Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 351 of 378
Found at i:105598672 original size:2 final size:2
Alignment explanation
Indices: 105598665--105598703 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
105598655 GCATGTTTGT
105598665 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
105598704 ATATATATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:105598708 original size:2 final size:2
Alignment explanation
Indices: 105598703--105598729 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
105598693 TCTCTCTCTC
105598703 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
105598730 TATTTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:105599234 original size:25 final size:25
Alignment explanation
Indices: 105599203--105599265 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
105599193 TGGCAGAAAG
* *
105599203 GGGATGCCGACGGAGATGTAGCAAA
1 GGGATGCCGACGAAAATGTAGCAAA
*
105599228 GGGATGCCGACGAAAATGTAGCAGA
1 GGGATGCCGACGAAAATGTAGCAAA
*
105599253 GGGCTGCCGACGA
1 GGGATGCCGACGA
105599266 TGATGCCGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.30, C:0.19, G:0.40, T:0.11
Consensus pattern (25 bp):
GGGATGCCGACGAAAATGTAGCAAA
Found at i:105602142 original size:46 final size:46
Alignment explanation
Indices: 105602075--105602249 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
105602065 TGTAACCCGC
105602075 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
105602121 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACAT
* * * ** * *
105602171 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
*
105602214 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
105602250 ATGCTCAACC
Statistics
Matches: 110, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 63 0.57
47 26 0.24
48 3 0.03
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
Found at i:105602195 original size:93 final size:93
Alignment explanation
Indices: 105602083--105602253 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
105602073 GCCCATAAGT
** *
105602083 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
105602148 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* *
105602176 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
105602241 CGAGTTCGGATGC
66 CGAGCTCGGATGC
105602254 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:105604988 original size:40 final size:40
Alignment explanation
Indices: 105604906--105604989 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
105604896 TTTAATTAGA
* *
105604906 CTTTTAGCGGCGTTTTTCAAAAGGCCAGTTAAATCTCAAT
1 CTTTTAGCGGCATTTTTCAAAAGGCCAGCTAAATCTCAAT
* *
105604946 CTTTT-GCGGCATTTTTACAAAAGCGCC-GCTAATTCTCGAT
1 CTTTTAGCGGCATTTTT-CAAAAG-GCCAGCTAAATCTCAAT
105604986 CTTT
1 CTTT
105604990 AGTGGTGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
39 10 0.26
40 25 0.66
41 3 0.08
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.37
Consensus pattern (40 bp):
CTTTTAGCGGCATTTTTCAAAAGGCCAGCTAAATCTCAAT
Found at i:105605201 original size:15 final size:15
Alignment explanation
Indices: 105605160--105605210 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
105605150 TTTGAAAAAA
*
105605160 ATTTAATTATATTGAAT
1 ATTTAA-TAT-TTAAAT
* *
105605177 AATTATTATTTAAAT
1 ATTTAATATTTAAAT
105605192 ATTTAATATTTAAAT
1 ATTTAATATTTAAAT
105605207 -TTTA
1 ATTTA
105605211 GGTAAATCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 4 0.14
15 18 0.62
16 3 0.10
17 4 0.14
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
ATTTAATATTTAAAT
Found at i:105611854 original size:38 final size:36
Alignment explanation
Indices: 105611779--105611858 Score: 108
Period size: 38 Copynumber: 2.2 Consensus size: 36
105611769 CTCGGCCGAT
* *
105611779 ACCATAAACTTAACATACTATACCATTGAACCTTAA
1 ACCATAAACTTAAAATACTATACCATTGAACCCTAA
105611815 ACCATAAACTTAAAATA-TATTCTACCATTGAACCCTAA
1 ACCATAAACTTAAAATACTA---TACCATTGAACCCTAA
105611853 ACCATA
1 ACCATA
105611859 GGCTTTAAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
35 2 0.05
36 16 0.41
38 21 0.54
ACGTcount: A:0.45, C:0.25, G:0.03, T:0.28
Consensus pattern (36 bp):
ACCATAAACTTAAAATACTATACCATTGAACCCTAA
Found at i:105612037 original size:21 final size:21
Alignment explanation
Indices: 105612013--105612065 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
105612003 GGTTTAGGGT
*
105612013 TTTAGAGTTTATGGATTAGTA
1 TTTAGAGTTTATGGATTAGAA
* **
105612034 TTTAGGGTTTATGTTTTAGAA
1 TTTAGAGTTTATGGATTAGAA
*
105612055 TTTAGAATTTA
1 TTTAGAGTTTA
105612066 GGGTTTAATG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (21 bp):
TTTAGAGTTTATGGATTAGAA
Found at i:105612059 original size:28 final size:28
Alignment explanation
Indices: 105612028--105612086 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
105612018 AGTTTATGGA
*
105612028 TTAGTATTTAGGGTTT-ATGTTTTAGAAT
1 TTAGAATTTAGGGTTTAATG-TTTAGAAT
*
105612056 TTAGAATTTAGGGTTTAATGTTTAGGAT
1 TTAGAATTTAGGGTTTAATGTTTAGAAT
105612084 TTA
1 TTA
105612087 AGGGTTTAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 25 0.89
29 3 0.11
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (28 bp):
TTAGAATTTAGGGTTTAATGTTTAGAAT
Found at i:105612072 original size:21 final size:23
Alignment explanation
Indices: 105612048--105612096 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 23
105612038 GGGTTTATGT
105612048 TTTAGA-ATTTAGAATTT-AGGG
1 TTTAGATATTTAGAATTTAAGGG
* *
105612069 TTTA-ATGTTTAGGATTTAAGGG
1 TTTAGATATTTAGAATTTAAGGG
105612091 TTTAGA
1 TTTAGA
105612097 GAAAGTTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.04
21 13 0.57
22 8 0.35
23 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.45
Consensus pattern (23 bp):
TTTAGATATTTAGAATTTAAGGG
Found at i:105612528 original size:41 final size:41
Alignment explanation
Indices: 105612458--105612561 Score: 120
Period size: 41 Copynumber: 2.5 Consensus size: 41
105612448 CTACTCATTC
* * * *
105612458 ATCAGTTTTTAGTGGCGTTTTAGCTAAAAATGTTGCTATTG
1 ATCAGTTTTTAGCGGCGTTTTAGCCAAAAACGCTGCTATTG
*
105612499 ATCAGTTTTTAGCGGTGTTTGT-GCCAAAAACGCTGCTATTG
1 ATCAGTTTTTAGCGGCGTTT-TAGCCAAAAACGCTGCTATTG
* * *
105612540 TTCAGTTTTTTGGGGCGTTTTA
1 ATCAGTTTTTAGCGGCGTTTTA
105612562 TAATCTTTGC
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
40 1 0.02
41 50 0.96
42 1 0.02
ACGTcount: A:0.20, C:0.12, G:0.24, T:0.43
Consensus pattern (41 bp):
ATCAGTTTTTAGCGGCGTTTTAGCCAAAAACGCTGCTATTG
Found at i:105614801 original size:12 final size:12
Alignment explanation
Indices: 105614784--105614809 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
105614774 AAAATAGGGC
105614784 TTTAGCGGCGTT
1 TTTAGCGGCGTT
105614796 TTTAGCGGCGTT
1 TTTAGCGGCGTT
105614808 TT
1 TT
105614810 ATCAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:105614901 original size:41 final size:40
Alignment explanation
Indices: 105614833--105615082 Score: 304
Period size: 41 Copynumber: 6.1 Consensus size: 40
105614823 GCCAAAATTG
* * *
105614833 TAAAACACAGAGCAATAGCGGCGTTTTTGTTAAAACGCCGC
1 TAAAA-ACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
* * * *
105614874 TAAAAACTGAGCAATAGCGGC-CTTTTTTGTTAAAACGTCGC
1 TAAAAACAGAGCATTAGCGGCGC--TTTTGGTAAAACGCCGC
*
105614915 TAAAAACTGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
* *
105614955 TGAAGACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 T-AAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
* * *
105614996 TGAAGACCAGAGCACTAGCGGCGCTTTTGGTAAAACGCCGC
1 T-AAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
* *
105615037 TAAAGACCAGAGCATTAGCGACGCTTTTGGTAAAACGCCGC
1 TAAA-AACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
105615078 TAAAA
1 TAAAA
105615083 GTTATATAAC
Statistics
Matches: 191, Mismatches: 13, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
40 34 0.18
41 156 0.82
42 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.22
Consensus pattern (40 bp):
TAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
Found at i:105615722 original size:24 final size:24
Alignment explanation
Indices: 105615695--105615743 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
105615685 CATATATTTA
*
105615695 TTAAAATTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
105615719 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
105615743 T
1 T
105615744 GTTATTTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (24 bp):
TTAAAAGTTTATATAAAAATTAAT
Found at i:105618089 original size:23 final size:23
Alignment explanation
Indices: 105618057--105618100 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
105618047 GCAATCTACT
105618057 GACTAATTGTTTTTGCTTAAGAG
1 GACTAATTGTTTTTGCTTAAGAG
* *
105618080 GACTACTTGTTTTTGTTTAAG
1 GACTAATTGTTTTTGCTTAAG
105618101 CAGATCCATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.23, C:0.09, G:0.20, T:0.48
Consensus pattern (23 bp):
GACTAATTGTTTTTGCTTAAGAG
Found at i:105620607 original size:42 final size:42
Alignment explanation
Indices: 105620554--105620823 Score: 303
Period size: 42 Copynumber: 6.4 Consensus size: 42
105620544 GTTTATGAAT
*
105620554 TTTAGCAGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCAT-GTC
1 TTTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAAGTCATGGTC
* * * * * *
105620596 TTTAGTGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTTACGATT
1 TTTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAAGTCATGGTC
* * * *
105620639 TTTAGCGGCGTTT-TCGGGAAAAGCGCCGTTAAAGGTCATAGAC
1 TTTAGCGGCGTTTGT--GGAAAAGCGCCGCTAAAAGTCATGGTC
* *
105620682 TTTAGCGGCGTTTTATGGAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCG-TTTGTGGAAAAGCGCCGCTAAAAGTCATGGTC
** *
105620725 TTTAGCGGCGTTTGTAAAAAAGCGCCGTTAAAAGTCATGGTC
1 TTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAAGTCATGGTC
*
105620767 TTTAGCGGCGTTTTTGGAAAAGCGCCGC-AAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAA-GTCATGGTC
*
105620809 TTTAGCGGCTTTTGT
1 TTTAGCGGCGTTTGT
105620824 AAAAAAAAGC
Statistics
Matches: 192, Mismatches: 30, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
41 4 0.02
42 107 0.56
43 76 0.40
44 4 0.02
45 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAAGTCATGGTC
Found at i:105620780 original size:85 final size:84
Alignment explanation
Indices: 105620554--105620830 Score: 351
Period size: 85 Copynumber: 3.3 Consensus size: 84
105620544 GTTTATGAAT
* * * * *
105620554 TTTAGCAGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGTCTTTAGTGGCGTTTGTGTGAAAAG
