Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 174 of 444
Found at i:48211165 original size:21 final size:21
Alignment explanation
Indices: 48211122--48211243 Score: 106
Period size: 21 Copynumber: 5.8 Consensus size: 21
48211112 GAGTTACTAT
* * * *
48211122 TTTAAGGTTTATGGATTATGG
1 TTTAAGGGTTAAGGGTTAAGG
*
48211143 TTTAAGGGTT-GGGGTTTAAGG
1 TTTAAGGGTTAAGGG-TTAAGG
* *
48211164 TTTAGGGGTTAGGGGTTAAAGG
1 TTTAAGGGTTAAGGGTT-AAGG
*
48211186 -TTAAAGGTTAAGGGTTAAGG
1 TTTAAGGGTTAAGGGTTAAGG
*
48211206 GTTAAGGGTTAAGGGTTAAGGG
1 TTTAAGGGTTAAGGGTTAA-GG
*
48211228 TTT-AGGGTTAATGGTT
1 TTTAAGGGTTAAGGGTT
48211244 TATGTTTTAG
Statistics
Matches: 85, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
20 6 0.07
21 67 0.79
22 12 0.14
ACGTcount: A:0.25, C:0.00, G:0.39, T:0.37
Consensus pattern (21 bp):
TTTAAGGGTTAAGGGTTAAGG
Found at i:48211274 original size:7 final size:7
Alignment explanation
Indices: 48211122--48211245 Score: 63
Period size: 7 Copynumber: 17.6 Consensus size: 7
48211112 GAGTTACTAT
48211122 TTTAAGG
1 TTTAAGG
*
48211129 TTTATGG
1 TTTAAGG
* *
48211136 ATTATGG
1 TTTAAGG
48211143 TTTAAGG
1 TTTAAGG
* **
48211150 GTTGGGG
1 TTTAAGG
48211157 TTTAAGG
1 TTTAAGG
*
48211164 TTTAGGG
1 TTTAAGG
* *
48211171 GTTAGGGG
1 TTTA-AGG
*
48211179 TTAAAGG
1 TTTAAGG
*
48211186 TTAAAGG
1 TTTAAGG
48211193 -TTAAGG
1 TTTAAGG
*
48211199 GTTAAGG
1 TTTAAGG
*
48211206 GTTAAGG
1 TTTAAGG
*
48211213 GTTAAGG
1 TTTAAGG
*
48211220 GTTAAGGG
1 TTTAA-GG
48211228 TTT-AGG
1 TTTAAGG
*
48211234 GTTAATGG
1 TTTAA-GG
48211242 TTTA
1 TTTA
48211246 TGTTTTAGGA
Statistics
Matches: 93, Mismatches: 19, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
6 9 0.10
7 70 0.75
8 14 0.15
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.37
Consensus pattern (7 bp):
TTTAAGG
Found at i:48211274 original size:43 final size:43
Alignment explanation
Indices: 48211221--48211322 Score: 141
Period size: 43 Copynumber: 2.3 Consensus size: 43
48211211 GGGTTAAGGG
* *
48211221 TTAAGGGTTTAGGGTTAATGGTTTATGTTTTAGGATTTAGGATT
1 TTAA-GGTTTAGGGTTAATGATTTATGTTTTAGGATTGAGGATT
** *
48211265 TTAAGGTTTAGGGCCAATGATTTATGTTTTAGGATTGAGGGTT
1 TTAAGGTTTAGGGTTAATGATTTATGTTTTAGGATTGAGGATT
*
48211308 TTAGGGTTTAGGGTT
1 TTAAGGTTTAGGGTT
48211323 TAAGGGTTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
43 46 0.92
44 4 0.08
ACGTcount: A:0.22, C:0.02, G:0.31, T:0.45
Consensus pattern (43 bp):
TTAAGGTTTAGGGTTAATGATTTATGTTTTAGGATTGAGGATT
Found at i:48211310 original size:15 final size:15
Alignment explanation
Indices: 48211290--48211323 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
48211280 AATGATTTAT
48211290 GTTTTAGGATTGAGG
1 GTTTTAGGATTGAGG
* *
48211305 GTTTTAGGGTTTAGG
1 GTTTTAGGATTGAGG
48211320 GTTT
1 GTTT
48211324 AAGGGTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.47
Consensus pattern (15 bp):
GTTTTAGGATTGAGG
Found at i:48220567 original size:48 final size:47
Alignment explanation
Indices: 48220477--48220582 Score: 119
Period size: 48 Copynumber: 2.2 Consensus size: 47
48220467 TGACTCTTTG
48220477 TGAGCTTCCCGATAATGTTCGCTTGAACTTCTCAATATTGGCTCTCCA
1 TGAGCTTCCCGATAATGTTCGCTTGAACTTCTCAATATTGGCTCT-CA
** * *
48220525 -GAGCTTCCCGAT-ATGGTTCTTTGTGAACTTCTCGAT-TATGGCTCTTA
1 TGAGCTTCCCGATAAT-GTTCGCT-TGAACTTCTCAATAT-TGGCTCTCA
48220572 TGAGCTTCCCG
1 TGAGCTTCCCG
48220583 TTATATAGCC
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
46 2 0.04
47 19 0.38
48 29 0.58
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (47 bp):
TGAGCTTCCCGATAATGTTCGCTTGAACTTCTCAATATTGGCTCTCA
Found at i:48220579 original size:24 final size:24
Alignment explanation
Indices: 48220525--48220636 Score: 77
Period size: 24 Copynumber: 4.7 Consensus size: 24
48220515 TGGCTCTCCA
* *
48220525 GAGCTTCCCGATATGGTTCTTTGT
1 GAGCTTCCCGATATGGCTCTTTAT
* *
48220549 GAACTTCTCGATTATGGCTC-TTAT
1 GAGCTTCCCGA-TATGGCTCTTTAT
* ***
48220573 GAGCTTCCCGTTATATAGC-CCGGAT
1 GAGCTTCCCG--ATATGGCTCTTTAT
* *
48220598 AAGTTTCCCGATA-GGCTCTTTAT
1 GAGCTTCCCGATATGGCTCTTTAT
*
48220621 GAGCTTCCCGAAATGG
1 GAGCTTCCCGATATGG
48220637 TTCTGTGTGA
Statistics
Matches: 64, Mismatches: 18, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
22 2 0.03
23 16 0.25
24 23 0.36
25 22 0.34
26 1 0.02
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (24 bp):
GAGCTTCCCGATATGGCTCTTTAT
Found at i:48221640 original size:21 final size:21
Alignment explanation
Indices: 48221614--48221657 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
48221604 TGTGTGTCCC
*
48221614 CAGCAT-CTTAAAATTTAGAAA
1 CAGCATGCTCAAAATTT-GAAA
48221635 CAGCATGCTCAAAATTTGAAA
1 CAGCATGCTCAAAATTTGAAA
48221656 CA
1 CA
48221658 TGAGCGGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.25
Consensus pattern (21 bp):
CAGCATGCTCAAAATTTGAAA
Found at i:48225942 original size:14 final size:15
Alignment explanation
Indices: 48225925--48225953 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
48225915 GTTACGCTTT
48225925 TTATATAT-TTTTAA
1 TTATATATATTTTAA
48225939 TTATATATATTTTAA
1 TTATATATATTTTAA
48225954 AATAATAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATATATATTTTAA
Found at i:48226675 original size:22 final size:23
Alignment explanation
Indices: 48226649--48226691 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
48226639 GACTTAATTT
48226649 TTAAATT-TTAAAAATAAAAAAA
1 TTAAATTCTTAAAAATAAAAAAA
48226671 TTAAATTCTTAAAAATAAAAA
1 TTAAATTCTTAAAAATAAAAA
48226692 TACAAAGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
TTAAATTCTTAAAAATAAAAAAA
Found at i:48226741 original size:17 final size:18
Alignment explanation
Indices: 48226707--48226741 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
48226697 AGACTAAATT
48226707 ATAAATTTATAAAATATAC
1 ATAAATTTAT-AAATATAC
48226726 ATAAATTTAT-AATATA
1 ATAAATTTATAAATATA
48226742 TTTTAAGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAAATTTATAAATATAC
Found at i:48226785 original size:15 final size:15
Alignment explanation
Indices: 48226765--48226830 Score: 55
Period size: 14 Copynumber: 4.3 Consensus size: 15
48226755 ACTACAAAAC
48226765 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
48226780 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
48226799 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
*
48226814 A-TTAATATTAA-AT
1 ATTTATTATTAATAT
48226827 ATTT
1 ATTT
48226831 TCAATAATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
13 3 0.07
14 11 0.26
15 10 0.24
16 1 0.02
17 7 0.17
18 1 0.02
19 9 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:48226913 original size:22 final size:22
Alignment explanation
Indices: 48226869--48226928 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
48226859 TTAAAATAAA
* *
48226869 ATTAAAATATTAA-ATA-ATTT
1 ATTAAAATAATAATTTATATTT
48226889 ATTAAAATAATAATTTATATTT
1 ATTAAAATAATAATTTATATTT
* *
48226911 ATTATATTAATAATTTAT
1 ATTAAAATAATAATTTAT
48226929 TATATGACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.35
21 2 0.06
22 20 0.59
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTAAAATAATAATTTATATTT
Found at i:48227412 original size:23 final size:24
Alignment explanation
Indices: 48227382--48227428 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
48227372 TTATCGGTTA
* *
48227382 AAGCAAAGGCCTGTTTAC-GGCTG
1 AAGCAAAGGCATGCTTACAGGCTG
48227405 AAGCAAAGGCATGCTTACAGGCTG
1 AAGCAAAGGCATGCTTACAGGCTG
48227429 TCACCATGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.30, C:0.21, G:0.30, T:0.19
Consensus pattern (24 bp):
AAGCAAAGGCATGCTTACAGGCTG
Found at i:48231512 original size:11 final size:12
Alignment explanation
Indices: 48231467--48231512 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
48231457 TCATATATGA
48231467 TATATATAATTTT
1 TATA-ATAATTTT
48231480 T-TAATATATTTT
1 TATAATA-ATTTT
*
48231492 TAAAATAATTTT
1 TATAATAATTTT
48231504 TATAA-AATT
1 TATAATAATT
48231513 CTAAAATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
11 7 0.24
12 17 0.59
13 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TATAATAATTTT
Found at i:48231517 original size:22 final size:20
Alignment explanation
Indices: 48231490--48231544 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
48231480 TTAATATATT
48231490 TTTAAAATAATTTTTATAAAA
1 TTTAAAATAATTTTTAT-AAA
*
48231511 TTCTAAAATATATAATTTATAAA
1 TT-TAAAATA-AT-TTTTATAAA
48231534 TTTAAAA-AATT
1 TTTAAAATAATT
48231545 CAAAATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
20 2 0.07
21 3 0.10
22 12 0.41
23 7 0.24
24 5 0.17
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTAAAATAATTTTTATAAA
Found at i:48232398 original size:13 final size:13
Alignment explanation
Indices: 48232380--48232413 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
48232370 CCGTGCCCTT
*
48232380 CACACGGTTGAGA
1 CACACGGTTAAGA
*
48232393 CACACGGCTAAGA
1 CACACGGTTAAGA
48232406 CACACGGT
1 CACACGGT
48232414 CGTGACTCTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.29, G:0.26, T:0.12
Consensus pattern (13 bp):
CACACGGTTAAGA
Found at i:48233321 original size:47 final size:48
Alignment explanation
Indices: 48233248--48233467 Score: 129
Period size: 47 Copynumber: 4.7 Consensus size: 48
48233238 GGGGTAAGGT
* * * *
48233248 GTCGATGCCGTGTCCCATACACGGTCTTACACTGGCTTAT-ATCTC-AA
1 GTCGAAGCCATGTCCCAAACATGGTCTTACACTGGC-TATCATCTCGAA
* * * *
48233295 GTCGAAGCCATGTCCCAAACATGGTCTTATATTGACTATCATCTCGTA
