Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
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: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 61 of 97
Found at i:24516664 original size:37 final size:37
Alignment explanation
Indices: 24516617--24516772 Score: 219
Period size: 37 Copynumber: 4.2 Consensus size: 37
24516607 AATGCAATAT
24516617 CATCATCATGTGTGCACTCCCTACTTGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTTGCACACTTCAA
* *
24516654 CATCATCATGTGTGCACTTCCTACTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTTGCACACTTCAA
* * *
24516691 CATCACCATGTGTGCACACCCTACTCT-CACAC-TCTAT
1 CATCATCATGTGTGCACTCCCTACT-TGCACACTTC-AA
24516728 CATCATCATGTGTGCACTCCCTA-TTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTT-GCACACTTCAA
24516765 CATCATCA
1 CATCATCA
24516773 CACAACATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
35 1 0.01
36 3 0.03
37 98 0.94
38 2 0.02
ACGTcount: A:0.25, C:0.37, G:0.10, T:0.29
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTTGCACACTTCAA
Found at i:24521688 original size:21 final size:22
Alignment explanation
Indices: 24521659--24521733 Score: 93
Period size: 21 Copynumber: 3.5 Consensus size: 22
24521649 GGGAGGTTTG
24521659 AAACTTATTCAAACAAGTTTAA
1 AAACTTATTCAAACAAGTTTAA
* *
24521681 AAAC-TATTAAAACAAGTTCAA
1 AAACTTATTCAAACAAGTTTAA
* *
24521702 AAAC-TATTTAAACAAATTT-A
1 AAACTTATTCAAACAAGTTTAA
24521722 AAACTTATTCAA
1 AAACTTATTCAA
24521734 GCAAATTTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.11
21 37 0.80
22 4 0.09
ACGTcount: A:0.53, C:0.13, G:0.03, T:0.31
Consensus pattern (22 bp):
AAACTTATTCAAACAAGTTTAA
Found at i:24522675 original size:18 final size:18
Alignment explanation
Indices: 24522634--24522668 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24522624 GATAATTAAT
* *
24522634 TTAAAGCTTGATGCCAAA
1 TTAAAGCTAGATACCAAA
24522652 TTAAAGCTAGATACCAA
1 TTAAAGCTAGATACCAA
24522669 TTGAAAGAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (18 bp):
TTAAAGCTAGATACCAAA
Found at i:24523400 original size:27 final size:27
Alignment explanation
Indices: 24523364--24523426 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 27
24523354 AGTATTTTTT
*
24523364 GCAAGTATTCTTCC-AAATAATTTTCAA
1 GCAAGCATTCTTCCAAAAT-ATTTTCAA
*
24523391 GCAATCATTCTTCCAAAATATTTTCAA
1 GCAAGCATTCTTCCAAAATATTTTCAA
24523418 GCAAGCATT
1 GCAAGCATT
24523427 TGAAGAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 28 0.88
28 4 0.12
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.35
Consensus pattern (27 bp):
GCAAGCATTCTTCCAAAATATTTTCAA
Found at i:24527334 original size:53 final size:52
Alignment explanation
Indices: 24527262--24527392 Score: 156
Period size: 53 Copynumber: 2.5 Consensus size: 52
24527252 TATTTGTGGA
* ** * * *
24527262 TTATTACTTGATCTCGTGAAAAAGCAAGAATCTTTTTATGGATTGTGTAAGGG
1 TTATTCCTTGATCT-GTGAAAAAGCAAGAATCCCTTCATGGATTATGTAAAGG
24527315 TTA-TCGCTTGATCATGTGAAAAAGCAAGAATCCCTTCATGGATTATGTAAAGG
1 TTATTC-CTTGATC-TGTGAAAAAGCAAGAATCCCTTCATGGATTATGTAAAGG
*
24527368 TTATTCATTGATCTTGTGAAAAAGC
1 TTATTCCTTGATC-TGTGAAAAAGC
24527393 CGTTGTAAGG
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
52 1 0.01
53 63 0.94
54 3 0.04
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (52 bp):
TTATTCCTTGATCTGTGAAAAAGCAAGAATCCCTTCATGGATTATGTAAAGG
Found at i:24535981 original size:22 final size:22
Alignment explanation
Indices: 24535939--24535979 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
24535929 ACCTTTGTTT
*
24535939 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
24535961 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
24535980 TCCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:24542202 original size:15 final size:15
Alignment explanation
Indices: 24542174--24542216 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
24542164 TTCACAATGC
*
24542174 AATGTGATTACAAGT
1 AATGTGATTGCAAGT
*
24542189 AATGTAATTGCAAGT
1 AATGTGATTGCAAGT
24542204 AATGTGATTGCAA
1 AATGTGATTGCAA
24542217 CCTGCGATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.33
Consensus pattern (15 bp):
AATGTGATTGCAAGT
Found at i:24542463 original size:33 final size:34
Alignment explanation
Indices: 24542426--24542514 Score: 126
Period size: 33 Copynumber: 2.6 Consensus size: 34
24542416 CCATCTCTTA
*
24542426 AATATTATATATTTTATTTTCATT-TTTTATTAT
1 AATATTATATATTTTATTTTCATTCTTTTAATAT
24542459 AATATTATATATTTTATTTTCATTCTTTTAATAT
1 AATATTATATATTTTATTTTCATTCTTTTAATAT
* *
24542493 AATTTTTTATATTATATATTTT
1 AATATTATATATT-T-TATTTT
24542515 GTTTTAATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
33 24 0.48
34 19 0.38
35 1 0.02
36 6 0.12
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.65
Consensus pattern (34 bp):
AATATTATATATTTTATTTTCATTCTTTTAATAT
Found at i:24547484 original size:40 final size:39
Alignment explanation
Indices: 24547425--24547528 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 39
24547415 CCCAGCTCAT
* *
24547425 GTGCATCCCCACACATCGTGCACATAGC-TGAAGTCATCGC
1 GTGCATCCCC-CACATCGTGCACATAGCAAG-AGTCATCAC
*
24547465 GTGTATCCCCCTACATCGTGCACATAGCAAGAGTCATCAC
1 GTGCATCCCCC-ACATCGTGCACATAGCAAGAGTCATCAC
24547505 GTGCATCCCTCCACATCGTGCACA
1 GTGCATCCC-CCACATCGTGCACA
24547529 GTCAATTCCA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
39 1 0.02
40 53 0.93
41 3 0.05
ACGTcount: A:0.25, C:0.36, G:0.18, T:0.21
Consensus pattern (39 bp):
GTGCATCCCCCACATCGTGCACATAGCAAGAGTCATCAC
Found at i:24558874 original size:2 final size:2
Alignment explanation
Indices: 24558867--24558895 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
24558857 TATCATAAAA
24558867 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 T
24558896 ACATAGTTTA
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:24569518 original size:38 final size:40
Alignment explanation
Indices: 24569451--24569553 Score: 124
Period size: 38 Copynumber: 2.6 Consensus size: 40
24569441 ATATTGCCCG
*
24569451 TGTGCACGATGTGGGGGGAT-CTACACAATGGCAT-T-AAT-
1 TGTGCACGATGTGGGGGGATGC-ACACAATGAC-TCTGAATA
* * *
24569489 TGTGCACGATGCGGGGGGATGCACGCAATGACTCTGACTA
1 TGTGCACGATGTGGGGGGATGCACACAATGACTCTGAATA
24569529 TGTGCACGATGTGGGGGGATGCACA
1 TGTGCACGATGTGGGGGGATGCACA
24569554 TGAGCTGGGT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
37 1 0.02
38 28 0.51
39 3 0.05
40 23 0.42
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.22
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGCACACAATGACTCTGAATA
Found at i:24576921 original size:37 final size:37
Alignment explanation
Indices: 24576874--24576952 Score: 149
Period size: 37 Copynumber: 2.1 Consensus size: 37
24576864 AATGCAATTT
*
24576874 CATCATCATGTGTGCACTCCCTACTTGCACACTTCAA
1 CATCACCATGTGTGCACTCCCTACTTGCACACTTCAA
24576911 CATCACCATGTGTGCACTCCCTACTTGCACACTTCAA
1 CATCACCATGTGTGCACTCCCTACTTGCACACTTCAA
24576948 CATCA
1 CATCA
24576953 TCACACAACA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.25, C:0.37, G:0.10, T:0.28
Consensus pattern (37 bp):
CATCACCATGTGTGCACTCCCTACTTGCACACTTCAA
Found at i:24592256 original size:65 final size:65
Alignment explanation
Indices: 24592178--24592334 Score: 244
Period size: 65 Copynumber: 2.4 Consensus size: 65
24592168 GCTTGAATGT
* * *
24592178 TATAGGTTGTGGTTGAGCCTTGGAAAACCACTTTGGGTTTTAGTTACGCCCGTGAAAAACTAGTG
1 TATAGGTTATGGTTGAGCCTTGGAAAACCACTTTGGGTTTTAGTTAAGCCCGAGAAAAACTAGTG
24592243 TATAGGTTATGGTTGAGCCTTGGAAAACCACTTTGGGTTTTAGTTAAGCCCGAGAAAAACTAGTG
1 TATAGGTTATGGTTGAGCCTTGGAAAACCACTTTGGGTTTTAGTTAAGCCCGAGAAAAACTAGTG
* * *
24592308 TAAAGGTTTTGGCTGAG-CTTGCGAAAA
1 TATAGGTTATGGTTGAGCCTTG-GAAAA
24592335 GCCATTGTAA
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
64 4 0.05
65 81 0.95
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (65 bp):
TATAGGTTATGGTTGAGCCTTGGAAAACCACTTTGGGTTTTAGTTAAGCCCGAGAAAAACTAGTG
Found at i:24592300 original size:31 final size:30
Alignment explanation
Indices: 24592199--24592300 Score: 78
Period size: 31 Copynumber: 3.2 Consensus size: 30
24592189 GTTGAGCCTT
*
24592199 GGAAAACCACTTTGGGTTTTAGTTACGCCC
1 GGAAAACCACTTTGGGTTTTAGTTAAGCCC
* * * * * * *
24592229 GTGAAAAACTAGTGTATAGGTTATGGTTGAGCCTT
1 G-G-AAAACCACT-T-TGGGTTTTAGTTAAGCC-C
24592264 GGAAAACCACTTTGGGTTTTAGTTAAGCCC
1 GGAAAACCACTTTGGGTTTTAGTTAAGCCC
24592294 GAGAAAA
1 G-GAAAA
24592301 ACTAGTGTAA
Statistics
Matches: 51, Mismatches: 15, Indels: 11
0.66 0.19 0.14
Matches are distributed among these distances:
30 2 0.04
31 19 0.37
32 8 0.16
33 8 0.16
34 13 0.25
35 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (30 bp):
GGAAAACCACTTTGGGTTTTAGTTAAGCCC
Found at i:24597352 original size:21 final size:21
Alignment explanation
Indices: 24597328--24597367 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
24597318 TGAGGCTGAA
*
24597328 ATTGATGATATTTCATGATAT
1 ATTGATGATATTTAATGATAT
* *
24597349 ATTGGTGGTATTTAATGAT
1 ATTGATGATATTTAATGAT
24597368 TGGTGAGGCT
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:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (21 bp):
ATTGATGATATTTAATGATAT
Found at i:24605675 original size:45 final size:45
Alignment explanation