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGTTAAAAGTCATGTCTTTAGCGGCGTTTTTG-GAAAAG
* * * *
105620619 CGCCGCTAAAGGTTACGATT
65 CGCCGCTAAAGGTCATGGTC
** * *
105620639 TTTAGCGGCGTTT-TCGGGAAAAGCGCCGTTAAAGGTCATAGACTTTAGCGGCGTTTTATGGAAA
1 TTTAGCGGCGTTTGT-GAAAAAAGCGCCGTTAAAAGTCAT-GTCTTTAGCGGCGTTTT-TGGAAA
105620703 AGCGCCGCTAAAGGTCATGGTC
63 AGCGCCGCTAAAGGTCATGGTC
105620725 TTTAGCGGCGTTTGT-AAAAAAGCGCCGTTAAAAGTCATGGTCTTTAGCGGCGTTTTTGGAAAAG
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGTTAAAAGTCAT-GTCTTTAGCGGCGTTTTTGGAAAAG
*
105620789 CGCCGCAAAAGGTCATGGTC
65 CGCCGCTAAAGGTCATGGTC
* *
105620809 TTTAGCGGCTTTTGTAAAAAAA
1 TTTAGCGGCGTTTGTGAAAAAA
105620831 AGCGTCTTTA
Statistics
Matches: 169, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
84 42 0.25
85 75 0.44
86 49 0.29
87 3 0.02
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (84 bp):
TTTAGCGGCGTTTGTGAAAAAAGCGCCGTTAAAAGTCATGTCTTTAGCGGCGTTTTTGGAAAAGC
GCCGCTAAAGGTCATGGTC
Found at i:105621337 original size:7 final size:7
Alignment explanation
Indices: 105621309--105621394 Score: 97
Period size: 7 Copynumber: 12.6 Consensus size: 7
105621299 TGTTGCTCAT
105621309 AACCCTA
1 AACCCTA
105621316 AA-CCTA
1 AACCCTA
105621322 AACCC--
1 AACCCTA
105621327 AACCCTA
1 AACCCTA
105621334 AACCCTA
1 AACCCTA
**
105621341 AACAATA
1 AACCCTA
*
105621348 AACCTTAA
1 AACCCT-A
105621356 AACCCTA
1 AACCCTA
105621363 AACCCTA
1 AACCCTA
**
105621370 AACATTA
1 AACCCTA
105621377 AACCCTA
1 AACCCTA
105621384 AACCCTA
1 AACCCTA
105621391 AACC
1 AACC
105621395 TTTTATTTAA
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
5 5 0.08
6 6 0.09
7 49 0.74
8 6 0.09
ACGTcount: A:0.48, C:0.37, G:0.00, T:0.15
Consensus pattern (7 bp):
AACCCTA
Found at i:105621362 original size:29 final size:28
Alignment explanation
Indices: 105621309--105621394 Score: 115
Period size: 29 Copynumber: 3.1 Consensus size: 28
105621299 TGTTGCTCAT
*
105621309 AACCCTAAAC-CTAAACCC--AACCCTA
1 AACCCTAAACAATAAACCCTAAACCCTA
*
105621334 AACCCTAAACAATAAACCTTAAAACCCTA
1 AACCCTAAACAATAAACCCT-AAACCCTA
*
105621363 AACCCTAAACATTAAACCCTAAACCCTA
1 AACCCTAAACAATAAACCCTAAACCCTA
105621391 AACC
1 AACC
105621395 TTTTATTTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
25 10 0.19
26 6 0.11
28 12 0.23
29 25 0.47
ACGTcount: A:0.48, C:0.37, G:0.00, T:0.15
Consensus pattern (28 bp):
AACCCTAAACAATAAACCCTAAACCCTA
Found at i:105621446 original size:23 final size:23
Alignment explanation
Indices: 105621419--105622244 Score: 528
Period size: 23 Copynumber: 36.0 Consensus size: 23
105621409 TGGTTGTTGC
*
105621419 TGTTTAAATGCTGTAAATTGCAG
1 TGTTTAAATGCTGTAAATTGAAG
**
105621442 TGTTTAAATATTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
* **
105621465 TGTTTAAATACTACAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
** * *
105621488 TGTTTAGTTGCTGCAAAACTG-AG
1 TGTTTAAATGCTG-TAAATTGAAG
* * *
105621511 ATGTTTTATTGCTGT-AATTGAGG
1 -TGTTTAAATGCTGTAAATTGAAG
* * *
105621534 TGTATAAATGTTGTTAATTG-AG
1 TGTTTAAATGCTGTAAATTGAAG
*
105621556 ATG-TTAAAGTGCTGCAAATTGAAG
1 -TGTTTAAA-TGCTGTAAATTGAAG
* *
105621580 TGTTTAAATGATGTAAATTGAAT
1 TGTTTAAATGCTGTAAATTGAAG
* *
105621603 TGCTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
* * *
105621626 TGTTTAAGTACTGCAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
** *
105621649 TGTTTAGTTGCTGAAAATTG-AG
1 TGTTTAAATGCTGTAAATTGAAG
* *
105621671 ATGTTT-TAT-C-GCTACAATTGAGG
1 -TGTTTAAATGCTG-TA-AATTGAAG
* * *
105621694 TGTATAAATGTTGTTAATTG-AG
1 TGTTTAAATGCTGTAAATTGAAG
* * * *
105621716 ATG-TCAAAGTACAGCAAATTGAAG
1 -TGTTTAAA-TGCTGTAAATTGAAG
105621740 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
*
105621763 TG-TTAAAGTGCTGCAAATTGAAG
1 TGTTTAAA-TGCTGTAAATTGAAG
105621786 TG-TTAAAGTGCTGTAAATTGAAG
1 TGTTTAAA-TGCTGTAAATTGAAG
*
105621809 TGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
* * * * *
105621832 GGCTTAAATGTTGTAAATTTAAC
1 TGTTTAAATGCTGTAAATTGAAG
* * *
105621855 TGTTTTAAGTACTGCAAATTGAAG
1 TG-TTTAAATGCTGTAAATTGAAG
** *
105621879 TGTTTAGTTGCTGGAAATTG-AG
1 TGTTTAAATGCTGTAAATTGAAG
* * *
105621901 ATGTTT-TATCACTGT-AATTGAGG
1 -TGTTTAAAT-GCTGTAAATTGAAG
* * *
105621924 TGTATAAATGTTGTTAATTG-AG
1 TGTTTAAATGCTGTAAATTGAAG
*
105621946 ATG-TTAAAGTGCTGCAAATTGAAG
1 -TGTTTAAA-TGCTGTAAATTGAAG
*
105621970 TGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
* *
105621993 TG-TTAAAGTCCTGCAAATTGAAG
1 TGTTTAAA-TGCTGTAAATTGAAG
* * *
105622016 TGTTTGAATGTTATAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
*
105622039 TGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
* * *
105622062 TGTTTAAGTACTGCAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
** * *
105622085 TGTTTAGTTGTTGGAAATTG-AG
1 TGTTTAAATGCTGTAAATTGAAG
* *
105622107 ATGTTT-TATCGCTGT-AATTGAGG
1 -TGTTTAAAT-GCTGTAAATTGAAG
* * * *
105622130 AGTATAAATGTTGTTAATTG-AG
1 TGTTTAAATGCTGTAAATTGAAG
*
105622152 ATG-TTAAAGTGCTGGAAATTGAAG
1 -TGTTTAAA-TGCTGTAAATTGAAG
* * *
105622176 TGTTAAAAGTGCTGCAAATTGGAG
1 TGTTTAAA-TGCTGTAAATTGAAG
*
105622200 TGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
* * * *
105622223 TTTTTAAGTACTGCAAATTGAA
1 TGTTTAAATGCTGTAAATTGAA
105622245 TAGTTTAGTT
Statistics
Matches: 619, Mismatches: 142, Indels: 84
0.73 0.17 0.10
Matches are distributed among these distances:
20 1 0.00
21 2 0.00
22 85 0.14
23 441 0.71
24 89 0.14
25 1 0.00
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.38
Consensus pattern (23 bp):
TGTTTAAATGCTGTAAATTGAAG
Found at i:105621965 original size:230 final size:229
Alignment explanation
Indices: 105621549--105622061 Score: 823
Period size: 230 Copynumber: 2.2 Consensus size: 229
105621539 AAATGTTGTT
* * **
105621549 AATTG-AGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGATGTAAATTGAATTGCTTAAATG
1 AATTGAAG-TGTTAAAGTGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGGGCTTAAATG
*
105621613 TTGTAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGAAAATTGAGATGTTTT
65 TTGTAAATTGAACTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGAAAATTGAGATGTTTT
*
105621678 ATCGCTACAATTGAGGTGTATAAATGTTGTTAATTGAGATGTCAAAGTACAGCAAATTGAAGTGT
130 ATCACTACAATTGAGGTGTATAAATGTTGTTAATTGAGATGTCAAAGTACAGCAAATTGAAGTGT
*
105621743 TTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCA
195 TTAAATGCTGTAAATTGAAGTGTTAAAGTCCTGCA
105621778 AATTGAAGTGTTAAAGTGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGGGCTTAAATGT
1 AATTGAAGTGTTAAAGTGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGGGCTTAAATGT
* *
105621843 TGTAAATTTAACTGTTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTT
66 TGTAAATTGAACTG-TTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGAAAATTGAGATGTTTT
** * * *
105621908 ATCACTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGT
130 ATCACTACAATTGAGGTGTATAAATGTTGTTAATTGAGATGTCAAAGTACAGCAAATTGAAGTGT
*
105621973 TTAAATGTTGTAAATTGAAGTGTTAAAGTCCTGCA
195 TTAAATGCTGTAAATTGAAGTGTTAAAGTCCTGCA
* * *
105622008 AATTGAAGTGTTTGAA-TGTTATAAATTGAAGTGTTTAAATGTTGTAAATTGAAG
1 AATTGAAGTG-TTAAAGTGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAG
105622062 TGTTTAAGTA
Statistics
Matches: 263, Mismatches: 18, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
229 70 0.27
230 189 0.72
231 4 0.02
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.38
Consensus pattern (229 bp):
AATTGAAGTGTTAAAGTGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGGGCTTAAATGT
TGTAAATTGAACTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGAAAATTGAGATGTTTTA
TCACTACAATTGAGGTGTATAAATGTTGTTAATTGAGATGTCAAAGTACAGCAAATTGAAGTGTT
TAAATGCTGTAAATTGAAGTGTTAAAGTCCTGCA
Found at i:105622187 original size:230 final size:230
Alignment explanation
Indices: 105621549--105622244 Score: 732
Period size: 230 Copynumber: 3.0 Consensus size: 230
105621539 AAATGTTGTT
** * ** *
105621549 AATTG-AGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGATGTAAATTGAATTGCTTAAATG
1 AATTGAAG-TGTTAAAGTGCTATAAATTGAAGTGTTTAAATGTTGTAAATTGAAGGGCTTAAATA
* * * * * *
105621613 TTGTAAATTGAAGTG-TTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGAAAATTGAGATGTTT
65 CTGCAAATTGAACTGTTTTAAGTACTGCAAATTGAAGTGTTTAGTCGCTGGAAATTGAGATGTTA
* * ** * * ** * * *
105621677 TATCGCTACAATTGAGGTGTATAAATGTTGTTAATTGAGATGTCAAAGTACAGCAAATTGAAGTG
130 AATCACTGTAATTGAGATGTATAAATGCTGGAAATTGAGATGTTAAAGTGCTGCAAATTGAAGTG
* *
105621742 TTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCA
195 TTTAAATGTTGTAAATTGAAGTGTTAAAGTACTGCA
* **
105621778 AATTGAAGTGTTAAAGTGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGGGCTTAAATGT
1 AATTGAAGTGTTAAAGTGCTATAAATTGAAGTGTTTAAATGTTGTAAATTGAAGGGCTTAAATAC
* * * **
105621843 TGTAAATTTAACTGTTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTT
66 TGCAAATTGAACTGTTTTAAGTACTGCAAATTGAAGTGTTTAGTCGCTGGAAATTGAGATGTTAA
* * **
105621908 ATCACTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGT
131 ATCACTGTAATTGAGATGTATAAATGCTGGAAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGT
*
105621973 TTAAATGTTGTAAATTGAAGTGTTAAAGTCCTGCA
196 TTAAATGTTGTAAATTGAAGTGTTAAAGTACTGCA
* * * * *
105622008 AATTGAAGTGTTTGAA-TGTTATAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTA
1 AATTGAAGTG-TTAAAGTGCTATAAATTGAAGTGTTTAAATGTTGTAAATTGAAGGGCTTAAATA
* ** * *
105622072 CTGCAAATTGAAGTG-TTT-AGTTGTTGGAAATTG-AGATGTTTTA-TCGCT-GTAATTGAGGA-
65 CTGCAAATTGAACTGTTTTAAG-TACTGCAAATTGAAG-TG-TTTAGTCGCTGGAAATTGA-GAT
**
105622131 GTATAAAT-GTTGTTAATTGAGATGT-TAAAGTGCTGGAAATTGA-AGTGTTAAAAGTGCTGCAA
126 GT-TAAATCACTG-TAATTGAGATGTATAAA-TGCTGGAAATTGAGA-TGTT-AAAGTGCTGCAA
* * *
105622193 ATTGGAGTGTTTAAATGTTGTAAATTGAAGTTTTTAAGTACTGCA
186 ATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTAAAGTACTGCA
105622238 AATTGAA
1 AATTGAA
105622245 TAGTTTAGTT
Statistics
Matches: 412, Mismatches: 43, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
228 20 0.05
229 118 0.29
230 270 0.66
231 4 0.01
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.38
Consensus pattern (230 bp):
AATTGAAGTGTTAAAGTGCTATAAATTGAAGTGTTTAAATGTTGTAAATTGAAGGGCTTAAATAC
TGCAAATTGAACTGTTTTAAGTACTGCAAATTGAAGTGTTTAGTCGCTGGAAATTGAGATGTTAA
ATCACTGTAATTGAGATGTATAAATGCTGGAAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGT
TTAAATGTTGTAAATTGAAGTGTTAAAGTACTGCA
Found at i:105622998 original size:42 final size:42
Alignment explanation
Indices: 105622881--105623101 Score: 237
Period size: 42 Copynumber: 5.2 Consensus size: 42
105622871 TTTTCAGGAC
* * * * *
105622881 CTTTAGTGGGGTTTTTGGGAAAAGCGTCGCTAAAAGTCAGGTT
