Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, 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: 14308945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 62
Found at i:4920540 original size:10 final size:11
Alignment explanation
Indices: 4920527--4920609 Score: 68
Period size: 10 Copynumber: 7.7 Consensus size: 11
4920517 AAAAGGGTTT
4920527 TAAAA-AATAA
1 TAAAATAATAA
4920537 TAAAATAAGTAA
1 TAAAATAA-TAA
* *
4920549 AAAAATCAT--
1 TAAAATAATAA
**
4920558 TAAAAGGGATAA
1 TAAAA-TAATAA
4920570 TAAAATAATAA
1 TAAAATAATAA
4920581 TGAAAATAA-AA
1 T-AAAATAATAA
4920592 TAAAATAA-AA
1 TAAAATAATAA
4920602 TAAAATAA
1 TAAAATAA
4920610 AAAGGAAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
9 4 0.07
10 24 0.40
11 11 0.18
12 21 0.35
ACGTcount: A:0.71, C:0.01, G:0.06, T:0.22
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:4920591 original size:5 final size:5
Alignment explanation
Indices: 4920568--4920611 Score: 70
Period size: 5 Copynumber: 8.4 Consensus size: 5
4920558 TAAAAGGGAT
4920568 AATAA AATAA TAATGAA AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA -AAT-AA AATAA AATAA AATAA AATAA AATAA AA
4920612 AGGAAAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 29 0.78
6 6 0.16
7 2 0.05
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:4921970 original size:37 final size:36
Alignment explanation
Indices: 4921872--4922262 Score: 303
Period size: 37 Copynumber: 10.8 Consensus size: 36
4921862 TTTCCGAAAT
*
4921872 AAAATATTTT-AAAACTATATATTATAT-GTTTTCA
1 AAAATATTTTAAAAACTATATATTATATATTTTTCA
* *
4921906 AAAAAACGTTTCCAAAAACTATATA-TATACT-TTTTT-A
1 AAAATA--TTT-TAAAAACTATATATTATA-TATTTTTCA
4921943 AAAATATTTTAAAAACTATATATTATATATTTTTCAA
1 AAAATATTTTAAAAACTATATATTATATATTTTTC-A
*
4921980 AAAATATTTTCAAAACTATATATTATATATTATTTCAA
1 AAAATATTTTAAAAACTATATATTATATATT-TTTC-A
* *
4922018 AATAATATTTTCAAAACTATATATTATATATATATTC-
1 AA-AATATTTTAAAAACTATATATTATATAT-TTTTCA
* * *
4922055 AAAATGTTTTCAAAATTATATATTATATATATTTTTTCA
1 AAAATATTTTAAAAACTATATA-T-TATATA-TTTTTCA
* * * * *
4922094 AAAATCA-TTTGAAAACTAAATA-TATATAATATACA
1 AAAAT-ATTTTAAAAACTATATATTATATATTTTTCA
* *
4922129 AAAATCATTTTCAAAACTATATAATATATAATTTTT-A
1 AAAAT-ATTTTAAAAACTATATATTATAT-ATTTTTCA
* *
4922166 AAAATCATTTT--AAACAAT-TATTATAT-GTTTTCA
1 AAAAT-ATTTTAAAAACTATATATTATATATTTTTCA
* *
4922199 AAAATCGTTTTATAAAAAT-TATA-TATTATATTTTTCA
1 AAAAT-ATTTTA-AAAACTATATATTA-TATATTTTTCA
4922236 AAAATATTTTCAAAAA-T-TATATTATAT
1 AAAATATTTT-AAAAACTATATATTATAT
4922263 TAATATATAT
Statistics
Matches: 298, Mismatches: 30, Indels: 57
0.77 0.08 0.15
Matches are distributed among these distances:
32 4 0.01
33 11 0.04
34 25 0.08
35 40 0.13
36 58 0.19
37 73 0.24
38 37 0.12
39 49 0.16
40 1 0.00
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (36 bp):
AAAATATTTTAAAAACTATATATTATATATTTTTCA
Found at i:4922039 original size:14 final size:13
Alignment explanation
Indices: 4921967--4922039 Score: 53
Period size: 14 Copynumber: 5.5 Consensus size: 13
4921957 ACTATATATT
4921967 ATATATTTTTCAAA
1 ATATA-TTTTCAAA
*
4921981 AAATATTTTCAAA
1 ATATATTTTCAAA
* *
4921994 ACTATATATT--AT
1 A-TATATTTTCAAA
4922006 ATAT-TATTTCAAA
1 ATATAT-TTTCAAA
4922019 ATAATATTTTCAAA
1 AT-ATATTTTCAAA
4922033 ACTATAT
1 A-TATAT
4922040 ATTATATATA
Statistics
Matches: 46, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
10 1 0.02
11 5 0.11
12 2 0.04
13 12 0.26
14 24 0.52
15 2 0.04
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (13 bp):
ATATATTTTCAAA
Found at i:4922089 original size:25 final size:26
Alignment explanation
Indices: 4921983--4922089 Score: 66
Period size: 25 Copynumber: 4.3 Consensus size: 26
4921973 TTTTCAAAAA
*
4921983 ATATTTTCAAAACTATATATT-ATAT
1 ATATTTTCAAAATTATATATTCATAT
* * *
4922008 AT-TATTTCAAAATAATATTTTCAAAACT
1 ATAT-TTTCAAAATTATATATTC-ATA-T
* * *
4922036 ATATATT--ATA-TATATATTCA-AA
1 ATATTTTCAAAATTATATATTCATAT
*
4922058 ATGTTTTCAAAATTATATATT-ATAT
1 ATATTTTCAAAATTATATATTCATAT
4922083 ATATTTT
1 ATATTTT
4922090 TTCAAAAATC
Statistics
Matches: 59, Mismatches: 14, Indels: 18
0.65 0.15 0.20
Matches are distributed among these distances:
22 5 0.08
23 1 0.02
24 5 0.08
25 38 0.64
26 2 0.03
27 2 0.03
28 5 0.08
29 1 0.02
ACGTcount: A:0.44, C:0.07, G:0.01, T:0.49
Consensus pattern (26 bp):
ATATTTTCAAAATTATATATTCATAT
Found at i:4923796 original size:30 final size:33
Alignment explanation
Indices: 4923745--4923811 Score: 95
Period size: 31 Copynumber: 2.1 Consensus size: 33
4923735 AGTCAAAATT
*
4923745 ATTTTTAATTTTGAATTTTTGAG-TCAGTTCGA
1 ATTTTTAATTTTGAATTTTTGAGTTCAATTCGA
*
4923777 ATTTTT-ATTTT-AGTTTTTGAGTTCAATTCGA
1 ATTTTTAATTTTGAATTTTTGAGTTCAATTCGA
4923808 ATTT
1 ATTT
4923812 GGATACCCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
30 9 0.28
31 17 0.53
32 6 0.19
ACGTcount: A:0.24, C:0.06, G:0.13, T:0.57
Consensus pattern (33 bp):
ATTTTTAATTTTGAATTTTTGAGTTCAATTCGA
Found at i:4930770 original size:16 final size:17
Alignment explanation
Indices: 4930720--4930771 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
4930710 TAAAAAATTA
4930720 AATTTGAAAGTTAGAGT
1 AATTTGAAAGTTAGAGT
*
4930737 GA-TT-AAA-TTATGAGT
1 AATTTGAAAGTTA-GAGT
4930752 AATTTGAAAGTTA-AGT
1 AATTTGAAAGTTAGAGT
4930768 AATT
1 AATT
4930772 AAATTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 3 0.10
15 8 0.28
16 11 0.38
17 4 0.14
18 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.38
Consensus pattern (17 bp):
AATTTGAAAGTTAGAGT
Found at i:4931265 original size:2 final size:2
Alignment explanation
Indices: 4931258--4931311 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
4931248 CTAATAAAAT
4931258 TA TA TA TA 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 TA TA TA TA
4931300 TA TA TA TA TA TA
1 TA TA TA TA TA TA
4931312 CTATTTTGAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4933469 original size:31 final size:30
Alignment explanation
Indices: 4933408--4933470 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 30
4933398 CCTCAATGAC
*
4933408 AAATACAAACATAAAATAGATAAATAACCA
1 AAATACAAACATAAAAGAGATAAATAACCA
* * *
4933438 AAATATAAACATAAAAAGAGATAGATGACCA
1 AAATACAAACAT-AAAAGAGATAAATAACCA
4933469 AA
1 AA
4933471 TAGATAATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 11 0.39
31 17 0.61
ACGTcount: A:0.65, C:0.11, G:0.08, T:0.16
Consensus pattern (30 bp):
AAATACAAACATAAAAGAGATAAATAACCA
Found at i:4933472 original size:30 final size:29
Alignment explanation
Indices: 4933402--4933472 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
4933392 GATCTCCCTC
*
4933402 AATGA-CAAATACAAACATAAAATAGATA
1 AATGACCAAATACAAACATAAAAGAGATA
* *
4933430 AATAACCAAAATATAAACATAAAAAGAGATA
1 AATGACC-AAATACAAACAT-AAAAGAGATA
*
4933461 GATGACCAAATA
1 AATGACCAAATA
4933473 GATAATTGAC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 4 0.11
29 1 0.03
30 16 0.46
31 14 0.40
ACGTcount: A:0.63, C:0.11, G:0.08, T:0.17
Consensus pattern (29 bp):
AATGACCAAATACAAACATAAAAGAGATA
Found at i:4939567 original size:17 final size:17
Alignment explanation
Indices: 4939545--4939578 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
4939535 TAATTATACA
4939545 TTAAATCTTTTA-AAATT
1 TTAAAT-TTTTATAAATT
4939562 TTAAATTTTTATAAATT
1 TTAAATTTTTATAAATT
4939579 AAACTAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAAATTTTTATAAATT
Found at i:4941084 original size:117 final size:119
Alignment explanation
Indices: 4940880--4941092 Score: 256
Period size: 117 Copynumber: 1.8 Consensus size: 119
4940870 TACTATAATA
* ** *
4940880 GTAAATAATTCTAAAAATAATATTTAAAATTATTATTTTAAAACTAAAGGATTAAAATTGTAAAA
1 GTAAATAATCCTAAAAATAATATTTAAAATTAAAATATTAAAACTAAAGGATTAAAATTGTAAAA
*
4940945 TATCAAAATTAAAAATCCTAATTCTAAATATCATGAAATCTAGGTATTATTAGT
66 TATCAAAATTAAAAATCCTAATTCAAAATATCATGAAATCTAGGTATTATTAGT
* * *
4940999 GTAAATAATCCT-AAAATATTATTT-AAATTAAAATATTAAACCT-CAGTGATT-AAATTGTAAA
1 GTAAATAATCCTAAAAATAATATTTAAAATTAAAATATTAAAACTAAAG-GATTAAAATTGT-AA
*** *
4941060 AATAT-ATAAATTAATGGTCTTAATTCAAAATAT
64 AATATCA-AAATTAAAAATCCTAATTCAAAATAT
4941093 TATAAAATAT
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
116 10 0.13
117 47 0.59
118 11 0.14
119 11 0.14
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (119 bp):
GTAAATAATCCTAAAAATAATATTTAAAATTAAAATATTAAAACTAAAGGATTAAAATTGTAAAA
TATCAAAATTAAAAATCCTAATTCAAAATATCATGAAATCTAGGTATTATTAGT
Found at i:4945969 original size:26 final size:26
Alignment explanation
Indices: 4945936--4946012 Score: 129
Period size: 26 Copynumber: 3.0 Consensus size: 26
4945926 ATTTTGATGA
4945936 ATCA-TTATGCCAACTAATGCACTTT
1 ATCATTTATGCCAACTAATGCACTTT
4945961 ATCATTTATGCCAACTAATGCACTTT
1 ATCATTTATGCCAACTAATGCACTTT
**
4945987 ATCATTGCTGCCAACTAATGCACTTT
1 ATCATTTATGCCAACTAATGCACTTT
4946013 CGGTGCTTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
25 4 0.08
26 45 0.92
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.36
Consensus pattern (26 bp):
ATCATTTATGCCAACTAATGCACTTT
Found at i:4950656 original size:25 final size:26
Alignment explanation
Indices: 4950628--4950678 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
4950618 ATTTTGATGA
*
4950628 ATCATT-ATGCCAACTAATGTACTTT
1 ATCATTGATGCCAACTAATGCACTTT
*
4950653 ATCATTGCTGCCAACTAATGCACTTT
1 ATCATTGATGCCAACTAATGCACTTT
4950679 CGGTGCATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (26 bp):
ATCATTGATGCCAACTAATGCACTTT
Found at i:4950891 original size:15 final size:15
Alignment explanation
Indices: 4950868--4950913 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
4950858 TCTTTAGGGA
*
4950868 GTTTTTTCTCAGCTG
1 GTTTCTTCTCAGCTG
4950883 GTTTCTTCTCAGCTG
1 GTTTCTTCTCAGCTG
** *
4950898 GCATCTTCTCGGCTG
1 GTTTCTTCTCAGCTG
4950913 G
1 G
4950914 ATTTTTCCCG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.07, C:0.26, G:0.24, T:0.43
Consensus pattern (15 bp):
GTTTCTTCTCAGCTG
Found at i:4950913 original size:30 final size:30