Indices: 24605607--24605707 Score: 130
Period size: 45 Copynumber: 2.2 Consensus size: 45
24605597 ATAGGAAAAC
* * * * **
24605607 GAAAAACAACCACCCACAGAAGAGCATGAGGAAGAAAGAGGAATG
1 GAAAAAGAACCAACCACAAAAGAGAATGAGGAAGAAAGAAAAATG
*
24605652 GAAAAAGAACCAACCATAAAAGAGAATGAGGAAGAAAGAAAAATG
1 GAAAAAGAACCAACCACAAAAGAGAATGAGGAAGAAAGAAAAATG
*
24605697 GAGAAAGAACC
1 GAAAAAGAACC
24605708 TCAAGTGGAA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.56, C:0.14, G:0.25, T:0.05
Consensus pattern (45 bp):
GAAAAAGAACCAACCACAAAAGAGAATGAGGAAGAAAGAAAAATG
Found at i:24609340 original size:42 final size:42
Alignment explanation
Indices: 24609246--24609365 Score: 150
Period size: 42 Copynumber: 2.8 Consensus size: 42
24609236 GACTTATCAC
* * * * *
24609246 CATCGGCTTATGCGCACTCCCTACTCTCAGATAGCTAGGTCAT
1 CATCGGCTTATGCGCACT-CCTACTCACACATAGCCAAGTCAA
* **
24609289 CATCAGCTTATGCGCACTTTTACTCACACATAGCCAAGTCAA
1 CATCGGCTTATGCGCACTCCTACTCACACATAGCCAAGTCAA
*
24609331 CATCGGCTTATGCGAACTCCTACTCACACATAGCC
1 CATCGGCTTATGCGCACTCCTACTCACACATAGCC
24609366 GGGTCATCAT
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
42 48 0.74
43 17 0.26
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.26
Consensus pattern (42 bp):
CATCGGCTTATGCGCACTCCTACTCACACATAGCCAAGTCAA
Found at i:24613644 original size:52 final size:52
Alignment explanation
Indices: 24613582--24613738 Score: 192
Period size: 52 Copynumber: 3.0 Consensus size: 52
24613572 GCACATGACG
* * *
24613582 GTGATAGTGGTGTGCTATGTAAATGCACACACTGATGATATATGCCATGTGT
1 GTGATAGTGGTGTGCTATGTGAGTGCACACACTGATGATATATGCCATGTGC
* * *
24613634 GTGATAGTGGTGTGC-AGTGTGGGTGCACACACTAATGATATATGCTATGTGC
1 GTGATAGTGGTGTGCTA-TGTGAGTGCACACACTGATGATATATGCCATGTGC
* * * *
24613686 ATGATAGTGGTGTGTTGTGTGAGTACACACACTGATGATATATTG-CATGTGC
1 GTGATAGTGGTGTGCTATGTGAGTGCACACACTGATGATATA-TGCCATGTGC
24613738 G
1 G
24613739 ATGTGGGAGT
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
51 1 0.01
52 85 0.97
53 2 0.02
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.32
Consensus pattern (52 bp):
GTGATAGTGGTGTGCTATGTGAGTGCACACACTGATGATATATGCCATGTGC
Found at i:24613779 original size:35 final size:34
Alignment explanation
Indices: 24613720--24613827 Score: 114
Period size: 35 Copynumber: 3.1 Consensus size: 34
24613710 ACACACACTG
24613720 ATGAT-ATATTGCATGTGCGATGTGGGAGTGCAC
1 ATGATGATATTGCATGTGCGATGTGGGAGTGCAC
*
24613753 ATGATGATATTGCCTTGTGCTG-TGTGGGAGTGCAC
1 ATGATGATATTG-CATGTGC-GATGTGGGAGTGCAC
* * *
24613788 AAGATGAT-TCTAGCTATGTGTGATGTGGAAGTGCAC
1 ATGATGATAT-T-GC-ATGTGCGATGTGGGAGTGCAC
24613824 ATGA
1 ATGA
24613828 GCTGGTGAGA
Statistics
Matches: 62, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
33 5 0.08
34 7 0.11
35 29 0.47
36 21 0.34
ACGTcount: A:0.24, C:0.12, G:0.32, T:0.31
Consensus pattern (34 bp):
ATGATGATATTGCATGTGCGATGTGGGAGTGCAC
Found at i:24621198 original size:21 final size:21
Alignment explanation
Indices: 24621159--24621199 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
24621149 AGTAGTTTAG
*
24621159 TTTAAGTTATTTTATTTTAAT
1 TTTAAGTTATTTTACTTTAAT
* *
24621180 TTTATGTTATTTTGCTTTAA
1 TTTAAGTTATTTTACTTTAA
24621200 ATTACTTTAA
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:0.24, C:0.02, G:0.07, T:0.66
Consensus pattern (21 bp):
TTTAAGTTATTTTACTTTAAT
Found at i:24621876 original size:18 final size:16
Alignment explanation
Indices: 24621853--24621886 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
24621843 CAAACTATTA
24621853 GTTTTTCTCTTTACTTTT
1 GTTTTTCT-TTTA-TTTT
24621871 GTTTTTCTTTTATTTT
1 GTTTTTCTTTTATTTT
24621887 CTTTGACTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 4 0.25
18 8 0.50
ACGTcount: A:0.06, C:0.12, G:0.06, T:0.76
Consensus pattern (16 bp):
GTTTTTCTTTTATTTT
Found at i:24627121 original size:36 final size:35
Alignment explanation
Indices: 24627009--24627313 Score: 290
Period size: 36 Copynumber: 8.7 Consensus size: 35
24626999 TACAACCGTG
*
24627009 CATGTGCGGTGTAGGAGTGCACATGAT-AGTGATGGTG-
1 CATGTGCGGTGTGGGAGTGCACATG-TGA-T-AT-GTGC
* * *
24627046 -GTGTGCGATGTGGGAGTGCACACGCTGATGATATATGC
1 CATGTGCGGTGTGGGAGTGCACA---TG-TGATATGTGC
24627084 CATGTGCGGTGTGGGAGTGCACATGGTGATATGTGC
1 CATGTGCGGTGTGGGAGTGCACAT-GTGATATGTGC
* * * *
24627120 CATGTGCAGTGTGGGACTACACA--TGATATTTGC
1 CATGTGCGGTGTGGGAGTGCACATGTGATATGTGC
*
24627153 CATGTGCGGTATGGGAGTGCACATGATGATATGTGC
1 CATGTGCGGTGTGGGAGTGCACATG-TGATATGTGC
* * *
24627189 CATGTGCGGTGTGGGACTGAACA--TGATATTTGC
1 CATGTGCGGTGTGGGAGTGCACATGTGATATGTGC
* *
24627222 CATGTGTGTTGTGGGAGTGCACATGATGATATGTGC
1 CATGTGCGGTGTGGGAGTGCACATG-TGATATGTGC
* *
24627258 CATGTGCGGTGTGGGACTGCACA--TGATATTTGC
1 CATGTGCGGTGTGGGAGTGCACATGTGATATGTGC
24627291 CATGT--GGTGTGGGAGTGCACATG
1 CATGTGCGGTGTGGGAGTGCACATG
24627314 AGGACATTAG
Statistics
Matches: 223, Mismatches: 30, Indels: 34
0.78 0.10 0.12
Matches are distributed among these distances:
31 15 0.07
33 70 0.31
36 107 0.48
37 3 0.01
38 2 0.01
39 25 0.11
40 1 0.00
ACGTcount: A:0.20, C:0.14, G:0.36, T:0.29
Consensus pattern (35 bp):
CATGTGCGGTGTGGGAGTGCACATGTGATATGTGC
Found at i:24627170 original size:69 final size:69
Alignment explanation
Indices: 24627073--24627314 Score: 391
Period size: 69 Copynumber: 3.5 Consensus size: 69
24627063 GCACACGCTG
* * *
24627073 ATGATATATGCCATGTGCGGTGTGGGAGTGCACATGGTGATATGTGCCATGTGCAGTGTGGGACT
1 ATGATATTTGCCATGTGCGGTGTGGGAGTGCACATGATGATATGTGCCATGTGCGGTGTGGGACT
24627138 ACAC
66 ACAC
*
24627142 ATGATATTTGCCATGTGCGGTATGGGAGTGCACATGATGATATGTGCCATGTGCGGTGTGGGACT
1 ATGATATTTGCCATGTGCGGTGTGGGAGTGCACATGATGATATGTGCCATGTGCGGTGTGGGACT
24627207 GA-AC
66 -ACAC
* *
24627211 ATGATATTTGCCATGTGTGTTGTGGGAGTGCACATGATGATATGTGCCATGTGCGGTGTGGGACT
1 ATGATATTTGCCATGTGCGGTGTGGGAGTGCACATGATGATATGTGCCATGTGCGGTGTGGGACT
*
24627276 GCAC
66 ACAC
24627280 ATGATATTTGCCATGT--GGTGTGGGAGTGCACATGA
1 ATGATATTTGCCATGTGCGGTGTGGGAGTGCACATGA
24627315 GGACATTAGT
Statistics
Matches: 162, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
67 18 0.11
69 143 0.88
70 1 0.01
ACGTcount: A:0.21, C:0.14, G:0.35, T:0.30
Consensus pattern (69 bp):
ATGATATTTGCCATGTGCGGTGTGGGAGTGCACATGATGATATGTGCCATGTGCGGTGTGGGACT
ACAC
Found at i:24627414 original size:2 final size:2
Alignment explanation
Indices: 24627368--24627399 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
24627358 TGAAAATGTT
24627368 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
24627400 CACATAATGT
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:24633887 original size:31 final size:32
Alignment explanation
Indices: 24633819--24633880 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
24633809 GAGACAAAGA
* *
24633819 AAGAAATAGAAAATAAGTGGGCATGGCCCAAC
1 AAGAAATAGAAAATAAATGGGCATAGCCCAAC
*
24633851 AAGAAATA-AAAATAAATGGGCTTAGCCCAA
1 AAGAAATAGAAAATAAATGGGCATAGCCCAA
24633881 ATAGAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 19 0.70
32 8 0.30
ACGTcount: A:0.50, C:0.15, G:0.21, T:0.15
Consensus pattern (32 bp):
AAGAAATAGAAAATAAATGGGCATAGCCCAAC
Found at i:24644421 original size:11 final size:11
Alignment explanation
Indices: 24644405--24644432 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
24644395 CACTGTAGTT
24644405 TTTAAAACAAC
1 TTTAAAACAAC
24644416 TTTAAAACAAC
1 TTTAAAACAAC
24644427 TTTAAA
1 TTTAAA
24644433 CCAAAAAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (11 bp):
TTTAAAACAAC
Found at i:24659318 original size:21 final size:22
Alignment explanation
Indices: 24659294--24659336 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
24659284 AACTTGGTCA
24659294 ACCAATA-TTCTTCCTTGTTTC
1 ACCAATAGTTCTTCCTTGTTTC
24659315 ACCAATAGGCTTCTTCCTTGTT
1 ACCAATA-G-TTCTTCCTTGTT
24659337 AGACAGTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
24 12 0.63
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (22 bp):
ACCAATAGTTCTTCCTTGTTTC
Found at i:24666915 original size:13 final size:15
Alignment explanation
Indices: 24666892--24666923 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
24666882 AGAAAAAAAA
24666892 TTTCTTTTTCTTC-T
1 TTTCTTTTTCTTCAT
24666906 TTTC-TTTTCTTCAT
1 TTTCTTTTTCTTCAT
24666920 TTTC
1 TTTC
24666924 CATTATACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTCTTTTTCTTCAT
Found at i:24667893 original size:36 final size:33
Alignment explanation
Indices: 24667853--24667945 Score: 141
Period size: 36 Copynumber: 2.7 Consensus size: 33
24667843 ATGATATATA
24667853 CCATGTGCAATGTGGGAGTGCACATGATGATATGCG
1 CCATGTGCAATGTGGGAGTGCACATGAT-AT-T-CG
*
24667889 CCATGTGCAATGTGGGAGTGCACATGATATTTG
1 CCATGTGCAATGTGGGAGTGCACATGATATTCG
*
24667922 CCATGTGCAGTGTGGGAGTGCACA
1 CCATGTGCAATGTGGGAGTGCACA
24667946 CGAGCTGAGT
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
33 24 0.44
34 1 0.02
35 2 0.04
36 28 0.51
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (33 bp):
CCATGTGCAATGTGGGAGTGCACATGATATTCG
Found at i:24667925 original size:33 final size:33
Alignment explanation
Indices: 24667843--24667945 Score: 143
Period size: 33 Copynumber: 3.0 Consensus size: 33
24667833 GCACACGCTA
* *
24667843 ATGATATATACCATGTGCAATGTGGGAGTGCAC
1 ATGATATTTGCCATGTGCAATGTGGGAGTGCAC
*