1 CTTTAGCGGCGTTTTTGGG-AAAGCGCCGCTAAAGGTCATGTT
* ** * *
105622924 TTTTAGCGGCGCCTGTGGAGAAAGTGCCGCTAAAGGTCATGTT
1 CTTTAGCGGCGTTTTTGG-GAAAGCGCCGCTAAAGGTCATGTT
* **
105622967 CTTTAGCAGCGTTTTTGGGAAAGTTCCGCTAAAGGTCATGTT
1 CTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAGGTCATGTT
* *
105623009 CTTTAGCGGCGTTTTTGGGAAAGCACCGCTAAAGGCCATGTT
1 CTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAGGTCATGTT
* * *
105623051 CTTTAGTGGCGTTTTTGGGGAAAGCGCCGTTAAAAGTCATGTT
1 CTTTAGCGGCGTTTTT-GGGAAAGCGCCGCTAAAGGTCATGTT
105623094 -TTATAGCG
1 CTT-TAGCG
105623102 ACTTTTTTTC
Statistics
Matches: 149, Mismatches: 26, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
42 78 0.52
43 70 0.47
44 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (42 bp):
CTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAGGTCATGTT
Found at i:105623890 original size:36 final size:36
Alignment explanation
Indices: 105623843--105623916 Score: 103
Period size: 36 Copynumber: 2.1 Consensus size: 36
105623833 CATTTTGCTC
* *
105623843 ATGTAAAGGAGCATTGACATTCGGCCTACTTGGCCT
1 ATGTAAAGGAGCATAGACATTCAGCCTACTTGGCCT
* * *
105623879 ATGTATAGGAGCATAGGCATTCAGCCTATTTGGCCT
1 ATGTAAAGGAGCATAGACATTCAGCCTACTTGGCCT
105623915 AT
1 AT
105623917 AGGATGTAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (36 bp):
ATGTAAAGGAGCATAGACATTCAGCCTACTTGGCCT
Found at i:105632534 original size:2 final size:2
Alignment explanation
Indices: 105632527--105632560 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
105632517 ATGAACTCCA
*
105632527 AG AG AG AG AG AG AG AC AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
105632561 GTGAGAGGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:105632962 original size:2 final size:2
Alignment explanation
Indices: 105632955--105632981 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
105632945 TCGAATTAAG
105632955 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
105632982 AGAAATGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:105633276 original size:20 final size:19
Alignment explanation
Indices: 105633253--105633299 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
105633243 AAGTTAATTC
105633253 AATAATTTAAAATATAAAAT
1 AATAATTTAAAATA-AAAAT
*
105633273 AATAAATT-AAATAAAAAT
1 AATAATTTAAAATAAAAAT
105633291 -ATAATTTAA
1 AATAATTTAA
105633300 TTCAATTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 6 0.25
18 6 0.25
19 5 0.21
20 7 0.29
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AATAATTTAAAATAAAAAT
Found at i:105633299 original size:17 final size:19
Alignment explanation
Indices: 105633253--105633299 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 19
105633243 AAGTTAATTC
105633253 AATAATTTAAAATATAAAAT
1 AATAATTT-AAATATAAAAT
*
105633273 AATAAATTAAATA-AAAAT
1 AATAATTTAAATATAAAAT
105633291 -ATAATTTAA
1 AATAATTTAA
105633300 TTCAATTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 8 0.32
18 5 0.20
19 5 0.20
20 7 0.28
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AATAATTTAAATATAAAAT
Found at i:105635894 original size:16 final size:15
Alignment explanation
Indices: 105635875--105635920 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
105635865 AAAAATATAA
105635875 AAAGAAAAGGAGAAAG
1 AAAGAAAAGGA-AAAG
105635891 AAAGAACAAGGAAAAG
1 AAAGAA-AAGGAAAAG
* *
105635907 AACGAAAAAGAAAA
1 AAAGAAAAGGAAAA
105635921 AGAAGAACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 7 0.26
16 15 0.56
17 5 0.19
ACGTcount: A:0.72, C:0.04, G:0.24, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGGAAAAG
Found at i:105645443 original size:17 final size:17
Alignment explanation
Indices: 105645421--105645472 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 17
105645411 ATGGAAACAT
*
105645421 AATCTTCGAAGATATGC
1 AATCTTAGAAGATATGC
*
105645438 AATCTTAGATATGATATGT
1 AATCTTAGA-A-GATATGC
105645457 AATCTTAGAAGATATG
1 AATCTTAGAAGATATG
105645473 ATTCTGTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 14 0.45
18 2 0.06
19 15 0.48
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (17 bp):
AATCTTAGAAGATATGC
Found at i:105645472 original size:22 final size:21
Alignment explanation
Indices: 105645431--105645501 Score: 74
Period size: 22 Copynumber: 3.4 Consensus size: 21
105645421 AATCTTCGAA
*
105645431 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
105645450 GATATGTAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
* *
105645472 GATTCTGTAATCTTAGAGATTT
1 GA-TATGTAATCTTAGAGATAT
*
105645494 GATTTGTA
1 GATATGTA
105645502 GATATCTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
19 12 0.27
21 5 0.11
22 15 0.34
23 12 0.27
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.41
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:105645484 original size:23 final size:21
Alignment explanation
Indices: 105645444--105645501 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
105645434 ATGCAATCTT
*
105645444 AGATATGATATGTAATCTTAG
1 AGATATGATTTGTAATCTTAG
105645465 AAGATATGATTCTGTAATCTTAG
1 -AGATATGATT-TGTAATCTTAG
*
105645488 AGATTTGATTTGTA
1 AGATATGATTTGTA
105645502 GATATCTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 4 0.12
22 18 0.55
23 11 0.33
ACGTcount: A:0.34, C:0.05, G:0.19, T:0.41
Consensus pattern (21 bp):
AGATATGATTTGTAATCTTAG
Found at i:105648513 original size:10 final size:10
Alignment explanation
Indices: 105648492--105648526 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
105648482 GGGGAAACAA
*
105648492 AATAAAAAAT
1 AATATAAAAT
*
105648502 AATATAATAT
1 AATATAAAAT
105648512 AATATAAAAT
1 AATATAAAAT
105648522 AATAT
1 AATAT
105648527 CCCAACTACC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
AATATAAAAT
Found at i:105651664 original size:42 final size:42
Alignment explanation
Indices: 105651609--105651718 Score: 193
Period size: 42 Copynumber: 2.6 Consensus size: 42
105651599 TGTTTAGGGA
* *
105651609 AAAAAAATTAATTAAATTAGGGTTTAAATTAACTATTAATTT
1 AAAAAAATCAATTAAATTAAGGTTTAAATTAACTATTAATTT
*
105651651 TAAAAAATCAATTAAATTAAGGTTTAAATTAACTATTAATTT
1 AAAAAAATCAATTAAATTAAGGTTTAAATTAACTATTAATTT
105651693 AAAAAAATCAATTAAATTAAGGTTTA
1 AAAAAAATCAATTAAATTAAGGTTTA
105651719 GGGTTTTTAG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (42 bp):
AAAAAAATCAATTAAATTAAGGTTTAAATTAACTATTAATTT
Found at i:105651883 original size:126 final size:125
Alignment explanation
Indices: 105651746--105652061 Score: 465
Period size: 125 Copynumber: 2.5 Consensus size: 125
105651736 TAATTAAATT
* * *
105651746 AGGATGTACTGTCTGCAAAATTTACT-AAAAAAGCTTCCACGTGGATGCTCTTTTGCTACAGTAG
1 AGGATGCACTGTCAGCAAAA-TTACTGAAAAAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAG
* * *
105651810 TATCTGAAAAAATAATTTTGAGAAAATATTTCTAAACAAATAGTGTCCAAAATGCTTCAAGC
65 TATCTG-AAAAATAATTTTGAGAAAACATTTCTAAACAAATAGTGTCCAAAACGCATCAAGC
* *
105651872 AGGATGCACTGTCAGCAAAATTATTGAAAAAAGCTTCC-CTGTGGACGCTCTTTTGCTATAGTAG
1 AGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTTCCAC-GTGGACGCTCTTTTGCTACAGTAG
* * * * *
105651936 TATTTGAAAAATAATTTTGAGAAGACATTTTTGAACAAATAGTGTCCAAAACGCATCAAGT
65 TATCTGAAAAATAATTTTGAGAAAACATTTCTAAACAAATAGTGTCCAAAACGCATCAAGC
*
105651997 AGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGT
1 AGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGT
105652062 TCCTATTTGG
Statistics
Matches: 171, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
125 113 0.66
126 58 0.34
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.29
Consensus pattern (125 bp):
AGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGT
ATCTGAAAAATAATTTTGAGAAAACATTTCTAAACAAATAGTGTCCAAAACGCATCAAGC
Found at i:105655651 original size:18 final size:18
Alignment explanation
Indices: 105655625--105655666 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
105655615 GATTGGGAAA
*
105655625 AGGAAACATATAAGGGTT
1 AGGAAACATATAAGGGCT
*
105655643 AGGATACATATAAGGGCT
1 AGGAAACATATAAGGGCT
105655661 AGGAAA
1 AGGAAA
105655667 TGCATCTGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.45, C:0.07, G:0.29, T:0.19
Consensus pattern (18 bp):
AGGAAACATATAAGGGCT
Found at i:105656288 original size:7 final size:7
Alignment explanation
Indices: 105656278--105656302 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
105656268 TTATATACAT
105656278 AATACTA
1 AATACTA
105656285 AATACTA
1 AATACTA
105656292 AATACTA
1 AATACTA
105656299 AATA
1 AATA
105656303 GGAAACAACT
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:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:105657514 original size:11 final size:10
Alignment explanation
Indices: 105657464--105657513 Score: 66
Period size: 11 Copynumber: 4.9 Consensus size: 10
105657454 TAAAGAGAGC
*
105657464 TTTGAGAAAA
1 TTTGAGAGAA
105657474 TTTGAGAGAAA
1 TTTGAGAG-AA
105657485 TTTGAGAGAA
1 TTTGAGAGAA
105657495 TTTGGAGAGAA
1 TTT-GAGAGAA
105657506 TTT-AGAGA
1 TTTGAGAGA
105657514 GGACTTTTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
9 5 0.14
10 12 0.32
11 20 0.54
ACGTcount: A:0.42, C:0.00, G:0.28, T:0.30
Consensus pattern (10 bp):
TTTGAGAGAA
Found at i:105657514 original size:22 final size:21
Alignment explanation
Indices: 105657464--105657514 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
105657454 TAAAGAGAGC
*
105657464 TTTGAGAAAATTTGAGAGAAA
1 TTTGAGAGAATTTGAGAGAAA
105657485 TTTGAGAGAATTTG-GAGAGAA
1 TTTGAGAGAATTTGAGAGA-AA
105657506 TTTAGAGAG
1 TTT-GAGAG
105657515 GACTTTTGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 4 0.15
21 18 0.67
22 5 0.19
ACGTcount: A:0.41, C:0.00, G:0.29, T:0.29
Consensus pattern (21 bp):
TTTGAGAGAATTTGAGAGAAA
Found at i:105662336 original size:66 final size:66
Alignment explanation
Indices: 105662181--105662351 Score: 195
Period size: 66 Copynumber: 2.6 Consensus size: 66
105662171 AAATATTAGA
* *
105662181 TCTTCCCAAACTCCTAAATGAGATAT-AATGT-ATTCTCAATCCCAAACTCTTGAACGCGAAATC
1 TCTTCCCAAGCTCCTAAATGAGATATCAA-GTCA-TCTCAATCCCAAACTCTTGAACGAGAAATC
105662244 GAG
64 GAG
* * * * *
105662247 TCTTCCCAAGCTCCTAAACGAGATATCAGGTCATCTCAATCCCAAGATTC-TGAATGAGATATCG
1 TCTTCCCAAGCTCCTAAATGAGATATCAAGTCATCTCAATCCCAA-ACTCTTGAACGAGAAATCG
105662311 AG
65 AG
* * * *
105662313 TCTTCCCAAGCTCTTGAATGAGATAGCAAGTCTTCTCAA
1 TCTTCCCAAGCTCCTAAATGAGATATCAAGTCATCTCAA
105662352 GTTCTTGAAC
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
66 84 0.94
67 5 0.06
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (66 bp):
TCTTCCCAAGCTCCTAAATGAGATATCAAGTCATCTCAATCCCAAACTCTTGAACGAGAAATCGA
