Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 6 of 214
Found at i:1738614 original size:44 final size:44
Alignment explanation
Indices: 1738474--1738614 Score: 123
Period size: 44 Copynumber: 3.1 Consensus size: 44
1738464 TTAAATTTAT
1738474 CAATATAATTATACTTATCATGTATGTAAAATTTTGAATCAATA
1 CAATATAATTATACTTATCATGTATGTAAAATTTTGAATCAATA
* * * *
1738518 CAATAT-CTCTATA-ATATCA---ATCTAAATAGTGTTT-ATATTAAATTTA
1 CAATATAAT-TATACTTATCATGTATGTAAA-A-T-TTTGA-A-TCAA--TA
1738564 TCAATATAATTATACTTATCATGTATGTAAAATTTTGAATCAATA
1 -CAATATAATTATACTTATCATGTATGTAAAATTTTGAATCAATA
1738609 CAATAT
1 CAATAT
1738615 CTCTATAATA
Statistics
Matches: 74, Mismatches: 8, Indels: 30
0.66 0.07 0.27
Matches are distributed among these distances:
40 6 0.08
41 1 0.01
42 2 0.03
43 10 0.14
44 19 0.26
45 2 0.03
46 2 0.03
47 13 0.18
48 10 0.14
49 2 0.03
50 1 0.01
51 6 0.08
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.42
Consensus pattern (44 bp):
CAATATAATTATACTTATCATGTATGTAAAATTTTGAATCAATA
Found at i:1738619 original size:91 final size:91
Alignment explanation
Indices: 1738464--1738649 Score: 363
Period size: 91 Copynumber: 2.0 Consensus size: 91
1738454 AGTTCGATCG
1738464 TTAAATTTATCAATATAATTATACTTATCATGTATGTAAAATTTTGAATCAATACAATATCTCTA
1 TTAAATTTATCAATATAATTATACTTATCATGTATGTAAAATTTTGAATCAATACAATATCTCTA
1738529 TAATATCAATCTAAATAGTGTTTATA
66 TAATATCAATCTAAATAGTGTTTATA
1738555 TTAAATTTATCAATATAATTATACTTATCATGTATGTAAAATTTTGAATCAATACAATATCTCTA
1 TTAAATTTATCAATATAATTATACTTATCATGTATGTAAAATTTTGAATCAATACAATATCTCTA
*
1738620 TAATATCAATCTAAATATTGTTTATA
66 TAATATCAATCTAAATAGTGTTTATA
1738646 TTAA
1 TTAA
1738650 TATATGTATA
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 94 1.00
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.44
Consensus pattern (91 bp):
TTAAATTTATCAATATAATTATACTTATCATGTATGTAAAATTTTGAATCAATACAATATCTCTA
TAATATCAATCTAAATAGTGTTTATA
Found at i:1750165 original size:15 final size:16
Alignment explanation
Indices: 1750142--1750176 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1750132 TATTAATATT
*
1750142 TATTAAATTATTAAAA
1 TATTAAATTATAAAAA
1750158 TATT-AATTATAAAAA
1 TATTAAATTATAAAAA
1750173 TATT
1 TATT
1750177 TAAAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TATTAAATTATAAAAA
Found at i:1753504 original size:10 final size:10
Alignment explanation
Indices: 1753484--1753513 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
1753474 ATTAAGTTAA
1753484 TTAAGTTAAAC
1 TTAA-TTAAAC
1753495 TTAATTAAAC
1 TTAATTAAAC
1753505 TTAATTAAA
1 TTAATTAAA
1753514 TGTTAAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (10 bp):
TTAATTAAAC
Found at i:1756895 original size:57 final size:57
Alignment explanation
Indices: 1756705--1756900 Score: 268
Period size: 57 Copynumber: 3.3 Consensus size: 57
1756695 AATTGACTGT
*
1756705 AAAAAGGATCTATCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGTGTG
1 AAAAA-GATCTAGCCCGGACGGGTGAT-C--T--TGATATAGCCCTCCCGAAGAATATGTGTG
* *
1756768 AAAAAGATCTAACCCGGATGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTGTG
1 AAAAAGATCTAGCCCGGACGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTGTG
*
1756825 AAAAAGATCTAGCCCGGACGGGTGATCTTGATATAGCCCTCCCAAAGAATATGTG-G
1 AAAAAGATCTAGCCCGGACGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTGTG
* *
1756881 AAAATGGATTTAGCCCGGAC
1 AAAA-AGATCTAGCCCGGAC
1756901 AGGTAATATG
Statistics
Matches: 125, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
56 5 0.04
57 94 0.75
59 1 0.01
61 1 0.01
62 19 0.15
63 5 0.04
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.23
Consensus pattern (57 bp):
AAAAAGATCTAGCCCGGACGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTGTG
Found at i:1757154 original size:67 final size:67
Alignment explanation
Indices: 1757034--1757229 Score: 295
Period size: 67 Copynumber: 2.9 Consensus size: 67
1757024 TATATTATAA
* * *
1757034 GGGATTTAGCC-AGGACTGGTAATCCCGCTGTAAGAAATAAAGTTCGCGGGAGTGTGCTCTCTTA
1 GGGATTTAGCCTA-GACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGAGAGTGTGCTCTCTTA
1757098 CAG
65 CAG
* *
1757101 GGGATTTAGCCTAGATTGGTAATCCCGCTGTAAGAAATGAGGTTCTCGAGAGTGTGCTCTCTTAC
1 GGGATTTAGCCTAGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGAGAGTGTGCTCTCTTAC
1757166 AG
66 AG
** * *
1757168 AAGATTTAGCCTGGACTGGTAATCCCGTTGTAAGAAATGAGGTTCGCGAGAGTGTGCTCTCT
1 GGGATTTAGCCTAGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGAGAGTGTGCTCTCT
1757230 GAATTGGAAA
Statistics
Matches: 117, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
67 116 0.99
68 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.28
Consensus pattern (67 bp):
GGGATTTAGCCTAGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGAGAGTGTGCTCTCTTAC
AG
Found at i:1762015 original size:7 final size:7
Alignment explanation
Indices: 1762003--1762029 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
1761993 TCACTTAGTA
1762003 ATAATTT
1 ATAATTT
1762010 ATAATTT
1 ATAATTT
1762017 ATAATTT
1 ATAATTT
1762024 ATAATT
1 ATAATT
1762030 AAAAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
ATAATTT
Found at i:1762660 original size:6 final size:7
Alignment explanation
Indices: 1762643--1762672 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
1762633 TAAATTACAT
*
1762643 TTTTTAG
1 TTTTTAA
1762650 TTTTTAA
1 TTTTTAA
1762657 TTTTTAA
1 TTTTTAA
1762664 TTTTTAA
1 TTTTTAA
1762671 TT
1 TT
1762673 AAATAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (7 bp):
TTTTTAA
Found at i:1763434 original size:17 final size:17
Alignment explanation
Indices: 1763414--1763461 Score: 96
Period size: 17 Copynumber: 2.8 Consensus size: 17
1763404 TTATAAGTAT
1763414 AATAAATTTCTTTATCA
1 AATAAATTTCTTTATCA
1763431 AATAAATTTCTTTATCA
1 AATAAATTTCTTTATCA
1763448 AATAAATTTCTTTA
1 AATAAATTTCTTTA
1763462 ATTGAATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (17 bp):
AATAAATTTCTTTATCA
Found at i:1767639 original size:39 final size:38
Alignment explanation
Indices: 1767566--1767641 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 38
1767556 AGGTTATATA
* * * *
1767566 TCATTTTTCTAATATTATATATTATGATTTTTATTAAT
1 TCATATTTCTAATATTATATATTAAGAATATTATTAAT
1767604 TCATATTT-TAATAATTATTATATTAAGAATATTATTAA
1 TCATATTTCTAAT-ATTA-TATATTAAGAATATTATTAA
1767642 ATTATACATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
37 4 0.12
38 11 0.34
39 17 0.53
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.55
Consensus pattern (38 bp):
TCATATTTCTAATATTATATATTAAGAATATTATTAAT
Found at i:1767871 original size:16 final size:16
Alignment explanation
Indices: 1767833--1767876 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
1767823 CTGATTATAA
*
1767833 CTCTATTTCATTACAT
1 CTCTATTTCATTACAG
* *
1767849 CTTTATTTTATTACAG
1 CTCTATTTCATTACAG
*
1767865 CTCTATTCCATT
1 CTCTATTTCATT
1767877 TATCCCAACA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.23, C:0.23, G:0.02, T:0.52
Consensus pattern (16 bp):
CTCTATTTCATTACAG
Found at i:1779237 original size:210 final size:211
Alignment explanation
Indices: 1778869--1779265 Score: 600
Period size: 210 Copynumber: 1.9 Consensus size: 211
1778859 CTTTCTAAGG
* *
1778869 TGGAAAATAGCTTATTTATAGGCTAAATTCGTAGATCAAATAATACTAAAATAACCTACACTAAT
1 TGGAAAAGAGCTTATTTATAGGCTAAATTCATAGATCAAATAATACTAAAATAACCTACACTAAT
* *
1778934 CAGAGTTTGATTAGGACAAATAATAAGAATTTGACTGGAAGAAGAAAATTAAGGAAATTGCATAA
66 CAGAGTTTGATTAGGACAAATAATAAGAATTTGACTGGAAGAAGAAAATCAAGGAAATTACATAA
* * * * *
1778999 CACATCACCTCGTTAGGATGCTAGCTATCGCGTCGTTGTGACAA-AGGTTTCTTCTTATTAGGAT
131 CACATCACATCATCAGGATGCCAGCTATCGCGTCATTGTGACAAGAGGTTTCTTCTTATTAGGAT
1779063 CCAAGTGGTCGCATCT
196 CCAAGTGGTCGCATCT
* * * * * *
1779079 TGGAAAAGAGCTTATTTATATGTTAAATTTATAGGTCAAATAATATTAAAATAACCTATACTAAT
1 TGGAAAAGAGCTTATTTATAGGCTAAATTCATAGATCAAATAATACTAAAATAACCTACACTAAT
* *
1779144 TAGAGTTTGATT-GAGACAAATAATAAGAATTTGACTGGGAGAAGAAAATCAAGGAAATTACATA
66 CAGAGTTTGATTAG-GACAAATAATAAGAATTTGACTGGAAGAAGAAAATCAAGGAAATTACATA
* *
1779208 ACACATCGCATCATCAGGATGCCAGCTATCGCGTCATTGTGACAAGATGTTTCTTCTT
130 ACACATCACATCATCAGGATGCCAGCTATCGCGTCATTGTGACAAGAGGTTTCTTCTT
1779266 GTCAAGACGC
Statistics
Matches: 166, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
209 1 0.01
210 154 0.93
211 11 0.07
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (211 bp):
TGGAAAAGAGCTTATTTATAGGCTAAATTCATAGATCAAATAATACTAAAATAACCTACACTAAT
CAGAGTTTGATTAGGACAAATAATAAGAATTTGACTGGAAGAAGAAAATCAAGGAAATTACATAA
CACATCACATCATCAGGATGCCAGCTATCGCGTCATTGTGACAAGAGGTTTCTTCTTATTAGGAT
CCAAGTGGTCGCATCT
Found at i:1785087 original size:19 final size:19
Alignment explanation
Indices: 1785042--1785102 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
1785032 ATCTAATTAC
1785042 AAATATTTAATTATTATATTT
1 AAATATTTAATTA-TA-ATTT
*
1785063 AAATATTTAAATATAATTT
1 AAATATTTAATTATAATTT
*
1785082 ATATATTCTAATTA-AATTT
1 AAATATT-TAATTATAATTT
1785101 AA
1 AA
1785103 TAAATAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 7 0.20
