Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, whole genome shotgun sequence
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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 89 of 120
Found at i:11779316 original size:43 final size:43
Alignment explanation
Indices: 11779255--11779337 Score: 157
Period size: 43 Copynumber: 1.9 Consensus size: 43
11779245 AGAGTTCATG
*
11779255 GTAAACAACATGATCATCGTATGGATAAGCTTTGAACTAAATA
1 GTAAACAACATGATCATCGTATGGATAAACTTTGAACTAAATA
11779298 GTAAACAACATGATCATCGTATGGATAAACTTTGAACTAA
1 GTAAACAACATGATCATCGTATGGATAAACTTTGAACTAA
11779338 CATAAATTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (43 bp):
GTAAACAACATGATCATCGTATGGATAAACTTTGAACTAAATA
Found at i:11780960 original size:2 final size:2
Alignment explanation
Indices: 11780953--11780981 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11780943 TTGCAAGTAC
11780953 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11780982 GAGAGAGAGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11780986 original size:2 final size:2
Alignment explanation
Indices: 11780981--11781008 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11780971 ATATATATAT
11780981 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
11781009 TATAATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11786130 original size:19 final size:21
Alignment explanation
Indices: 11786086--11786133 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 21
11786076 ATTAGGTATT
11786086 AATAAATAAAACTAATAATATA
1 AATAAA-AAAACTAATAATATA
11786108 AATAAAAAAA-TAA-AAT-TA
1 AATAAAAAAACTAATAATATA
11786126 GAATAAAA
1 -AATAAAA
11786134 TCAAATGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 2 0.08
19 10 0.40
20 3 0.12
21 4 0.16
22 6 0.24
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (21 bp):
AATAAAAAAACTAATAATATA
Found at i:11786880 original size:13 final size:13
Alignment explanation
Indices: 11786862--11786886 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11786852 GAGTATTTAG
11786862 AATAATTTTTTGT
1 AATAATTTTTTGT
11786875 AATAATTTTTTG
1 AATAATTTTTTG
11786887 GTTTAGTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (13 bp):
AATAATTTTTTGT
Found at i:11790015 original size:45 final size:45
Alignment explanation
Indices: 11789951--11790113 Score: 177
Period size: 45 Copynumber: 3.6 Consensus size: 45
11789941 TCATAATCGT
* *
11789951 TAAAATTTTTTTAATGAGAATCTTTAAAATTTGGATGTAAAACCC
1 TAAAATTTTTTGAATGAGAATCTTTAAAATTTGGATGTAAAACAC
* *
11789996 TAAAATTTTTTGAATGAGAA-CATTTAAAATTTTGGATATGAAACAC
1 TAAAATTTTTTGAATGAGAATC-TTTAAAA-TTTGGATGTAAAACAC
* * * * * *
11790042 TAAAGTTTTTCGAATGTGAATCTTTAAAATTGTGAATGTAAATCTC
1 TAAAATTTTTTGAATGAGAATCTTTAAAATT-TGGATGTAAAACAC
* *
11790088 T-AAGTTTTTTGAATGAAAATCTTTAA
1 TAAAATTTTTTGAATGAGAATCTTTAA
11790114 CTTTTGGGTC
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
44 1 0.01
45 50 0.51
46 47 0.47
47 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.40
Consensus pattern (45 bp):
TAAAATTTTTTGAATGAGAATCTTTAAAATTTGGATGTAAAACAC
Found at i:11790040 original size:23 final size:24
Alignment explanation
Indices: 11789996--11790072 Score: 63
Period size: 23 Copynumber: 3.3 Consensus size: 24
11789986 TGTAAAACCC
*
11789996 TAAAATTTTTTGAATGAGAACATT
1 TAAAATTTTTGGAATGAGAACATT
*
11790020 TAAAA-TTTTGGATATGA-AACA-C
1 TAAAATTTTTGGA-ATGAGAACATT
* * *
11790042 TAAAGTTTTTCGAATGTGAATC-TT
1 TAAAATTTTTGGAATGAGAA-CATT
11790066 TAAAATT
1 TAAAATT
11790073 GTGAATGTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
22 7 0.17
23 18 0.44
24 16 0.39
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.40
Consensus pattern (24 bp):
TAAAATTTTTGGAATGAGAACATT
Found at i:11790045 original size:46 final size:46
Alignment explanation
Indices: 11789951--11790113 Score: 170
Period size: 46 Copynumber: 3.6 Consensus size: 46
11789941 TCATAATCGT
* * *
11789951 TAAAATTTTTTTAATGAGAATCTTTAAAA-TTTGGATGTAAAACCC
1 TAAAATTTTTTGAATGAGAATCTTTAAAATTTTGGATATAAAACAC
*
11789996 TAAAATTTTTTGAATGAGAA-CATTTAAAATTTTGGATATGAAACAC
1 TAAAATTTTTTGAATGAGAATC-TTTAAAATTTTGGATATAAAACAC
* * * * * * * *
11790042 TAAAGTTTTTCGAATGTGAATCTTTAAAATTGTGAATGTAAATCTC
1 TAAAATTTTTTGAATGAGAATCTTTAAAATTTTGGATATAAAACAC
* *
11790088 T-AAGTTTTTTGAATGAAAATCTTTAA
1 TAAAATTTTTTGAATGAGAATCTTTAA
11790114 CTTTTGGGTC
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
44 1 0.01
45 48 0.48
46 49 0.49
47 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.40
Consensus pattern (46 bp):
TAAAATTTTTTGAATGAGAATCTTTAAAATTTTGGATATAAAACAC
Found at i:11790085 original size:22 final size:23
Alignment explanation
Indices: 11790053--11790113 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
11790043 AAAGTTTTTC
*
11790053 GAATGTGAATCTTTAA-AATTGT
1 GAATGTAAATCTTTAAGAATTGT
* ** *
11790075 GAATGTAAATCTCTAAGTTTTTT
1 GAATGTAAATCTTTAAGAATTGT
*
11790098 GAATGAAAATCTTTAA
1 GAATGTAAATCTTTAA
11790114 CTTTTGGGTC
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 14 0.45
23 17 0.55
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.41
Consensus pattern (23 bp):
GAATGTAAATCTTTAAGAATTGT
Found at i:11790102 original size:23 final size:23
Alignment explanation
Indices: 11790074--11790118 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
11790064 TTTAAAATTG
* *
11790074 TGAATGTAAATCTCTAAGTTTTT
1 TGAATGAAAATCTCTAACTTTTT
*
11790097 TGAATGAAAATCTTTAACTTTT
1 TGAATGAAAATCTCTAACTTTT
11790119 GGGTCTGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.47
Consensus pattern (23 bp):
TGAATGAAAATCTCTAACTTTTT
Found at i:11790142 original size:91 final size:91
Alignment explanation
Indices: 11789945--11790166 Score: 227
Period size: 91 Copynumber: 2.5 Consensus size: 91
11789935 TTTTAGTCAT
* * *
11789945 AATCGTTAAAATTTTTTTAATGAGAATCTTTAAAATTTGGATGTAAAACCCTAAAATTTTTTGAA
1 AATCATTAAAATTTTTTGAATGAGAATCTTTAAAATTTGAATGTAAAACCCTAAAATTTTTTGAA
11790010 TGAGAACATTTAAAATTTTGGATATG
66 TGAGAACATTTAAAATTTTGGATATG
* * * * * * * *
11790036 AAACACTAAAGTTTTTCGAATGTGAATCTTTAAAATTGTGAATGTAAATCTCT-AAGTTTTTTGA
1 AATCATTAAAATTTTTTGAATGAGAATCTTTAAAATT-TGAATGTAAAACCCTAAAATTTTTTGA
* * * *
11790100 ATGA-AA-ATCTTTAACTTTTGGGTCTG
65 ATGAGAACAT-TTAAAATTTTGGATATG
* * * *
11790126 AATCTTTAAAATTTTTT-AATGAGAATATTTGAATTTTGAAT
1 AATCATTAAAATTTTTTGAATGAGAATCTTTAAAATTTGAAT
11790167 TTGAGCCTTA
Statistics
Matches: 105, Mismatches: 24, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
88 5 0.05
89 17 0.16
90 27 0.26
91 44 0.42
92 12 0.11
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (91 bp):
AATCATTAAAATTTTTTGAATGAGAATCTTTAAAATTTGAATGTAAAACCCTAAAATTTTTTGAA
TGAGAACATTTAAAATTTTGGATATG
Found at i:11790379 original size:17 final size:17
Alignment explanation
Indices: 11790329--11790447 Score: 82
Period size: 17 Copynumber: 6.8 Consensus size: 17
11790319 TACAATTATG
*
11790329 AATTTGAAAGTTCTTGAA
1 AATTTGAAA-TTCTTGTA
* * *
11790347 AAATTAAAATTTTTGTA
1 AATTTGAAATTCTTGTA
11790364 AATTTGAAATTCTTGTGA
1 AATTTGAAATTCTTGT-A
*
11790382 AA-TT-AAATTTCTTGTG
1 AATTTGAAA-TTCTTGTA
* **
11790398 AATCTGAAAATTCTTGCC
1 AATTTG-AAATTCTTGTA
11790416 AATTTGAAAGTTCTTGTGA
1 AATTTGAAA-TTCTTGT-A
*
11790435 AA-CTGAAATTCTT
1 AATTTGAAATTCTT
11790448 ACGAATCTTT
Statistics
Matches: 79, Mismatches: 15, Indels: 15
0.72 0.14 0.14
Matches are distributed among these distances:
16 5 0.06
17 37 0.47
18 32 0.41
19 5 0.06
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.42
Consensus pattern (17 bp):
AATTTGAAATTCTTGTA
Found at i:11790385 original size:34 final size:34
Alignment explanation
Indices: 11790329--11790413 Score: 100
Period size: 34 Copynumber: 2.4 Consensus size: 34
11790319 TACAATTATG
11790329 AATTTGAAAGTTCTTGAAAAATTAAAATTT-TTGTA
1 AATTTGAAA-TTCTTGAAAAATT-AAATTTCTTGTA
** *
11790364 AATTTGAAATTCTTGTGAAATTAAATTTCTTGTG
1 AATTTGAAATTCTTGAAAAATTAAATTTCTTGTA
*
11790398 AATCTGAAAATTCTTG
1 AATTTG-AAATTCTTG
11790414 CCAATTTGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
33 6 0.14
34 20 0.45
35 18 0.41
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.44
Consensus pattern (34 bp):
AATTTGAAATTCTTGAAAAATTAAATTTCTTGTA
Found at i:11790413 original size:18 final size:18
Alignment explanation
Indices: 11790352--11790468 Score: 80
Period size: 18 Copynumber: 6.7 Consensus size: 18
11790342 TTGAAAAATT
* * *
11790352 AAAATTTTTGTAAATTTG
1 AAAATTCTTGTGAATCTG
11790370 -AAATTCTTGTGAAAT-T-
1 AAAATTCTTGTG-AATCTG
*
11790386 AAATTTCTTGTGAATCTG
1 AAAATTCTTGTGAATCTG
** *
11790404 AAAATTCTTGCCAATTTG
1 AAAATTCTTGTGAATCTG
* *
11790422 AAAGTTCTTGTGAAACTG
1 AAAATTCTTGTGAATCTG
** *
11790440 -AAATTCTTACGAATCTT
1 AAAATTCTTGTGAATCTG
*