G
Found at i:105662358 original size:30 final size:30
Alignment explanation
Indices: 105662286--105662360 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
105662276 GTCATCTCAA
* *
105662286 TCCCAAGATTC-TGAATGAGATATCGAGTCT
1 TCCCAAG-TTCTTGAATGAGATAGCAAGTCT
*
105662316 TCCCAAGCTCTTGAATGAGATAGCAAGTCT
1 TCCCAAGTTCTTGAATGAGATAGCAAGTCT
*
105662346 TCTCAAGTTCTTGAA
1 TCCCAAGTTCTTGAA
105662361 CGTCCTCATA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 2 0.05
30 37 0.95
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (30 bp):
TCCCAAGTTCTTGAATGAGATAGCAAGTCT
Found at i:105670801 original size:21 final size:21
Alignment explanation
Indices: 105670758--105670819 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
105670748 CACAAAAGTC
*
105670758 CTCTCATAATTCTCTTTAAATTT
1 CTCTCA-AATTCTC-TCAAATTT
105670781 -TCTCCAAATTCTCTCAAATTT
1 CTCT-CAAATTCTCTCAAATTT
*
105670802 CTCTCAAATTTTCTCAAA
1 CTCTCAAATTCTCTCAAA
105670820 GCTCTCTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 20 0.57
22 13 0.37
23 2 0.06
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (21 bp):
CTCTCAAATTCTCTCAAATTT
Found at i:105670825 original size:21 final size:21
Alignment explanation
Indices: 105670781--105670840 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
105670771 CTTTAAATTT
* **
105670781 TCTC-CAAATTCTCTCAAATT
1 TCTCTCAAATTTTCTCAAAGC
105670801 TCTCTCAAATTTTCTCAAAGC
1 TCTCTCAAATTTTCTCAAAGC
** *
105670822 TCTCTTTAATTTTTTCAAA
1 TCTCTCAAATTTTCTCAAA
105670841 AAAGCTCTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 4 0.12
21 29 0.88
ACGTcount: A:0.28, C:0.25, G:0.02, T:0.45
Consensus pattern (21 bp):
TCTCTCAAATTTTCTCAAAGC
Found at i:105670826 original size:32 final size:33
Alignment explanation
Indices: 105670758--105670826 Score: 81
Period size: 32 Copynumber: 2.1 Consensus size: 33
105670748 CACAAAAGTC
* *
105670758 CTCTCATAATTCTCTTTAAATTTTCTCCAAATT
1 CTCTCATAATTCTCTTCAAATTTTCTCCAAACT
105670791 CTCTCA-AATT-TCTCTCAAATTTTCT-CAAAGCT
1 CTCTCATAATTCTCT-TCAAATTTTCTCCAAA-CT
105670823 CTCT
1 CTCT
105670827 TTAATTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
31 7 0.22
32 19 0.59
33 6 0.19
ACGTcount: A:0.26, C:0.28, G:0.01, T:0.45
Consensus pattern (33 bp):
CTCTCATAATTCTCTTCAAATTTTCTCCAAACT
Found at i:105671993 original size:7 final size:7
Alignment explanation
Indices: 105671983--105672013 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
105671973 AGTCATTTCA
105671983 TATTTAG
1 TATTTAG
105671990 TATTTAG
1 TATTTAG
105671997 TATTTAG
1 TATTTAG
105672004 TATTTAG
1 TATTTAG
105672011 TAT
1 TAT
105672014 ATAACTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (7 bp):
TATTTAG
Found at i:105672001 original size:21 final size:22
Alignment explanation
Indices: 105671972--105672013 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
105671962 CATAATAAAA
105671972 TAGTCATTTCA-TATTTAGTATT
1 TAGTCATTT-AGTATTTAGTATT
105671994 TAGT-ATTTAGTATTTAGTAT
1 TAGTCATTTAGTATTTAGTAT
105672014 ATAACTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.05
21 14 0.74
22 4 0.21
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.55
Consensus pattern (22 bp):
TAGTCATTTAGTATTTAGTATT
Found at i:105673556 original size:47 final size:46
Alignment explanation
Indices: 105673437--105673567 Score: 192
Period size: 46 Copynumber: 2.8 Consensus size: 46
105673427 ATAATTTCAC
* *
105673437 CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGGTGTTCGTAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGATGTTCGCAT
* *
105673483 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTT-GCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGATG-TTCGCAT
*
105673529 CCATAAGTGAACTCGGAACGCAACTCAACGAGCTTGGAT
1 CCATAA-TGAACTCGGAACGCAACTCAACGAGCTCGGAT
105673568 CTCAATTTCC
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
46 45 0.59
47 31 0.41
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGATGTTCGCAT
Found at i:105680889 original size:47 final size:46
Alignment explanation
Indices: 105680768--105680895 Score: 177
Period size: 46 Copynumber: 2.8 Consensus size: 46
105680758 ATAATTTCAC
* * *
105680768 CCATAATAAACTCGGAACGCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGTTCGCAT
* * *
105680814 CCATAATGAACTCAGAACACAACTCAACGAGTTCGGATGCTT-GTAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATG-TTCGCAT
105680860 CCATAAGTGAACTCGGAACGCAACTCAACGAGTTCG
1 CCATAA-TGAACTCGGAACGCAACTCAACGAGTTCG
105680896 AATCTCAATT
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
46 43 0.60
47 29 0.40
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:105684004 original size:126 final size:126
Alignment explanation
Indices: 105683791--105684220 Score: 621
Period size: 126 Copynumber: 3.4 Consensus size: 126
105683781 TACTGTAGAT
* * * * *
105683791 AAAGAGCATCCATGTGGGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATCCTGTTTGAAGTGTT
1 AAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGTTTGAAGCGTT
* * * * *
105683856 TTGGACACTATTTGTTCAGAAACATCTTCTCGAAATTATTTTTTCAGATACTACTGTAGCA
66 TTGAACACTATTTGTTAAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTATAGCA
* * * * * *
105683917 AAAGAGCGTCCACGTGGGAGCTTTTTTTAGTAATTTTTCT-AAACGTGCACCCTGTTTGACGCGT
1 AAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACA-GTGCATCCTGTTTGAAGCGT
*
105683981 TTTGAACACTATTTGTTAAGAAACGTCTTCTCAAAATTTTTTTTTCAGATACTACTATAGCA
65 TTTGAACACTATTTGTTAAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTATAGCA
* * *
105684043 AAAAAGCCTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAAGCGTT
1 AAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGTTTGAAGCGTT
* * *
105684108 TTGTACACTATTTGTTTAGAAACGTCTTCTCAAAATTA-TTTTTCAAATACTACTATAGCA
66 TTGAACACTATTTGTTAAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTATAGCA
*
105684168 AAAGAGCGTCCACGTGGAAACTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
1 AAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
105684221 AATTTAATTA
Statistics
Matches: 271, Mismatches: 31, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
125 73 0.27
126 196 0.72
127 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.37
Consensus pattern (126 bp):
AAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGTTTGAAGCGTT
TTGAACACTATTTGTTAAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTATAGCA
Found at i:105684300 original size:26 final size:26
Alignment explanation
Indices: 105684248--105684324 Score: 75
Period size: 26 Copynumber: 2.8 Consensus size: 26
105684238 CTAAAAACCC
105684248 TAAACCCTAATTTAATTAATTTTTTAAAAT
1 TAAACCCTAATTTAATTAA----TTAAAAT
* **
105684278 TAATA-GCTAATTTAATTAATTAACCT
1 TAA-ACCCTAATTTAATTAATTAAAAT
105684304 TAAACCCTAATTTAATTAATT
1 TAAACCCTAATTTAATTAATT
105684325 TTTTCCCTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
25 1 0.02
26 23 0.56
30 16 0.39
31 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.01, T:0.44
Consensus pattern (26 bp):
TAAACCCTAATTTAATTAATTAAAAT
Found at i:105684351 original size:17 final size:16
Alignment explanation
Indices: 105684329--105684367 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
105684319 TTAATTTTTT
105684329 CCCTAAACACAATAAAA
1 CCCTAAACAC-ATAAAA
* *
105684346 CCCTAAACTCTTAAAA
1 CCCTAAACACATAAAA
105684362 CCCTAA
1 CCCTAA
105684368 CATTAAACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.18
Consensus pattern (16 bp):
CCCTAAACACATAAAA
Found at i:105689834 original size:57 final size:56
Alignment explanation
Indices: 105689682--105689837 Score: 181
Period size: 57 Copynumber: 2.7 Consensus size: 56
105689672 TATATTATAA
* *
105689682 TTTTTATT-AATTCATATTTTAATAATTATTATATTAAGATTGTTATTAAATTATATATT
1 TTTTTATTAAATT-ATA-TTTAATAATAATT-TATTAAAATTG-TATTAAATTATATATT
* * * *
105689741 ATTTTATTAAATTGTATTTAATAATAATTAAGTTAAAATATG-ATTAAATTATTTATT
1 TTTTTATTAAATTATATTTAATAATAATTTA-TTAAAAT-TGTATTAAATTATATATT
105689798 TTTTTATTAAATTATATTTAATAATAATCTTATTAAAATT
1 TTTTTATTAAATTATATTTAATAATAAT-TTATTAAAATT
105689838 TAATAACAAT
Statistics
Matches: 84, Mismatches: 9, Indels: 11
0.81 0.09 0.11
Matches are distributed among these distances:
56 1 0.01
57 48 0.57
58 20 0.24
59 11 0.13
60 4 0.05
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (56 bp):
TTTTTATTAAATTATATTTAATAATAATTTATTAAAATTGTATTAAATTATATATT
Found at i:105690025 original size:16 final size:16
Alignment explanation
Indices: 105690004--105690038 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
105689994 TGAATTACTG
105690004 ATTACAACTCTT-TTCT
1 ATTACAAC-CTTATTCT
105690020 ATTACAACCTTATTCT
1 ATTACAACCTTATTCT
105690036 ATT
1 ATT
105690039 CACCCCAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.29, C:0.23, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTACAACCTTATTCT
Found at i:105700557 original size:26 final size:26
Alignment explanation
Indices: 105700528--105700579 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
105700518 TTATTTTTAG
*
105700528 TTTCCTTTCC-TTTTCTTTCTTCTTTC
1 TTTCCTTTCCGTTCT-TTTCTTCTTTC
* *
105700554 TTTCTTTTTCGTTCTTTTCTTCTTTC
1 TTTCCTTTCCGTTCTTTTCTTCTTTC
105700580 CATTCCGTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.00, C:0.27, G:0.02, T:0.71
Consensus pattern (26 bp):
TTTCCTTTCCGTTCTTTTCTTCTTTC
Found at i:105700562 original size:21 final size:22
Alignment explanation
Indices: 105700532--105700602 Score: 74
Period size: 21 Copynumber: 3.3 Consensus size: 22
105700522 TTTTAGTTTC
*
105700532 CTTTCCTTTTCTTTCTTCT-TT
1 CTTTCCTTTTCGTTCTTCTCTT
* *
105700553 CTTTCTTTTTCGTTCTTTTCTT
1 CTTTCCTTTTCGTTCTTCTCTT
* * *
105700575 CTTTCCATTCCG-TCTTCTCTC
1 CTTTCCTTTTCGTTCTTCTCTT
105700596 CTTTCCT
1 CTTTCCT
105700603 CATCTTCTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
21 29 0.73
22 11 0.28
ACGTcount: A:0.01, C:0.32, G:0.03, T:0.63
Consensus pattern (22 bp):
CTTTCCTTTTCGTTCTTCTCTT
Found at i:105700563 original size:10 final size:10
Alignment explanation
Indices: 105700532--105700571 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
105700522 TTTTAGTTTC
*
105700532 CTTTCCTTTT
1 CTTTCTTTTT
105700542 CTTTCTTCTTT
1 CTTTCTT-TTT
105700553 CTTTCTTTTT
1 CTTTCTTTTT
*
105700563 CGTTCTTTT
1 CTTTCTTTT
105700572 CTTCTTTCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 17 0.63
11 10 0.37
ACGTcount: A:0.00, C:0.25, G:0.03, T:0.72
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:105701514 original size:2 final size:2
Alignment explanation
