACATGTAGAAATGAATATGGTTTTCTC
18203204 GAAAT-G-GAAATGAAAA
1 GAAATGGAGAAATGAAAA
18203220 TGAGAAATAA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
42 9 0.17
43 1 0.02
44 6 0.12
45 23 0.44
46 13 0.25
ACGTcount: A:0.42, C:0.07, G:0.24, T:0.28
Consensus pattern (44 bp):
GAAATGGAGAAATGAAAACATGTAGAAATGAATATGGTTTTCTC
Found at i:18206299 original size:20 final size:20
Alignment explanation
Indices: 18206274--18206319 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
18206264 TGTAAAGAAA
*
18206274 GGTGCCACTGATTGCACTCC
1 GGTGCCACTAATTGCACTCC
* *
18206294 GGTGCCTCTAATTGCACTTC
1 GGTGCCACTAATTGCACTCC
18206314 GGTGCC
1 GGTGCC
18206320 CTTATTTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.13, C:0.33, G:0.26, T:0.28
Consensus pattern (20 bp):
GGTGCCACTAATTGCACTCC
Found at i:18210685 original size:262 final size:262
Alignment explanation
Indices: 18210220--18211008 Score: 1542
Period size: 262 Copynumber: 3.0 Consensus size: 262
18210210 GAGTATGTTC
*
18210220 TATTCAGATTACTTTATCAGTTTTTCACTGCATTCTACTAATTGACAGAAGAAGTATGTTCTATT
1 TATTCAGATTACTTTATCAGTTTTTCATTGCATTCTACTAATTGACAGAAGAAGTATGTTCTATT
*
18210285 TGATTTAAATAACATTCATAAAACAGCAAGATCAAAGGGTACACAGGTAATGTTGTTTCAGTGGC
66 TGATTTAAATAACATTCATAAAACAGCAAGATCAAAGGGTACACAGGTAATGTTGTTTCGGTGGC
18210350 AACATAAAGAACATTACAACACAACTGATATTGTTTTTTCTGCATTTATAACTTTCTTACCATAA
131 AACATAAAGAACATTACAACACAACTGATATTGTTTTTTCTGCATTTATAACTTTCTTACCATAA
18210415 CTGAGGTTTGGAGAAATAACTATGTAGTTTGAAGGTATAATTGCTTGTTATGCAGATTGATGTGT
196 CTGAGGTTTGGAGAAATAACTATGTAGTTTGAAGGTATAATTGCTTGTTATGCAGATTGATGTGT
18210480 AA
261 AA
18210482 TATTCAGATTACTTTATCAGTTTTTCATTGCATTCTACTAATTGACAGAAGAAGTATGTTCTATT
1 TATTCAGATTACTTTATCAGTTTTTCATTGCATTCTACTAATTGACAGAAGAAGTATGTTCTATT
18210547 TGATTTAAATAACATTCATAAAACAGCAAGATCAAAGGGTACACAGGTAATGTTGTTTCGGTGGC
66 TGATTTAAATAACATTCATAAAACAGCAAGATCAAAGGGTACACAGGTAATGTTGTTTCGGTGGC
18210612 AACATAAAGAACATTACAACACAACTGATATTGTTTTTTCTGCATTTATAACTTTCTTACCATAA
131 AACATAAAGAACATTACAACACAACTGATATTGTTTTTTCTGCATTTATAACTTTCTTACCATAA
18210677 CTGAGGTTTGGAGAAATAACTATGTAGTTTGAAGGTATAATTGCTTGTTATGCAGATTGATGTGT
196 CTGAGGTTTGGAGAAATAACTATGTAGTTTGAAGGTATAATTGCTTGTTATGCAGATTGATGTGT
18210742 AA
261 AA
18210744 TATTCAGATTACTTTATCAGTTTTTCATTGCATTCTACTAATTGACAGAAGAAGTATGTTCTATT
1 TATTCAGATTACTTTATCAGTTTTTCATTGCATTCTACTAATTGACAGAAGAAGTATGTTCTATT
18210809 TGATTTAAATAACATTCATAAAACAGCAAGATCAAAGGGTACACAGGTAATGTTGTTTCGGTGGC
66 TGATTTAAATAACATTCATAAAACAGCAAGATCAAAGGGTACACAGGTAATGTTGTTTCGGTGGC
* *
18210874 AACATAAAGAACATTACAACACAACTGTTATTGTTTTTTCTGCATTTATAACTTTCTTAACATAA
131 AACATAAAGAACATTACAACACAACTGATATTGTTTTTTCTGCATTTATAACTTTCTTACCATAA
18210939 CTGAGGTTTGGAGAAATAACTATGTAGTTTGAAGGTATAATTGCTTGTTATGCAGATTGATGTGT
196 CTGAGGTTTGGAGAAATAACTATGTAGTTTGAAGGTATAATTGCTTGTTATGCAGATTGATGTGT
18211004 AA
261 AA
18211006 TAT
1 TAT