11790457 TAAATTCTTGTG
1 AAAATTCTTGTG
11790469 TATATTAGTT
Statistics
Matches: 75, Mismatches: 19, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
16 3 0.04
17 33 0.44
18 39 0.52
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (18 bp):
AAAATTCTTGTGAATCTG
Found at i:11790444 original size:35 final size:34
Alignment explanation
Indices: 11790333--11790447 Score: 97
Period size: 35 Copynumber: 3.3 Consensus size: 34
11790323 ATTATGAATT
** * * *
11790333 TGAAAGTTCTTGAAAAATTAAAATTTTTGT-AAATT
1 TGAAA-TTCTTGCCAAATTAAAGTTCTTGTGAAA-C
** * *
11790368 TGAAATTCTTGTGAAATTAAATTTCTTGTGAATC
1 TGAAATTCTTGCCAAATTAAAGTTCTTGTGAAAC
*
11790402 TGAAAATTCTTGCCAATTTGAAAGTTCTTGTGAAAC
1 TG-AAATTCTTGCCAAATT-AAAGTTCTTGTGAAAC
11790438 TGAAATTCTT
1 TGAAATTCTT
11790448 ACGAATCTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
34 22 0.33
35 28 0.42
36 16 0.24
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.42
Consensus pattern (34 bp):
TGAAATTCTTGCCAAATTAAAGTTCTTGTGAAAC
Found at i:11790447 original size:53 final size:52
Alignment explanation
Indices: 11790364--11790466 Score: 136
Period size: 53 Copynumber: 2.0 Consensus size: 52
11790354 AATTTTTGTA
* **
11790364 AATTTGAAATTCTTGTGAAATTAAATTTCTTGTGAATCTGAAAATTCTTGCC
1 AATTTGAAATTCTTGTGAAATGAAATTTCTTACGAATCTGAAAATTCTTGCC
**
11790416 AATTTGAAAGTTCTTGTGAAACTGAAA-TTCTTACGAATCTTTAAATTCTTG
1 AATTTGAAA-TTCTTGTGAAA-TGAAATTTCTTACGAATCTGAAAATTCTTG
11790467 TGTATATTAG
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
52 9 0.20
53 31 0.70
54 4 0.09
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.42
Consensus pattern (52 bp):
AATTTGAAATTCTTGTGAAATGAAATTTCTTACGAATCTGAAAATTCTTGCC
Found at i:11790569 original size:32 final size:33
Alignment explanation
Indices: 11790528--11790591 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
11790518 AATTTGAAAT
*
11790528 TTTTATGAAT-TAAATTCTTGCAAATCTTTCAA
1 TTTTATGAATCTAAATTCTTACAAATCTTTCAA
* * *
11790560 TTTTGTGAATCTAAGTTCTTACGAATCTTTCA
1 TTTTATGAATCTAAATTCTTACAAATCTTTCA
11790592 TTCTTGCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 9 0.33
33 18 0.67
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.47
Consensus pattern (33 bp):
TTTTATGAATCTAAATTCTTACAAATCTTTCAA
Found at i:11790752 original size:15 final size:15
Alignment explanation
Indices: 11790709--11790755 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
11790699 GAATATGAAA
*
11790709 GTTTTGTGAATTTTT
1 GTTTTGTGAATCTTT
*
11790724 GTGTCTTGTAAATCTTT
1 GT-T-TTGTGAATCTTT
11790741 GTTTTGTGAATCTTT
1 GTTTTGTGAATCTTT
11790756 AAATTCTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 13 0.48
16 2 0.07
17 12 0.44
ACGTcount: A:0.15, C:0.06, G:0.19, T:0.60
Consensus pattern (15 bp):
GTTTTGTGAATCTTT
Found at i:11790786 original size:18 final size:19
Alignment explanation
Indices: 11790744--11790796 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 19
11790734 AATCTTTGTT
*
11790744 TTGTGAATCTTT-AAATTC
1 TTGTGAATCTTTGAAATCC
*
11790762 TTATGAATCTTTGAAA-CC
1 TTGTGAATCTTTGAAATCC
*
11790780 TTGTGAAACTTTGAAAT
1 TTGTGAATCTTTGAAAT
11790797 TTTGCAAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 26 0.90
19 3 0.10
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.43
Consensus pattern (19 bp):
TTGTGAATCTTTGAAATCC
Found at i:11791098 original size:6 final size:6
Alignment explanation
Indices: 11791074--11791142 Score: 57
Period size: 6 Copynumber: 11.2 Consensus size: 6
11791064 AAAAGGCCAC
* * * * * *
11791074 AATTTT AATGTT GATTTT AATTTT AATTTA AAATTT GATTCTT GGATTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATT-TT -AATTTT
*
11791124 AATTTT AATTTT AAATTT A
1 AATTTT AATTTT AATTTT A
11791143 GTCAAAGTTG
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
6 42 0.84
7 4 0.08
8 4 0.08
ACGTcount: A:0.33, C:0.01, G:0.07, T:0.58
Consensus pattern (6 bp):
AATTTT
Found at i:11792241 original size:13 final size:12
Alignment explanation
Indices: 11792223--11792264 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
11792213 CAGAGTGCAG
11792223 ATTTTTCTTTTTT
1 ATTTTT-TTTTTT
*
11792236 A-TTTTTATTTT
1 ATTTTTTTTTTT
11792247 ATTTTTTTTTGTT
1 ATTTTTTTTT-TT
11792260 ATTTT
1 ATTTT
11792265 CATTTTCTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 6 0.24
12 11 0.44
13 8 0.32
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.83
Consensus pattern (12 bp):
ATTTTTTTTTTT
Found at i:11792251 original size:18 final size:18
Alignment explanation
Indices: 11792225--11792270 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
11792215 GAGTGCAGAT
*
11792225 TTTTCTTTTTTATTT-TTA
1 TTTTATTTTTT-TTTGTTA
11792243 TTTTATTTTTTTTTGTTA
1 TTTTATTTTTTTTTGTTA
11792261 TTTTCATTTT
1 TTTT-ATTTT
11792271 CTGCTATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 3 0.12
18 17 0.68
19 5 0.20
ACGTcount: A:0.11, C:0.04, G:0.02, T:0.83
Consensus pattern (18 bp):
TTTTATTTTTTTTTGTTA
Found at i:11792261 original size:24 final size:24
Alignment explanation
Indices: 11792223--11792270 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
11792213 CAGAGTGCAG
*
11792223 ATTTTTCTTTTTTATTTTTATTTT
1 ATTTTTCTTTTTTATTTTCATTTT
11792247 ATTTTT-TTTTGTTATTTTCATTTT
1 ATTTTTCTTTT-TTATTTTCATTTT
11792271 CTGCTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.12, C:0.04, G:0.02, T:0.81
Consensus pattern (24 bp):
ATTTTTCTTTTTTATTTTCATTTT
Found at i:11792391 original size:20 final size:22
Alignment explanation
Indices: 11792353--11792397 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
11792343 GATGTTTTTA
*
11792353 TTTATTTAATTTTGAATGAT-T
1 TTTAATTAATTTTGAATGATAT
*
11792374 TTTAATTAA-TTTGCATGATAT
1 TTTAATTAATTTTGAATGATAT
11792395 TTT
1 TTT
11792398 TATCTTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.29, C:0.02, G:0.09, T:0.60
Consensus pattern (22 bp):
TTTAATTAATTTTGAATGATAT
Found at i:11792434 original size:20 final size:20
Alignment explanation
Indices: 11792409--11792475 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
11792399 ATCTTAATTA
*
11792409 TATGATATATTATATTATTT
1 TATGATATATTATATTATTG
11792429 TATGAT-TA-TATTATTATTG
1 TATGATATATTA-TATTATTG
* *
11792448 CATGATATATTATATTAGTG
1 TATGATATATTATATTATTG
11792468 TATGATAT
1 TATGATAT
11792476 TATTTTGCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
18 2 0.05
19 14 0.35
20 22 0.55
21 2 0.05
ACGTcount: A:0.34, C:0.01, G:0.10, T:0.54
Consensus pattern (20 bp):
TATGATATATTATATTATTG
Found at i:11792445 original size:19 final size:18
Alignment explanation
Indices: 11792410--11792489 Score: 60
Period size: 18 Copynumber: 4.3 Consensus size: 18
11792400 TCTTAATTAT
**
11792410 ATGATATATTATATTATTTT
1 ATGATATA-T-TATTATTGC
11792430 ATGATTATATTATTATTGC
1 ATGA-TATATTATTATTGC
11792449 ATGATATATTA-TATT--
1 ATGATATATTATTATTGC
11792464 AGTGTATGATATTATT-TTGC
1 A-TG-AT-ATATTATTATTGC
11792484 ATGATA
1 ATGATA
11792490 ATTTTTGCTT
Statistics
Matches: 51, Mismatches: 2, Indels: 17
0.73 0.03 0.24
Matches are distributed among these distances:
15 1 0.02
16 2 0.04
17 7 0.14
18 17 0.33
19 14 0.27
20 6 0.12
21 4 0.08
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (18 bp):
ATGATATATTATTATTGC
Found at i:11792456 original size:39 final size:35
Alignment explanation
Indices: 11792410--11792489 Score: 106
Period size: 39 Copynumber: 2.2 Consensus size: 35
11792400 TCTTAATTAT
* *
11792410 ATGATATATTATATTATTTTATGATTATATTATTATTGC
1 ATGATATATTATATTAGTGTATG---ATATTATT-TTGC
11792449 ATGATATATTATATTAGTGTATGATATTATTTTGC
1 ATGATATATTATATTAGTGTATGATATTATTTTGC
11792484 ATGATA
1 ATGATA
11792490 ATTTTTGCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
35 10 0.26
36 8 0.21
39 21 0.54
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (35 bp):
ATGATATATTATATTAGTGTATGATATTATTTTGC
Found at i:11792497 original size:14 final size:14
Alignment explanation
Indices: 11792478--11792510 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
11792468 TATGATATTA
11792478 TTTTGCATGATAAT
1 TTTTGCATGATAAT
*
11792492 TTTTGCTTGATAAT
1 TTTTGCATGATAAT
11792506 TTTTG
1 TTTTG
11792511 TTTATTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.06, G:0.15, T:0.58
Consensus pattern (14 bp):
TTTTGCATGATAAT
Found at i:11792777 original size:21 final size:19
Alignment explanation
Indices: 11792724--11792767 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
11792714 AAGATATTTC
11792724 TAAAAATAAATTATTTTTA
1 TAAAAATAAATTATTTTTA
11792743 TAAAAATAAATTATTTTTA
1 TAAAAATAAATTATTTTTA
11792762 TAAAAA
1 TAAAAA
11792768 AATAGATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TAAAAATAAATTATTTTTA
Found at i:11793998 original size:20 final size:19
Alignment explanation