Indices: 105701507--105701535 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
105701497 TATATTATTT
105701507 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
105701536 TTGTGTATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:105704572 original size:50 final size:50
Alignment explanation
Indices: 105704517--105704611 Score: 145
Period size: 50 Copynumber: 1.9 Consensus size: 50
105704507 TAGTCTTAAA
* * * *
105704517 TAAATAGTCTTAATTTGAGCTCTCAAACTTAAAATCGAGTGATTCTTCAG
1 TAAATAGTCATAACTTGAACTCTCAAACTTAAAATCGAATGATTCTTCAG
*
105704567 TAAATAGTCATAACTTGAACTCTCAAACTTGAAATCGAATGATTC
1 TAAATAGTCATAACTTGAACTCTCAAACTTAAAATCGAATGATTC
105704612 AAAGTGCGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.34
Consensus pattern (50 bp):
TAAATAGTCATAACTTGAACTCTCAAACTTAAAATCGAATGATTCTTCAG
Found at i:105708407 original size:7 final size:7
Alignment explanation
Indices: 105708397--105708457 Score: 68
Period size: 7 Copynumber: 8.7 Consensus size: 7
105708387 ATTTCGAATG
105708397 TTTAAAT
1 TTTAAAT
105708404 TTTAAAT
1 TTTAAAT
*
105708411 TTTAAAC
1 TTTAAAT
*
105708418 TCTAAAT
1 TTTAAAT
* *
105708425 CTCAAAT
1 TTTAAAT
105708432 TTTAAAT
1 TTTAAAT
* *
105708439 CTTAAAC
1 TTTAAAT
105708446 TTTAAAT
1 TTTAAAT
105708453 TTTAA
1 TTTAA
105708458 GCGGGAACTC
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 42 1.00
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (7 bp):
TTTAAAT
Found at i:105708424 original size:21 final size:21
Alignment explanation
Indices: 105708398--105708457 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
105708388 TTTCGAATGT
105708398 TTAAATTTTAAATTTTAAA-C
1 TTAAATTTTAAATTTTAAATC
* *
105708418 TCTAAATCTCAAATTTTAAATC
1 T-TAAATTTTAAATTTTAAATC
*
105708440 TTAAACTTTAAATTTTAA
1 TTAAATTTTAAATTTTAA
105708458 GCGGGAACTC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
20 1 0.03
21 30 0.91
22 2 0.06
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAAATTTTAAATTTTAAATC
Found at i:105709384 original size:3 final size:3
Alignment explanation
Indices: 105709376--105709404 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
105709366 AATTTTGATT
105709376 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
105709405 TTTTTTACCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:105712409 original size:21 final size:22
Alignment explanation
Indices: 105712368--105712411 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
105712358 TGCCCTGTTC
*
105712368 TTTATTTCTTTTTCTTTTTTTA
1 TTTATTTCTTTTTCTTCTTTTA
105712390 TTTA-TTCTTTTGT-TTCTTTTA
1 TTTATTTCTTTT-TCTTCTTTTA
105712411 T
1 T
105712412 GTTTTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.80
Consensus pattern (22 bp):
TTTATTTCTTTTTCTTCTTTTA
Found at i:105712444 original size:8 final size:8
Alignment explanation
Indices: 105712433--105712466 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
105712423 TTATTTATAT
105712433 TATAATAA
1 TATAATAA
105712441 TATAATAA
1 TATAATAA
*
105712449 TATATTAA
1 TATAATAA
*
105712457 CATAATAA
1 TATAATAA
105712465 TA
1 TA
105712467 ATTCTTAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (8 bp):
TATAATAA
Found at i:105716202 original size:30 final size:30
Alignment explanation
Indices: 105716166--105716223 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
105716156 ATAATAAATT
105716166 TTAATTTTAATCC-TTAAAAATATAAAAAAA
1 TTAA-TTTAATCCTTTAAAAATATAAAAAAA
105716196 TTAATTTAATCCTTTAAAAATATAAAAA
1 TTAATTTAATCCTTTAAAAATATAAAAA
105716224 TGTAGAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (30 bp):
TTAATTTAATCCTTTAAAAATATAAAAAAA
Found at i:105717124 original size:3 final size:3
Alignment explanation
Indices: 105717090--105717138 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
105717080 AAGAAAGGGG
*
105717090 GAA GGA GAA G-A GAAA GAA -AA G-A GAA G-A GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
105717132 GAA GAA G
1 GAA GAA G
105717139 GAGGAGGAGG
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 8 0.21
3 29 0.74
4 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:105717182 original size:6 final size:6
Alignment explanation
Indices: 105717171--105717201 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
105717161 TGAGGGAAGA
*
105717171 AAAAAG AAAAAG AAAAAG AGAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A
105717202 GAAGGAGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:105717202 original size:12 final size:12
Alignment explanation
Indices: 105717171--105717237 Score: 64
Period size: 12 Copynumber: 5.4 Consensus size: 12
105717161 TGAGGGAAGA
*
105717171 AAAAAGAAAAAG
1 AAAAAGAGAAAG
105717183 AAAAAGAGAAAG
1 AAAAAGAGAAAG
105717195 AAAAAGAGAAGGAG
1 AAAAAGAGAA--AG
*
105717209 AAGAAGA-AGAAG
1 AAAAAGAGA-AAG
* *
105717221 AGAAAGAGAAGG
1 AAAAAGAGAAAG
105717233 AAAAA
1 AAAAA
105717238 AAAGGTAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
12 34 0.76
13 2 0.04
14 9 0.20
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
AAAAAGAGAAAG
Found at i:105717204 original size:26 final size:26
Alignment explanation
Indices: 105717166--105717230 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
105717156 ATTGGTGAGG
105717166 GAAGAAAAA-AGAAAAAGAAAAAG-A
1 GAAGAAAAAGAGAAAAAGAAAAAGAA
** *
105717190 GAAAGAAAAAGAGAAGGAGAAGAAGAA
1 G-AAGAAAAAGAGAAAAAGAAAAAGAA
*
105717217 GAAGAGAAAGAGAA
1 GAAGAAAAAGAGAA
105717231 GGAAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 8 0.24
26 23 0.68
27 2 0.06
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (26 bp):
GAAGAAAAAGAGAAAAAGAAAAAGAA
Found at i:105718199 original size:15 final size:15
Alignment explanation
Indices: 105718175--105718222 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
105718165 TGCACTAAAT
105718175 AATATAAAAAAATAA
1 AATATAAAAAAATAA
*
105718190 AATATGAAAATAAT-A
1 AATAT-AAAAAAATAA
* *
105718205 AATTTTAAAAAATAA
1 AATATAAAAAAATAA
105718220 AAT
1 AAT
105718223 CCGAAAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 6 0.22
15 14 0.52
16 7 0.26
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (15 bp):
AATATAAAAAAATAA
Found at i:105718365 original size:143 final size:141
Alignment explanation
Indices: 105717655--105718485 Score: 1093
Period size: 143 Copynumber: 5.9 Consensus size: 141
105717645 TATATTTTAA
* *
105717655 AAAATCCGAAAAT-AAAATAAAAAAAGGCCAAAATTAGAGGTTTTTTACTAAATTAATATAAATA
1 AAAATCCGAAAATAAAAATAAAAAAAGGCCAAAATCAGA-GATTTTTACTAAATTAATATAAA-A
* *
105717719 TACTAAAATAATATATATGAAACATTATGTACTAAAATAATA-AAAAAATAAAATACGAAAATAG
64 AACTAAAAT-A-ATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAG
**
105717783 TATATTTTGGAAAAT
127 TATATTTTAAAAAAT
* * *
105717798 AAAATCCGAAAATAAAATAAAAAACAAACGGCTAAAATCAGAAATTTTTACTAAATTAATATAAA
1 AAAATCCGAAAATAAAA-ATAAAA-AAA-GGCCAAAATCAGAGATTTTTACTAAATTAATATAAA
*
105717863 AAACCAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATA
63 AAACTAAAATAATACA--TGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATA
*
105717928 GTATATTTT--TAAA-
126 GTATATTTTAAAAAAT
* *
105717941 AAAATCCGAAAA-CAAAATAAAAAAAGGCCAAAATCACAGATTTTTACTAAATTAATAT---AAA
1 AAAATCCGAAAATAAAAATAAAAAAAGGCCAAAATCAGAGATTTTTACTAAATTAATATAAAAAA
* * * *
105718002 --AAAATAATACATGGAACATAATGTACTAAAATAATATAAAAAAACAAAATACGAAAATAATAT
66 CTAAAATAATACATGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTAT
*
105718065 ATCTTAAAAAAT
130 ATTTTAAAAAAT
* * * * *
105718077 AAAATCCAAAAATAAAAAT-AAAAAGGGCCAAAATCAGGGTTTTTTTTCTAAATTAATATAAAAA
1 AAAATCCGAAAATAAAAATAAAAAAAGGCCAAAATCAGAG-ATTTTTACTAAATTAATATAAAAA
* * *
105718141 ACTAAAATAATACATGAAACATTATGCACT-AAATAATATAAAAAAATAAAATATGAAAATAATA
65 ACTAAAATAATACATGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTA
*
105718205 AATTTTAAAAAAT
129 TATTTTAAAAAAT
* *
105718218 AAAATCCGAAAATAAAAAT-AAAAAAGGCCAAAATCAGAGTTTTTTTCTAAATTAATATAAAAAA
1 AAAATCCGAAAATAAAAATAAAAAAAGGCCAAAATCAGAGATTTTTACTAAATTAATATAAAAAA
105718282 CTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAGAATAAAATACGAAAATAGT
66 CTAAAATAATACA--TGAAACATTATGTACTAAAATAATATAAAA-AATAAAATACGAAAATAGT
105718347 ATATTTTAAAAAAT
128 ATATTTTAAAAAAT
* *
105718361 AAAATCCGAAAA-CAAAATAAATAAAACGGCCAAAATCACAGATTTTTACTAAATTAATATAAAA
1 AAAATCCGAAAATAAAAATAAA-AAAA-GGCCAAAATCAGAGATTTTTACTAAATTAATATAAAA
*
105718425 AACTAAAATAATACATGAAACATTATATACTAAAATAATAT-AAAAATAAAAT-CTGAAAATA
64 AACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATAC-GAAAATA
105718486 AAAAATAAAA
Statistics
Matches: 616, Mismatches: 46, Indels: 54
0.86 0.06 0.08
Matches are distributed among these distances:
132 24 0.04
133 27 0.04
134 11 0.02
135 3 0.00
136 31 0.05
137 22 0.04
139 30 0.05
140 45 0.07
141 99 0.16
142 54 0.09
143 107 0.17
144 11 0.02
145 87 0.14
146 54 0.09
147 11 0.02
ACGTcount: A:0.59, C:0.09, G:0.06, T:0.26
Consensus pattern (141 bp):
AAAATCCGAAAATAAAAATAAAAAAAGGCCAAAATCAGAGATTTTTACTAAATTAATATAAAAAA
CTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATA
TTTTAAAAAAT
Found at i:105718483 original size:111 final size:107
Alignment explanation
Indices: 105718353--105718592 Score: 299
Period size: 111 Copynumber: 2.2 Consensus size: 107
105718343 TAGTATATTT
*
105718353 TAAAAAATAAAATCCGAAAACAAAATAAAT-AAAACGGCCAAAATCACAGATTTTT-ACTAAATT
1 TAAAAAATAAAATCTGAAAA-AAAA-AAATAAAAACGGCCAAAATCACAG-TTTTTCACTAAATT
105718416 AATATAAAAAACTAAAATAATACA-TGAAACATTATATACTAAAATAATA
63 AATAT---AAA--AAAATAATACATTGAAACATTATATACTAAAATAATA
* * * *
105718465 T-AAAAATAAAATCTGAAAATAAAAAATAAAAATGGCCAAAATCAGAGTTTTTGCTCTAAATTAA
1 TAAAAAATAAAATCTGAAAAAAAAAAATAAAAACGGCCAAAATCACAGTTTTT-CACTAAATTAA
*
105718529 TATAAAAAAATAATACATTTGAAACATTATGTACTAAAATAATA
65 TATAAAAAAATAATACA-TTGAAACATTATATACTAAAATAATA
*
105718573 TAAAAAATAAAATATGAAAA
1 TAAAAAATAAAATCTGAAAA
105718593 TAGTATATTT
Statistics
Matches: 115, Mismatches: 7, Indels: 15
0.84 0.05 0.11
Matches are distributed among these distances:
106 11 0.10
108 28 0.24
109 26 0.23
110 20 0.17
111 29 0.25
112 1 0.01
ACGTcount: A:0.59, C:0.09, G:0.06, T:0.26
Consensus pattern (107 bp):
TAAAAAATAAAATCTGAAAAAAAAAAATAAAAACGGCCAAAATCACAGTTTTTCACTAAATTAAT
ATAAAAAAATAATACATTGAAACATTATATACTAAAATAATA
Found at i:105718611 original size:251 final size:255
Alignment explanation
Indices: 105718210--105718742 Score: 789
Period size: 251 Copynumber: 2.1 Consensus size: 255
105718200 TAATAAATTT
*
105718210 TAAAAAATAAAATCCGAAAAT-AAAAATAAAAAAGGCCAAAATCAGAGTTTTTTTCTAAATTAAT
1 TAAAAAATAAAAT-CGAAAATAAAAAATAAAAAAGGCCAAAATCAGAGTTTTTCTCTAAATTAAT