18211009 GGAGAAGCTT
Statistics
Matches: 523, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
262 523 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.37
Consensus pattern (262 bp):
TATTCAGATTACTTTATCAGTTTTTCATTGCATTCTACTAATTGACAGAAGAAGTATGTTCTATT
TGATTTAAATAACATTCATAAAACAGCAAGATCAAAGGGTACACAGGTAATGTTGTTTCGGTGGC
AACATAAAGAACATTACAACACAACTGATATTGTTTTTTCTGCATTTATAACTTTCTTACCATAA
CTGAGGTTTGGAGAAATAACTATGTAGTTTGAAGGTATAATTGCTTGTTATGCAGATTGATGTGT
AA
Found at i:18217578 original size:24 final size:25
Alignment explanation
Indices: 18217550--18217607 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
18217540 TTCCTAATTA
*
18217550 ATTGGCTCTCCGGAA-CTTCCCGAT
1 ATTGGCTCGCCGGAACCTTCCCGAT
**
18217574 ATTGGCTCGCTTGAACCTTCCCGAT
1 ATTGGCTCGCCGGAACCTTCCCGAT
18217599 ATTGGCTCG
1 ATTGGCTCG
18217608 TATGAGCTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 12 0.40
25 18 0.60
ACGTcount: A:0.16, C:0.31, G:0.22, T:0.31
Consensus pattern (25 bp):
ATTGGCTCGCCGGAACCTTCCCGAT
Found at i:18217664 original size:25 final size:24
Alignment explanation
Indices: 18217609--18217694 Score: 66
Period size: 25 Copynumber: 3.5 Consensus size: 24
18217599 ATTGGCTCGT
**
18217609 ATGAGCTTCCCATTAATGGCTTTC
1 ATGAGCTTCCCATTAATGGCTCAC
** *
18217633 AAAAGCTTCCCGTTACATGGCTCAC
1 ATGAGCTTCCCATTA-ATGGCTCAC
* *
18217658 ATGAGCTTTCCATTTATGTGCTCTA-
1 ATGAGCTTCCCATTAATG-GCTC-AC
18217683 ATGAGCATTCCC
1 ATGAGC-TTCCC
18217695 GAATATGAAT
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
24 15 0.32
25 27 0.57
26 5 0.11
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (24 bp):
ATGAGCTTCCCATTAATGGCTCAC
Found at i:18217801 original size:13 final size:13
Alignment explanation
Indices: 18217783--18217808 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18217773 CGATATTATG
18217783 AAAGATTCAACGA
1 AAAGATTCAACGA
18217796 AAAGATTCAACGA
1 AAAGATTCAACGA
18217809 GCAATGTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAGATTCAACGA
Found at i:18219021 original size:20 final size:20
Alignment explanation
Indices: 18218996--18219045 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
18218986 CTGCACATTG
18218996 GAAAAATTTTGAAATTTTGT
1 GAAAAATTTTGAAATTTTGT
18219016 GAAAAATTTTGAAATTTTGT
1 GAAAAATTTTGAAATTTTGT
18219036 GAAAAATTTT
1 GAAAAATTTT
18219046 CTGAGTACCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (20 bp):
GAAAAATTTTGAAATTTTGT
Found at i:18219024 original size:12 final size:12
Alignment explanation
Indices: 18219007--18219045 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
18218997 AAAAATTTTG
18219007 AAATTTTGTGAA
1 AAATTTTGTGAA
18219019 AAA-TTT-TG--
1 AAATTTTGTGAA
18219027 AAATTTTGTGAA
1 AAATTTTGTGAA
18219039 AAATTTT
1 AAATTTT
18219046 CTGAGTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
8 3 0.13
9 3 0.13
10 4 0.17
11 3 0.13
12 10 0.43