Alignment explanation
Indices: 4950873--4950941 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
4950863 AGGGAGTTTT
* *
4950873 TTCTCAGCTGG-TTTCTTCTCAGCTGGCATC
1 TTCTCGGCTGGATTT-TTCCCAGCTGGCATC
* * *
4950903 TTCTCGGCTGGATTTTTCCCGGTTGGCTTC
1 TTCTCGGCTGGATTTTTCCCAGCTGGCATC
4950933 TTCTCGGCT
1 TTCTCGGCT
4950942 TTTGGTGCCA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
30 30 0.91
31 3 0.09
ACGTcount: A:0.06, C:0.29, G:0.23, T:0.42
Consensus pattern (30 bp):
TTCTCGGCTGGATTTTTCCCAGCTGGCATC
Found at i:4951515 original size:18 final size:19
Alignment explanation
Indices: 4951480--4951517 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
4951470 CACGGAATGT
4951480 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
4951500 AAGATTACCA-GGGAATAA
1 AAGATTACCAGGGGAATAA
4951518 GATTACTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.47, C:0.11, G:0.24, T:0.18
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:4953305 original size:18 final size:18
Alignment explanation
Indices: 4953265--4953306 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
4953255 TCTTTGGGCA
* *
4953265 GCTTCTTCTCGGCTTTTG
1 GCTTCTTCTCAGCTTTGG
4953283 GCTTCTTCTCAGC-TTGG
1 GCTTCTTCTCAGCTTTGG
4953300 GCCTTCT
1 G-CTTCT
4953307 CGGCTGGCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.02, C:0.31, G:0.21, T:0.45
Consensus pattern (18 bp):
GCTTCTTCTCAGCTTTGG
Found at i:4960029 original size:14 final size:14
Alignment explanation
Indices: 4960010--4960052 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
4960000 GAAAAATTAT
4960010 TATTTTTAAGAATA
1 TATTTTTAAGAATA
* *
4960024 TATTTTT-ATACTA
1 TATTTTTAAGAATA
*
4960037 TATTTGTAAGAATA
1 TATTTTTAAGAATA
4960051 TA
1 TA
4960053 ACCAAAATCT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (14 bp):
TATTTTTAAGAATA
Found at i:4961728 original size:31 final size:31
Alignment explanation
Indices: 4961679--4961737 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
4961669 TTTATTATGG
* * **
4961679 GGGATTAAATTAAATTTTTGGTTAAATTAGA
1 GGGATAAAATGAAATTTTTAATTAAATTAGA
*
4961710 GGGATAAAATGAATTTTTTAATTAAATT
1 GGGATAAAATGAAATTTTTAATTAAATT
4961738 TGGACCAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.42
Consensus pattern (31 bp):
GGGATAAAATGAAATTTTTAATTAAATTAGA
Found at i:4962406 original size:20 final size:20
Alignment explanation
Indices: 4962381--4962435 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
4962371 AACGTTGATT
*
4962381 GTTGATCGTTGACCGCTAAC
1 GTTGATCGTTGACCACTAAC
4962401 GTTGATCGTTGACCACTAAC
1 GTTGATCGTTGACCACTAAC
*
4962421 GTTGATCATTGACCA
1 GTTGATCGTTGACCA
4962436 GCATTGACTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (20 bp):
GTTGATCGTTGACCACTAAC
Found at i:4963602 original size:24 final size:23
Alignment explanation
Indices: 4963575--4963622 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
4963565 CCGTATAAAC
4963575 TTTACCATTGTATATATTTATATT
1 TTTACCATTGTATATATTT-TATT
* * *
4963599 TTTATCGTTTTATATATTTTATT
1 TTTACCATTGTATATATTTTATT
4963622 T
1 T
4963623 ACCAAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (23 bp):
TTTACCATTGTATATATTTTATT
Found at i:4980271 original size:21 final size:22
Alignment explanation
Indices: 4980225--4980272 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
4980215 TAATTTAAAA
*
4980225 AAATAAAAATATTTAAAATTAT
1 AAATAAAAATATTTAAAATTAC
*
4980247 AAATAAAATTA-TTAAATATT-C
1 AAATAAAAATATTTAAA-ATTAC
4980268 AAATA
1 AAATA
4980273 TATATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATAAAAATATTTAAAATTAC
Found at i:4980277 original size:2 final size:2
Alignment explanation
Indices: 4980270--4980300 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4980260 AAATATTCAA
4980270 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4980301 ACACTAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4981622 original size:42 final size:42
Alignment explanation
Indices: 4981570--4981664 Score: 136
Period size: 42 Copynumber: 2.3 Consensus size: 42
4981560 GATGAAAACA
* * *
4981570 TTTTGTCACTAGTCTTAGTTGATGATTTGTGACGACAATTAT
1 TTTTGTCACTAATCTTAGTTGATCATTTGTGACAACAATTAT
* * *
4981612 TTTTTTCACTAATTTTAGTTGGTCATTTGTGACAACAATTAT
1 TTTTGTCACTAATCTTAGTTGATCATTTGTGACAACAATTAT
4981654 TTTTGTCACTA
1 TTTTGTCACTA
4981665 TTGAAGTGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.24, C:0.13, G:0.15, T:0.48
Consensus pattern (42 bp):
TTTTGTCACTAATCTTAGTTGATCATTTGTGACAACAATTAT
Found at i:4983400 original size:22 final size:21
Alignment explanation
Indices: 4983366--4983406 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
4983356 ATAATTATTT
4983366 AAAAAATTAAATAAAAATACC
1 AAAAAATTAAATAAAAATACC
*
4983387 AAAAATATTTAATAAAAATA
1 AAAAA-ATTAAATAAAAATA
4983407 AATTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAAATTAAATAAAAATACC
Found at i:5014934 original size:32 final size:32
Alignment explanation
Indices: 5014893--5014994 Score: 168
Period size: 32 Copynumber: 3.2 Consensus size: 32
5014883 CCGTTTTACT
* * *
5014893 AGTCTAACCCGCACCACGCCCATAACCGATCC
1 AGTCCAACCCGCACCAGGCCCAGAACCGATCC
*
5014925 AGTCCAACCCGCACCAGGACCAGAACCGATCC
1 AGTCCAACCCGCACCAGGCCCAGAACCGATCC
5014957 AGTCCAACCCGCACCAGGCCCAGAACCGATCC
1 AGTCCAACCCGCACCAGGCCCAGAACCGATCC
5014989 AGTCCA
1 AGTCCA
5014995 GACTCAGGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 65 1.00
ACGTcount: A:0.29, C:0.45, G:0.17, T:0.09
Consensus pattern (32 bp):
AGTCCAACCCGCACCAGGCCCAGAACCGATCC
Found at i:5015020 original size:20 final size:20
Alignment explanation
Indices: 5014995--5015070 Score: 118
Period size: 20 Copynumber: 3.8 Consensus size: 20
5014985 ATCCAGTCCA
5014995 GACTCAGGAGCCCAACAGAT
1 GACTCAGGAGCCCAACAGAT
5015015 GACTCAGGAGCCCAACAGAT
1 GACTCAGGAGCCCAACAGAT
*
5015035 GACCCAGGAGCCCAACAGAT
1 GACTCAGGAGCCCAACAGAT
5015055 GA-TCCAGGAGGCCCAA
1 GACT-CAGGA-GCCCAA
5015071 AAGTAGATTC
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
20 46 0.88
21 6 0.12
ACGTcount: A:0.34, C:0.32, G:0.26, T:0.08
Consensus pattern (20 bp):
GACTCAGGAGCCCAACAGAT
Found at i:5023456 original size:36 final size:36
Alignment explanation
Indices: 5023417--5023700 Score: 264
Period size: 36 Copynumber: 7.9 Consensus size: 36
5023407 AAGAATCAAT
5023417 CATTCTCAGCCTTCACGGAAGAGTAGTGAAGTTAAT-
1 CATTCTCAGCCTTCACGGAAGAGTAGTGAAG-TAATG
* *
5023453 CATTCTCAGTCTTCACGAAAGAGTAGTGAAGTAATG
1 CATTCTCAGCCTTCACGGAAGAGTAGTGAAGTAATG
* **
5023489 CAATT-TTAATCTTCACGGAAGAGTAGTGAAGTAATG
1 C-ATTCTCAGCCTTCACGGAAGAGTAGTGAAGTAATG
* *
5023525 CAAT-TCAGCCTTCACGGAAGAGTAATGAAGTCAAT-
1 CATTCTCAGCCTTCACGGAAGAGTAGTGAAGT-AATG
* *
5023560 CATTC-CTATCCTTAACGGAAGAG-AGTGTGAAGTAATG
1 CATTCTC-AGCCTTCACGGAAGAGTA--GTGAAGTAATG
* * *
5023597 CAAT-TCAACCTTCACGGAA-AGTATTGAAGTTAAAT-
1 CATTCTCAGCCTTCACGGAAGAGTAGTGAAG-T-AATG
* * *
5023632 CATTCTCAGCCTTCACGAAAGAGTAGCGAAGTAATA
1 CATTCTCAGCCTTCACGGAAGAGTAGTGAAGTAATG
* *
5023668 CAATTC-CAACCTTCACGGGAGAGTAGTGAAGTA
1 C-ATTCTCAGCCTTCACGGAAGAGTAGTGAAGTA
5023701 GAACAACCCA
Statistics
Matches: 205, Mismatches: 27, Indels: 32
0.78 0.10 0.12
Matches are distributed among these distances:
34 5 0.02
35 43 0.21
36 132 0.64
37 25 0.12
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (36 bp):
CATTCTCAGCCTTCACGGAAGAGTAGTGAAGTAATG
Found at i:5023590 original size:72 final size:71
Alignment explanation
Indices: 5023401--5023699 Score: 299
Period size: 72 Copynumber: 4.2 Consensus size: 71
5023391 ATCTTTACGA
* **
5023401 AAGAGTAA-GAA-TCAATCATTCTCAGCCTTCACGGAAGAGTAGTGAAGTTAAT-CATTCTCAGT
1 AAGAGTAATGAAGTCAATCATTCTCAGCCTTCACGGAAGAGTAGTGAAG-TAATGCAAT-TCAAC
*
5023463 CTTCACGA
64 CTTCACGG
* * ** *
5023471 AAGAGTAGTGAAGT-AATGCAATT-TTAATCTTCACGGAAGAGTAGTGAAGTAATGCAATTCAGC
1 AAGAGTAATGAAGTCAAT-C-ATTCTCAGCCTTCACGGAAGAGTAGTGAAGTAATGCAATTCAAC
5023534 CTTCACGG
64 CTTCACGG
* *
5023542 AAGAGTAATGAAGTCAATCATTC-CTATCCTTAACGGAAGAG-AGTGTGAAGTAATGCAATTCAA
1 AAGAGTAATGAAGTCAATCATTCTC-AGCCTTCACGGAAGAGTA--GTGAAGTAATGCAATTCAA
5023605 CCTTCACGG
63 CCTTCACGG
* * * * *
5023614 AA-AGTATTGAAGTTAAATCATTCTCAGCCTTCACGAAAGAGTAGCGAAGTAATACAATTCCAAC
1 AAGAGTAATGAAG-TCAATCATTCTCAGCCTTCACGGAAGAGTAGTGAAGTAATGCAATT-CAAC
5023678 CTTCACGG
64 CTTCACGG
* *
5023686 GAGAGTAGTGAAGT
1 AAGAGTAATGAAGT
5023700 AGAACAACCC
Statistics
Matches: 192, Mismatches: 22, Indels: 28
0.79 0.09 0.12
Matches are distributed among these distances:
70 11 0.06
71 71 0.37
72 96 0.50
73 14 0.07
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (71 bp):
AAGAGTAATGAAGTCAATCATTCTCAGCCTTCACGGAAGAGTAGTGAAGTAATGCAATTCAACCT
TCACGG
Found at i:5023714 original size:107 final size:103
Alignment explanation
Indices: 5023414--5023731 Score: 327
Period size: 107 Copynumber: 3.0 Consensus size: 103
5023404 AGTAAGAATC
** **
5023414 AATCATTCTCAGCCTTCACGGAAGAGTAGTGAAGTTAATCATTCTCAGTCTTCACGAAAGAGTAG
1 AATCATTCTCAGCCTTCACGGAAGAGTAGTGAAG-TAATCATTC-CAACCTTCACGGGAGAGTAG
* *
5023479 TGAAGTAATGCAATTTTAATCTTCACGGAAGAGTAGTGAAGT
64 TGAAGTAATGCAA-TTCAACCTTCACGGAA-AGTAGTGAAGT
* * * *
5023521 AATGCAAT-TCAGCCTTCACGGAAGAGTAATGAAGTCAATCATTCCTATCCTTAACGGAAGAGAG
1 AAT-CATTCTCAGCCTTCACGGAAGAGTAGTGAAGT-AATCATTCC-AACCTTCACGG--GAGAG
*
5023585 T-GTGAAGTAATGCAATTCAACCTTCACGGAAAGTATTGAAGTT
61 TAGTGAAGTAATGCAATTCAACCTTCACGGAAAGTAGTGAAG-T
* *
5023628 AAATCATTCTCAGCCTTCACGAAAGAGTAGCGAAGTAATACAATTCCAACCTTCACGGGAGAGTA
1 -AATCATTCTCAGCCTTCACGGAAGAGTAGTGAAGTAAT-C-ATTCCAACCTTCACGGGAGAGTA
* ** * *
5023693 GTGAAGTAGA-ACAACCCAACCTTCATGGAGAGTAGTGAA
63 GTGAAGTA-ATGCAATTCAACCTTCACGGAAAGTAGTGAA
5023732 AGCAAGATCA
Statistics
Matches: 177, Mismatches: 22, Indels: 24
0.79 0.10 0.11
Matches are distributed among these distances:
106 17 0.10
107 95 0.54
108 55 0.31
109 10 0.06
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (103 bp):
AATCATTCTCAGCCTTCACGGAAGAGTAGTGAAGTAATCATTCCAACCTTCACGGGAGAGTAGTG
AAGTAATGCAATTCAACCTTCACGGAAAGTAGTGAAGT
Found at i:5023716 original size:71 final size:70