24667876 ATGATGATATGCGCCATGTGCAATGTGGGAGTGCAC
1 ATGAT-AT-T-TGCCATGTGCAATGTGGGAGTGCAC
*
24667912 ATGATATTTGCCATGTGCAGTGTGGGAGTGCAC
1 ATGATATTTGCCATGTGCAATGTGGGAGTGCAC
24667945 A
1 A
24667946 CGAGCTGAGT
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
33 29 0.47
34 3 0.05
35 2 0.03
36 28 0.45
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (33 bp):
ATGATATTTGCCATGTGCAATGTGGGAGTGCAC
Found at i:24677157 original size:37 final size:37
Alignment explanation
Indices: 24677103--24677223 Score: 190
Period size: 37 Copynumber: 3.3 Consensus size: 37
24677093 TGATGTTGGG
24677103 TGATGATG-TTGAGGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGATTGA-GTGTGCGAGTAGGGAGTGCACACA
*
24677140 TGATGATGATTGAGTGTGCAAGTAGGGAGTGCACACA
1 TGATGATGATTGAGTGTGCGAGTAGGGAGTGCACACA
* * *
24677177 TGACGATGATGGAGTGTGCGAGTAAGGAGTGCACACA
1 TGATGATGATTGAGTGTGCGAGTAGGGAGTGCACACA
24677214 TGATGATGAT
1 TGATGATGAT
24677224 GTATGGATAC
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
37 73 0.95
38 4 0.05
ACGTcount: A:0.28, C:0.11, G:0.37, T:0.24
Consensus pattern (37 bp):
TGATGATGATTGAGTGTGCGAGTAGGGAGTGCACACA
Found at i:24681216 original size:40 final size:37
Alignment explanation
Indices: 24681133--24681282 Score: 174
Period size: 37 Copynumber: 4.3 Consensus size: 37
24681123 TCAATGCAAT
24681133 ATCATCATCATGTGTGCACTCCCTACTCGCACACTTC
1 ATCATCATCATGTGTGCACTCCCTACTCGCACACTTC
*
24681170 AACATCATCATGTGTGCACTCCCTACTCGCACAC-TC
1 ATCATCATCATGTGTGCACTCCCTACTCGCACACTTC
* *
24681206 -T-ATCATCA----T-CATTCCCTACTCGCATAC-TC
1 ATCATCATCATGTGTGCACTCCCTACTCGCACACTTC
* *
24681235 TATCATCATCACGTGTGCACTCCCTACTCGCACAGTTC
1 -ATCATCATCATGTGTGCACTCCCTACTCGCACACTTC
*
24681273 AACATCATCA
1 ATCATCATCA
24681283 CACAACATTA
Statistics
Matches: 96, Mismatches: 8, Indels: 18
0.79 0.07 0.15
Matches are distributed among these distances:
29 18 0.19
30 1 0.01
31 1 0.01
32 7 0.07
34 7 0.07
36 3 0.03
37 57 0.59
38 2 0.02
ACGTcount: A:0.25, C:0.37, G:0.09, T:0.29
Consensus pattern (37 bp):
ATCATCATCATGTGTGCACTCCCTACTCGCACACTTC
Found at i:24681222 original size:29 final size:29
Alignment explanation
Indices: 24681189--24681245 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
24681179 ATGTGTGCAC
24681189 TCCCTACTCGCACACTCTATCATCATCAT
1 TCCCTACTCGCACACTCTATCATCATCAT
*
24681218 TCCCTACTCGCATACTCTATCATCATCA
1 TCCCTACTCGCACACTCTATCATCATCA
24681246 CGTGTGCACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.25, C:0.40, G:0.04, T:0.32
Consensus pattern (29 bp):
TCCCTACTCGCACACTCTATCATCATCAT
Found at i:24681279 original size:66 final size:66
Alignment explanation
Indices: 24681152--24681282 Score: 185
Period size: 66 Copynumber: 2.0 Consensus size: 66
24681142 ATGTGTGCAC
* *
24681152 TCCCTACTCGCACACTTCAACATCATCATGTGTGCACTCCCTACTCGCACACTCTATCATCATCA
1 TCCCTACTCGCACACTTCAACATCATCACGTGTGCACTCCCTACTCGCACACTCTAACATCATCA
24681217 T
66 T
* * *
24681218 TCCCTACTCGCATAC-TCTATCATCATCACGTGTGCACTCCCTACTCGCACAGT-TCAACATCAT
1 TCCCTACTCGCACACTTC-AACATCATCACGTGTGCACTCCCTACTCGCACACTCT-AACATCAT
24681281 CA
64 CA
24681283 CACAACATTA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
65 3 0.05
66 55 0.95
ACGTcount: A:0.24, C:0.39, G:0.08, T:0.28
Consensus pattern (66 bp):
TCCCTACTCGCACACTTCAACATCATCACGTGTGCACTCCCTACTCGCACACTCTAACATCATCA
T
Found at i:24684086 original size:27 final size:27
Alignment explanation
Indices: 24684048--24684100 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
24684038 CATTCCAATT
*
24684048 TTACCCTCGGGTGGCAAAATGGCCATC
1 TTACCCTCGGGTGGCAAAATGACCATC
*
24684075 TTACCCTCGGGTGGTAAAATGACCAT
1 TTACCCTCGGGTGGCAAAATGACCAT
24684101 TTTGCCCCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.25
Consensus pattern (27 bp):
TTACCCTCGGGTGGCAAAATGACCATC
Found at i:24686004 original size:207 final size:207
Alignment explanation
Indices: 24685649--24686072 Score: 616
Period size: 207 Copynumber: 2.0 Consensus size: 207
24685639 TGTTTGGGGG
* * * *
24685649 TGTCAATCTTGGATTGAAATTTTCTTCAATTCCCACTTTTAGGATCAAGCTTTTAAATGGCAATA
1 TGTCAATCCTGGATTCAAATTTTCTTCAATTCACACTTTTAGGATCAAGCTTTTAAATGGAAATA
* *
24685714 TCAACCCTAAACTCGAGACATGAGATCTTTCACCTCTTCTTCATCAAGGATCAAACTTGGGAGTG
66 TCAACCCTAAACTCAAGACATGAGATCTTTCACCTCTTCTTCATCAAGGATCAAACTTGGAAGTG
* *
24685779 TTGAGGTCGATTCTCCAAGCTTCCAATGGCTCTTTGTCATGTTTGCTTCCATCTGGGATAGAGCT
131 TTAAGGTCGATTCTCCAAGCTTCCAATGGCTCTTTGTCATGTTTGCTTCCATCTAGGATAGAGCT
* *
24685844 TGGCTTGTCTAA
196 TAGCTTGTCCAA
* **
24685856 TGTCAATCCTGGATTCAAATTTTCTTCAATTTATGCTTTTAGGATCAAGCTTTTAAATGGAAATA
1 TGTCAATCCTGGATTCAAATTTTCTTCAATTCACACTTTTAGGATCAAGCTTTTAAATGGAAATA
** * * *
24685921 TTGACCCTAGAAC-CAAGACATGATATGTTTCACCTCTTCTTCATCAAGGATCAAGCTTGGAAGT
66 TCAACCCTA-AACTCAAGACATGAGATCTTTCACCTCTTCTTCATCAAGGATCAAACTTGGAAGT
* * * * *
24685985 GTTAAGGTTGATTCTCCAAGCTTCTAGTGGCTCTTTGTCATTTTTGCTTCCTTCTAGGATAGAGC
130 GTTAAGGTCGATTCTCCAAGCTTCCAATGGCTCTTTGTCATGTTTGCTTCCATCTAGGATAGAGC
24686050 TTAGCTTGTCCAA
195 TTAGCTTGTCCAA
*
24686063 TGTCGATCCT
1 TGTCAATCCT
24686073 CTAAGCTTTC
Statistics
Matches: 192, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
207 189 0.98
208 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (207 bp):
TGTCAATCCTGGATTCAAATTTTCTTCAATTCACACTTTTAGGATCAAGCTTTTAAATGGAAATA
TCAACCCTAAACTCAAGACATGAGATCTTTCACCTCTTCTTCATCAAGGATCAAACTTGGAAGTG
TTAAGGTCGATTCTCCAAGCTTCCAATGGCTCTTTGTCATGTTTGCTTCCATCTAGGATAGAGCT
TAGCTTGTCCAA
Found at i:24689467 original size:20 final size:20
Alignment explanation
Indices: 24689428--24689479 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
24689418 CCTTGAAAGC
* *
24689428 AAAAAGAAGGAAAGAAGGA-G
1 AAAAAGAA-AAAAAAAGGAGG
24689448 AAAGAAGAAAAAAAAAGGAGG
1 AAA-AAGAAAAAAAAAGGAGG
24689469 AAAAAGAAAAA
1 AAAAAGAAAAA
24689480 GGTTTGGAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAAAAAAAGGAGG
Found at i:24693317 original size:3 final size:3
Alignment explanation
Indices: 24693311--24693337 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
24693301 CTTTTTTTAC
24693311 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
24693338 GGTGTGCCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:24694628 original size:19 final size:19
Alignment explanation
Indices: 24694604--24694641 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
24694594 CCATTTGACT
24694604 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
24694623 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
24694642 GATTTGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:24702205 original size:24 final size:24
Alignment explanation
Indices: 24702177--24702222 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
24702167 TTTTGTTGGA
24702177 TATCTTGAAATTATAATTTTTTAG
1 TATCTTGAAATTATAATTTTTTAG
* * *
24702201 TATCTTGATATTCTTATTTTTT
1 TATCTTGAAATTATAATTTTTT
24702223 TATATTTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.61
Consensus pattern (24 bp):
TATCTTGAAATTATAATTTTTTAG
Found at i:24702710 original size:12 final size:12
Alignment explanation
Indices: 24702695--24702741 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
24702685 ATTTATAAAT
24702695 TAAAATGTATTA
1 TAAAATGTATTA
*
24702707 TAAAATTATATTA
1 TAAAA-TGTATTA
24702720 -AAAAT-TATTA
1 TAAAATGTATTA
*
24702730 TAAAAAGTATTA
1 TAAAATGTATTA
24702742 AATTAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
10 5 0.17
11 5 0.17
12 14 0.47
13 6 0.20
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (12 bp):
TAAAATGTATTA
Found at i:24702870 original size:21 final size:19
Alignment explanation
Indices: 24702829--24702871 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
24702819 GAAAATGTCC
*
24702829 TATATTTTTATAATAATAA
1 TATATTTTTATAATAAAAA
*
24702848 TATATTTAATTATATTAAAAA
1 TATATTT--TTATAATAAAAA
24702869 TAT
1 TAT
24702872 GTAAAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
21 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATATTTTTATAATAAAAA
Found at i:24703608 original size:19 final size:20
Alignment explanation
Indices: 24703564--24703608 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
24703554 ATTTAAAAAA
24703564 TATAATATTATTATAATAGT
1 TATAATATTATTATAATAGT
*
24703584 TA-AATATT-TT-TAATACTT
1 TATAATATTATTATAATA-GT
24703602 TATAATA
1 TATAATA
24703609 AATATTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 5 0.23
18 5 0.23
19 10 0.45
20 2 0.09
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
TATAATATTATTATAATAGT
Found at i:24703883 original size:3 final size:3
Alignment explanation
Indices: 24703875--24703908 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
24703865 TAAAGTCAAA
*
24703875 AAT AAT AAT AAT AAT AAT AAT AAT -AT AGT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
24703909 GAGAAAAGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:24704129 original size:8 final size:8
Alignment explanation
Indices: 24704111--24704183 Score: 87
Period size: 8 Copynumber: 9.2 Consensus size: 8
24704101 ATTTAATCAC
24704111 ATCTGATAT
1 ATCT-ATAT
24704120 ATCTATAT
1 ATCTATAT
24704128 ATC--TAT
1 ATCTATAT
24704134 ATCTATAT
1 ATCTATAT
24704142 ATCTATAT
1 ATCTATAT
*