Indices: 11793944--11793999 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
11793934 TGTGAGGTTT
11793944 TATAATTTTTCGAAAATAA
1 TATAATTTTTCGAAAATAA
* *
11793963 AATAAATTTTT-GAAAAGTTA
1 TAT-AATTTTTCGAAAA-TAA
*
11793983 TATAATTTTTCAAAAAT
1 TATAATTTTTCGAAAAT
11794000 GGATTTTTCG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (19 bp):
TATAATTTTTCGAAAATAA
Found at i:11793999 original size:34 final size:34
Alignment explanation
Indices: 11793961--11794053 Score: 102
Period size: 34 Copynumber: 2.7 Consensus size: 34
11793951 TTTCGAAAAT
*
11793961 AAAATAAATTTTTGAAAAGTTATATAA-TTTTTCA
1 AAAATGAATTTTTGAAAAGTTATATAACTTTTT-A
* *
11793995 AAAATGGATTTTTCG-AAAGTTATA-AACCTTTTTG
1 AAAATGAATTTTT-GAAAAGTTATATAA-CTTTTTA
*
11794029 AAAATGAATTTTTGAAAAGTCATAT
1 AAAATGAATTTTTGAAAAGTTATAT
11794054 GGTTGGATGG
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
33 3 0.06
34 40 0.82
35 6 0.12
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (34 bp):
AAAATGAATTTTTGAAAAGTTATATAACTTTTTA
Found at i:11794923 original size:682 final size:672
Alignment explanation
Indices: 11793710--11795066 Score: 1941
Period size: 682 Copynumber: 2.0 Consensus size: 672
11793700 TATATAAACA
*
11793710 TGTAAACTTGCAACAAAGTTGGTACATTTTTTTAATTATTATAAAGCCAGTTATGAAGAAGAGAA
1 TGTAAACTTGCAACAAAGTTGGTACATTTTTTTAATTATTATAAAGCCAGCTATGAAGAAGAGAA
* *
11793775 GATAGAAAGTATGGGCAATTTGGATTTTAAACTATGCATCACAAAATAATAGACCCAAAAATTTT
66 GACAGAAAGTATGGGCAATTTAGATTTTAAACTATGCATCACAAAATAATAGACCCAAAAATTTT
* * *
11793840 AGATGAGCTAAATGCATCTTATTTTTTCTGTTCATATTCTATTTTTTTTTAATTTTTTGTAAGTG
131 AGATGAGCTAAATGCATCCTATTTTTTCTGTTCATATTCTATTTTTTTTTAAATTTTTGTAAATG
* *
11793905 AAATTATTTAATTATCCTTCTAACAACTTTGTGAGGTTTTATAATTTTTCGAAAATAAAATAAAT
196 AAATTATTTAATTATCCTTCTAACAACTTTATGAAGTTTTATAATTTTTCG---A-AAAATAAAT
** * * * * * *
11793970 TTTTGAAAAGTTATATAATTTTTCAAAAATGGATTTTTCGAAAGTTATAAACCTTTTTGAAAATG
257 TTTCAAAAAGTCAAATAATTTTCCAAAAATAGATTTATCGAAAGTTATAAACCTATTTGAAAATG
** * * *
11794035 AATTTTTGAAAAGTCATATGGTTGGATGGTGATTCCTTAAATTATAAATAATACTATTTATAATA
322 AAAATTTGAAAAGTCATATGGCTGGATGGTGATTCCTTAAATTATAAATAATAATATTTATAACA
* * * * * * *
11794100 GTGATGGTGATTCTTTAAATTTATATTTAGCAATAAGTCTGTAGATCTACACGTTATGACATATG
387 GTGATGATGATTCTTTAAATTCATATTTAACAATAAGTCTATAAATCTACACATTATAACATATG
* ** * *
11794165 GTATACTTATTTCAAGGTAATCTTTGTTGACAGATTTTTTTCCTTTGATGAAATAATACACTATA
452 GTACACTTATTTCAAGGTAATCTTCATTAACAGATTTTTTTCCTTTGATGAAATAATACACTACA
* *
11794230 GTTTTTATTTTTGTTTTTACTTTTGTCATTGGGTTTTAGGTTTCATATATACGTTTTATTTGAAG
517 GTTTATATTTTTGTTTTTACTTTTGTCA-T---TTTTAGGTTTCATATATAAGTTTTATTTGAAG
* *
11794295 AGATTTCTTAGTGCTTAAATTTTTTTCCTTAACAATTTCTATTTTTTTGTTGTTGTAGGTTTGTA
578 AGATTTCTTAGTGCGTAAATTTTTTTCCTTAACAATTTCTATTTTTTTG--GTTATAGGTTTGTA
*
11794360 ATTGCTGATAATGAAAGGTCAAAATTTGAATT
641 ATTGCTGACAATGAAAGGTCAAAATTTGAATT
* *
11794392 TGTAAACTTGCAACAAAGTTGGTGCA-TTTTTTAATTATTATAAAGCTAGCTATGAAGAAGAGAA
1 TGTAAACTTGCAACAAAGTTGGTACATTTTTTTAATTATTATAAAGCCAGCTATGAAGAAGAGAA
11794456 GACAGAAAGTATGGGCAATTTAGATTTTAAACTATGCATCACAAAATAATAGACCCAAAAATCTT
66 GACAGAAAGTATGGGCAATTTAGATTTTAAACTATGCATCACAAAATAATAGACCCAAAAAT-TT
*
11794521 TAG-TAGAGCTAAATGCATCCCTATTTTTTTTTGTTCATATTCTAATTTTTTTTTAAATTTTTGT
130 TAGAT-GAGCTAAATGCAT-CCTA-TTTTTTCTGTTCATATTCT-ATTTTTTTTTAAATTTTTGT
* * * * *
11794585 AAATGAAATTATTTAATTTTTCTTTTCACAACTTTATGAAGTTTTATAACTTTTT-G-AAAATGA
191 AAATGAAATTATTTAATTATCCTTCTAACAACTTTATGAAGTTTTATAA-TTTTTCGAAAAATAA
11794648 ATTTTCAAAAAGTCAAATAATTTTCCAAAAATAGATTTAT-GAAAAGTTATAAACCTATTTGAAA
255 ATTTTCAAAAAGTCAAATAATTTTCCAAAAATAGATTTATCG-AAAGTTATAAACCTATTTGAAA
*
11794712 ATGAAAATTTGAAAAGTCATATATGGCTGGGTGGTGATTCCTTAAATTATAAATAATAATATTTA
319 ATGAAAATTTGAAAAGTC--ATATGGCTGGATGGTGATTCCTTAAATTATAAATAATAATATTTA
* * * * * * *
11794777 TAACATTGATGATGATTTTTTAAATTCATGTTTAACGATAAGTCTATAAATTTATACATTATAAT
382 TAACAGTGATGATGATTCTTTAAATTCATATTTAACAATAAGTCTATAAATCTACACATTATAAC
* ** ** *
11794842 ATGTGGTACACTTATTTTGAGGTAATCTTCATTAATGGATTTTTTTCCTTTGATGAAATAATATA
447 ATATGGTACACTTATTTCAAGGTAATCTTCATTAACAGATTTTTTTCCTTTGATGAAATAATACA
11794907 CTACAGTTTATATTTTTGTTTTTACTTTTGTCATTTTTAGGTTTCATATATAAGTTTTATTTGAA
512 CTACAGTTTATATTTTTGTTTTTACTTTTGTCATTTTTAGGTTTCATATATAAGTTTTATTTGAA
* *
11794972 GAGATTTTTTAGTGCGTAAATTTTTTTCCTTAACAATTTCTATTTTTTTGGTTATAGGTTTGTAT
577 GAGATTTCTTAGTGCGTAAATTTTTTTCCTTAACAATTTCTATTTTTTTGGTTATAGGTTTGTAA
*
11795037 TTGCTGACAATGAAAGGTTAAAATTTGAAT
642 TTGCTGACAATGAAAGGTCAAAATTTGAAT
11795067 AAATAATAAT
Statistics
Matches: 603, Mismatches: 63, Indels: 24
0.87 0.09 0.03
Matches are distributed among these distances:
676 41 0.07
678 78 0.13
679 1 0.00
680 76 0.13
681 98 0.16
682 221 0.37
683 3 0.00
684 18 0.03
685 62 0.10
686 5 0.01
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.44
Consensus pattern (672 bp):
TGTAAACTTGCAACAAAGTTGGTACATTTTTTTAATTATTATAAAGCCAGCTATGAAGAAGAGAA
GACAGAAAGTATGGGCAATTTAGATTTTAAACTATGCATCACAAAATAATAGACCCAAAAATTTT
AGATGAGCTAAATGCATCCTATTTTTTCTGTTCATATTCTATTTTTTTTTAAATTTTTGTAAATG
AAATTATTTAATTATCCTTCTAACAACTTTATGAAGTTTTATAATTTTTCGAAAAATAAATTTTC
AAAAAGTCAAATAATTTTCCAAAAATAGATTTATCGAAAGTTATAAACCTATTTGAAAATGAAAA
TTTGAAAAGTCATATGGCTGGATGGTGATTCCTTAAATTATAAATAATAATATTTATAACAGTGA
TGATGATTCTTTAAATTCATATTTAACAATAAGTCTATAAATCTACACATTATAACATATGGTAC
ACTTATTTCAAGGTAATCTTCATTAACAGATTTTTTTCCTTTGATGAAATAATACACTACAGTTT
ATATTTTTGTTTTTACTTTTGTCATTTTTAGGTTTCATATATAAGTTTTATTTGAAGAGATTTCT
TAGTGCGTAAATTTTTTTCCTTAACAATTTCTATTTTTTTGGTTATAGGTTTGTAATTGCTGACA
ATGAAAGGTCAAAATTTGAATT
Found at i:11795660 original size:23 final size:22
Alignment explanation
Indices: 11795616--11795676 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 22
11795606 TTTTATTATT
11795616 TTAATTTTTTTATAAATTTAAAA
1 TTAATTTTTTTATAAA-TTAAAA
*
11795639 TTAATATTTTT-T-AA-T-AAA
1 TTAATTTTTTTATAAATTAAAA
*
11795657 TAAATTTTTTGTATAAATTA
1 TTAATTTTTT-TATAAATTA
11795677 TTAAAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
18 11 0.37
19 2 0.07
20 1 0.03
21 4 0.13
22 2 0.07
23 10 0.33
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TTAATTTTTTTATAAATTAAAA
Found at i:11796584 original size:20 final size:21
Alignment explanation
Indices: 11796547--11796585 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11796537 TTTTCTTTTT
* *
11796547 TTTTTTTTTTAGATATCTTCG
1 TTTTTTCTTTAGAAATCTTCG
11796568 TTTTTTCTTT-GAAATCTT
1 TTTTTTCTTTAGAAATCTT
11796586 AGAAGTTGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.15, C:0.10, G:0.08, T:0.67
Consensus pattern (21 bp):
TTTTTTCTTTAGAAATCTTCG
Found at i:11797251 original size:2 final size:2
Alignment explanation
Indices: 11797244--11797288 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
11797234 AAGCAAGAAG
11797244 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
11797286 GA G
1 GA G
11797289 TAGATCTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:11798647 original size:11 final size:11
Alignment explanation
Indices: 11798631--11798690 Score: 50
Period size: 11 Copynumber: 5.1 Consensus size: 11
11798621 GTAATATTAG
11798631 ATTTAAATTTA
1 ATTTAAATTTA
*
11798642 ATTTAAAAATTGA
1 ATTT--AAATTTA
11798655 TATTTAAAATTTA
1 -ATTT-AAATTTA
*
11798668 ATTTGAATTTA
1 ATTTAAATTTA
11798679 A-TTAAATATTA
1 ATTTAAAT-TTA
11798690 A
1 A
11798691 AATTTTAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
10 5 0.12
11 15 0.37
12 4 0.10
13 13 0.32
14 4 0.10
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (11 bp):
ATTTAAATTTA
Found at i:11798698 original size:30 final size:30
Alignment explanation
Indices: 11798658--11798714 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
11798648 AAATTGATAT
11798658 TTAAAATTTAATTTGAAT-TTAATTAAATA
1 TTAAAATTTAATTTGAATATTAATTAAATA
*
11798687 TTAAAATTTTAATTTGAATATTATTTAA
1 TTAAAA-TTTAATTTGAATATTAATTAA
11798715 GATAAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 6 0.24
30 12 0.48
31 7 0.28
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (30 bp):
TTAAAATTTAATTTGAATATTAATTAAATA
Found at i:11798720 original size:29 final size:29
Alignment explanation
Indices: 11798658--11798729 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
11798648 AAATTGATAT
*
11798658 TTAAAATTTAATTTGAATTTAATTAAATA
1 TTAAAATTTAATTTGAATTTAATTAAAGA
*
11798687 TTAAAATTTTAATTTGAATATT-ATTTAAGA
1 TTAAAA-TTTAATTTGAAT-TTAATTAAAGA
* *
11798717 TAAAAATTAAATT
1 TTAAAATTTAATT
11798730 ATTTAAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 12 0.32
30 23 0.62
31 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (29 bp):
TTAAAATTTAATTTGAATTTAATTAAAGA
Found at i:11798958 original size:38 final size:37
Alignment explanation
Indices: 11798905--11798994 Score: 110