Alignment explanation
Indices: 5023499--5023731 Score: 222
Period size: 72 Copynumber: 3.3 Consensus size: 70
5023489 CAATTTTAAT
* * * *
5023499 CTTCACGGAAGAGTAGTGAAGTAATGCAATTCAGCCTTCACGGAAGAGTAATGAAGTCAATCATT
1 CTTCACGAAAGAGTAGTGAAGTAATGCAATTCAACCTTCACGGGAGAGTAATGAAGT-AAACATT
* *
5023564 CCTATC
65 CCCAAC
* * *
5023570 CTTAACGGAAGAGAGT-GTGAAGTAATGCAATTCAACCTTCAC-GGAAAGTATTGAAGTTAAATC
1 CTTCAC-GAA-AGAGTAGTGAAGTAATGCAATTCAACCTTCACGGGAGAGTAATGAAG-TAAA-C
* *
5023633 ATTCTCAGC
62 ATTCCCAAC
* * *
5023642 CTTCACGAAAGAGTAGCGAAGTAATACAATTCCAACCTTCACGGGAGAGTAGTGAAGTAGAACA-
1 CTTCACGAAAGAGTAGTGAAGTAATGCAATT-CAACCTTCACGGGAGAGTAATGAAGTA-AACAT
*
5023706 ACCCAAC
64 TCCCAAC
* *
5023713 CTTCATG-GAGAGTAGTGAA
1 CTTCACGAAAGAGTAGTGAA
5023732 AGCAAGATCA
Statistics
Matches: 133, Mismatches: 21, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
70 15 0.11
71 45 0.34
72 54 0.41
73 19 0.14
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (70 bp):
CTTCACGAAAGAGTAGTGAAGTAATGCAATTCAACCTTCACGGGAGAGTAATGAAGTAAACATTC
CCAAC
Found at i:5023728 original size:34 final size:36
Alignment explanation
Indices: 5023426--5023731 Score: 173
Period size: 36 Copynumber: 8.6 Consensus size: 36
5023416 TCATTCTCAG
* * * *
5023426 CCTTCACGGAAGAGTAGTGAAGTTAAT-CATTCTCAG
1 CCTTCACGGGAGAGTAGTGAAG-TAATACAATCCCAA
* ** * ***
5023462 TCTTCACGAAAGAGTAGTGAAGTAATGCAATTTTAA
1 CCTTCACGGGAGAGTAGTGAAGTAATACAATCCCAA
* * * * *
5023498 TCTTCACGGAAGAGTAGTGAAGTAATGCAAT-TCAG
1 CCTTCACGGGAGAGTAGTGAAGTAATACAATCCCAA
* * * * *
5023533 CCTTCACGGAAGAGTAATGAAGTCAAT-CATTCCTAT
1 CCTTCACGGGAGAGTAGTGAAGT-AATACAATCCCAA
* * *
5023569 CCTTAACGGAAGAGAGT-GTGAAGTAATGCAAT-TCAA
1 CCTTCACGG--GAGAGTAGTGAAGTAATACAATCCCAA
* * * * *
5023605 CCTTCAC-GGAAAGTATTGAAGTTAA-ATCATTCTCAG
1 CCTTCACGGGAGAGTAGTGAAG-TAATA-CAATCCCAA
** * *
5023641 CCTTCACGAAAGAGTAGCGAAGTAATACAATTCCAA
1 CCTTCACGGGAGAGTAGTGAAGTAATACAATCCCAA
5023677 CCTTCACGGGAGAGTAGTGAAGTAGA-ACAA-CCCAA
1 CCTTCACGGGAGAGTAGTGAAGTA-ATACAATCCCAA
*
5023712 CCTTCA-TGGAGAGTAGTGAA
1 CCTTCACGGGAGAGTAGTGAA
5023732 AGCAAGATCA
Statistics
Matches: 215, Mismatches: 42, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
33 5 0.02
34 18 0.08
35 47 0.22
36 120 0.56
37 20 0.09
38 5 0.02
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.25
Consensus pattern (36 bp):
CCTTCACGGGAGAGTAGTGAAGTAATACAATCCCAA
Found at i:5023932 original size:24 final size:24
Alignment explanation
Indices: 5023903--5023951 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
5023893 GTTCTCATTT
*
5023903 TATTATATATTACA-TATTATATTA
1 TATTAT-TATTACAGTATTAAATTA
*
5023927 TATTATTATTATAGTATTAAATTA
1 TATTATTATTACAGTATTAAATTA
5023951 T
1 T
5023952 TACAAGACCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (24 bp):
TATTATTATTACAGTATTAAATTA
Found at i:5024000 original size:22 final size:21
Alignment explanation
Indices: 5023950--5023990 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
5023940 GTATTAAATT
*
5023950 ATTACAAGACCCGAAGGCCTA
1 ATTACAAGACCCGAAGCCCTA
5023971 ATTACAAGACCCGAAAGCCC
1 ATTACAAGACCCG-AAGCCC
5023991 GTTTTACAAG
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:0.39, C:0.32, G:0.17, T:0.12
Consensus pattern (21 bp):
ATTACAAGACCCGAAGCCCTA
Found at i:5025116 original size:57 final size:59
Alignment explanation
Indices: 5025009--5025127 Score: 215
Period size: 57 Copynumber: 2.1 Consensus size: 59
5024999 AAAATTGCAT
*
5025009 ATTTAGTCCTTATTATTTTTATAATTTATATTTTAGTCTTGTATTAATATTTAGGTAAA
1 ATTTAGTCCTTATTATTTTTATAATTTATATTTTAGTCCTGTATTAATATTTAGGTAAA
5025068 ATTTAGTCCTTATTA-TTTTATAATTTATA-TTTAGTCCTGTATTAATATTTAGGTAAA
1 ATTTAGTCCTTATTATTTTTATAATTTATATTTTAGTCCTGTATTAATATTTAGGTAAA
5025125 ATT
1 ATT
5025128 GCACTAATAG
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
57 30 0.51
58 14 0.24
59 15 0.25
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.55
Consensus pattern (59 bp):
ATTTAGTCCTTATTATTTTTATAATTTATATTTTAGTCCTGTATTAATATTTAGGTAAA
Found at i:5026013 original size:133 final size:134
Alignment explanation
Indices: 5025841--5026103 Score: 494
Period size: 135 Copynumber: 2.0 Consensus size: 134
5025831 TTTCTGTTTG
5025841 TAGGTCAGTGTTTTACCGGAACTTAACAATAATCTGAAGTA-T-TATAGTTCAGTTTTAGCCAAT
1 TAGGTCAGTGTTTTACCGGAACTTAACAATAATCTGAAGTATTATATAGTTCAGTTTTAGCCAAT
5025904 TAGGCCTAGAAGTGATATTAAAATTGACTGCTGATACAGGAATTTAATTTCTTGTGAGATATGTA
66 TAGGCCTAGAAGTGATATTAAAATTGACTG-TGATACAGGAATTTAATTTCTTGTGAGATATGTA
5025969 TTATA
130 TTATA
5025974 TAGGTCAGTGTTTTACCGGAACTTAACAATAATCTGAAGTATTATATAGTTCAGTTTTAGCCAAT
1 TAGGTCAGTGTTTTACCGGAACTTAACAATAATCTGAAGTATTATATAGTTCAGTTTTAGCCAAT
*
5026039 TAGGCCTAGAAGTGATATTAAAATTGACTGTGATACAGGAATTTAATTTTTTGTGAGATATGTAT
66 TAGGCCTAGAAGTGATATTAAAATTGACTGTGATACAGGAATTTAATTTCTTGTGAGATATGTAT
5026104 ATGTTATCTC
Statistics
Matches: 127, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
133 41 0.32
134 35 0.28
135 51 0.40
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (134 bp):
TAGGTCAGTGTTTTACCGGAACTTAACAATAATCTGAAGTATTATATAGTTCAGTTTTAGCCAAT
TAGGCCTAGAAGTGATATTAAAATTGACTGTGATACAGGAATTTAATTTCTTGTGAGATATGTAT
TATA
Found at i:5031725 original size:18 final size:18
Alignment explanation
Indices: 5031700--5031830 Score: 165
Period size: 18 Copynumber: 6.9 Consensus size: 18
5031690 ACTGAATATT
5031700 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
5031718 TATCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
5031736 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
5031754 TGTCCCGAAGGACCACTGA
1 TGTCCCGAAGGACCACT-A
* *
5031773 T-TCTTTCGAAGAACCACTA
1 TGTC--CCGAAGGACCACTA
5031792 TGTCCCGAAGGACCACTGTATA
1 TGTCCCGAAGGACCAC----TA
5031814 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
5031831 CCTTAAGAAC
Statistics
Matches: 99, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
18 64 0.65
19 4 0.04
20 13 0.13
22 18 0.18
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:5031796 original size:56 final size:55
Alignment explanation
Indices: 5031700--5031830 Score: 176
Period size: 56 Copynumber: 2.3 Consensus size: 55
5031690 ACTGAATATT
*
5031700 TGTCCCGAAGGACCACTATATCCCGAAGGACCACTATGTCCCGAAGGACCAC-TA
1 TGTCCCGAAGGACCACTATATCCCGAAGAACCACTATGTCCCGAAGGACCACTTA
*
5031754 TGTCCCGAAGGACCACTGAT-TCTTTCGAAGAACCACTATGTCCCGAAGGACCACTGTATA
1 TGTCCCGAAGGACCACT-ATATC--CCGAAGAACCACTATGTCCCGAAGGACCAC--T-TA
5031814 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
5031831 CCTTAAGAAC
Statistics
Matches: 68, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
54 19 0.28
55 2 0.03
56 28 0.41
60 19 0.28
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (55 bp):
TGTCCCGAAGGACCACTATATCCCGAAGAACCACTATGTCCCGAAGGACCACTTA
Found at i:5032084 original size:24 final size:21
Alignment explanation
Indices: 5032028--5032085 Score: 55
Period size: 24 Copynumber: 2.5 Consensus size: 21
5032018 ATATCTTCTC
5032028 ATCACTTTTCATATAAACATGT
1 ATCAC-TTTCATATAAACATGT
5032050 ATTTCAC-TTCATATACACACATGT
1 A--TCACTTTCATATA-A-ACATGT
5032074 GATCACTTTCAT
1 -ATCACTTTCAT
5032086 TATTTCACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
22 9 0.30
23 5 0.17
24 15 0.50
25 1 0.03
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.40
Consensus pattern (21 bp):
ATCACTTTCATATAAACATGT
Found at i:5032595 original size:19 final size:19
Alignment explanation
Indices: 5032571--5032622 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
5032561 TTTAAGTAGG
5032571 TGCATCGATGCACTCCTCA
1 TGCATCGATGCACTCCTCA
*
5032590 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTCA
5032609 TGCATCGATGCACT
1 TGCATCGATGCACT
5032623 AATTGCATTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.21, C:0.33, G:0.17, T:0.29
Consensus pattern (19 bp):
TGCATCGATGCACTCCTCA
Found at i:5040005 original size:22 final size:21
Alignment explanation
Indices: 5039942--5040017 Score: 90
Period size: 22 Copynumber: 3.8 Consensus size: 21
5039932 ACTAAATATT
5039942 TGTCCCGAA-GACCACTGAT-
1 TGTCCCGAAGGACCACTGATA
* *
5039961 TGTTCCGAAGAACCAC---TA
1 TGTCCCGAAGGACCACTGATA
5039979 TGTCCCGAAGGACCACTGTATA
1 TGTCCCGAAGGACCACTG-ATA
5040001 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
5040018 CCTTAAGAAC
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.02
18 14 0.30
19 8 0.17
20 5 0.11
22 19 0.40
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (21 bp):
TGTCCCGAAGGACCACTGATA
Found at i:5040016 original size:40 final size:37
Alignment explanation
Indices: 5039942--5040017 Score: 107
Period size: 40 Copynumber: 2.0 Consensus size: 37
5039932 ACTAAATATT
*
5039942 TGTCCCGAAGACCACTGATTGTTCCGAAGAACCACTA
1 TGTCCCGAAGACCACTGATTGTCCCGAAGAACCACTA
*
5039979 TGTCCCGAAGGACCACTGTATATGTCCCGAAGGACCACT
1 TGTCCCGAA-GACCACTG-AT-TGTCCCGAAGAACCACT
5040018 CCTTAAGAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
37 9 0.26
38 8 0.24
39 2 0.06
40 15 0.44
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (37 bp):
TGTCCCGAAGACCACTGATTGTCCCGAAGAACCACTA
Found at i:5040769 original size:19 final size:19
Alignment explanation
Indices: 5040745--5040815 Score: 124
Period size: 19 Copynumber: 3.7 Consensus size: 19
5040735 TTTAAGTAGG
*
5040745 TGCATCGATGCACTCCTCA
1 TGCATCGATGCACTCCTTA
5040764 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
5040783 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
*
5040802 TGCATAGATGCACT
1 TGCATCGATGCACT
5040816 AATTGCATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.30
Consensus pattern (19 bp):
TGCATCGATGCACTCCTTA
Found at i:5047981 original size:33 final size:34
Alignment explanation
Indices: 5047939--5048005 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
5047929 GTATTTTGTT
* *
5047939 GTTGCACCA-GTTTTAACATCATTAATAATTCAA
1 GTTGCACCAGGTTCTAACATCAATAATAATTCAA
5047972 GTTGCACCAGGTTCTAACATCAATAATAATTCAA
1 GTTGCACCAGGTTCTAACATCAATAATAATTCAA
5048006 AATGGAATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 9 0.29