21 12 0.34
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATATTTAATTATAATTT
Found at i:1785393 original size:13 final size:13
Alignment explanation
Indices: 1785330--1785396 Score: 54
Period size: 13 Copynumber: 5.5 Consensus size: 13
1785320 CATCTAAATT
1785330 TTCAAAAGTACTC
1 TTCAAAAGTACTC
*
1785343 CTCAAAA-T--TC
1 TTCAAAAGTACTC
*
1785353 -TCAAAAGTACTT
1 TTCAAAAGTACTC
* * *
1785365 TTCCATAGCACT-
1 TTCAAAAGTACTC
1785377 TTCAAAAGTACTC
1 TTCAAAAGTACTC
1785390 TTCAAAA
1 TTCAAAA
1785397 ACAATGAAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
9 6 0.15
10 3 0.07
12 11 0.27
13 21 0.51
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.31
Consensus pattern (13 bp):
TTCAAAAGTACTC
Found at i:1785666 original size:6 final size:6
Alignment explanation
Indices: 1785633--1785664 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
1785623 AACAATGGTC
*
1785633 AAGTCG AAGTCG AAGTCG AAGTCG AATTCG AA
1 AAGTCG AAGTCG AAGTCG AAGTCG AAGTCG AA
1785665 TTTCTTTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.38, C:0.16, G:0.28, T:0.19
Consensus pattern (6 bp):
AAGTCG
Found at i:1796664 original size:30 final size:29
Alignment explanation
Indices: 1796628--1796689 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 29
1796618 AGTGAACTGA
*
1796628 GTTGCTCACACAAGTTGAAATTACATCAAG
1 GTTGCTCACACAAGCTGAAATTACATC-AG
* *
1796658 GTTGCTCATACAAGCTGAAATTATATCAG
1 GTTGCTCACACAAGCTGAAATTACATCAG
1796687 GTT
1 GTT
1796690 ACCCGTCCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 5 0.17
30 24 0.83
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (29 bp):
GTTGCTCACACAAGCTGAAATTACATCAG
Found at i:1809988 original size:20 final size:20
Alignment explanation
Indices: 1809963--1810000 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1809953 AAAAAATTAA
1809963 AAATCCAAAAATCCAAATTC
1 AAATCCAAAAATCCAAATTC
* *
1809983 AAATCCATAAATTCAAAT
1 AAATCCAAAAATCCAAAT
1810001 AATATACACA
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:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (20 bp):
AAATCCAAAAATCCAAATTC
Found at i:1813842 original size:46 final size:46
Alignment explanation
Indices: 1813775--1814091 Score: 424
Period size: 46 Copynumber: 7.1 Consensus size: 46
1813765 TTTGAGTACT
* *
1813775 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1813821 TCTGATCAAGTGAAAAAGTGATAA---GT-GC--TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* * *
1813857 TCTGATCAAGTGAGAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
1813903 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* * *
1813949 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAACTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
1813995 TCTGATCAAGT-AACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAA-AAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
1814041 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1814086 TCTGAT
1 TCTGAT
1814092 TAGGGACAAG
Statistics
Matches: 243, Mismatches: 16, Indels: 25
0.86 0.06 0.09
Matches are distributed among these distances:
36 28 0.12
38 1 0.00
39 1 0.00
40 4 0.02
42 4 0.02
43 2 0.01
44 1 0.00
45 19 0.08
46 182 0.75
47 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (46 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:1813857 original size:36 final size:36
Alignment explanation
Indices: 1813811--1813883 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
1813801 GGTAGCTTTA
1813811 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
1813847 GCTATACTTATCTGATCAAGTGAGAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1813883 G
1 G
1813884 TTAGCCTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:1820500 original size:30 final size:30
Alignment explanation
Indices: 1820465--1820532 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
1820455 GAGCGGGATG
*
1820465 AAAAATGACAACTCCGTTA-AGTTTGTAACA
1 AAAAATGACAACTCCGTTATA-TCTGTAACA
* *
1820495 AAAAATGACAACTTCGTTATATCTGTGACA
1 AAAAATGACAACTCCGTTATATCTGTAACA
1820525 AAAAATGA
1 AAAAATGA
1820533 TTAGTGTGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 33 0.97
31 1 0.03
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (30 bp):
AAAAATGACAACTCCGTTATATCTGTAACA
Found at i:1827016 original size:18 final size:18
Alignment explanation
Indices: 1826993--1827028 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1826983 GGATATGTTG
1826993 CTCAAAATGTAGTAATAA
1 CTCAAAATGTAGTAATAA
1827011 CTCAAAATGTAGTAATAA
1 CTCAAAATGTAGTAATAA
1827029 TGGAGCATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.28
Consensus pattern (18 bp):
CTCAAAATGTAGTAATAA
Found at i:1828224 original size:29 final size:29
Alignment explanation
Indices: 1828190--1828290 Score: 132
Period size: 29 Copynumber: 3.5 Consensus size: 29
1828180 GTTTTGGAGA
* *
1828190 ATTTCAGGTTTTAGCCAAAGTGTTTTGTT
1 ATTTCAGGATTTAGCCAAAGTGCTTTGTT
*
1828219 ATTTCAGGATTTAGCCAAAATGCTTTGTT
1 ATTTCAGGATTTAGCCAAAGTGCTTTGTT
* *
1828248 CTTTCGGGATTTAGCCAAAGTGCTTTGTT
1 ATTTCAGGATTTAGCCAAAGTGCTTTGTT
*
1828277 CTTTC-GAGATTTAG
1 ATTTCAG-GATTTAG
1828291 GGTTGTTTGT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
28 1 0.02
29 64 0.98
ACGTcount: A:0.22, C:0.14, G:0.21, T:0.44
Consensus pattern (29 bp):
ATTTCAGGATTTAGCCAAAGTGCTTTGTT
Found at i:1832355 original size:17 final size:17
Alignment explanation
Indices: 1832333--1832366 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1832323 TTAGAATTGG
*
1832333 ATTGAGAAATTTATTTA
1 ATTGAGAAATTGATTTA
1832350 ATTGAGAAATTGATTTA
1 ATTGAGAAATTGATTTA
1832367 TTTAAATTAA
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:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (17 bp):
ATTGAGAAATTGATTTA
Found at i:1837850 original size:17 final size:17
Alignment explanation
Indices: 1837828--1837862 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1837818 TCCTTATGTA
1837828 TATTTGTTTCAT-TTATT
1 TATTTGTTT-ATATTATT
1837845 TATTTGTTTATATTATT
1 TATTTGTTTATATTATT
1837862 T
1 T
1837863 CTATGCTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.20, C:0.03, G:0.06, T:0.71
Consensus pattern (17 bp):
TATTTGTTTATATTATT
Found at i:1842548 original size:19 final size:19
Alignment explanation
Indices: 1842511--1842549 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1842501 TATATCCATA
*
1842511 TTAAATTATAATTATTATT
1 TTAAATTATAACTATTATT
1842530 TTAAATTAATAACTA-TATT
1 TTAAATT-ATAACTATTATT
1842549 T
1 T
1842550 AGTTCTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
TTAAATTATAACTATTATT
Found at i:1851696 original size:28 final size:28
Alignment explanation
Indices: 1851634--1851697 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
1851624 TTTTTTATAT
*
1851634 TTTGTTT-TTCTTTATTTACTTTTTCAG
1 TTTGTTTATCCTTTATTTACTTTTTCAG
* * *
1851661 TTTTTTTATCCTTTATTTGCTTTATTTA-
1 TTTGTTTATCCTTTATTTACTTT-TTCAG
1851689 TTTGTTTAT
1 TTTGTTTAT
1851698 TATTGGTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 6 0.20
28 21 0.70
29 3 0.10
ACGTcount: A:0.12, C:0.09, G:0.06, T:0.72
Consensus pattern (28 bp):
TTTGTTTATCCTTTATTTACTTTTTCAG
Found at i:1851751 original size:22 final size:22
Alignment explanation
Indices: 1851704--1851773 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
1851694 TTATTATTGG
* *
1851704 TTTTATAATATTTTAAATAT-T
1 TTTTTTAAAATTTTAAATATAT
1851725 ATTTTTTAAAATTTTAAATATAT
1 -TTTTTTAAAATTTTAAATATAT
* * *
1851748 TTTTTTAAAAATTCAAACATAT
1 TTTTTTAAAATTTTAAATATAT
1851770 TTTT
1 TTTT
1851774 AATATTATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
22 41 0.98
23 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTTTAAAATTTTAAATATAT
Found at i:1851835 original size:31 final size:33
Alignment explanation
Indices: 1851767--1851835 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 33
1851757 AATTCAAACA
1851767 TATTTTTAATATTATAAAACATTTAAAATATAT
1 TATTTTTAATATTATAAAACATTTAAAATATAT
* * * *
1851800 TATTTTTAA-A-TATATAACCTTTCAAATTTAT
1 TATTTTTAATATTATAAAACATTTAAAATATAT
1851831 TATTT
1 TATTT
1851836 GTTTTATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 22 0.69
32 1 0.03
33 9 0.28
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (33 bp):
TATTTTTAATATTATAAAACATTTAAAATATAT
Found at i:1851847 original size:33 final size:31
Alignment explanation
Indices: 1851767--1851847 Score: 72
Period size: 31 Copynumber: 2.5 Consensus size: 31
1851757 AATTCAAACA
*
1851767 TATTTTTAATATTATAAAACATTTAAAATATAT
1 TATTTTT--TATTATATAACATTTAAAATATAT
* * * * *
1851800 TATTTTTAAATATATAACCTTTCAAATTTAT
1 TATTTTTTATTATATAACATTTAAAATATAT
1851831 TATTTGTTTTATTATAT
1 TA-TT-TTTTATTATAT
1851848 TTTTAATGTA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
31 20 0.53
32 2 0.05
33 16 0.42
ACGTcount: A:0.40, C:0.05, G:0.01, T:0.54
Consensus pattern (31 bp):
TATTTTTTATTATATAACATTTAAAATATAT
Found at i:1851888 original size:35 final size:34