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (12 bp):
AAATTTTGTGAA
Found at i:18219565 original size:187 final size:187
Alignment explanation
Indices: 18219250--18219622 Score: 728
Period size: 187 Copynumber: 2.0 Consensus size: 187
18219240 GTTACACTTT
*
18219250 GCATAAGGAGGTAAATGTAAGACTCAAGTCTGGACAGTAAAGAATCCAGTAAGTGACCGCCTCTT
1 GCATAAGGAGGTAAATGTAAGACTCAAGTCTGGAAAGTAAAGAATCCAGTAAGTGACCGCCTCTT
18219315 GACGTACTAATGTCTAGAGTGTGAATATTGCAACCAAATATTGTTAGGCAGTTTTCGCAAGTATA
66 GACGTACTAATGTCTAGAGTGTGAATATTGCAACCAAATATTGTTAGGCAGTTTTCGCAAGTATA
18219380 CGAGTCAAGTTGTAATATAGTTTATACAATGAAGTATGGAAGTAATCTGAGAATCGA
131 CGAGTCAAGTTGTAATATAGTTTATACAATGAAGTATGGAAGTAATCTGAGAATCGA
18219437 GCATAAGGAGGTAAATGTAAGACTCAAGTCTGGAAAGTAAAGAATCCAGTAAGTGACCGCCTCTT
1 GCATAAGGAGGTAAATGTAAGACTCAAGTCTGGAAAGTAAAGAATCCAGTAAGTGACCGCCTCTT
18219502 GACGTACTAATGTCTAGAGTGTGAATATTGCAACCAAATATTGTTAGGCAGTTTTCGCAAGTATA
66 GACGTACTAATGTCTAGAGTGTGAATATTGCAACCAAATATTGTTAGGCAGTTTTCGCAAGTATA
*
18219567 CGGGTCAAGTTGTAATATAGTTTATACAATGAAGTATGGAAGTAATCTGAGAATCG
131 CGAGTCAAGTTGTAATATAGTTTATACAATGAAGTATGGAAGTAATCTGAGAATCG
18219623 TGCCCAATGG
Statistics
Matches: 184, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
187 184 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (187 bp):
GCATAAGGAGGTAAATGTAAGACTCAAGTCTGGAAAGTAAAGAATCCAGTAAGTGACCGCCTCTT
GACGTACTAATGTCTAGAGTGTGAATATTGCAACCAAATATTGTTAGGCAGTTTTCGCAAGTATA
CGAGTCAAGTTGTAATATAGTTTATACAATGAAGTATGGAAGTAATCTGAGAATCGA
Found at i:18220373 original size:23 final size:23
Alignment explanation
Indices: 18220347--18220394 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
18220337 ACAAAATAAC
18220347 CTAAAGAAAATTGAAAACTAAAA
1 CTAAAGAAAATTGAAAACTAAAA
* * *
18220370 CTAAATAAAGTTGCAAACTAAAA
1 CTAAAGAAAATTGAAAACTAAAA
18220393 CT
1 CT
18220395 TGAATAAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.58, C:0.12, G:0.08, T:0.21
Consensus pattern (23 bp):
CTAAAGAAAATTGAAAACTAAAA
Found at i:18226454 original size:23 final size:24
Alignment explanation
Indices: 18226423--18226471 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
18226413 TGTTAGAAAA
18226423 GTCTACTCTCTATAGCACG-TCTT
1 GTCTACTCTCTATAGCACGTTCTT
* * *
18226446 GTCTGCTCTTTGTAGCACGTTCTT
1 GTCTACTCTCTATAGCACGTTCTT
18226470 GT
1 GT
18226472 TTTTTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.12, C:0.27, G:0.18, T:0.43
Consensus pattern (24 bp):
GTCTACTCTCTATAGCACGTTCTT
Found at i:18233694 original size:23 final size:23
Alignment explanation
Indices: 18233668--18233767 Score: 86
Period size: 23 Copynumber: 4.4 Consensus size: 23
18233658 CTTAACATTG
18233668 TTTTAAATTTATCAT-TAGTATTA
1 TTTTAAATTTATCATATA-TATTA
18233691 TTTTAATATTTA--ATATACTATTA
1 TTTTAA-ATTTATCATATA-TATTA
*
18233714 TTTTAAA-TTATTAT-TAATATTA
1 TTTTAAATTTATCATAT-ATATTA
* *
18233736 -TTTAAATTTAACATATATCAATA