24704150 ATATATAT
1 ATCTATAT
*
24704158 ATATATAT
1 ATCTATAT
*
24704166 ATATATAT
1 ATCTATAT
*
24704174 ATATATAT
1 ATCTATAT
24704182 AT
1 AT
24704184 GCATATGCTG
Statistics
Matches: 61, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
6 6 0.10
8 51 0.84
9 4 0.07
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.49
Consensus pattern (8 bp):
ATCTATAT
Found at i:24704134 original size:6 final size:6
Alignment explanation
Indices: 24704116--24704183 Score: 100
Period size: 6 Copynumber: 11.3 Consensus size: 6
24704106 ATCACATCTG
* * * *
24704116 ATATAT CTATAT ATCTAT ATCTAT ATATCT ATATAT ATATAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
24704164 ATATAT ATATAT ATATAT AT
1 ATATAT ATATAT ATATAT AT
24704184 GCATATGCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (6 bp):
ATATAT
Found at i:24704136 original size:14 final size:14
Alignment explanation
Indices: 24704116--24704183 Score: 100
Period size: 14 Copynumber: 4.9 Consensus size: 14
24704106 ATCACATCTG
*
24704116 ATATATCTATATAT
1 ATATATATATATAT
* *
24704130 CTATATCTATATAT
1 ATATATATATATAT
*
24704144 CTATATATATATAT
1 ATATATATATATAT
24704158 ATATATATATATAT
1 ATATATATATATAT
24704172 ATATATATATAT
1 ATATATATATAT
24704184 GCATATGCTG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 51 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATATATATATAT
Found at i:24705162 original size:2 final size:2
Alignment explanation
Indices: 24705155--24705189 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
24705145 AATGTTGGTT
24705155 TA TA 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 TA TA T
24705190 TTGCATAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24716930 original size:11 final size:11
Alignment explanation
Indices: 24716914--24716938 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24716904 TTCGGATGCG
24716914 ATAAAATAATA
1 ATAAAATAATA
24716925 ATAAAATAATA
1 ATAAAATAATA
24716936 ATA
1 ATA
24716939 TCTTGTTGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAAAATAATA
Found at i:24718011 original size:7 final size:7
Alignment explanation
Indices: 24718001--24718050 Score: 55
Period size: 8 Copynumber: 6.7 Consensus size: 7
24717991 ATAAGAAAAA
24718001 AGAAAGG
1 AGAAAGG
24718008 AGAAAGGG
1 AGAAA-GG
24718016 AGAAAGGG
1 AGAAA-GG
*
24718024 AGAAAGAA
1 AGAAAG-G
24718032 AGAAAGG
1 AGAAAGG
*
24718039 AGAAAGA
1 AGAAAGG
24718046 AGAAA
1 AGAAA
24718051 AAGACAAGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
7 17 0.45
8 21 0.55
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (7 bp):
AGAAAGG
Found at i:24718019 original size:8 final size:8
Alignment explanation
Indices: 24718001--24718044 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
24717991 ATAAGAAAAA
24718001 AGAAA-GG
1 AGAAAGGG
24718008 AGAAAGGG
1 AGAAAGGG
24718016 AGAAAGGG
1 AGAAAGGG
**
24718024 AGAAAGAA
1 AGAAAGGG
24718032 AGAAA-GG
1 AGAAAGGG
24718039 AGAAAG
1 AGAAAG
24718045 AAGAAAAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
7 10 0.32
8 21 0.68
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (8 bp):
AGAAAGGG
Found at i:24718027 original size:16 final size:15
Alignment explanation
Indices: 24717973--24718050 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
24717963 GCTTGGAGGC
*
24717973 AAAGAGAGAAAGAAGG
1 AAAG-GAGAAAGAAAG
**
24717989 AAATAAGAAA-AAAG
1 AAAGGAGAAAGAAAG
**
24718003 AAAGGAGAAAGGGAG
1 AAAGGAGAAAGAAAG
24718018 AAAGGGAGAAAGAAAG
1 AAA-GGAGAAAGAAAG
24718034 AAAGGAGAAAG-AAG
1 AAAGGAGAAAGAAAG
24718048 AAA
1 AAA
24718051 AAGACAAGGA
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
14 17 0.33
15 18 0.35
16 16 0.31
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.01
Consensus pattern (15 bp):
AAAGGAGAAAGAAAG
Found at i:24718736 original size:2 final size:2
Alignment explanation
Indices: 24718729--24718762 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
24718719 ATTTCCATAC
24718729 TA 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 TA
24718763 NGGGTGTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24718797 original size:2 final size:2
Alignment explanation
Indices: 24718790--24718828 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
24718780 ATTTCCCTAC
24718790 TA TA TA TA 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 TA TA TA TA T
24718829 TGCTATACGA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24718798 original size:61 final size:60
Alignment explanation
Indices: 24718702--24718823 Score: 217
Period size: 61 Copynumber: 2.0 Consensus size: 60
24718692 AGGTGAGTAG
24718702 AGGGTGTTGATTACCAAATTTCCATACTATATATATATATATATATATATATATATATAT
1 AGGGTGTTGATTACCAAATTTCCATACTATATATATATATATATATATATATATATATAT
* *
24718762 ANGGGTGTTTATTACCAAATTTCCCTACTATATATATATATATATATATATATATATATAT
1 A-GGGTGTTGATTACCAAATTTCCATACTATATATATATATATATATATATATATATATAT
24718823 A
1 A
24718824 TATATTGCTA
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
60 1 0.02
61 58 0.98
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.43
Consensus pattern (60 bp):
AGGGTGTTGATTACCAAATTTCCATACTATATATATATATATATATATATATATATATAT
Found at i:24734095 original size:61 final size:61
Alignment explanation
Indices: 24733995--24734283 Score: 409
Period size: 61 Copynumber: 4.8 Consensus size: 61
24733985 GTGACAAATG
* * * *
24733995 CAACTGTGCATGTGTGGAGTGGGTAGTGCACATGCCGGTAATGATGCTGTCGTGATAATTA
1 CAACCGTGCATGTGCGAAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATAATTA
* * *
24734056 CAACCGTGCATGTGCCAAGTGGGTAGTGCACATGCCGGTAATGATGCTATCGTGATAATTA
1 CAACCGTGCATGTGCGAAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATAATTA
* * *
24734117 TAATCGTGCATGTGCGAAGTGGGCAGTGCACATGCCGGTAATGATGATGTCGTGATAATTA
1 CAACCGTGCATGTGCGAAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATAATTA
* * **
24734178 CAACCGTGCATGTGCGGAGT-GGCAGTGCACATGCCGGTAATGATTCTGTTATGATAATTA
1 CAACCGTGCATGTGCGAAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATAATTA
* * * *
24734238 CAATCGTGCATGTGCGGAGTGGGCAGAGCACATGCCGGTGATGATG
1 CAACCGTGCATGTGCGAAGTGGGCAGTGCACATGCCGGTAATGATG
24734284 TACATGACCT
Statistics
Matches: 205, Mismatches: 22, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
60 55 0.27
61 150 0.73
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (61 bp):
CAACCGTGCATGTGCGAAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATAATTA
Found at i:24734269 original size:121 final size:122
Alignment explanation
Indices: 24734000--24734283 Score: 435
Period size: 121 Copynumber: 2.3 Consensus size: 122
24733990 AAATGCAACT
* * *
24734000 GTGCATGTGTGGAGTGGGTAGTGCACATGCCGGTAATGATGCTGTCGTGATAATTACAACCGTGC
1 GTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGATGTCGTGATAATTACAACCGTGC
* * *
24734065 ATGTGCCAAGTGGGTAGTGCACATGCCGGTAATGATGCTATCGTGATAATTATAATC
66 ATGTGCCAAGTGGGCAGTGCACATGCCGGTAATGATGCTATCATGATAATTACAATC
*
24734122 GTGCATGTGCGAAGTGGGCAGTGCACATGCCGGTAATGATGATGTCGTGATAATTACAACCGTGC
1 GTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGATGTCGTGATAATTACAACCGTGC
** * * *
24734187 ATGTGCGGAGT-GGCAGTGCACATGCCGGTAATGATTCTGTTATGATAATTACAATC
66 ATGTGCCAAGTGGGCAGTGCACATGCCGGTAATGATGCTATCATGATAATTACAATC
* *
24734243 GTGCATGTGCGGAGTGGGCAGAGCACATGCCGGTGATGATG
1 GTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATG
24734284 TACATGACCT
Statistics
Matches: 147, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
121 77 0.52
122 70 0.48
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (122 bp):
GTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGATGTCGTGATAATTACAACCGTGC
ATGTGCCAAGTGGGCAGTGCACATGCCGGTAATGATGCTATCATGATAATTACAATC
Found at i:24743338 original size:13 final size:13
Alignment explanation
Indices: 24743303--24743344 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
24743293 TAAGGTAATA
24743303 CTTTTCTTCTTTT
1 CTTTTCTTCTTTT
24743316 CTTTTGCTTCTTTT
1 CTTTT-CTTCTTTT
24743330 -TTTGTCTTCCTTTT
1 CTTT-TCTT-CTTTT
24743344 C
1 C
24743345 CTCTTCCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.00, C:0.24, G:0.05, T:0.71
Consensus pattern (13 bp):
CTTTTCTTCTTTT
Found at i:24745470 original size:17 final size:17
Alignment explanation
Indices: 24745448--24745482 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
24745438 AAAATTAACG
24745448 TACTTGACAAAATGCAA
1 TACTTGACAAAATGCAA
24745465 TACTTGACAAAATGCAA
1 TACTTGACAAAATGCAA
24745482 T
1 T
24745483 GAGTGCTGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (17 bp):
TACTTGACAAAATGCAA
Found at i:24747751 original size:425 final size:429
Alignment explanation
Indices: 24746927--24747893 Score: 1267
Period size: 425 Copynumber: 2.2 Consensus size: 429
24746917 ATGCATGGTT
* *
24746927 GTAGAGGATTGCAATAATAACGAAAGTGTATATAAATGATC-AAAGCTTTATCTTTTTTAAAAAA
1 GTAGAGAATTGCAATAATAATGAAAGTGTATATAAATGATCGAAA-CTTTATC-TTTTTAAAAAA
* *
24746991 AGATAATGAATTTAATTCTAAAAGCAATTTGGTTGAATGTTGAATCAAGAGCAATAGATCACACG
64 AG-TAATGAATTTAATTCTAAAAGCAATTTGGTTGAATGTCGAATCAAGAGCAATAGATCACACA
** * *
24747056 CAAATATATAGGCATGTTTGCTTGCTACTCTATCTATTGAAATAAGATGAGGACATGAAGAAAAC
128 CAAATATATAGGCATGACTACTTGCTACTCTATCTATCGAAATAAGATGAGGACATGAAGAAAAC
