Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 273 of 378
Found at i:82030729 original size:40 final size:40
Alignment explanation
Indices: 82030685--82030870 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
82030675 GCTACTCGTT
*
82030685 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
82030725 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
82030765 CAAATGCCTTC-GGATCTTAGTCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
82030805 CGAATGCCTT-TGGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
82030846 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
82030871 CATCATTCGA
Statistics
Matches: 129, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
39 3 0.02
40 114 0.88
41 12 0.09
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:82038083 original size:24 final size:24
Alignment explanation
Indices: 82038056--82038166 Score: 213
Period size: 24 Copynumber: 4.6 Consensus size: 24
82038046 CTTATTATGT
82038056 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
82038080 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
82038104 TCGCACACATAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
82038128 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
82038152 TCGCACACATAGTGC
1 TCGCACACATAGTGC
82038167 ATTTGAGATT
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 85 1.00
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:82045963 original size:24 final size:23
Alignment explanation
Indices: 82045931--82046039 Score: 137
Period size: 24 Copynumber: 4.6 Consensus size: 23
82045921 ACCAAACGTT
* **
82045931 GCACACATAGTGCTTATTATGTTC
1 GCACACATAGTGCTTAGTA-AATC
*
82045955 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
82045979 GCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCT-TAGTAAATC
*
82046003 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
82046027 GCACACATAGTGC
1 GCACACATAGTGC
82046040 ATTTGAGATT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
23 2 0.03
24 68 0.89
25 6 0.08
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (23 bp):
GCACACATAGTGCTTAGTAAATC
Found at i:82046005 original size:48 final size:48
Alignment explanation
Indices: 82045931--82046039 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
82045921 ACCAAACGTT
* **
82045931 GCACACATAGTGCTTATTATGTTCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCTTAGTATAATCGCACACATAGTGCCATAGTAAATC
82045979 GCACACATAGTGCTATAGTA-AATCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCT-TAGTATAATCGCACACATAGTGCCATAGTAAATC
82046027 GCACACATAGTGC
1 GCACACATAGTGC
82046040 ATTTGAGATT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 53 0.93
49 4 0.07
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (48 bp):
GCACACATAGTGCTTAGTATAATCGCACACATAGTGCCATAGTAAATC
Found at i:82049296 original size:30 final size:30
Alignment explanation
Indices: 82049260--82049324 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
82049250 TACAAGGACA
82049260 TTCAGGAACATGA-GAAGACCCAATATCTCG
1 TTCAGGAAC-TGAGGAAGACCCAATATCTCG
* * *
82049290 TTCAGGATCTTAGGAAGACTCAATATCTCG
1 TTCAGGAACTGAGGAAGACCCAATATCTCG
82049320 TTCAG
1 TTCAG
82049325 AAGCTTGGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 2 0.06
30 29 0.94
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (30 bp):
TTCAGGAACTGAGGAAGACCCAATATCTCG
Found at i:82049336 original size:30 final size:30
Alignment explanation
Indices: 82049273--82049346 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 30
82049263 AGGAACATGA
* * *
82049273 GAAGACCCAATATCTCGTTCAGGATCTTAG
1 GAAGACTCAATATCTCGTTCAGAAGCTTAG
*
82049303 GAAGACTCAATATCTCGTTCAGAAGCTTGG
1 GAAGACTCAATATCTCGTTCAGAAGCTTAG
*
82049333 GAAGACTCGATATC
1 GAAGACTCAATATC
82049347 GGGTTCAAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (30 bp):
GAAGACTCAATATCTCGTTCAGAAGCTTAG
Found at i:82055933 original size:26 final size:26
Alignment explanation
Indices: 82055904--82055966 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
82055894 TGGTTCTCCA
***
82055904 ACCAACTCAAACTCAAGGGCCCTTTG
1 ACCAACTCAAACTCAAGAAACCTTTG
*
82055930 ACCATCTCAAACTCAAGAAACCTTTG
1 ACCAACTCAAACTCAAGAAACCTTTG
82055956 ACCAACTCAAA
1 ACCAACTCAAA
82055967 TAGGAAGATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.38, C:0.33, G:0.10, T:0.19
Consensus pattern (26 bp):
ACCAACTCAAACTCAAGAAACCTTTG
Found at i:82063623 original size:45 final size:46
Alignment explanation
Indices: 82063560--82063659 Score: 168
Period size: 45 Copynumber: 2.2 Consensus size: 46
82063550 TATATTTTAG
* *
82063560 GTAGAAAAAGGGTGAATTATCAAGTTATGGGCTTAAGGACTAAGTT
1 GTAGAAAAAGAGTGAATTATCAAGTTATGGGCTTAACGACTAAGTT
82063606 -TAGAAAAAGAGTGAATTATCAAGTTATGGGCTTAACGACTAAGTT
1 GTAGAAAAAGAGTGAATTATCAAGTTATGGGCTTAACGACTAAGTT
82063651 GT-GAAAAAG
1 GTAGAAAAAG
82063660 TTAAAATAGG
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
45 50 0.98
46 1 0.02
ACGTcount: A:0.40, C:0.07, G:0.26, T:0.27
Consensus pattern (46 bp):
GTAGAAAAAGAGTGAATTATCAAGTTATGGGCTTAACGACTAAGTT
Found at i:82064233 original size:26 final size:26
Alignment explanation
Indices: 82064139--82064225 Score: 147
Period size: 26 Copynumber: 3.3 Consensus size: 26
82064129 CATTTTGACC
* *
82064139 CACAGCTCGTGTAAGTAGGCCCATTT
1 CACAACTCGTGTAAGCAGGCCCATTT
82064165 CACAACTCGTGTAAGCAGGCCCATTT
1 CACAACTCGTGTAAGCAGGCCCATTT
82064191 CACAACTCGTGTAAGCAGGCCCATTT
1 CACAACTCGTGTAAGCAGGCCCATTT
*
82064217 CACAGCTCG
1 CACAACTCG
82064226 AGTGAGCACT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 58 1.00
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (26 bp):
CACAACTCGTGTAAGCAGGCCCATTT
Found at i:82074136 original size:34 final size:34
Alignment explanation
Indices: 82074119--82074185 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
82074109 ATATCAGTGG
82074119 CAATATCAGTGTGGGCCTTAGCCCATTGCAGTAA
1 CAATATCAGTGTGGGCCTTAGCCCATTGCAGTAA
* *
82074153 CAGTATCAGTGTGGACCTTAGCCCAATT-CAGTA
1 CAATATCAGTGTGGGCCTTAGCCC-ATTGCAGTA
82074186 TAGTATCAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 27 0.90
35 3 0.10
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (34 bp):
CAATATCAGTGTGGGCCTTAGCCCATTGCAGTAA
Found at i:82077436 original size:44 final size:44
Alignment explanation
Indices: 82077338--82077460 Score: 153
Period size: 44 Copynumber: 2.8 Consensus size: 44
82077328 CTCGTACAAC
* * * * *
82077338 GCCAACGTTCCAGACGTGGTCTTACATGT-AATCACATATCGAT
1 GCCAATGTCCCAGACGTGGTCTTACACGTAAATCACAAATCAAT
* *
82077381 GCCACTATCCCAGACAG-GGTCTTACACGTAAATCACAAATCAAT
1 GCCAATGTCCCAGAC-GTGGTCTTACACGTAAATCACAAATCAAT
82077425 GCCAATGTCCCAGACGTGGTCTTACACG-AAATCACA
1 GCCAATGTCCCAGACGTGGTCTTACACGTAAATCACA
82077461 TATCGGAACC
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
43 31 0.46
44 37 0.54
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (44 bp):
GCCAATGTCCCAGACGTGGTCTTACACGTAAATCACAAATCAAT
Found at i:82077477 original size:44 final size:43
Alignment explanation
Indices: 82077347--82077477 Score: 126
Period size: 44 Copynumber: 3.0 Consensus size: 43
82077337 CGCCAACGTT
* * *
82077347 CCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTA--TC
1 CCAGACGTGGTCTTACACGAAATCACATATCGA-ACC-CTATGTC
* * *
82077390 CCAGACAG-GGTCTTACACGTAAATCACAAATC-AATGCCAATGTC
1 CCAGAC-GTGGTCTTACACG-AAATCACATATCGAA-CCCTATGTC
82077434 CCAGACGTGGTCTTACACGAAATCACATATCGGAACCCTATGTC
1 CCAGACGTGGTCTTACACGAAATCACATATC-GAACCCTATGTC
82077478 ATGACATATG
Statistics
Matches: 71, Mismatches: 9, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
42 2 0.03
43 30 0.42
44 37 0.52
45 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (43 bp):
CCAGACGTGGTCTTACACGAAATCACATATCGAACCCTATGTC
Found at i:82078378 original size:17 final size:17
Alignment explanation
Indices: 82078356--82078390 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
82078346 ATATTAACTT
82078356 ATATTACTAATTTACAA
1 ATATTACTAATTTACAA
82078373 ATATTACTAATTTACAA
1 ATATTACTAATTTACAA
82078390 A
1 A
82078391 ACTAACCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATTACTAATTTACAA
Found at i:82084600 original size:19 final size:20
Alignment explanation
Indices: 82084561--82084603 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
82084551 TTTTGTAAAG
*
82084561 TTTGTAAAATAGATGGTAAT
1 TTTGTAAAATAGATGGAAAT
*
82084581 TTTGTGAAATA-ATGGAAAT
1 TTTGTAAAATAGATGGAAAT
82084600 TTTG
1 TTTG
82084604 GGTTTCTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (20 bp):
TTTGTAAAATAGATGGAAAT
Found at i:82085267 original size:49 final size:48
Alignment explanation
Indices: 82085118--82085381 Score: 170
Period size: 49 Copynumber: 5.5 Consensus size: 48
82085108 GACGAGAGCT
* * * *
82085118 AGTGTAAGACATGTCTGGGACAT-GCATCGAC-CTCGAGATATACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACTCT-GATAGATA-AAGCC
* * * * ** *
82085166 GGTGTAAGACCTGTCTGAGACATGGCGTC-AGCT-T-AT-TAT-GTGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-CTCTGATAGATAAAGCC
* *
82085210 AGTGTAAGACCTGTTTGGGACATGGCATCGACACTGATAGATAAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACTCTGATAGATAA-AGCC
* * ** * * * *
82085259 AGTGTAAGACCTATTTGGGACACAGCATCG-GTCTCAATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACTCT-GATAGAT-AAAGCC
* **
82085308 AGTGTAAGACCTGTCTGGGACATGGCATCGACTTTGAT-G-TGCTAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACTCTGATAGAT-AAAGCC
82085355 AGTGTAAGACCATGTCTGGGACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
82085382 GTCAGCATCT
Statistics
Matches: 166, Mismatches: 37, Indels: 26
0.72 0.16 0.11
Matches are distributed among these distances:
44 27 0.16
45 2 0.01
46 5 0.03
47 19 0.11
48 38 0.23
49 71 0.43
50 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACTCTGATAGATAAAGCC
Found at i:82087179 original size:40 final size:39
Alignment explanation
Indices: 82087088--82087238 Score: 126
Period size: 40 Copynumber: 3.8 Consensus size: 39
82087078 ATCACGATTT
* *
82087088 GCACAAATGCCTTCGGGTCTTAGCCTGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