Period size: 38 Copynumber: 2.4 Consensus size: 37
11798895 ATATAAAAAT
* * *
11798905 ATTTAAATTTGATTTGATTAATAAATTAAATT-ATTTTA
1 ATTTTAATTTAATTTGA-TAAT-AATTAAATTAATTTAA
11798943 ATTTTAATTTAATTTGATAATAATTAAATTAAATTTAA
1 ATTTTAATTTAATTTGATAATAATTAAATT-AATTTAA
*
11798981 ATTTTATTTTAATT
1 ATTTTAATTTAATT
11798995 AAATTTAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
36 9 0.20
37 4 0.09
38 33 0.72
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.54
Consensus pattern (37 bp):
ATTTTAATTTAATTTGATAATAATTAAATTAATTTAA
Found at i:11799000 original size:11 final size:11
Alignment explanation
Indices: 11798966--11799004 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
11798956 TTGATAATAA
11798966 TTAAATTAAAT
1 TTAAATTAAAT
**
11798977 TTAAATTTTAT
1 TTAAATTAAAT
*
11798988 TTTAATTAAAT
1 TTAAATTAAAT
11798999 TTAAAT
1 TTAAAT
11799005 AATTTATAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:11811312 original size:21 final size:22
Alignment explanation
Indices: 11811288--11811329 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
11811278 AATTTCAATA
*
11811288 TTTAAACATTGA-AAAAAAAAT
1 TTTAAACATTCACAAAAAAAAT
*
11811309 TTTAAACTTTCACAAAAAAAA
1 TTTAAACATTCACAAAAAAAA
11811330 AATTTCTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.60, C:0.10, G:0.02, T:0.29
Consensus pattern (22 bp):
TTTAAACATTCACAAAAAAAAT
Found at i:11811544 original size:14 final size:15
Alignment explanation
Indices: 11811525--11811567 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 15
11811515 ATAATCAAAA
11811525 CATGCAAAATAAA-T
1 CATGCAAAATAAAGT
11811539 CATGCAAATATAAAAGT
1 CATGCAAA-AT-AAAGT
11811556 CATGCCAAAATA
1 CATG-CAAAATA
11811568 TTATATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 8 0.32
15 2 0.08
16 4 0.16
17 7 0.28
18 4 0.16
ACGTcount: A:0.53, C:0.16, G:0.09, T:0.21
Consensus pattern (15 bp):
CATGCAAAATAAAGT
Found at i:11811606 original size:13 final size:13
Alignment explanation
Indices: 11811585--11811650 Score: 66
Period size: 13 Copynumber: 5.2 Consensus size: 13
11811575 AAAATCATAC
11811585 AAAAA-ATCATGT
1 AAAAATATCATGT
*
11811597 AAAGATATCATGT
1 AAAAATATCATGT
11811610 AATAAATATCA--T
1 AA-AAATATCATGT
* *
11811622 AAAAACATCATGC
1 AAAAATATCATGT
*
11811635 AAAAATATTATGT
1 AAAAATATCATGT
11811648 AAA
1 AAA
11811651 GAAATCATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
11 7 0.16
12 7 0.16
13 22 0.51
14 7 0.16
ACGTcount: A:0.56, C:0.09, G:0.08, T:0.27
Consensus pattern (13 bp):
AAAAATATCATGT
Found at i:11811606 original size:25 final size:26
Alignment explanation
Indices: 11811576--11811659 Score: 77
Period size: 25 Copynumber: 3.3 Consensus size: 26
11811566 TATTATATAA
11811576 AAATCATACAAAAA-ATCATGTAAAG
1 AAATCATACAAAAATATCATGTAAAG
* **
11811601 ATATCATGTAATAAATATCA--TAAA-
1 AAATCATACAA-AAATATCATGTAAAG
* *
11811625 AACATCATGCAAAAATATTATGTAAAG
1 AA-ATCATACAAAAATATCATGTAAAG
11811652 AAATCATA
1 AAATCATA
11811660 ATCATGCAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
24 8 0.17
25 20 0.43
26 12 0.26
27 6 0.13
ACGTcount: A:0.56, C:0.11, G:0.07, T:0.26
Consensus pattern (26 bp):
AAATCATACAAAAATATCATGTAAAG
Found at i:11811648 original size:38 final size:39
Alignment explanation
Indices: 11811550--11811659 Score: 113
Period size: 38 Copynumber: 2.9 Consensus size: 39
11811540 ATGCAAATAT
* *
11811550 AAAAGTCATGCCAAAATATTA--T-ATAAAAATCATACA
1 AAAAATCATGCAAAAATATTATGTAATAAAAATCATACA
* * * *
11811586 AAAAATCATGTAAAGATATCATGTAATAAATATCATA-A
1 AAAAATCATGCAAAAATATTATGTAATAAAAATCATACA
* *
11811624 AAACATCATGCAAAAATATTATGTAA-AGAAATCATA
1 AAAAATCATGCAAAAATATTATGTAATAAAAATCATA
11811660 ATCATGCAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
36 16 0.27
37 8 0.14
38 24 0.41
39 11 0.19
ACGTcount: A:0.55, C:0.11, G:0.07, T:0.26
Consensus pattern (39 bp):
AAAAATCATGCAAAAATATTATGTAATAAAAATCATACA
Found at i:11811883 original size:7 final size:7
Alignment explanation
Indices: 11811870--11811943 Score: 53
Period size: 7 Copynumber: 9.7 Consensus size: 7
11811860 ATTACAATTA
11811870 AAAATAAT
1 AAAA-AAT
11811878 AAATAAAT
1 AAA-AAAT
11811886 AAAAAAT
1 AAAAAAT
11811893 AAAAAAT
1 AAAAAAT
11811900 AGAAAAAAAT
1 ---AAAAAAT
11811910 AAAACAA-
1 AAAA-AAT
*
11811917 AATAAAGT
1 AA-AAAAT
11811925 CAAAAAAT
1 -AAAAAAT
11811933 -AAAAAT
1 AAAAAAT
11811939 AAAAA
1 AAAAA
11811944 CTTACAATCG
Statistics
Matches: 55, Mismatches: 2, Indels: 19
0.72 0.03 0.25
Matches are distributed among these distances:
6 6 0.11
7 22 0.40
8 17 0.31
9 3 0.05
10 7 0.13
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.15
Consensus pattern (7 bp):
AAAAAAT
Found at i:11811892 original size:18 final size:17
Alignment explanation
Indices: 11811869--11811913 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
11811859 AATTACAATT
*
11811869 AAAAATAATAAATAAATA
1 AAAAATAAAAAATAAA-A
*
11811887 AAAAATAAAAAATAGAA
1 AAAAATAAAAAATAAAA
11811904 AAAAATAAAA
1 AAAAATAAAA
11811914 CAAAATAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (17 bp):
AAAAATAAAAAATAAAA
Found at i:11811909 original size:24 final size:24
Alignment explanation
Indices: 11811869--11811943 Score: 68
Period size: 23 Copynumber: 3.2 Consensus size: 24
11811859 AATTACAATT
11811869 AAAAATA-ATAAATAAATAAAAAATA
1 AAAAATAGA-AAA-AAATAAAAAATA
*
11811894 AAAAATAGAAAAAAATAAAACA-A
1 AAAAATAGAAAAAAATAAAAAATA
* *
11811917 AATAA-AGTCAAAAAAT-AAAAATA
1 AAAAATAG-AAAAAAATAAAAAATA
11811940 AAAA
1 AAAA
11811944 CTTACAATCG
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
22 6 0.14
23 16 0.38
24 9 0.21
25 10 0.24
26 1 0.02
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.15
Consensus pattern (24 bp):
AAAAATAGAAAAAAATAAAAAATA
Found at i:11814761 original size:44 final size:45
Alignment explanation
Indices: 11814688--11814788 Score: 107
Period size: 45 Copynumber: 2.3 Consensus size: 45
11814678 TGCCAATCCT
* * * *
11814688 AATAATCAAATAAATTAGTACAC-ATAAAAAGTCA-AAATCTACAA
1 AATAAACAAATAAATTAATACACAAAAAAAAATCATAAAT-TACAA
* * *
11814732 AATAAACAAATAAATTAATATATAAAAAAAAATCATAAGTTACAA
1 AATAAACAAATAAATTAATACACAAAAAAAAATCATAAATTACAA
*
11814777 AACAAACAAATA
1 AATAAACAAATA
11814789 GGTTACTACC
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
44 19 0.40
45 25 0.53
46 3 0.06
ACGTcount: A:0.64, C:0.11, G:0.03, T:0.22
Consensus pattern (45 bp):
AATAAACAAATAAATTAATACACAAAAAAAAATCATAAATTACAA
Found at i:11815499 original size:25 final size:24
Alignment explanation
Indices: 11815466--11815563 Score: 92
Period size: 25 Copynumber: 4.0 Consensus size: 24
11815456 AATCAAGCAA
* *
11815466 ATATAAAAAGTCATGCCAAAATATT
1 ATATAAAAA-TCATGCAAAAATATC
*
11815491 ATATAAAAATCATACAAAAA-ATC
1 ATATAAAAATCATGCAAAAATATC
*
11815514 ATACAAAGATATCATGCAATAAATATC
1 ATATAAA-A-ATCATGCAA-AAATATC
*
11815541 ATA-AAAATGTCATGCAAAAATAT
1 ATATAAAA-ATCATGCAAAAATAT
11815564 TATGCAAAGA
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
23 8 0.13
24 16 0.25
25 27 0.43
26 6 0.10
27 6 0.10
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.26
Consensus pattern (24 bp):
ATATAAAAATCATGCAAAAATATC
Found at i:11815561 original size:13 final size:13
Alignment explanation
Indices: 11815495--11815580 Score: 74
Period size: 13 Copynumber: 6.8 Consensus size: 13
11815485 AATATTATAT
*
11815495 AAAA-ATCATACA
1 AAAATATCATGCA
*
11815507 AAAA-ATCATACA
1 AAAATATCATGCA
*
11815519 AAGATATCATGCA
1 AAAATATCATGCA
11815532 ATAAATATCAT--A
1 A-AAATATCATGCA
*
11815544 AAAATGTCATGCA
1 AAAATATCATGCA
*
11815557 AAAATATTATGCA
1 AAAATATCATGCA
11815570 AAGAA-ATCATG
1 AA-AATATCATG
11815581 ATCATGGAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
11 8 0.13
12 17 0.27
13 27 0.44
14 10 0.16
ACGTcount: A:0.56, C:0.13, G:0.08, T:0.23
Consensus pattern (13 bp):
AAAATATCATGCA
Found at i:11815756 original size:25 final size:24
Alignment explanation
Indices: 11815699--11815757 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 24
11815689 GCAAAAATAT
11815699 TATAAAAAAATATGCAAATAAAAA
1 TATAAAAAAATATGCAAATAAAAA
*
11815723 TCATAAAAAAAATAATGCGAAAT-AAAC
1 T-AT-AAAAAAAT-ATGC-AAATAAAAA
11815750 TATAAAAA
1 TATAAAAA
11815758 TCTTACCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
24 1 0.03
25 7 0.23
26 10 0.33
27 8 0.27
28 4 0.13
ACGTcount: A:0.68, C:0.07, G:0.05, T:0.20
Consensus pattern (24 bp):
TATAAAAAAATATGCAAATAAAAA
Found at i:11815860 original size:16 final size:16
Alignment explanation
Indices: 11815841--11815886 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
11815831 AAATAACAAA
*
11815841 AAATATAAAATTAAAG
1 AAATATAAAATTAAAC
* *
11815857 AAATAAAAAATAAAAC
1 AAATATAAAATTAAAC
11815873 AAA-ATAAAATTAAA
1 AAATATAAAATTAAA