105718274 ATAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAGAATAAAATACG
65 AT--AAAAC-AAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAGAATAAAATACG
* *
105718339 AAAATAGTATATTTTAAAAAATAAAATCCGAAAACAAAAT-AAATA-AAACGGCCAAAATCACAG
127 AAAATAGTATATTTTAAAAAATAAAATCCGAAAACAAAATAAAAAATAAACGGACAAAAT--CAG
*
105718402 -ATTTT-TACTAAATTAATATAAAAAACTAAAATAATACA-TGAAACATTATATACTAAAATAAT
190 TATTTTATACTAAATTAATATAAAAAACTAAAATAATAAATTGAAACATTATATACTAAAATAAT
105718464 A
255 A
*
105718465 T-AAAAATAAAATCTGAAAATAAAAAATAAAAATGGCCAAAATCAGAGTTTTTGCTCTAAATTAA
1 TAAAAAATAAAATC-GAAAATAAAAAATAAAAAAGGCCAAAATCAGAGTTTTT-CTCTAAATTAA
*
105718529 TAT-AAA-AAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAA-AATAAAATATGAA
64 TATAAAACAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAGAATAAAATACGAA
* *
105718591 AATAGTATATTTTAAAAAAATAAAATCTGAAAATAAAATAAAAAATAAACGGACAAAATCAGTAT
129 AATAGTATATTTT-AAAAAATAAAATCCGAAAACAAAATAAAAAATAAACGGACAAAATCAGTAT
* * *
105718656 TTTATATTAAATTAATATAAAAAACTAAAATAATAAATTTGGAACATTATGTACTAAAATAATA
193 TTTATACTAAATTAATATAAAAAACTAAAATAATAAA-TTGAAACATTATATACTAAAATAATA
105718720 TAAAAAAATAAAATACGAAAATA
1 T-AAAAAATAAAAT-CGAAAATA
105718743 GTATATTTTA
Statistics
Matches: 254, Mismatches: 11, Indels: 24
0.88 0.04 0.08
Matches are distributed among these distances:
250 25 0.10
251 69 0.27
252 9 0.04
253 47 0.19
254 17 0.07
255 55 0.22
256 13 0.05
257 18 0.07
258 1 0.00
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (255 bp):
TAAAAAATAAAATCGAAAATAAAAAATAAAAAAGGCCAAAATCAGAGTTTTTCTCTAAATTAATA
TAAAACAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAGAATAAAATACGAAAA
TAGTATATTTTAAAAAATAAAATCCGAAAACAAAATAAAAAATAAACGGACAAAATCAGTATTTT
ATACTAAATTAATATAAAAAACTAAAATAATAAATTGAAACATTATATACTAAAATAATA
Found at i:105718869 original size:145 final size:143
Alignment explanation
Indices: 105718480--105719040 Score: 690
Period size: 145 Copynumber: 3.9 Consensus size: 143
105718470 ATAAAATCTG
* **
105718480 AAAATAAAAAATAAAAATGGCCAAAATCAGAGTTTTTGCTCTAAATTAATAT---AAA--AAAAT
1 AAAATAAAAAATAAACA--GCCAAAATCAGAGTTTTTTAT-TAAATTAATATAAAAAACTAAAAT
* * *
105718540 AATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATATGAAAATAGTATATTTTA
63 AATACAATTGGAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTT-
**
105718605 AAAAAATAAAATCTGAAAAT
127 --AAAA-AAAATCCAAAAAT
* * *
105718625 AAAATAAAAAATAAACGGACAAAATCAGTA-TTTTATATTAAATTAATATAAAAAACTAAAATAA
1 AAAATAAAAAATAAACAGCCAAAATCAG-AGTTTTTTATTAAATTAATATAAAAAACTAAAATAA
105718689 TA-AATTTGGAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAGTATATTTTA
65 TACAA-TTGGAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTA
105718753 AAAAAAATCCAAAAAT
128 AAAAAAATCCAAAAAT
*
105718769 AAAATAAAAAATAAACAGCCAAAATTAGAGTTTTTTATTAAATTAATATAAAAAAACTAAAATAA
1 AAAATAAAAAATAAACAGCCAAAATCAGAGTTTTTTATTAAATTAATAT-AAAAAACTAAAATAA
105718834 TACAATTGGAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAGTATA-TTT--
65 TACAATTGGAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTAA
105718896 ------T-CAAAAAT
129 AAAAAATCCAAAAAT
*
105718904 AAAATAAAAAATAAACGGCCAAAATCAGAGTTTTTCTGTTTTTATTAAATTAATATAAAAAACTA
1 AAAATAAAAAATAAACAGCCAAAATCAGAG------T-TTTTTATTAAATTAATATAAAAAACTA
* *
105718969 AAATAATACATTTGGAACATTATGTACTAAAATAATAT-AAAAATAAAATACGAAAATAATATAT
59 AAATAATACAATTGGAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATAT
105719033 TTTAAAAA
124 TTTAAAAA
105719041 TTTAAAATTT
Statistics
Matches: 373, Mismatches: 19, Indels: 48
0.85 0.04 0.11
Matches are distributed among these distances:
135 35 0.09
136 1 0.00
139 24 0.06
140 3 0.01
141 47 0.13
142 29 0.08
143 16 0.04
144 58 0.16
145 93 0.25
146 3 0.01
147 35 0.09
148 29 0.08
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.29
Consensus pattern (143 bp):
AAAATAAAAAATAAACAGCCAAAATCAGAGTTTTTTATTAAATTAATATAAAAAACTAAAATAAT
ACAATTGGAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAA
AAAATCCAAAAAT
Found at i:105725281 original size:22 final size:25
Alignment explanation
Indices: 105725255--105725299 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
105725245 TAAATTACCT
105725255 TTTCTTT-TTT-T-TCTTCTTCTCC
1 TTTCTTTCTTTCTATCTTCTTCTCC
105725277 TTTCTTTCTTTCTATCTTCTTCT
1 TTTCTTTCTTTCTATCTTCTTCT
105725300 TCTGTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 3 0.15
24 1 0.05
25 9 0.45
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (25 bp):
TTTCTTTCTTTCTATCTTCTTCTCC
Found at i:105725417 original size:27 final size:27
Alignment explanation
Indices: 105725387--105725445 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
105725377 GAGAAAGGCA
105725387 CCACCGGTGCCGCCTGTGGGGTACCCT
1 CCACCGGTGCCGCCTGTGGGGTACCCT
*
105725414 CCACTGGTGCCGCCTGTGGGGTACCCT
1 CCACCGGTGCCGCCTGTGGGGTACCCT
*
105725441 TCACC
1 CCACC
105725446 CCTATTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.08, C:0.41, G:0.31, T:0.20
Consensus pattern (27 bp):
CCACCGGTGCCGCCTGTGGGGTACCCT
Found at i:105726656 original size:14 final size:14
Alignment explanation
Indices: 105726637--105726663 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
105726627 ATTCTTTATT
105726637 TTATTTTTATTTTA
1 TTATTTTTATTTTA
105726651 TTATTTTTATTTT
1 TTATTTTTATTTT
105726664 CACAAATTGG
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTATTTTTATTTTA
Found at i:105731157 original size:12 final size:12
Alignment explanation
Indices: 105731141--105731173 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
105731131 TTCGAATTGA
105731141 TTTTCTTTCTTTC
1 TTTTCTTT-TTTC
105731154 -TTTCTTTTTTC
1 TTTTCTTTTTTC
105731165 TTTTCTTTT
1 TTTTCTTTT
105731174 CCTACTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:105731807 original size:3 final size:3
Alignment explanation
Indices: 105731741--105731789 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
105731731 CTTTATAAAA
105731741 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
105731789 T
1 T
105731790 TAGGTAGTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:105731910 original size:15 final size:18
Alignment explanation
Indices: 105731892--105731929 Score: 55
Period size: 15 Copynumber: 2.3 Consensus size: 18
105731882 GTTATGTGTA
105731892 TATGTTTTT-TA-A-TAT
1 TATGTTTTTATATACTAT
105731907 TATGTTTTTATATACTAT
1 TATGTTTTTATATACTAT
105731925 TATGT
1 TATGT
105731930 ATATATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 9 0.45
16 2 0.10
17 1 0.05
18 8 0.40
ACGTcount: A:0.26, C:0.03, G:0.08, T:0.63
Consensus pattern (18 bp):
TATGTTTTTATATACTAT
Found at i:105731948 original size:40 final size:40
Alignment explanation
Indices: 105731872--105731948 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
105731862 TATATATTGC
* * **
105731872 TTTTATATATGTTATGTGTATATGTTTTTTAATATTATGT
1 TTTTATATATATTATGTATATATGTTTAATAATATTATGT
*
105731912 TTTTATATACTATTATGTATATAT-TTTAATATTATTA
1 TTTTATATA-TATTATGTATATATGTTTAATAATATTA
105731949 GTTATATAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 19 0.61
41 12 0.39
ACGTcount: A:0.30, C:0.01, G:0.08, T:0.61
Consensus pattern (40 bp):
TTTTATATATATTATGTATATATGTTTAATAATATTATGT
Found at i:105731954 original size:22 final size:23
Alignment explanation
Indices: 105731912--105731987 Score: 61
Period size: 22 Copynumber: 3.3 Consensus size: 23
105731902 AATATTATGT
105731912 TTTTATATACTATTATGTATATA
1 TTTTATATACTATTATGTATATA
*
105731935 TTTTA-ATATTATTA-GTTATATA
1 TTTTATATACTATTATG-TATATA
**
105731957 ACTT-TATACTATTGTATGTATAT-
1 TTTTATATACTA-T-TATGTATATA
*
105731980 TTCTATAT
1 TTTTATAT
105731988 TGTATATTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 11
0.69 0.12 0.19
Matches are distributed among these distances:
21 1 0.03
22 21 0.52
23 7 0.17
24 10 0.25
25 1 0.03
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (23 bp):
TTTTATATACTATTATGTATATA
Found at i:105732095 original size:9 final size:8
Alignment explanation
Indices: 105732081--105732146 Score: 55
Period size: 9 Copynumber: 8.0 Consensus size: 8
105732071 ATCATTTCTA
105732081 ATATATATT
1 ATATAT-TT
105732090 ATATATTT
1 ATATATTT
105732098 -TATATGTT
1 ATATAT-TT
*
105732106 ATAT-GTT
1 ATATATTT
105732113 ATATATATT
1 ATATAT-TT
*
105732122 GTATATTT
1 ATATATTT
*
105732130 AAATATATT
1 ATATAT-TT
105732139 ATATATTT
1 ATATATTT
105732147 TTAATGTTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
7 11 0.24
8 12 0.26
9 23 0.50
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.58
Consensus pattern (8 bp):
ATATATTT
Found at i:105732137 original size:17 final size:17
Alignment explanation
Indices: 105732083--105732146 Score: 69
Period size: 16 Copynumber: 3.9 Consensus size: 17
105732073 CATTTCTAAT
*
105732083 ATATATTATATATTT-T
1 ATATATTATATATTTAA
* * *
105732099 ATATGTTATAT-GTTAT
1 ATATATTATATATTTAA
*
105732115 ATATATTGTATATTTAA
1 ATATATTATATATTTAA
105732132 ATATATTATATATTT
1 ATATATTATATATTT
105732147 TTAATGTTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
15 2 0.05
16 20 0.51
17 17 0.44
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.58
Consensus pattern (17 bp):
ATATATTATATATTTAA
Found at i:105732162 original size:40 final size:42
Alignment explanation
Indices: 105732090--105732169 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
105732080 AATATATATT
* *
105732090 ATATATTTTATATGTTATATGTTATATATATTGTATATTTAA
1 ATATATTATATATGTTATATGTTATATATATTGTACATTTAA
*
105732132 ATATATTATATAT-TTTTAATGTTAT-T-TATTGTACATTT
1 ATATATTATATATGTTAT-ATGTTATATATATTGTACATTT
105732170 CTTTACTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 11 0.32
41 4 0.12
42 19 0.56
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.59
Consensus pattern (42 bp):
ATATATTATATATGTTATATGTTATATATATTGTACATTTAA
Found at i:105732269 original size:21 final size:19
Alignment explanation
Indices: 105732241--105732329 Score: 70
Period size: 21 Copynumber: 4.4 Consensus size: 19
105732231 TACTATGTCA
105732241 TATATATATTTAATATTGTAT
1 TATATATATTTAATA-T-TAT
* * *
105732262 TATGTATATATATTATTAT
1 TATATATATTTAATATTAT
* *
105732281 TATATATATTTTATCCTTAT
1 TATATATATTTAAT-ATTAT
*
105732301 TATATTTATTATTAATATTAT
1 TATATATA-T-TTAATATTAT
*
105732322 TACATATA
1 TATATATA
105732330 CTCTGTATAC
Statistics
Matches: 52, Mismatches: 13, Indels: 6
0.73 0.18 0.08
Matches are distributed among these distances:
19 13 0.25
20 12 0.23
21 23 0.44
22 4 0.08
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.57
Consensus pattern (19 bp):
TATATATATTTAATATTAT