82087128 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* * * ** *
82087168 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
82087208 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
82087239 TCATTCAATT
Statistics
Matches: 90, Mismatches: 16, Indels: 10
0.78 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 84 0.93
41 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.27
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:82088088 original size:17 final size:19
Alignment explanation
Indices: 82088065--82088110 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
82088055 AAGAAGCATG
82088065 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
82088083 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
82088101 AATCATGCTC
1 AATCATGCTC
82088111 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:82092005 original size:28 final size:28
Alignment explanation
Indices: 82091965--82092061 Score: 106
Period size: 28 Copynumber: 3.5 Consensus size: 28
82091955 CATGAAATCA
82091965 CACACTTAGTGCTTAATATTTTCCTTCG
1 CACACTTAGTGCTTAATATTTTCCTTCG
** ****
82091993 CACACTTAGTGCTCGATAATCAAAC-TCG
1 CACACTTAGTGCTTAAT-ATTTTCCTTCG
* *
82092021 CACACTTAGTACTTAATATTTTCCTTTG
1 CACACTTAGTGCTTAATATTTTCCTTCG
82092049 CACACTTAGTGCT
1 CACACTTAGTGCT
82092062 CGATAATCAA
Statistics
Matches: 52, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
27 3 0.06
28 46 0.88
29 3 0.06
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (28 bp):
CACACTTAGTGCTTAATATTTTCCTTCG
Found at i:82092052 original size:56 final size:56
Alignment explanation
Indices: 82091965--82092086 Score: 226
Period size: 56 Copynumber: 2.2 Consensus size: 56
82091955 CATGAAATCA
*
82091965 CACACTTAGTGCTTAATATTTTCCTTCGCACACTTAGTGCTCGATAATCAAACTCG
1 CACACTTAGTACTTAATATTTTCCTTCGCACACTTAGTGCTCGATAATCAAACTCG
*
82092021 CACACTTAGTACTTAATATTTTCCTTTGCACACTTAGTGCTCGATAATCAAACTCG
1 CACACTTAGTACTTAATATTTTCCTTCGCACACTTAGTGCTCGATAATCAAACTCG
82092077 CACACTTAGT
1 CACACTTAGT
82092087 GCTCGTTAAC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.34
Consensus pattern (56 bp):
CACACTTAGTACTTAATATTTTCCTTCGCACACTTAGTGCTCGATAATCAAACTCG
Found at i:82092079 original size:28 final size:28
Alignment explanation
Indices: 82091990--82092106 Score: 119
Period size: 28 Copynumber: 4.2 Consensus size: 28
82091980 ATATTTTCCT
82091990 TCGCACACTTAGTGCTCGATAATCAAAC
1 TCGCACACTTAGTGCTCGATAATCAAAC
* ** ****
82092018 TCGCACACTTAGTACTTAAT-ATTTTCC
1 TCGCACACTTAGTGCTCGATAATCAAAC
*
82092045 TTTGCACACTTAGTGCTCGATAATCAAAC
1 -TCGCACACTTAGTGCTCGATAATCAAAC
* * *
82092074 TCGCACACTTAGTGCTCGTTAACCGAAC
1 TCGCACACTTAGTGCTCGATAATCAAAC
82092102 TCGCA
1 TCGCA
82092107 TGCTTAGTAA
Statistics
Matches: 68, Mismatches: 19, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
27 3 0.04
28 62 0.91
29 3 0.04
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (28 bp):
TCGCACACTTAGTGCTCGATAATCAAAC
Found at i:82096252 original size:10 final size:10
Alignment explanation
Indices: 82096237--82096262 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
82096227 CTATTTACAA
82096237 AAAAAAAAAG
1 AAAAAAAAAG
82096247 AAAAAAAAAG
1 AAAAAAAAAG
82096257 AAAAAA
1 AAAAAA
82096263 GATGGTAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:82118027 original size:6 final size:6
Alignment explanation
Indices: 82118007--82118049 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
82117997 ATGAGGTGCT
* **
82118007 CTGTGTA CTGCTA CTGTTA CTGTTA CTGTTA CCATTA CTGTTA
1 CTGT-TA CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA
82118050 TCGATATGGT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
6 27 0.90
7 3 0.10
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (6 bp):
CTGTTA
Found at i:82123959 original size:2 final size:2
Alignment explanation
Indices: 82123952--82123985 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
82123942 AAATTGAAAG
82123952 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
82123986 GTTAGTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:82126406 original size:17 final size:18
Alignment explanation
Indices: 82126384--82126418 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
82126374 CAACCTGGAT
82126384 CGTGTGAG-CCACACGGG
1 CGTGTGAGCCCACACGGG
*
82126401 CGTGTGGGCCCACACGGG
1 CGTGTGAGCCCACACGGG
82126419 TAGGGCAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.14, C:0.31, G:0.43, T:0.11
Consensus pattern (18 bp):
CGTGTGAGCCCACACGGG
Found at i:82127369 original size:50 final size:50
Alignment explanation
Indices: 82127294--82127393 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
82127284 CTTAAGTGAA
82127294 GATAACAAGTTGGACGACTTTTAACTTGCTAAGGTTTTTCTAAAAAGCAC
1 GATAACAAGTTGGACGACTTTTAACTTGCTAAGGTTTTTCTAAAAAGCAC
82127344 GATAACAAGTTGGACGACTTTTAACTTGCTAAGGTTTTTCTAAAAAGCAC
1 GATAACAAGTTGGACGACTTTTAACTTGCTAAGGTTTTTCTAAAAAGCAC
82127394 TCACATGTGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (50 bp):
GATAACAAGTTGGACGACTTTTAACTTGCTAAGGTTTTTCTAAAAAGCAC
Found at i:82128465 original size:18 final size:18
Alignment explanation
Indices: 82128442--82128509 Score: 66
Period size: 18 Copynumber: 3.7 Consensus size: 18
82128432 CATTCTATAT
*
82128442 CATTTGTCATTTCAATGC
1 CATTTGTCATTTCAATAC
*
82128460 CATTTG-CTATTTCAATAT
1 CATTTGTC-ATTTCAATAC
* *
82128478 CATTTATCATTTCAATAT
1 CATTTGTCATTTCAATAC
82128496 CATTATGTCGATTT
1 CATT-TGTC-ATTT
82128510 TACTGTTTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
17 1 0.02
18 33 0.79
19 4 0.10
20 4 0.10
ACGTcount: A:0.26, C:0.18, G:0.07, T:0.49
Consensus pattern (18 bp):
CATTTGTCATTTCAATAC
Found at i:82131890 original size:86 final size:86
Alignment explanation
Indices: 82131745--82131957 Score: 322
Period size: 86 Copynumber: 2.5 Consensus size: 86
82131735 TGTGATTTCT
* * * * *
82131745 ATATGTGATTACGTGTAAGACCTCATCTGGGTCATTGGGATCGATATGTGATTACGTGTAAGA-C
1 ATATGTGATTACGTGTAAGACCTCGTTTGGGACGTTGGCATCGATATGTGATTACGTGTAAGACC
*
82131809 CTCGTCTGGGAC-GTTGGCATTG
66 CT-ATCTGGGACAG-TGGCATTG
82131831 ATATGTGATTACGTGTAAGACCTCGTTTGGGACGTTGGCATCGATATGTGATTACGTGTAAGACC
1 ATATGTGATTACGTGTAAGACCTCGTTTGGGACGTTGGCATCGATATGTGATTACGTGTAAGACC
82131896 CTATCTGGGACAGTGGCATTG
66 CTATCTGGGACAGTGGCATTG
* *
82131917 ATATGTGATTACATGTAAGACCACGTTTGGGACGTTGGCAT
1 ATATGTGATTACGTGTAAGACCTCGTTTGGGACGTTGGCAT
82131958 TGTACAATAT
Statistics
Matches: 117, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
86 113 0.97
87 4 0.03
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (86 bp):
ATATGTGATTACGTGTAAGACCTCGTTTGGGACGTTGGCATCGATATGTGATTACGTGTAAGACC
CTATCTGGGACAGTGGCATTG
Found at i:82131958 original size:43 final size:43
Alignment explanation
Indices: 82131745--82131959 Score: 292
Period size: 43 Copynumber: 5.0 Consensus size: 43
82131735 TGTGATTTCT
* * * * * *
82131745 ATATGTGATTACGTGTAAGACCTCATCTGGGTCATTGGGATCG
1 ATATGTGATTACGTGTAAGACCTCGTTTGGGACGTTGGCATTG
*
82131788 ATATGTGATTACGTGTAAGACCTCGTCTGGGACGTTGGCATTG
1 ATATGTGATTACGTGTAAGACCTCGTTTGGGACGTTGGCATTG
*
82131831 ATATGTGATTACGTGTAAGACCTCGTTTGGGACGTTGGCATCG
1 ATATGTGATTACGTGTAAGACCTCGTTTGGGACGTTGGCATTG
82131874 ATATGTGATTACGTGTAAGACC-C-TATCTGGGACAG-TGGCATTG
1 ATATGTGATTACGTGTAAGACCTCGT-T-TGGGAC-GTTGGCATTG
* *
82131917 ATATGTGATTACATGTAAGACCACGTTTGGGACGTTGGCATTG
1 ATATGTGATTACGTGTAAGACCTCGTTTGGGACGTTGGCATTG
82131960 TACAATATGT
Statistics
Matches: 157, Mismatches: 9, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
41 1 0.01
42 3 0.02
43 149 0.95
44 3 0.02
45 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (43 bp):
ATATGTGATTACGTGTAAGACCTCGTTTGGGACGTTGGCATTG
Found at i:82133291 original size:13 final size:14
Alignment explanation
Indices: 82133263--82133295 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
82133253 CATTTCGACC
*
82133263 ATGTTTATATTTAT
1 ATGTTTATATTGAT
82133277 ATGTTT-TATTGAT
1 ATGTTTATATTGAT
82133290 ATGTTT
1 ATGTTT
82133296 GTTTTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (14 bp):
ATGTTTATATTGAT
Found at i:82138652 original size:68 final size:65
Alignment explanation
Indices: 82138536--82138793 Score: 242
Period size: 68 Copynumber: 3.9 Consensus size: 65
82138526 TGGATGATAC
** * * *
82138536 AGATAGTATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTAC
1 AGATA-TATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAG-ACAAGAGAGCTAC
82138600 AAG
64 -AG
* *
82138603 ACATTATGATGTAGCTAGGTCACATGGGTGATACT-ATGTGTACACCATGTAGACAAGAGAGCTA
1 AGA-TAT-ATGTAGCTAGGTCACATGGGTGGTACTGA-GTGTACACCATGTAGACAAGAGAGCTA
82138667 CAG
63 CAG
* * * *
82138670 -GATATACGTAGCTAGGTCACATGCGTGGTTCT-AGGTGAAGGACACCATGTAGACAAGAGAGCT
1 AGATATATGTAGCTAGGTCACATGGGTGGTACTGA-GT---GTACACCATGTAGACAAGAGAGCT
82138733 AC-G
62 ACAG
* * *
82138736 AGATAAAT-TGGCTAGGTCACATGGGTGGTACTGAGTGTTCACCATGT-GTACAAGAGAG
1 AGATATATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAG-ACAAGAGAG
82138794 TCGAACTATA
Statistics
Matches: 160, Mismatches: 21, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
62 1 0.01
63 18 0.11
64 26 0.16
65 3 0.02
66 25 0.16
67 37 0.23
68 49 0.31
69 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (65 bp):
AGATATATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAGACAAGAGAGCTACAG
Found at i:82153080 original size:20 final size:20
Alignment explanation
Indices: 82153055--82153106 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
82153045 TTCTCCCACT
*
82153055 CCCGTGTATTTCCGCACACG
1 CCCGTGTATTTACGCACACG
* **
82153075 CCCGTGTTTTTACGCGTACG
1 CCCGTGTATTTACGCACACG
82153095 CCCGTGTTATTT
1 CCCGTG-TATTT
82153107 TGACGATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.12, C:0.33, G:0.21, T:0.35
Consensus pattern (20 bp):
CCCGTGTATTTACGCACACG
Found at i:82165943 original size:40 final size:40
Alignment explanation
Indices: 82165891--82166114 Score: 256
Period size: 40 Copynumber: 5.6 Consensus size: 40
82165881 GCCACTAGCT
* ** *
82165891 CAAATGCCTTCGGGACTTAGCCCGGTTATGGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
*