*
24747121 AAAAGAACAATATCCATAAAAAAAAAAAAACACACACACACACAAAGATACACACTTGTAGAAGA
193 AAAAGAACAAAATCC---AAAAAAAAAAAACACACACACACAC--A-ATA-ACACTTGTAGAAGA
* * *
24747186 AAAAACCAAAGCATAACCTTGTAAAATAATGTCATGTCATAAAAAGTTACAAACACAAAGATAGA
251 AAAAACCAAAGCAAAACCTTGTAAAATAATGTCATGTCATAAAAAGTTACAAACACAAAGACAAA
* * * *
24747251 CTTGGAATACTACATATACTTGAGGCAATTCAACAAAGCCAACATAAATTATTCATAAAAAAGAA
316 CTTGGAATACTACAAATACCTCAGCCAATTCAACAAAGCCAACATAAATTATTCATAAAAAAGAA
* *
24747316 ACCCTAGCCTAAGTTTTCTGCCATTTAAATCTAAGGCAAGAAGTAGTTCA
381 ACCCTAGCCTAAGTTTTCTACCATTT-AATCTAAAGCAAGAAGTAGTTCA
*
24747366 GTAGAGAATTGCAATAATAATGAAAGTGTAAATAAATGATCGAAACTTTATC-TTTTAAAAAAAG
1 GTAGAGAATTGCAATAATAATGAAAGTGTATATAAATGATCGAAACTTTATCTTTTTAAAAAAAG
*
24747430 TTATATGAATTTAATTCTAAAAGCAATTTGGTTGAATGTCGAATCAAGCA-CAATAGATCATACA
66 -TA-ATGAATTTAATTCTAAAAGCAATTTGGTTGAATGTCGAATCAAG-AGCAATAGATCACACA
* * * *
24747494 CCAATATAT-GGACATGACTACTTGTTACTCTATCTATCGAAATAAGTTGAGGACATGAATAAAA
128 CAAATATATAGG-CATGACTACTTGCTACTCTATCTATCGAAATAAGATGAGGACATGAAGAAAA
* * * * *
24747558 CAGAAGAACAAAATCC-CAAAAAAAAAA-A-A-ACTCAGAC-AT-ACAGTTGTAGAAGAAAAAAC
192 CAAAAGAACAAAATCCAAAAAAAAAAAACACACACACACACAATAACACTTGTAGAAGAAAAAAC
* * *
24747617 CAAAGCAAAACCTTGTAAAATAATGTCATGTCATAAAAAGTTCCAATCACAAAGACAAACTTGGC
257 CAAAGCAAAACCTTGTAAAATAATGTCATGTCATAAAAAGTTACAAACACAAAGACAAACTTGGA
* * *
24747682 AT-CATATAAATGCCTCAGCCAATTCAACAAAGCCAACATAAATTATTCATAAAAAAGGGAA-CC
322 ATAC-TACAAATACCTCAGCCAATTCAACAAAGCCAACATAAATTATTCATAAAAAA-GAAACCC
*
24747745 TAGCCTAAGTTTTCTACCATTTAATCTAAAGTAAGAAGTAGTTCA
385 TAGCCTAAGTTTTCTACCATTTAATCTAAAGCAAGAAGTAGTTCA
* * * *
24747790 GTAGAGAATTGCAATAATAATGAAAATGTATATAAATGATTGAAATTTTATCTTTTTTTTAAACA
1 GTAGAGAATTGCAATAATAATGAAAGTGTATATAAATGATCGAAACTTTATC---TTTTTAAAAA
* * *
24747855 AA-TAGATGAATTTTATTTTAAAAGCAATTTAGTTGAATG
63 AAGTA-ATGAATTTAATTCTAAAAGCAATTTGGTTGAATG
24747894 CTGATGTTGT
Statistics
Matches: 472, Mismatches: 46, Indels: 33
0.86 0.08 0.06
Matches are distributed among these distances:
424 70 0.15
425 149 0.32
426 36 0.08
427 2 0.00
428 10 0.02
431 6 0.01
432 1 0.00
433 1 0.00
434 10 0.02
437 16 0.03
438 122 0.26
439 46 0.10
440 3 0.01
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.27
Consensus pattern (429 bp):
GTAGAGAATTGCAATAATAATGAAAGTGTATATAAATGATCGAAACTTTATCTTTTTAAAAAAAG
TAATGAATTTAATTCTAAAAGCAATTTGGTTGAATGTCGAATCAAGAGCAATAGATCACACACAA
ATATATAGGCATGACTACTTGCTACTCTATCTATCGAAATAAGATGAGGACATGAAGAAAACAAA
AGAACAAAATCCAAAAAAAAAAAACACACACACACACAATAACACTTGTAGAAGAAAAAACCAAA
GCAAAACCTTGTAAAATAATGTCATGTCATAAAAAGTTACAAACACAAAGACAAACTTGGAATAC
TACAAATACCTCAGCCAATTCAACAAAGCCAACATAAATTATTCATAAAAAAGAAACCCTAGCCT
AAGTTTTCTACCATTTAATCTAAAGCAAGAAGTAGTTCA
Found at i:24748068 original size:15 final size:16
Alignment explanation
Indices: 24748050--24748089 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
24748040 AAATTTGAAT
*
24748050 AAAATTAATTAAAC-C
1 AAAATTAAATAAACAC
24748065 AAAATTAAAATAAACAC
1 AAAATT-AAATAAACAC
24748082 AAAATTAA
1 AAAATTAA
24748090 CCAACAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 6 0.27
16 9 0.41
17 7 0.32
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAATTAAATAAACAC
Found at i:24748086 original size:17 final size:16
Alignment explanation
Indices: 24748050--24748089 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
24748040 AAATTTGAAT
*
24748050 AAAATT-AATTAAACC
1 AAAATTAAAATAAACC
24748065 AAAATTAAAATAAACAC
1 AAAATTAAAATAAAC-C
24748082 AAAATTAA
1 AAAATTAA
24748090 CCAACAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.27
16 7 0.32
17 9 0.41
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAATTAAAATAAACC
Found at i:24754815 original size:20 final size:20
Alignment explanation
Indices: 24754786--24754828 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
24754776 ATTAGGTTAC
24754786 TTTTAAGTTAGTT-ATTTTAA
1 TTTTAAGTTA-TTCATTTTAA
* *
24754806 TTTTATGTTATTCCTTTTAA
1 TTTTAAGTTATTCATTTTAA
24754826 TTT
1 TTT
24754829 GGTTATCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.65
Consensus pattern (20 bp):
TTTTAAGTTATTCATTTTAA
Found at i:24755947 original size:14 final size:14
Alignment explanation
Indices: 24755928--24755954 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24755918 TTGATTTTAA
24755928 TTTTAGTTAATTAG
1 TTTTAGTTAATTAG
24755942 TTTTAGTTAATTA
1 TTTTAGTTAATTA
24755955 ATTAATTTTG
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:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (14 bp):
TTTTAGTTAATTAG
Found at i:24759957 original size:31 final size:31
Alignment explanation
Indices: 24759904--24759963 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
24759894 ATTGCAATTT
*
24759904 ATGAAATATTTGGAGGACCAAATTGTAAAGG
1 ATGAAATATTTGGAGGACCAAATGGTAAAGG
**
24759935 ATGAAA-AGTTTGGAGGGTCAAATGGTAAA
1 ATGAAATA-TTTGGAGGACCAAATGGTAAA
24759964 TAAGGAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.42, C:0.05, G:0.28, T:0.25
Consensus pattern (31 bp):
ATGAAATATTTGGAGGACCAAATGGTAAAGG
Found at i:24762497 original size:25 final size:25
Alignment explanation
Indices: 24762469--24762518 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
24762459 ATATGTGTCA
* *
24762469 AGGCCACGGGTTGTTATACGTGGTT
1 AGGCCACGAGTTGATATACGTGGTT
* *
24762494 AGGCCACTAGTTGATATATGTGGTT
1 AGGCCACGAGTTGATATACGTGGTT
24762519 GCGACCACAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.20, C:0.14, G:0.32, T:0.34
Consensus pattern (25 bp):
AGGCCACGAGTTGATATACGTGGTT
Found at i:24768502 original size:24 final size:25
Alignment explanation
Indices: 24768470--24768526 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
24768460 TTAACAATTA
*
24768470 AAATAAAGA-TAAGCAAC-TAAGAAT
1 AAATAAAGACCAA-CAACTTAAGAAT
*
24768494 AAATAAAGACCAACAACTTAAGAGT
1 AAATAAAGACCAACAACTTAAGAAT
24768519 AAATAAAG
1 AAATAAAG
24768527 TCACAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 13 0.45
25 16 0.55
ACGTcount: A:0.61, C:0.11, G:0.12, T:0.16
Consensus pattern (25 bp):
AAATAAAGACCAACAACTTAAGAAT
Found at i:24770302 original size:28 final size:30
Alignment explanation
Indices: 24770261--24770316 Score: 80
Period size: 28 Copynumber: 1.9 Consensus size: 30
24770251 GTCTATGGGC
*
24770261 AATTTTTCAGTTTT-T-GGGGCAAAAATAT
1 AATTTTTCACTTTTATGGGGGCAAAAATAT
*
24770289 AATTTTTGACTTTTATGGGGGCAAAAAT
1 AATTTTTCACTTTTATGGGGGCAAAAAT
24770317 GTAAATTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.50
29 1 0.04
30 11 0.46
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (30 bp):
AATTTTTCACTTTTATGGGGGCAAAAATAT
Found at i:24771308 original size:19 final size:19
Alignment explanation
Indices: 24771284--24771321 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
24771274 CTATTTAACT
*
24771284 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
24771303 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
24771322 GGTTTGGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:24775006 original size:237 final size:237
Alignment explanation
Indices: 24774565--24775009 Score: 588
Period size: 237 Copynumber: 1.9 Consensus size: 237
24774555 CGCTAGGGAC
** * * *
24774565 ACACACCTTAACCAATAAGAACTAAGTCATGGGGCTTCAAACCTTGAGCCATAATATCTTGTTTT
1 ACACACCCCAACCAAGAAAAACTAAGTCATGGGGCTTCAAACCTCGAGCCATAATATCTTGTTTT
* * * * * *
24774630 CTCTACAATGAACCTCATAGGGTAGCTGATTGCCCACATCAAGTAACTTTTAGTGCGATATGTAC
66 CTCTACAATGAACCTCATAGAGTAGCTAATTGCCCACAGCAAGTAACTCTAAGTGCAATATGTAC
** * * * * * *
24774695 TGCTAATATGGAAGCACTTCAAGCTTAGACCCTAGTTGAGGAAGTAGAAGAGGAATCGACACGTA
131 CACTAATATGGAAGCACTTCAAGCCTAAACCCTAGTTAAGGAAGTAGAAGAAGAACCGACACCTA
24774760 TGAGTTCAATTCGGTTCTTTAATGCCTTGCAAGTGTAATTAG
196 TGAGTTCAATTCGGTTCTTTAATGCCTTGCAAGTGTAATTAG
*
24774802 ACACACCCCAACCAAGAAAAACTAAGTCATGGGGCTTTAAACCTCGAGCC-TCAATATCTTGTTT
1 ACACACCCCAACCAAGAAAAACTAAGTCATGGGGCTTCAAACCTCGAGCCAT-AATATCTTGTTT
* * *
24774866 TCTTTACAATGAACCTCATTA-AGTAGCTAATTGCCCACAGCGAGTAGCTCTAAGTGCAATATGT
65 TCTCTACAATGAACCTCA-TAGAGTAGCTAATTGCCCACAGCAAGTAACTCTAAGTGCAATATGT
* * ** * *
24774930 ACCATTAATGTGGAAGCACTTCGGGCCTAAACCCTAGTTAAGGAAGTTGAGGAAGAACCGACACC
129 ACCACTAATATGGAAGCACTTCAAGCCTAAACCCTAGTTAAGGAAGTAGAAGAAGAACCGACACC
*
24774995 TATGGGTTCAATTCG
194 TATGAGTTCAATTCG
24775010 ATTCCTTAGT
Statistics
Matches: 176, Mismatches: 30, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
236 1 0.01
237 173 0.98
238 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (237 bp):
ACACACCCCAACCAAGAAAAACTAAGTCATGGGGCTTCAAACCTCGAGCCATAATATCTTGTTTT
CTCTACAATGAACCTCATAGAGTAGCTAATTGCCCACAGCAAGTAACTCTAAGTGCAATATGTAC
CACTAATATGGAAGCACTTCAAGCCTAAACCCTAGTTAAGGAAGTAGAAGAAGAACCGACACCTA
TGAGTTCAATTCGGTTCTTTAATGCCTTGCAAGTGTAATTAG
Found at i:24794240 original size:26 final size:24
Alignment explanation
Indices: 24794210--24794271 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 24
24794200 AATTTATGAC
*
24794210 TTTTTTATTTTATCTTTAGTTTTATA
1 TTTTTTATTTTAT-TTCA-TTTTATA
24794236 TTTTTTAATTTTTATTTCATTTTATA
1 TTTTTT-A-TTTTATTTCATTTTATA
24794262 TTCTTTTATT
1 TT-TTTTATT
24794272 CATTATATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
25 2 0.06
26 16 0.50