1 TTTTAAATTTATCATATAT-ATTA
18233759 TTTTAAATT
1 TTTTAAATT
18233768 CATTATGTAC
Statistics
Matches: 64, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
21 9 0.14
22 16 0.25
23 26 0.41
24 13 0.20
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (23 bp):
TTTTAAATTTATCATATATATTA
Found at i:18233752 original size:45 final size:46
Alignment explanation
Indices: 18233640--18233773 Score: 136
Period size: 45 Copynumber: 2.9 Consensus size: 46
18233630 TGACAAATAG
* * * *
18233640 TATTATTTAATATTTAAGCTTA-AC-ATTGTTTTAAATTTATCATTAG
1 TATTATTTAATATTTAA-CATATACTATTATTTTAAA-TTATTATTAA
18233686 TATTATTTTAATATTT-A-ATATACTATTATTTTAAATTATTATTAA
1 TATTA-TTTAATATTTAACATATACTATTATTTTAAATTATTATTAA
*
18233731 TATTATTTAA-ATTTAACATATA-TCAATATTTTAAATTCATTAT
1 TATTATTTAATATTTAACATATACT-ATTATTTTAAATT-ATTAT
18233774 GTACTATTTA
Statistics
Matches: 76, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
43 4 0.05
44 9 0.12
45 32 0.42
46 21 0.28
47 10 0.13
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (46 bp):
TATTATTTAATATTTAACATATACTATTATTTTAAATTATTATTAA
Found at i:18234369 original size:3 final size:3
Alignment explanation
Indices: 18234356--18234431 Score: 125
Period size: 3 Copynumber: 25.0 Consensus size: 3
18234346 ACATATGATA
18234356 TAT TGAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
18234402 TAT TAT TAT TAT TAT TGT TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18234432 CTTGGTGAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
3 65 0.96
4 3 0.04
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:18240111 original size:24 final size:24
Alignment explanation
Indices: 18240084--18240135 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
18240074 TTAGTAAGTC
*
18240084 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
18240108 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
18240132 AAAT
1 AAAT
18240136 CTTCTAGAAA
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:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:18242081 original size:24 final size:24
Alignment explanation
Indices: 18242054--18242105 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
18242044 TTAGTAAGTC
*
18242054 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
18242078 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
18242102 AAAT
1 AAAT
18242106 CTTCTAGAAA
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:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:18246463 original size:308 final size:309
Alignment explanation
Indices: 18245902--18246522 Score: 1199
Period size: 308 Copynumber: 2.0 Consensus size: 309
18245892 AGTGGCAGGA
*
18245902 AAAAAATATGGAGAAACTGATTGCAAGGTATGCAAAACTTATCAAAAGAACCGTAGCTGAACATT
1 AAAAAATATGGAGAAACTGATTGCAAGGTATGCAAAACTTATCAAAAGAACCGTAGCTAAACATT
18245967 AGAATAAGTTGTAACTTCTTTTGAAATCTGAAACTGAGAGGACTTTTGATAACAACTGAAATTCA