34 22 0.71
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.33
Consensus pattern (34 bp):
GTTGCACCAGGTTCTAACATCAATAATAATTCAA
Found at i:5050567 original size:40 final size:44
Alignment explanation
Indices: 5050523--5050614 Score: 113
Period size: 45 Copynumber: 2.2 Consensus size: 44
5050513 AATAAAATAT
* *
5050523 TAATAAACTAAACA-TGTTTTAA-C-TC-TAATTCCTAATAAAA
1 TAATAAACTAAAAATTGTTTTAACCACCTTAATTCCTAATAAAA
5050563 TAAT-AACTAAAAATTGTTTTAACCCAACCTTAATTCCTAATAAAA
1 TAATAAACTAAAAATTGTTTTAA-CC-ACCTTAATTCCTAATAAAA
5050608 TAATAAA
1 TAATAAA
5050615 TCTGATCCTA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
39 8 0.19
40 12 0.28
42 1 0.02
44 1 0.02
45 19 0.44
46 2 0.05
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.34
Consensus pattern (44 bp):
TAATAAACTAAAAATTGTTTTAACCACCTTAATTCCTAATAAAA
Found at i:5054542 original size:13 final size:13
Alignment explanation
Indices: 5054526--5054556 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
5054516 GTCAACGGGT
*
5054526 CGGGTCGGGTTAA
1 CGGGTCGGGTCAA
5054539 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
5054552 CGGGT
1 CGGGT
5054557 AGGTAACGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.19, G:0.48, T:0.19
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:5060547 original size:11 final size:11
Alignment explanation
Indices: 5060531--5060557 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
5060521 CAGAAATACG
5060531 GAAATCGGTAT
1 GAAATCGGTAT
5060542 GAAATCGGTAT
1 GAAATCGGTAT
5060553 GAAAT
1 GAAAT
5060558 ACCTTAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.07, G:0.26, T:0.26
Consensus pattern (11 bp):
GAAATCGGTAT
Found at i:5061415 original size:21 final size:21
Alignment explanation
Indices: 5061371--5061415 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
5061361 GTCAACGGGT
* * **
5061371 CGGGTCGGGTTAACGGGTCGA
1 CGGGTCAGGTAAACGGGTAAA
5061392 CGGGTCAGGTAAACGGGTAAA
1 CGGGTCAGGTAAACGGGTAAA
5061413 CGG
1 CGG
5061416 TCGTGACCGG
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:0.22, C:0.18, G:0.44, T:0.16
Consensus pattern (21 bp):
CGGGTCAGGTAAACGGGTAAA
Found at i:5061441 original size:10 final size:10
Alignment explanation
Indices: 5061421--5061464 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
5061411 AACGGTCGTG
5061421 ACCGGTC-AA
1 ACCGGTCAAA
5061430 ACCGGTCAAA
1 ACCGGTCAAA
*
5061440 ACCGGT-TAA
1 ACCGGTCAAA
*
5061449 ACCGATCAAA
1 ACCGGTCAAA
5061459 ACCGGT
1 ACCGGT
5061465 TTTCAGCGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 14 0.48
10 15 0.52
ACGTcount: A:0.36, C:0.30, G:0.20, T:0.14
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:5061465 original size:19 final size:19
Alignment explanation
Indices: 5061421--5061465 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
5061411 AACGGTCGTG
* *
5061421 ACCGGTCAAACCGGTCAAA
1 ACCGGTTAAACCGATCAAA
5061440 ACCGGTTAAACCGATCAAA
1 ACCGGTTAAACCGATCAAA
5061459 ACCGGTT
1 ACCGGTT
5061466 TTCAGCGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.36, C:0.29, G:0.20, T:0.16
Consensus pattern (19 bp):
ACCGGTTAAACCGATCAAA
Found at i:5070207 original size:24 final size:24
Alignment explanation
Indices: 5070180--5070230 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
5070170 TATATCAAAA
* *
5070180 ATCAAAACATAATTTAGGTCAAGT
1 ATCAAAACAGAATCTAGGTCAAGT
* * *
5070204 ATCAGATCAGAATCTAGGTCATGT
1 ATCAAAACAGAATCTAGGTCAAGT
5070228 ATC
1 ATC
5070231 CTATCAGAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (24 bp):
ATCAAAACAGAATCTAGGTCAAGT
Found at i:5070236 original size:24 final size:24
Alignment explanation
Indices: 5070194--5070240 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
5070184 AAACATAATT
5070194 TAGGTCAAGTATCAGATCAGAATC
1 TAGGTCAAGTATCAGATCAGAATC
* **
5070218 TAGGTCATGTATCCTATCAGAAT
1 TAGGTCAAGTATCAGATCAGAAT
5070241 TCGGGTCAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (24 bp):
TAGGTCAAGTATCAGATCAGAATC
Found at i:5070247 original size:24 final size:24
Alignment explanation
Indices: 5070220--5070267 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
5070210 TCAGAATCTA
* * *
5070220 GGTCATGTATCCTATCAGAATTCG
1 GGTCAGGTATCATAACAGAATTCG
5070244 GGTCAGGTATCATAACAGAATTCG
1 GGTCAGGTATCATAACAGAATTCG
5070268 AATCAGAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (24 bp):
GGTCAGGTATCATAACAGAATTCG
Found at i:5070273 original size:24 final size:24
Alignment explanation
Indices: 5070226--5070273 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
5070216 TCTAGGTCAT
* * **
5070226 GTATCCTATCAGAATTCGGGTCAG
1 GTATCATAACAGAATTCGAATCAG
5070250 GTATCATAACAGAATTCGAATCAG
1 GTATCATAACAGAATTCGAATCAG
5070274 AAATCAGGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (24 bp):
GTATCATAACAGAATTCGAATCAG
Found at i:5072054 original size:7 final size:7
Alignment explanation
Indices: 5072042--5072071 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
5072032 TTTATCCATG
5072042 CATTTAT
1 CATTTAT
5072049 CATTTAT
1 CATTTAT
5072056 CATTTAT
1 CATTTAT
*
5072063 AATTTAT
1 CATTTAT
5072070 CA
1 CA
5072072 ACATGTTCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (7 bp):
CATTTAT
Found at i:5073818 original size:16 final size:18
Alignment explanation
Indices: 5073797--5073829 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
5073787 AAGCAAACTT
5073797 TGTTTA-TAAAA-AAATG
1 TGTTTATTAAAACAAATG
5073813 TGTTTATTAAAACAAAT
1 TGTTTATTAAAACAAAT
5073830 AAGAGATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.39
Consensus pattern (18 bp):
TGTTTATTAAAACAAATG
Found at i:5082718 original size:80 final size:80
Alignment explanation
Indices: 5082466--5082738 Score: 368
Period size: 81 Copynumber: 3.4 Consensus size: 80
5082456 TTGGGTCCTA
* * * * *
5082466 TGGGCCTACCCAAGGATATCCTTAGATCTGAAGGGTTACCTTAAGGACACAAAAAAAGGGAACCA
1 TGGGCCTACCCAAGGACATCCTTAGATCCGTAGGGTTACCTTAAGCACAC-AACAAAGGGAACCA
5082531 ACCTAAGGATATACCT
65 ACCTAAGGATATACCT
* * * *
5082547 TGGGTCTACCCAAGGACATCCTTAGATCCATAGGGTTACCTTAAGCACATAGCAAAAGGGAACCA
1 TGGGCCTACCCAAGGACATCCTTAGATCCGTAGGGTTACCTTAAGCACACAAC-AAAGGGAACCA
5082612 ACCTAAGGATATACCT
65 ACCTAAGGATATACCT
* * * * *
5082628 TGGGCCTACCCAAGGGCATCCTTAGAACCGTTGGGTTACCTTATGCACACAACAAAGGGAACAAA
1 TGGGCCTACCCAAGGACATCCTTAGATCCGTAGGGTTACCTTAAGCACACAACAAAGGGAACCAA
*
5082693 CCTAAGGATATGCCT
66 CCTAAGGATATACCT
* *
5082708 TGGGCCTACCCAA-GATATCCTTAGGTCCGTA
1 TGGGCCTACCCAAGGACATCCTTAGATCCGTA
5082739 AGGACTTGTA
Statistics
Matches: 167, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
79 13 0.08
80 39 0.23
81 115 0.69
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (80 bp):
TGGGCCTACCCAAGGACATCCTTAGATCCGTAGGGTTACCTTAAGCACACAACAAAGGGAACCAA
CCTAAGGATATACCT
Found at i:5087875 original size:81 final size:81
Alignment explanation
Indices: 5087695--5087965 Score: 336
Period size: 81 Copynumber: 3.4 Consensus size: 81
5087685 GGGCCTATGT
* * * *
5087695 GCCTACCCAAGGATATCCTTAGATCCGTATGGTTACCTTAAGCACA-ATACAAAAAGAGAACCAA
1 GCCTACCCAAGGACATCCTTAGATCCGTAGGGTTACCTCAAGCACACA-AC-AAAAGGGAACCAA
* * *
5087759 CC-TATGTATATACCTTGG
64 CCTTA-GGATATGCCTTGA
* *
5087777 GTCTACCCAAGGACATCCTTTGATCCGTAGGGTTACCTCAAGCACACAACAAAAGGGAACCAACC
1 GCCTACCCAAGGACATCCTTAGATCCGTAGGGTTACCTCAAGCACACAACAAAAGGGAACCAACC
5087842 TTAGGATATGCCTTGA
66 TTAGGATATGCCTTGA
* * *
5087858 GCCTACCCAAGGGCATCCTTAGATCCGTAGGGTTACCTCATGCACACAGC-AAAGGGAACCAACC
1 GCCTACCCAAGGACATCCTTAGATCCGTAGGGTTACCTCAAGCACACAACAAAAGGGAACCAACC
*
5087922 TAAGGATATGCCTT-A
66 TTAGGATATGCCTTGA
* *
5087937 GGCCTACCCAA-GATATCCTTAGGTCCGTA
1 -GCCTACCCAAGGACATCCTTAGATCCGTA
5087966 AGGACTTACA
Statistics
Matches: 168, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
79 16 0.10
80 37 0.22
81 69 0.41
82 45 0.27
83 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (81 bp):
GCCTACCCAAGGACATCCTTAGATCCGTAGGGTTACCTCAAGCACACAACAAAAGGGAACCAACC
TTAGGATATGCCTTGA
Found at i:5091639 original size:111 final size:110
Alignment explanation
Indices: 5091444--5091648 Score: 286
Period size: 110 Copynumber: 1.9 Consensus size: 110
5091434 AAATATTCTG
* * * * * *
5091444 CCAACTTTGAAATTTTTTAATTTAATCCCCAATTTCTTCCAAAATACCCATTAAATCCAATACTT
1 CCAACTTTGAAAATTTTCAATTTAATCACCAATTTCTTCCAAAATACCAATTAAATCCAACACAT
*
5091509 TAAAATTACTAAAATTTAGCCCCTAAATTAGGATGCTACGGTCTA
66 TAAAATTACTAAAATTTAGCACCTAAATTAGGATGCTACGGTCTA
* * *
5091554 CCAACTTTGAAAATTTTCAATTTAATCATCAATTTTCTTCCCAAAATACCAATTAACTCCACCAC
1 CCAACTTTGAAAATTTTCAATTTAATCACCAA-TTTCTT-CCAAAATACCAATTAAATCCAACAC
*
5091619 ATTATAATT-CTAAAATTTAGCACCTAAATT
64 ATTAAAATTACTAAAATTTAGCACCTAAATT
5091649 GGGGTGTTAC
Statistics
Matches: 82, Mismatches: 11, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
110 28 0.34
111 26 0.32
112 28 0.34
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (110 bp):
CCAACTTTGAAAATTTTCAATTTAATCACCAATTTCTTCCAAAATACCAATTAAATCCAACACAT
TAAAATTACTAAAATTTAGCACCTAAATTAGGATGCTACGGTCTA
Found at i:5092815 original size:24 final size:23
Alignment explanation
Indices: 5092788--5092869 Score: 85
Period size: 24 Copynumber: 3.4 Consensus size: 23
5092778 TAATATTTTA
*
5092788 TCTGATTTTCTATTTGAATTCTGT
1 TCTGA-TTTCTATCTGAATTCTGT
*
5092812 TCTGATTTCTGATCT-AGATTCTAT
1 TCTGATTTCT-ATCTGA-ATTCTGT
*
5092836 TCTGATATCTTATCTGAATTCTGT
1 TCTGATTTC-TATCTGAATTCTGT
*
5092860 TTTGATTTCT
1 TCTGATTTCT
5092870 GATATCTCCG
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
23 7 0.15
24 39 0.81
25 2 0.04
ACGTcount: A:0.18, C:0.15, G:0.12, T:0.55
Consensus pattern (23 bp):
TCTGATTTCTATCTGAATTCTGT
Found at i:5093903 original size:314 final size:314
Alignment explanation
Indices: 5093334--5093962 Score: 1186
Period size: 314 Copynumber: 2.0 Consensus size: 314
5093324 AGATTAAAAG
* * *
5093334 AATCGTACTTGTGCATCAATATACATCAGTAAAGAAGTTCTTATGGCGTTGCTTGTAGTGTATGG
1 AATCGTACCTATGCATCAATATACATCAGTAAAGAAGTTCTTATGGCGTTGCATGTAGTGTATGG
