Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 306 of 344
Found at i:101134201 original size:16 final size:19
Alignment explanation
Indices: 101134154--101134201 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
101134144 CCAAACCACC
101134154 AAAGCAGAGAATAACACTA
1 AAAGCAGAGAATAACACTA
*
101134173 AAA-CAGAGGATAAC-C-A
1 AAAGCAGAGAATAACACTA
101134189 AAAGCA-AGAATAA
1 AAAGCAGAGAATAA
101134202 AAACAAAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 10 0.38
19 3 0.12
ACGTcount: A:0.60, C:0.15, G:0.17, T:0.08
Consensus pattern (19 bp):
AAAGCAGAGAATAACACTA
Found at i:101134289 original size:24 final size:24
Alignment explanation
Indices: 101134235--101134288 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
101134225 GTTTGCATCC
* *
101134235 TTTTCTTCTTTTTTTCTTCTTTCG
1 TTTTTTTCTTTCTTTCTTCTTTCG
**
101134259 AATTTTTCTTTCTTTCTT-TTTCG
1 TTTTTTTCTTTCTTTCTTCTTTCG
101134282 TTTTTTT
1 TTTTTTT
101134289 TTGTTTTTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.76
Consensus pattern (24 bp):
TTTTTTTCTTTCTTTCTTCTTTCG
Found at i:101135024 original size:16 final size:16
Alignment explanation
Indices: 101135003--101135037 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
101134993 ACTTAATACT
101135003 TATATATATTATATAG
1 TATATATATTATATAG
101135019 TATATATATTATATAG
1 TATATATATTATATAG
101135035 TAT
1 TAT
101135038 TATTAATAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (16 bp):
TATATATATTATATAG
Found at i:101135191 original size:17 final size:17
Alignment explanation
Indices: 101135166--101135200 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
101135156 ATGTTATTTT
101135166 TTTAAATATTATATATA
1 TTTAAATATTATATATA
* *
101135183 TTTATATATTATGTATA
1 TTTAAATATTATATATA
101135200 T
1 T
101135201 ATTTTTAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTAAATATTATATATA
Found at i:101135217 original size:22 final size:21
Alignment explanation
Indices: 101135131--101135227 Score: 81
Period size: 21 Copynumber: 4.5 Consensus size: 21
101135121 ATATTACGCA
101135131 TATATATATTAATATTATATTATG
1 TATATATATT--TA-TATATTATG
* * * *
101135155 TATGT-TATTTTTTTAAATAT-
1 TATATATATTTATAT-ATTATG
101135175 TATATATATTTATATATTATG
1 TATATATATTTATATATTATG
* *
101135196 TATATATTTTTAATCTATTATG
1 TATATATATTT-ATATATTATG
101135218 TATATATATT
1 TATATATATT
101135228 ATGTACATAC
Statistics
Matches: 58, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
20 10 0.17
21 22 0.38
22 18 0.31
23 4 0.07
24 4 0.07
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (21 bp):
TATATATATTTATATATTATG
Found at i:101135222 original size:41 final size:40
Alignment explanation
Indices: 101135133--101135229 Score: 101
Period size: 38 Copynumber: 2.4 Consensus size: 40
101135123 ATTACGCATA
*
101135133 TATATATTAATATTATATTATGTATGTTATTTTTTTAAATAT
1 TATATA-T-ATATTATATTATGTATGTTATATTTTTAAATAT
*
101135175 TATATATAT-TTATA-TAT-TATGTATATATTTTTAATCTAT
1 TATATATATATTATATTATGTATGT-TATATTTTTAA-ATAT
101135214 TATGTATATATATTAT
1 TA--TATATATATTAT
101135230 GTACATACTT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
37 5 0.10
38 13 0.27
39 10 0.21
40 2 0.04
41 8 0.17
42 10 0.21
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (40 bp):
TATATATATATTATATTATGTATGTTATATTTTTAAATAT
Found at i:101135231 original size:35 final size:36
Alignment explanation
Indices: 101135185--101135256 Score: 110
Period size: 35 Copynumber: 2.0 Consensus size: 36
101135175 TATATATATT
* *
101135185 TATATATTATGTATATATTTTTAAT-CTATTATGTA
1 TATATATTATGTACATACTTTTAATACTATTATGTA
*
101135220 TATATATTATGTACATACTTTTAATATTATTATGTA
1 TATATATTATGTACATACTTTTAATACTATTATGTA
101135256 T
1 T
101135257 TTATTTTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 23 0.70
36 10 0.30
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (36 bp):
TATATATTATGTACATACTTTTAATACTATTATGTA
Found at i:101135253 original size:23 final size:23
Alignment explanation
Indices: 101135219--101135297 Score: 88
Period size: 23 Copynumber: 3.3 Consensus size: 23
101135209 TCTATTATGT
* *
101135219 ATATATATTATGTACATACTTTTA