Alignment explanation
Indices: 1851841--1851944 Score: 90
Period size: 35 Copynumber: 3.0 Consensus size: 34
1851831 TATTTGTTTT
1851841 ATTATATTTTTAATGTATATTTTAAAAATTTTAAAA
1 ATTAT-TTTTTAAT-TATATTTTAAAAATTTTAAAA
* *
1851877 ATTATTTTTTAAAATTAT-TTTTAAAGATATTCAAAA
1 ATTATTTTTT--AATTATATTTTAAAAAT-TTTAAAA
* * *
1851913 GTT-TTTTTAAACTATA-TTT-AAAATTTTAAAA
1 ATTATTTTTTAATTATATTTTAAAAATTTTAAAA
1851944 A
1 A
1851945 ATAATATTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
31 6 0.11
32 4 0.07
33 8 0.14
35 19 0.34
36 16 0.29
37 3 0.05
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (34 bp):
ATTATTTTTTAATTATATTTTAAAAATTTTAAAA
Found at i:1851890 original size:13 final size:13
Alignment explanation
Indices: 1851869--1851901 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
1851859 ATTTTAAAAA
1851869 TTTTAAAAATTAT
1 TTTTAAAAATTAT
*
1851882 TTTTTAAAATTAT
1 TTTTAAAAATTAT
1851895 TTTTAAA
1 TTTTAAA
1851902 GATATTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TTTTAAAAATTAT
Found at i:1851898 original size:12 final size:12
Alignment explanation
Indices: 1851860--1851901 Score: 52
Period size: 13 Copynumber: 3.6 Consensus size: 12
1851850 TTAATGTATA
1851860 TTTTAAAA--AT
1 TTTTAAAATTAT
*
1851870 TTTAAAAATTATT
1 TTTTAAAATTA-T
1851883 TTTTAAAATTAT
1 TTTTAAAATTAT
1851895 TTTTAAA
1 TTTTAAA
1851902 GATATTCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 7 0.26
12 9 0.33
13 11 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TTTTAAAATTAT
Found at i:1851912 original size:22 final size:22
Alignment explanation
Indices: 1851887--1851939 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
1851877 ATTATTTTTT
1851887 AAAATTATTTTTAAA-GATATTC
1 AAAATT-TTTTTAAACGATATTC
* *
1851909 AAAAGTTTTTTTAAACTATATTT
1 AAAA-TTTTTTTAAACGATATTC
1851932 AAAATTTT
1 AAAATTTT
1851940 AAAAAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 16 0.59
23 11 0.41
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (22 bp):
AAAATTTTTTTAAACGATATTC
Found at i:1855461 original size:16 final size:15
Alignment explanation
Indices: 1855435--1855476 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
1855425 CAATATCTTT
*
1855435 AAAAGTAATTTTAAA
1 AAAAATAATTTTAAA
1855450 AAATAATAA-TTTAAA
1 AAA-AATAATTTTAAA
1855465 AAAAATATATTT
1 AAAAATA-ATTT
1855477 AAATTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 4 0.17
15 13 0.57
16 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (15 bp):
AAAAATAATTTTAAA
Found at i:1855465 original size:14 final size:15
Alignment explanation
Indices: 1855444--1855479 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
1855434 TAAAAGTAAT
1855444 TTTAAAAAATAATA-A
1 TTTAAAAAA-AATATA
1855459 TTTAAAAAAAATATA
1 TTTAAAAAAAATATA
1855474 TTTAAA
1 TTTAAA
1855480 TTTTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
TTTAAAAAAAATATA
Found at i:1855482 original size:21 final size:22
Alignment explanation
Indices: 1855457--1855501 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
1855447 AAAAAATAAT
1855457 AATTTAAAAAAAATA-TATTTA
1 AATTTAAAAAAAATACTATTTA
** *
1855478 AATTTTTAAAAAATACTTTTTA
1 AATTTAAAAAAAATACTATTTA
1855500 AA
1 AA
1855502 AATTTTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AATTTAAAAAAAATACTATTTA
Found at i:1855516 original size:23 final size:23
Alignment explanation
Indices: 1855464--1855534 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
1855454 AATAATTTAA
*
1855464 AAAAAATATATTT-AAAT-TTTT
1 AAAAAATACATTTAAAATATTTT
*
1855485 AAAAAATACTTTTTAAAA-ATTTT
1 AAAAAATAC-ATTTAAAATATTTT
* *
1855508 AAAATATACATTTAAAATATTAT
1 AAAAAATACATTTAAAATATTTT
1855531 AAAA
1 AAAA
1855535 CAAATAATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
21 8 0.20
22 10 0.24
23 23 0.56
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (23 bp):
AAAAAATACATTTAAAATATTTT
Found at i:1855524 original size:21 final size:21
Alignment explanation
Indices: 1855464--1855534 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
1855454 AATAATTTAA
* *
1855464 AAAAAATATATTTAAATTTTT
1 AAAAAATACATTTAAAATTTT
*
1855485 AAAAAATACTTTTTAAAAATTTT
1 AAAAAATAC-ATTT-AAAATTTT
* *
1855508 AAAATATACATTTAAAATATT
1 AAAAAATACATTTAAAATTTT
*
1855529 ATAAAA
1 AAAAAA
1855535 CAAATAATAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 19 0.47
22 6 0.15
23 15 0.38
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAAAATACATTTAAAATTTT
Found at i:1855611 original size:21 final size:22
Alignment explanation
Indices: 1855587--1855664 Score: 61
Period size: 22 Copynumber: 3.5 Consensus size: 22
1855577 TTTTAAATGT
*
1855587 TTTATAATATTAAAAAAT-ATA
1 TTTAAAATATTAAAAAATAATA
* *
1855608 TTTAAAATTTTTAAAAATAATA
1 TTTAAAATATTAAAAAATAATA
* * *
1855630 TTGTAAAACATT-TAAAATATACA
1 TT-TAAAATATTAAAAAATA-ATA
*
1855653 TTAAAAATATTA
1 TTTAAAATATTA
1855665 TAAACCAATA
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
21 15 0.34
22 18 0.41
23 11 0.25
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (22 bp):
TTTAAAATATTAAAAAATAATA
Found at i:1855621 original size:22 final size:22
Alignment explanation
Indices: 1855587--1855668 Score: 69
Period size: 21 Copynumber: 3.7 Consensus size: 22
1855577 TTTTAAATGT
*
1855587 TTTATAATA-TTAAAAAATATA
1 TTTAAAATATTTAAAAAATATA
*
1855608 TTTAAAAT-TTTTAAAAATAATA
1 TTTAAAATATTTAAAAAAT-ATA
* * *
1855630 TTGTAAAACATTTAAAATATACA
1 TT-TAAAATATTTAAAAAATATA
*
1855653 TTAAAAATATTATAAA
1 TTTAAAATATT-TAAA
1855669 CCAATAATAA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
21 15 0.31
22 12 0.25
23 13 0.27
24 8 0.17
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.40
Consensus pattern (22 bp):
TTTAAAATATTTAAAAAATATA
Found at i:1855714 original size:17 final size:17
Alignment explanation
Indices: 1855674--1855714 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
1855664 ATAAACCAAT
* *
1855674 AATAAACAAACAAATAA
1 AATAAAGAAACAAAGAA
*
1855691 AATAAAGAAAGAAAGAA
1 AATAAAGAAACAAAGAA
1855708 AATAAAG
1 AATAAAG
1855715 GACAAATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.76, C:0.05, G:0.10, T:0.10
Consensus pattern (17 bp):
AATAAAGAAACAAAGAA
Found at i:1856376 original size:37 final size:39
Alignment explanation
Indices: 1856321--1856393 Score: 105
Period size: 37 Copynumber: 1.9 Consensus size: 39
1856311 ATAAAAAAAA
*
1856321 TATTTTAAAAATAAAAAAATAAAAAA-ATATTTTTAAAG
1 TATTTTAAAAATAAAAAAATAAAAAATATATATTTAAAG
**
1856359 TATTTT-AAAATTTAAAAATAAAAAATATATATTTA
1 TATTTTAAAAATAAAAAAATAAAAAATATATATTTA
1856394 TTATATTCGG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 17 0.55
38 14 0.45
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (39 bp):
TATTTTAAAAATAAAAAAATAAAAAATATATATTTAAAG
Found at i:1862146 original size:31 final size:31
Alignment explanation
Indices: 1862102--1862169 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
1862092 AATAAAAAAA
* **
1862102 ATAAAAAAGATAAAATTATGTATATA-TATAT
1 ATAAAAAAAATAAAAAAATGTATA-AGTATAT
*
1862133 TTAAAAAAAATAAAAAAATGTATAAGTATAT
1 ATAAAAAAAATAAAAAAATGTATAAGTATAT
1862164 ATAAAA
1 ATAAAA
1862170 TATGAAGTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 1 0.03
31 30 0.97
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (31 bp):
ATAAAAAAAATAAAAAAATGTATAAGTATAT
Found at i:1863979 original size:89 final size:89
Alignment explanation
Indices: 1863863--1864616 Score: 1003
Period size: 89 Copynumber: 8.5 Consensus size: 89
1863853 AAGACTTGTA
* * * * * *
1863863 TCTTCAATCTACTTCGCCACC-GATATGGGAAGACAAGATTTGTTGTCTTTGATCTACTTCACGC
1 TCTTCGATCTGCTTCGCCACCAG-TATGGGAAGGCAAGATCTGTTATCTCTGATCTACTTCACGC
* * *
1863927 CAATATATGAAGACAAGATCTACTT
65 CAGTACATGAAGACAAGATCTGCTT
* * * * *
1863952 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGACCTACTT-TCT-TCGATCTACTTCACG
1 TCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCT-GTTATCTCT-GATCTACTTCACG
* * *
1864015 CTAATACATAAAGACAAGATCTGCTT
64 CCAGTACATGAAGACAAGATCTGCTT
* *
1864041 TCTTCGATCTGCTTCGCCACCAGTATGGGAATGCAAGATCTGTTATCTCTGATCTACTTTACGCC
1 TCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTCTGATCTACTTCACGCC
*
1864106 AGTACATGAAGACAAGATCTACTT
66 AGTACATGAAGACAAGATCTGCTT
* * *
1864130 TCTTTGATCTGCTTCACCACCAGTATGGGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCC
1 TCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTCTGATCTACTTCACGCC
*
1864195 AGTACATGAAGATAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
* * * *
1864219 TCTTTGATCTGCTCCGCCACCAGTATGGAAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCC
1 TCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTCTGATCTACTTCACGCC
*
1864284 AGTACATGAAGACAAGATCTGTTT
66 AGTACATGAAGACAAGATCTGCTT
* * *
1864308 TCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTTTGATTTACTTTACGCC
1 TCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTCTGATCTACTTCACGCC
* *
1864373 GGTACATGAAGACAAGAACTGCTT
66 AGTACATGAAGACAAGATCTGCTT
* * * * * *