82165931 CAAGTGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
* * *
82165970 CAAATGCCTTCGGGACTTAGCCCGGATATCATAGCTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
* * *
82166010 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
* *** * *
82166050 CGAATGCCTTCGGGACTTAGCCCGGA-ATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAATAACTCGCA
82166090 CAAATG-CTCTCGGGACTTAGCCCGG
1 CAAATGCCT-TCGGGACTTAGCCCGG
82166115 TTATCATCCG
Statistics
Matches: 161, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
39 38 0.24
40 123 0.76
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
Found at i:82165983 original size:79 final size:80
Alignment explanation
Indices: 82165891--82166114 Score: 274
Period size: 79 Copynumber: 2.8 Consensus size: 80
82165881 GCCACTAGCT
* ** * **
82165891 CAAATGCCTTCGGGACTTAGCCCGGTTATGGTAACTTGCACAAGTGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATCATAACTAGCACAAACGCCTTCGGGACTTAGCCCGG
82165956 -TATAATAACTCGCA
66 ATATAATAACTCGCA
*
82165970 CAAATGCCTTCGGGACTTAGCCCGGATATCATAGCTAGCACAAACGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATCATAACTAGCACAAACGCCTTCGGGACTTAGCCCGG
* *
82166035 ATATAGTAGCTCGCA
66 ATATAATAACTCGCA
* * ** * *
82166050 CGAATGCCTTCGGGACTTAGCCCGGA-ATTAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCCGGATATCA-TAACTAGCACAAACGCCT-TCGGGACTTAGCCC
82166113 GG
64 GG
82166115 TTATCATCCG
Statistics
Matches: 126, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
79 63 0.50
80 63 0.50
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.23
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATCATAACTAGCACAAACGCCTTCGGGACTTAGCCCGG
ATATAATAACTCGCA
Found at i:82166058 original size:119 final size:120
Alignment explanation
Indices: 82165885--82166121 Score: 318
Period size: 119 Copynumber: 2.0 Consensus size: 120
82165875 AATATAGCCA
* * * * *
82165885 CTAGCTCAAATGCCTTCGGGACTTAGCCCGGTTATGGTAACTTGCACAAGTGCCTTCGGGACTTA
1 CTAGCACAAACGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAGTGCCTTCGGGACTTA
* * *
82165950 GCCCGGTA-TAATAACTCGCACAAATGC-CTTCGGGACTTAGCCCGGATATCATAG
66 GCCCGGAATTAACAACTAGCACAAATGCTC-TCGGGACTTAGCCCGGATATCATAG
*
82166004 CTAGCACAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGAA-TGCCTTCGGGACTT
1 CTAGCACAAACGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC-AAGTGCCTTCGGGACTT
* * * *
82166068 AGCCCGGAATTAGCCACTAGCTCAAATGCTCTCGGGACTTAGCCCGGTTATCAT
65 AGCCCGGAATTAACAACTAGCACAAATGCTCTCGGGACTTAGCCCGGATATCAT
82166122 CCGAACATTC
Statistics
Matches: 102, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
119 63 0.62
120 38 0.37
121 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (120 bp):
CTAGCACAAACGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAGTGCCTTCGGGACTTA
GCCCGGAATTAACAACTAGCACAAATGCTCTCGGGACTTAGCCCGGATATCATAG
Found at i:82168956 original size:9 final size:10
Alignment explanation
Indices: 82168932--82168956 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
82168922 CAAAGCATAC
82168932 TAAAAATAAT
1 TAAAAATAAT
82168942 TAAAAATAAT
1 TAAAAATAAT
82168952 TAAAA
1 TAAAA
82168957 CGGCCTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
TAAAAATAAT
Found at i:82190032 original size:48 final size:48
Alignment explanation
Indices: 82189961--82190332 Score: 369
Period size: 48 Copynumber: 7.8 Consensus size: 48
82189951 TGATATGTGT
*
82189961 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGA
* *** * *
82190009 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCGTTGA-TATGTGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CACATTATGAGA
** *
82190057 GCTAGTGTAAGACCATGTCTAAGACATGGCATCGGCCATATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGA
* * * * *** * *
82190105 GCCAGTGTAAGACCACGTCTGAGACATGGCATCGACGTTGA-TATGTGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CACATTATGAGA
*
82190153 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGA
* * * * *
82190201 GCCAGTGTAAGATCATGCCTAGGACATGGCATCGG---CATTGAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT---ATGAGA
* * * *
82190249 GCTAGTGTAAGACCATGTCTGGGACGTGGCATCGGCCTCGA-CATGTGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTATGAGA
* *
82190297 ACTAGTGTAAGACCATGTCTGAGACATGGCATCGGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
82190333 AATCTACCCT
Statistics
Matches: 263, Mismatches: 50, Indels: 22
0.79 0.15 0.07
Matches are distributed among these distances:
45 3 0.01
47 2 0.01
48 254 0.97
49 2 0.01
51 1 0.00
52 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGA
Found at i:82190115 original size:96 final size:96
Alignment explanation
Indices: 82189951--82190332 Score: 527
Period size: 96 Copynumber: 4.0 Consensus size: 96
82189941 TATAATTGGG
* * *
82189951 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGAGCTAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAGAGCCAGTG
* *
82190016 TAAGACCATGTTTGGGACATGGCATCGGCGT
66 TAAGACCATGTCTGAGACATGGCATCGGCGT
**
82190047 TGATATGTGTGCTAGTGTAAGACCATGTCTAAGACATGGCATCGGCCATATTATGAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAGAGCCAGTG
* *
82190112 TAAGACCACGTCTGAGACATGGCATCGACGT
66 TAAGACCATGTCTGAGACATGGCATCGGCGT
82190143 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAGAGCCAGTG
* * *
82190208 TAAGATCATGCCT-AGGACATGGCATCGGCAT
66 TAAGACCATGTCTGA-GACATGGCATCGGCGT
* * * * * * * * *
82190239 TGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACGTGGCATCGGCC-TCGA-CATGTGAACTAG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAT--ATTATGAGAGCCAG
82190302 TGTAAGACCATGTCTGAGACATGGCATCGGC
64 TGTAAGACCATGTCTGAGACATGGCATCGGC
82190333 AATCTACCCT
Statistics
Matches: 255, Mismatches: 27, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
95 2 0.01
96 251 0.98
97 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (96 bp):
TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAGAGCCAGTG
TAAGACCATGTCTGAGACATGGCATCGGCGT
Found at i:82190227 original size:144 final size:143
Alignment explanation
Indices: 82189964--82190332 Score: 413
Period size: 144 Copynumber: 2.6 Consensus size: 143
82189954 TATGTGTGCT
* * * * *
82189964 AGTGTAAGACCATGTCTGGGACATGGCATC-AGCCAC-ATTATGAGAGCTAGTGTAAGACCATGT
1 AGTGTAAGACCACGTCTGAGACATGGCATCGA-CCTCGA-CATGTGAGCTAGTGTAAGACCATGT
* ** * * * *
82190027 TTGGGACATGGCATCGGCGTTGATATGTGTGCTAGTGTAAGACCATGTCTAAGACATGGCATCGG
64 CTGGGACATGGCATCGGCCATGATATGAGAGCCAGTGTAAGACCATGCCTAAGACATGGCATCGG
* *
82190092 CCA-TATTATGAGAGCC
129 -CATTA-GACGAGAGCC
* * * *
82190108 AGTGTAAGACCACGTCTGAGACATGGCATCGACGTTGATATGTGTGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCACGTCTGAGACATGGCATCGACCTCGACATGTGAGCTAGTGTAAGACCATGTCT
* *
82190173 GGGACATGGCATCGGCCAT-ATTATGAGAGCCAGTGTAAGATCATGCCTAGGACATGGCATCGGC
66 GGGACATGGCATCGGCCATGA-TATGAGAGCCAGTGTAAGACCATGCCTAAGACATGGCATCGGC
*
82190237 ATTGAGACGAGAGCT
130 ATT-AGACGAGAGCC
* * * * *
82190252 AGTGTAAGACCATGTCTGGGACGTGGCATCGGCCTCGACATGTGAACTAGTGTAAGACCATGTCT
1 AGTGTAAGACCACGTCTGAGACATGGCATCGACCTCGACATGTGAGCTAGTGTAAGACCATGTCT
*
82190317 GAGACATGGCATCGGC
66 GGGACATGGCATCGGC
82190333 AATCTACCCT
Statistics
Matches: 191, Mismatches: 29, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
143 3 0.02
144 185 0.97
145 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (143 bp):
AGTGTAAGACCACGTCTGAGACATGGCATCGACCTCGACATGTGAGCTAGTGTAAGACCATGTCT
GGGACATGGCATCGGCCATGATATGAGAGCCAGTGTAAGACCATGCCTAAGACATGGCATCGGCA
TTAGACGAGAGCC
Found at i:82193840 original size:28 final size:27
Alignment explanation
Indices: 82193777--82193846 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
82193767 ATAGTGAGTC
82193777 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
82193804 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
82193832 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
82193847 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:82196864 original size:30 final size:29
Alignment explanation
Indices: 82196819--82196942 Score: 88
Period size: 30 Copynumber: 4.1 Consensus size: 29
82196809 AGCTCCTTTA
* * * *
82196819 AAATTTTTGAAAATTTTCATTAATCTCAC
1 AAATTTTTAAAAATTTTAATTAAACCCAC
*
82196848 AAATCTTTTAAAAATTTTAATTAAACCCAT
1 AAAT-TTTTAAAAATTTTAATTAAACCCAC
* *
82196878 AAATTTTTTAAAAAAATTATCATTAAACTCCTA-
1 AAA-TTTTT--AAAAATTTTAATTAAAC-CC-AC
* * * *
82196911 AAAATTTTGAATATTTTAATTAAACCCCC
1 AAATTTTTAAAAATTTTAATTAAACCCAC
82196940 AAA
1 AAA
82196943 ATTTAATCCT
Statistics
Matches: 75, Mismatches: 13, Indels: 14
0.74 0.13 0.14
Matches are distributed among these distances:
29 9 0.12
30 40 0.53
31 1 0.01
32 19 0.25
33 5 0.07
34 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.40
Consensus pattern (29 bp):
AAATTTTTAAAAATTTTAATTAAACCCAC
Found at i:82198356 original size:26 final size:26
Alignment explanation
Indices: 82198326--82198377 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
82198316 CTACAAAGAA
82198326 AGGTTTGCTGATTTGACGAAAGACTT
1 AGGTTTGCTGATTTGACGAAAGACTT
82198352 AGGTTTGCTGATTTGACGAAAGACTT
1 AGGTTTGCTGATTTGACGAAAGACTT
82198378 GACTCTCACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.35
Consensus pattern (26 bp):
AGGTTTGCTGATTTGACGAAAGACTT
Found at i:82204375 original size:2 final size:2
Alignment explanation
Indices: 82204368--82204404 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
82204358 CTATAACTTT
82204368 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
82204405 TGCTAATTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:82206915 original size:31 final size:31
Alignment explanation
Indices: 82206880--82206976 Score: 149
Period size: 31 Copynumber: 3.1 Consensus size: 31
82206870 AACCCTTCCT
*
82206880 GCATTAAATCCAACCAAAAACAGCAAATATA
1 GCATTGAATCCAACCAAAAACAGCAAATATA
*
82206911 GCATTGGATCCAACCAAAAACAGCAAATATA
1 GCATTGAATCCAACCAAAAACAGCAAATATA
* * *
82206942 ACATTGAATCCAACCAAAAACAGTAAATGTA
1 GCATTGAATCCAACCAAAAACAGCAAATATA
82206973 GCAT
1 GCAT
82206977 AAAAAATACA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 59 1.00
ACGTcount: A:0.51, C:0.22, G:0.10, T:0.18