11815887 ATAAAAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 9 0.36
16 16 0.64
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (16 bp):
AAATATAAAATTAAAC
Found at i:11815887 original size:16 final size:15
Alignment explanation
Indices: 11815838--11815903 Score: 59
Period size: 15 Copynumber: 4.5 Consensus size: 15
11815828 AATAAATAAC
*
11815838 AAAAAATATAAAATT
1 AAAAAAAATAAAATT
11815853 AAAGAAATAA-AAAA-T
1 AAA-AAA-AATAAAATT
11815868 AAAACAAAATAAAATT
1 AAAA-AAAATAAAATT
*
11815884 AAAATAAA-AAAA-T
1 AAAAAAAATAAAATT
11815897 AAAAAAA
1 AAAAAAA
11815904 GAAAAGAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
13 7 0.16
14 7 0.16
15 16 0.37
16 12 0.28
17 1 0.02
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.17
Consensus pattern (15 bp):
AAAAAAAATAAAATT
Found at i:11815908 original size:16 final size:16
Alignment explanation
Indices: 11815838--11815908 Score: 54
Period size: 16 Copynumber: 4.2 Consensus size: 16
11815828 AATAAATAAC
* *
11815838 AAAAAATATAAAATTA
1 AAAAAATAAAAAAATA
*
11815854 AAGAAAT-AAAAAATAA
1 AAAAAATAAAAAAAT-A
11815870 AACAAAATAAAATTAAAATA
1 AA-AAAAT-AAA--AAAATA
*
11815890 AAAAAATAAAAAAAGA
1 AAAAAATAAAAAAATA
11815906 AAA
1 AAA
11815909 GAAAAAGGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
15 5 0.11
16 17 0.39
17 4 0.09
18 3 0.07
19 7 0.16
20 3 0.07
21 5 0.11
ACGTcount: A:0.80, C:0.01, G:0.03, T:0.15
Consensus pattern (16 bp):
AAAAAATAAAAAAATA
Found at i:11815914 original size:27 final size:27
Alignment explanation
Indices: 11815857--11815924 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 27
11815847 AAAATTAAAG
* **
11815857 AAATAAAAAATAAAACAAAATAAAATTA
1 AAATAAAAAAT-AAACAAAAGAAAAGAA
11815885 AAATAAAAAAATAAA-AAAAGAAAAGAA
1 AAAT-AAAAAATAAACAAAAGAAAAGAA
*
11815912 AAAGGAAAAAATA
1 AAA-TAAAAAATA
11815925 CGACAGAGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
27 20 0.59
28 7 0.21
29 7 0.21
ACGTcount: A:0.81, C:0.01, G:0.06, T:0.12
Consensus pattern (27 bp):
AAATAAAAAATAAACAAAAGAAAAGAA
Found at i:11816229 original size:31 final size:31
Alignment explanation
Indices: 11816192--11816260 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
11816182 TAACCACCAC
11816192 CTGCAAATTCAAAAAACCTAGAAATTGGCCA
1 CTGCAAATTCAAAAAACCTAGAAATTGGCCA
*
11816223 TTGCAAATTCAAAAAACCTAGAAATTGGCCA
1 CTGCAAATTCAAAAAACCTAGAAATTGGCCA
11816254 CTGCAAA
1 CTGCAAA
11816261 ATCCATCGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.45, C:0.22, G:0.13, T:0.20
Consensus pattern (31 bp):
CTGCAAATTCAAAAAACCTAGAAATTGGCCA
Found at i:11818007 original size:35 final size:33
Alignment explanation
Indices: 11817947--11818011 Score: 85
Period size: 35 Copynumber: 1.9 Consensus size: 33
11817937 ATTCAATCAA
** *
11817947 TTATTTAATTTTTAAAAGTTTTAAAATTTACAT
1 TTATTTAATTTTTAAAAAATATAAAATTTACAT
11817980 TTATTTAAATATTTTAAAAAATATAAAATTTA
1 TTATTT-AAT-TTTTAAAAAATATAAAATTTA
11818012 TTCTAATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 6 0.22
34 3 0.11
35 18 0.67
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (33 bp):
TTATTTAATTTTTAAAAAATATAAAATTTACAT
Found at i:11818077 original size:22 final size:23
Alignment explanation
Indices: 11818026--11818078 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
11818016 AATTTAAACC
* *
11818026 TAAAAATTAATATAAATTAAAAT
1 TAAAAATTAATAAAAAATAAAAT
* *
11818049 TATAAATT-ATAAAAAATATAAT
1 TAAAAATTAATAAAAAATAAAAT
11818071 TAAAAATT
1 TAAAAATT
11818079 CCGTGCATGC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
TAAAAATTAATAAAAAATAAAAT
Found at i:11818782 original size:17 final size:17
Alignment explanation
Indices: 11818744--11818779 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11818734 ATATTCAAAG
*
11818744 AATTTTTTAATAATAAT
1 AATTTTTTAAAAATAAT
11818761 AATTTTTTAAAAGATAAT
1 AATTTTTTAAAA-ATAAT
11818779 A
1 A
11818780 TTTAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
AATTTTTTAAAAATAAT
Found at i:11818809 original size:15 final size:16
Alignment explanation
Indices: 11818774--11818812 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
11818764 TTTTTAAAAG
11818774 ATAATATTTAATAATTT
1 ATAAT-TTTAATAATTT
11818791 -TAATTTTAA-AATTT
1 ATAATTTTAATAATTT
11818805 ATAATTTT
1 ATAATTTT
11818813 TTTATTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.24
15 12 0.57
16 4 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATAATTTTAATAATTT
Found at i:11819396 original size:26 final size:26
Alignment explanation
Indices: 11819367--11819428 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
11819357 TTATTTTGAC
*
11819367 ATATATATTATAAAAATATTTAA-ATA
1 ATATATATTATAAAAATA-TAAATATA
* * *
11819393 ATATAAATAATTAAAATATAAATATA
1 ATATATATTATAAAAATATAAATATA
11819419 ATATAT-TTAT
1 ATATATATTAT
11819429 TATATATATT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
25 6 0.21
26 23 0.79
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
ATATATATTATAAAAATATAAATATA
Found at i:11819541 original size:19 final size:19
Alignment explanation
Indices: 11819505--11819555 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
11819495 ATACGATAAG
* *
11819505 ATATGATTAA-ATTGATTAT
1 ATATGATTAATA-TAATTAA
11819524 ATATGATTAATATAATTAA
1 ATATGATTAATATAATTAA
* *
11819543 ACATAATTAATAT
1 ATATGATTAATAT
11819556 TAAAATATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 26 0.96
20 1 0.04
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (19 bp):
ATATGATTAATATAATTAA
Found at i:11819588 original size:19 final size:19
Alignment explanation
Indices: 11819547--11819590 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
11819537 AATTAAACAT
*
11819547 AATTAATATTAAAATATTT
1 AATTAATATTAAAATATTA
*
11819566 AATTAATAATTTAAA-ATTA
1 AATTAAT-ATTAAAATATTA
11819585 AATTAA
1 AATTAA
11819591 AATAATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTAATATTAAAATATTA
Found at i:11819611 original size:24 final size:23
Alignment explanation
Indices: 11819537--11819618 Score: 78
Period size: 24 Copynumber: 3.4 Consensus size: 23
11819527 TGATTAATAT
11819537 AATTAAACATAATTAATATT-AAAA
1 AATTAAA-ATAA-TAATATTAAAAA
* * *
11819561 TATTTAATTAATAAT-TTAAAATTA
1 AATTAAAATAATAATATTAAAA--A
11819585 AATTAAAATAATAATATATAAAAA
1 AATTAAAATAATAATAT-TAAAAA
11819609 AATTAAAATA
1 AATTAAAATA
11819619 CAATTATATT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
21 2 0.04
22 7 0.15
23 3 0.06
24 29 0.62
25 1 0.02
26 5 0.11
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (23 bp):
AATTAAAATAATAATATTAAAAA
Found at i:11821928 original size:18 final size:18
Alignment explanation
Indices: 11821907--11821944 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
11821897 TTGTTATTGA
*
11821907 TGATATTGTTTATGTTGT
1 TGATATTATTTATGTTGT
*
11821925 TGATTTTATTTATGTTGT
1 TGATATTATTTATGTTGT
11821943 TG
1 TG
11821945 TTGATTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.21, T:0.63
Consensus pattern (18 bp):
TGATATTATTTATGTTGT
Found at i:11821966 original size:21 final size:21
Alignment explanation
Indices: 11821894--11821967 Score: 89
Period size: 21 Copynumber: 3.5 Consensus size: 21
11821884 AATTGGCTGA
* **
11821894 TTGTTGTTATTGATGATATTG
1 TTGTTGTTGTTGATTTTATTG
11821915 TT-TATGTTGTTGATTTTATT-
1 TTGT-TGTTGTTGATTTTATTG
11821935 TATGTTGTTGTTGATTTTATTG
1 T-TGTTGTTGTTGATTTTATTG
11821957 TTGTTGTTGTT
1 TTGTTGTTGTT
11821968 ACAGTAGTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
20 2 0.04
21 42 0.91
22 2 0.04
ACGTcount: A:0.14, C:0.00, G:0.22, T:0.65
Consensus pattern (21 bp):
TTGTTGTTGTTGATTTTATTG
Found at i:11827464 original size:14 final size:15
Alignment explanation
Indices: 11827445--11827475 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11827435 AACTAAAGGC
11827445 TATATA-AGGTATTT
1 TATATACAGGTATTT
11827459 TATATACAGGTATTT
1 TATATACAGGTATTT
11827474 TA
1 TA
11827476 AGAAGAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.48
Consensus pattern (15 bp):
TATATACAGGTATTT
Found at i:11828250 original size:33 final size:32
Alignment explanation
Indices: 11828205--11828274 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
11828195 AGTTTAATTA
11828205 TTATTTTCTATAATGAGACAAAGCTTATTTACT
1 TTATTTTCTATAATG-GACAAAGCTTATTTACT
* * *
11828238 TTATTTTTTATAATGGATAAAGCTTATTTGCT
1 TTATTTTCTATAATGGACAAAGCTTATTTACT
11828270 TTATT
1 TTATT
11828275 ACTTCTAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 20 0.59
33 14 0.41
ACGTcount: A:0.30, C:0.09, G:0.10, T:0.51
Consensus pattern (32 bp):
TTATTTTCTATAATGGACAAAGCTTATTTACT
Found at i:11828265 original size:32 final size:32
Alignment explanation
Indices: 11828205--11828306 Score: 105
Period size: 33 Copynumber: 3.1 Consensus size: 32