1 GTCGAAGCCATGTCCCAAACATGGTCTTACACTGGCTATCATCTCGAA
* * * * *
48233343 G-CCAA-CGCATGTCTCAGACAT-GTCTTACACTGGCT-TACGTCTCGAG
1 GTCGAAGC-CATGTCCCAAACATGGTCTTACACTGGCTAT-CATCTCGAA
* * * * * *
48233389 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC-ACTCGTTTC-AA
1 GTCGAAGCCATGTCCCAAACATGGTCTTACACTGGCTA-TCATCTCGAA
*
48233434 -TGCCAATGCCATGTCCCAAACATGGTCTTACACT
1 GT-CGAA-GCCATGTCCCAAACATGGTCTTACACT
48233468 AGCTCTCACA
Statistics
Matches: 134, Mismatches: 27, Indels: 23
0.73 0.15 0.12
Matches are distributed among these distances:
45 4 0.03
46 53 0.40
47 65 0.49
48 12 0.09
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (48 bp):
GTCGAAGCCATGTCCCAAACATGGTCTTACACTGGCTATCATCTCGAA
Found at i:48234641 original size:21 final size:21
Alignment explanation
Indices: 48234615--48234657 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
48234605 AATCTATATT
48234615 AATAATAAAATAATTTTTCTA
1 AATAATAAAATAATTTTTCTA
48234636 AATAATAAAATAATTTTTCTA
1 AATAATAAAATAATTTTTCTA
48234657 A
1 A
48234658 CTTTGGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (21 bp):
AATAATAAAATAATTTTTCTA
Found at i:48238001 original size:63 final size:61
Alignment explanation
Indices: 48237857--48238096 Score: 204
Period size: 65 Copynumber: 3.9 Consensus size: 61
48237847 TACAGATAGA
* ** * * *
48237857 ATGTAGCTAGGTCACATGTATGGTGCTGAGTG-CACATCATGT-GTACAAGAGAGCTACAAGACA
1 ATGTAGCTAGGTCGCATGGGTGGTACT-AGTGTCAC--CATGTAG-ACAAGAGAGCTAC-GGATA
48237920 TT
61 -T
*
48237922 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA-GTGT-CACCATGTAGACAAGAGAGCTACGGATAT
* * * * *
48237985 ATGTAGCTAGGTCGCATGCGTGGTTCCAG-GTGA--ATGTAGACAAGAGAGCTACGAGATAA
1 ATGTAGCTAGGTCGCATGGGTGGTACTAGTGTCACCATGTAGACAAGAGAGCTACG-GATAT
* * *
48238044 AT-TGGCTAGGTCACATGGGTGGTACTGAGTGTTCACCATGTGGACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-AGTG-TCACCATGTAGACAAGAGAGC
48238097 CGAACTATAT
Statistics
Matches: 145, Mismatches: 20, Indels: 22
0.78 0.11 0.12
Matches are distributed among these distances:
58 39 0.27
59 8 0.06
60 2 0.01
61 4 0.03
62 1 0.01
63 40 0.28
64 4 0.03
65 43 0.30
66 1 0.01
67 3 0.02
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (61 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTAGTGTCACCATGTAGACAAGAGAGCTACGGATAT
Found at i:48239177 original size:2 final size:2
Alignment explanation
Indices: 48239170--48239200 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
48239160 TCATGACATG
48239170 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
48239201 GACTAGTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48243384 original size:74 final size:74
Alignment explanation
Indices: 48243289--48243442 Score: 263
Period size: 74 Copynumber: 2.1 Consensus size: 74
48243279 GGCAACACAC
*
48243289 CCGTGTGACCATTCCAACATGGTCGTGCTAATGGCCCATGTGTCTCACACGGCCTAAGCAAAACA
1 CCGTGTGACCATTCCAACATGGCCGTGCTAATGGCCCATGTGTCTCACACGGCCTAAGCAAAACA
48243354 GGGACACGT
66 GGGACACGT
* * * *
48243363 CCGTGTGACCATTCTAACATGGCCGTGCTAATGGCCCGTGTGTTTTACACGGCCTAAGCAAAACA
1 CCGTGTGACCATTCCAACATGGCCGTGCTAATGGCCCATGTGTCTCACACGGCCTAAGCAAAACA
48243428 GGGACACGT
66 GGGACACGT
48243437 CCGTGT
1 CCGTGT
48243443 CCTCCACCCA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (74 bp):
CCGTGTGACCATTCCAACATGGCCGTGCTAATGGCCCATGTGTCTCACACGGCCTAAGCAAAACA
GGGACACGT
Found at i:48245022 original size:50 final size:50
Alignment explanation
Indices: 48244958--48245215 Score: 263
Period size: 50 Copynumber: 5.2 Consensus size: 50
48244948 CTGGTACGTA
* * *
48244958 TAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACG
* * *
48245008 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAAT-GATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT-ATCAATCTGGTACACG
** * * ** *
48245058 TAGTAGCCTGCACTTAGTACTACAC-CGTGATCAAAGTTAA-CGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAATCTGGTACACG
* * * *
48245108 TAGTAGCCTACACTTAGTACTACACATGCGACCTATCGATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACG
* * * * *
48245158 TAGTAGCCTGCACTTAGTTCTACACACGTGACTTAAC-ATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACG
48245207 TAGTAGCCT
1 TAGTAGCCT
48245216 ACATTTTGTA
Statistics
Matches: 169, Mismatches: 33, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
49 27 0.16
50 136 0.80
51 6 0.04
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACG
Found at i:48246623 original size:40 final size:40
Alignment explanation
Indices: 48246578--48246744 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
48246568 CGGAATATAA
48246578 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
48246618 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
48246658 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
48246698 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
48246737 CCGGATAT
1 CCGGATAT
48246745 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:48246728 original size:80 final size:79
Alignment explanation
Indices: 48246594--48246744 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
48246584 ATAATCACGT
*
48246594 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
48246659 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
48246674 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
48246737 CCGGATAT
64 CCGGATAT
48246745 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:48254733 original size:40 final size:40
Alignment explanation
Indices: 48254688--48254817 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
48254678 CGGAATACAA
48254688 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
48254728 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
48254768 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
48254808 CCGGATATAA
1 CCGGATATAA
48254818 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:48262497 original size:40 final size:40
Alignment explanation
Indices: 48262370--48262499 Score: 120
Period size: 40 Copynumber: 3.2 Consensus size: 40
48262360 ATGCTGGAAA
* * * *
48262370 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
48262410 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
* * *
48262450 TTCTATCCGGGCTAAGACCTGAAGGCATTTGTTC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
48262490 TTATATCCGG
1 TTATATCCGG
48262500 TTATATTCCG
Statistics
Matches: 69, Mismatches: 19, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
39 2 0.03
40 67 0.97
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:48269400 original size:11 final size:11
Alignment explanation
Indices: 48269372--48269414 Score: 52
Period size: 10 Copynumber: 3.9 Consensus size: 11
48269362 AAATGATTTT
48269372 TATTATTTAA-
1 TATTATTTAAC
48269382 TATTATTTAAC
1 TATTATTTAAC
*
48269393 TTTTATTTAAC
1 TATTATTTAAC
*
48269404 ATCTTATTTAA
1 -TATTATTTAA
48269415 AACAATATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 10 0.34
11 10 0.34
12 9 0.31
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (11 bp):
TATTATTTAAC
Found at i:48269977 original size:21 final size:21
Alignment explanation
Indices: 48269953--48269992 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
48269943 TTGTGGGCTT
48269953 AGATATCTGCATAGAGTTTAA
1 AGATATCTGCATAGAGTTTAA
48269974 AGATATCTGCATAGAGTTT
1 AGATATCTGCATAGAGTTT
48269993 CGAAGCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (21 bp):
AGATATCTGCATAGAGTTTAA
Found at i:48287717 original size:24 final size:24
Alignment explanation
Indices: 48287690--48287773 Score: 159
Period size: 24 Copynumber: 3.5 Consensus size: 24
48287680 ATTATGTTCT
48287690 CACACATAGTGCCATAGTAAATCG
1 CACACATAGTGCCATAGTAAATCG
*
48287714 CACACATAGTGCTATAGTAAATCG
1 CACACATAGTGCCATAGTAAATCG
48287738 CACACATAGTGCCATAGTAAATCG
1 CACACATAGTGCCATAGTAAATCG
48287762 CACACATAGTGC
1 CACACATAGTGC
48287774 ATTTGAGATT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (24 bp):
CACACATAGTGCCATAGTAAATCG
Found at i:48296749 original size:3 final size:3
Alignment explanation
Indices: 48296741--48296766 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
48296731 ATTGAAAGAC
48296741 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
48296767 GGTATTGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:48302612 original size:32 final size:32
Alignment explanation
Indices: 48302576--48302641 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
48302566 ATACCGGAAG
48302576 TATGTGAATTCCAGATGTATTTTCAGAAGAGT
1 TATGTGAATTCCAGATGTATTTTCAGAAGAGT
48302608 TATGTGAATTCCAGATGTATTTTCAGAAGAGT
1 TATGTGAATTCCAGATGTATTTTCAGAAGAGT
48302640 TA
1 TA
48302642 CCCGGATTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (32 bp):
TATGTGAATTCCAGATGTATTTTCAGAAGAGT
Found at i:48303634 original size:19 final size:19
Alignment explanation
Indices: 48303610--48303654 Score: 81
Period size: 19 Copynumber: 2.3 Consensus size: 19
48303600 GTTATAGTTG
48303610 ACATTGTATATATATACAT
1 ACATTGTATATATATACAT
48303629 ACATTGTATATATATACAT
1 ACATTGTATATATATACAT
48303648 ACTATTG
1 AC-ATTG
48303655 ACACTGAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (19 bp):
ACATTGTATATATATACAT
Found at i:48311088 original size:27 final size:28
Alignment explanation
Indices: 48311032--48311101 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
48311022 AAATTTGTAC
48311032 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