Consensus pattern (31 bp):
GCATTGAATCCAACCAAAAACAGCAAATATA
Found at i:82207257 original size:21 final size:21
Alignment explanation
Indices: 82207232--82207286 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
82207222 GCTGCCATCA
* *
82207232 CTACTGCCTCTGCCTCTCTCG
1 CTACTGCATCTGCCTCCCTCG
*
82207253 CTACTGTCGT-TGCCTCCCTCG
1 CTACTG-CATCTGCCTCCCTCG
*
82207274 CTGCTGCATCTGC
1 CTACTGCATCTGC
82207287 TCTAAGTTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 2 0.07
21 24 0.86
22 2 0.07
ACGTcount: A:0.05, C:0.44, G:0.18, T:0.33
Consensus pattern (21 bp):
CTACTGCATCTGCCTCCCTCG
Found at i:82207718 original size:13 final size:14
Alignment explanation
Indices: 82207692--82207720 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
82207682 ACTAACGACG
82207692 AATTAAATCATTAT
1 AATTAAATCATTAT
82207706 AATTAAA-CATTAT
1 AATTAAATCATTAT
82207719 AA
1 AA
82207721 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (14 bp):
AATTAAATCATTAT
Found at i:82212734 original size:9 final size:9
Alignment explanation
Indices: 82212720--82213072 Score: 161
Period size: 9 Copynumber: 38.7 Consensus size: 9
82212710 TAAGTATAAT
82212720 TAAGTTATG
1 TAAGTTATG
82212729 TAAGTTATG
1 TAAGTTATG
* * *
82212738 ATATGATATA
1 -TAAGTTATG
*
82212748 T-ATTTATG
1 TAAGTTATG
82212756 T-A-TTATG
1 TAAGTTATG
82212763 TAAGTTATG
1 TAAGTTATG
*
82212772 TAAATTATG
1 TAAGTTATG
82212781 TAAGTTATG
1 TAAGTTATG
* * *
82212790 AAATTTGATCTT
1 TAAGTT-A--TG
*
82212802 TAAATTATG
1 TAAGTTATG
82212811 TAAGTTATG
1 TAAGTTATG
82212820 T-A-TTATG
1 TAAGTTATG
82212827 TAAGTTATG
1 TAAGTTATG
*
82212836 TAAATTATG
1 TAAGTTATG
*
82212845 TAAGTAATG
1 TAAGTTATG
* * *
82212854 AAATTTGATCTT
1 TAAGTT-A--TG
*
82212866 TAAATTATG
1 TAAGTTATG
82212875 TAAGTTATG
1 TAAGTTATG
82212884 T-A-TTATG
1 TAAGTTATG
82212891 TAAGTTATG
1 TAAGTTATG
* * *
82212900 AAATTTGATCTT
1 TAAGTT-A--TG
*
82212912 TAAATTATG
1 TAAGTTATG
*
82212921 TTAGTTATG
1 TAAGTTATG
*
82212930 TAAATTATG
1 TAAGTTATG
82212939 TAAGTTATG
1 TAAGTTATG
* * *
82212948 AAATTTGAACTT
1 TAAGTT--A-TG
* *
82212960 TAAATTATA
1 TAAGTTATG
*
82212969 TTAGTTATG
1 TAAGTTATG
82212978 T-A-TTATG
1 TAAGTTATG
82212985 TAAGTTATG
1 TAAGTTATG
*
82212994 TAAATTATG
1 TAAGTTATG
82213003 TAAGTTATG
1 TAAGTTATG
* * *
82213012 AAATTTGAACTT
1 TAAGTT--A-TG
*
82213024 TAAATTATG
1 TAAGTTATG
82213033 TAAGTTATG
1 TAAGTTATG
*
82213042 -CA-TTATG
1 TAAGTTATG
*
82213049 TAAATTATG
1 TAAGTTATG
*
82213058 TAAATTATG
1 TAAGTTATG
*
82213067 TGAGTT
1 TAAGTT
82213073 GCTGGTGAAC
Statistics
Matches: 258, Mismatches: 60, Indels: 52
0.70 0.16 0.14
Matches are distributed among these distances:
7 29 0.11
8 14 0.05
9 174 0.67
10 11 0.04
11 5 0.02
12 25 0.10
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:82212826 original size:64 final size:64
Alignment explanation
Indices: 82212751--82212904 Score: 292
Period size: 64 Copynumber: 2.4 Consensus size: 64
82212741 TGATATATAT
*
82212751 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTAATGAAATTTGATCTTTAAATTATGTAAG
82212815 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTAATGAAATTTGATCTTTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTAATGAAATTTGATCTTTAAATTATGTAAG
82212879 TTATGTATTATGTAAGTTATG-AAATT
1 TTATGTATTATGTAAGTTATGTAAATT
82212905 TGATCTTTAA
Statistics
Matches: 89, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
63 5 0.06
64 84 0.94
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (64 bp):
TTATGTATTATGTAAGTTATGTAAATTATGTAAGTAATGAAATTTGATCTTTAAATTATGTAAG
Found at i:82212881 original size:48 final size:46
Alignment explanation
Indices: 82212821--82212999 Score: 268
Period size: 48 Copynumber: 3.8 Consensus size: 46
82212811 TAAGTTATGT
*
82212821 ATTATGTAAGTTATGTAAATTATGTAAGTAATGAAATTTGATCTTTAA
1 ATTATGTAAGTTATGT--ATTATGTAAGTTATGAAATTTGATCTTTAA
82212869 ATTATGTAAGTTATGTATTATGTAAGTTATGAAATTTGATCTTTAA
1 ATTATGTAAGTTATGTATTATGTAAGTTATGAAATTTGATCTTTAA
* *
82212915 ATTATGTTAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAA
1 ATTATGTAAGTTATGT--ATTATGTAAGTTATGAAATTTGATCTTTAA
* *
82212963 ATTATATTAGTTATGTATTATGTAAGTTATGTAAATT
1 ATTATGTAAGTTATGTATTATGTAAGTTATG-AAATT
82213000 ATGTAAGTTA
Statistics
Matches: 124, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
46 59 0.48
47 5 0.04
48 60 0.48
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.47
Consensus pattern (46 bp):
ATTATGTAAGTTATGTATTATGTAAGTTATGAAATTTGATCTTTAA
Found at i:82212983 original size:64 final size:64
Alignment explanation
Indices: 82212915--82213072 Score: 262
Period size: 64 Copynumber: 2.5 Consensus size: 64
82212905 TGATCTTTAA
* * *
82212915 ATTATGTTAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATATTAGTTATGT
1 ATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATATAAGTTATGC
*
82212979 ATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTTATGC
1 ATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATATAAGTTATGC
* *
82213043 ATTATGTAAATTATGTAAATTATGTGAGTT
1 ATTATGTAAGTTATGTAAATTATGTAAGTT
82213073 GCTGGTGAAC
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 88 1.00
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (64 bp):
ATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATATAAGTTATGC
Found at i:82213028 original size:94 final size:93
Alignment explanation
Indices: 82212821--82213041 Score: 270
Period size: 94 Copynumber: 2.3 Consensus size: 93
82212811 TAAGTTATGT
* * * *
82212821 ATTATGTAAGTTATGTAAATTATGTAAGTAATGAAATTTGATCTTTAAATTATGTAAGTTATGTA
1 ATTATGTAA-CTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATATAAGTTATGTA
*
82212886 TTATGTAAGTTATGAAATTTGATCTTTAA
65 TTATGTAAGTTATGAAATTTGAACTTTAA
** *
82212915 ATTATGTTAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATATTAGTTATGTA
1 ATTATG-TAACTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATATAAGTTATGTA
*
82212980 TTATGTAAGTTATGTAAATTATGTAAGTTATGAA
65 TTATGTAAGTTATG-AAATT-TG-AACTT-T-AA
82213014 ATT-TG-AACT-T-TAAATTATGTAAGTTATG
1 ATTATGTAACTATGTAAATTATGTAAGTTATG
82213042 CATTATGTAA
Statistics
Matches: 112, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
94 89 0.79
95 8 0.07
96 4 0.04
97 3 0.03
98 3 0.03
99 5 0.04
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (93 bp):
ATTATGTAACTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATATAAGTTATGTAT
TATGTAAGTTATGAAATTTGAACTTTAA
Found at i:82213047 original size:158 final size:159
Alignment explanation
Indices: 82212757--82213063 Score: 535
Period size: 158 Copynumber: 1.9 Consensus size: 159
82212747 ATATTTATGT
* *
82212757 ATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTTATGTA
1 ATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATATAAGTTATGTA
* *
82212822 TTATGTAAGTTATGTAAATTATGTAAGTAATGAAATTTGATCTTTAAATTATGTAAGTTATGTAT
66 TTATGTAAGTTATGTAAATTATGTAAGTAATGAAATTTGAACTTTAAATTATGTAAGTTATGCAT
*
82212887 TATGTAAGTTATG-AAATTTGATCTTTAA
131 TATGTAAATTATGTAAATTTGATCTTTAA
* *
82212915 ATTATGTTAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATATTAGTTATGTA
1 ATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATATAAGTTATGTA
*
82212980 TTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTTATGCAT
66 TTATGTAAGTTATGTAAATTATGTAAGTAATGAAATTTGAACTTTAAATTATGTAAGTTATGCAT
82213045 TATGTAAATTATGTAAATT
131 TATGTAAATTATGTAAATT
82213064 ATGTGAGTTG
Statistics
Matches: 140, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
158 135 0.96
159 5 0.04
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (159 bp):
ATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATATAAGTTATGTA
TTATGTAAGTTATGTAAATTATGTAAGTAATGAAATTTGAACTTTAAATTATGTAAGTTATGCAT
TATGTAAATTATGTAAATTTGATCTTTAA
Found at i:82213271 original size:99 final size:99
Alignment explanation
Indices: 82213166--82213544 Score: 440
Period size: 99 Copynumber: 3.7 Consensus size: 99
82213156 AATTAAAGTG
* *
82213166 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTATGT-AATGTTAAA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTAGGTAAAT-TGAAA
82213230 ATAAAATAAAATATTGAAATTAATTTTCGTGATTC
65 ATAAAATAAAATATTGAAATTAATTTTCGTGATTC
* * *
82213265 AAATAAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAAATTGAAAA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTAGGTAAATTGAAAA
* * * * *
82213330 TAAAATTAAAGAAAAT-AAAATATTTTTCGTGATTAAATT
66 TAAAA-TAAA-ATATTGAAATTAATTTTCGTGA-T---TC
* *
82213369 AAAGTAAAATAAATTAAAATATTTAAAAAAAAACTTTAAATACAACTTAATTTAATTATGT-AAT
1 AAA-T---A-AAA-TAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTAGGTAAAT
*
82213433 GTTAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTC
60 -TGAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTC
* * * * * *
82213474 AAATAAAACAAAATATTTGAAATGAAACTTTAAATATAATTTAATTTTATTAGGTAAATTGAAAA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTAGGTAAATTGAAAA
82213539 TAAAAT
66 TAAAAT
82213545 TAAAGAAAAC
Statistics
Matches: 234, Mismatches: 30, Indels: 32
0.79 0.10 0.11
Matches are distributed among these distances:
99 111 0.47
100 27 0.12
101 5 0.02
104 5 0.02
105 5 0.02
108 5 0.02
109 24 0.10
110 52 0.22
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (99 bp):
AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTAGGTAAATTGAAAA
TAAAATAAAATATTGAAATTAATTTTCGTGATTC
Found at i:82213452 original size:209 final size:209
Alignment explanation
Indices: 82213087--82213557 Score: 852
Period size: 209 Copynumber: 2.3 Consensus size: 209
82213077 GTGAACTTGA
* *
82213087 AAATAAAACTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTCATG
1 AAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTCATG
* *
82213152 ATTAAATTAAAGTGAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATT
66 ATTAAATTAAAGTAAAATAAAATAAAATATTTAAAAAAAAACTTTAAATACAACTTAATTTAATT
*
82213217 ATGTAATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTCAAATAAAATAAAATATT
131 ATGTAATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTCAAATAAAACAAAATATT
82213282 TAAAATGAAACTTT
196 TAAAATGAAACTTT
* *