1864397 TCTTTGACCTGCTTCGCCACCAGTATGGGAATGTAAGATATGGTATCTCTGATCTACTTCACGCC
1 TCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTCTGATCTACTTCACGCC
*
1864462 AGTACATGAAGACAAGATCTGTTT
66 AGTACATGAAGACAAGATCTGCTT
* * * * *
1864486 TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTATTATCTTTAATCTACTTCACGCC
1 TCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTCTGATCTACTTCACGCC
*
1864551 GGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
* *
1864575 TC-TCTGACCTGCTTCACCACCAGTATGGGAAGGCAAGATCTG
1 TCTTC-GATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTG
1864617 CTATATTCAA
Statistics
Matches: 587, Mismatches: 72, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
88 5 0.01
89 578 0.98
90 4 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (89 bp):
TCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTCTGATCTACTTCACGCC
AGTACATGAAGACAAGATCTGCTT
Found at i:1865597 original size:13 final size:13
Alignment explanation
Indices: 1865579--1865603 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1865569 AAATTGTCGA
1865579 GGATAACAAAGAT
1 GGATAACAAAGAT
1865592 GGATAACAAAGA
1 GGATAACAAAGA
1865604 AATTAATTTA
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:0.56, C:0.08, G:0.24, T:0.12
Consensus pattern (13 bp):
GGATAACAAAGAT
Found at i:1865986 original size:7 final size:7
Alignment explanation
Indices: 1865976--1866010 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
1865966 TATTTTTACT
1865976 TTTTTCA
1 TTTTTCA
1865983 TTTTTCA
1 TTTTTCA
1865990 -TTTTCA
1 TTTTTCA
1865996 TCTTTTCA
1 T-TTTTCA
1866004 TTTTTCA
1 TTTTTCA
1866011 CATCAGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.23
7 13 0.50
8 7 0.27
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTTTCA
Found at i:1865993 original size:14 final size:15
Alignment explanation
Indices: 1865976--1866010 Score: 56
Period size: 13 Copynumber: 2.5 Consensus size: 15
1865966 TATTTTTACT
1865976 TTTTTCAT-TTTTCA
1 TTTTTCATCTTTTCA
1865990 -TTTTCATCTTTTCA
1 TTTTTCATCTTTTCA
1866004 TTTTTCA
1 TTTTTCA
1866011 CATCAGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 7 0.37
14 6 0.32
15 6 0.32
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTCATCTTTTCA
Found at i:1866022 original size:21 final size:21
Alignment explanation
Indices: 1865975--1866022 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
1865965 CTATTTTTAC
**
1865975 TTTTTTCATTTTTCATTTTCA
1 TTTTTTCATTTTTCATCATCA
*
1865996 TCTTTTCATTTTTCA-CATCA
1 TTTTTTCATTTTTCATCATCA
1866016 GTTTTTT
1 -TTTTTT
1866023 TTGGACTCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.15, C:0.17, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTTTCATTTTTCATCATCA
Found at i:1871460 original size:17 final size:17
Alignment explanation
Indices: 1871438--1871479 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
1871428 CACTACCCTG
1871438 CACGAAGGTGAAAACCT
1 CACGAAGGTGAAAACCT
*
1871455 CACGAATGTGAAAACCT
1 CACGAAGGTGAAAACCT
1871472 CACGAAGG
1 CACGAAGG
1871480 ACTAGTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.40, C:0.24, G:0.24, T:0.12
Consensus pattern (17 bp):
CACGAAGGTGAAAACCT
Found at i:1872715 original size:3 final size:3
Alignment explanation
Indices: 1872707--1872748 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
1872697 ATAGTGGTAG
*
1872707 TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1872749 AAATCATAGC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1875815 original size:20 final size:20
Alignment explanation
Indices: 1875792--1875866 Score: 61
Period size: 21 Copynumber: 3.8 Consensus size: 20
1875782 AATAATTTCC
1875792 AAAATTT-TAAAATAATTTTT
1 AAAATTTATAAAA-AATTTTT
*
1875812 AAAA--T-TCAAAAA-TTTT
1 AAAATTTATAAAAAATTTTT
1875828 AAAATTTATATTAAAAATTTTT
1 AAAATTTATA--AAAAATTTTT
*
1875850 AAAAATTTCTAAAAAAT
1 -AAAATTTATAAAAAAT
1875867 ATACAAAGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
16 8 0.18
17 2 0.04
18 6 0.13
19 1 0.02
20 4 0.09
21 11 0.24
22 4 0.09
23 9 0.20
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.43
Consensus pattern (20 bp):
AAAATTTATAAAAAATTTTT
Found at i:1875845 original size:29 final size:28
Alignment explanation
Indices: 1875792--1875868 Score: 75
Period size: 28 Copynumber: 2.6 Consensus size: 28
1875782 AATAATTTCC
* *
1875792 AAAATTTTAAAATAATTTTTAAAATTCA
1 AAAATTTTAAAATAATATTAAAAATTCA
* *
1875820 AAAATTTTAAAATTTATATTAAAAATTTTTA
1 AAAATTTTAAAA-TAATATTAAAAA--TTCA
1875851 AAAATTTCTAAAA-AATAT
1 AAAATTT-TAAAATAATAT
1875869 ACAAAGAAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
28 12 0.30
29 9 0.22
30 4 0.10
31 10 0.25
32 5 0.12
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.43
Consensus pattern (28 bp):
AAAATTTTAAAATAATATTAAAAATTCA
Found at i:1877922 original size:19 final size:21
Alignment explanation
Indices: 1877885--1877924 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
1877875 GGAGAGTTTG
1877885 CTTTGCCTTCCTCTAGATTTC
1 CTTTGCCTTCCTCTAGATTTC
*
1877906 CTTTG-CTT-CTCTTGATTTC
1 CTTTGCCTTCCTCTAGATTTC
1877925 GTCGAATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 3 0.17
21 5 0.28
ACGTcount: A:0.07, C:0.30, G:0.10, T:0.53
Consensus pattern (21 bp):
CTTTGCCTTCCTCTAGATTTC
Found at i:1885228 original size:28 final size:28
Alignment explanation
Indices: 1885123--1885221 Score: 155
Period size: 28 Copynumber: 3.6 Consensus size: 28
1885113 GATTTTCACT
1885123 TATAAGATAGTCCTGACGGACTTCCACA
1 TATAAGATAGTCCTGACGGACTTCCACA
1885151 TATAAGATAGTCCTGACGGAC-TCCACA
1 TATAAGATAGTCCTGACGGACTTCCACA
* * *
1885178 TATAAAATAGTCTTGACGAACTTCCACA
1 TATAAGATAGTCCTGACGGACTTCCACA
*
1885206 TGTAAGATAGTCCTGA
1 TATAAGATAGTCCTGA
1885222 TAGACTTATT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 24 0.38
28 40 0.62
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.26
Consensus pattern (28 bp):
TATAAGATAGTCCTGACGGACTTCCACA
Found at i:1898195 original size:104 final size:104
Alignment explanation
Indices: 1898074--1898433 Score: 546
Period size: 102 Copynumber: 3.5 Consensus size: 104
1898064 ATTTTGCGTG
* * *
1898074 TTGGTCTGTCAATGGCCGGCACCAGAATACGAAAAAAG-CAAAAAAAAATTTGGGGTGGCCTGGC
1 TTGGTATGTCAATGGCCGGCACCAGTATACGAAAAAAGTAAAAAAAAAATTT-GGGTGGCCTGGC
* * *
1898138 AATGGTCGGCACCCCTTTTCTACAATTTTTTTTTTTACTT
65 AATGGCCGGCACCCCCTTTATACAATTTTTTTTTTTACTT
1898178 TTGGTATGTCAATGGCCGGCACCAGTATACGAAAAAAGTAAAAAAAAAATTTGGGTGGCCTGGCA
1 TTGGTATGTCAATGGCCGGCACCAGTATACGAAAAAAGTAAAAAAAAAATTTGGGTGGCCTGGCA
*
1898243 ATGGCCGGAACCCCCTTTATAC-A-TTTTTTTTTTACTT
66 ATGGCCGGCACCCCCTTTATACAATTTTTTTTTTTACTT
*
1898280 TTGGTATGTCAATGGCCGGCACCAGTATACGAAAAAAGTAAAAAAAAAATTTGGGTGGCCTGCCA
1 TTGGTATGTCAATGGCCGGCACCAGTATACGAAAAAAGTAAAAAAAAAATTTGGGTGGCCTGGCA
* *
1898345 ATAGCCGGCACCCCCTTTGTACAATTTTTTTTTTTTTACTT
66 ATGGCCGGCACCCCCTTTATACAA--TTTTTTTTTTTACTT
* * * *
1898386 TTAGTCTGTCAATAGCTGGCACCAGTATACGAAAAAAGTAAAAAAAAA
1 TTGGTATGTCAATGGCCGGCACCAGTATACGAAAAAAGTAAAAAAAAA
1898434 TTAATTGTAC
Statistics
Matches: 236, Mismatches: 15, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
102 97 0.41
103 2 0.01
104 67 0.28
105 12 0.05
106 58 0.25
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (104 bp):
TTGGTATGTCAATGGCCGGCACCAGTATACGAAAAAAGTAAAAAAAAAATTTGGGTGGCCTGGCA
ATGGCCGGCACCCCCTTTATACAATTTTTTTTTTTACTT
Found at i:1898520 original size:115 final size:109
Alignment explanation
Indices: 1898417--1898733 Score: 335
Period size: 115 Copynumber: 2.9 Consensus size: 109
1898407 CCAGTATACG
* * *
1898417 AAAAAAGTAAAAAAAAATTAATTGTACAAAGGGGATGTCGGCCATTGCTAGGCCACCCAAATTTT
1 AAAAAAGTAAAAAAAAATT-ATTGTAAAAAGGGG-TGCCGGCCATTGCCAGGCCACCCAAATTTT
*
1898482 TTTTTTACTTTTTTCGTATACTGGTGCCGGGCTGCTGG-CCATTGACAC
64 TTTTTTACTTTTTTCGTATTCTGGTGCCGGGC-GCTGGACCA-T-ACAC
* * *
1898530 ACCCAAAAGTAAAAAAAAAATATTGTAGAAAAGGGGTGCCGACCATTGCCAGGCCACTCCCAAA-
1 A--AAAAAGTAAAAAAAAATTATTGTA-AAAAGGGGTGCCGGCCATTGCCAGGCCA--CCCAAAT
* * *
1898594 ATTTTTTTTACTTTTTTCGTATTCTGGTGCC-AGC-CATTGA-C--ACAC
61 TTTTTTTTTACTTTTTTCGTATTCTGGTGCCGGGCGC-TGGACCATACAC
* * *
1898639 -TAAAAGTAAAAAAAAATTATTGTAGAAAGGGGGTGCCGGCCATTGCCAAGCCACCCAAAATTTT
1 AAAAAAGTAAAAAAAAATTATTGTA-AAAAGGGGTGCCGGCCATTGCCAGGCCACCC-AAA-TTT
1898703 TTTTTTTACTTTTTTCGTATTCTGGTGCCGG
63 TTTTTTTACTTTTTTCGTATTCTGGTGCCGG
1898734 CCATTGATAG
Statistics
Matches: 176, Mismatches: 17, Indels: 27
0.80 0.08 0.12
Matches are distributed among these distances:
104 3 0.02
105 3 0.02
106 48 0.27
107 30 0.17
109 4 0.02
112 1 0.01
113 4 0.02
114 25 0.14
115 52 0.30
116 6 0.03
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (109 bp):
AAAAAAGTAAAAAAAAATTATTGTAAAAAGGGGTGCCGGCCATTGCCAGGCCACCCAAATTTTTT
TTTTACTTTTTTCGTATTCTGGTGCCGGGCGCTGGACCATACAC
Found at i:1898722 original size:107 final size:106
Alignment explanation
Indices: 1898519--1898740 Score: 340
Period size: 107 Copynumber: 2.1 Consensus size: 106
1898509 CGGGCTGCTG
*
1898519 GCCATTGACACACCCAAAAGTAAAAAAAAAATATTGTAGAAAAGGGGTGCCGACCATTGCCAGGC