5093399 TACATGTTATTAGGGGACATGTAATTGTATTTTGTTTTATATACGAGTCTAAAAATCTGTTTTAT
66 TACATGTTATTAGGGGACATGTAATTGTATTTTGTTTTATATACGAGTCTAAAAATCTGTTTTAT
*
5093464 TTATGAATATTGATAAATTTTATTTTGTATTCATAAATCATTTTATGAGTTACATGTTTTAATAA
131 TTATGAATACTGATAAATTTTATTTTGTATTCATAAATCATTTTATGAGTTACATGTTTTAATAA
*
5093529 AAGTTTTAAATTTTCTGATATTTTTACATTGGGTCGCTTCGGTGGCCCTAATGTGAAACTCCAGA
196 AAGTTTTAAATTTTCTGATATTTTTACATTGGGTCACTTCGGTGGCCCTAATGTGAAACTCCAGA
*
5093594 TCGAATCGGGTTACCCACATCGGTATGAGGGGGTTACATCATGTGTTTGACTAC
261 TCGAATCGGGTTACCCACATCGGTATGAGGGGGTTACATCACGTGTTTGACTAC
*
5093648 AATCGTACCTATGCATCAATATACATCAGTAAAGAAGTTCTTATGGGGTTGCATGTAGTGTATGG
1 AATCGTACCTATGCATCAATATACATCAGTAAAGAAGTTCTTATGGCGTTGCATGTAGTGTATGG
*
5093713 TACATGTTATTAGGGGACATGTAATTGTATTTTGTTTTATATATGAGTCTAAAAATCTGTTTTAT
66 TACATGTTATTAGGGGACATGTAATTGTATTTTGTTTTATATACGAGTCTAAAAATCTGTTTTAT
5093778 TTATGAATACTGATAAATTTTATTTTGTATTCATAAATCATTTTATGAGTTACATGTTTTAATAA
131 TTATGAATACTGATAAATTTTATTTTGTATTCATAAATCATTTTATGAGTTACATGTTTTAATAA
5093843 AAGTTTTAAATTTTCTGATATTTTTACATTGGGTCACTTCGGTGGCCCTAATGTGAAACTCCAGA
196 AAGTTTTAAATTTTCTGATATTTTTACATTGGGTCACTTCGGTGGCCCTAATGTGAAACTCCAGA
5093908 TCGAATCGGGTTACCCACATCGGTATGAGGGGGTTACATCACGTGTTTGACTAC
261 TCGAATCGGGTTACCCACATCGGTATGAGGGGGTTACATCACGTGTTTGACTAC
5093962 A
1 A
5093963 TGATTTTCAA
Statistics
Matches: 307, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
314 307 1.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.40
Consensus pattern (314 bp):
AATCGTACCTATGCATCAATATACATCAGTAAAGAAGTTCTTATGGCGTTGCATGTAGTGTATGG
TACATGTTATTAGGGGACATGTAATTGTATTTTGTTTTATATACGAGTCTAAAAATCTGTTTTAT
TTATGAATACTGATAAATTTTATTTTGTATTCATAAATCATTTTATGAGTTACATGTTTTAATAA
AAGTTTTAAATTTTCTGATATTTTTACATTGGGTCACTTCGGTGGCCCTAATGTGAAACTCCAGA
TCGAATCGGGTTACCCACATCGGTATGAGGGGGTTACATCACGTGTTTGACTAC
Found at i:5094670 original size:21 final size:21
Alignment explanation
Indices: 5094644--5094683 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
5094634 AAAATTATGT
5094644 ATCGATGCACTGCTACAGTCC
1 ATCGATGCACTGCTACAGTCC
5094665 ATCGATGCACTGCTACAGT
1 ATCGATGCACTGCTACAGT
5094684 ATTTTTCGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (21 bp):
ATCGATGCACTGCTACAGTCC
Found at i:5095258 original size:59 final size:59
Alignment explanation
Indices: 5095193--5095304 Score: 154
Period size: 59 Copynumber: 1.9 Consensus size: 59
5095183 CTTCCCCTTT
** * *
5095193 CATTTTAGCACA-CAAAGTGCCCTATTCGAATATCCGTACCATTAGTAGGATTTTTTTAC
1 CATTTTAGCACATCAAA-TGCCCTATGAGAAAATCCATACCATTAGTAGGATTTTTTTAC
* *
5095252 CATTTTAGCACATGAAATGCCCTATGAGAAAATCCATACCATTAGTATGATTT
1 CATTTTAGCACATCAAATGCCCTATGAGAAAATCCATACCATTAGTAGGATTT
5095305 ACTTATCCTT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
59 43 0.93
60 3 0.07
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (59 bp):
CATTTTAGCACATCAAATGCCCTATGAGAAAATCCATACCATTAGTAGGATTTTTTTAC
Found at i:5095404 original size:118 final size:118
Alignment explanation
Indices: 5095248--5095470 Score: 288
Period size: 118 Copynumber: 1.9 Consensus size: 118
5095238 TAGGATTTTT
* *
5095248 TTACCATTTTAGCACATGAAATGCCCTATGAGAAAATCCATACCATT-AGTATGATTTACTTATC
1 TTACCATTTTAGCACATGAAATGCCCTATCAGAAAATCCATA-CATTCAATATGATTTACTTATC
* * * * * *
5095312 CTTGTAGTACCCTTAGTGCTTTATTTGGAAATCCATACACTCAGTATGATTCCC
65 ATTGTAGCACACTCAGTGCTTTATATGAAAATCCATACACTCAGTATGATTCCC
* * * *
5095366 TTACCATTTTAGCACAT-ATAATGCCCTATCTGGAAATCCATATATTCAATATGATTTCCTTATC
1 TTACCATTTTAGCACATGA-AATGCCCTATCAGAAAATCCATACATTCAATATGATTTACTTATC
* *
5095430 ATTTTAGCACACTCAGTGCTTTATATGAAAATTCATACACT
65 ATTGTAGCACACTCAGTGCTTTATATGAAAATCCATACACT
5095471 TGTTAGAAAC
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
117 4 0.04
118 85 0.96
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.37
Consensus pattern (118 bp):
TTACCATTTTAGCACATGAAATGCCCTATCAGAAAATCCATACATTCAATATGATTTACTTATCA
TTGTAGCACACTCAGTGCTTTATATGAAAATCCATACACTCAGTATGATTCCC
Found at i:5100904 original size:22 final size:22
Alignment explanation
Indices: 5100879--5100923 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
5100869 GAAAGTCAAC
5100879 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
* *
5100901 GGTCAATGGTCGGGTTGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
5100923 G
1 G
5100924 TCGGTCGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.18, G:0.51, T:0.22
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:5100949 original size:9 final size:9
Alignment explanation
Indices: 5100932--5100981 Score: 55
Period size: 10 Copynumber: 5.2 Consensus size: 9
5100922 GGTCGGTCGT
*
5100932 GTCAGACCG
1 GTCAAACCG
5100941 GTCAAACCG
1 GTCAAACCG
*
5100950 GTTCGAACCG
1 G-TCAAACCG
5100960 GTCGAAACCG
1 GTC-AAACCG
5100970 GTCAGAACCG
1 GTCA-AACCG
5100980 GT
1 GT
5100982 TTCCAGCAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
9 12 0.34
10 23 0.66
ACGTcount: A:0.26, C:0.30, G:0.30, T:0.14
Consensus pattern (9 bp):
GTCAAACCG
Found at i:5100969 original size:20 final size:19
Alignment explanation
Indices: 5100932--5100981 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
5100922 GGTCGGTCGT
5100932 GTCAG-ACCGGTCAAACCG
1 GTCAGAACCGGTCAAACCG
5100950 GTTC-GAACCGGTCGAAACCG
1 G-TCAGAACCGGTC-AAACCG
5100970 GTCAGAACCGGT
1 GTCAGAACCGGT
5100982 TTCCAGCAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 2 0.07
19 11 0.39
20 15 0.54
ACGTcount: A:0.26, C:0.30, G:0.30, T:0.14
Consensus pattern (19 bp):
GTCAGAACCGGTCAAACCG
Found at i:5108108 original size:22 final size:22
Alignment explanation
Indices: 5108080--5108142 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
5108070 AACGGTCAAC
5108080 GGTCAACGGTCCGGTCGGGTCA
1 GGTCAACGGTCCGGTCGGGTCA
* *
5108102 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCCGGTCGGGTCA
5108124 GGT---CGGT-CGGTCGGGTCA
1 GGTCAACGGTCCGGTCGGGTCA
5108142 G
1 G
5108143 ACCGGTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 10 0.27
19 4 0.11
22 23 0.62
ACGTcount: A:0.10, C:0.24, G:0.48, T:0.19
Consensus pattern (22 bp):
GGTCAACGGTCCGGTCGGGTCA
Found at i:5108163 original size:19 final size:19
Alignment explanation
Indices: 5108139--5108193 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 19
5108129 GTCGGTCGGG
5108139 TCAGACCGGTCAAACCAGT
1 TCAGACCGGTCAAACCAGT
*
5108158 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCAGT
5108177 TC-GAACCGGTCGAAACC
1 TCAG-ACCGGTC-AAACC
5108194 GGTCAGAACT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 1 0.03
19 27 0.82
20 5 0.15
ACGTcount: A:0.29, C:0.33, G:0.24, T:0.15
Consensus pattern (19 bp):
TCAGACCGGTCAAACCAGT
Found at i:5112163 original size:14 final size:15
Alignment explanation
Indices: 5112139--5112169 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
5112129 GCAGTTTGAC
5112139 CCAGTTTTGACCCGA
1 CCAGTTTTGACCCGA
5112154 CCAG-TTTGACCCGA
1 CCAGTTTTGACCCGA
5112168 CC
1 CC
5112170 CGCTAATCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.19, C:0.39, G:0.19, T:0.23
Consensus pattern (15 bp):
CCAGTTTTGACCCGA
Found at i:5116052 original size:20 final size:20
Alignment explanation
Indices: 5116024--5116061 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5116014 TTAACCTACA
* *
5116024 GACCTGACCCGACCCGGTCC
1 GACCAGACCCAACCCGGTCC
5116044 GACCAGACCCAACCCGGT
1 GACCAGACCCAACCCGGT
5116062 TTAACCAGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.47, G:0.24, T:0.08
Consensus pattern (20 bp):
GACCAGACCCAACCCGGTCC
Found at i:5119902 original size:267 final size:268
Alignment explanation
Indices: 5119373--5119865 Score: 821
Period size: 267 Copynumber: 1.9 Consensus size: 268
5119363 GGTATTGTTT
5119373 CTTTAGTGTGGCTCGCAAGATTAATTTCGAAAGAGGTATGTTACCAAGAAAACTATCATTTATAG
1 CTTTAGTGTGGCTCGCAAGATTAATTTCGAAAGAGGTATGTTACCAAGAAAACTATCATTTATAG
* * *
5119438 GTAGAGCTAAAGGACATGGGTATGAGAGGTGTTGTAAAAACGAAAACGTTCTATATTCTAGCTTA
66 GTAAAGCTAAAGGACATGGGTATGAGAGGCGTTGTAAAAAAGAAAACGTTCTATATTCTAGCTTA
* *
5119503 ATTGCATTAAATGTTATATATTACACGACAACGTTAAAATTTAAAAAACATGCATTTAACCACCA
131 ATTGCATTAAATGTTATATATTACACGACAACGTTAAAATTTAAAAAACATGAATTTAACCACAA
**
5119568 TTTGTTTATCCTTATGGAATTACTTGAGCTATAATAACACTTTACTAAGGCATTTACATCTTGCA
196 TTTGTTTATCCTTATGGAATTACTTGAGCTATAATAACACTCAACTAAGGCATTTACATCTTGCA
*
5119633 TTTGATTC
261 TTTAATTC
* * * * *
5119641 CTTTTGTGTGGCTCGCAAGATTAATTTCGAACGAGGTATGTTACCGAGGAAGCTATCATTTATAG
1 CTTTAGTGTGGCTCGCAAGATTAATTTCGAAAGAGGTATGTTACCAAGAAAACTATCATTTATAG
5119706 GTAAAGCTAAAGGACAT-GGTATGAGAGGCGTTGTAAAAAAGAAAACGTTCTATATTCTAGCTTA
66 GTAAAGCTAAAGGACATGGGTATGAGAGGCGTTGTAAAAAAGAAAACGTTCTATATTCTAGCTTA
* *
5119770 ATTGCATTAAATGTTATTTATTACACGACAACGTTATAATTT-AAAAACATGAATTTAACCACAA
131 ATTGCATTAAATGTTATATATTACACGACAACGTTAAAATTTAAAAAACATGAATTTAACCACAA
*
5119834 TTT-TTTATCCTTGTGGAATTACTTGAGCTATA
196 TTTGTTTATCCTTATGGAATTACTTGAGCTATA
5119866 GAATTGGGTC
Statistics
Matches: 212, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
265 28 0.13
266 23 0.11
267 85 0.40
268 76 0.36
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (268 bp):
CTTTAGTGTGGCTCGCAAGATTAATTTCGAAAGAGGTATGTTACCAAGAAAACTATCATTTATAG
GTAAAGCTAAAGGACATGGGTATGAGAGGCGTTGTAAAAAAGAAAACGTTCTATATTCTAGCTTA
ATTGCATTAAATGTTATATATTACACGACAACGTTAAAATTTAAAAAACATGAATTTAACCACAA
TTTGTTTATCCTTATGGAATTACTTGAGCTATAATAACACTCAACTAAGGCATTTACATCTTGCA
TTTAATTC
Found at i:5121257 original size:2 final size:2
Alignment explanation
Indices: 5121250--5121314 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
5121240 CTTTTAAAAC
5121250 AT AT AT 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 AT AT AT
5121292 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
5121315 CCCCCATCCC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5121561 original size:24 final size:24
Alignment explanation
Indices: 5121508--5121563 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
5121498 AACAGAATCC
* *
5121508 AAATCATAACAGAATTCAGGTCAT