27 8 0.25
28 6 0.19
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (24 bp):
TTTTTTATTTTATTTCATTTTATA
Found at i:24794288 original size:20 final size:20
Alignment explanation
Indices: 24794243--24794288 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
24794233 ATATTTTTTA
*
24794243 ATTTTTATTTCATTTTATAT
1 ATTTTTATTTCATTATATAT
24794263 -TCTTTTA-TTCATTATATTAT
1 AT-TTTTATTTCATTATA-TAT
24794283 ATTTTT
1 ATTTTT
24794289 TACGATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
19 9 0.41
20 12 0.55
21 1 0.05
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.70
Consensus pattern (20 bp):
ATTTTTATTTCATTATATAT
Found at i:24800144 original size:17 final size:17
Alignment explanation
Indices: 24800122--24800158 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
24800112 GCTATTTTTT
* *
24800122 TCTAAAAAGATCCTCCC
1 TCTAAAAAAATACTCCC
24800139 TCTAAAAAAATACTCCC
1 TCTAAAAAAATACTCCC
24800156 TCT
1 TCT
24800159 CTCTCTCCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.32, G:0.03, T:0.27
Consensus pattern (17 bp):
TCTAAAAAAATACTCCC
Found at i:24800282 original size:17 final size:17
Alignment explanation
Indices: 24800262--24800294 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
24800252 AAGTATTATT
24800262 TTTTTC-TTTCTATTTTG
1 TTTTTCATTT-TATTTTG
24800279 TTTTTCATTTTATTTT
1 TTTTTCATTTTATTTT
24800295 CTATCATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.09, C:0.09, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTTCATTTTATTTTG
Found at i:24800707 original size:19 final size:21
Alignment explanation
Indices: 24800669--24800709 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
24800659 GATTCACTAC
24800669 TTTATTTCATCTCTAATTTTT
1 TTTATTTCATCTCTAATTTTT
*
24800690 TTTATTTGAT-TC-AATTTTT
1 TTTATTTCATCTCTAATTTTT
24800709 T
1 T
24800710 CTCTTGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 2 0.11
21 9 0.47
ACGTcount: A:0.20, C:0.10, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTATTTCATCTCTAATTTTT
Found at i:24801740 original size:22 final size:23
Alignment explanation
Indices: 24801700--24801749 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
24801690 AATTTATTCA
24801700 AAAAATGAAAGGGATAGAGAGGG
1 AAAAATGAAAGGGATAGAGAGGG
* * *
24801723 AAAAATGGAAAGGAAGAGAGAGAG
1 AAAAAT-GAAAGGGATAGAGAGGG
24801747 AAA
1 AAA
24801750 GAAGAGTGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.58, C:0.00, G:0.36, T:0.06
Consensus pattern (23 bp):
AAAAATGAAAGGGATAGAGAGGG
Found at i:24818354 original size:33 final size:33
Alignment explanation
Indices: 24818317--24818393 Score: 136
Period size: 33 Copynumber: 2.3 Consensus size: 33
24818307 GAAATAAAAC
*
24818317 AATATTTTATTAATAAAATAATATTAAGATATT
1 AATATTTTATTAATAAAATAATATTAAAATATT
*
24818350 AATATTTTCTTAATAAAATAATATTAAAATATT
1 AATATTTTATTAATAAAATAATATTAAAATATT
24818383 AATATTTTATT
1 AATATTTTATT
24818394 CAATGTCAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (33 bp):
AATATTTTATTAATAAAATAATATTAAAATATT
Found at i:24820045 original size:2 final size:2
Alignment explanation
Indices: 24820035--24820074 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
24820025 TATAACACAC
* *
24820035 AT AT CT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24820075 TGTGTGTGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24820185 original size:42 final size:42
Alignment explanation
Indices: 24820132--24820277 Score: 148
Period size: 42 Copynumber: 3.5 Consensus size: 42
24820122 ATTGACCTGA
* * *
24820132 CTATGTGCGAGGGGGAGTGCGAATATGCCGATGCTAACCTGG
1 CTATGTGCGAGGGGGAGTGCGAATAAGCCGATGCTGACCCGG
* * * * *
24820174 CTATGTGCGAGGGGGAGTACGTATAAGTCAATGTTGACCCGG
1 CTATGTGCGAGGGGGAGTGCGAATAAGCCGATGCTGACCCGG
** ** *
24820216 CTATGTGCGAGTAGGAGTGCTCATAAGCCGATGCTGACCCAG
1 CTATGTGCGAGGGGGAGTGCGAATAAGCCGATGCTGACCCGG
* * *
24820258 CCATGTGCTAGTGGGAGTGC
1 CTATGTGCGAGGGGGAGTGC
24820278 ATATGAGCTG
Statistics
Matches: 84, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 84 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.23
Consensus pattern (42 bp):
CTATGTGCGAGGGGGAGTGCGAATAAGCCGATGCTGACCCGG
Found at i:24827477 original size:2 final size:2
Alignment explanation
Indices: 24827470--24827511 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
24827460 NNNNNNNNNN
* *
24827470 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24827512 GTGTGTTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:24844922 original size:17 final size:17
Alignment explanation
Indices: 24844895--24844948 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
24844885 TTAAGAATTT
*
24844895 CTCCCTTTAAATATGTG
1 CTCCCTCTAAATATGTG
24844912 CTCCC-CATAAATATGTG
1 CTCCCTC-TAAATATGTG
*
24844929 CTCCCTCTAAATATATG
1 CTCCCTCTAAATATGTG
24844946 CTC
1 CTC
24844949 TAATTAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 32 0.97
18 1 0.03
ACGTcount: A:0.26, C:0.30, G:0.09, T:0.35
Consensus pattern (17 bp):
CTCCCTCTAAATATGTG
Found at i:24845140 original size:43 final size:43
Alignment explanation
Indices: 24845088--24845174 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
24845078 AAAAAAAAAA
24845088 ATTGTTCAGCACATAACACCATCATAAAACATATAAACCACAC
1 ATTGTTCAGCACATAACACCATCATAAAACATATAAACCACAC
**
24845131 ATTGTTCAGCACATAACATGATCATAAAACATATAAACCACAC
1 ATTGTTCAGCACATAACACCATCATAAAACATATAAACCACAC
24845174 A
1 A
24845175 ACCATTGTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.47, C:0.25, G:0.06, T:0.22
Consensus pattern (43 bp):
ATTGTTCAGCACATAACACCATCATAAAACATATAAACCACAC
Found at i:24853745 original size:19 final size:18
Alignment explanation
Indices: 24853709--24853748 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
24853699 TCTCTCTTTC
24853709 TTTCCCTTTTTCCCAACT
1 TTTCCCTTTTTCCCAACT
* *
24853727 TTTCCTTTTCTTCCTAACT
1 TTTCCCTTT-TTCCCAACT
24853746 TTT
1 TTT
24853749 GCTCCTTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.10, C:0.33, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTCCCTTTTTCCCAACT
Found at i:24856687 original size:22 final size:22
Alignment explanation
Indices: 24856632--24856687 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
24856622 AGCAATTTTG
*
24856632 TTTC-AAGGGATCAATCTCCTC
1 TTTCAAAGGGATTAATCTCCTC
*
24856653 TTTCAAAGGGATTAATCTTCTC
1 TTTCAAAGGGATTAATCTCCTC
24856675 TTTCAAAGGGATT
1 TTTCAAAGGGATT
24856688 GATCCCTTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 4 0.12
22 28 0.88
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.38
Consensus pattern (22 bp):
TTTCAAAGGGATTAATCTCCTC
Found at i:24860152 original size:78 final size:78
Alignment explanation
Indices: 24860014--24860211 Score: 265
Period size: 78 Copynumber: 2.5 Consensus size: 78
24860004 AGGCACGAGT
* * ** * * * *
24860014 ATGTGGCATTCCTATTACATGTTAAGGTATAATTATTCTAATATGTAAAATCCATTAAGGTCCAT
1 ATGTGGCATTCTTATTATACATTAAGGTATAATGATGCCAATATGTAAAATCCATCAAGGTCCAT
24860079 GTGAT-AGATGGGC
66 GTGATAAG-TGGGC
24860092 ATGTGGCATTCTTATTATACATTAAGGTATAATGATGCCAATATGT-AAATACCATCAAGGTCCA
1 ATGTGGCATTCTTATTATACATTAAGGTATAATGATGCCAATATGTAAAAT-CCATCAAGGTCCA
24860156 TGTGATAAGTGGGC
65 TGTGATAAGTGGGC
* * *
24860170 ATGTGGCGTTCTTATTATACATGAAGGTATAATGGTGCCAAT
1 ATGTGGCATTCTTATTATACATTAAGGTATAATGATGCCAAT
24860212 GTTTAAATTT
Statistics
Matches: 107, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
77 4 0.04
78 101 0.94
79 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (78 bp):
ATGTGGCATTCTTATTATACATTAAGGTATAATGATGCCAATATGTAAAATCCATCAAGGTCCAT
GTGATAAGTGGGC
Found at i:24866245 original size:68 final size:68
Alignment explanation
Indices: 24866161--24866420 Score: 313
Period size: 68 Copynumber: 3.8 Consensus size: 68
24866151 CTTGTTTGGT
* *
24866161 ATGATGAATGCCATAAGTTTATGTATATTATGTAAATTCCATATACCATATGAGATTATTAAGTA
1 ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATTATTAAGTA
24866226 TGC
66 TGC
* * * * * * * *
24866229 ATGATGTATACTATAAGATTGTGTATAGGATGTAAATTTCATATACCATATGAGGTGATTAAGTA
1 ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATTATTAAGTA
24866294 TGC
66 TGC
* * * * * * * *
24866297 ATGGTAAATGCCATGAGATTATGTATATGATGTATATTCCATATACTACATGAGATTATTGAGAA
1 ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATTATTAAGTA
*
24866362 AGC
66 TGC
* ** *
24866365 ATGATGAATGCCATAAGATTATATATATGATGTATTTTCCATATACCTTATGAGAT
1 ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGAT
24866421 AAGTAAGCTT
Statistics
Matches: 157, Mismatches: 35, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
68 157 1.00
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (68 bp):
ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATTATTAAGTA
TGC
Found at i:24868853 original size:18 final size:17
Alignment explanation
Indices: 24868827--24868860 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
24868817 CAACACTTTA
24868827 TTCTACTTTTTCTTTTTG
1 TTCTACTTTTT-TTTTTG
*
24868845 TTCTCCTTTTTTTTTT
1 TTCTACTTTTTTTTTT
24868861 CACAATTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (17 bp):
TTCTACTTTTTTTTTTG
Found at i:24870410 original size:5 final size:5
Alignment explanation
Indices: 24870397--24870455 Score: 56