1 GCCATTGACACACCCAAAAGTAAAAAAAAAATATTGTAGAAAAGGGGTGCCGACCATTGCCAAGC
1898584 CACTCCCAAAATTTTTTTTACTTTTTTCGTATTCTGGTGCCA
66 CAC-CCCAAAATTTTTTTTACTTTTTTCGTATTCTGGTGCCA
* * * *
1898626 GCCATTGACACA-CTAAAAGTAAAAAAAAATTATTGTAGAAAGGGGGTGCCGGCCATTGCCAAGC
1 GCCATTGACACACCCAAAAGTAAAAAAAAAATATTGTAGAAAAGGGGTGCCGACCATTGCCAAGC
*
1898690 CA-CCCAAAATTTTTTTTTTTACTTTTTTCGTATTCTGGTGCCG
66 CACCCCAAAA---TTTTTTTTACTTTTTTCGTATTCTGGTGCCA
1898733 GCCATTGA
1 GCCATTGA
1898741 TAGACCAACA
Statistics
Matches: 106, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
104 7 0.07
106 49 0.46
107 50 0.47
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (106 bp):
GCCATTGACACACCCAAAAGTAAAAAAAAAATATTGTAGAAAAGGGGTGCCGACCATTGCCAAGC
CACCCCAAAATTTTTTTTACTTTTTTCGTATTCTGGTGCCA
Found at i:1905466 original size:19 final size:19
Alignment explanation
Indices: 1905442--1905481 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
1905432 ATGTACTAAA
1905442 ATTACTCTGTAGTAGCTCC
1 ATTACTCTGTAGTAGCTCC
1905461 ATTACTCTGTAGTAGCTCC
1 ATTACTCTGTAGTAGCTCC
1905480 AT
1 AT
1905482 GTTTTGGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.38
Consensus pattern (19 bp):
ATTACTCTGTAGTAGCTCC
Found at i:1906435 original size:25 final size:24
Alignment explanation
Indices: 1906406--1906460 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 24
1906396 ATTAAAACTT
1906406 TAATATCTATGAA-TATAATAAGAAA
1 TAATATCTAT-AATTATAATAA-AAA
1906431 TAATATCTATAATTATAATAAAAA
1 TAATATCTATAATTATAATAAAAA
1906455 TAATAT
1 TAATAT
1906461 TTTAAATACA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 11 0.38
25 18 0.62
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (24 bp):
TAATATCTATAATTATAATAAAAA
Found at i:1910308 original size:38 final size:38
Alignment explanation
Indices: 1910264--1910336 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
1910254 TGGTATAATA
* * *
1910264 TTAATTTTAGTTTTTTAGTTTTA-TGTATATAAAAACTT
1 TTAATTTT-GATTTTAAGTTTTATTATATATAAAAACTT
*
1910302 TTAATTTTGATTTTAATTTTTATTATATATAAAAA
1 TTAATTTTGATTTTAAGTTTTATTATATATAAAAA
1910337 TACAAAAAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 11 0.37
38 19 0.63
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (38 bp):
TTAATTTTGATTTTAAGTTTTATTATATATAAAAACTT
Found at i:1910329 original size:36 final size:39
Alignment explanation
Indices: 1910264--1910335 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 39
1910254 TGGTATAATA
* *
1910264 TTAATTTTAGTTTTTTAGTTTTATGTATATA-AAAACTT
1 TTAATTTTAGATTTTAAGTTTTATGTATATATAAAACTT
*
1910302 TTAATTTT-GATTTTAATTTTTAT-TATATATAAAA
1 TTAATTTTAGATTTTAAGTTTTATGTATATATAAAA
1910336 ATACAAAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 6 0.20
37 16 0.53
38 8 0.27
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.58
Consensus pattern (39 bp):
TTAATTTTAGATTTTAAGTTTTATGTATATATAAAACTT
Found at i:1914045 original size:40 final size:37
Alignment explanation
Indices: 1914009--1914120 Score: 102
Period size: 40 Copynumber: 2.9 Consensus size: 37
1913999 GTCAATTTAC
1914009 TACTTCGGATTAATTCGATGAGGCACTGGTGCCAATT-
1 TACTTCGGATTAA-TCGATGAGGCACTGGTGCCAATTA
* * * * *
1914046 TACTTCAGTTTAACCGATGAGACACTGAGTGTCAAATTA
1 TACTTCGGATTAATCGATGAGGCACTG-GTG-CCAATTA
*
1914085 TTACTTCGAATT-ATCTGATGAGGCACTGGGTGCCAA
1 -TACTTCGGATTAATC-GATGAGGCACT-GGTGCCAA
1914121 ACTGGTGCGT
Statistics
Matches: 58, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
36 12 0.21
37 14 0.24
38 5 0.09
39 5 0.09
40 21 0.36
41 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (37 bp):
TACTTCGGATTAATCGATGAGGCACTGGTGCCAATTA
Found at i:1917651 original size:40 final size:40
Alignment explanation
Indices: 1917596--1917780 Score: 282
Period size: 40 Copynumber: 4.7 Consensus size: 40
1917586 ATTGTTTGAT
* *
1917596 TGCACATACGTGCCCCTATTTGTACTTCAGTATCCCTGAA
1 TGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCTGAA
*
1917636 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC-GAA
1 TGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCTGAA
* * * *
1917675 TGCACATACATGCCCTTGTTTGTACTTCGGTACCCCTGAT
1 TGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCTGAA
*
1917715 TGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCTGAG
1 TGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCTGAA
*
1917755 TGCACATACGTGCCCCTGTTTATACT
1 TGCACATACGTGCCCCTGTTTGTACT
1917781 CTGGTAACTC
Statistics
Matches: 133, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 37 0.28
40 96 0.72
ACGTcount: A:0.19, C:0.31, G:0.18, T:0.32
Consensus pattern (40 bp):
TGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCTGAA
Found at i:1917727 original size:79 final size:80
Alignment explanation
Indices: 1917596--1917780 Score: 282
Period size: 79 Copynumber: 2.3 Consensus size: 80
1917586 ATTGTTTGAT
* *
1917596 TGCACATACGTGCCCCTATTTGTACTTCAGTATCCCTGAATGCACATACGTGCCCCTGTTTGTAC
1 TGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCTGAATGCACATACGTGCCCCTGTTTGTAC
*
1917661 TTCGGTACCCC-GAA
66 TTCAGTACCCCTGAA
* * * *
1917675 TGCACATACATGCCCTTGTTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTTTGTAC
1 TGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCTGAATGCACATACGTGCCCCTGTTTGTAC
*
1917740 TTCAGTACCCCTGAG
66 TTCAGTACCCCTGAA
*
1917755 TGCACATACGTGCCCCTGTTTATACT
1 TGCACATACGTGCCCCTGTTTGTACT
1917781 CTGGTAACTC
Statistics
Matches: 94, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
79 69 0.73
80 25 0.27
ACGTcount: A:0.19, C:0.31, G:0.18, T:0.32
Consensus pattern (80 bp):
TGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCTGAATGCACATACGTGCCCCTGTTTGTAC
TTCAGTACCCCTGAA
Found at i:1920692 original size:42 final size:43
Alignment explanation
Indices: 1920584--1920697 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 43
1920574 AGCTCGTACA
* * * *
1920584 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTATTCAAATAACG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGAAATCAAATAACG
* * * *
1920627 ATGCCACTGTCCCGGACAAGGTCTTACACGAAATCATAT-ATG
1 ATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAATAACG
1920669 ATGCCTA-TGTCCCAGACATGGTCTTACAC
1 ATGCC-ACTGTCCCAGACATGGTCTTACAC
1920698 ATAAATCTCA
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
42 29 0.49
43 30 0.51
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAATAACG
Found at i:1921715 original size:19 final size:19
Alignment explanation
Indices: 1921693--1921737 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
1921683 AAATGTCCAC
1921693 TAACCTTATAATGGCATAA
1 TAACCTTATAATGGCATAA
1921712 TAACCTTATAATGGCATAA
1 TAACCTTATAATGGCATAA
1921731 TAACCTT
1 TAACCTT
1921738 TTAAGGACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (19 bp):
TAACCTTATAATGGCATAA
Found at i:1923268 original size:24 final size:24
Alignment explanation
Indices: 1923241--1923287 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
1923231 AGCCTATAAT
1923241 GGGTAGCTCCAAAAAGCAATTAAC
1 GGGTAGCTCCAAAAAGCAATTAAC
* *
1923265 GGGTAGCTCCGAAGAGCAATTAA
1 GGGTAGCTCCAAAAAGCAATTAA
1923288 TGGGAAGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.17
Consensus pattern (24 bp):
GGGTAGCTCCAAAAAGCAATTAAC
Found at i:1923347 original size:26 final size:24
Alignment explanation
Indices: 1923308--1923380 Score: 83
Period size: 26 Copynumber: 2.9 Consensus size: 24
1923298 AAGCTAGCAC
* *
1923308 TAACGGGAAGCTCATAAAGAGCCTT
1 TAACGGGAAGCTCAT-AAGAGCATA
1923333 TAATCGGGAAGCTCATGAAGAGTCATA
1 TAA-CGGGAAGCTCAT-AAGAG-CATA
*
1923360 TAACGGGACGCTCATAAGAGC
1 TAACGGGAAGCTCATAAGAGC
1923381 TGCGGTGTGC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
24 1 0.02
25 8 0.19
26 28 0.67
27 5 0.12
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (24 bp):
TAACGGGAAGCTCATAAGAGCATA
Found at i:1935027 original size:4 final size:4
Alignment explanation
Indices: 1935018--1935052 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
1935008 TGTGTTTTGA
1935018 ATTG ATTG ATTG ATTG ATTG ATTG ATTG ATTG ATT
1 ATTG ATTG ATTG ATTG ATTG ATTG ATTG ATTG ATT
1935053 TTCTTTTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
ATTG
Found at i:1943210 original size:16 final size:16
Alignment explanation
Indices: 1943189--1943233 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
1943179 AAATTTAAAC
1943189 ATTTTATTAAAATAAT
1 ATTTTATTAAAATAAT
*
1943205 ATTTTAAGTAAAATAAT
1 ATTTT-ATTAAAATAAT
1943222 -TTTTATTTAAAA
1 ATTTTA-TTAAAA
1943234 AATTATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 1 0.04
16 14 0.56
17 10 0.40
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
ATTTTATTAAAATAAT
Found at i:1956589 original size:17 final size:17
Alignment explanation
Indices: 1956562--1956668 Score: 61
Period size: 17 Copynumber: 5.7 Consensus size: 17
1956552 CCGATATAAT
* * *
1956562 AAATATATTTATTTTTT
1 AAATATTTTTAATTTTA
*
1956579 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
*
1956596 AAATATTTTTAAAATACTTTTT
1 AAATATTTTT---A-A-TTTTA