1 AAATCAGAACAGAATTCAAGTCAT
* *
5121532 ATATCAGAACATAATTCAAGTCGA-
1 AAATCAGAACAGAATTCAAGTC-AT
5121556 AAATCAGA
1 AAATCAGA
5121564 TAAAATATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.23
Consensus pattern (24 bp):
AAATCAGAACAGAATTCAAGTCAT
Found at i:5131937 original size:15 final size:16
Alignment explanation
Indices: 5131913--5131945 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
5131903 TATCACGAGC
*
5131913 AAAATTTGTTTA-TAA
1 AAAATGTGTTTATTAA
5131928 AAAATGTGTTTATTAA
1 AAAATGTGTTTATTAA
5131944 AA
1 AA
5131946 CAAAGAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (16 bp):
AAAATGTGTTTATTAA
Found at i:5135867 original size:42 final size:40
Alignment explanation
Indices: 5135781--5135985 Score: 259
Period size: 42 Copynumber: 4.8 Consensus size: 40
5135771 CTATACACCA
* *
5135781 GTAAGGCTTAACCTGTGCACAAAGCATA-GGAGCCTAGGAAAACT
1 GTAAGGCTT-ACCT-TGCACACAGCAAAGGGA-CCT-GG-AAACT
*
5135825 GTAAGGTTTATCCTTGCACACAGCAAAGGGACCTGTGAAACT
1 GTAAGGCTTA-CCTTGCACACAGCAAAGGGACCTG-GAAACT
5135867 GTAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGTAAACT
1 GTAAGGCTTA-CCTTGCACACAGCAAAGGGACCTGG-AAACT
5135909 GTAAGGCTTACCTTCGCACACAGCAAAGGGACCTGGGAAACT
1 GTAAGGCTTACCTT-GCACACAGCAAAGGGACCT-GGAAACT
*
5135951 GTAAGGCTTACCTTTGCACACAACAAAGGGACCTG
1 GTAAGGCTTACC-TTGCACACAGCAAAGGGACCTG
5135986 ATAATACTTC
Statistics
Matches: 148, Mismatches: 6, Indels: 17
0.87 0.04 0.10
Matches are distributed among these distances:
41 6 0.04
42 108 0.73
43 20 0.14
44 14 0.09
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (40 bp):
GTAAGGCTTACCTTGCACACAGCAAAGGGACCTGGAAACT
Found at i:5135928 original size:84 final size:84
Alignment explanation
Indices: 5135781--5135985 Score: 288
Period size: 84 Copynumber: 2.4 Consensus size: 84
5135771 CTATACACCA
* * * *
5135781 GTAAGGCTTAACCTGTGCACAAAGCATA-GGAGCCTAGGAAAACTGTAAGGTTTATCCTTGCACA
1 GTAAGGCTTACCCT-TGCACACAGCAAAGGGA-CCT-GGAAAACTGTAAGGCTTATCCTTGCACA
*
5135845 CAGCAAAGGGACCTGTGAAACT
63 CAGCAAAGGGACCTGGGAAACT
*
5135867 GTAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGTAAACTGTAAGGCTTA-CCTTCGCACACA
1 GTAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGAAAACTGTAAGGCTTATCCTT-GCACACA
5135931 GCAAAGGGACCTGGGAAACT
65 GCAAAGGGACCTGGGAAACT
* *
5135951 GTAAGGCTTACCTTTGCACACAACAAAGGGACCTG
1 GTAAGGCTTACCCTTGCACACAGCAAAGGGACCTG
5135986 ATAATACTTC
Statistics
Matches: 109, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
83 4 0.04
84 75 0.69
85 14 0.13
86 16 0.15
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (84 bp):
GTAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGAAAACTGTAAGGCTTATCCTTGCACACAG
CAAAGGGACCTGGGAAACT
Found at i:5136948 original size:29 final size:29
Alignment explanation
Indices: 5136912--5137032 Score: 115
Period size: 29 Copynumber: 4.1 Consensus size: 29
5136902 CATTTTACAG
*
5136912 AAATAGCACCCTTTTTTAAAT-AATTACCA
1 AAATAGCACCCTTTTTTAATTAAATT-CCA
*
5136941 AAATAGCACAC-TTTTTAATTAAATTCCCA
1 AAATAGCACCCTTTTTTAATTAAATT-CCA
*
5136970 AAATAGCA-CCTTTTTCGAATTAAATTCACA
1 AAATAGCACCCTTTTT-TAATTAAATTC-CA
* **
5137000 AAATAGCACCCATTTCAAATT-AATTCCA
1 AAATAGCACCCTTTTTTAATTAAATTCCA
5137028 CAAAT
1 -AAAT
5137033 GTCAACGGTC
Statistics
Matches: 78, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
28 11 0.14
29 39 0.50
30 23 0.29
31 5 0.06
ACGTcount: A:0.42, C:0.21, G:0.04, T:0.32
Consensus pattern (29 bp):
AAATAGCACCCTTTTTTAATTAAATTCCA
Found at i:5137021 original size:30 final size:29
Alignment explanation
Indices: 5136939--5137031 Score: 98
Period size: 30 Copynumber: 3.1 Consensus size: 29
5136929 AAATAATTAC
* ** *
5136939 CAAAATAGCACACTTTTTAATTAAATTCC
1 CAAAATAGCACCCTTTCAAATTAAATTCA
* *
5136968 CAAAATAGCACCTTTTTCGAATTAAATTCA
1 CAAAATAGCACC-CTTTCAAATTAAATTCA
5136998 CAAAATAGCACCCATTTCAAATT-AATTCCA
1 CAAAATAGCACCC-TTTCAAATTAAATT-CA
5137028 CAAA
1 CAAA
5137032 TGTCAACGGT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
29 15 0.28
30 39 0.72
ACGTcount: A:0.43, C:0.23, G:0.04, T:0.30
Consensus pattern (29 bp):
CAAAATAGCACCCTTTCAAATTAAATTCA
Found at i:5137069 original size:18 final size:18
Alignment explanation
Indices: 5137045--5137096 Score: 70
Period size: 17 Copynumber: 2.9 Consensus size: 18
5137035 CAACGGTCAA
5137045 CGGTCAACGGGTCGGGTT
1 CGGTCAACGGGTCGGGTT
* *
5137063 GGGTCAACGGTTCGGG-T
1 CGGTCAACGGGTCGGGTT
*
5137080 CGATCAACGGGTCGGGT
1 CGGTCAACGGGTCGGGT
5137097 CGGAACCGGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.13, C:0.21, G:0.44, T:0.21
Consensus pattern (18 bp):
CGGTCAACGGGTCGGGTT
Found at i:5143223 original size:43 final size:40
Alignment explanation
Indices: 5143160--5143359 Score: 170
Period size: 42 Copynumber: 4.7 Consensus size: 40
5143150 CTATACACCA
* *
5143160 GTAAGGATTAACCTGTGCACAAAGCAGAGGAGCCTAGGAAAACT
1 GTAAGGCTT-ACCT-TGCACAAAGCAAAGG-GCCTAGG-AAACT
*
5143204 GTAAGGTTTATCCTTGCACACAA-CAAAGGGACCTAGGAAACT
1 GTAAGGCTTA-CCTTGCACA-AAGCAAAGGG-CCTAGGAAACT
* *
5143246 GTAAGGCTTACCATTGCACACAGCAAAGGGAC-ATGGTAAACT
1 GTAAGGCTTACC-TTGCACAAAGCAAAGGGCCTA-GG-AAACT
* *
5143288 GTAAGGCTTACCTTCGCACACAGCAAAGGGACCTGGGAAACT
1 GTAAGGCTTACCTT-GCACAAAGCAAAGGG-CCTAGGAAACT
* * * *
5143330 ATAAGTCTTAACTTCGCACACAGCAAAGGG
1 GTAAGGCTTACCTT-GCACAAAGCAAAGGG
5143360 ACCTGATAAT
Statistics
Matches: 136, Mismatches: 10, Indels: 22
0.81 0.06 0.13
Matches are distributed among these distances:
40 1 0.01
41 8 0.06
42 93 0.68
43 21 0.15
44 13 0.10
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.18
Consensus pattern (40 bp):
GTAAGGCTTACCTTGCACAAAGCAAAGGGCCTAGGAAACT
Found at i:5143364 original size:42 final size:42
Alignment explanation
Indices: 5143199--5143364 Score: 228
Period size: 42 Copynumber: 4.0 Consensus size: 42
5143189 GAGCCTAGGA
* * *
5143199 AAACTGTAAGGTTTATCCTT-GCACACAACAAAGGGACCTAGG
1 AAACTGTAAGGCTTA-CCTTCGCACACAGCAAAGGGACCTGGG
* *
5143241 AAACTGTAAGGCTTACCATT-GCACACAGCAAAGGGACATGGT
1 AAACTGTAAGGCTTACC-TTCGCACACAGCAAAGGGACCTGGG
5143283 AAACTGTAAGGCTTACCTTCGCACACAGCAAAGGGACCTGGG
1 AAACTGTAAGGCTTACCTTCGCACACAGCAAAGGGACCTGGG
* * *
5143325 AAACTATAAGTCTTAACTTCGCACACAGCAAAGGGACCTG
1 AAACTGTAAGGCTTACCTTCGCACACAGCAAAGGGACCTG
5143365 ATAATACTTC
Statistics
Matches: 112, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
41 4 0.04
42 108 0.96
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.19
Consensus pattern (42 bp):
AAACTGTAAGGCTTACCTTCGCACACAGCAAAGGGACCTGGG
Found at i:5144338 original size:29 final size:29
Alignment explanation
Indices: 5144312--5144421 Score: 127
Period size: 29 Copynumber: 3.8 Consensus size: 29
5144302 CACATTTTTT
*
5144312 AATTAAATTCCCAAAATAGCA-CTTTTTCA
1 AATT-AATTCCCAAAATAGCACCTTTTTCG
5144341 AATTAAATTCCC-AAATAAGCACCCTTTTT-G
1 AATT-AATTCCCAAAAT-AGCA-CCTTTTTCG
* *
5144371 AACTAATTCCCAAAATAGCACCTATTTCG
1 AATTAATTCCCAAAATAGCACCTTTTTCG
*
5144400 AATTAATTCCTAAAATAGCACC
1 AATTAATTCCCAAAATAGCACC
5144422 CATTTCAACG
Statistics
Matches: 71, Mismatches: 5, Indels: 10
0.83 0.06 0.12
Matches are distributed among these distances:
28 10 0.14
29 48 0.68
30 7 0.10
31 6 0.08
ACGTcount: A:0.40, C:0.24, G:0.05, T:0.31
Consensus pattern (29 bp):
AATTAATTCCCAAAATAGCACCTTTTTCG
Found at i:5144459 original size:17 final size:17
Alignment explanation
Indices: 5144437--5144473 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
5144427 CAACGGTCAA
5144437 CGGTTAACGAGTCGGGT
1 CGGTTAACGAGTCGGGT
* *
5144454 CGGTTAACGGGTCTGGT
1 CGGTTAACGAGTCGGGT
5144471 CGG
1 CGG
5144474 AACCGGTCAA
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:0.14, C:0.19, G:0.43, T:0.24
Consensus pattern (17 bp):
CGGTTAACGAGTCGGGT
Found at i:5144488 original size:9 final size:9
Alignment explanation
Indices: 5144474--5144520 Score: 58
Period size: 9 Copynumber: 5.0 Consensus size: 9
5144464 GTCTGGTCGG
5144474 AACCGGTCA
1 AACCGGTCA
5144483 AACCGGTCA
1 AACCGGTCA
* *
5144492 AACCAGTTATA
1 AACC-GGT-CA
5144503 AACCGGTCA
1 AACCGGTCA
5144512 AACCGGTCA
1 AACCGGTCA
5144521 TTTCGACCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 23 0.72
10 4 0.12
11 5 0.16
ACGTcount: A:0.36, C:0.30, G:0.19, T:0.15
Consensus pattern (9 bp):
AACCGGTCA
Found at i:5146372 original size:15 final size:16
Alignment explanation
Indices: 5146348--5146380 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
5146338 TATCATGAGC
*
5146348 AAAATTTGTTTA-TAA
1 AAAATGTGTTTATTAA
5146363 AAAATGTGTTTATTAA
1 AAAATGTGTTTATTAA
5146379 AA
1 AA
5146381 TAAATAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (16 bp):
AAAATGTGTTTATTAA
Found at i:5151374 original size:24 final size:24
Alignment explanation
Indices: 5151347--5151396 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
5151337 AAACGGAGAT
*
5151347 ATCAAATATCAAAACAGAATTCAG
1 ATCAAATATCAAAACAGAATCCAG
* * *
5151371 ATCAGATATCAGAACATAATCCAG
1 ATCAAATATCAAAACAGAATCCAG
5151395 AT
1 AT
5151397 TAGAAATCAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.50, C:0.18, G:0.10, T:0.22
Consensus pattern (24 bp):
ATCAAATATCAAAACAGAATCCAG
Found at i:5151405 original size:24 final size:24
Alignment explanation
Indices: 5151354--5151438 Score: 73
Period size: 24 Copynumber: 3.5 Consensus size: 24
5151344 GATATCAAAT
* * *
5151354 ATCAAAACAGAATTCAGATCAGAT
1 ATCAGAACAGAATCCAGATCAGAA
* *
5151378 ATCAGAACATAATCCAGATTAGAA
1 ATCAGAACAGAATCCAGATCAGAA
* * **
5151402 ATCAGAATAGAATCTA-AGTCAGGT
1 ATCAGAACAGAATCCAGA-TCAGAA
5151426 ATCAGAACAGAAT
1 ATCAGAACAGAAT
5151439 TCAAATTGGA
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
23 1 0.02
24 47 0.98
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.21
Consensus pattern (24 bp):
ATCAGAACAGAATCCAGATCAGAA
Found at i:5153761 original size:26 final size:25
Alignment explanation
Indices: 5153722--5153770 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
5153712 GTCAACGGTA
5153722 GTCAACGCCAGTCAACGGGGTCAACG
1 GTCAACGCCAGTCAAC-GGGTCAACG
**
5153748 GTCAACGCTGGTCAACGGGTCAA