48311060 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
48311087 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
48311102 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:48311112 original size:27 final size:27
Alignment explanation
Indices: 48311032--48311113 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
48311022 AAATTTGTAC
* *
48311032 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
48311060 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
*
48311087 AGCACTGAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
48311114 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:48314016 original size:93 final size:93
Alignment explanation
Indices: 48313904--48314075 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
48313894 CGCCCATAAG
* *
48313904 CGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
48313969 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
48313997 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
48314062 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
48314076 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:48314072 original size:46 final size:46
Alignment explanation
Indices: 48313897--48314072 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
48313887 TGTAACCCGC
* * * *
48313897 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
48313943 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
48313993 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
48314036 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
48314073 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:48314091 original size:46 final size:46
Alignment explanation
Indices: 48313946--48314084 Score: 144
Period size: 47 Copynumber: 3.0 Consensus size: 46
48313936 TTCGCATCCA
48313946 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
48313994 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
48314039 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
48314085 CTAGTGACAT
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 28 0.37
47 30 0.40
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:48327302 original size:73 final size:73
Alignment explanation
Indices: 48327183--48327333 Score: 302
Period size: 73 Copynumber: 2.1 Consensus size: 73
48327173 ATATATGAAA
48327183 ATTTAACTATATTTATGTGAAATCCGAAAGAATTTATATAGACAAATTTCCTATCTCAACCTTTC
1 ATTTAACTATATTTATGTGAAATCCGAAAGAATTTATATAGACAAATTTCCTATCTCAACCTTTC
48327248 TTTTGGGT
66 TTTTGGGT
48327256 ATTTAACTATATTTATGTGAAATCCGAAAGAATTTATATAGACAAATTTCCTATCTCAACCTTTC
1 ATTTAACTATATTTATGTGAAATCCGAAAGAATTTATATAGACAAATTTCCTATCTCAACCTTTC
48327321 TTTTGGGT
66 TTTTGGGT
48327329 ATTTA
1 ATTTA
48327334 TTGTGTTTTC
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 78 1.00
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.42
Consensus pattern (73 bp):
ATTTAACTATATTTATGTGAAATCCGAAAGAATTTATATAGACAAATTTCCTATCTCAACCTTTC
TTTTGGGT
Found at i:48334132 original size:47 final size:47
Alignment explanation
Indices: 48334063--48334156 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
48334053 ACCTTCATAA
48334063 TCTATCATCAATCATCAACTTACTCAAGCATTCAACAATGGCAACAT
1 TCTATCATCAATCATCAACTTACTCAAGCATTCAACAATGGCAACAT
48334110 TCTATCATCAATCATCAACTTACTCAAGCATTCAACAATGGCAACAT
1 TCTATCATCAATCATCAACTTACTCAAGCATTCAACAATGGCAACAT
48334157 GTTAAACCTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.38, C:0.28, G:0.06, T:0.28
Consensus pattern (47 bp):
TCTATCATCAATCATCAACTTACTCAAGCATTCAACAATGGCAACAT
Found at i:48347673 original size:100 final size:100
Alignment explanation
Indices: 48347534--48347721 Score: 313
Period size: 100 Copynumber: 1.9 Consensus size: 100
48347524 GATGGTGAGG
* *
48347534 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGACTGTTGGTCGCATGTATAGTACT
1 TCACATGTGTAGTACTAAGTGAAGGCTACTACGTATACCAGACTATTGGTCGCATGTATAGTACT
*
48347599 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAGTACAGGCTACTATGCGTACCCGAAAACTGTGA
* * * *
48347634 TCACGTGTGTAGTACTAAGTGAAGGCTACTATGTGTACCAGACTATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGAAGGCTACTACGTATACCAGACTATTGGTCGCATGTATAGTACT
48347699 AAGTACAGGCTACTATGCGTACC
66 AAGTACAGGCTACTATGCGTACC
48347722 AGATAGCTTT
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 81 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTGAAGGCTACTACGTATACCAGACTATTGGTCGCATGTATAGTACT
AAGTACAGGCTACTATGCGTACCCGAAAACTGTGA
Found at i:48347714 original size:49 final size:50
Alignment explanation
Indices: 48347431--48347724 Score: 297
Period size: 49 Copynumber: 5.9 Consensus size: 50
48347421 TCTATTGTGA
* * *
48347431 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAATA-TGT
* * * * ** * *
48347482 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAG-ATGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAAT-ATGT
* ** * *
48347532 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGACTGT-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAATATGT
* * * *
48347581 GGTCGCATGTATAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAATA-TGT
* * * * *
48347632 GATCACGTGTGTAGTACTAAGTGAAGGCTACTATGTGTACCAGACTAT-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAATATGT
* *
48347681 GGTCGCATGTGTAGTACTAAGTACAGGCTACTATGCGTACCAGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
48347725 TAGCTTTGGC
Statistics
Matches: 197, Mismatches: 42, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
49 77 0.39
50 45 0.23
51 75 0.38
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAATATGT
Found at i:48350971 original size:53 final size:53
Alignment explanation
Indices: 48350790--48351012 Score: 198
Period size: 53 Copynumber: 4.2 Consensus size: 53
48350780 ATTAGGGTTT
* * * * * * *
48350790 AAGGATACCAAGTAAGACCATGCCAAGGCACGACATTGGTACGTTCTACAAGGC
1 AAGGATACCAAGTAAGACCATGCCAAGACATGGCAATGGTAAGTT-AATAAGGC
* * * * * * **
48350844 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCAAGTAAGACCATGCCAAGACATGGCAATGGTAAGTTA--ATAAGGC
* * * *
48350899 AAAGATCCCATA-TAAGACCATGCCAAGGCATGGCAATGGTGAGTTAATAAGGC
1 AAGGATACCA-AGTAAGACCATGCCAAGACATGGCAATGGTAAGTTAATAAGGC
* * *
48350952 AAGGATACCAAGTAAGACCATGTCAAGACATGGCAATGGTAAGTTAAAAAGGA
1 AAGGATACCAAGTAAGACCATGCCAAGACATGGCAATGGTAAGTTAATAAGGC
48351005 AAGG-TACC
1 AAGGATACC
48351013 CGTATATCCT
Statistics
Matches: 133, Mismatches: 32, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
52 5 0.04
53 55 0.41
54 34 0.26
55 39 0.29
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.18
Consensus pattern (53 bp):
AAGGATACCAAGTAAGACCATGCCAAGACATGGCAATGGTAAGTTAATAAGGC
Found at i:48356409 original size:22 final size:22
Alignment explanation
Indices: 48356384--48356431 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
48356374 AGTTCCTGAG
48356384 TGGAAATGGGACTGAGTTGCCA
1 TGGAAATGGGACTGAGTTGCCA
**
48356406 TGGATTTGGGACTGAGTTGCCA
1 TGGAAATGGGACTGAGTTGCCA
48356428 TGGA
1 TGGA
48356432 TTTTCTGACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.23, C:0.12, G:0.38, T:0.27
Consensus pattern (22 bp):
TGGAAATGGGACTGAGTTGCCA
Found at i:48356432 original size:22 final size:22
Alignment explanation
Indices: 48356390--48356434 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
48356380 TGAGTGGAAA
48356390 TGGGACTGAGTTGCCATGGATT
1 TGGGACTGAGTTGCCATGGATT
48356412 TGGGACTGAGTTGCCATGGATT
1 TGGGACTGAGTTGCCATGGATT
48356434 T
1 T
48356435 TCTGACAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.13, G:0.36, T:0.33
Consensus pattern (22 bp):
TGGGACTGAGTTGCCATGGATT
Found at i:48358827 original size:30 final size:30
Alignment explanation
Indices: 48358788--48358855 Score: 102
Period size: 30 Copynumber: 2.2 Consensus size: 30
48358778 TAAATGTAAC
48358788 TTAAGCAAATG-CTTCTAAAATAATAAAAAAA
1 TTAA-CAAATGCCTT-TAAAATAATAAAAAAA
*
48358819 TTAACAAATGCCTTTAAAATACTAAAAAAA
1 TTAACAAATGCCTTTAAAATAATAAAAAAA
48358849 TTAACAA
1 TTAACAA
48358856 TAAAATAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
30 28 0.80
31 7 0.20
ACGTcount: A:0.57, C:0.12, G:0.04, T:0.26
Consensus pattern (30 bp):
TTAACAAATGCCTTTAAAATAATAAAAAAA
Found at i:48359599 original size:53 final size:54
Alignment explanation
Indices: 48359418--48359640 Score: 184
Period size: 53 Copynumber: 4.2 Consensus size: 54
48359408 ATTAGGGTTT
** * * * * *
48359418 AAGGATACCAAATAAGACCATGCCAAGGCATCGCATTGGTAAGTTCTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGA
* * * * * * * *
48359472 AAGGAAATCATGTAAGACTATGTCAAGACATGGCATTGATAAACTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCTATAAGG-A
* * *
48359528 AA-GATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGA
* * ** * *
48359580 AAGGATACCACGTAAGACCATGTCAAGACATGAAAATGGTAAGTT-AAAAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGA
48359633 AAGG-TACC
1 AAGGATACC
48359641 TGTGTATCCT
Statistics
Matches: 133, Mismatches: 32, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
52 7 0.05
53 51 0.38
54 34 0.26
55 39 0.29
56 2 0.02
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.19
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGA
Found at i:48382235 original size:39 final size:40
Alignment explanation
Indices: 48382140--48382331 Score: 146
Period size: 39 Copynumber: 4.9 Consensus size: 40
48382130 ACTTGAAATC
* ** * *
48382140 AATTACCAGCACA-AGCTTGCGGGAATTTAAACCCGG-TAT