Period size: 5 Copynumber: 12.4 Consensus size: 5
24870387 ACCAAGAAGA
*
24870397 AAAGAG AAAGG AAAGG AAA-G AAA-G -AAGA AAAGAG AAAGG AAAGG AAA-G
1 AAAG-G AAAGG AAAGG AAAGG AAAGG AAAGG AAAG-G AAAGG AAAGG AAAGG
24870445 AAA-G AAAGG AA
1 AAAGG AAAGG AA
24870456 GAAAAAGAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
3 2 0.04
4 13 0.28
5 24 0.51
6 8 0.17
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (5 bp):
AAAGG
Found at i:24870433 original size:23 final size:24
Alignment explanation
Indices: 24870397--24870455 Score: 79
Period size: 23 Copynumber: 2.5 Consensus size: 24
24870387 ACCAAGAAGA
24870397 AAAGAGAAAGGAAAGGAAA-GAAAG
1 AAAGA-AAAGGAAAGGAAAGGAAAG
24870421 -AAGAAAAGAGAAAGGAAAGGAAAG
1 AAAGAAAAG-GAAAGGAAAGGAAAG
24870445 AAAG-AAAGGAA
1 AAAGAAAAGGAA
24870456 GAAAAAGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
22 4 0.12
23 16 0.50
24 9 0.28
25 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (24 bp):
AAAGAAAAGGAAAGGAAAGGAAAG
Found at i:24870462 original size:28 final size:28
Alignment explanation
Indices: 24870390--24870450 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
24870380 GCCCATAACC
24870390 AAGAAGAAAAGAGAAAGGAAAGGAAAGA
1 AAGAAGAAAAGAGAAAGGAAAGGAAAGA
24870418 AAGAAGAAAAGAGAAAGGAAAGGAAAGA
1 AAGAAGAAAAGAGAAAGGAAAGGAAAGA
24870446 AAGAA
1 AAGAA
24870451 AGGAAGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (28 bp):
AAGAAGAAAAGAGAAAGGAAAGGAAAGA
Found at i:24870471 original size:18 final size:18
Alignment explanation
Indices: 24870412--24870474 Score: 67
Period size: 18 Copynumber: 3.5 Consensus size: 18
24870402 GAAAGGAAAG
*
24870412 GAAAGAAAGAAGAAA-AGA
1 GAAAGGAAGAA-AAAGAGA
* *
24870430 GAAAGGAA-AGGAAAGAAA
1 GAAAGGAAGA-AAAAGAGA
24870448 GAAAGGAAGAAAAAGAGA
1 GAAAGGAAGAAAAAGAGA
24870466 GAAAGGAAG
1 GAAAGGAAG
24870475 GCAAGGCTCG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
17 4 0.11
18 32 0.86
19 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (18 bp):
GAAAGGAAGAAAAAGAGA
Found at i:24871757 original size:35 final size:35
Alignment explanation
Indices: 24871710--24871791 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 35
24871700 AGCTAATCTT
*
24871710 CACTCCCGACACGCATAAGGCAATATCATCATGTG
1 CACTCCCTACACGCATAAGGCAATATCATCATGTG
* *** *
24871745 CACTCCCTACACGTATATTTCAATATCATCATTTG
1 CACTCCCTACACGCATAAGGCAATATCATCATGTG
*
24871780 CACTCCTTACAC
1 CACTCCCTACAC
24871792 ACACATTTCA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.29, C:0.33, G:0.10, T:0.28
Consensus pattern (35 bp):
CACTCCCTACACGCATAAGGCAATATCATCATGTG
Found at i:24871800 original size:35 final size:35
Alignment explanation
Indices: 24871730--24871810 Score: 117
Period size: 35 Copynumber: 2.3 Consensus size: 35
24871720 ACGCATAAGG
** *
24871730 CAATATCATCATGTGCACTCCCTACACGTATATTT
1 CAATATCATCATGTGCACTCCCTACACACACATTT
* *
24871765 CAATATCATCATTTGCACTCCTTACACACACATTT
1 CAATATCATCATGTGCACTCCCTACACACACATTT
24871800 CAATATCATCA
1 CAATATCATCA
24871811 CACGCACTCC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (35 bp):
CAATATCATCATGTGCACTCCCTACACACACATTT
Found at i:24872661 original size:10 final size:10
Alignment explanation
Indices: 24872644--24872674 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
24872634 TTTCCTAACA
24872644 ACACATATCC
1 ACACATATCC
*
24872654 ATACATATCC
1 ACACATATCC
24872664 ACACATATCC
1 ACACATATCC
24872674 A
1 A
24872675 AACTTCCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.23
Consensus pattern (10 bp):
ACACATATCC
Found at i:24875823 original size:21 final size:22
Alignment explanation
Indices: 24875794--24875834 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
24875784 GTATATATGC
24875794 TTATACATAAATGCTATAAAGA
1 TTATACATAAATGCTATAAAGA
*
24875816 TTAT-CATACATGCTATAAA
1 TTATACATAAATGCTATAAA
24875835 ACTGTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.34
Consensus pattern (22 bp):
TTATACATAAATGCTATAAAGA
Found at i:24875958 original size:21 final size:21
Alignment explanation
Indices: 24875920--24875964 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
24875910 AACTAATTTC
* **
24875920 AAATTGATTTTCGTTGCAACA
1 AAATAGATTTTCAATGCAACA
*
24875941 AAATAGATTTTCAATGCAGCA
1 AAATAGATTTTCAATGCAACA
24875962 AAA
1 AAA
24875965 CCCCCCCTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (21 bp):
AAATAGATTTTCAATGCAACA
Found at i:24890971 original size:73 final size:72
Alignment explanation
Indices: 24890853--24891055 Score: 198
Period size: 73 Copynumber: 2.8 Consensus size: 72
24890843 TTAGACAAAG
* * * * * *
24890853 AGCTCTTAGTTGACTAACATACTTCTTAGTCTATTAAGTTGGTTCTGTCTTCTGATC-CTAG-TT
1 AGCTCTTAGTCGACTAACATTCCTCTTAGTCAATTAAGTTAGTTCTGT-TTCTGAACTCT-GCTT
*
24890916 C-AGGTAGTA
64 CTA-GCAGTA
* *
24890925 AGCTCTTAGTCGACTAACGATTCCTCTTAGTCAATTAAGTCAGTTCTATTTCTGAACTCTGCTTC
1 AGCTCTTAGTCGACTAAC-ATTCCTCTTAGTCAATTAAGTTAGTTCTGTTTCTGAACTCTGCTTC
24890990 TAGCAGTA
65 TAGCAGTA
* * ** *
24890998 AGCACTTAGTCAACTAACAATAT-CTCTTAGTTGATTAAGTTAGTTCTGTTTCTAAACT
1 AGCTCTTAGTCGACTAAC-AT-TCCTCTTAGTCAATTAAGTTAGTTCTGTTTCTGAACT
24891056 GGCCATCTTC
Statistics
Matches: 109, Mismatches: 17, Indels: 9
0.81 0.13 0.07
Matches are distributed among these distances:
72 25 0.23
73 82 0.75
74 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (72 bp):
AGCTCTTAGTCGACTAACATTCCTCTTAGTCAATTAAGTTAGTTCTGTTTCTGAACTCTGCTTCT
AGCAGTA
Found at i:24899930 original size:73 final size:74
Alignment explanation
Indices: 24899785--24899988 Score: 220
Period size: 73 Copynumber: 2.8 Consensus size: 74
24899775 TCAAACAGAG
* * * *
24899785 AGCTCTTAGTCGACTAACATACTTCTTAGTCGATTAAGTTGGTTCTGTCTTCT-AA-TCCCAGTT
1 AGCTCTTAGTCGACTAAAATTCCTCTTAGTCGATTAAGTTGGTTCTGT-TTCTGAACTCCCACTT
*
24899848 TTAGGCAGTA
65 CTAGGCAGTA
* ** *
24899858 AGCTCTTAGTCGACTAATGATTCCTCTTAGTCGATTAAGTCAGTTCTGTTTCTGAACT-CTACTT
1 AGCTCTTAGTCGACTAA-AATTCCTCTTAGTCGATTAAGTTGGTTCTGTTTCTGAACTCCCACTT
24899922 CTA-GCAGTA
65 CTAGGCAGTA
* * * *
24899931 AGCACTTAGTCAACTAACAATAT-CTCTTAGTCGATTAAGTTGGTTTTGTTTTTGAACT
1 AGCTCTTAGTCGACTAA-AAT-TCCTCTTAGTCGATTAAGTTGGTTCTGTTTCTGAACT
24899989 GGCCATCTTC
Statistics
Matches: 111, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
73 75 0.68
74 35 0.32
75 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.39
Consensus pattern (74 bp):
AGCTCTTAGTCGACTAAAATTCCTCTTAGTCGATTAAGTTGGTTCTGTTTCTGAACTCCCACTTC
TAGGCAGTA
Found at i:24922455 original size:11 final size:11
Alignment explanation
Indices: 24922409--24922459 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
24922399 CTATTTTTGA
24922409 TTTATTATTAT
1 TTTATTATTAT
* *
24922420 TTAATTGTTAT
1 TTTATTATTAT
24922431 TTTCATT-TTAT
1 TTT-ATTATTAT
24922442 TTTATTATTAT
1 TTTATTATTAT
24922453 TTT-TTAT
1 TTTATTAT
24922460 ATTATCTTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 7 0.20
11 25 0.71
12 3 0.09
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (11 bp):
TTTATTATTAT
Found at i:24922644 original size:22 final size:22
Alignment explanation
Indices: 24922602--24922644 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
24922592 AAGAATTTTA
*
24922602 TTATTTTTTTTATTTTATATTT
1 TTATTTTTTTTATTATATATTT
24922624 TTATATTTTTTTATTAT-TATT
1 TTAT-TTTTTTTATTATATATT
24922645 GTATTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (22 bp):
TTATTTTTTTTATTATATATTT
Found at i:24923453 original size:30 final size:29
Alignment explanation
Indices: 24923398--24923455 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
24923388 TCCTCCTTGA
*
24923398 TTTTTATATTTTCTTTCTTTGTTCTCTTT
1 TTTTTATATTTTATTTCTTTGTTCTCTTT
24923427 TTTTTATATTATTATTTCTATT-TTCTCTT
1 TTTTTATATT-TTATTTCT-TTGTTCTCTT
24923456 AACATCTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 10 0.38
30 14 0.54
31 2 0.08
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (29 bp):
TTTTTATATTTTATTTCTTTGTTCTCTTT
Found at i:24927399 original size:21 final size:20
Alignment explanation
Indices: 24927373--24927414 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
24927363 TAATTTAAAA
24927373 TAAAATAACATAAAATTTAAC
1 TAAAATAAC-TAAAATTTAAC
*
24927394 TAAAATAACTTAAA-TTAAC
1 TAAAATAACTAAAATTTAAC
24927413 TA
1 TA
24927415 CTCAACATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 4 0.20
21 9 0.45
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (20 bp):
TAAAATAACTAAAATTTAAC
Found at i:24931853 original size:21 final size:20
Alignment explanation
Indices: 24931817--24931867 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
24931807 CTCTTAAAGT
*
24931817 AATTTAACACAAAATAACATAA
1 AATTTAAC-TAAAATAAC-TAA
*
24931839 AATTTAACTAAAATAACTTA
1 AATTTAACTAAAATAACTAA
24931859 AA-TTAACTA
1 AATTTAACTA
24931868 CTCAACATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 7 0.26
20 4 0.15
21 8 0.30
22 8 0.30
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (20 bp):
AATTTAACTAAAATAACTAA
Found at i:24938463 original size:25 final size:25
Alignment explanation
Indices: 24938434--24938511 Score: 138
Period size: 25 Copynumber: 3.1 Consensus size: 25
24938424 AATTAAGCTC
*
24938434 TTATCTATTTTTGTTAATAAGATAG
1 TTATCTACTTTTGTTAATAAGATAG