Found at i:105732382 original size:21 final size:24
Alignment explanation
Indices: 105732358--105732408 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 24
105732348 ATTTTTAACA
*
105732358 TTATTATATTT-A-CTATTA-TAT
1 TTATTATATTTAATATATTATTAT
*
105732379 TTATTATTTTTAATATATTATTAT
1 TTATTATATTTAATATATTATTAT
105732403 TTATTA
1 TTATTA
105732409 CTTTATTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.40
22 1 0.04
23 5 0.20
24 9 0.36
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (24 bp):
TTATTATATTTAATATATTATTAT
Found at i:105734636 original size:31 final size:31
Alignment explanation
Indices: 105734581--105734640 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
105734571 AAGTTTAAAT
* *
105734581 AATAAGATAAGAGAAAAGTTTAAAAATAAACA
1 AATAAGATAAGAGAAAAATAT-AAAATAAACA
105734613 AATAA-ATAAGAGAAAAATATAAAATAAA
1 AATAAGATAAGAGAAAAATATAAAATAAA
105734641 ATAAAAGGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 8 0.31
31 13 0.50
32 5 0.19
ACGTcount: A:0.70, C:0.02, G:0.10, T:0.18
Consensus pattern (31 bp):
AATAAGATAAGAGAAAAATATAAAATAAACA
Found at i:105734664 original size:18 final size:17
Alignment explanation
Indices: 105734635--105734679 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
105734625 AAAAATATAA
*
105734635 AATAA-AATAAAAGGGT
1 AATAATAATAAAAAGGT
105734651 AATAATAATAAAAAGGT
1 AATAATAATAAAAAGGT
105734668 AATAAATAATAA
1 AAT-AATAATAA
105734680 TAATGTAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 5 0.19
17 13 0.50
18 8 0.31
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (17 bp):
AATAATAATAAAAAGGT
Found at i:105734687 original size:18 final size:18
Alignment explanation
Indices: 105734640--105734694 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
105734630 TATAAAATAA
*
105734640 AATAAAAGGGTAAT-AAT
1 AATAAAAAGGTAATAAAT
105734657 AATAAAAAGGTAATAAAT
1 AATAAAAAGGTAATAAAT
* *
105734675 AATAATAATGTAAGTAAAT
1 AATAAAAAGGTAA-TAAAT
105734694 A
1 A
105734695 CGAAAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
17 13 0.39
18 14 0.42
19 6 0.18
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.25
Consensus pattern (18 bp):
AATAAAAAGGTAATAAAT
Found at i:105734779 original size:14 final size:14
Alignment explanation
Indices: 105734762--105735068 Score: 101
Period size: 14 Copynumber: 21.9 Consensus size: 14
105734752 TGATTATGAT
*
105734762 AATAGTAATAATAC
1 AATAATAATAATAC
*
105734776 AATAATAATAATAATA
1 AATAATAATAAT-A-C
*
105734792 AAGTAGA-AAGTAATAAT
1 AA-TA-ATAA-TAAT-AC
105734809 AATAATAATAATAC
1 AATAATAATAATAC
* *
105734823 ATTAATAAGAAT--
1 AATAATAATAATAC
105734835 AATAATATATTAAT--
1 AATAATA-A-TAATAC
* * *
105734849 AATAACAAGAATAG
1 AATAATAATAATAC
105734863 AA-AATAATAATA-
1 AATAATAATAATAC
105734875 AA-AATAATAATA-
1 AATAATAATAATAC
** * *
105734887 ATATGTTAATAAGGAT
1 A-ATAATAATAA-TAC
*
105734903 AATAGTAATAAT--
1 AATAATAATAATAC
105734915 AATAATAATAATA-
1 AATAATAATAATAC
*
105734928 ATAGTAATAAAAATAGC
1 A-A-TAATAATAATA-C
* *
105734945 AATGATAATAGT--
1 AATAATAATAATAC
* *
105734957 AATATTGATAATA-
1 AATAATAATAATAC
*
105734970 AATAATAATAGTA-
1 AATAATAATAATAC
*
105734983 AATAATAATAATAAT
1 AATAATAATAAT-AC
*
105734998 AATAATAATAATAAT
1 AATAATAATAAT-AC
*
105735013 AATAGAAAATAATA-
1 AATA-ATAATAATAC
* *
105735027 AATAA-AAAAATGAAT
1 AATAATAATAAT--AC
105735042 AATAATAATAATAC
1 AATAATAATAATAC
*
105735056 ATTAATAATAATA
1 AATAATAATAATA
105735069 AAATCAGGAA
Statistics
Matches: 230, Mismatches: 36, Indels: 54
0.72 0.11 0.17
Matches are distributed among these distances:
12 46 0.20
13 34 0.15
14 59 0.26
15 57 0.25
16 20 0.09
17 7 0.03
18 7 0.03
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.30
Consensus pattern (14 bp):
AATAATAATAATAC
Found at i:105734782 original size:3 final size:3
Alignment explanation
Indices: 105734760--105735230 Score: 302
Period size: 3 Copynumber: 155.0 Consensus size: 3
105734750 TATGATTATG
* * *
105734760 ATA ATA GTA ATA AT- ACA ATA ATA ATA ATA ATA A-A GTA GA-A AGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA A-TA
* *
105734804 ATA ATA ATA ATA ATA ATA CATTA ATA AGA ATA ATA AT- ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
105734850 ATA ACA AGA ATA GAAA ATA ATA ATA AAA ATA ATA ATA AT- ATG TTA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
** * * *
105734895 ATA AGG ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA GTA ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
** * * * * *
105734943 GCA ATG ATA ATA GTA ATA TTG ATA ATAA ATA ATA ATA GTAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA AT-A ATA ATA
* *
105734990 ATA ATA ATA ATA ATA ATA ATA ATA ATA GAAA ATA ATAA ATA A-A AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA AT-A ATA ATA ATA
**
105735036 ATGA ATA ATA ATA ATA ATA CATTA ATA ATA ATA A-A ATCA GGA ATA ATA
1 AT-A ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA AT-A ATA ATA ATA
* ** *
105735084 ATA ATA AGA ACG ACA AT- ATAA ATA ATA AT- ATA A-A A-A ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
105735126 GTA ATA ATA ATA ATG ATG ATA GTA ATA ATA ATA ATA GAAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
* * * * * *
105735172 GTA ATA GTGA A-A AAA ATA ATA ATA GTA ATA ATGA ATTA ATTA ATT TTA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA AT-A A-TA A-TA ATA ATA
105735220 ATA ATA A-A ATA
1 ATA ATA ATA ATA
105735231 GCAAAATAAC
Statistics
Matches: 363, Mismatches: 75, Indels: 60
0.73 0.15 0.12
Matches are distributed among these distances:
2 23 0.06
3 300 0.83
4 35 0.10
5 5 0.01
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:105735842 original size:2 final size:2
Alignment explanation
Indices: 105735837--105735873 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
105735827 TATGCTACTG
105735837 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
105735874 ATAGTTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:105740260 original size:24 final size:22
Alignment explanation
Indices: 105740230--105740286 Score: 87
Period size: 24 Copynumber: 2.5 Consensus size: 22
105740220 TTGTACTCGG
105740230 TTTTTTTTTTTTGTAAATGGAC
1 TTTTTTTTTTTTGTAAATGGAC
*
105740252 TTGTGTTTTTATTTGTAAATGGAC
1 TT-T-TTTTTTTTTGTAAATGGAC
105740276 TTTTTTTTTTT
1 TTTTTTTTTTT
105740287 ACCGGATGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 9 0.29
23 2 0.06
24 20 0.65
ACGTcount: A:0.16, C:0.04, G:0.14, T:0.67
Consensus pattern (22 bp):
TTTTTTTTTTTTGTAAATGGAC
Found at i:105746466 original size:20 final size:20
Alignment explanation
Indices: 105746415--105746466 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
105746405 TTATGCCACA
105746415 TCAGTATTCTTATCCTGAATT
1 TCAGTATT-TTATCCTGAATT
* *
105746436 TCAGAAGTTTATCCTGAATT
1 TCAGTATTTTATCCTGAATT
105746456 TCAGTATTTTA
1 TCAGTATTTTA
105746467 ATTTGAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 21 0.78
21 6 0.22
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (20 bp):
TCAGTATTTTATCCTGAATT
Found at i:105754032 original size:15 final size:15
Alignment explanation
Indices: 105754012--105754042 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
105754002 CTGCTATGTT
*
105754012 TCATGATGAAGATGA
1 TCATGATAAAGATGA
105754027 TCATGATAAAGATGA
1 TCATGATAAAGATGA
105754042 T
1 T
105754043 GCTATTAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.29
Consensus pattern (15 bp):
TCATGATAAAGATGA
Found at i:105757915 original size:45 final size:45
Alignment explanation
Indices: 105757851--105757979 Score: 181
Period size: 44 Copynumber: 2.9 Consensus size: 45
105757841 GGACAAACAC
*
105757851 ATGATGCCATAACATCTTTCAATTATGATCTTACTTATTTTTATT
1 ATGATGCCATAACATCTTTCAATTATGATCTTACTCATTTTTATT
*
105757896 ATGATGCCATAACATCTTTCAATTAT-AGTCTTACTCA-TTTTCTT
1 ATGATGCCATAACATCTTTCAATTATGA-TCTTACTCATTTTTATT
* ** *
105757940 ATAATGCCATAACATCTTTCAGCTATGGTCTTACTCATTT
1 ATGATGCCATAACATCTTTCAATTATGATCTTACTCATTT
105757980 ATTGTGTATA
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
44 39 0.52
45 36 0.48
ACGTcount: A:0.28, C:0.19, G:0.08, T:0.45
Consensus pattern (45 bp):
ATGATGCCATAACATCTTTCAATTATGATCTTACTCATTTTTATT
Found at i:105769924 original size:19 final size:19
Alignment explanation
Indices: 105769881--105769924 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
105769871 GAAATTACAT
* **
105769881 AATTATTTAAAAAATTTTA
1 AATTTTTTAAAAAATTAAA
*
105769900 ATTTTTTTAAAAAATTAAA
1 AATTTTTTAAAAAATTAAA
105769919 AATTTT
1 AATTTT
105769925 AAAACAGTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AATTTTTTAAAAAATTAAA
Found at i:105786613 original size:2 final size:2
Alignment explanation
Indices: 105786606--105786637 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
105786596 GCTTTTCATA
105786606 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
105786638 TTGGCTTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:105795793 original size:17 final size:19
Alignment explanation
Indices: 105795773--105795809 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
105795763 ATTTTACAAA
105795773 TAATTA-ATAAA-TTATAT
1 TAATTATATAAATTTATAT
*
105795790 TAATTATCTAAATTTATAT
1 TAATTATATAAATTTATAT
105795809 T
1 T
105795810 TCATATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 4 0.24
19 7 0.41
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATTATATAAATTTATAT
Found at i:105796352 original size:32 final size:32
Alignment explanation
Indices: 105796292--105796354 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
105796282 TTCCGGAGCC
* *
105796292 ACAACTCTTGTTTAGAATAGTTGTTGTTCAGA
1 ACAACTCTTGTTTAGAATAATTGATGTTCAGA
*
105796324 ACAACTGTTGTTTGAGAATAATT-ATGTTCAG
1 ACAACTCTTGTTT-AGAATAATTGATGTTCAG
105796355 GATAAGACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 19 0.70
33 8 0.30
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (32 bp):
ACAACTCTTGTTTAGAATAATTGATGTTCAGA
Found at i:105798234 original size:5 final size:5
Alignment explanation
Indices: 105798219--105798272 Score: 56
Period size: 5 Copynumber: 10.0 Consensus size: 5
105798209 TAACTTTTGT
105798219 TTTTA TCTTTA TTTTA TTTTA TTTTA TTTTA CTTATT- TTTTA TTATTAA
1 TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA -TT-TTA TTTTA TT-TT-A
105798268 TTTTA
1 TTTTA
105798273 AAAAATTTGA
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
4 2 0.05
5 25 0.58
6 11 0.26
7 5 0.12
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:105798246 original size:15 final size:15
Alignment explanation