1 AATT-CCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
* * *
48382179 AATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACAT
1 AATTCCAGCAC-ATAGCCTGCGGGACCTTAAGCCCGGACAT
* * * * * *
48382218 ATTTCTAGCACGTAGCCTGC-AGACCTTAAGTCCGGATAT
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
* * *
48382257 AATTCCAGCACATAGCCTGC-GGACCCTAAGTCCGGATAT
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
* *
48382296 AATTCCAGCACATAGCCTGC-GGACCCTAAGTCCGGA
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGA
48382332 TATACATCAC
Statistics
Matches: 128, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
38 16 0.12
39 112 0.88
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (40 bp):
AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
Found at i:48382332 original size:39 final size:39
Alignment explanation
Indices: 48382210--48382335 Score: 198
Period size: 39 Copynumber: 3.2 Consensus size: 39
48382200 GGACTTTAGC
* * * * * *
48382210 CCGGACATATTTCTAGCACGTAGCCTGCAGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
48382249 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
48382288 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
48382327 CCGGATATA
1 CCGGATATA
48382336 CATCACTGAA
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:48391202 original size:49 final size:51
Alignment explanation
Indices: 48391086--48391220 Score: 175
Period size: 49 Copynumber: 2.7 Consensus size: 51
48391076 TAACCATCTG
* * **
48391086 ATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGG
1 ATACACGTAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGTTATCCA
* *** *
48391137 GTACGTATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCA
1 ATACACGTAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGTTATCCA
48391186 ATACACGTAGTAGCCTGCACTTAGTACTACACACG
1 ATACACGTAGTAGCCTGCACTTAGTACTACACACG
48391221 TGACCTCACA
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
49 35 0.50
50 3 0.04
51 32 0.46
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (51 bp):
ATACACGTAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGTTATCCA
Found at i:48392963 original size:46 final size:47
Alignment explanation
Indices: 48392826--48393042 Score: 178
Period size: 46 Copynumber: 4.6 Consensus size: 47
48392816 GTTATTTGAG
* ** *
48392826 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACG-A
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCACGGAGATGTA
* * * * * **
48392873 GAGCTAGTGTAAGA-CATGTCTGGGACATACGTTGAC-CTCAAGATGTA
1 -AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCAC-GGAGATGTA
* *
48392920 AGCCAATGTAAG-GCATGTCTGGGACATGCATCGGCTAC-GAGATG--
1 AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGC-ACGGAGATGTA
* *
48392964 AGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGA
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCACGGAGATGT-A
*
48393013 GAGCTAGTGTAAGACCATGTCTGGGACATG
1 -AGCCAGTGTAAGACCATGTCTGGGACATG
48393043 GCGTCGGCCT
Statistics
Matches: 134, Mismatches: 23, Indels: 23
0.74 0.13 0.13
Matches are distributed among these distances:
44 10 0.07
45 16 0.12
46 54 0.40
47 14 0.10
48 13 0.10
49 1 0.01
50 26 0.19
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCACGGAGATGTA
Found at i:48395876 original size:40 final size:40
Alignment explanation
Indices: 48395783--48395959 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
48395773 AAGCCAAGTA
* * *
48395783 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
48395821 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
48395861 CCTTCGGGACTTAGCCCGAATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
48395901 CCCTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
48395941 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
48395960 TTATCATCCG
Statistics
Matches: 122, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
38 12 0.10
39 17 0.14
40 93 0.76
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:48401732 original size:43 final size:43
Alignment explanation
Indices: 48401671--48401756 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
48401661 AAACAAAGGT
48401671 TAGATCGGATCATACTCATCACACTACGATAGATTTATATGGC
1 TAGATCGGATCATACTCATCACACTACGATAGATTTATATGGC
48401714 TAGATCGGATCATACTCATCACACTACGATAGATTTATATGGC
1 TAGATCGGATCATACTCATCACACTACGATAGATTTATATGGC
48401757 ATGTATTTCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (43 bp):
TAGATCGGATCATACTCATCACACTACGATAGATTTATATGGC
Found at i:48403226 original size:21 final size:21
Alignment explanation
Indices: 48403200--48403349 Score: 104
Period size: 21 Copynumber: 7.1 Consensus size: 21
48403190 TCGAAGGCTG
*
48403200 AACAGAAGCTCATGAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
* * * * *
48403221 AACAGAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTA
* *
48403242 AACAGAAGCTTATAAGAGCTT
1 AACAGAAGCTCATAAGAGCTA
* * * * *
48403263 AACGGAAACCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTA
* *
48403284 AACAGAAGCTCA-ATAGAGATG
1 AACAGAAGCTCATA-AGAGCTA
* * * *
48403305 AACGGAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGCTA
*
48403326 AACAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
48403347 AAC
1 AAC
48403350 GGAAAGTTTG
Statistics
Matches: 92, Mismatches: 35, Indels: 4
0.70 0.27 0.03
Matches are distributed among these distances:
20 1 0.01
21 90 0.98
22 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTA
Found at i:48403260 original size:42 final size:42
Alignment explanation
Indices: 48403200--48403354 Score: 195
Period size: 42 Copynumber: 3.7 Consensus size: 42
48403190 TCGAAGGCTG
* * *
48403200 AACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTA
* *
48403242 AACAGAAGCTTATAAGAGCTTAACGGAAACCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTA
* * * * *
48403284 AACAGAAGCTCA-ATAGAGATGAACGGAAACTCATATGAGTTA
1 AACAGAAGCTCATA-AGAGCTAAACGGAAACCCATAAGGGTTA
*
48403326 AACAGAAGCTCGTAAGAGCTAAACGGAAA
1 AACAGAAGCTCATAAGAGCTAAACGGAAA
48403355 GTTTGCAACA
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
41 1 0.01
42 95 0.98
43 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.16
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTA
Found at i:48406741 original size:21 final size:21
Alignment explanation
Indices: 48406701--48406741 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
48406691 TTGTAATTAA
* *
48406701 AGTGAAATTAAAGCAATTTAG
1 AGTGAAAGTAAAACAATTTAG
*
48406722 AGTGAAAGTAAAACATTTTA
1 AGTGAAAGTAAAACAATTTA
48406742 ATTTCCTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.05, G:0.17, T:0.29
Consensus pattern (21 bp):
AGTGAAAGTAAAACAATTTAG
Found at i:48412803 original size:27 final size:28
Alignment explanation
Indices: 48412750--48412816 Score: 109
Period size: 27 Copynumber: 2.4 Consensus size: 28
48412740 TTTGTACAGT
48412750 ACTAAGTGTGCGAGTTTGATCATATAGC
1 ACTAAGTGTGCGAGTTTGATCATATAGC
*
48412778 ACTAAGTGTGCGAG-TTGATTATATAGC
1 ACTAAGTGTGCGAGTTTGATCATATAGC
*
48412805 ACTGAGTGTGCG
1 ACTAAGTGTGCG
48412817 GACTCACTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.31
Consensus pattern (28 bp):
ACTAAGTGTGCGAGTTTGATCATATAGC
Found at i:48412827 original size:27 final size:27
Alignment explanation
Indices: 48412771--48412828 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
48412761 GAGTTTGATC
* * *
48412771 ATATAGCACTAAGTGTGCGAGTTGATT
1 ATATAGCACTAAGTGTGCGAGCTCACT
*
48412798 ATATAGCACTGAGTGTGCG-GACTCACT
1 ATATAGCACTAAGTGTGCGAG-CTCACT
48412825 ATAT
1 ATAT
48412829 GCTTTTGAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (27 bp):
ATATAGCACTAAGTGTGCGAGCTCACT
Found at i:48417555 original size:28 final size:29
Alignment explanation
Indices: 48417456--48417554 Score: 159
Period size: 28 Copynumber: 3.5 Consensus size: 29
48417446 AATGAGATTG
48417456 GCACTAAGTGTGCGAGTTT-AATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
48417484 GCACTAAGTGTGCGAGTTTGAATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
*
48417513 GCACTAAGTGTGCGGGTTTGAATAT-TA-A
1 GCACTAAGTGTGCGAGTTTGAAT-TGTATA
48417541 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
48417555 GACTTACTGT
Statistics
Matches: 68, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
28 34 0.50
29 33 0.49
30 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.32
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTGAATTGTATA
Found at i:48420390 original size:27 final size:28
Alignment explanation
Indices: 48420360--48420429 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
48420350 ATAGTGAGTC
*
48420360 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
48420387 CGCACACTTAGTGCTATGTGATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
48420415 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48420430 GTACAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 20 0.51
28 19 0.49
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:48424854 original size:40 final size:39
Alignment explanation
Indices: 48424809--48425015 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
48424799 CGGAATACAA
*
48424809 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
48424849 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
48424889 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** *
48424929 CCGGATGTAGTCACTAGCAC-AATGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