82213296 AAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAATAAAATATTTTTCGTG
1 AAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTCATG
*
82213361 ATTAAATTAAAGTAAAATAAATTAAAATATTTAAAAAAAAACTTTAAATACAACTTAATTTAATT
66 ATTAAATTAAAGTAAAATAAAATAAAATATTTAAAAAAAAACTTTAAATACAACTTAATTTAATT
82213426 ATGTAATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTCAAATAAAACAAAATATT
131 ATGTAATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTCAAATAAAACAAAATATT
*
82213491 TGAAATGAAACTTT
196 TAAAATGAAACTTT
*
82213505 AAATATAATTTAATTTTATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAA
1 AAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAA
82213558 TGTATGCCAT
Statistics
Matches: 251, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
209 251 1.00
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.35
Consensus pattern (209 bp):
AAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTCATG
ATTAAATTAAAGTAAAATAAAATAAAATATTTAAAAAAAAACTTTAAATACAACTTAATTTAATT
ATGTAATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTCAAATAAAACAAAATATT
TAAAATGAAACTTT
Found at i:82214005 original size:2 final size:2
Alignment explanation
Indices: 82214000--82214034 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
82213990 TATATATATA
82214000 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
82214035 ATGAATGGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:82215958 original size:28 final size:29
Alignment explanation
Indices: 82215892--82215963 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 29
82215882 TTAATCAAAA
82215892 CCCTAAACCTTAAAC-CATTAAACTATATC
1 CCCTAAACCTTAAACTCA-TAAACTATATC
* *
82215921 CCAT-AGCCTTAAACTC-TAAACTATATC
1 CCCTAAACCTTAAACTCATAAACTATATC
82215948 CCCTAAACCTTAAACT
1 CCCTAAACCTTAAACT
82215964 ATATCCCCTA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 14 0.38
28 19 0.51
29 4 0.11
ACGTcount: A:0.39, C:0.32, G:0.01, T:0.28
Consensus pattern (29 bp):
CCCTAAACCTTAAACTCATAAACTATATC
Found at i:82215961 original size:21 final size:21
Alignment explanation
Indices: 82215937--82215983 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
82215927 CCTTAAACTC
*
82215937 TAAACTATATCCCCTAAACCT
1 TAAACTATATCCCCTAAACCA
82215958 TAAACTATATCCCCTAAACCA
1 TAAACTATATCCCCTAAACCA
82215979 TAAAC
1 TAAAC
82215984 CACAAAACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.43, C:0.32, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAACTATATCCCCTAAACCA
Found at i:82216000 original size:29 final size:28
Alignment explanation
Indices: 82215959--82216018 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
82215949 CCTAAACCTT
* *
82215959 AAACTATATCCCCTAAACCATAAACCACA
1 AAACAATAACCCCTAAACC-TAAACCACA
* *
82215988 AAACAATAACCCCTAAGCCTTAACCACA
1 AAACAATAACCCCTAAACCTAAACCACA
82216016 AAA
1 AAA
82216019 TGTATGAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.50, C:0.33, G:0.02, T:0.15
Consensus pattern (28 bp):
AAACAATAACCCCTAAACCTAAACCACA
Found at i:82216156 original size:14 final size:14
Alignment explanation
Indices: 82216113--82216158 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
82216103 CTTAAACCAT
82216113 TAAACTATATCCCC
1 TAAACTATATCCCC
* *
82216127 T--ACTAAAGTACCC
1 TAAACTATA-TCCCC
82216140 TAAACTATATCCCC
1 TAAACTATATCCCC
82216154 TAAAC
1 TAAAC
82216159 CCTAAACCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
12 5 0.20
13 5 0.20
14 10 0.40
15 5 0.20
ACGTcount: A:0.39, C:0.33, G:0.02, T:0.26
Consensus pattern (14 bp):
TAAACTATATCCCC
Found at i:82216202 original size:22 final size:22
Alignment explanation
Indices: 82216177--82216266 Score: 58
Period size: 22 Copynumber: 4.1 Consensus size: 22
82216167 ACAAAACAAT
* * *
82216177 AACCCCTAAGCCTTAACCCTTA
1 AACCCCTAACCCATAACCCCTA
**
82216199 AACCATTAACCCATAACCCCTA
1 AACCCCTAACCCATAACCCCTA
* *
82216221 AACCCTTAA-CCACTAACCCAT-
1 AACCCCTAACCCA-TAACCCCTA
* * * *
82216242 AACCCTTAAACCATAAGCCATA
1 AACCCCTAACCCATAACCCCTA
82216264 AAC
1 AAC
82216267 ATAATCCCTA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
21 19 0.33
22 38 0.67
ACGTcount: A:0.40, C:0.39, G:0.02, T:0.19
Consensus pattern (22 bp):
AACCCCTAACCCATAACCCCTA
Found at i:82216209 original size:15 final size:15
Alignment explanation
Indices: 82216176--82216239 Score: 51
Period size: 14 Copynumber: 4.4 Consensus size: 15
82216166 CACAAAACAA
* *
82216176 TAACCCCTAAGCC-T
1 TAACCCTTAAACCAT
82216190 TAACCCTTAAACCAT
1 TAACCCTTAAACCAT
* * *
82216205 TAACCCATAACCCCT
1 TAACCCTTAAACCAT
* *
82216220 AAACCCTT-AACCAC
1 TAACCCTTAAACCAT
82216234 TAACCC
1 TAACCC
82216240 ATAACCCTTA
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
14 19 0.50
15 19 0.50
ACGTcount: A:0.36, C:0.42, G:0.02, T:0.20
Consensus pattern (15 bp):
TAACCCTTAAACCAT
Found at i:82216251 original size:29 final size:30
Alignment explanation
Indices: 82216176--82216253 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 30
82216166 CACAAAACAA
* * *
82216176 TAACCCCTAAGCCTT-AACCCTTAAACCAT
1 TAACCCATAACCCTTAAACCCTTAAACCAC
*
82216205 TAACCCATAACCCCTAAACCCTT-AACCAC
1 TAACCCATAACCCTTAAACCCTTAAACCAC
82216234 TAACCCATAACCCTTAAACC
1 TAACCCATAACCCTTAAACC
82216254 ATAAGCCATA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
29 36 0.84
30 7 0.16
ACGTcount: A:0.37, C:0.41, G:0.01, T:0.21
Consensus pattern (30 bp):
TAACCCATAACCCTTAAACCCTTAAACCAC
Found at i:82216253 original size:15 final size:14
Alignment explanation
Indices: 82216206--82216295 Score: 71
Period size: 15 Copynumber: 6.3 Consensus size: 14
82216196 TTAAACCATT
82216206 AACCCATAACCCCTA
1 AACCCATAA-CCCTA
*
82216221 AACCCTTAACCACT-
1 AACCCATAACC-CTA
82216235 AACCCATAACCCTTA
1 AACCCATAACCC-TA
*
82216250 AA-CCATAAGCCATA
1 AACCCATAA-CCCTA
82216264 AA--CATAATCCCTA
1 AACCCATAA-CCCTA
*
82216277 AACCCATAATCCATA
1 AACCCATAA-CCCTA
82216292 AACC
1 AACC
82216296 TTTAAATAGT
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
13 12 0.19
14 23 0.37
15 28 0.44
ACGTcount: A:0.43, C:0.38, G:0.01, T:0.18
Consensus pattern (14 bp):
AACCCATAACCCTA
Found at i:82216255 original size:14 final size:13
Alignment explanation
Indices: 82216209--82216295 Score: 59
Period size: 14 Copynumber: 6.2 Consensus size: 13
82216199 AACCATTAAC
82216209 CCATAACCCCTAAA
1 CCATAA-CCCTAAA
* *
82216223 CCCTTAACCACTAAC
1 -CCATAACC-CTAAA
82216238 CCATAACCCTTAAA
1 CCATAACCC-TAAA
*
82216252 CCATAAGCCATAAA
1 CCATAA-CCCTAAA
82216266 -CATAATCCCTAAA
1 CCATAA-CCCTAAA
*
82216279 CCCATAATCCATAAA
1 -CCATAA-CCCTAAA
82216294 CC
1 CC
82216296 TTTAAATAGT
Statistics
Matches: 59, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
13 12 0.20
14 24 0.41
15 23 0.39
ACGTcount: A:0.43, C:0.38, G:0.01, T:0.18
Consensus pattern (13 bp):
CCATAACCCTAAA
Found at i:82216284 original size:28 final size:26
Alignment explanation
Indices: 82216210--82216294 Score: 82
Period size: 28 Copynumber: 3.0 Consensus size: 26
82216200 ACCATTAACC
* *
82216210 CATAACCCCTAAACCCTTAACCACTAACC
1 CATAA-CCCTAAACCCATAACCA-TAA-A
82216239 CATAACCCTTAAA-CCATAAGCCATAAA
1 CATAACCC-TAAACCCATAA-CCATAAA
82216266 CATAATCCCTAAACCCATAATCCATAAA
1 CATAA-CCCTAAACCCATAA-CCATAAA
82216294 C
1 C
82216295 CTTTAAATAG
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
27 9 0.18
28 28 0.57
29 12 0.24
ACGTcount: A:0.44, C:0.36, G:0.01, T:0.19
Consensus pattern (26 bp):
CATAACCCTAAACCCATAACCATAAA
Found at i:82216329 original size:21 final size:21
Alignment explanation
Indices: 82216305--82216350 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
82216295 CTTTAAATAG
* * *
82216305 TAAATTTTAAACCTTAAACCC
1 TAAATTATAAACCCTAAACCA
*
82216326 TAAATTATACACCCTAAACCA
1 TAAATTATAAACCCTAAACCA
82216347 TAAA
1 TAAA
82216351 ATGGCCAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAATTATAAACCCTAAACCA
Found at i:82216934 original size:40 final size:41
Alignment explanation
Indices: 82216861--82216944 Score: 113
Period size: 40 Copynumber: 2.1 Consensus size: 41
82216851 AATCTTAAAC
*
82216861 ATAT-TTGCGGCGTTTTAGCGAAAAACGCCGCTAATGACAG
1 ATATATTGCGGAGTTTTAGCGAAAAACGCCGCTAATGACAG
*
82216901 ATATATTGCGGAGTTTTA-C-AACAAACGCCGCTAATGCCAG
1 ATATATTGCGGAGTTTTAGCGAA-AAACGCCGCTAATGACAG
82216941 -TATA
1 ATATA
82216945 GCTCAACTAC
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
39 6 0.15
40 22 0.55
41 12 0.30
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.26
Consensus pattern (41 bp):
ATATATTGCGGAGTTTTAGCGAAAAACGCCGCTAATGACAG
Found at i:82223224 original size:22 final size:22
Alignment explanation
Indices: 82223199--82223241 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
82223189 TATCCAAGTA
82223199 ATAACAACAAAATAGTAGCAAT
1 ATAACAACAAAATAGTAGCAAT
* * *
82223221 ATAATAATAAAATGGTAGCAA
1 ATAACAACAAAATAGTAGCAA
82223242 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAT
Found at i:82225521 original size:29 final size:29
Alignment explanation
Indices: 82225456--82225513 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
82225446 TTAAAAAAAA
82225456 AATTGAGAACTAAGTTGAAAAGAATGGAG
1 AATTGAGAACTAAGTTGAAAAGAATGGAG
*
82225485 AATTGAGAACTCAGTTGAAAAGAATGGAG
1 AATTGAGAACTAAGTTGAAAAGAATGGAG
82225514 TTTGGAGAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.47, C:0.05, G:0.28, T:0.21
Consensus pattern (29 bp):
AATTGAGAACTAAGTTGAAAAGAATGGAG
Found at i:82227934 original size:14 final size:14
Alignment explanation
Indices: 82227917--82227956 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
82227907 ACTATTTAAC
82227917 GTTTAAGATTTAGG
1 GTTTAAGATTTAGG
82227931 GTTT-AGTATTTAGG
1 GTTTAAG-ATTTAGG
*
82227945 GTTTAAGGTTTA
1 GTTTAAGATTTA
82227957 CAGTTTTAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 2 0.09
14 19 0.83
15 2 0.09
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (14 bp):
GTTTAAGATTTAGG
Found at i:82228021 original size:7 final size:7
Alignment explanation
Indices: 82227925--82228035 Score: 51
Period size: 7 Copynumber: 15.4 Consensus size: 7
82227915 ACGTTTAAGA
82227925 TTTAGGG
1 TTTAGGG
**
82227932 TTTAGTA
1 TTTAGGG
82227939 TTTAGGG
1 TTTAGGG
*