66 AGAATAA--TGTAACTTCTTTTGAAATCTGAAACTGAGAGGACTTTTGATAACAACTGAAATTCA
18246032 AAAAGGTGGTTGTCAATTTTCTGTTTGAAGCTTTTAGGGACATGCATTTTTTATCCTTAAATTTT
129 AAAAGGTGGTTGTCAATTTTCTGTTTGAAGCTTTTAGGGACATGCATTTTTTATCCTTAAATTTT
18246097 GTGCTTTAGTATTGTGGATGCTTATGCCTCTCTTGTCTACTACAGCAATATATCATATACCAGTA
194 GTGCTTTAGTATTGTGGATGCTTATGCCTCTCTTGTCTACTACAGCAATATATCATATACCAGTA
18246162 CTGTGGTACTTTCCTCATTATTGCAAGGTATATTTCTTCAAGCCTATATGC
259 CTGTGGTACTTTCCTCATTATTGCAAGGTATATTTCTTCAAGCCTATATGC
*
18246213 AAAAAATATGGAGAAACTGATTGCAAGGTATGCAAAACTTATCAAAAGAACCGTAGTTAAACATT
1 AAAAAATATGGAGAAACTGATTGCAAGGTATGCAAAACTTATCAAAAGAACCGTAGCTAAACATT
18246278 AGAATAA-GTAACTTCTTTTGAAATCTGAAACTGAGAGGACTTTTGATAACAACTGAAATTCAAA
66 AGAATAATGTAACTTCTTTTGAAATCTGAAACTGAGAGGACTTTTGATAACAACTGAAATTCAAA
18246342 AAGGTGGTTGTCAATTTTCTGTTTGAAGCTTTTAGGGACATGCATTTTTTATCCTTAAATTTTGT
131 AAGGTGGTTGTCAATTTTCTGTTTGAAGCTTTTAGGGACATGCATTTTTTATCCTTAAATTTTGT
18246407 GCTTTAGTATTGTGGATGCTTATGCCTCTCTTGTCTACTACAGCAATATATCATATACCAGTACT
196 GCTTTAGTATTGTGGATGCTTATGCCTCTCTTGTCTACTACAGCAATATATCATATACCAGTACT
18246472 GTGGTACTTTCCTCATTATTGCAAGGTATATTTCTTCAAGCCTATATGC
261 GTGGTACTTTCCTCATTATTGCAAGGTATATTTCTTCAAGCCTATATGC
18246521 AA
1 AA
18246523 TCTGGTGTTG
Statistics
Matches: 308, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
308 238 0.77
311 70 0.23
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (309 bp):
AAAAAATATGGAGAAACTGATTGCAAGGTATGCAAAACTTATCAAAAGAACCGTAGCTAAACATT
AGAATAATGTAACTTCTTTTGAAATCTGAAACTGAGAGGACTTTTGATAACAACTGAAATTCAAA
AAGGTGGTTGTCAATTTTCTGTTTGAAGCTTTTAGGGACATGCATTTTTTATCCTTAAATTTTGT
GCTTTAGTATTGTGGATGCTTATGCCTCTCTTGTCTACTACAGCAATATATCATATACCAGTACT
GTGGTACTTTCCTCATTATTGCAAGGTATATTTCTTCAAGCCTATATGC
Found at i:18250960 original size:27 final size:27
Alignment explanation
Indices: 18250922--18250975 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
18250912 CTATCCTATC
18250922 CACGGTGCCTCGACTTGACCCTTTCAT
1 CACGGTGCCTCGACTTGACCCTTTCAT
18250949 CACGGTGCCTCGACTTGACCCTTTCAT
1 CACGGTGCCTCGACTTGACCCTTTCAT
18250976 TTTCTCATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.15, C:0.37, G:0.19, T:0.30
Consensus pattern (27 bp):
CACGGTGCCTCGACTTGACCCTTTCAT
Found at i:18259815 original size:9 final size:9
Alignment explanation
Indices: 18259796--18259840 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
18259786 TTTTTTCTCC
*
18259796 AAAACCTTA
1 AAAACCCTA
*
18259805 AAAATCCTA
1 AAAACCCTA
18259814 AAAACCCT-
1 AAAACCCTA
18259822 AAAACCCT-
1 AAAACCCTA
18259830 -AAACCCTA
1 AAAACCCTA
18259838 AAA
1 AAA
18259841 TCCAAAAACC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
7 7 0.23
8 8 0.26
9 16 0.52
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.16
Consensus pattern (9 bp):
AAAACCCTA
Found at i:18259852 original size:15 final size:15
Alignment explanation