48424968 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
48425008 CCGGATAT
1 CCGGATAT
48425016 CATTCAATTG
Statistics
Matches: 143, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
39 35 0.24
40 108 0.76
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:48424949 original size:80 final size:80
Alignment explanation
Indices: 48424809--48425013 Score: 245
Period size: 79 Copynumber: 2.6 Consensus size: 80
48424799 CGGAATACAA
* * *
48424809 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCAC-AAT
*
48424873 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* *
48424889 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAT
*
48424952 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
48424968 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
48425014 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 55 0.51
80 49 0.45
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAATG
CCTTCGGGTATTAAC
Found at i:48432910 original size:40 final size:39
Alignment explanation
Indices: 48432865--48433072 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
48432855 CGGAATACAA
*
48432865 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
48432905 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
48432945 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
48432985 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
48433025 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
48433065 CCGGATAT
1 CCGGATAT
48433073 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:48433005 original size:80 final size:81
Alignment explanation
Indices: 48432865--48433070 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
48432855 CGGAATACAA
* * *
48432865 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
48432929 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
48432945 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
48433008 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
48433025 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
48433071 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:48439637 original size:28 final size:27
Alignment explanation
Indices: 48439574--48439643 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
48439564 ATAGTGAGTC
*
48439574 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
48439601 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
48439629 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48439644 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:48447575 original size:28 final size:29
Alignment explanation
Indices: 48447476--48447574 Score: 159
Period size: 28 Copynumber: 3.5 Consensus size: 29
48447466 AATGAGATTG
48447476 GCACTAAGTGTGCGAGTTT-AATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
48447504 GCACTAAGTGTGCGAGTTTGAATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
*
48447533 GCACTAAGTGTGCGGGTTTGAATAT-TA-A
1 GCACTAAGTGTGCGAGTTTGAAT-TGTATA
48447561 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
48447575 GACTTACTGT
Statistics
Matches: 68, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
28 34 0.50
29 33 0.49
30 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.32
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTGAATTGTATA
Found at i:48453363 original size:31 final size:31
Alignment explanation
Indices: 48453314--48453414 Score: 100
Period size: 31 Copynumber: 3.2 Consensus size: 31
48453304 AGATTAATTT
* *
48453314 ATATTTTATGTATCATTATATTAAATTATTTAA
1 ATATTTAAT-TATTATTATATTAAATT-TTTAA
*
48453347 ATATTTCA-TATTATTATATTAAATTGTTTAA
1 ATATTTAATTATTATTATATTAAATT-TTTAA
*
48453378 ATA--TAATTATTATTATATTTAAGTTTTTAAA
1 ATATTTAATTATTATTATA-TTAAATTTTT-AA
48453409 ATATTT
1 ATATTT
48453415 TATGTTTCAT
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
29 2 0.03
30 13 0.22
31 35 0.60
33 8 0.14
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (31 bp):
ATATTTAATTATTATTATATTAAATTTTTAA
Found at i:48455208 original size:20 final size:21
Alignment explanation
Indices: 48455183--48455223 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
48455173 ATATTTTTTA
48455183 AATTTTTA-AAAATATTAATT
1 AATTTTTATAAAATATTAATT
*
48455203 AATTTTTATAAGATATTAATT
1 AATTTTTATAAAATATTAATT
48455224 TCACAGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
AATTTTTATAAAATATTAATT
Found at i:48457615 original size:17 final size:17
Alignment explanation
Indices: 48457586--48457619 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
48457576 TAGTGGCAAA
48457586 TTATATTTTTAAATTTT
1 TTATATTTTTAAATTTT
48457603 TTAT-TTTTATAAATTTT
1 TTATATTTT-TAAATTTT
48457620 AAATACTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATATTTTTAAATTTT
Found at i:48457672 original size:2 final size:2
Alignment explanation
Indices: 48457665--48457696 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
48457655 ATTTTCAGCT
48457665 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
48457697 AAAGAATTAG
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):
TA
Found at i:48457829 original size:20 final size:20
Alignment explanation
Indices: 48457796--48457852 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
48457786 TCACCAGTTT
* *
48457796 TTTAAAAATTAAAAAATAAA
1 TTTAATAATAAAAAAATAAA
* * *
48457816 TTTAATAA-ACAAAAATTTAT
1 TTTAATAATA-AAAAAATAAA
48457836 TTTAATAATAAAAAAAT
1 TTTAATAATAAAAAAAT
48457853 TTATATCCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
TTTAATAATAAAAAAATAAA
Found at i:48457850 original size:21 final size:20
Alignment explanation
Indices: 48457816--48457856 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
48457806 AAAAAATAAA
*
48457816 TTTAATAAACAAAAATTTAT
1 TTTAATAAAAAAAAATTTAT
48457836 TTTAATAATAAAAAAATTTAT
1 TTTAATAA-AAAAAAATTTAT
48457857 ATCCATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTAATAAAAAAAAATTTAT
Found at i:48458505 original size:3 final size:3
Alignment explanation
Indices: 48458497--48458538 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
48458487 GCTATTTAAA
48458497 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
48458539 TTCGTTGAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:48462179 original size:19 final size:19
Alignment explanation
Indices: 48462155--48462192 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
48462145 ATATTTTTAG
* *
48462155 TATTTTTGATAATTATATA
1 TATTTTTAAAAATTATATA
48462174 TATTTTTAAAAATTATATA
1 TATTTTTAAAAATTATATA
48462193 AATAATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
TATTTTTAAAAATTATATA
Found at i:48464374 original size:23 final size:23
Alignment explanation
Indices: 48464347--48464393 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
48464337 ATTAACAATT
48464347 AAACTTAAATT-TT-AAAATTAAAA
1 AAAC-TAAATTATTGAAAA-TAAAA
48464370 AAACTAAATTATTGAAAATAAAA
1 AAACTAAATTATTGAAAATAAAA
48464393 A
1 A
48464394 CACATACACT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.27
23 12 0.55
24 4 0.18
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (23 bp):
AAACTAAATTATTGAAAATAAAA
Found at i:48468929 original size:18 final size:17
Alignment explanation
Indices: 48468906--48468940 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
48468896 ATTGATAAAT
48468906 TTTATTTTATTATTTTAA
1 TTTATTTTATT-TTTTAA
48468924 TTTATTTTATTTTTTAA
1 TTTATTTTATTTTTTAA
48468941 AATCAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTATTTTATTTTTTAA
Found at i:48469184 original size:2 final size:2
Alignment explanation
Indices: 48469173--48469206 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
48469163 AAAATCTAAT
48469173 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
48469207 CAAAATAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:48472954 original size:17 final size:17
Alignment explanation
Indices: 48472932--48473001 Score: 58
Period size: 17 Copynumber: 4.2 Consensus size: 17
48472922 CAAATACCCG
48472932 TATTTATATATTTAAAA
1 TATTTATATATTTAAAA
*
48472949 TATTTAT-TA--TGAAA
1 TATTTATATATTTAAAA
* *
48472963 TATCTATGATTTTTAAAA
1 TATTTAT-ATATTTAAAA
*
48472981 TATATATAT-TATTAAAA
1 TATTTATATAT-TTAAAA
48472998 TATT
1 TATT
48473002 AATAAATTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
14 10 0.24
16 4 0.10
17 18 0.43
18 10 0.24
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (17 bp):
TATTTATATATTTAAAA
Found at i:48472983 original size:18 final size:17
Alignment explanation
Indices: 48472943--48473000 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
48472933 ATTTATATAT
48472943 TTAAAATAT-T-TATTA
1 TTAAAATATATATATTA
* * *
48472958 -TGAAATATCTATGATTT
1 TTAAAATATATAT-ATTA
48472975 TTAAAATATATATATTA
1 TTAAAATATATATATTA
48472992 TTAAAATAT
1 TTAAAATAT
48473001 TAATAAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 7 0.21
15 1 0.03
16 1 0.03
17 15 0.44
18 10 0.29
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (17 bp):
TTAAAATATATATATTA
Found at i:48473841 original size:19 final size:19
Alignment explanation
Indices: 48473819--48473857 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
48473809 TTTAGATATC
*
48473819 TATTTCATTT-TAAATAGTA
1 TATTTAATTTCTAAA-AGTA
48473838 TATTTAATTTCTAAAAGTA
1 TATTTAATTTCTAAAAGTA
48473857 T
1 T
48473858 TGATGAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (19 bp):
TATTTAATTTCTAAAAGTA