82227946 TTTAAGG
1 TTTAGGG
* *
82227953 TTTACAGT
1 TTTA-GGG
*
82227961 TTTAGGA
1 TTTAGGG
*
82227968 TTTAGGA
1 TTTAGGG
* **
82227975 TTTTGTA
1 TTTAGGG
82227982 TTTAAGGG
1 TTT-AGGG
*
82227990 CTTAAGGG
1 -TTTAGGG
*
82227998 TTTAGTG
1 TTTAGGG
* *
82228005 ATTCGGG
1 TTTAGGG
82228012 TTTAGGG
1 TTTAGGG
*
82228019 TTTAAGG
1 TTTAGGG
*
82228026 TTTAGAG
1 TTTAGGG
82228033 TTT
1 TTT
82228036 TAAGTTTTAA
Statistics
Matches: 77, Mismatches: 24, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
7 64 0.83
8 11 0.14
9 2 0.03
ACGTcount: A:0.22, C:0.03, G:0.30, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:82228393 original size:40 final size:39
Alignment explanation
Indices: 82228291--82228423 Score: 131
Period size: 40 Copynumber: 3.3 Consensus size: 39
82228281 TTTTTGTGGA
* ** * *
82228291 GTTTTTCAAAAAGCGCTGCTAATGGATGACCTATAGCGGT
1 GTTTTT-AAAAAACGCTGCTAATGCTTGATCTATAGCGGC
* * *
82228331 GTTTTTTTAAAAAGCGCCGCTAATGCTTAATCTATAGCGGC
1 G--TTTTTAAAAAACGCTGCTAATGCTTGATCTATAGCGGC
* *
82228372 GCTTTTTAAAAAACGCTGCTAATGCTCGATCTATAGTGGC
1 G-TTTTTAAAAAACGCTGCTAATGCTTGATCTATAGCGGC
*
82228412 GTTTTTCAAAAA
1 GTTTTTAAAAAA
82228424 GCATCGCCAA
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
39 10 0.13
40 35 0.45
41 28 0.36
42 5 0.06
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (39 bp):
GTTTTTAAAAAACGCTGCTAATGCTTGATCTATAGCGGC
Found at i:82228436 original size:40 final size:40
Alignment explanation
Indices: 82228321--82228436 Score: 110
Period size: 40 Copynumber: 2.9 Consensus size: 40
82228311 AATGGATGAC
* * * * *
82228321 CTATAGCGGTGTTTTTTTAAAAAGCGCCGCTAATGCTTAAT
1 CTATAGCGGCGCTTTTTAAAAAAGC-TCGCTAATGCTCAAT
*
82228362 CTATAGCGGCGCTTTTTAAAAAACGCT-GCTAATGCTCGAT
1 CTATAGCGGCGCTTTTTAAAAAA-GCTCGCTAATGCTCAAT
* * *
82228402 CTATAGTGGCG-TTTTTCAAAAAGCATCGCCAATGC
1 CTATAGCGGCGCTTTTTAAAAAAGC-TCGCTAATGC
82228437 CGCTAAAGCT
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
38 2 0.03
39 11 0.17
40 28 0.44
41 20 0.32
42 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (40 bp):
CTATAGCGGCGCTTTTTAAAAAAGCTCGCTAATGCTCAAT
Found at i:82232528 original size:31 final size:31
Alignment explanation
Indices: 82232490--82232554 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
82232480 TTTTTAAGAT
*
82232490 TGAGCAGGTATTCTTGCGGTCTGGTTTCGAA
1 TGAGCAGGTATGCTTGCGGTCTGGTTTCGAA
82232521 TGAGCAGGTATGCTTGCGGTCTGGTTTCGAA
1 TGAGCAGGTATGCTTGCGGTCTGGTTTCGAA
82232552 TGA
1 TGA
82232555 CTCTGAGATG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.17, C:0.15, G:0.34, T:0.34
Consensus pattern (31 bp):
TGAGCAGGTATGCTTGCGGTCTGGTTTCGAA
Found at i:82234117 original size:46 final size:44
Alignment explanation
Indices: 82233977--82234117 Score: 126
Period size: 46 Copynumber: 3.0 Consensus size: 44
82233967 GTCCATAAGC
*
82233977 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT-AGT
* * *
82234024 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCTAGT
*
82234070 GAACTCAGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CTAGT
82234116 GA
1 GA
82234118 CATGTCACTT
Statistics
Matches: 78, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 32 0.41
47 31 0.40
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCTAGT
Found at i:82237695 original size:41 final size:40
Alignment explanation
Indices: 82237575--82237715 Score: 192
Period size: 40 Copynumber: 3.5 Consensus size: 40
82237565 AATTATGCCA
* *
82237575 TGAATTGCACTTACATGCCCCTGTAGTACTTCGATACCCT
1 TGAATTGCACTTACGTGCCCCTGTTGTACTTCGATACCCT
**
82237615 TGAATCACACTTACGTGCCCCTGTTGTACTTCGATACCCT
1 TGAATTGCACTTACGTGCCCCTGTTGTACTTCGATACCCT
* * * *
82237655 TAAATTGCACTTACGTACCCATGTTTGTACTTCGGTACCCT
1 TGAATTGCACTTACGTGCCCCTG-TTGTACTTCGATACCCT
*
82237696 TGAATTGCACATACGTGCCC
1 TGAATTGCACTTACGTGCCC
82237716 TATTTACACT
Statistics
Matches: 87, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 54 0.62
41 33 0.38
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.33
Consensus pattern (40 bp):
TGAATTGCACTTACGTGCCCCTGTTGTACTTCGATACCCT
Found at i:82250403 original size:19 final size:19
Alignment explanation
Indices: 82250379--82250417 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
82250369 TAAGAACACA
82250379 TAACAATTTAAACTAATCT
1 TAACAATTTAAACTAATCT
82250398 TAACAATTTAAACTAATCT
1 TAACAATTTAAACTAATCT
82250417 T
1 T
82250418 TTACTAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (19 bp):
TAACAATTTAAACTAATCT
Found at i:82251173 original size:15 final size:16
Alignment explanation
Indices: 82251144--82251173 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
82251134 TAACTTTGAC
82251144 AAATTCTATATTTAGA
1 AAATTCTATATTTAGA
82251160 AAATTCTA-ATTTAG
1 AAATTCTATATTTAG
82251174 TGGATGGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (16 bp):
AAATTCTATATTTAGA
Found at i:82253200 original size:15 final size:16
Alignment explanation
Indices: 82253166--82253206 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
82253156 CTATATAATA
*
82253166 AAATTTAGTT-TATTC
1 AAATTTAATTCTATTC
*
82253181 AAATTTCATTCTATTC
1 AAATTTAATTCTATTC
82253197 -AATTTAATTC
1 AAATTTAATTC
82253207 AAAATAAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.34, C:0.12, G:0.02, T:0.51
Consensus pattern (16 bp):
AAATTTAATTCTATTC
Found at i:82256086 original size:26 final size:26
Alignment explanation
Indices: 82256050--82256099 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
82256040 ACATATTTTC
*
82256050 TCAAAATTTTACCGGCGGTAAAATTA
1 TCAAAAATTTACCGGCGGTAAAATTA
* *
82256076 TCAAAAATTTACTGGTGGTAAAAT
1 TCAAAAATTTACCGGCGGTAAAAT
82256100 AAGGATGAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (26 bp):
TCAAAAATTTACCGGCGGTAAAATTA
Found at i:82258065 original size:3 final size:3
Alignment explanation
Indices: 82258057--82258094 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
82258047 CTTTTAAGAG
82258057 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
82258095 CACCGAAGCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:82266791 original size:2 final size:2
Alignment explanation
Indices: 82266784--82266814 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
82266774 TCTAAATACT
82266784 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
82266815 TTCCAAACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:82267979 original size:17 final size:17
Alignment explanation
Indices: 82267957--82267990 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
82267947 AAAGATTGAT
*
82267957 GAGTTTTTAAGGATGAA
1 GAGTTTTAAAGGATGAA
82267974 GAGTTTTAAAGGATGAA
1 GAGTTTTAAAGGATGAA
82267991 TAAATTTTTT
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:0.38, C:0.00, G:0.29, T:0.32
Consensus pattern (17 bp):
GAGTTTTAAAGGATGAA
Found at i:82284084 original size:29 final size:29
Alignment explanation
Indices: 82284052--82284108 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
82284042 AGTCCGACAC
82284052 TTTATCTTTCCCTCGACTAAGTCCATACT
1 TTTATCTTTCCCTCGACTAAGTCCATACT
82284081 TTTATCTTTCCCTCGACTAAGTCCATAC
1 TTTATCTTTCCCTCGACTAAGTCCATAC
82284109 GAGGCTTAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.21, C:0.32, G:0.07, T:0.40
Consensus pattern (29 bp):
TTTATCTTTCCCTCGACTAAGTCCATACT
Found at i:82284481 original size:12 final size:12
Alignment explanation
Indices: 82284466--82284492 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
82284456 TCAAAAACCA
82284466 CATGTATACATT
1 CATGTATACATT
82284478 CATGTATACATT
1 CATGTATACATT
82284490 CAT
1 CAT
82284493 AGAGAAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.41
Consensus pattern (12 bp):
CATGTATACATT
Found at i:82287961 original size:17 final size:18
Alignment explanation
Indices: 82287922--82287962 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
82287912 TCCACTTTAA
82287922 TATTTATAATTTTCTATT
1 TATTTATAATTTTCTATT
*
82287940 AATTTCATAA-TTT-TATT
1 TATTT-ATAATTTTCTATT
82287957 TATTTA
1 TATTTA
82287963 AATATTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
16 1 0.05
17 8 0.40
18 7 0.35
19 4 0.20
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTTATAATTTTCTATT
Found at i:82288413 original size:19 final size:19
Alignment explanation
Indices: 82288389--82288431 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
82288379 CAATTTAGTC
82288389 CTAATTCTAAAAAATTCAA
1 CTAATTCTAAAAAATTCAA
82288408 CTAATTCTAAAAAATTCAA
1 CTAATTCTAAAAAATTCAA
82288427 C-AATT
1 CTAATT
82288432 TTAGCCTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (19 bp):
CTAATTCTAAAAAATTCAA
Found at i:82288576 original size:20 final size:20
Alignment explanation
Indices: 82288535--82288579 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
82288525 AATTTTTTCA
*
82288535 ATAAAAATAAATAAGAATTT
1 ATAAAAATAAATAAGAAATT
*
82288555 ATAAAAATACATACA-AAATT
1 ATAAAAATAAATA-AGAAATT
82288575 ATAAA
1 ATAAA
82288580 TAAATGAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (20 bp):
ATAAAAATAAATAAGAAATT
Found at i:82288655 original size:2 final size:2
Alignment explanation
Indices: 82288648--82288681 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
82288638 ATTATAAATA
82288648 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
82288682 TTTAAAACCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:82289912 original size:20 final size:20
Alignment explanation
Indices: 82289850--82289918 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
82289840 ATATAGATAT
* *
82289850 TTATTATT-TATTATTATTA
1 TTATTATTAAATTATAATTA
* *
82289869 TT-CTATTAAATAATAATT-
1 TTATTATTAAATTATAATTA
*
82289887 TATATTATTAAATTATGATTA
1 T-TATTATTAAATTATAATTA
82289908 TTATTATTAAA
1 TTATTATTAAA
82289919 AATAAATTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
18 5 0.13
19 10 0.26
20 23 0.59
21 1 0.03
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (20 bp):
TTATTATTAAATTATAATTA
Found at i:82289927 original size:20 final size:20
Alignment explanation
Indices: 82289862--82289927 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
82289852 ATTATTTATT
82289862 ATTATTATTCTATTAAATAATAA