1 ATAT-TATTATGTATATATTTTTA
*
101135243 ATATTATTATGTATTTATTTTTA
1 ATATTATTATGTATATATTTTTA
101135266 ATA-TATATATGTATATATTTATGTA
1 ATATTAT-TATGTATATATTT-T-TA
101135291 ATATTAT
1 ATATTAT
101135298 CAATAATTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
22 3 0.06
23 31 0.66
24 5 0.11
25 5 0.11
26 3 0.06
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.56
Consensus pattern (23 bp):
ATATTATTATGTATATATTTTTA
Found at i:101135297 original size:10 final size:11
Alignment explanation
Indices: 101135175--101135297 Score: 69
Period size: 11 Copynumber: 10.9 Consensus size: 11
101135165 TTTTAAATAT
*
101135175 TATATA-TATT
1 TATATATTATG
101135185 TATATATTATG
1 TATATATTATG
*
101135196 TATATATT-TT
1 TATATATTATG
*
101135206 TAATCTATTATG
1 T-ATATATTATG
101135218 TATATATATTATG
1 --TATATATTATG
*
101135231 TACATACTT-T-
1 TATATA-TTATG
101135241 TAATATTATTATG
1 T-ATA-TATTATG
* *
101135254 TATTTATT-TT
1 TATATATTATG
101135264 TAATATATATATG
1 T-ATATAT-TATG
101135277 TATATATTTATG
1 TATATA-TTATG
101135289 TA-ATATTAT
1 TATATATTAT
101135298 CAATAATTGT
Statistics
Matches: 88, Mismatches: 11, Indels: 28
0.69 0.09 0.22
Matches are distributed among these distances:
10 15 0.17
11 39 0.44
12 20 0.23
13 13 0.15
14 1 0.01
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (11 bp):
TATATATTATG
Found at i:101135373 original size:23 final size:23
Alignment explanation
Indices: 101135333--101135434 Score: 61
Period size: 23 Copynumber: 4.4 Consensus size: 23
101135323 TCATTTCTAA
* *
101135333 TATATATGTGTATCGTATATGTTTT
1 TATATATAT-TAT-GTATATATTTT
*
101135358 TATATATATTATGTATATATCTT
1 TATATATATTATGTATATATTTT
*
101135381 TAGTAT-TATTA-GT-TTTATGTTT
1 TA-TATATATTATGTATATAT-TTT
* *
101135403 TTTATACTATT-TCATATATATTTT
1 TATATA-TATTAT-GTATATATTTT
101135427 TATA-ATAT
1 TATATATAT
101135435 CCTTATTATT
Statistics
Matches: 61, Mismatches: 9, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
21 7 0.11
22 8 0.13
23 21 0.34
24 13 0.21
25 12 0.20
ACGTcount: A:0.29, C:0.04, G:0.08, T:0.59
Consensus pattern (23 bp):
TATATATATTATGTATATATTTT
Found at i:101135604 original size:26 final size:28
Alignment explanation
Indices: 101135575--101135636 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 28
101135565 TATGTAAATA
*
101135575 TTTTAATACTATATTATGTATA-C-AT-T
1 TTTTAATA-TATATTACGTATATCTATCT
*
101135601 TTTT-GTATATATTACGTATATCTATCT
1 TTTTAATATATATTACGTATATCTATCT
101135628 TTTTAATAT
1 TTTTAATAT
101135637 TGTTTTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
24 12 0.41
25 3 0.10
26 6 0.21
27 5 0.17
28 3 0.10
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.56
Consensus pattern (28 bp):
TTTTAATATATATTACGTATATCTATCT
Found at i:101135991 original size:18 final size:19
Alignment explanation
Indices: 101135953--101135996 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
101135943 ATTATACGTG
101135953 TATATATATATATACTTTT
1 TATATATATATATACTTTT
101135972 TATATATAGTAT-TA-TTTT
1 TATATATA-TATATACTTTT
101135990 TATATAT
1 TATATAT
101135997 CATTATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.46
19 10 0.42
20 3 0.12
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (19 bp):
TATATATATATATACTTTT
Found at i:101136001 original size:16 final size:15
Alignment explanation
Indices: 101135959--101136014 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 15
101135949 CGTGTATATA
*
101135959 TATATATACTT-TTTA
1 TATATATA-TTATTTT
101135974 TATATAGTATTATTTT
1 TATATA-TATTATTTT
*
101135990 TATATATCATTATATT
1 TATATAT-ATTATTTT
*
101136006 TACATATAT
1 TATATATAT
101136015 CTTTTTGTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
15 11 0.31
16 24 0.69
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (15 bp):
TATATATATTATTTT
Found at i:101136005 original size:18 final size:17
Alignment explanation
Indices: 101135953--101136006 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 17
101135943 ATTATACGTG
101135953 TATATATATATATACTTTT
1 TATATATAT-TATA-TTTT
*
101135972 TATATATAGTATTATTTT
1 TATATATATTA-TATTTT
101135990 TATATATCATTATATTT