Found at i:48475253 original size:21 final size:21
Alignment explanation
Indices: 48475214--48475253 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
48475204 GATAAGAATT
* *
48475214 TAGAATTGAGTTTTTTAATGC
1 TAGAATTGAGTATTATAATGC
*
48475235 TAGAATTTAGTATTATAAT
1 TAGAATTGAGTATTATAAT
48475254 TAAAGCATAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (21 bp):
TAGAATTGAGTATTATAATGC
Found at i:48476220 original size:22 final size:22
Alignment explanation
Indices: 48476191--48476245 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
48476181 TAACTAAATT
* *
48476191 TAAAAAAATTAAGGACC-AATA
1 TAAAAAAATTAAGAACCAAAAA
48476212 TAATAAAAATT-AGAACCAAAAA
1 TAA-AAAAATTAAGAACCAAAAA
48476234 TAAAAAAATTAA
1 TAAAAAAATTAA
48476246 AAGAATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.67, C:0.07, G:0.05, T:0.20
Consensus pattern (22 bp):
TAAAAAAATTAAGAACCAAAAA
Found at i:48476229 original size:21 final size:20
Alignment explanation
Indices: 48476194--48476239 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 20
48476184 CTAAATTTAA
*
48476194 AAAAATTAAGGACCAATATAAT
1 AAAAATTAAGAACCAA-A-AAT
48476216 AAAAATT-AGAACCAAAAAT
1 AAAAATTAAGAACCAAAAAT
48476235 AAAAA
1 AAAAA
48476240 AATTAAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 8 0.35
20 1 0.04
21 7 0.30
22 7 0.30
ACGTcount: A:0.67, C:0.09, G:0.07, T:0.17
Consensus pattern (20 bp):
AAAAATTAAGAACCAAAAAT
Found at i:48476427 original size:7 final size:8
Alignment explanation
Indices: 48476409--48476447 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
48476399 TTAATTCATC
48476409 AAAATATA
1 AAAATATA
48476417 AAAATATA
1 AAAATATA
* *
48476425 AAAAAATTG
1 AAAATA-TA
48476434 AAAATATA
1 AAAATATA
48476442 AAAATA
1 AAAATA
48476448 ATATAAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
8 20 0.77
9 6 0.23
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (8 bp):
AAAATATA
Found at i:48476429 original size:17 final size:17
Alignment explanation
Indices: 48476409--48476445 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
48476399 TTAATTCATC
48476409 AAAATATAAAAATATAAA
1 AAAAT-TAAAAATATAAA
*
48476427 AAAATTGAAAATATAAA
1 AAAATTAAAAATATAAA
48476444 AA
1 AA
48476446 TAATATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (17 bp):
AAAATTAAAAATATAAA
Found at i:48484968 original size:40 final size:40
Alignment explanation
Indices: 48484897--48485114 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
48484887 AAACCAAGTA
* * *
48484897 CCTTCGGGATTTAG-CTGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
48484936 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
48484976 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
48485016 CCTTCGGGACTTAACCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
48485056 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
48485096 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
48485115 TTACCATCCA
Statistics
Matches: 168, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 15 0.09
40 153 0.91
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:48488004 original size:131 final size:130
Alignment explanation
Indices: 48487720--48488209 Score: 421
Period size: 131 Copynumber: 3.7 Consensus size: 130
48487710 AATAGAGATG
* ** * * * * * *
48487720 GCTAACTCGGATAGGATTGTTCATGATTTTAAATTGAATGAATTTAGGTTGCAATATTAAATCAA
1 GCTAACTCGAATAAAATTGTTCATGATCTTGAATT-AATGAACTTAGGTTGCAATCTTGAATCAG
** * * ** ** * * * * * *
48487785 AAAACTTTAATTATATCAGTTGTGAT-CTAAATCAACTAGCTGTTTGGAG-AAGCGATTTTAAAT
65 CGAACCTTAATAATATCAACTACGATATTAAATCAACAAGATGTTTGCAGTAA-CAATATTAAAT
48487848 CA
129 CA
** * * * * * * *
48487850 ATTGACTCAAATAAAATTATTCATAATCTTGAAATTATTGAACTTAGGTTGCTATCTTGAATTAG
1 GCTAACTCGAATAAAATTGTTCATGATCTTG-AATTAATGAACTTAGGTTGCAATCTTGAATCAG
* * * * * *
48487915 TGAACCTTAATAATATCAACCACGATCTTAAATCAACGAG-T-TTTTCAAAGTAACGATATTAAA
65 CGAACCTTAATAATATCAACTACGATATTAAATCAACAAGATGTTTGC--AGTAACAATATTAAA
*
48487978 TTA
128 TCA
* * *
48487981 GCTAACTCGAATAAAATTGTTCATGATTTTGAATCTAACGAACTTAGGTTGCGATCTTGAATCAG
1 GCTAACTCGAATAAAATTGTTCATGATCTTGAAT-TAATGAACTTAGGTTGCAATCTTGAATCAG
* * * * * *
48488046 CGAACCTTAATAATATCAAATGCGGTATTAAATTAGCAAGATGTTTGCAGTAGCAATATTAAATC
65 CGAACCTTAATAATATCAACTACGATATTAAATCAACAAGATGTTTGCAGTAACAATATTAAATC
48488111 A
130 A
* * * *
48488112 GCTAACTCGAATAAAATTGGTGATGATCTTGAATTGAATGAACTTAAGTTGCAATCTTGAATCAA
1 GCTAACTCGAATAAAATTGTTCATGATCTTGAATT-AATGAACTTAGGTTGCAATCTTGAATCAG
48488177 CGAACCTTAATAATATCAACTACGATATTAAAT
65 CGAACCTTAATAATATCAACTACGATATTAAAT
48488210 TAGCGAGCTG
Statistics
Matches: 284, Mismatches: 67, Indels: 17
0.77 0.18 0.05
Matches are distributed among these distances:
129 3 0.01
130 64 0.23
131 210 0.74
132 3 0.01
133 4 0.01
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (130 bp):
GCTAACTCGAATAAAATTGTTCATGATCTTGAATTAATGAACTTAGGTTGCAATCTTGAATCAGC
GAACCTTAATAATATCAACTACGATATTAAATCAACAAGATGTTTGCAGTAACAATATTAAATCA
Found at i:48488239 original size:131 final size:130
Alignment explanation
Indices: 48487822--48488246 Score: 458
Period size: 131 Copynumber: 3.2 Consensus size: 130
48487812 TAAATCAACT
* ** * * * *
48487822 AGCTGTTTGGAG-AAGCGATTTTAAATCAATTGACTCAAATAAAATTATTCATAATCTTGAAATT
1 AGCTGTTTGGAGTAA-CGATATTAAATCAGCTAACTCGAATAAAATTGTTCATGATCTTG-AATT
* * * * * * * *
48487886 ATTGAACTTAGGTTGCTATCTTGAATTAGTGAACCTTAATAATATCAACCACGATCTTAAATCAA
64 AATGAACTTAGGTTGCAATCTTGAATCAGCGAACCTTAATAATATCAACTACGATATTAAATTAG
48487951 CG
129 CG
* ** * *
48487953 AG-TTTTTCAAAGTAACGATATTAAATTAGCTAACTCGAATAAAATTGTTCATGATTTTGAATCT
1 AGCTGTTT-GGAGTAACGATATTAAATCAGCTAACTCGAATAAAATTGTTCATGATCTTGAAT-T
* * * * *
48488017 AACGAACTTAGGTTGCGATCTTGAATCAGCGAACCTTAATAATATCAAATGCGGTATTAAATTAG
64 AATGAACTTAGGTTGCAATCTTGAATCAGCGAACCTTAATAATATCAACTACGATATTAAATTAG
*
48488082 CA
129 CG
* * * * * *
48488084 AGATGTTTGCAGTAGCAATATTAAATCAGCTAACTCGAATAAAATTGGTGATGATCTTGAATTGA
1 AGCTGTTTGGAGTAACGATATTAAATCAGCTAACTCGAATAAAATTGTTCATGATCTTGAATT-A
* *
48488149 ATGAACTTAAGTTGCAATCTTGAATCAACGAACCTTAATAATATCAACTACGATATTAAATTAGC
65 ATGAACTTAGGTTGCAATCTTGAATCAGCGAACCTTAATAATATCAACTACGATATTAAATTAGC
48488214 G
130 G
* * *
48488215 AGCTGTTTGGAGTAATGATCTTAAATTAGCTA
1 AGCTGTTTGGAGTAACGATATTAAATCAGCTA
48488247 TCACAAAGAG
Statistics
Matches: 240, Mismatches: 49, Indels: 10
0.80 0.16 0.03
Matches are distributed among these distances:
130 8 0.03
131 226 0.94
132 6 0.03
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (130 bp):
AGCTGTTTGGAGTAACGATATTAAATCAGCTAACTCGAATAAAATTGTTCATGATCTTGAATTAA
TGAACTTAGGTTGCAATCTTGAATCAGCGAACCTTAATAATATCAACTACGATATTAAATTAGCG
Found at i:48491257 original size:42 final size:43
Alignment explanation
Indices: 48491125--48491279 Score: 171
Period size: 42 Copynumber: 3.7 Consensus size: 43
48491115 TAATTCAGTA
* *
48491125 TCGATGCCTCTGTCCCAGACAGGGTCTTATACG-AAA--TCAGAT
1 TCGATGCCTGTGTCCCAGACACGGTCTT-TACGTAAATTTCA-AT
* * *
48491167 ACGATGCC-GATGTCCCAGACATGGTC-TTACATATAAATTTCAAT
1 TCGATGCCTG-TGTCCCAGACACGGTCTTTAC--GTAAATTTCAAT
48491211 TCGATGCCTGTGTCCCAGA-ACGGTCTTTACGTAAATTTCAAT
1 TCGATGCCTGTGTCCCAGACACGGTCTTTACGTAAATTTCAAT
48491253 TCGATGCCTGTGTCCCAGA-ACGGTCTT
1 TCGATGCCTGTGTCCCAGACACGGTCTT
48491280 ACACGATAGT
Statistics
Matches: 98, Mismatches: 7, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
40 3 0.03
41 1 0.01
42 60 0.61
43 8 0.08
44 22 0.22
45 4 0.04
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (43 bp):
TCGATGCCTGTGTCCCAGACACGGTCTTTACGTAAATTTCAAT
Found at i:48491259 original size:86 final size:85
Alignment explanation
Indices: 48491097--48491282 Score: 213
Period size: 86 Copynumber: 2.2 Consensus size: 85
48491087 GCCAACGTCT
* * * *
48491097 CAGACGTGGTCTTACATGTAATTCAGTATCGATGCCTCTGTCCCAGACAGGGTCTTATACGAAAT
1 CAGACATGGTCTTACATATAATTCAATATCGATGCCTCTGTCCCAGACACGGTCTTATACGAAAT
48491162 CAGATACGATGCC-GATGTCC
66 CAGATACGATGCCTG-TGTCC
*
48491182 CAGACATGGTCTTACATATAAATTTCAAT-TCGATGCCTGTGTCCCAGA-ACGGTCTT-TACGTA
1 CAGACATGGTCTTACATAT-AA-TTCAATATCGATGCCTCTGTCCCAGACACGGTCTTATACG-A
*
48491244 AATTTCA-ATTCGATGCCTGTGTCC
63 AA--TCAGATACGATGCCTGTGTCC
*
48491268 CAGA-ACGGTCTTACA
1 CAGACATGGTCTTACA
48491283 CGATAGTTCA
Statistics
Matches: 88, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
84 4 0.05
85 37 0.42
86 38 0.43
87 9 0.10
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (85 bp):
CAGACATGGTCTTACATATAATTCAATATCGATGCCTCTGTCCCAGACACGGTCTTATACGAAAT
CAGATACGATGCCTGTGTCC
Found at i:48494680 original size:29 final size:29
Alignment explanation
Indices: 48494641--48494720 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
48494631 CTTAATAATC
*
48494641 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
48494671 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
48494700 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
48494721 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:48500640 original size:39 final size:40
Alignment explanation
Indices: 48500424--48500630 Score: 312
Period size: 40 Copynumber: 5.2 Consensus size: 40
48500414 GGATTGATAC
*
48500424 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48500464 CCGGGCTAAG-CCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48500503 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
48500543 CCAGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