1 ATTATTA-T-TATTAAA-AATAA
* * *
82289885 TTTA-TATTATT-AAATTATG
1 ATTATTATTATTAAAAATA-A
82289904 ATTATTATTATTAAAAATAA
1 ATTATTATTATTAAAAATAA
82289924 ATTA
1 ATTA
82289928 AAATAAAGAC
Statistics
Matches: 34, Mismatches: 6, Indels: 9
0.69 0.12 0.18
Matches are distributed among these distances:
18 3 0.09
19 5 0.15
20 15 0.44
21 6 0.18
22 2 0.06
23 3 0.09
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (20 bp):
ATTATTATTATTAAAAATAA
Found at i:82290175 original size:3 final size:3
Alignment explanation
Indices: 82290167--82290204 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
82290157 TAAGATATTT
82290167 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
82290205 TATTATTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:82290209 original size:3 final size:3
Alignment explanation
Indices: 82290203--82290231 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
82290193 AATAATAATA
82290203 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
82290232 AAAGTTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:82290279 original size:22 final size:21
Alignment explanation
Indices: 82290242--82290304 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
82290232 AAAGTTAATA
* **
82290242 AAATAAAAGAACAAAAGAAATG
1 AAATAAAA-AAAAAAAGAAAAC
*
82290264 AAATAAAATAAAAAAATAAAAC
1 AAATAAAA-AAAAAAAGAAAAC
82290286 AAAGT-AAAAAAAAAAGAAA
1 AAA-TAAAAAAAAAAAGAAA
82290305 CAGAAGATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
21 10 0.29
22 23 0.68
23 1 0.03
ACGTcount: A:0.79, C:0.03, G:0.08, T:0.10
Consensus pattern (21 bp):
AAATAAAAAAAAAAAGAAAAC
Found at i:82290298 original size:27 final size:27
Alignment explanation
Indices: 82290232--82290306 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 27
82290222 TTATTATTAT
* * *
82290232 AAAGTTAATAAAATAAAAGAACAAAAG
1 AAAGTAAATAAAATAAAAAAACAAAAC
*
82290259 AAA-TGAAATAAAATAAAAAAATAAAAC
1 AAAGT-AAATAAAATAAAAAAACAAAAC
*
82290286 AAAGTAAA-AAAA-AAAGAAACA
1 AAAGTAAATAAAATAAAAAAACA
82290307 GAAGATATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
25 7 0.17
26 5 0.12
27 27 0.68
28 1 0.03
ACGTcount: A:0.76, C:0.04, G:0.08, T:0.12
Consensus pattern (27 bp):
AAAGTAAATAAAATAAAAAAACAAAAC
Found at i:82292344 original size:24 final size:24
Alignment explanation
Indices: 82292317--82292403 Score: 131
Period size: 24 Copynumber: 3.6 Consensus size: 24
82292307 CTTATTATGT
*
82292317 TCGCACACATAGTGCCATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
82292341 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
82292365 TCGCACACATAGTG-CATTAATAAA
1 TCGCACACATAGTGCCA-TAGTAAA
*
82292389 TTGCACACATAGTGC
1 TCGCACACATAGTGC
82292404 ATTTGAGATA
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
23 2 0.03
24 56 0.97
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:82292404 original size:24 final size:24
Alignment explanation
Indices: 82292295--82292406 Score: 122
Period size: 24 Copynumber: 4.7 Consensus size: 24
82292285 ACCGAATGTG
* **
82292295 GCACACATAGTGC-TTATTATGTTC
1 GCACACATAGTGCATTAGTA-AATC
*
82292319 GCACACATAGTGCCA-TAGCAAATC
1 GCACACATAGTG-CATTAGTAAATC
82292343 GCACACATAGTGCCA-TAGTAAATC
1 GCACACATAGTG-CATTAGTAAATC
* *
82292367 GCACACATAGTGCATTAATAAATT
1 GCACACATAGTGCATTAGTAAATC
82292391 GCACACATAGTGCATT
1 GCACACATAGTGCATT
82292407 TGAGATAGCC
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
23 2 0.03
24 72 0.92
25 4 0.05
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (24 bp):
GCACACATAGTGCATTAGTAAATC
Found at i:82300092 original size:20 final size:20
Alignment explanation
Indices: 82300059--82300120 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
82300049 TTTACTATTT
82300059 ATTATTATTCTATTAAATAATA
1 ATTATTA-T-TATTAAATAATA
* *
82300081 ATT-TATATTATTAAATTATG
1 ATTAT-TATTATTAAATAATA
82300101 ATTATTATTATTAAA-AATA
1 ATTATTATTATTAAATAATA
82300120 A
1 A
82300121 ATTAAAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
19 3 0.09
20 23 0.68
21 3 0.09
22 5 0.15
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (20 bp):
ATTATTATTATTAAATAATA
Found at i:82300367 original size:3 final size:3
Alignment explanation
Indices: 82300359--82300403 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
82300349 TTAAATAAGA
82300359 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
82300404 AAAGTTAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:82301132 original size:45 final size:45
Alignment explanation
Indices: 82301082--82301225 Score: 225
Period size: 45 Copynumber: 3.2 Consensus size: 45
82301072 TGGCTACTAT
*
82301082 TACTGTTACCATTACTGTTACCGATTCAACACTTTGTATGTTGAA
1 TACTGTTACCATTATTGTTACCGATTCAACACTTTGTATGTTGAA
*
82301127 TACTGTTACCATTATTGTTACCGATTCGACACTTTGTATGTTGAA
1 TACTGTTACCATTATTGTTACCGATTCAACACTTTGTATGTTGAA
* * * * *
82301172 TACTGTTACCGTTATTATTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACCATTATTGTTACCGATTCAACACTTTGTATGTTGAA
82301217 TACTGTTAC
1 TACTGTTAC
82301226 TGTTACTGCT
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 91 1.00
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.42
Consensus pattern (45 bp):
TACTGTTACCATTATTGTTACCGATTCAACACTTTGTATGTTGAA
Found at i:82305401 original size:28 final size:29
Alignment explanation
Indices: 82305363--82305417 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
82305353 AGCAACCACA
82305363 TAGAGTATGCCAC-CAAGGC-ATTCTTTTT
1 TAGAGTATGCCACAC-AGGCTATTCTTTTT
*
82305391 TAGAGTTTGCCACACAGGCTATTCTTT
1 TAGAGTATGCCACACAGGCTATTCTTT
82305418 CAGAGTTCGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (29 bp):
TAGAGTATGCCACACAGGCTATTCTTTTT
Found at i:82310620 original size:48 final size:48
Alignment explanation
Indices: 82310562--82310894 Score: 314
Period size: 48 Copynumber: 7.0 Consensus size: 48
82310552 AGGGTGAATT
* * * *
82310562 GCCGATGCCATGTTCAAAACATGGTCTTACACT-GCCTCACATGTCAAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCACATATCAAG
* * * * *
82310610 GTCGATGCCATGTCCCAGACATGGT-TTCACACTAGCTCTCGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTT-ACACTAGCTCACATATCAAG
* * * *
82310658 GTCAATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAG
* * * * ** *
82310706 G-CGATACCATGTCCTAGACATGATCTTACACTGGCTCTTATGAT-ATG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCAAG
* * *
82310753 GCCGATGCCATGTCCCAGACATGGTCTTACCCTAGCACACATATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAG
* * * * *
82310801 GCCGTTGCCATGTCCCAGACATGGTTTTACACTGGCTCTCATATCATG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAG
* * * * *
82310849 GCCGACGCCATGTCCTAGACATGGTCTTATATTAGCACACATATCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCA
82310895 CCCAAATATC
Statistics
Matches: 228, Mismatches: 51, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
47 38 0.17
48 187 0.82
49 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAG
Found at i:82310831 original size:143 final size:144
Alignment explanation
Indices: 82310612--82310877 Score: 356
Period size: 143 Copynumber: 1.9 Consensus size: 144
82310602 ATGTCAAGGT
* * * * *
82310612 CGATGCCATGTCCCAGACATGGTTTCACACTAGCTCTCGTCTCAATGTCAATGCCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTTTCACACTAGCACACATATCAATGCCAATGCCATGTCCCAGA
*
82310677 CATGGTCTTACACTAGCGCACATATCAACG-CGATACCATGTCCTAGACATGATCTTACACTGGC
66 CATGGTCTTACACTAGCGCACATATCAACGCCGACACCATGTCCTAGACATGATCTTACACTGGC
82310741 TCTTATGATATGGC
131 TCTTATGATATGGC
* **
82310755 CGATGCCATGTCCCAGACATGGTCTT-ACCCTAGCACACATATCAATGCCGTTGCCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGT-TTCACACTAGCACACATATCAATGCCAATGCCATGTCCCAG
* * * * ** * *
82310819 ACATGGTTTTACACTGGCTCTCATATCATGGCCGACGCCATGTCCTAGACATGGTCTTA
65 ACATGGTCTTACACTAGCGCACATATCAACGCCGACACCATGTCCTAGACATGATCTTA
82310878 TATTAGCACA
Statistics
Matches: 104, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
143 78 0.75
144 26 0.25
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (144 bp):
CGATGCCATGTCCCAGACATGGTTTCACACTAGCACACATATCAATGCCAATGCCATGTCCCAGA
CATGGTCTTACACTAGCGCACATATCAACGCCGACACCATGTCCTAGACATGATCTTACACTGGC
TCTTATGATATGGC
Found at i:82310859 original size:96 final size:95
Alignment explanation
Indices: 82310562--82310894 Score: 375
Period size: 96 Copynumber: 3.5 Consensus size: 95
82310552 AGGGTGAATT
* * * * * *
82310562 GCCGATGCCATGTTCAAAACATGGTCTTACACT-GCCTCACATGTCAAGGTCGATGCCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CACACATATCAACG-CGATGCCATGTCCC
* * * *
82310626 AGACATGGTTTCACACTAGCTCTCGTCTCAAT-
64 AGACATGGTTTTACACTGGCTCTCATATC-ATG
* * * * *
82310658 GTCAATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAACGCGATACCATGTCCTAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCGATGCCATGTCCCAG
* * *
82310723 ACATGATCTTACACTGGCTCTTATGAT-ATG
66 ACATGGTTTTACACTGGCTCTCAT-ATCATG
* * *
82310753 GCCGATGCCATGTCCCAGACATGGTCTTACCCTAGCACACATATCAATGCCGTTGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACG-CGATGCCATGTCCCA
82310818 GACATGGTTTTACACTGGCTCTCATATCATG
65 GACATGGTTTTACACTGGCTCTCATATCATG
* * * *
82310849 GCCGACGCCATGTCCTAGACATGGTCTTATATTAGCACACATATCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
82310895 CCCAAATATC
Statistics
Matches: 199, Mismatches: 33, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
94 2 0.01
95 78 0.39
96 118 0.59
97 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (95 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCGATGCCATGTCCCAG
ACATGGTTTTACACTGGCTCTCATATCATG
Found at i:82319193 original size:40 final size:39
Alignment explanation
Indices: 82319082--82319232 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
82319072 TTAATCACGT
* * *
82319082 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
82319122 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
82319162 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
82319202 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
82319233 CATTCAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:82319216 original size:80 final size:79