1 GTCAACGCCAGTCAACGGGTCAA
5153771 TGGTTTTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.27, C:0.29, G:0.31, T:0.14
Consensus pattern (25 bp):
GTCAACGCCAGTCAACGGGTCAACG
Found at i:5155330 original size:81 final size:80
Alignment explanation
Indices: 5155190--5155455 Score: 403
Period size: 81 Copynumber: 3.3 Consensus size: 80
5155180 TTGGGTCCTA
* * * *
5155190 TGGGCCTACCCAAAGATATCCTTAGATCTGTAGGGTTACCTTAAGCACACAAAAAAAGGGAACCA
1 TGGGCCTACCCAAGGACATCCTTAGATCCGTAGGGTTA-CTTAAGCACACAACAAAAGGGAACCA
*
5155255 ACCTAAGGATATACCT
65 ACCTAAGGATATGCCT
*
5155271 TGGGTCTACCCAAGGACATCCTTAGATCCGTAGGGTTAGCTTAAGCACACAACAAAAGGGAACCA
1 TGGGCCTACCCAAGGACATCCTTAGATCCGTAGGGTTA-CTTAAGCACACAACAAAAGGGAACCA
5155336 ACCTAAGGATATGCCT
65 ACCTAAGGATATGCCT
*
5155352 TGGGCCTACCCAAGGGCATCCTTAGATCCGTAGGGTTACTTTATA-CACACAAC-AAAGGGAACC
1 TGGGCCTACCCAAGGACATCCTTAGATCCGTAGGGTTAC-TTA-AGCACACAACAAAAGGGAACC
5155415 AACCTAAGGATATGCCT
64 AACCTAAGGATATGCCT
*
5155432 TGGGCCTACCCAA-GATATCCTTAG
1 TGGGCCTACCCAAGGACATCCTTAG
5155456 GTATATAAGG
Statistics
Matches: 172, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
79 9 0.05
80 41 0.24
81 121 0.70
82 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (80 bp):
TGGGCCTACCCAAGGACATCCTTAGATCCGTAGGGTTACTTAAGCACACAACAAAAGGGAACCAA
CCTAAGGATATGCCT
Found at i:5160597 original size:81 final size:81
Alignment explanation
Indices: 5160412--5160681 Score: 391
Period size: 81 Copynumber: 3.3 Consensus size: 81
5160402 GGCCTATGTT
* *
5160412 CCTACCCAAGGATATCCTTAGATCCGTAGGGTTACCTTAAGCACACAACAAAAAGAGAACCAACC
1 CCTACCCAAGGACATCCTTAGATCCGTAGGGTTACCTTAAGCACACAAC-AAAAGGGAACCAACC
*
5160477 TAAGGATATACATTGGG
65 TAAGGATATACCTTGGG
*
5160494 TCTACCCAAGGACATCCTTAGATCCGTAGGGTTACCTTAAGCACACAACAAAAGGGAACCAACCT
1 CCTACCCAAGGACATCCTTAGATCCGTAGGGTTACCTTAAGCACACAACAAAAGGGAACCAACCT
* * * **
5160559 TAGCATATTCCTTAAG
66 AAGGATATACCTTGGG
* *
5160575 CCTACCCAAGGGCATCCTTAGATCCGTAGGGTTACCTTATGCACACAAC-AAAGGGAACCAACCT
1 CCTACCCAAGGACATCCTTAGATCCGTAGGGTTACCTTAAGCACACAACAAAAGGGAACCAACCT
*
5160639 AAGGATATGCCTTGGG
66 AAGGATATACCTTGGG
* *
5160655 CCTACCCAA-GATATCCTTAGGTCCGTA
1 CCTACCCAAGGACATCCTTAGATCCGTA
5160682 AGGACTTATA
Statistics
Matches: 168, Mismatches: 20, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
79 15 0.09
80 35 0.21
81 71 0.42
82 47 0.28
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (81 bp):
CCTACCCAAGGACATCCTTAGATCCGTAGGGTTACCTTAAGCACACAACAAAAGGGAACCAACCT
AAGGATATACCTTGGG
Found at i:5167853 original size:59 final size:59
Alignment explanation
Indices: 5167601--5167854 Score: 187
Period size: 59 Copynumber: 4.3 Consensus size: 59
5167591 GTATACTTCC
** * * *
5167601 CCTT-TCATTTTAGCACA-CAAAGTGCCCTAT-TCGAATATCCATACCATT-AGTAGGCTTT
1 CCTTATCATTTTAGCACATGTAA-TGCCCTATCTGGAA-ATCCATA-CATTCAGTATGATTT
** * * * ** *
5167659 TGTTACCATTTTAGAACATGAAATGCCCTATGAGAAAATCCATACCATT-AGTATGATTT
1 CCTTATCATTTTAGCACATGTAATGCCCTATCTGGAAATCCATA-CATTCAGTATGATTT
* * * * ** * * * *
5167718 CCTTATCCTTGTAGCACCCT-TAGTGCTTTATTTGGAAATTCATACACTCAGTATGATTC
1 CCTTATCATTTTAGCA-CATGTAATGCCCTATCTGGAAATCCATACATTCAGTATGATTT
* * *
5167777 CCTTACCATTTTAGCACATGTAATGCCCTATCTGGAAATCCATATATTCAATATGATTT
1 CCTTATCATTTTAGCACATGTAATGCCCTATCTGGAAATCCATACATTCAGTATGATTT
5167836 CCTTATCATTTTAGCACAT
1 CCTTATCATTTTAGCACAT
5167855 ATAGTGTCAT
Statistics
Matches: 149, Mismatches: 41, Indels: 11
0.74 0.20 0.05
Matches are distributed among these distances:
58 7 0.05
59 135 0.91
60 7 0.05
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (59 bp):
CCTTATCATTTTAGCACATGTAATGCCCTATCTGGAAATCCATACATTCAGTATGATTT
Found at i:5170300 original size:15 final size:16
Alignment explanation
Indices: 5170276--5170308 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
5170266 TTTCACAAGC
*
5170276 AAAATTTGTTTA-TAA
1 AAAATGTGTTTATTAA
5170291 AAAATGTGTTTATTAA
1 AAAATGTGTTTATTAA
5170307 AA
1 AA
5170309 CAAATAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (16 bp):
AAAATGTGTTTATTAA
Found at i:5173477 original size:34 final size:36
Alignment explanation
Indices: 5173415--5173560 Score: 118
Period size: 38 Copynumber: 3.8 Consensus size: 36
5173405 TGTCCATGGT
*
5173415 TTACGGTTATTGGTTATTAAATGGTAAGTATGC-AT-TGC
1 TTACGGTTA-TGG--ATT-AATGGTAAGTATGCAATAAGC
5173453 TTACGGTTATGGATTAATGGTAAGTATGCAAATAAGC
1 TTACGGTTATGGATTAATGGTAAGTATGC-AATAAGC
*
5173490 TTACGAGCTTATGGA-TAATGGTAAGTATTGGTAAAATAAGC
1 TTACG-G-TTATGGATTAATGGTAAGTA-T-G--CAATAAGC
*
5173531 TTACGAGCTTATGGGATAAATGGTAAGTAT
1 TTACG-G-TTAT-GGATTAATGGTAAGTAT
5173561 ATTGGTAAAA
Statistics
Matches: 94, Mismatches: 3, Indels: 18
0.82 0.03 0.16
Matches are distributed among these distances:
34 14 0.15
35 3 0.03
36 2 0.02
37 10 0.11
38 22 0.23
39 8 0.09
40 1 0.01
41 19 0.20
42 4 0.04
43 11 0.12
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.35
Consensus pattern (36 bp):
TTACGGTTATGGATTAATGGTAAGTATGCAATAAGC
Found at i:5173579 original size:45 final size:45
Alignment explanation
Indices: 5173482--5173647 Score: 241
Period size: 45 Copynumber: 3.8 Consensus size: 45
5173472 GTAAGTATGC
*
5173482 AAATAAGCTTACGAGCTTAT-GGAT-AATGGTAAG--TATTGGTA
1 AAATAAGCTTACAAGCTTATGGGATAAATGGTAAGTATATTGGTA
*
5173523 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACAAGCTTATGGGATAAATGGTAAGTATATTGGTA
* * *
5173568 AAATAAGCTTACAAGCTTATGGGTTAAATGGTAAGTATTTTGGTC
1 AAATAAGCTTACAAGCTTATGGGATAAATGGTAAGTATATTGGTA
* *
5173613 AAATAAGCTTACAAGCTTATTGGACAAATGGTAAG
1 AAATAAGCTTACAAGCTTATGGGATAAATGGTAAG
5173648 AGATTTTATA
Statistics
Matches: 114, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
41 20 0.18
42 4 0.04
43 9 0.08
45 81 0.71
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACAAGCTTATGGGATAAATGGTAAGTATATTGGTA
Found at i:5178773 original size:15 final size:16
Alignment explanation
Indices: 5178749--5178781 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
5178739 TATCAAAAGC
*
5178749 AAAATTTGTTTA-TAA
1 AAAATGTGTTTATTAA
5178764 AAAATGTGTTTATTAA
1 AAAATGTGTTTATTAA
5178780 AA
1 AA
5178782 CAAATAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (16 bp):
AAAATGTGTTTATTAA
Found at i:5179712 original size:13 final size:13
Alignment explanation
Indices: 5179693--5179737 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
5179683 AACCCGACCC
5179693 GACCCGACCCCTT
1 GACCCGACCCCTT
* *
5179706 TACCCGACCCGTT
1 GACCCGACCCCTT
* *
5179719 GACCCGACTCGTT
1 GACCCGACCCCTT
5179732 GACCCG
1 GACCCG
5179738 TTGACCGTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.16, C:0.47, G:0.20, T:0.18
Consensus pattern (13 bp):
GACCCGACCCCTT
Found at i:5181456 original size:20 final size:20
Alignment explanation
Indices: 5181431--5181468 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
5181421 ATCCTATTCC
5181431 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
5181451 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
5181469 GTGAACCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.37
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:5182931 original size:24 final size:24
Alignment explanation
Indices: 5182862--5182933 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
5182852 ATACGTTACC
*
5182862 TGAATTCTGTTATGA-TTCTGATT
1 TGAATTCTGTTATGATTTCTGATA
* * *
5182885 TGGATTCTGTTCTGATATCTGATA
1 TGAATTCTGTTATGATTTCTGATA
* *
5182909 TGAATTCTGTTTTGATTTTTGATA
1 TGAATTCTGTTATGATTTCTGATA
5182933 T
1 T
5182934 CTTCTTTTAC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 13 0.32
24 27 0.68
ACGTcount: A:0.21, C:0.08, G:0.18, T:0.53
Consensus pattern (24 bp):
TGAATTCTGTTATGATTTCTGATA
Found at i:5186273 original size:43 final size:43
Alignment explanation
Indices: 5186212--5186297 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
5186202 TATTATGTCT
*
5186212 TATAATCCTTTGTTAATTGATGCAAGTGAATATCTTTAAATGG
1 TATAATCATTTGTTAATTGATGCAAGTGAATATCTTTAAATGG
5186255 TATAATCATTTGTTAATTGATGCAAGTGAATATCTTTAAATGG
1 TATAATCATTTGTTAATTGATGCAAGTGAATATCTTTAAATGG
5186298 ATGGTGAGGG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.42
Consensus pattern (43 bp):
TATAATCATTTGTTAATTGATGCAAGTGAATATCTTTAAATGG
Found at i:5187369 original size:24 final size:24
Alignment explanation
Indices: 5187341--5187435 Score: 91
Period size: 24 Copynumber: 4.0 Consensus size: 24
5187331 ATATGTAAAA
* * *
5187341 AATCAAAACATAATTCAGGTCAAG
1 AATCAAATCAAAATCCAGGTCAAG
* *
5187365 AATCATATCAAAATCCATGTCAAG
1 AATCAAATCAAAATCCAGGTCAAG
* * *
5187389 TATCAGATCAGAATCCAGGTCAAG
1 AATCAAATCAAAATCCAGGTCAAG
* * *
5187413 TATCAAATCAGAATCCATGTCAA
1 AATCAAATCAAAATCCAGGTCAA
5187436 ATATCATAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 60 1.00
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.23
Consensus pattern (24 bp):
AATCAAATCAAAATCCAGGTCAAG
Found at i:5187440 original size:24 final size:24
Alignment explanation
Indices: 5187359--5187450 Score: 114
Period size: 24 Copynumber: 3.8 Consensus size: 24
5187349 CATAATTCAG
* * *
5187359 GTCAAGAATCATATCAAAATCCAT
1 GTCAAGTATCAAATCAGAATCCAT
* *
5187383 GTCAAGTATCAGATCAGAATCCAG
1 GTCAAGTATCAAATCAGAATCCAT
5187407 GTCAAGTATCAAATCAGAATCCAT
1 GTCAAGTATCAAATCAGAATCCAT
*
5187431 GTCAAATATCATAAT-AGAAT
1 GTCAAGTATCA-AATCAGAAT
5187451 TCAAATCAGA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
24 57 0.95
25 3 0.05
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAAATCAGAATCCAT
Found at i:5187450 original size:48 final size:48
Alignment explanation
Indices: 5187333--5187450 Score: 130
Period size: 48 Copynumber: 2.5 Consensus size: 48
5187323 ATAAACGGAT
* * * * * *
5187333 ATGTAAAAAATCAAAACATAATTCAGGTCAAGAATCATATCAAAATCC
1 ATGTCAAATATCAAATCAGAATCCAGGTCAAGAATCAAATCAAAATCC
* * * *
5187381 ATGTCAAGTATCAGATCAGAATCCAGGTCAAGTATCAAATCAGAATCC
1 ATGTCAAATATCAAATCAGAATCCAGGTCAAGAATCAAATCAAAATCC
5187429 ATGTCAAATATCATAAT-AGAAT
1 ATGTCAAATATCA-AATCAGAAT
5187451 TCAAATCAGA