11828195 AGTTTAATTA
* *
11828205 TTATTTTCTATAATGAGACAAAGCTTATTTACT
1 TTATTTTTTATAATG-GATAAAGCTTATTTACT
*
11828238 TTATTTTTTATAATGGATAAAGCTTATTTGCT
1 TTATTTTTTATAATGGATAAAGCTTATTTACT
** * * * *
11828270 TTATTACTTCTAATAGGATAAAACCTATTTTCT
1 TTATTTTTTATAAT-GGATAAAGCTTATTTACT
11828303 TTAT
1 TTAT
11828307 ATAAGAAAAG
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
32 26 0.44
33 33 0.56
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (32 bp):
TTATTTTTTATAATGGATAAAGCTTATTTACT
Found at i:11828503 original size:10 final size:11
Alignment explanation
Indices: 11828472--11828504 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
11828462 CACTAAATCC
*
11828472 ATATTATTTTT
1 ATATCATTTTT
11828483 ATATCATTTTT
1 ATATCATTTTT
11828494 ATATCATTTTT
1 ATATCATTTTT
11828505 GTTTTTCCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (11 bp):
ATATCATTTTT
Found at i:11833724 original size:10 final size:10
Alignment explanation
Indices: 11833709--11833734 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
11833699 TAATAAAATC
11833709 TTAAAATTTA
1 TTAAAATTTA
11833719 TTAAAATTTA
1 TTAAAATTTA
11833729 TTAAAA
1 TTAAAA
11833735 AGATAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TTAAAATTTA
Found at i:11838008 original size:13 final size:13
Alignment explanation
Indices: 11837992--11838040 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
11837982 TATTAAAAAT
*
11837992 TAATATAATTATA
1 TAATATAAATATA
11838005 TAATATAAATATA
1 TAATATAAATATA
11838018 -AAT-TAAA-ATA
1 TAATATAAATATA
11838028 TATATATTAAATA
1 TA-ATA-TAAATA
11838041 CATATTAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
10 3 0.10
11 5 0.17
12 5 0.17
13 12 0.40
14 4 0.13
15 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TAATATAAATATA
Found at i:11838047 original size:25 final size:25
Alignment explanation
Indices: 11838001--11838048 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
11837991 TTAATATAAT
*
11838001 TATATAATATAAATATAAATTAAAA
1 TATATAATATAAATACAAATTAAAA
*
11838026 TATAT-ATATTAAATACATATTAA
1 TATATAATA-TAAATACAAATTAA
11838049 TTGAGTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
TATATAATATAAATACAAATTAAAA
Found at i:11838189 original size:27 final size:29
Alignment explanation
Indices: 11838158--11838219 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
11838148 ATTTATTATT
* *
11838158 TTAATCGTA-TT-CTTATATATATTCGTG
1 TTAATCGTATTTGCTTATATATATTCATA
* *
11838185 TTAATTGTATTTGTTTATATATATTCATA
1 TTAATCGTATTTGCTTATATATATTCATA
11838214 TTAATC
1 TTAATC
11838220 ATATATGTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 8 0.29
28 2 0.07
29 18 0.64
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.55
Consensus pattern (29 bp):
TTAATCGTATTTGCTTATATATATTCATA
Found at i:11838217 original size:29 final size:29
Alignment explanation
Indices: 11838170--11838252 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 29
11838160 AATCGTATTC
* * ** *
11838170 TTATATATATTCGTGTTAATTGTATTTGT
1 TTATATATATTCATATTAATCATATATGT
11838199 TTATATATATTCATATTAATCATATATGT
1 TTATATATATTCATATTAATCATATATGT
** * *
11838228 TTACGTATATTTATATTATTCATAT
1 TTATATATATTCATATTAATCATAT
11838253 TTATTCATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.31, C:0.06, G:0.07, T:0.55
Consensus pattern (29 bp):
TTATATATATTCATATTAATCATATATGT
Found at i:11838359 original size:18 final size:18
Alignment explanation
Indices: 11838328--11838380 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
11838318 TATATCATAT
*
11838328 TTATATTTAAAATTTAAA
1 TTATATTTATAATTTAAA
*
11838346 -TATAATTTATAATTTATA
1 TTAT-ATTTATAATTTAAA
*
11838364 TTATATTTATATTTTAA
1 TTATATTTATAATTTAA
11838381 TAATACATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 3 0.10
18 23 0.79
19 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATATTTATAATTTAAA
Found at i:11838411 original size:7 final size:7
Alignment explanation
Indices: 11838399--11838423 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11838389 ATCATTATAC
11838399 ATATTAA
1 ATATTAA
11838406 ATATTAA
1 ATATTAA
11838413 ATATTAA
1 ATATTAA
11838420 ATAT
1 ATAT
11838424 GATATAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
ATATTAA
Found at i:11840304 original size:22 final size:24
Alignment explanation
Indices: 11840278--11840322 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
11840268 ATCAATTAAC
11840278 TAATT-TTATTTAAA-AT-TATAAT
1 TAATTATT-TTTAAATATATATAAT
11840300 TAATTATTTTTAAATATATATAA
1 TAATTATTTTTAAATATATATAA
11840323 ATAAATCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 11 0.55
23 4 0.20
24 5 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TAATTATTTTTAAATATATATAAT
Found at i:11846969 original size:18 final size:18
Alignment explanation
Indices: 11846948--11846984 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
11846938 CTTTAATGAT
11846948 TATTTTATCATT-TTATTA
1 TATTTTATC-TTATTATTA
11846966 TATTTTATCTTATTATTA
1 TATTTTATCTTATTATTA
11846984 T
1 T
11846985 CATTGCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTTTATCTTATTATTA
Found at i:11847036 original size:21 final size:22
Alignment explanation
Indices: 11847010--11847075 Score: 75
Period size: 21 Copynumber: 3.1 Consensus size: 22
11847000 TAAACACATA
*
11847010 TATTATTATTGA-TTTTAATTT
1 TATTATTATTAATTTTTAATTT
11847031 TATTATTA-TAATTTTTAATTT
1 TATTATTATTAATTTTTAATTT
* **
11847052 TACTATTA-TAATAATTAATTT
1 TATTATTATTAATTTTTAATTT
11847073 TAT
1 TAT
11847076 ATTCATTGCT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 2 0.05
21 37 0.95
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (22 bp):
TATTATTATTAATTTTTAATTT
Found at i:11850863 original size:35 final size:36
Alignment explanation
Indices: 11850802--11850869 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 36
11850792 GAAATACTTA
*
11850802 TAAACTTTGGTTTGAAAAAAATAAAGTATAAAATTT
1 TAAACTTTGGTTTGAAAAAAATAAAGTACAAAATTT
* *
11850838 TAAACTTTTGTTT-TAAAAAATAAAGTACAAAA
1 TAAACTTTGGTTTGAAAAAAATAAAGTACAAAA
11850870 GAAAATAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 17 0.59
36 12 0.41
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.35
Consensus pattern (36 bp):
TAAACTTTGGTTTGAAAAAAATAAAGTACAAAATTT
Found at i:11850891 original size:17 final size:17
Alignment explanation
Indices: 11850851--11850891 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
11850841 ACTTTTGTTT
11850851 TAAAAAATAAAGTACAA
1 TAAAAAATAAAGTACAA
11850868 -AAGAAAAT-AAGTTACAA
1 TAA-AAAATAAAG-TACAA
11850885 TAAAAAA
1 TAAAAAA
11850892 AAGAATTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
16 5 0.24
17 14 0.67
18 2 0.10
ACGTcount: A:0.71, C:0.05, G:0.07, T:0.17
Consensus pattern (17 bp):
TAAAAAATAAAGTACAA
Found at i:11851379 original size:18 final size:17
Alignment explanation
Indices: 11851358--11851391 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
11851348 TTAAAAAAAG
11851358 ATTTTTTTAATAAAATTT
1 ATTTTTTTAA-AAAATTT
11851376 ATTTTTTTAAAAAATT
1 ATTTTTTTAAAAAATT
11851392 ATTATAACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTTTTAAAAAATTT
Found at i:11851388 original size:16 final size:18
Alignment explanation
Indices: 11851358--11851394 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
11851348 TTAAAAAAAG
*
11851358 ATTTTTTTAATAAAATTT
1 ATTTTTTTAATAAAAATT
11851376 ATTTTTTT-A-AAAAATT
1 ATTTTTTTAATAAAAATT
11851392 ATT
1 ATT
11851395 ATAACACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 9 0.50
17 1 0.06
18 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTTTTTAATAAAAATT
Found at i:11851755 original size:27 final size:26
Alignment explanation
Indices: 11851715--11851774 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
11851705 AAATAAAATG
11851715 ATATTATTTAATCTAATCATATTTATA
1 ATATTATTTAATCTAATCATA-TTATA
* * *
11851742 ATATTATTTTATCTTATCCTATTATA
1 ATATTATTTAATCTAATCATATTATA
*
11851768 ATCTTAT
1 ATATTAT
11851775 ATATCAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 11 0.38
27 18 0.62
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (26 bp):
ATATTATTTAATCTAATCATATTATA
Found at i:11862681 original size:163 final size:165
Alignment explanation
Indices: 11862496--11862825 Score: 506
Period size: 163 Copynumber: 2.0 Consensus size: 165
11862486 CAATGCCAAC
* * *
11862496 TTAGAACAGATTATAGATAATACTGAAAAAA-TCTTATTTGGGGTAAAGAAAATAAGCCAGAAAA
1 TTAGAACAGATTATAGATAATACTGAAAAAAGCCAT-TTTGGGGTAAAGAAAATAAGCCAAAAAA
* *
11862560 GG-AAAAAAATGAAGATTAAAAAGACGAGGTGAGGC-AAAAAGAAGGTCAAATTGATAATAACAA
65 GGAAAAAAAATGAAGATTAAAAAGACGAGGTGAGGCAAAAAAAAAGGTCAAATTAATAATAACAA
11862623 ATTGATCATTACAGTGATTAATGTGATCAC-TAGAGG
130 ATTGATCATTACAGTGATTAATGTGATC-CTTAGAGG