* *
1956618 TATTATTTTTTAATTTTAA
1 AAATA-TTTTTAATTTT-A
1956637 AATATATTTTTTTAATTTTA
1 AA-ATA--TTTTTAATTTTA
1956657 AAATATTTTTAA
1 AAATATTTTTAA
1956669 AATAAATTTT
Statistics
Matches: 70, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
17 29 0.41
18 4 0.06
19 5 0.07
20 7 0.10
21 13 0.19
22 7 0.10
23 5 0.07
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:1956649 original size:21 final size:20
Alignment explanation
Indices: 1956618--1956666 Score: 80
Period size: 21 Copynumber: 2.4 Consensus size: 20
1956608 AATACTTTTT
1956618 TATTATTTTTTAATTTTAAAA
1 TATT-TTTTTTAATTTTAAAA
1956639 TATATTTTTTTAATTTTAAAA
1 TAT-TTTTTTTAATTTTAAAA
1956660 TATTTTT
1 TATTTTT
1956667 AAAATAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.15
21 22 0.81
22 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TATTTTTTTTAATTTTAAAA
Found at i:1956678 original size:32 final size:32
Alignment explanation
Indices: 1956578--1956679 Score: 122
Period size: 32 Copynumber: 3.3 Consensus size: 32
1956568 ATTTATTTTT
1956578 TAAATTTTTTTAATTTTAAAATATTTTTAAAA
1 TAAATTTTTTTAATTTTAAAATATTTTTAAAA
* * * *
1956610 T-ACTTTTTTATTATTTT---TTAATTTTAAAA
1 TAAATTTTTT-TAATTTTAAAATATTTTTAAAA
*
1956639 TATATTTTTTTAATTTTAAAATATTTTTAAAA
1 TAAATTTTTTTAATTTTAAAATATTTTTAAAA
1956671 TAAATTTTT
1 TAAATTTTT
1956680 GGTATTTATT
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
29 17 0.31
30 6 0.11
31 7 0.13
32 25 0.45
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (32 bp):
TAAATTTTTTTAATTTTAAAATATTTTTAAAA
Found at i:1961621 original size:13 final size:13
Alignment explanation
Indices: 1961603--1961628 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1961593 AATACTTCAT
1961603 ATATATTATATAA
1 ATATATTATATAA
1961616 ATATATTATATAA
1 ATATATTATATAA
1961629 TTTATAAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATATTATATAA
Found at i:1961654 original size:20 final size:20
Alignment explanation
Indices: 1961602--1961673 Score: 62
Period size: 20 Copynumber: 3.6 Consensus size: 20
1961592 TAATACTTCA
*
1961602 TATATATTATATAAATATAT
1 TATATAATATATAAATATAT
*
1961622 TATATAATTTATAAATCATA-
1 TATATAATATATAAAT-ATAT
1961642 TATATGAA-ATATAAAGT-TAGT
1 TATAT-AATATATAAA-TATA-T
1961663 TATATAA-ATAT
1 TATATAATATAT
1961674 TTAAAATTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
19 2 0.05
20 31 0.70
21 11 0.25
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.44
Consensus pattern (20 bp):
TATATAATATATAAATATAT
Found at i:1963155 original size:11 final size:11
Alignment explanation
Indices: 1963139--1963165 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1963129 AGATTTTTTG
1963139 TGTGTATTTAT
1 TGTGTATTTAT
1963150 TGTGTATTTAT
1 TGTGTATTTAT
1963161 TGTGT
1 TGTGT
1963166 GATCAAGATA
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:0.15, C:0.00, G:0.22, T:0.63
Consensus pattern (11 bp):
TGTGTATTTAT
Found at i:1963409 original size:4 final size:4
Alignment explanation
Indices: 1963400--1963465 Score: 132
Period size: 4 Copynumber: 16.5 Consensus size: 4
1963390 GTAAGTTGGA
1963400 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1963448 TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TA
1963466 AAGGCTTGAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 62 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:1967400 original size:41 final size:42
Alignment explanation
Indices: 1967343--1967424 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 42
1967333 TTACTTTTCG
1967343 TTTAGCTCTCATGAGCTTCA-GTTAACTCA-TATGAGTTTCCA
1 TTTAGCTCTCATGAGCTTCACGTTAAC-CATTATGAGTTTCCA
** *
1967384 TTTAGCTCTTTTGAGCTTCACTTTAACCATTATGAGTTTCC
1 TTTAGCTCTCATGAGCTTCACGTTAACCATTATGAGTTTCC
1967425 TTTCAACCCT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 20 0.56
42 16 0.44
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (42 bp):
TTTAGCTCTCATGAGCTTCACGTTAACCATTATGAGTTTCCA
Found at i:1967441 original size:21 final size:20
Alignment explanation
Indices: 1967372--1967444 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 20
1967362 AGTTAACTCA
* *
1967372 TATGAGTTTCCATTTAGCTCT
1 TATGAGTTTCC-TTTAACCCT
* * *
1967393 TTTGAGCTTCACTTTAACCAT
1 TATGAGTTTC-CTTTAACCCT
1967414 TATGAGTTTCCTTTCAACCCT
1 TATGAGTTTCCTTT-AACCCT
1967435 TATGAGTTTC
1 TATGAGTTTC
1967445 TGTTTAGTAC
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 4 0.10
21 37 0.88
22 1 0.02
ACGTcount: A:0.21, C:0.22, G:0.12, T:0.45
Consensus pattern (20 bp):
TATGAGTTTCCTTTAACCCT
Found at i:1968119 original size:21 final size:21
Alignment explanation
Indices: 1968093--1968132 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1968083 AATAAATACC
*
1968093 AAAAAATTATTTTAAAAATTA
1 AAAAAAGTATTTTAAAAATTA
1968114 AAAAAAGTATTTTAAAAAT
1 AAAAAAGTATTTTAAAAAT
1968133 ATTTTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
AAAAAAGTATTTTAAAAATTA
Found at i:1968146 original size:17 final size:17
Alignment explanation
Indices: 1968124--1968204 Score: 90
Period size: 17 Copynumber: 4.5 Consensus size: 17
1968114 AAAAAAGTAT
*
1968124 TTTAAAAATATTTTAAA
1 TTTAAAAAAATTTTAAA
*
1968141 TTTAAAAAAATTTAAAAAAAA
1 TTTAAAAAAATTT----TAAA
1968162 TTTAAAAAAATTTTAAA
1 TTTAAAAAAATTTTAAA
*
1968179 ATTAAAAAAATTTTAAA
1 TTTAAAAAAATTTTAAA
*
1968196 ATTAAAAAA
1 TTTAAAAAA
1968205 TAATAAAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
17 40 0.71
21 16 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TTTAAAAAAATTTTAAA
Found at i:1968158 original size:11 final size:11
Alignment explanation
Indices: 1968138--1968179 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
1968128 AAAATATTTT
1968138 AAATTT-AAAA
1 AAATTTAAAAA
1968148 AAATTTAAAAA
1 AAATTTAAAAA
1968159 AAATTTAAAAA
1 AAATTTAAAAA
*
1968170 AATTTTAAAA
1 AAATTTAAAA
1968180 TTAAAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
10 6 0.20
11 24 0.80
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAATTTAAAAA
Found at i:1968164 original size:21 final size:21
Alignment explanation
Indices: 1968138--1968179 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1968128 AAAATATTTT
1968138 AAATTTAAAAAAATTTAAAAA
1 AAATTTAAAAAAATTTAAAAA
*
1968159 AAATTTAAAAAAATTTTAAAA
1 AAATTTAAAAAAATTTAAAAA
1968180 TTAAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATTTAAAAAAATTTAAAAA
Found at i:1968187 original size:38 final size:40
Alignment explanation
Indices: 1968106--1968196 Score: 125
Period size: 38 Copynumber: 2.3 Consensus size: 40
1968096 AAATTATTTT
* *
1968106 AAAAA-TTAAAAAAAGTATTTTAAAAATATTTTAAATTTAA
1 AAAAATTTAAAAAAAG-ATTTTAAAAAAATTTTAAAATTAA
1968146 AAAAATTTAAAAAAA-A-TTTAAAAAAATTTTAAAATTAA
1 AAAAATTTAAAAAAAGATTTTAAAAAAATTTTAAAATTAA
*
1968184 AAAAATTTTAAAA
1 AAAAATTTAAAAA
1968197 TTAAAAAATA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
38 32 0.68
39 1 0.02
40 5 0.11
41 9 0.19
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (40 bp):
AAAAATTTAAAAAAAGATTTTAAAAAAATTTTAAAATTAA
Found at i:1968194 original size:11 final size:10
Alignment explanation
Indices: 1968138--1968256 Score: 74
Period size: 10 Copynumber: 12.2 Consensus size: 10
1968128 AAAATATTTT
1968138 AAATTTAAAA
1 AAATTTAAAA
1968148 AAATTTAAAAA
1 AAATTT-AAAA
1968159 AAATTTAAAA
1 AAATTTAAAA
*
1968169 AAATTT--TA
1 AAATTTAAAA
1968177 AAA-TTAAAA
1 AAATTTAAAA
*
1968186 AAATTT--TA
1 AAATTTAAAA
*
1968194 AAATTAAAAA
1 AAATTTAAAA
**
1968204 ATAATAAAAAA
1 A-AATTTAAAA
1968215 AAGTATTTTAAAA
1 AA--A-TTTAAAA
* *
1968228 ACATTT--TA
1 AAATTTAAAA
1968236 AAA-TTAAAA
1 AAATTTAAAA
1968245 AAATTTAAAA
1 AAATTTAAAA
1968255 AA
1 AA
1968257 TAAATATATT
Statistics
Matches: 84, Mismatches: 12, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
7 4 0.05
8 13 0.15
9 8 0.10
10 32 0.38
11 20 0.24
12 1 0.01
13 6 0.07
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (10 bp):
AAATTTAAAA
Found at i:1968244 original size:17 final size:17
Alignment explanation
Indices: 1968222--1968260 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
1968212 AAAAAGTATT
* *
1968222 TTAAAAACATTTTAAAA
1 TTAAAAAAATTTAAAAA
1968239 TTAAAAAAATTTAAAAA
1 TTAAAAAAATTTAAAAA
*
1968256 ATAAA
1 TTAAA
1968261 TATATTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
TTAAAAAAATTTAAAAA
Found at i:1975688 original size:21 final size:22
Alignment explanation
Indices: 1975641--1975693 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
1975631 ACTAATATAG
1975641 TTTTTAGATTATTTTAAAATAA
1 TTTTTAGATTATTTTAAAATAA
* ***
1975663 CTTTTAGATTA-TTTATTTTAA
1 TTTTTAGATTATTTTAAAATAA
1975684 TTTTTAGATT
1 TTTTTAGATT
1975694 TTAATTATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (22 bp):
TTTTTAGATTATTTTAAAATAA
Found at i:1975694 original size:14 final size:15
Alignment explanation
Indices: 1975664--1975709 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
1975654 TTAAAATAAC
1975664 TTTTAGATTATTT--A
1 TTTTA-ATTATTTAGA
1975678 TTTTAATT-TTTAGA
1 TTTTAATTATTTAGA
*