48500583 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
48500623 CC-GGCTAA
1 CCGGGCTAA
48500631 ACTCCGAAGG
Statistics
Matches: 154, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 45 0.29
40 109 0.71
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48503759 original size:48 final size:48
Alignment explanation
Indices: 48503688--48504313 Score: 1009
Period size: 48 Copynumber: 13.0 Consensus size: 48
48503678 TACAAGATAA
* * *
48503688 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
48503736 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
48503784 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
48503832 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * *
48503880 ATATATATGTATGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
48503928 ATATGTATGTGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
48503976 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
48504024 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
48504072 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
48504120 ATATATATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
48504168 ATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
48504216 ATATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
48504264 ATATGTATATTTGATAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
48504312 AT
1 AT
48504314 GTGTGTATAT
Statistics
Matches: 536, Mismatches: 42, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 536 1.00
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:48504509 original size:37 final size:37
Alignment explanation
Indices: 48504454--48504556 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
48504444 GGAAATATAT
*
48504454 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
48504491 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
48504528 TCCGGGTGAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
48504557 GGACTATTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:48516789 original size:27 final size:26
Alignment explanation
Indices: 48516759--48516860 Score: 88
Period size: 27 Copynumber: 3.9 Consensus size: 26
48516749 AAGGAACACC
48516759 TTTGTGGCATAATATGAAAGGAATGCA
1 TTTGTGGCATAATATGAAAGGAAT-CA
48516786 TTTGTGGC--AATATGAAAGGAA-CA
1 TTTGTGGCATAATATGAAAGGAATCA
* *
48516809 CCTTGTGGCGTAATATTGAAA-GAA-CA
1 -TTTGTGGCATAATA-TGAAAGGAATCA
* *
48516835 CCTTTGTGGCAGATTATGAAAGGAAT
1 --TTTGTGGCATAATATGAAAGGAAT
48516861 TTTTTTGTGG
Statistics
Matches: 63, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
23 2 0.03
24 7 0.11
25 13 0.21
26 14 0.22
27 27 0.43
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.28
Consensus pattern (26 bp):
TTTGTGGCATAATATGAAAGGAATCA
Found at i:48516841 original size:51 final size:54
Alignment explanation
Indices: 48516747--48516859 Score: 153
Period size: 51 Copynumber: 2.1 Consensus size: 54
48516737 AACACTCCAG
**
48516747 GAAAGGAACACCTTTGTGGCATAATATGAAAGGAATGCATTTGTGGCA-A-TAT
1 GAAAGGAACACCTTTGTGGCATAATATGAAAGGAACACATTTGTGGCAGATTAT
* *
48516799 GAAAGGAACACC-TTGTGGCGTAATATTGAAA-GAACACCTTTGTGGCAGATTAT
1 GAAAGGAACACCTTTGTGGCATAATA-TGAAAGGAACACATTTGTGGCAGATTAT
48516852 GAAAGGAA
1 GAAAGGAA
48516860 TTTTTTTGTG
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
51 25 0.46
52 18 0.33
53 11 0.20
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (54 bp):
GAAAGGAACACCTTTGTGGCATAATATGAAAGGAACACATTTGTGGCAGATTAT
Found at i:48520709 original size:39 final size:39
Alignment explanation
Indices: 48520613--48520794 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
48520603 AATGTTCGAG
48520613 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
48520652 TGA-ATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
48520690 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
48520729 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
48520769 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
48520795 GTTTGAACGA
Statistics
Matches: 124, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
38 37 0.30
39 49 0.40
40 38 0.31
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:48532847 original size:43 final size:44
Alignment explanation
Indices: 48532690--48532848 Score: 150
Period size: 43 Copynumber: 3.7 Consensus size: 44
48532680 GGTGTGATAT
* * *
48532690 CGTGTAAGACCACGTCTGGGACGTTGTCATTG--ATTTGAAATTTA
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGATATTTG-AA-TTA
* * * *
48532734 CGTGTAAGAACATGTATGGGACATTGGCATC-ATATATGAATT-
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGAATTA
* * *
48532776 TGTGTAAGACCCTGTCTGGGGCAG-TGGCATCGATATTTG-ATTA
1 CGTGTAAGACCATGTCTGGGAC-GTTGGCATCGATATTTGAATTA
*
48532819 CATGTAAGACCATGTCTGGGACGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACGTTGGCAT
48532849 TGTACGAGCT
Statistics
Matches: 91, Mismatches: 18, Indels: 13
0.75 0.15 0.11
Matches are distributed among these distances:
42 28 0.31
43 32 0.35
44 27 0.30
45 4 0.04
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (44 bp):
CGTGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGAATTA
Found at i:48543765 original size:40 final size:40
Alignment explanation
Indices: 48543721--48543877 Score: 199
Period size: 40 Copynumber: 3.9 Consensus size: 40
48543711 ATAGCGACTC
* * ** *
48543721 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATAACTA
* *
48543761 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATAACTA
*
48543801 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATAACTA
* *
48543841 GCACAATTGCCTTCGGGACTTAGCCGGGATATCAATA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT-AATA
48543878 TTCACGACAC
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
39 2 0.02
40 95 0.93
41 5 0.05
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATAACTA
Found at i:48543786 original size:80 final size:80
Alignment explanation
Indices: 48543661--48543872 Score: 232
Period size: 80 Copynumber: 2.7 Consensus size: 80
48543651 CCTTCAGAAT
* * * ** * * *
48543661 TTAA-CCGGATATAATGACTCGCTCAAATGCCTTCGGGACGAAGCCC-GATTATAGCGACTCGCA
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGA-TATAACAACTAGCA
48543724 C-AATTGCCTTCGGGTC
65 CGAA-TGCCTTCGGGTC
* ** * *
48543740 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTAGCAC
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTAGCAC
48543805 GAATGCCTTCGGGTC
66 GAATGCCTTCGGGTC
* * * *
48543820 TTAGCCCGGATATAATTACTAGCACAATTGCCTTCGGGACTTAGCCGGGATAT
1 TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
48543873 CAATATTCAC
Statistics
Matches: 109, Mismatches: 21, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
79 4 0.04
80 101 0.93
81 4 0.04
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
TTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTAGCAC
GAATGCCTTCGGGTC
Found at i:48545938 original size:14 final size:14
Alignment explanation
Indices: 48545919--48545957 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
48545909 TAAATTTTTA
48545919 TTTTCTTTTCTAAG
1 TTTTCTTTTCTAAG
48545933 TTTTCTTTTCTAAG
1 TTTTCTTTTCTAAG
48545947 TTTTCTTTTCT
1 TTTTCTTTTCT
48545958 TCGTTCCTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.10, C:0.15, G:0.05, T:0.69
Consensus pattern (14 bp):
TTTTCTTTTCTAAG
Found at i:48551731 original size:46 final size:46
Alignment explanation
Indices: 48551676--48551856 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
48551666 TAGGATGGTT
48551676 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
48551722 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
48551768 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
48551815 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48551857 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:48551837 original size:93 final size:93
Alignment explanation
Indices: 48551678--48551848 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
48551668 GGATGGTTGA
* *
48551678 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
48551743 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
48551771 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
48551836 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
48551849 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:48554810 original size:15 final size:15
Alignment explanation
Indices: 48554771--48554850 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
48554761 GTATCTTGGG
*
48554771 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
48554786 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
48554801 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
48554816 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
48554831 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
48554845 TTTCTT
1 TTTCTT
48554851 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:48554840 original size:30 final size:30
Alignment explanation
Indices: 48554762--48554849 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
48554752 CATAGTATCG
* * *
48554762 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
48554792 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
48554822 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
48554850 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:48558268 original size:39 final size:39
Alignment explanation
Indices: 48558224--48558363 Score: 149