Indices: 18259805--18259852 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
18259795 CAAAACCTTA
18259805 AAAATCCTAAAAACCCT
1 AAAATCC-AAAAA-CCT
* * *
18259822 AAAACCCTAAACCCT
1 AAAATCCAAAAACCT
18259837 AAAATCCAAAAACCT
1 AAAATCCAAAAACCT
18259852 A
1 A
18259853 CAAGTCAGGA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 16 0.64
16 3 0.12
17 6 0.24
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (15 bp):
AAAATCCAAAAACCT
Found at i:18260326 original size:10 final size:9
Alignment explanation
Indices: 18260282--18260340 Score: 50
Period size: 10 Copynumber: 6.4 Consensus size: 9
18260272 AAAAATAAAA
*
18260282 AAAATACAT
1 AAAATATAT
18260291 AAAATATA-
1 AAAATATAT
*
18260299 GAAAT-TAT
1 AAAATATAT
*
18260307 AAATAAATAT
1 AAA-ATATAT
18260317 AACAATATAT
1 AA-AATATAT
18260327 AAAATATTAT
1 AAAATA-TAT
18260337 AAAA
1 AAAA
18260341 ATTATAGGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
7 2 0.05
8 6 0.15
9 12 0.30
10 19 0.47
11 1 0.03
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAATATAT
Found at i:18260337 original size:20 final size:20
Alignment explanation
Indices: 18260314--18260383 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
18260304 TATAAATAAA
*
18260314 TATAACAATATATAAAATAT
1 TATAAAAATATATAAAATAT
18260334 TATAAAAAT-TATAGGAAAT-T
1 TATAAAAATATATA--AAATAT
* *
18260354 TATAAAAAAAGATAAAATAT
1 TATAAAAATATATAAAATAT
*
18260374 ATTTAAAAAT
1 -TATAAAAAT
18260384 TAAAAAACCA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
19 8 0.20
20 18 0.45
21 14 0.35
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (20 bp):
TATAAAAATATATAAAATAT
Found at i:18262910 original size:38 final size:38
Alignment explanation
Indices: 18262855--18262964 Score: 132
Period size: 38 Copynumber: 2.8 Consensus size: 38
18262845 ATTTAGTTAA
*
18262855 ATTAATTTAAGTCTTTAATTATGTCATAATTTAAACATC
1 ATTAATATAAGT-TTTAATTATGTCATAATTTAAACATC
* * *
18262894 ATTAATATAAGTTTTAATTATGTCATAATCTGAACTTC
1 ATTAATATAAGTTTTAATTATGTCATAATTTAAACATC
* *
18262932 TTTAATA-AGGGTTTTTAATTATGTCATAATTTA
1 ATTAATATA-AG-TTTTAATTATGTCATAATTTA
18262965 GGATATCTTA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
37 1 0.02
38 30 0.49
39 30 0.49
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.47
Consensus pattern (38 bp):
ATTAATATAAGTTTTAATTATGTCATAATTTAAACATC
Found at i:18262987 original size:39 final size:38
Alignment explanation
Indices: 18262868--18263005 Score: 108
Period size: 39 Copynumber: 3.6 Consensus size: 38
18262858 AATTTAAGTC
*
18262868 TTTAATTATGTCATAATTTA-AACATCATTAATATA-AGT
1 TTTAATTATGTCATAATTTAGAATATC-TTAATATATA-T
*
18262906 TTTAATTATGTCATAATCT-GAACT-TCTTTAATA-AGGGT-T
1 TTTAATTATGTCATAATTTAGAA-TATC-TTAATATA---TAT
*
18262945 TTTAATTATGTCATAATTTAGGATATCTTAAATATATAT
1 TTTAATTATGTCATAATTTAGAATATCTT-AATATATAT
* * *
18262984 TTTAAATATGTCCTAGTTTAGA