1975692 TTTTAATTATTTTGA
1 TTTTAATTATTTAGA
1975707 TTT
1 TTT
1975710 AAAAATGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 3 0.11
13 3 0.11
14 14 0.50
15 8 0.29
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (15 bp):
TTTTAATTATTTAGA
Found at i:1977534 original size:22 final size:22
Alignment explanation
Indices: 1977509--1977550 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1977499 TTATTTGATG
*
1977509 AAATTAAAAAGCAAAAATAAAA
1 AAATTAAAAACCAAAAATAAAA
* *
1977531 AAATTGAAAACCAAAGATAA
1 AAATTAAAAACCAAAAATAA
1977551 CTCTACTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.71, C:0.07, G:0.07, T:0.14
Consensus pattern (22 bp):
AAATTAAAAACCAAAAATAAAA
Found at i:1977932 original size:21 final size:21
Alignment explanation
Indices: 1977908--1977952 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
1977898 ATAAAATTCT
1977908 AATTAACTAATATTTAATTA-A
1 AATT-ACTAATATTTAATTATA
* *
1977929 AATTATTAATATTTTATTATA
1 AATTACTAATATTTAATTATA
1977950 AAT
1 AAT
1977953 ATTCTACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
AATTACTAATATTTAATTATA
Found at i:1978522 original size:5 final size:5
Alignment explanation
Indices: 1978501--1978535 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
1978491 TCGGTCACGC
*
1978501 TTCTT TTCATC TTCTT TTCTT TTCTT TTCTT TTCT
1 TTCTT TTC-TT TTCTT TTCTT TTCTT TTCTT TTCT
1978536 CTGACACTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (5 bp):
TTCTT
Found at i:1983456 original size:41 final size:41
Alignment explanation
Indices: 1983435--1983522 Score: 140
Period size: 41 Copynumber: 2.1 Consensus size: 41
1983425 ATTTGGCGTT
1983435 ACCAATGTCAGAATTTTGGTGGTGCCAAATAGATTGACATC
1 ACCAATGTCAGAATTTTGGTGGTGCCAAATAGATTGACATC
* * **
1983476 ACCAATGTCAGAATTTTGATGGTGCAAAATAGATTGATGTC
1 ACCAATGTCAGAATTTTGGTGGTGCCAAATAGATTGACATC
1983517 ACCAAT
1 ACCAAT
1983523 CCTTAGTCCC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (41 bp):
ACCAATGTCAGAATTTTGGTGGTGCCAAATAGATTGACATC
Found at i:1986965 original size:26 final size:27
Alignment explanation
Indices: 1986932--1986997 Score: 100
Period size: 26 Copynumber: 2.5 Consensus size: 27
1986922 AGCGAGCCAT
1986932 ATCGGGAAGCTCACAAAGAGCCA-ATTA
1 ATCGGGAAGCTCACAAAGAGCCATA-TA
1986959 A-CGGGAAGCTCACAAAGAGCCATATA
1 ATCGGGAAGCTCACAAAGAGCCATATA
*
1986985 ATTGGGAAGCTCA
1 ATCGGGAAGCTCA
1986998 TAAGAGCTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
26 24 0.67
27 12 0.33
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.15
Consensus pattern (27 bp):
ATCGGGAAGCTCACAAAGAGCCATATA
Found at i:1988867 original size:14 final size:14
Alignment explanation
Indices: 1988843--1988878 Score: 63
Period size: 14 Copynumber: 2.5 Consensus size: 14
1988833 AAATATCATA
1988843 TTAATTTTAATTAAT
1 TTAA-TTTAATTAAT
1988858 TTAATTTAATTAAT
1 TTAATTTAATTAAT
1988872 TTAATTT
1 TTAATTT
1988879 TACTTGACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTAATTTAATTAAT
Found at i:1995506 original size:29 final size:29
Alignment explanation
Indices: 1995446--1995514 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
1995436 TTATATAAAT
*
1995446 AATATTTATCTTTATGATTATTAAATATTA
1 AATATTTAT-TTTATGATTATTAAAGATTA
1995476 AATATTTATTTTATGATAATATT-AAGA-TA
1 AATATTTATTTTATGAT--TATTAAAGATTA
1995505 AATA-TTATTT
1 AATATTTATTT
1995515 ATCTTTAAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
28 6 0.17
29 14 0.39
30 12 0.33
31 4 0.11
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (29 bp):
AATATTTATTTTATGATTATTAAAGATTA
Found at i:1998261 original size:5 final size:5
Alignment explanation
Indices: 1998253--1998289 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
1998243 AATAATTATA
1998253 ATTGT ATTGT ATTGT ATTGT ATTGT ATTGT ATTGT AT
1 ATTGT ATTGT ATTGT ATTGT ATTGT ATTGT ATTGT AT
1998290 GACATCTACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.22, C:0.00, G:0.19, T:0.59
Consensus pattern (5 bp):
ATTGT
Found at i:1999925 original size:21 final size:21
Alignment explanation
Indices: 1999910--1999958 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
1999900 TGACACGCTT
*
1999910 GTGTGGCTAGGGGACACAGCC
1 GTGTGGCTAAGGGACACAGCC
*
1999931 GTGTGGCTAAGGGACACAGTC
1 GTGTGGCTAAGGGACACAGCC
1999952 GTGTGGC
1 GTGTGGC
1999959 CAAGACACAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.18, C:0.20, G:0.43, T:0.18
Consensus pattern (21 bp):
GTGTGGCTAAGGGACACAGCC
Found at i:1999967 original size:19 final size:20
Alignment explanation
Indices: 1999921--1999967 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
1999911 TGTGGCTAGG
*
1999921 GGACACAGCCGTGTGGCTAA
1 GGACACAGCCGTGTGGCCAA
*
1999941 GGGACACAGTCGTGTGGCCAA
1 -GGACACAGCCGTGTGGCCAA
1999962 -GACACA
1 GGACACA
1999968 CACCCATGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 6 0.25
21 18 0.75
ACGTcount: A:0.28, C:0.26, G:0.34, T:0.13
Consensus pattern (20 bp):
GGACACAGCCGTGTGGCCAA
Found at i:2003831 original size:24 final size:24
Alignment explanation
Indices: 2003799--2003868 Score: 131
Period size: 24 Copynumber: 2.9 Consensus size: 24
2003789 AACGTCCCTC
2003799 CTTCAGCACCTGGCTTTCCTGGCT
1 CTTCAGCACCTGGCTTTCCTGGCT
2003823 CTTCAGCACCTGGCTTTCCTGGCT
1 CTTCAGCACCTGGCTTTCCTGGCT
*
2003847 CTTCAGCATCTGGCTTTCCTGG
1 CTTCAGCACCTGGCTTTCCTGG
2003869 TTCCTTCCCT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.09, C:0.36, G:0.21, T:0.34
Consensus pattern (24 bp):
CTTCAGCACCTGGCTTTCCTGGCT
Found at i:2006051 original size:60 final size:55
Alignment explanation
Indices: 2005940--2006088 Score: 138
Period size: 60 Copynumber: 2.6 Consensus size: 55
2005930 AATTAAACCT
* ** * *
2005940 AAAAACAAACTTAGCTACCAAATTAGGAAAAAAATGTCAAGTCCAAGTATCAATTTGG
1 AAAAA-AAA-TTAGATACCAAATTAAAAAAAAAATGTCAAGTCCAAATATCAAATT-G
* * *
2005998 ACCCAAAAAAATTTAGATACCAAATTAAAAAAAAAATGTTAGGTTCAAATATCAAATTG
1 A---AAAAAAA-TTAGATACCAAATTAAAAAAAAAATGTCAAGTCCAAATATCAAATTG
*
2006057 AAAAAAAAATA-ATTACCAAATTAAAAAAAAAA
1 AAAAAAAATTAGA-TACCAAATTAAAAAAAAAA
2006089 GAAGAAGAAG
Statistics
Matches: 77, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
54 1 0.01
55 21 0.27
56 7 0.09
58 1 0.01
59 2 0.03
60 41 0.53
61 4 0.05
ACGTcount: A:0.57, C:0.12, G:0.09, T:0.22
Consensus pattern (55 bp):
AAAAAAAATTAGATACCAAATTAAAAAAAAAATGTCAAGTCCAAATATCAAATTG
Found at i:2022349 original size:12 final size:13
Alignment explanation
Indices: 2022323--2022351 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2022313 GCTTCGATAC
2022323 TAAATTTATAAAA
1 TAAATTTATAAAA
2022336 TAAATTTA-AAAA
1 TAAATTTATAAAA
2022348 TAAA
1 TAAA
2022352 AAACAGCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TAAATTTATAAAA
Found at i:2022566 original size:19 final size:19
Alignment explanation
Indices: 2022544--2022580 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2022534 CATTCAATAG
*
2022544 AAACCAAAAAGTTCAACAA
1 AAACCAAAAACTTCAACAA
*
2022563 AAACCCAAAACTTCAACA
1 AAACCAAAAACTTCAACA
2022581 GAAATAGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.27, G:0.03, T:0.11
Consensus pattern (19 bp):
AAACCAAAAACTTCAACAA
Found at i:2022831 original size:17 final size:18
Alignment explanation
Indices: 2022803--2022852 Score: 84
Period size: 17 Copynumber: 2.8 Consensus size: 18
2022793 TAATAAATAA
*
2022803 AATTATCCAACCCAACCC
1 AATTACCCAACCCAACCC
2022821 AATTA-CCAACCCAACCC
1 AATTACCCAACCCAACCC
2022838 AATTACCCAACCCAA
1 AATTACCCAACCCAA
2022853 TAAAACTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 17 0.55
18 14 0.45
ACGTcount: A:0.42, C:0.44, G:0.00, T:0.14
Consensus pattern (18 bp):
AATTACCCAACCCAACCC
Found at i:2022847 original size:13 final size:13
Alignment explanation
Indices: 2022829--2022853 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2022819 CCAATTACCA
2022829 ACCCAACCCAATT
1 ACCCAACCCAATT
2022842 ACCCAACCCAAT
1 ACCCAACCCAAT
2022854 AAAACTAAAA
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:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:2022934 original size:38 final size:39
Alignment explanation
Indices: 2022834--2022950 Score: 209
Period size: 39 Copynumber: 3.0 Consensus size: 39
2022824 TACCAACCCA
2022834 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
*
2022873 ACCTAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
*
2022912 ACCCAATTA-CCAACCCAATAAAAATAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
2022950 A
1 A
2022951 ACTCTTAAGT
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
38 29 0.39
39 46 0.61
ACGTcount: A:0.50, C:0.28, G:0.03, T:0.19
Consensus pattern (39 bp):
ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
Found at i:2023103 original size:17 final size:17
Alignment explanation
Indices: 2023083--2023145 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
2023073 TAATTTCAAG
2023083 AATTATGTAATGTTTTT
1 AATTATGTAATGTTTTT
* ***
2023100 AATTATGTAGTGATTCAA
1 AATTATGTAATG-TTTTT
*
2023118 AGACTTATGTAATATTTTT
1 A-A-TTATGTAATGTTTTT