Indices: 105798219--105798272 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 15
105798209 TAACTTTTGT
105798219 TTTTATCTTTATTTTA
1 TTTTAT-TTTATTTTA
105798235 TTTTATTTTATTTTA
1 TTTTATTTTATTTTA
105798250 CTTATT-TTTTATTATTAA
1 -TT-TTATTTTATT-TT-A
105798268 TTTTA
1 TTTTA
105798273 AAAAATTTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
15 9 0.27
16 17 0.52
17 6 0.18
18 1 0.03
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTATTTTATTTTA
Found at i:105798313 original size:23 final size:20
Alignment explanation
Indices: 105798274--105798428 Score: 71
Period size: 21 Copynumber: 8.0 Consensus size: 20
105798264 TTAATTTTAA
* *
105798274 AAAATTTGAAATGTATATTT
1 AAAATTTTAAATATATATTT
105798294 GAAATATTTTATAATATATATATT
1 -AAA-ATTTTA-AATATATAT-TT
*
105798318 TAAATTTTAAATATATATTT
1 AAAATTTTAAATATATATTT
** * *
105798338 ----TTGGAATTAT-TTTTT
1 AAAATTTTAAATATATATTT
105798353 AAAATTTTAAATATATA-TT
1 AAAATTTTAAATATATATTT
* *
105798372 ----TTTGAAAT-TATTTTTT
1 AAAATTTTAAATATA-TATTT
*
105798388 AAAATTTTAAATATTATTTTT
1 AAAATTTTAAATA-TATATTT
* *
105798409 TAAATATTAAATATATATTT
1 AAAATTTTAAATATATATTT
105798429 TTAATAATAT
Statistics
Matches: 101, Mismatches: 17, Indels: 33
0.67 0.11 0.22
Matches are distributed among these distances:
14 2 0.02
15 12 0.12
16 9 0.09
19 9 0.09
20 16 0.16
21 28 0.28
22 13 0.13
23 10 0.10
24 2 0.02
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (20 bp):
AAAATTTTAAATATATATTT
Found at i:105798337 original size:35 final size:35
Alignment explanation
Indices: 105798309--105798415 Score: 141
Period size: 35 Copynumber: 3.1 Consensus size: 35
105798299 ATTTTATAAT
* *
105798309 ATATATATTT-AAATTTTAAATATATATTTTTGGA
1 ATATATTTTTAAAATTTTAAATATATATTTTTGAA
105798343 AT-TATTTTTTAAAATTTTAAATATATATTTTTGAA
1 ATATA-TTTTTAAAATTTTAAATATATATTTTTGAA
*
105798378 AT-TATTTTTTAAAATTTTAAATAT-TATTTTTTAA
1 ATATA-TTTTTAAAATTTTAAATATATATTTTTGAA
105798412 ATAT
1 ATAT
105798416 TAAATATATA
Statistics
Matches: 67, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
33 2 0.03
34 17 0.25
35 48 0.72
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (35 bp):
ATATATTTTTAAAATTTTAAATATATATTTTTGAA
Found at i:105798386 original size:34 final size:35
Alignment explanation
Indices: 105798319--105798413 Score: 165
Period size: 35 Copynumber: 2.7 Consensus size: 35
105798309 ATATATATTT
*
105798319 AAATTTTAAATATATATTTTTGGAATTATTTTTTA
1 AAATTTTAAATATATATTTTTGAAATTATTTTTTA
105798354 AAATTTTAAATATATATTTTTGAAATTATTTTTTA
1 AAATTTTAAATATATATTTTTGAAATTATTTTTTA
*
105798389 AAATTTTAAATAT-TATTTTTTAAAT
1 AAATTTTAAATATATATTTTTGAAAT
105798414 ATTAAATATA
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
34 11 0.19
35 47 0.81
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (35 bp):
AAATTTTAAATATATATTTTTGAAATTATTTTTTA
Found at i:105798394 original size:22 final size:22
Alignment explanation
Indices: 105798378--105798430 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
105798368 TATTTTTGAA
105798378 ATTATTTTTTAAAATTTTAAAT
1 ATTATTTTTTAAAATTTTAAAT
*
105798400 ATTATTTTTT-AAATATTAAAT
1 ATTATTTTTTAAAATTTTAAAT
105798421 ATATATTTTT
1 AT-TATTTTT
105798431 AATAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 12 0.41
22 17 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTATTTTTTAAAATTTTAAAT
Found at i:105798430 original size:23 final size:22
Alignment explanation
Indices: 105798376--105798448 Score: 89
Period size: 21 Copynumber: 3.4 Consensus size: 22
105798366 TATATTTTTG
*
105798376 AAAT-TAT-TTTTTAAAATTTT
1 AAATATATATTTTTAAAATATT
*
105798396 AAATAT-TATTTTTTAAATATT
1 AAATATATATTTTTAAAATATT
*
105798417 AAATATATATTTTTAATAATATA
1 AAATATATATTTTTAA-AATATT
105798440 AAATATATA
1 AAATATATA
105798449 AATATTTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
20 5 0.11
21 18 0.40
22 8 0.18
23 14 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AAATATATATTTTTAAAATATT
Found at i:105798533 original size:18 final size:19
Alignment explanation
Indices: 105798496--105798537 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
105798486 GTTTTATAAT
105798496 ATTTTAAATGTATATTTTAA
1 ATTTTAAA-GTATATTTTAA
*
105798516 ATTTTAAA-TATTTTTTAA
1 ATTTTAAAGTATATTTTAA
105798534 ATTT
1 ATTT
105798538 GTTTTCAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 13 0.62
20 8 0.38
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTTTAAAGTATATTTTAA
Found at i:105798535 original size:31 final size:33
Alignment explanation
Indices: 105798497--105798574 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 33
105798487 TTTTATAATA
105798497 TTTTAAATGTATATTTT-AA-ATTTTAAA-TAT-T
1 TTTTAAAT-T-TATTTTCAATATTTTAAATTATAT
*
105798528 TTTTAAATTTGTTTTCAATATTTTAAATTATGAT
1 TTTTAAATTTATTTTCAATATTTTAAATTAT-AT
105798562 TTTTAAA-TTATTT
1 TTTTAAATTTATTT
105798575 AAAATATATT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
29 5 0.12
30 3 0.08
31 16 0.40
32 3 0.08
33 5 0.12
34 8 0.20
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (33 bp):
TTTTAAATTTATTTTCAATATTTTAAATTATAT
Found at i:105798646 original size:13 final size:13
Alignment explanation
Indices: 105798628--105798653 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
105798618 TTGTTTTATA
105798628 ATATTTTAAATAT
1 ATATTTTAAATAT
105798641 ATATTTTAAATAT
1 ATATTTTAAATAT
105798654 TTTTAAATTT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATATTTTAAATAT
Found at i:105798696 original size:29 final size:29
Alignment explanation
Indices: 105798630--105798694 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 29
105798620 GTTTTATAAT
* *
105798630 ATTTTAAATATATATTTTAAATATTTTTA
1 ATTTTAAATAAATATTTTAAATATTATTA
*
105798659 AATTTAAATAAAT-TTTTATAA-ATTATTA
1 ATTTTAAATAAATATTTTA-AATATTATTA
105798687 ATTTTAAA
1 ATTTTAAA
105798695 ATTAATAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 18 0.58
29 13 0.42
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (29 bp):
ATTTTAAATAAATATTTTAAATATTATTA
Found at i:105802156 original size:30 final size:29
Alignment explanation
Indices: 105802064--105802157 Score: 93
Period size: 30 Copynumber: 3.1 Consensus size: 29
105802054 GGATGAAATA
*
105802064 AACTTGAGCCACCT-ATGTCCGAGTGATATG
1 AACTTGAACCA-CTAATGTCC-AGTGATATG
* **
105802094 AAATCAAACCA-TCAATGTCCAGATGATATG
1 AACTTGAACCACT-AATGTCCAG-TGATATG
105802124 AACTTGAACCACTAATGTCCAAGTGATATG
1 AACTTGAACCACTAATGTCC-AGTGATATG
105802154 AACT
1 AACT
105802158 ACTCTGCGAC
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
28 1 0.02
29 2 0.04
30 46 0.88
31 3 0.06
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (29 bp):
AACTTGAACCACTAATGTCCAGTGATATG
Found at i:105804502 original size:17 final size:17
Alignment explanation
Indices: 105804480--105804517 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
105804470 CAACATTTTC
105804480 TTTTAACATATTTAAAT
1 TTTTAACATATTTAAAT
*
105804497 TTTTAATATATTTAAAT
1 TTTTAACATATTTAAAT
105804514 TTTT
1 TTTT
105804518 TACGTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTAACATATTTAAAT
Found at i:105804532 original size:80 final size:77
Alignment explanation
Indices: 105804366--105804539 Score: 206
Period size: 80 Copynumber: 2.2 Consensus size: 77
105804356 TATATTAAAA
* * *
105804366 TTTTAAAATTTTAAAATTGATTATACTTAAATTTTTTTAATATGTTAAAAATTTTAATATATTTA
1 TTTTAAAA-TTTAAAATTGATTATACTCAAATTTTTTTAACATATTAAAAATTTTAATATATTTA
105804431 AATATATTTAGTT
65 AATATATTTAGTT
* * * * *
105804444 ATTAAAAATTTAAAATTGGTTATACTCAACATTTTCTTTTAACATATTTAAATTTTTAATATATT
1 TTTTAAAATTTAAAATTGATTATACTCAA-A-TTT-TTTTAACATATTAAAAATTTTAATATATT
*
105804509 TAAAT-TTTTTACGTT
63 TAAATATATTTA-GTT
*
105804524 TTTTAAAATTTTAAAT
1 TTTTAAAATTTAAAAT
105804540 ATATTAAAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
77 19 0.24
78 7 0.09
79 8 0.10
80 46 0.57
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.53
Consensus pattern (77 bp):
TTTTAAAATTTAAAATTGATTATACTCAAATTTTTTTAACATATTAAAAATTTTAATATATTTAA
ATATATTTAGTT
Found at i:105804593 original size:20 final size:20
Alignment explanation
Indices: 105804568--105804635 Score: 54
Period size: 19 Copynumber: 3.4 Consensus size: 20
105804558 TCTCTTTTCC
105804568 TATTAAAAATATATTAAATA
1 TATTAAAAATATATTAAATA
*
105804588 TATT-AACAT-T-TTAAAATA
1 TATTAAAAATATATT-AAATA
*
105804606 TATTTTTAAAAA-ATATTGAATA
1 TA---TTAAAAATATATTAAATA
105804628 TATTAAAA
1 TATTAAAA
105804636 TTTTAAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 15
0.68 0.05 0.27
Matches are distributed among these distances:
17 2 0.05
18 8 0.21
19 10 0.26
20 4 0.11
21 2 0.05
22 10 0.26
23 2 0.05
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (20 bp):
TATTAAAAATATATTAAATA
Found at i:105804779 original size:16 final size:16
Alignment explanation
Indices: 105804748--105804777 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
105804738 TAATATAAAT
105804748 ATATAACTATTATTTA
1 ATATAACTATTATTTA
105804764 ATATAA-TATTATTT
1 ATATAACTATTATTT
105804778 TATAACATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATAACTATTATTTA
Found at i:105807782 original size:17 final size:17
Alignment explanation
Indices: 105807742--105807775 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
105807732 TATATTAAAA
* *
105807742 TTATTATTATTATGGTT
1 TTATAATTATTATGATT
105807759 TTATAATTATTATGATT
1 TTATAATTATTATGATT
105807776 ATTTAATGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (17 bp):
TTATAATTATTATGATT
Found at i:105808192 original size:12 final size:12
Alignment explanation
Indices: 105808175--105808205 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
105808165 GAAGCAGCAG
105808175 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
105808187 AGAAAAAGGGAA
1 AGAAAAAGAGAA
105808199 AGAAAAA
1 AGAAAAA
105808206 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:105809227 original size:39 final size:38
Alignment explanation
Indices: 105809145--105809241 Score: 115
Period size: 39 Copynumber: 2.5 Consensus size: 38
105809135 TGGATAGATT
* * *
105809145 CGATGAGGTACTAGGTACCAACTTTACTTCGGCTAGGC
1 CGATGAGGCACTGGGTGCCAACTTTACTTCGGCTAGGC
* * *
105809183 TGATGAGGCACTGGGTGTCAACTATTACTTCGAGCTA-TC
1 CGATGAGGCACTGGGTGCCAACT-TTACTTCG-GCTAGGC
105809222 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
105809242 TATTGGTGTG
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
38 18 0.37
39 27 0.55
40 4 0.08
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (38 bp):
CGATGAGGCACTGGGTGCCAACTTTACTTCGGCTAGGC
Done.