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
48 55 0.96
49 2 0.04
ACGTcount: A:0.47, C:0.17, G:0.12, T:0.25
Consensus pattern (48 bp):
ATGTCAAATATCAAATCAGAATCCAGGTCAAGAATCAAATCAAAATCC
Found at i:5192102 original size:24 final size:24
Alignment explanation
Indices: 5192075--5192165 Score: 103
Period size: 24 Copynumber: 3.8 Consensus size: 24
5192065 ATAATTTAGT
*
5192075 TCAAGTATCATATCAAAATCCATG
1 TCAAGTATCATATCAGAATCCATG
* * * *
5192099 TCAAGTATTAGAGCAGAATCCAGG
1 TCAAGTATCATATCAGAATCCATG
*
5192123 TCAAGTATCAAATCAGAATCCACT-
1 TCAAGTATCATATCAGAATCCA-TG
*
5192147 TCAAGTATCATAACAGAAT
1 TCAAGTATCATATCAGAAT
5192166 TCAAATCAAA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
24 55 1.00
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (24 bp):
TCAAGTATCATATCAGAATCCATG
Found at i:5195045 original size:252 final size:252
Alignment explanation
Indices: 5194600--5195103 Score: 936
Period size: 252 Copynumber: 2.0 Consensus size: 252
5194590 ATTTACAAAA
5194600 CTAACATCCAAATTTTGCACAAATATCACCCTAACAGTAATTAATTATAAAATTAACCCCCAACG
1 CTAACATCCAAATTTTGCACAAATATCACCCTAACAGTAATTAATTATAAAATTAACCCCCAACG
5194665 CACAGTGACATCGCGTGATCAGTGATACGGTGTCAGAAAATTCCCGAAAATTTTCCTAATGATTA
66 CACAGTGACATCGCGTGATCAGTGATACGGTGTCAGAAAATTCCCGAAAATTTTCCTAATGATTA
5194730 TTTTAAGACATTTTGAGACACTTACCAAGCTTGGTTCACAATTTTGAACGGCAGAGAGCTCGATT
131 TTTTAAGACATTTTGAGACACTTACCAAGCTTGGTTCACAATTTTGAACGGCAGAGAGCTCGATT
*
5194795 CTGAAACATCAAAAACTTTGACTTTCTCACCCCGTCCACACGCCAATGACGACGGAG
196 CTGAAACATCAAAAACTTTGACTTTCTCACCCCCTCCACACGCCAATGACGACGGAG
* * *
5194852 CTAACATTCGAATTTTGCACAAATATCACCCTAACAGTAATTAATTATAAAATTAACCCCTAACG
1 CTAACATCCAAATTTTGCACAAATATCACCCTAACAGTAATTAATTATAAAATTAACCCCCAACG
* *
5194917 CGCAGTGACATCGCGTGATCAGTGATACGGTGTCAGAAAATTCCTGAAAATTTTCCTAATGATTA
66 CACAGTGACATCGCGTGATCAGTGATACGGTGTCAGAAAATTCCCGAAAATTTTCCTAATGATTA
*
5194982 TTTTAAGACATTTTGAGACACTTACCAAGCTTGGTTCACAATTTTGAACGGCGGAGAGCTCGATT
131 TTTTAAGACATTTTGAGACACTTACCAAGCTTGGTTCACAATTTTGAACGGCAGAGAGCTCGATT
*
5195047 CTGAAACATCGAAAACTTTGACTTTCTCACCCCCTCCACACGCCAATGACGACGGAG
196 CTGAAACATCAAAAACTTTGACTTTCTCACCCCCTCCACACGCCAATGACGACGGAG
5195104 AAACGGAGGA
Statistics
Matches: 244, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
252 244 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (252 bp):
CTAACATCCAAATTTTGCACAAATATCACCCTAACAGTAATTAATTATAAAATTAACCCCCAACG
CACAGTGACATCGCGTGATCAGTGATACGGTGTCAGAAAATTCCCGAAAATTTTCCTAATGATTA
TTTTAAGACATTTTGAGACACTTACCAAGCTTGGTTCACAATTTTGAACGGCAGAGAGCTCGATT
CTGAAACATCAAAAACTTTGACTTTCTCACCCCCTCCACACGCCAATGACGACGGAG
Found at i:5197026 original size:24 final size:24
Alignment explanation
Indices: 5196999--5197089 Score: 112
Period size: 24 Copynumber: 3.8 Consensus size: 24
5196989 ATAATTCAAT
* *
5196999 TCAAGTATCATATCAAAATCCATG
1 TCAAGTATCATATCAGAATCCACG
* * *
5197023 TCAAGTATCAGATCAGAATACAGG
1 TCAAGTATCATATCAGAATCCACG
5197047 TCAAGTATCA-ATTCAGAATCCACG
1 TCAAGTATCATA-TCAGAATCCACG
*
5197071 TCAAGTATCATAACAGAAT
1 TCAAGTATCATATCAGAAT
5197090 TCAAATCGGA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
23 1 0.02
24 56 0.97
25 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (24 bp):
TCAAGTATCATATCAGAATCCACG
Found at i:5203492 original size:24 final size:24
Alignment explanation
Indices: 5203402--5203485 Score: 98
Period size: 24 Copynumber: 3.5 Consensus size: 24
5203392 ATAATTCAAT
*
5203402 TCAAGTATCATATCAAAATCCATG
1 TCAAGTATCATATCAAAATCCACG
* * *
5203426 TCAAGTATCAGATCAAAATACAGG
1 TCAAGTATCATATCAAAATCCACG
* *
5203450 TTAAGTATCA-ATTCAGAATCCACG
1 TCAAGTATCATA-TCAAAATCCACG
5203474 TCAAGTATCATA
1 TCAAGTATCATA
5203486 ACAGAATTCA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
23 1 0.02
24 48 0.96
25 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (24 bp):
TCAAGTATCATATCAAAATCCACG
Found at i:5216786 original size:17 final size:17
Alignment explanation
Indices: 5216764--5216797 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
5216754 AGTCGCCAAG
5216764 CAGTTGACCGCCGTTGA
1 CAGTTGACCGCCGTTGA
*
5216781 CAGTTGACCGTCGTTGA
1 CAGTTGACCGCCGTTGA
5216798 TCGAACCGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.26, G:0.29, T:0.26
Consensus pattern (17 bp):
CAGTTGACCGCCGTTGA
Found at i:5236633 original size:2 final size:2
Alignment explanation
Indices: 5236626--5236659 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
5236616 TATTATTATC
*
5236626 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5236660 TTAATTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5236751 original size:3 final size:3
Alignment explanation
Indices: 5236721--5236784 Score: 76
Period size: 3 Copynumber: 21.3 Consensus size: 3
5236711 TATTTATTTA
* * * *
5236721 TAT TA- TAT TAC TAT TTT TCT TTT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5236768 TAT TAT TAT TAT CTAT T
1 TAT TAT TAT TAT -TAT T
5236785 TTTTTCTCTA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
2 2 0.04
3 48 0.91
4 3 0.06
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:5236966 original size:25 final size:25
Alignment explanation
Indices: 5236938--5237092 Score: 84
Period size: 25 Copynumber: 6.5 Consensus size: 25
5236928 AATTGTTATA
*
5236938 TTATTT-TTATTATTTTCTTCATTTT
1 TTATTTATT-TTATTTTATTCATTTT
5236963 TTATTTATTTTATTTTATTCA-TTT
1 TTATTTATTTTATTTTATTCATTTT
* *
5236987 TTATCTTCACTTTA-CTT-TT-ATTTT
1 TTAT-TT-ATTTTATTTTATTCATTTT
* * *
5237011 TTATTCA-TTTATTTTCTTTATTTT
1 TTATTTATTTTATTTTATTCATTTT
* *
5237035 TTA-TTATTTT-CTTTATGTCATTCGT
1 TTATTTATTTTATTTTAT-TCATT-TT
* *
5237060 TTA-TTACTTT-CTTTATT-A-TTT
1 TTATTTATTTTATTTTATTCATTTT
5237081 TTATTT-TTTTAT
1 TTATTTATTTTAT
5237093 CTAACACTTC
Statistics
Matches: 104, Mismatches: 14, Indels: 27
0.72 0.10 0.19
Matches are distributed among these distances:
21 11 0.11
22 6 0.06
23 11 0.11
24 32 0.31
25 37 0.36
26 7 0.07
ACGTcount: A:0.17, C:0.09, G:0.01, T:0.72
Consensus pattern (25 bp):
TTATTTATTTTATTTTATTCATTTT
Found at i:5236987 original size:34 final size:33
Alignment explanation
Indices: 5236933--5237044 Score: 86
Period size: 34 Copynumber: 3.2 Consensus size: 33
5236923 TATTTAATTG
*
5236933 TTATATTATTTTTATTATTTTCTTCATTTTTTAT
1 TTATTTTA-TTTTATTATTTTCTTCATTTTTTAT
**
5236967 TTATTTTATTTTATTCATTTTTATCTTCACTTTACT-T
1 TTATTTTATTTTATT-A--TTT-TCTTCA-TTTTTTAT
*
5237004 TTATTTT-TTATTCATTTATTTTCTTTATTTTTTA-
1 TTATTTTATT-TT-A-TTATTTTCTTCATTTTTTAT
5237038 TTATTTT
1 TTATTTT
5237045 CTTTATGTCA
Statistics
Matches: 63, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
33 7 0.11
34 19 0.30
35 5 0.08
36 8 0.13
37 16 0.25
38 6 0.10
39 2 0.03
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (33 bp):
TTATTTTATTTTATTATTTTCTTCATTTTTTAT
Found at i:5237017 original size:22 final size:21
Alignment explanation
Indices: 5236983--5237025 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
5236973 TATTTTATTC
*
5236983 ATTTTTATCTTCACTTTACTTTT
1 ATTTTTATATTCA-TTTA-TTTT
5237006 ATTTTT-TATTCATTTATTTT
1 ATTTTTATATTCATTTATTTT
5237026 CTTTATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 4 0.21
22 5 0.26
23 6 0.32
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.70
Consensus pattern (21 bp):
ATTTTTATATTCATTTATTTT
Found at i:5243133 original size:20 final size:19
Alignment explanation
Indices: 5243092--5243148 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 19
5243082 GATGAGGAAA
* *
5243092 TAAAATAAAAAGTAAAAGT
1 TAAAATAAAAAGAAAAAAT
*
5243111 TAAAATGAAATAGAAAAAAT
1 TAAAAT-AAAAAGAAAAAAT
*
5243131 TAAGGATAAAAGAGAAAA
1 TAA-AATAAAA-AGAAAA
5243149 TAAAAAGTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
19 6 0.20
20 16 0.53
21 8 0.27
ACGTcount: A:0.68, C:0.00, G:0.14, T:0.18
Consensus pattern (19 bp):
TAAAATAAAAAGAAAAAAT
Found at i:5243482 original size:16 final size:16
Alignment explanation
Indices: 5243446--5243476 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5243436 AATTATGTAC
5243446 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
5243462 AAAATAAAA-AAAATA
1 AAAATAAAATAAAATA
5243477 TTAAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:5247634 original size:21 final size:21
Alignment explanation
Indices: 5247608--5247649 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
5247598 TGAGCTATGT
*
5247608 CTTTGAAGTAAGGCGCCTTGA
1 CTTTGAAGTAAAGCGCCTTGA
*
5247629 CTTTGAAGTAAAGCTCCTTGA
1 CTTTGAAGTAAAGCGCCTTGA
5247650 TTCTTAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (21 bp):
CTTTGAAGTAAAGCGCCTTGA
Found at i:5262729 original size:17 final size:17
Alignment explanation
Indices: 5262707--5262739 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
5262697 CAACCTAGTA
*
5262707 GTTGACCGCCGTTGACT
1 GTTGACCACCGTTGACT
5262724 GTTGACCACCGTTGAC
1 GTTGACCACCGTTGAC
5262740 CATTGGCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.30, G:0.27, T:0.27
Consensus pattern (17 bp):
GTTGACCACCGTTGACT
Found at i:5265410 original size:31 final size:30
Alignment explanation
Indices: 5265375--5265449 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 30
5265365 CTAATGTGAC
* * *
5265375 TCTTGGGTAGGCTC-TGCAGCCCTGAGATCTT
1 TCTTGGATAGGCTCGTGC--CCCCGAGAACTT
*
5265406 TCTTGGCTAGGCCTCGTGCCCCCGAGAACTT
1 TCTTGGATAGG-CTCGTGCCCCCGAGAACTT
5265437 TCTTGGATAGGCT
1 TCTTGGATAGGCT
5265450 TTCAGGCCCC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
30 2 0.05
31 30 0.79
32 3 0.08
33 3 0.08
ACGTcount: A:0.13, C:0.28, G:0.28, T:0.31
Consensus pattern (30 bp):
TCTTGGATAGGCTCGTGCCCCCGAGAACTT
Found at i:5268359 original size:19 final size:19
Alignment explanation
Indices: 5268335--5268373 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
5268325 ATAATATTTA
* * *
5268335 AAATAATATTCTAAATCCT
1 AAATAAAATACTAAAACCT
5268354 AAATAAAATACTAAAACCT
1 AAATAAAATACTAAAACCT
5268373 A
1 A
5268374 TTTAAACTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.28
Consensus pattern (19 bp):
AAATAAAATACTAAAACCT
Done.