2023137 AATTATGTA
1 AATTATGTA
2023146 GTGATTCAAT
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
17 18 0.53
18 4 0.12
19 4 0.12
20 8 0.24
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.49
Consensus pattern (17 bp):
AATTATGTAATGTTTTT
Found at i:2023107 original size:37 final size:37
Alignment explanation
Indices: 2023080--2023154 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
2023070 TGTTAATTTC
* *
2023080 AAGAATTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATGTAGTAATTCA
* *
2023117 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATGTAGTAATTCA
2023154 A
1 A
2023155 TTCGGGTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (37 bp):
AAGAATTATGTAATATTTTTAATTATGTAGTAATTCA
Found at i:2023167 original size:9 final size:9
Alignment explanation
Indices: 2023153--2023183 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
2023143 GTAGTGATTC
*
2023153 AATTCGGGT
1 AATTCGGTT
2023162 AATTCGGTT
1 AATTCGGTT
2023171 AATTCGGTT
1 AATTCGGTT
2023180 AATT
1 AATT
2023184 TTTAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:2027912 original size:7 final size:7
Alignment explanation
Indices: 2027894--2027951 Score: 71
Period size: 7 Copynumber: 8.3 Consensus size: 7
2027884 TGATTTAAAT
*
2027894 CTAAGTC
1 CTAAGCC
2027901 CTAAGCC
1 CTAAGCC
*
2027908 TTAAGCC
1 CTAAGCC
2027915 CTAAGCC
1 CTAAGCC
2027922 CTAAGCC
1 CTAAGCC
*
2027929 CTAAACC
1 CTAAGCC
*
2027936 CTAAACC
1 CTAAGCC
*
2027943 CTAAACC
1 CTAAGCC
2027950 CT
1 CT
2027952 TCCCCCTCAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.33, C:0.40, G:0.09, T:0.19
Consensus pattern (7 bp):
CTAAGCC
Found at i:2033355 original size:31 final size:29
Alignment explanation
Indices: 2033320--2033396 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
2033310 TTAATAGCTT
*
2033320 AGTGACTAAAATGTTACAACACGATAACATA
1 AGTGACTAAAATGTAACAACAC-A-AACATA
* * ***
2033351 AGTGACAAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACAACACAAACATA
2033380 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
2033397 CTAAGGTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 21 0.55
30 1 0.03
31 16 0.42
ACGTcount: A:0.49, C:0.16, G:0.13, T:0.22
Consensus pattern (29 bp):
AGTGACTAAAATGTAACAACACAAACATA
Found at i:2039835 original size:18 final size:18
Alignment explanation
Indices: 2039812--2039849 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
2039802 AACTGACCGA
2039812 TTAACCGAATTCAA-TCGG
1 TTAACCGAATT-AATTCGG
2039830 TTAACCGAATTAATTCGG
1 TTAACCGAATTAATTCGG
2039848 TT
1 TT
2039850 TTACCCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (18 bp):
TTAACCGAATTAATTCGG
Found at i:2047882 original size:20 final size:20
Alignment explanation
Indices: 2047857--2047894 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2047847 GGAGCAATTG
*
2047857 AATCAATTTGATTAAAATCA
1 AATCAAATTGATTAAAATCA
2047877 AATCAAATTGATTAAAAT
1 AATCAAATTGATTAAAAT
2047895 TATCTCCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (20 bp):
AATCAAATTGATTAAAATCA
Found at i:2049717 original size:29 final size:29
Alignment explanation
Indices: 2049637--2049721 Score: 100
Period size: 30 Copynumber: 2.9 Consensus size: 29
2049627 GAGAATTTTG
*
2049637 AAAAA-TTTGAGACCTAATTAAAATTTCC
1 AAAAATTTTGGGACCTAATTAAAATTTCC
* * ***
2049665 AAAACTTTAAGGGAAAAAATTAAAATTTCC
1 AAAAATTT-TGGGACCTAATTAAAATTTCC
2049695 AAAAATTTTGGGACCTAATTAAAATTT
1 AAAAATTTTGGGACCTAATTAAAATTT
2049722 TAAAAAAATT
Statistics
Matches: 44, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
28 4 0.09
29 17 0.39
30 23 0.52
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (29 bp):
AAAAATTTTGGGACCTAATTAAAATTTCC
Found at i:2049720 original size:59 final size:59
Alignment explanation
Indices: 2049637--2049764 Score: 161
Period size: 59 Copynumber: 2.2 Consensus size: 59
2049627 GAGAATTTTG
* ** * * *
2049637 AAAAA-TTTGAGACCTAATTAAAA-TTTCCAAAACTTTAAGGGAAAAAATTAAAATTTCC
1 AAAAATTTTGGGACCTAATTAAAATTTTAAAAAAATTCAAGGG-AAAAATCAAAATTTCC
*
2049695 AAAAATTTTGGGACCTAATTAAAATTTTAAAAAAATTCAAGGGAGAAATCAAAATTTCC
1 AAAAATTTTGGGACCTAATTAAAATTTTAAAAAAATTCAAGGGAAAAATCAAAATTTCC
*
2049754 CAAAATTTTGG
1 AAAAATTTTGG
2049765 AGGGACTCCC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
58 5 0.08
59 41 0.68
60 14 0.23
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (59 bp):
AAAAATTTTGGGACCTAATTAAAATTTTAAAAAAATTCAAGGGAAAAATCAAAATTTCC
Found at i:2050636 original size:121 final size:120
Alignment explanation
Indices: 2050499--2050789 Score: 467
Period size: 121 Copynumber: 2.4 Consensus size: 120
2050489 TAATCATATC
*
2050499 TTAACATAATTTTTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT-
1 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
*
2050563 AGATATTCTTAATATTAAAATACTAAAATCATAATATATAATACTATAAAATATAAT
66 AGATATTCTT-ATATGAAAATACTAAAATCATAATATATAATACTAT-AAATATAAT
*
2050620 TTAACATAATTATTATTAAATAAAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
1 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT-
* **
2050685 AATATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAATATAAT
65 AAGATATTCTTATATGAAAATACTAAAATCATAATATATAATACTATAAATATAAT
* * *
2050741 TTAAAATAATAATAATTAAATATAATTTAATAAAAATATATAATTTAAT
1 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT
2050790 CTAAAGTTTG
Statistics
Matches: 158, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
121 116 0.73
122 33 0.21
123 9 0.06
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (120 bp):
TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
AGATATTCTTATATGAAAATACTAAAATCATAATATATAATACTATAAATATAAT
Found at i:2050691 original size:31 final size:31
Alignment explanation
Indices: 2050532--2050691 Score: 88
Period size: 31 Copynumber: 5.3 Consensus size: 31
2050522 AATTTAATAA
2050532 AAATATATAATTTAATAAAATTCTTAATATT
1 AAATATATAATTTAATAAAATTCTTAATATT
* * * * * *
2050563 AGATAT-T-CTTAATATTAAAATAC-TAAAATC
1 AAATATATAATT--TAATAAAATTCTTAATATT
* *
2050593 ATAATATATAATACT-ATAAAA-T-ATAAT-TT
1 A-AATATATAAT-TTAATAAAATTCTTAATATT
* * *
2050622 AACATAATTATTATTAAATAAAA-T-TTAATA-A
1 AA-AT-A-TATAATTTAATAAAATTCTTAATATT
2050653 AAATATATAATTTAATAAAATTCTTAATATT
1 AAATATATAATTTAATAAAATTCTTAATATT
2050684 AAATATAT
1 AAATATAT
2050692 TCTTATATGA
Statistics
Matches: 93, Mismatches: 21, Indels: 30
0.65 0.15 0.21
Matches are distributed among these distances:
28 14 0.15
29 8 0.09
30 19 0.20
31 49 0.53
32 2 0.02
33 1 0.01
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (31 bp):
AAATATATAATTTAATAAAATTCTTAATATT
Found at i:2050748 original size:21 final size:21
Alignment explanation
Indices: 2050705--2050765 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 21
2050695 TATATGAATT
*
2050705 TACTAAAATCATAATATATAA
1 TACTAAAATCATAATATAAAA
*
2050726 TACTATAAAT-ATAATTTAAAA
1 TACTA-AAATCATAATATAAAA
* *
2050747 TAATAATAATTA-AATATAA
1 TACTAA-AATCATAATATAA
2050766 TTTAATAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 1 0.03
21 27 0.82
22 5 0.15
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (21 bp):
TACTAAAATCATAATATAAAA
Found at i:2050943 original size:27 final size:28
Alignment explanation
Indices: 2050913--2050971 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
2050903 TAAATATAGT
*
2050913 AATG-AAGAATTTATAGTATACGATTAA
1 AATGCAAGAATTTATAGTATACCATTAA
*
2050940 AATGCTAATAATTTATAGTATACCATTAA
1 AATGC-AAGAATTTATAGTATACCATTAA
2050969 AAT
1 AAT
2050972 ATTATAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 4 0.14
29 24 0.86
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (28 bp):
AATGCAAGAATTTATAGTATACCATTAA
Found at i:2054616 original size:89 final size:90
Alignment explanation
Indices: 2054446--2054640 Score: 234
Period size: 89 Copynumber: 2.2 Consensus size: 90
2054436 TGTGGCTGAG
* * * * *
2054446 CCACCAGTG-TTGCAGGTTAATATACTGCTAGCAGTTGTGATTACACAACGAGTTTGCAGATAAA
1 CCACCAGTGTTTGCAAGTTAATACACTGCCAGCACTTGTGAATACACAACGAGTTTGCAGATAAA
*
2054510 AGATGCCAGTATGAATTATGGAT-A
66 AGATGCCAGTATAAATTATGGATAA
* * * *
2054534 CCACCAGTGTTTGCAAGTTAATACGCTGCCAGTACTTGTGAATACACAACTTAG-TTGCAGATTA
1 CCACCAGTGTTTGCAAGTTAATACACTGCCAGCACTTGTGAATACACAAC-GAGTTTGCAGATAA
* **
2054598 AAGCTGCTGGTATAAATTATGGATAAA
65 AAGATGCCAGTATAAATTATGGAT-AA
2054625 CCACCAGTGTTTGCAA
1 CCACCAGTGTTTGCAA
2054641 ATTATTAAAC
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
88 9 0.10
89 62 0.69
90 2 0.02
91 17 0.19
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (90 bp):
CCACCAGTGTTTGCAAGTTAATACACTGCCAGCACTTGTGAATACACAACGAGTTTGCAGATAAA
AGATGCCAGTATAAATTATGGATAA
Found at i:2084604 original size:14 final size:15
Alignment explanation
Indices: 2084580--2084609 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2084570 CTATTTCCCA
2084580 AAATATTATTTATTT
1 AAATATTATTTATTT
2084595 AAAT-TTATTTATTT
1 AAATATTATTTATTT
2084609 A
1 A
2084610 TTTATTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AAATATTATTTATTT
Done.