Period size: 40 Copynumber: 3.6 Consensus size: 39
48558214 TACTCGTTCA
* *
48558224 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * *
48558263 CATGCCTTCGGG-CTTAGCCCAGAATTAGTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * * *
48558301 AAATGCCTTC-AGATCTTAGTCCGGATTTAGTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCAC
*
48558342 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
48558364 AACATCATTC
Statistics
Matches: 81, Mismatches: 15, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
38 23 0.28
39 19 0.23
40 32 0.40
41 7 0.09
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:48566180 original size:93 final size:93
Alignment explanation
Indices: 48566068--48566239 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
48566058 GCCCATAAGT
* *
48566068 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
48566133 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
48566161 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
48566226 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
48566240 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:48566235 original size:46 final size:46
Alignment explanation
Indices: 48566060--48566235 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
48566050 TGTAACCCGC
* * *
48566060 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
48566106 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
48566156 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
48566199 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
48566236 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:48568658 original size:29 final size:29
Alignment explanation
Indices: 48568619--48568706 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
48568609 CAAAGATAAC
*
48568619 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
48568648 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
48568677 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
48568707 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:48568677 original size:15 final size:15
Alignment explanation
Indices: 48568619--48568697 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
48568609 CAAAGATAAC
*
48568619 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
48568633 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
48568648 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
48568662 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
48568677 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
48568692 AAGAAA
1 AAGAAA
48568698 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:48568706 original size:15 final size:15
Alignment explanation
Indices: 48568630--48568706 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
48568620 AGAAAACCGA
48568630 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
48568645 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
48568659 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
48568673 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
48568689 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
48568704 ATA
1 ATA
48568707 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:48571765 original size:93 final size:93
Alignment explanation
Indices: 48571653--48571824 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
48571643 GCCCATAAGT
* *
48571653 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
48571718 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
48571746 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
48571811 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
48571825 CAAATATCCT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:48571820 original size:46 final size:46
Alignment explanation
Indices: 48571645--48571820 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
48571635 TGTAACCCGC
* * *
48571645 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
48571691 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
48571741 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
48571784 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
48571821 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:48575673 original size:32 final size:32
Alignment explanation
Indices: 48575585--48575674 Score: 110
Period size: 32 Copynumber: 2.8 Consensus size: 32
48575575 CAACCCATCA
* * **
48575585 CAATCTCAATTGGGCCTAGCCCATCATAGAAT
1 CAATATCAGTTGGGCCTAGCCCATTTTAGAAT
* *
48575617 CAATATCAGTTTGGCCTCGCCCATTTTAGAAT
1 CAATATCAGTTGGGCCTAGCCCATTTTAGAAT
48575649 -AAGTATCAGTTGGGCCTAGCCCATTT
1 CAA-TATCAGTTGGGCCTAGCCCATTT
48575675 CAATATCAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
31 2 0.04
32 47 0.96
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (32 bp):
CAATATCAGTTGGGCCTAGCCCATTTTAGAAT
Found at i:48582983 original size:40 final size:40
Alignment explanation
Indices: 48582876--48583043 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
48582866 CGGAATATAA
* *
48582876 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATAAC-TAGCACAATTGCCTTCGGGTCTTAGC
* * * *
48582916 CAGGATAGAATAACTCGCATGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATAACTAGCA-CAATTGCCTTCGGGTCTTAGC
*** *
48582956 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATAACTAGCACAATTGCCTTCGGGTCTTAGC
** * * * *
48582996 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATAACTAGCACAATTGCCTTCGGGTCTTAGC
48583036 CCGGATAT
1 CCGGATAT
48583044 CATTCAATTT
Statistics
Matches: 104, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 99 0.95
41 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATAACTAGCACAATTGCCTTCGGGTCTTAGC
Found at i:48583026 original size:80 final size:80
Alignment explanation
Indices: 48582892--48583043 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
48582882 ATAATCACGT
* *
48582892 GCACAAATGCCTTCGGGTCTTAGCCAGGATAGAATAACTCGCATGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCAGGATAGAATAACTCGCATGAATGCCTTCGGGGCTTAGCC
48582957 CGGATATAGCCACTA
66 CGGATATAGCCACTA
* * * ** *
48582972 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCAT-AATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCAGGATAGAATAACTC-GCATGAA-TGCCTTCGGGGCTTAG
48583035 CCCGGATAT
64 CCCGGATAT
48583044 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCAGGATAGAATAACTCGCATGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCACTA
Found at i:48593087 original size:39 final size:38
Alignment explanation
Indices: 48593005--48593104 Score: 110
Period size: 39 Copynumber: 2.6 Consensus size: 38
48592995 AAAATCCTTG
* * *
48593005 TTATAATTATTGTAATTATAATTTCCTATCAAATATTT
1 TTATAATTATTGTAATTGTAATTTCCTATCAAACATTA
* ** *
48593043 TTATAATTATTGTAATTGTATTTTTTTGGTCAAACATTA
1 TTATAATTATTGTAATTGTAATTTCCT-ATCAAACATTA
**
48593082 TTATAATTACAGTAATTGTAATT
1 TTATAATTATTGTAATTGTAATT
48593105 ATTATATTTG
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
38 23 0.45
39 28 0.55
ACGTcount: A:0.35, C:0.06, G:0.07, T:0.52
Consensus pattern (38 bp):
TTATAATTATTGTAATTGTAATTTCCTATCAAACATTA
Found at i:48598886 original size:28 final size:29
Alignment explanation
Indices: 48598851--48598910 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
48598841 TAGGGGTATA
48598851 TCGGTAATTATGCTC-TTTAGGCGTAATT
1 TCGGTAATTATGCTCTTTTAGGCGTAATT
* *
48598879 TCGGTAATTTTGCTCTTTTAGGGGTAATT
1 TCGGTAATTATGCTCTTTTAGGCGTAATT
48598908 TCG
1 TCG
48598911 TGATCTACGC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 14 0.48
29 15 0.52
ACGTcount: A:0.18, C:0.13, G:0.23, T:0.45
Consensus pattern (29 bp):
TCGGTAATTATGCTCTTTTAGGCGTAATT
Found at i:48598908 original size:29 final size:28
Alignment explanation
Indices: 48598841--48598910 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
48598831 TTTAAAACCC
*
48598841 TAGGGGT-ATATCGGTAATTATGCTCTT
1 TAGGGGTAATTTCGGTAATTATGCTCTT
* *
48598868 TAGGCGTAATTTCGGTAATTTTGCTCTTT
1 TAGGGGTAATTTCGGTAATTATGCTC-TT
48598897 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
48598911 TGATCTACGC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 6 0.16
28 16 0.43
29 15 0.41
ACGTcount: A:0.20, C:0.11, G:0.26, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTATGCTCTT
Found at i:48603171 original size:27 final size:28
Alignment explanation
Indices: 48603131--48603198 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
48603121 TTTAAAACCC
*
48603131 TAGGGGT-ATATCGGTAA-TTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
48603157 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
48603185 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
48603199 TGATCTACGC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 7 0.18
27 9 0.23
28 23 0.59
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:48607455 original size:27 final size:28
Alignment explanation
Indices: 48607415--48607482 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
48607405 TTTAAAACCC
*
48607415 TAGGGGT-ATATCGGTAA-TTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
48607441 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
48607469 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
48607483 TGATCTACGC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 7 0.18
27 9 0.23
28 23 0.59
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Done.