Alignment explanation
Indices: 82319082--82319232 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
82319072 TTAATCACGT
*
82319082 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
82319147 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
82319162 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
82319225 CCGGATAT
64 CCGGATAT
82319233 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:82327103 original size:40 final size:40
Alignment explanation
Indices: 82327058--82327224 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
82327048 CGGAATATAA
82327058 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
82327098 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
82327138 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
82327178 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
82327217 CCGGATAT
1 CCGGATAT
82327225 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:82327208 original size:80 final size:79
Alignment explanation
Indices: 82327074--82327224 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
82327064 ATAATCACGT
*
82327074 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
82327139 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
82327154 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
82327217 CCGGATAT
64 CCGGATAT
82327225 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:82329599 original size:96 final size:96
Alignment explanation
Indices: 82329411--82329789 Score: 433
Period size: 96 Copynumber: 3.9 Consensus size: 96
82329401 GTGAATTGCT
* * * *
82329411 GATGCCATGTTCCAAACATGGTCTTACACCGGCTTACATG-TCGAGGCCGATGCCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTT-CATGATCGTGGCCGATGCCATGTCCCAGA
* * * * **
82329475 CATGGTCTCACACTAGCTCTCATCTCAATATC
65 CATGGTCTTACACTAGCACACATATCAATGCC
* * *
82329507 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATGAT-GTGGTCGATGCCCTGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCATGATCGTGGCCGATGCCATGTCCCAGA
* * **
82329571 CATCGTCTTACATTAGGGCACATATCAATGCC
65 CATGGTCTTACACTAGCACACATATCAATGCC
* * * * * * *
82329603 GATACCATGTCCTAGGCATCGCCTTACACTGGCTCTCATGAT-GTGGTCGATGCCATATCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCATGATCGTGGCCGATGCCATGTCCCAGA
82329667 CATGGTCTTACACTAGCACACATATCAATGCC
65 CATGGTCTTACACTAGCACACATATCAATGCC
* * * * *
82329699 GTTGCCATGTCCTAGACATGGTCTTACACTGGCTTTCAT-ATCATGGCCGACGCCATGTCCTAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC-TTCATGATCGTGGCCGATGCCATGTCCCAGA
82329763 CATGGTCTTACACTAGCACACATATCA
65 CATGGTCTTACACTAGCACACATATCA
82329790 CCCAAATGTC
Statistics
Matches: 241, Mismatches: 38, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
95 2 0.01
96 236 0.98
97 3 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATGATCGTGGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCACACATATCAATGCC
Found at i:82329787 original size:48 final size:48
Alignment explanation
Indices: 82329411--82329789 Score: 304
Period size: 48 Copynumber: 7.9 Consensus size: 48
82329401 GTGAATTGCT
* * ** *
82329411 GATGCCATGTTCCAAACATGGTCTTACACCGGCT-TACATGTCGA-GGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATATC-ATGGCC
* * **
82329459 GATGCCATGTCCCAGACATGGTCTCACACTAGCTCTCATCTCAAT-ATC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGGCC
* * * *
82329507 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATGAT-GTGGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATCATGGCC
* * * ** *
82329555 GATGCCCTGTCCCAGACATCGTCTTACATTAGGGCACATATCAAT-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGGCC
* * * * * * * *
82329603 GATACCATGTCCTAGGCATCGCCTTACACTGGCTCTCATGAT-GTGGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATCATGGCC
* * *
82329651 GATGCCATATCCCAGACATGGTCTTACACTAGCACACATATCAAT-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGGCC
* * * *
82329699 GTTGCCATGTCCTAGACATGGTCTTACACTGGCTTTCATATCATGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATGGCC
* * * *
82329747 GACGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCA
82329790 CCCAAATGTC
Statistics
Matches: 259, Mismatches: 61, Indels: 22
0.76 0.18 0.06
Matches are distributed among these distances:
47 8 0.03
48 245 0.95
49 6 0.02
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATGGCC
Found at i:82331796 original size:3 final size:3
Alignment explanation
Indices: 82331783--82331857 Score: 69
Period size: 3 Copynumber: 24.7 Consensus size: 3
82331773 CCACTTAAGA
* * * * * *
82331783 AAG AGG AAG AAG AAG AGG AAG ATG AAG AGG ACG AGG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* *
82331831 AAT AAG AAA AAG AAG AAG AAAG AAG AA
1 AAG AAG AAG AAG AAG AAG -AAG AAG AA
82331858 CCCCTTTCAA
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
3 54 0.95
4 3 0.05
ACGTcount: A:0.61, C:0.01, G:0.35, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:82334071 original size:30 final size:30
Alignment explanation
Indices: 82334026--82334085 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
82334016 ATTTAATACG
* *
82334026 AACTTTGGCAAAATTATATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
82334056 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
82334086 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:82339336 original size:21 final size:21
Alignment explanation
Indices: 82339312--82339352 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
82339302 TCATCAGATC
*
82339312 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
82339333 TACAGGTTGAGGAATCGGGG
1 TACACCTTGAGGAATCGGGG
82339353 AGGTGGGGGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.17, G:0.41, T:0.20
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:82349536 original size:30 final size:29
Alignment explanation
Indices: 82349442--82349543 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
82349432 TATAGTGAAT
* * *
82349442 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
82349471 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
82349499 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
82349529 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
82349544 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:82364455 original size:12 final size:12
Alignment explanation
Indices: 82364438--82364468 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
82364428 TATGTTCTAG
82364438 CACACGGCCTAC
1 CACACGGCCTAC
82364450 CACACGGCCTAC
1 CACACGGCCTAC
82364462 CACACGG
1 CACACGG
82364469 TCGTGTGGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.48, G:0.19, T:0.06
Consensus pattern (12 bp):
CACACGGCCTAC
Found at i:82375029 original size:25 final size:25
Alignment explanation
Indices: 82374940--82375030 Score: 94
Period size: 25 Copynumber: 3.7 Consensus size: 25
82374930 TCTTACCCCA
* * * *
82374940 ATTTTAACCTAGTAAAATGTTGACT
1 ATTTTACCCTAATAAAATTTTGACG
* *
82374965 CTTTTACCCCAATAAAATTTTGACG
1 ATTTTACCCTAATAAAATTTTGACG
* * *
82374990 A-TTTATCCTAGTAAATTTTTGACG
1 ATTTTACCCTAATAAAATTTTGACG
82375014 ATTTTACCCTAATAAAA
1 ATTTTACCCTAATAAAA
82375031 ATTTCAAGAA
Statistics
Matches: 51, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
24 20 0.39
25 31 0.61
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (25 bp):
ATTTTACCCTAATAAAATTTTGACG
Found at i:82375186 original size:6 final size:6
Alignment explanation
Indices: 82375175--82375213 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
82375165 AGGATTGCAA
* *
82375175 ATTTCC ATTTCC ATTTCC GTTTCC ATTTTC ATTTCC ATT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATT
82375214 CTTAGAAACC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.15, C:0.28, G:0.03, T:0.54
Consensus pattern (6 bp):
ATTTCC
Found at i:82375730 original size:33 final size:33
Alignment explanation
Indices: 82375688--82375786 Score: 198
Period size: 33 Copynumber: 3.0 Consensus size: 33
82375678 TAGTGATGGC
82375688 AATGTCACATGATAGGGTGTTTGAAAACTATGT
1 AATGTCACATGATAGGGTGTTTGAAAACTATGT
82375721 AATGTCACATGATAGGGTGTTTGAAAACTATGT
1 AATGTCACATGATAGGGTGTTTGAAAACTATGT
82375754 AATGTCACATGATAGGGTGTTTGAAAACTATGT
1 AATGTCACATGATAGGGTGTTTGAAAACTATGT
82375787 TTATGTGATA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 66 1.00
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.33
Consensus pattern (33 bp):
AATGTCACATGATAGGGTGTTTGAAAACTATGT
Found at i:82382291 original size:40 final size:40
Alignment explanation
Indices: 82382236--82382445 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
82382226 AACATTGGAA
82382236 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
82382276 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
82382316 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
82382356 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
82382395 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
82382436 CTATATCCGG
1 ATATATCCGG
82382446 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:82390425 original size:40 final size:40
Alignment explanation
Indices: 82390370--82390579 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
82390360 AACATTGGAA
82390370 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
82390410 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
82390450 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
82390490 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
82390529 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
82390570 CTATATCCGG
1 ATATATCCGG
82390580 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:82397704 original size:32 final size:32
Alignment explanation
Indices: 82397663--82397727 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
82397653 TAAGTGATGC
82397663 TTACCAACCCTACAGTAGGTTCACAGTCGATT
1 TTACCAACCCTACAGTAGGTTCACAGTCGATT
*
82397695 TTACCAACCCTACAGTAGGTTCACAGTTGATT
1 TTACCAACCCTACAGTAGGTTCACAGTCGATT
82397727 T
1 T
82397728 GGGTGACCCG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (32 bp):
TTACCAACCCTACAGTAGGTTCACAGTCGATT
Done.