24938459 TTATCTACTTTTGTTAATAAGATAG
1 TTATCTACTTTTGTTAATAAGATAG
*
24938484 TTATCTACTTTCGTTAATAAGATAG
1 TTATCTACTTTTGTTAATAAGATAG
24938509 TTA
1 TTA
24938512 GGTGACCAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.49
Consensus pattern (25 bp):
TTATCTACTTTTGTTAATAAGATAG
Found at i:24943432 original size:2 final size:2
Alignment explanation
Indices: 24943383--24943418 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
24943373 AAATGAGCGC
24943383 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24943419 GAATGCATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24944135 original size:11 final size:11
Alignment explanation
Indices: 24944119--24944156 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
24944109 GAGAAATTGC
24944119 AAATGTAAGTG
1 AAATGTAAGTG
*
24944130 AAATGTAGGTG
1 AAATGTAAGTG
*
24944141 AAATGTAAGAG
1 AAATGTAAGTG
24944152 AAATG
1 AAATG
24944157 CAAATGAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (11 bp):
AAATGTAAGTG
Found at i:24945986 original size:33 final size:35
Alignment explanation
Indices: 24945920--24946000 Score: 121
Period size: 33 Copynumber: 2.4 Consensus size: 35
24945910 AGCATGATCT
* *
24945920 ATGTAAGGGGAAGAACTCCTGATGTAGTAAGTTGA
1 ATGTAAGGGGAAGAACTCCTAATATAGTAAGTTGA
24945955 ATGTAAGGGG-AGAAC-CCTAATATAGTAAGTTGA
1 ATGTAAGGGGAAGAACTCCTAATATAGTAAGTTGA
*
24945988 ATGTAAGGAGAAG
1 ATGTAAGGGGAAG
24946001 TACCCTGAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.60
34 7 0.17
35 10 0.24
ACGTcount: A:0.38, C:0.07, G:0.31, T:0.23
Consensus pattern (35 bp):
ATGTAAGGGGAAGAACTCCTAATATAGTAAGTTGA
Found at i:24950916 original size:31 final size:31
Alignment explanation
Indices: 24950876--24950953 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
24950866 TACACATAAG
* *
24950876 TCTTCAAACTTTTCCTCATT-TACTATATAACTT
1 TCTT-AAACTTTTCATC-TTCTACAATATAA-TT
*
24950909 TC-TAAACTTTTCATCTTCTACAATTTAATT
1 TCTTAAACTTTTCATCTTCTACAATATAATT
24950939 TCTTAAACTTTTCAT
1 TCTTAAACTTTTCAT
24950954 AAATTGCAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
30 6 0.15
31 31 0.77
32 1 0.03
33 2 0.05
ACGTcount: A:0.28, C:0.22, G:0.00, T:0.50
Consensus pattern (31 bp):
TCTTAAACTTTTCATCTTCTACAATATAATT
Found at i:24951291 original size:19 final size:18
Alignment explanation
Indices: 24951269--24951311 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
24951259 ATATTATTTC
*
24951269 AATATTGTATTATTCAAAA
1 AATATTATATTATTC-AAA
* *
24951288 AATATTATTTTATTCGAA
1 AATATTATATTATTCAAA
24951306 AATATT
1 AATATT
24951312 TTTTTCACCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.47
Consensus pattern (18 bp):
AATATTATATTATTCAAA
Found at i:24953841 original size:18 final size:18
Alignment explanation
Indices: 24953818--24953852 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24953808 AATACAAGTA
*
24953818 GAATAACTACTTCACACG
1 GAATAACAACTTCACACG
*
24953836 GAATAACAATTTCACAC
1 GAATAACAACTTCACAC
24953853 AGATGACAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.26, G:0.09, T:0.23
Consensus pattern (18 bp):
GAATAACAACTTCACACG
Found at i:24954062 original size:29 final size:29
Alignment explanation
Indices: 24954036--24954127 Score: 130
Period size: 29 Copynumber: 3.2 Consensus size: 29
24954026 TCCATTCACA
*
24954036 TACAGTTTCTTCTCTTGTACCTGTTCATG
1 TACAGTTTCTTCTCTTGTACCTATTCATG
24954065 TACAGTTTCTTCTCTTGTACCTATTCATG
1 TACAGTTTCTTCTCTTGTACCTATTCATG
* * ** *
24954094 TACAGCTTCTTCTCTTATATTTGTTCATG
1 TACAGTTTCTTCTCTTGTACCTATTCATG
24954123 TACAG
1 TACAG
24954128 CTCTTCTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.17, C:0.23, G:0.12, T:0.48
Consensus pattern (29 bp):
TACAGTTTCTTCTCTTGTACCTATTCATG
Found at i:24954128 original size:29 final size:29
Alignment explanation
Indices: 24954036--24954138 Score: 129
Period size: 29 Copynumber: 3.6 Consensus size: 29
24954026 TCCATTCACA
* *
24954036 TACAGTTTCTTCTCTTGTACCTGTTCATG
1 TACAGCTTCTTCTCTTATACCTGTTCATG
* * *
24954065 TACAGTTTCTTCTCTTGTACCTATTCATG
1 TACAGCTTCTTCTCTTATACCTGTTCATG
**
24954094 TACAGCTTCTTCTCTTATATTTGTTCATG
1 TACAGCTTCTTCTCTTATACCTGTTCATG
24954123 TACAGC-TCTTCT-TTAT
1 TACAGCTTCTTCTCTTAT
24954139 TAGCTCCTAC
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 4 0.06
28 6 0.09
29 58 0.85
ACGTcount: A:0.17, C:0.23, G:0.11, T:0.50
Consensus pattern (29 bp):
TACAGCTTCTTCTCTTATACCTGTTCATG
Found at i:24962451 original size:14 final size:14
Alignment explanation
Indices: 24962432--24962458 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24962422 CAAAATTTAT
24962432 TAATTAACTAAAAG
1 TAATTAACTAAAAG
24962446 TAATTAACTAAAA
1 TAATTAACTAAAA
24962459 TTAAAACCAA
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:0.59, C:0.07, G:0.04, T:0.30
Consensus pattern (14 bp):
TAATTAACTAAAAG
Found at i:24964409 original size:19 final size:19
Alignment explanation
Indices: 24964369--24964411 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
24964359 AGGCCTAAGG
* *
24964369 AATAAATGAATAAGGGTAA
1 AATAAATGAAGAAGGATAA
24964388 AATAAATGAAGAA-GATATA
1 AATAAATGAAGAAGGATA-A
24964407 AATAA
1 AATAA
24964412 TGATAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.63, C:0.00, G:0.16, T:0.21
Consensus pattern (19 bp):
AATAAATGAAGAAGGATAA
Found at i:24965350 original size:86 final size:87
Alignment explanation
Indices: 24965197--24965370 Score: 325
Period size: 88 Copynumber: 2.0 Consensus size: 87
24965187 ACATATATAT
24965197 ATACATAAAAAAAAAGTATCATCTCATGCATGAAATTTTTTTCTCTTTCCTCATATTTCAATAAA
1 ATACATAAAAAAAAAGTATCATCTCATGCATGAAATTTTTTTCTCTTTCCTCATATTTCAATAAA
24965262 AAAAAGTCATGCAAGGGGCAAC
66 AAAAAGTCATGCAAGGGGCAAC
24965284 NATACATAAAAAAAAAGTATCATCTCATGCATGAAATTTTTTT-TC-TTCCTCATATTTCAATAA
1 -ATACATAAAAAAAAAGTATCATCTCATGCATGAAATTTTTTTCTCTTTCCTCATATTTCAATAA
24965347 AAAAAAGTCATGCAAGGGGCAAC
65 AAAAAAGTCATGCAAGGGGCAAC
24965370 A
1 A
24965371 AGTAAAAGAA
Statistics
Matches: 86, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
85 1 0.01
86 41 0.48
87 2 0.02
88 42 0.49
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.30
Consensus pattern (87 bp):
ATACATAAAAAAAAAGTATCATCTCATGCATGAAATTTTTTTCTCTTTCCTCATATTTCAATAAA
AAAAAGTCATGCAAGGGGCAAC
Found at i:24966245 original size:29 final size:29
Alignment explanation
Indices: 24966206--24966287 Score: 110
Period size: 29 Copynumber: 2.8 Consensus size: 29
24966196 TTTTTCCTTG
* *
24966206 TTCTCTTGTACCTATTCGTGTACAACTTC
1 TTCTCTTGTACCTATTCATGTACAACTTA
*
24966235 TTCTCTTGTACCTGTTCATGTACAACTTA
1 TTCTCTTGTACCTATTCATGTACAACTTA
* * *
24966264 TTTTCTTGTGCCTATTCACGTACA
1 TTCTCTTGTACCTATTCATGTACA
24966288 GCTCTTCTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.18, C:0.26, G:0.11, T:0.45
Consensus pattern (29 bp):
TTCTCTTGTACCTATTCATGTACAACTTA
Found at i:24970604 original size:29 final size:29
Alignment explanation
Indices: 24970563--24970631 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
24970553 TATTCATTTA
*
24970563 TTTTTGGTGGGTTGA-AAGTATTCATCCAC
1 TTTTTGGTAGGTT-ACAAGTATTCATCCAC
24970592 TTTTTGGTAGGTTACAAGTATTCATCCAC
1 TTTTTGGTAGGTTACAAGTATTCATCCAC
24970621 -TTTTGGTAGGT
1 TTTTTGGTAGGT
24970632 GATCCACTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
28 12 0.32
29 26 0.68
ACGTcount: A:0.20, C:0.13, G:0.23, T:0.43
Consensus pattern (29 bp):
TTTTTGGTAGGTTACAAGTATTCATCCAC
Found at i:24970748 original size:26 final size:25
Alignment explanation
Indices: 24970714--24970803 Score: 92
Period size: 26 Copynumber: 3.5 Consensus size: 25
24970704 TTACTTTTGA
* *
24970714 TGGTGAAATTATGTATTCATTTCTGG
1 TGGTAAAATTAT-TATTCAATTCTGG
* * *
24970740 TGATAAAATTATTCTT-AGATTCTGA
1 TGGTAAAATTATTATTCA-ATTCTGG
*
24970765 TGGTAAAATTATCCATTCAATTCTGG
1 TGGTAAAATTAT-TATTCAATTCTGG
24970791 TGGTAAAATTATT
1 TGGTAAAATTATT
24970804 CTTAAAATTA
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
24 1 0.02
25 19 0.37
26 30 0.59
27 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (25 bp):
TGGTAAAATTATTATTCAATTCTGG
Found at i:24970771 original size:25 final size:24
Alignment explanation
Indices: 24970734--24970808 Score: 96
Period size: 26 Copynumber: 3.0 Consensus size: 24
24970724 ATGTATTCAT
*
24970734 TTCTGGTGATAAAATTATTCTTAGA
1 TTCTGGTGGTAAAATTATTCTTA-A
* *
24970759 TTCTGATGGTAAAATTATCCATTCAA
1 TTCTGGTGGTAAAATTATTC-TT-AA
24970785 TTCTGGTGGTAAAATTATTCTTAA
1 TTCTGGTGGTAAAATTATTCTTAA
24970809 AATTAAAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
24 2 0.05
25 19 0.44
26 21 0.49
27 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.43
Consensus pattern (24 bp):
TTCTGGTGGTAAAATTATTCTTAA
Found at i:24970774 original size:51 final size:51
Alignment explanation
Indices: 24970711--24970807 Score: 149
Period size: 51 Copynumber: 1.9 Consensus size: 51
24970701 TATTTACTTT
* ** *
24970711 TGATGGTGAAATTATGTATTCATTTCTGGTGATAAAATTATTCTTAGATTC
1 TGATGGTAAAATTATCCATTCAATTCTGGTGATAAAATTATTCTTAGATTC
*
24970762 TGATGGTAAAATTATCCATTCAATTCTGGTGGTAAAATTATTCTTA
1 TGATGGTAAAATTATCCATTCAATTCTGGTGATAAAATTATTCTTA
24970808 AAATTAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.43
Consensus pattern (51 bp):
TGATGGTAAAATTATCCATTCAATTCTGGTGATAAAATTATTCTTAGATTC
Done.