*
11862659 TTAGAATAGATTATAGATAATACTGAAAAAAGCCATTTTGGGGTAAAGAAAATAAGCCAAAAAAG
1 TTAGAACAGATTATAGATAATACTGAAAAAAGCCATTTTGGGGTAAAGAAAATAAGCCAAAAAAG
* * *
11862724 GAAAAAAAAATGAAGATTAAGAAGACGGGGTGAGGCAAAAAAAAAAGGTCAAATTAATAATAATA
66 G-AAAAAAAATGAAGATTAAAAAGACGAGGTGAGGC-AAAAAAAAAGGTCAAATTAATAATAACA
*
11862789 AATTGATCGTTACAGTGATTAATGTGATCCTTAGAGG
129 AATTGATCATTACAGTGATTAATGTGATCCTTAGAGG
11862826 CAGCTCTACC
Statistics
Matches: 151, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
163 59 0.39
164 2 0.01
165 31 0.21
166 1 0.01
167 58 0.38
ACGTcount: A:0.49, C:0.08, G:0.21, T:0.23
Consensus pattern (165 bp):
TTAGAACAGATTATAGATAATACTGAAAAAAGCCATTTTGGGGTAAAGAAAATAAGCCAAAAAAG
GAAAAAAAATGAAGATTAAAAAGACGAGGTGAGGCAAAAAAAAAGGTCAAATTAATAATAACAAA
TTGATCATTACAGTGATTAATGTGATCCTTAGAGG
Found at i:11869968 original size:22 final size:22
Alignment explanation
Indices: 11869943--11870145 Score: 80
Period size: 22 Copynumber: 9.2 Consensus size: 22
11869933 TTTTTTTGAG
11869943 ATTATGCCTGGAGGTCTTGAAA
1 ATTATGCCTGGAGGTCTTGAAA
* * * *
11869965 ATTATGCTTGAAGGTTTTGAGA
1 ATTATGCCTGGAGGTCTTGAAA
* * * *
11869987 ATTATGCCCGAAGGCCGT-ACAA
1 ATTATGCCTGGAGGTCTTGA-AA
* *
11870009 ATCATAT-TC-GGAGGTCTTAAAA
1 AT--TATGCCTGGAGGTCTTGAAA
* *
11870031 ATTTTGCCTGGAAGTCTTGAAA
1 ATTATGCCTGGAGGTCTTGAAA
**
11870053 ATTATGTTTTGG-GGT-TAT-ACAA
1 ATTATG-CCTGGAGGTCT-TGA-AA
* * * *
11870075 ATCATGCTTAGATGTCTTGAGAA
1 ATTATGCCTGGAGGTCTTGA-AA
* *
11870098 A-TATGCCCGAAGGTCTT-ACAA
1 ATTATGCCTGGAGGTCTTGA-AA
* *
11870119 ATTATGCTTGGAGGCCTTGAAA
1 ATTATGCCTGGAGGTCTTGAAA
11870141 ATTAT
1 ATTAT
11870146 ATTTGAAGGC
Statistics
Matches: 129, Mismatches: 38, Indels: 28
0.66 0.19 0.14
Matches are distributed among these distances:
20 2 0.02
21 11 0.09
22 102 0.79
23 11 0.09
24 3 0.02
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (22 bp):
ATTATGCCTGGAGGTCTTGAAA
Found at i:11870176 original size:44 final size:44
Alignment explanation
Indices: 11870106--11870189 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
11870096 AAATATGCCC
* * **
11870106 GAAGGTCTTACAAATTATGCTTGGAGGCCTTGA-AAATTATATTT
1 GAAGGCCTTACAAATTATACCAGGAGGCCTT-ACAAATTATATTT
*
11870150 GAAGGCCTTACAAATTATACCAGGAGGTCTTACAAATTAT
1 GAAGGCCTTACAAATTATACCAGGAGGCCTTACAAATTAT
11870190 GCTCGGAGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 1 0.03
44 33 0.97
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (44 bp):
GAAGGCCTTACAAATTATACCAGGAGGCCTTACAAATTATATTT
Found at i:11870197 original size:22 final size:22
Alignment explanation
Indices: 11870099--11870208 Score: 80
Period size: 22 Copynumber: 5.0 Consensus size: 22
11870089 TCTTGAGAAA
* *
11870099 TATGCCCGAAGGTCTTACAAAT
1 TATGCTCGGAGGTCTTACAAAT
* *
11870121 TATGCTTGGAGGCCTTGA-AAAT
1 TATGCTCGGAGGTCTT-ACAAAT
** * * *
11870143 TATATTTGAAGGCCTTACAAAT
1 TATGCTCGGAGGTCTTACAAAT
*
11870165 TATAC-CAGGAGGTCTTACAAAT
1 TATGCTC-GGAGGTCTTACAAAT
* *
11870187 TATGCTCGGAGGTTTTAAAAAT
1 TATGCTCGGAGGTCTTACAAAT
11870209 CATTTCCTAT
Statistics
Matches: 70, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
21 1 0.01
22 67 0.96
23 2 0.03
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (22 bp):
TATGCTCGGAGGTCTTACAAAT
Found at i:11870711 original size:16 final size:17
Alignment explanation
Indices: 11870679--11870711 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11870669 TTCTTTTGAG
*
11870679 TCAAAGTATTCTATTTT
1 TCAAACTATTCTATTTT
11870696 TCAAACTATT-TATTTT
1 TCAAACTATTCTATTTT
11870712 ATTTATGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (17 bp):
TCAAACTATTCTATTTT
Found at i:11874583 original size:29 final size:29
Alignment explanation
Indices: 11874544--11874607 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
11874534 TGGATGGATG
*
11874544 AATAC-ATATGTTAGTGATGCTAAATTAA
1 AATACAATATGTTAGTAATGCTAAATTAA
*
11874572 AATACAATATGTTAGTAATGCTAGATTAA
1 AATACAATATGTTAGTAATGCTAAATTAA
11874601 AATACAA
1 AATACAA
11874608 CACACAACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
28 5 0.15
29 28 0.85
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (29 bp):
AATACAATATGTTAGTAATGCTAAATTAA
Found at i:11875588 original size:14 final size:15
Alignment explanation
Indices: 11875561--11875590 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11875551 TCATTAACAT
11875561 ATTTTTTAAGAAATC
1 ATTTTTTAAGAAATC
11875576 ATTTTTTAA-AAATC
1 ATTTTTTAAGAAATC
11875590 A
1 A
11875591 ATCAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (15 bp):
ATTTTTTAAGAAATC
Found at i:11876457 original size:24 final size:23
Alignment explanation
Indices: 11876438--11876499 Score: 65
Period size: 26 Copynumber: 2.6 Consensus size: 23
11876428 TAAATCAATT
11876438 AATT-AACAAAATAAATAATCTTA
1 AATTAAACAAAATAAA-AATCTTA
*
11876461 AATTAAACAAAATACTAAAATCCTAA
1 AATTAAACAAAATA--AAAAT-CTTA
11876487 AATTAAA-AAAATA
1 AATTAAACAAAATA
11876500 CCCCGAACTA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
23 4 0.12
24 9 0.26
25 9 0.26
26 12 0.35
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.26
Consensus pattern (23 bp):
AATTAAACAAAATAAAAATCTTA
Found at i:11884509 original size:30 final size:29
Alignment explanation
Indices: 11884455--11884511 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
11884445 ATAACTGATA
* *
11884455 ATTTAAAAAATAATAATTATAAATTATGT
1 ATTTAAAAAATAATAATAAAAAATTATGT
*
11884484 ATTTAAAATAATTATAATAAAAAATTAT
1 ATTTAAAA-AATAATAATAAAAAATTAT
11884512 CAGTTAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (29 bp):
ATTTAAAAAATAATAATAAAAAATTATGT
Found at i:11885011 original size:20 final size:20
Alignment explanation
Indices: 11884986--11885026 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
11884976 TGAATATATT
11884986 TTTTTTGAATAATAATTCAC
1 TTTTTTGAATAATAATTCAC
11885006 TTTTTTGAATAATAATTCAC
1 TTTTTTGAATAATAATTCAC
11885026 T
1 T
11885027 AGATGACTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.51
Consensus pattern (20 bp):
TTTTTTGAATAATAATTCAC
Found at i:11885901 original size:8 final size:8
Alignment explanation
Indices: 11885885--11885918 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
11885875 TTTTTGGTTT
11885885 TTTTATTAA
1 TTTT-TTAA
*
11885894 ATTTTTAA
1 TTTTTTAA
11885902 TTTTTTAA
1 TTTTTTAA
11885910 TTTTTTAA
1 TTTTTTAA
11885918 T
1 T
11885919 AATTTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 20 0.87
9 3 0.13
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (8 bp):
TTTTTTAA
Found at i:11886070 original size:16 final size:15
Alignment explanation
Indices: 11886049--11886097 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
11886039 TGTGAATCTT
11886049 TTTTTAATTTTAAGAA
1 TTTTTAATTTTAA-AA
*
11886065 TTTTTATTTTTAAAA
1 TTTTTAATTTTAAAA
* * *
11886080 TTTTCATTTTTTAAA
1 TTTTTAATTTTAAAA
11886095 TTT
1 TTT
11886098 AAGAATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 18 0.60
16 12 0.40
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TTTTTAATTTTAAAA
Found at i:11886090 original size:15 final size:15
Alignment explanation
Indices: 11886056--11886097 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
11886046 CTTTTTTTAA
*
11886056 TTTTAAGAATTTTTAT
1 TTTTAA-AATTTTCAT
11886072 TTTTAAAATTTTCAT
1 TTTTAAAATTTTCAT
*
11886087 TTTTTAAATTT
1 TTTTAAAATTT
11886098 AAGAATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 18 0.75
16 6 0.25
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (15 bp):
TTTTAAAATTTTCAT
Found at i:11886143 original size:24 final size:24
Alignment explanation
Indices: 11886108--11886160 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 24
11886098 AAGAATTTTT
* *
11886108 TTTTGAATTTTTTGGATTTTTTAG
1 TTTTGAATTTTTTGAATTTTTAAG
11886132 TTTTGAGATTTTTTGAATTTTTAAG
1 TTTTGA-ATTTTTTGAATTTTTAAG
11886157 TTTT
1 TTTT
11886161 AATAATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 6 0.23
25 20 0.77
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.66
Consensus pattern (24 bp):
TTTTGAATTTTTTGAATTTTTAAG
Found at i:11886169 original size:25 final size:25
Alignment explanation
Indices: 11886116--11886170 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
11886106 TTTTTTGAAT
* * * *
11886116 TTTTTGGATTTTTTAGTTTTGAGAT
1 TTTTTGAATTTTTAAGTTTTAAGAA
*
11886141 TTTTTGAATTTTTAAGTTTTAATAA
1 TTTTTGAATTTTTAAGTTTTAAGAA
11886166 TTTTT
1 TTTTT
11886171 TTAATAATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.22, C:0.00, G:0.13, T:0.65
Consensus pattern (25 bp):
TTTTTGAATTTTTAAGTTTTAAGAA
Found at i:11886174 original size:12 final size:12
Alignment explanation
Indices: 11886157--11886182 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11886147 AATTTTTAAG
11886157 TTTTAATAATTT