1 TTTAATTATGTCATAATTTAGA
18263006 CATCTTTGAC
Statistics
Matches: 80, Mismatches: 9, Indels: 21
0.73 0.08 0.19
Matches are distributed among these distances:
37 1 0.01
38 29 0.36
39 41 0.51
40 8 0.10
41 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.46
Consensus pattern (38 bp):
TTTAATTATGTCATAATTTAGAATATCTTAATATATAT
Found at i:18264010 original size:19 final size:19
Alignment explanation
Indices: 18263986--18264022 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
18263976 CCTGAAGAAA
18263986 CTAAGAAACTTCAAAGGCT
1 CTAAGAAACTTCAAAGGCT
18264005 CTAAGAAACTTCAAAGGC
1 CTAAGAAACTTCAAAGGC
18264023 AAGTAGTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19
Consensus pattern (19 bp):
CTAAGAAACTTCAAAGGCT
Found at i:18266813 original size:38 final size:39
Alignment explanation
Indices: 18266771--18266866 Score: 131
Period size: 38 Copynumber: 2.5 Consensus size: 39
18266761 GTTTAAGTAC
*
18266771 TTAATTATGTCATAATTTAAACATCATTAATATGAG-TT
1 TTAATTATGTCATAATTTAAACATCATTAATAAGAGTTT
* * * *
18266809 TTAATTATGTCATAATCTGAACATCTTTAATAAGGGTTT
1 TTAATTATGTCATAATTTAAACATCATTAATAAGAGTTT
*
18266848 TTAATTATGTCATAGTTTA
1 TTAATTATGTCATAATTTA
18266867 GGACATCTTA
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
38 31 0.63
39 18 0.37
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.46
Consensus pattern (39 bp):
TTAATTATGTCATAATTTAAACATCATTAATAAGAGTTT
Found at i:18266889 original size:39 final size:36
Alignment explanation
Indices: 18266771--18266897 Score: 112
Period size: 39 Copynumber: 3.3 Consensus size: 36
18266761 GTTTAAGTAC
*
18266771 TTAATTATGTCATAATTTAAACATCATTAATATGAGTT
1 TTAATTATGTCATAATTTAAACATC-TTAATAT-ATTT
* *
18266809 TTAATTATGTCATAATCTGAACATCTTTAATA-AGGGTTT
1 TTAATTATGTCATAATTTAAACATC-TTAATATA---TTT
* *
18266848 TTAATTATGTCATAGTTTAGGACATCTTAAATATATATT
1 TTAATTATGTCATAATTTA-AACATCTT-AATATAT-TT
*
18266887 TTAAATATGTC
1 TTAATTATGTC
18266898 CTAGTTTAGA
Statistics
Matches: 73, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
36 1 0.01
38 30 0.41
39 32 0.44
40 9 0.12
41 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.45
Consensus pattern (36 bp):
TTAATTATGTCATAATTTAAACATCTTAATATATTT
Found at i:18272835 original size:19 final size:18
Alignment explanation
Indices: 18272793--18272882 Score: 60
Period size: 19 Copynumber: 4.7 Consensus size: 18
18272783 TAAATTTTAA
18272793 TAAAAAATATTAAAAATTAG
1 TAAAAAATA-TAAAAATT-G
18272813 -AAAAAAGTATAAAAATTG
1 TAAAAAA-TATAAAAATTG
* * *
18272831 T-AAAATTTTATAAAGTTG
1 TAAAAAATATA-AAAATTG
18272849 TAAGAAAATTATACAAAA-TG
1 TAA-AAAA-TATA-AAAATTG
18272869 TAAATAAATATAAA
1 TAAA-AAATATAAA
18272883 TTTGGTATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
17 3 0.05
18 14 0.25
19 20 0.36
20 13 0.23
21 6 0.11
ACGTcount: A:0.61, C:0.01, G:0.08, T:0.30
Consensus pattern (18 bp):
TAAAAAATATAAAAATTG
Done.