1 TTTTAATAATTT
11886169 TTTTAATAATTT
1 TTTTAATAATTT
11886181 TT
1 TT
11886183 AAAATATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTAATAATTT
Found at i:11886236 original size:20 final size:21
Alignment explanation
Indices: 11886198--11886236 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11886188 ATTTCTTTTT
*
11886198 TATTTTTTAAAAAGTATTTCA
1 TATTTTTTAAAAAGAATTTCA
11886219 TATTTTTTAAAAA-AATTT
1 TATTTTTTAAAAAGAATTT
11886237 TGTAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (21 bp):
TATTTTTTAAAAAGAATTTCA
Found at i:11886268 original size:10 final size:9
Alignment explanation
Indices: 11886243--11886267 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
11886233 ATTTTGTAAA
11886243 AATTTTTAG
1 AATTTTTAG
11886252 AATTTTTAG
1 AATTTTTAG
11886261 AATTTTT
1 AATTTTT
11886268 TTGAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (9 bp):
AATTTTTAG
Found at i:11887767 original size:19 final size:18
Alignment explanation
Indices: 11887743--11887782 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
11887733 ATATGCACTC
*
11887743 TTTATTTGTGTATTTATAT
1 TTTATTTATGTATTT-TAT
*
11887762 TTTATTTATTTATTTTAT
1 TTTATTTATGTATTTTAT
11887780 TTT
1 TTT
11887783 CTTTTAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (18 bp):
TTTATTTATGTATTTTAT
Found at i:11888039 original size:19 final size:20
Alignment explanation
Indices: 11888011--11888048 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
11888001 ATTGAAAAAA
*
11888011 TTTTCATTTAAAAAGAATTT
1 TTTTCATTTAAAAAAAATTT
11888031 TTTTC-TTTAAAAAAAATT
1 TTTTCATTTAAAAAAAATT
11888049 AACACTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (20 bp):
TTTTCATTTAAAAAAAATTT
Found at i:11888143 original size:29 final size:29
Alignment explanation
Indices: 11888111--11888167 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
11888101 AATATCATAG
*
11888111 ATAAAAAAATAAATAACTTAACCAAAAAT
1 ATAAAAAAATAAAAAACTTAACCAAAAAT
* *
11888140 ATAAAAAAATAAAAAATTTACCCAAAAA
1 ATAAAAAAATAAAAAACTTAACCAAAAA
11888168 ATCTTGTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.70, C:0.11, G:0.00, T:0.19
Consensus pattern (29 bp):
ATAAAAAAATAAAAAACTTAACCAAAAAT
Found at i:11897858 original size:16 final size:15
Alignment explanation
Indices: 11897839--11897868 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
11897829 AATATAATAC
11897839 AATAATATAATAAAAG
1 AATAATATAA-AAAAG
11897855 AATAATATAAAAAA
1 AATAATATAAAAAA
11897869 TACGAAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (15 bp):
AATAATATAAAAAAG
Found at i:11898768 original size:16 final size:17
Alignment explanation
Indices: 11898733--11898772 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
11898723 AATTGATTTT
*
11898733 ATGAATATTGTAAATTC
1 ATGAATATTCTAAATTC
*
11898750 ATGAATA-TCTAAGTTC
1 ATGAATATTCTAAATTC
11898766 ATGAATA
1 ATGAATA
11898773 GTCAAAGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.38
Consensus pattern (17 bp):
ATGAATATTCTAAATTC
Found at i:11899271 original size:16 final size:16
Alignment explanation
Indices: 11899250--11899289 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
11899240 TTCTTAATAA
*
11899250 TTTAAATATATGTCAT
1 TTTAAATATATGACAT
11899266 TTTAAAT-T-TGACAT
1 TTTAAATATATGACAT
11899280 TTTAAA-ATAT
1 TTTAAATATAT
11899290 AATTTATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
14 12 0.57
15 2 0.10
16 7 0.33
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (16 bp):
TTTAAATATATGACAT
Found at i:11900194 original size:20 final size:19
Alignment explanation
Indices: 11900139--11900194 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
11900129 TTTTTGCAAC
11900139 AAATTTTAAAATAATTATTT
1 AAATTTTAAAAT-ATTATTT
*
11900159 AAAATTTAATAATATTATTT
1 AAATTTTAA-AATATTATTT
11900179 AAATTTTAAAACTATT
1 AAATTTTAAAA-TATT
11900195 TCATTTCAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.06
20 27 0.84
21 3 0.09
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
AAATTTTAAAATATTATTT
Found at i:11900629 original size:14 final size:15
Alignment explanation
Indices: 11900610--11900642 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
11900600 ATTTTATTAT
11900610 ATTTTGATATTT-TA
1 ATTTTGATATTTGTA
*
11900624 ATTTTGTTATTTGTA
1 ATTTTGATATTTGTA
11900639 ATTT
1 ATTT
11900643 ACATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (15 bp):
ATTTTGATATTTGTA
Found at i:11901133 original size:15 final size:16
Alignment explanation
Indices: 11901103--11901136 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
11901093 TCTTCTTAAA
*
11901103 ATTATAATTATTTTAT
1 ATTACAATTATTTTAT
11901119 ATTACAATT-TTTTAT
1 ATTACAATTATTTTAT
11901134 ATT
1 ATT
11901137 TTCAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTACAATTATTTTAT
Found at i:11902017 original size:11 final size:13
Alignment explanation
Indices: 11901992--11902028 Score: 51
Period size: 11 Copynumber: 3.0 Consensus size: 13
11901982 CAATTTTAAA
*
11901992 AAATTAATATTTT
1 AAATAAATATTTT
11902005 AAA-AAAT-TTTT
1 AAATAAATATTTT
11902016 AAATAAATATTTT
1 AAATAAATATTTT
11902029 TACTAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
11 7 0.33
12 7 0.33
13 7 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
AAATAAATATTTT
Found at i:11908712 original size:20 final size:20
Alignment explanation
Indices: 11908683--11908769 Score: 67
Period size: 20 Copynumber: 4.5 Consensus size: 20
11908673 GGTACGATTA
*
11908683 TTTATATTTAAAATTTCAAT
1 TTTATTTTTAAAATTTCAAT
11908703 TTTATTTTT---ATTT-AAT
1 TTTATTTTTAAAATTTCAAT
*
11908719 TTTATTTTTTAAAATTACAA-
1 TTTA-TTTTTAAAATTTCAAT
* ** *
11908739 TTAATTTTTTAAAATCCCATT
1 TTTA-TTTTTAAAATTTCAAT
11908760 TTTATTTTTA
1 TTTATTTTTA
11908770 TTAAATATCT
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
16 7 0.13
17 9 0.17
20 33 0.61
21 5 0.09
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTATTTTTAAAATTTCAAT
Found at i:11908729 original size:17 final size:17
Alignment explanation
Indices: 11908695--11908727 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
11908685 TATATTTAAA
11908695 ATTTCAATTTTATTTTT
1 ATTTCAATTTTATTTTT
11908712 ATTT-AATTTTATTTTT
1 ATTTCAATTTTATTTTT
11908728 TAAAATTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTCAATTTTATTTTT
Found at i:11908961 original size:15 final size:15
Alignment explanation
Indices: 11908893--11908965 Score: 58
Period size: 15 Copynumber: 4.8 Consensus size: 15
11908883 GAAGAGTTTT
* *
11908893 TTTTTTATTTTAAAA
1 TTTTTTATTTTTATA
11908908 TTTTTTATTTTT-TA
1 TTTTTTATTTTTATA
* *
11908922 GCCTTTTTATTTATATA
1 --TTTTTTATTTTTATA
* * *
11908939 TATATTATTTTTATT
1 TTTTTTATTTTTATA
11908954 TTTTTTATTTTT
1 TTTTTTATTTTT
11908966 TGTTTGAAGA
Statistics
Matches: 44, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
14 1 0.02
15 31 0.70
16 10 0.23
17 2 0.05
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (15 bp):
TTTTTTATTTTTATA
Found at i:11909067 original size:31 final size:31
Alignment explanation
Indices: 11909031--11909089 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
11909021 TGAATTGCAA
11909031 GTCGAATAAGGTGATCAAGCTTAAACCATGG
1 GTCGAATAAGGTGATCAAGCTTAAACCATGG
* **
11909062 GTCGAATGAGGTGATCGGGCTTAAACCA
1 GTCGAATAAGGTGATCAAGCTTAAACCA
11909090 CAAGTCAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (31 bp):
GTCGAATAAGGTGATCAAGCTTAAACCATGG
Found at i:11909195 original size:22 final size:22
Alignment explanation
Indices: 11909165--11909211 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
11909155 AAGTGTTAGA
11909165 TAATCTGGGCTTGCATGCCAGC
1 TAATCTGGGCTTGCATGCCAGC
*
11909187 TAATTTGGGCTTGCATGCCAGC
1 TAATCTGGGCTTGCATGCCAGC
11909209 TAA
1 TAA
11909212 ACTAGGTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (22 bp):
TAATCTGGGCTTGCATGCCAGC
Found at i:11909337 original size:32 final size:31
Alignment explanation
Indices: 11909201--11909350 Score: 87
Period size: 32 Copynumber: 4.9 Consensus size: 31
11909191 TTGGGCTTGC
*
11909201 ATGCCAGCTAAACTAGGTTTAAA----TTAG
1 ATGCTAGCTAAACTAGGTTTAAATTTTTTAG
* * * *
11909228 GTGCTAGCTAAACTGGGTTTAAAACTTCTT-G
1 ATGCTAGCTAAACTAGGTTT-AAATTTTTTAG
* * * *
11909259 ATACTAGCTAATACTGGGTTTAAATTTAATTGG
1 ATGCTAGCTAA-ACTAGGTTTAAATTT-TTTAG
* * *
11909292 CTACTAGCCAAACTAGGTTTAAATTTTTTTAG
1 ATGCTAGCTAAACTAGGTTTAAA-TTTTTTAG
* *
11909324 ATGCCAGCTAAACT-GGACTTAAATTTT
1 ATGCTAGCTAAACTAGG-TTTAAATTTT
11909351 CGTCGGTACC
Statistics
Matches: 96, Mismatches: 17, Indels: 16
0.74 0.13 0.12
Matches are distributed among these distances:
27 17 0.18
28 3 0.03
31 21 0.22
32 42 0.44
33 13 0.14
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (31 bp):
ATGCTAGCTAAACTAGGTTTAAATTTTTTAG
Done.