1 TATATAT-ATTATATTT
101136007 ACATATATCT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 18 0.58
19 13 0.42
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (17 bp):
TATATATATTATATTTT
Found at i:101140705 original size:13 final size:13
Alignment explanation
Indices: 101140687--101140720 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
101140677 AAGAAATTTG
101140687 ATAAAAACAT-AAA
1 ATAAAAA-ATAAAA
101140700 ATAAAAAATAAAA
1 ATAAAAAATAAAA
101140713 ATAAAAAA
1 ATAAAAAA
101140721 ATGCAATCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 2 0.10
13 18 0.90
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (13 bp):
ATAAAAAATAAAA
Found at i:101145980 original size:22 final size:20
Alignment explanation
Indices: 101145937--101145976 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
101145927 TTCCATTTAT
101145937 TAAAATTATTTTTCATATAA
1 TAAAATTATTTTTCATATAA
101145957 TAAAATATATTTTT-ATATAA
1 TAAAAT-TATTTTTCATATAA
101145977 AATATAACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
TAAAATTATTTTTCATATAA
Found at i:101146816 original size:19 final size:19
Alignment explanation
Indices: 101146779--101146816 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
101146769 TATATATATA
*
101146779 ATATAAATTTATTTTATTT
1 ATATAAATTTATTTCATTT
101146798 ATATATAATTT-TTTCATTT
1 ATATA-AATTTATTTCATTT
101146817 TATTTATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (19 bp):
ATATAAATTTATTTCATTT
Found at i:101147791 original size:16 final size:17
Alignment explanation
Indices: 101147760--101147792 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
101147750 TTTATTTTCA
101147760 TATTTGATTAATATAAT
1 TATTTGATTAATATAAT
*
101147777 TATTTG-TTTATATAAT
1 TATTTGATTAATATAAT
101147793 ATCCAATGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (17 bp):
TATTTGATTAATATAAT
Found at i:101148186 original size:20 final size:20
Alignment explanation
Indices: 101148161--101148199 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
101148151 CATATAAGGT
101148161 GGATGTCTT-CAATGGAACAA
1 GGATGT-TTGCAATGGAACAA
*
101148181 GGATGTTTGTAATGGAACA
1 GGATGTTTGCAATGGAACA
101148200 GAGCCTGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.28
Consensus pattern (20 bp):
GGATGTTTGCAATGGAACAA
Found at i:101149819 original size:104 final size:104
Alignment explanation
Indices: 101149639--101149848 Score: 411
Period size: 104 Copynumber: 2.0 Consensus size: 104
101149629 CTGACAGTAC
*
101149639 ATTGAATAGGATGTAGAATAGATCATGAATCCGTTTATTGATTTATTCACTTGTGACATTCATAA
1 ATTGAATAGGATGTAGAATAGATCATGAATCCGTTTATGGATTTATTCACTTGTGACATTCATAA
101149704 TGTGGCATACCTTAATCTTGAGTAGATGATGGATTATGT
66 TGTGGCATACCTTAATCTTGAGTAGATGATGGATTATGT
101149743 ATTGAATAGGATGTAGAATAGATCATGAATCCGTTTATGGATTTATTCACTTGTGACATTCATAA
1 ATTGAATAGGATGTAGAATAGATCATGAATCCGTTTATGGATTTATTCACTTGTGACATTCATAA
101149808 TGTGGCATACCTTAATCTTGAGTAGATGATGGATTATGT
66 TGTGGCATACCTTAATCTTGAGTAGATGATGGATTATGT
101149847 AT
1 AT
101149849 GCGCGACTTA
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 105 1.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.38
Consensus pattern (104 bp):
ATTGAATAGGATGTAGAATAGATCATGAATCCGTTTATGGATTTATTCACTTGTGACATTCATAA
TGTGGCATACCTTAATCTTGAGTAGATGATGGATTATGT
Found at i:101150710 original size:17 final size:17
Alignment explanation
Indices: 101150690--101150735 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
101150680 TAAAATTTGG
*
101150690 TTGAGAAATTTATTTAA
1 TTGAGAAATTAATTTAA
101150707 TTGAGAAATTAATTT-A
1 TTGAGAAATTAATTTAA
* *
101150723 TTTAGAAAATAAT
1 TTGAGAAATTAAT
101150736 ATTTAATTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (17 bp):
TTGAGAAATTAATTTAA
Found at i:101150974 original size:19 final size:19
Alignment explanation
Indices: 101150950--101150986 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
101150940 AAAATTAATT
*
101150950 AATTTAATTTAATAAATAA
1 AATTTAATTTAAAAAATAA
*
101150969 AATTTATTTTAAAAAATA
1 AATTTAATTTAAAAAATA
101150987 GAAAAACATG
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTTAATTTAAAAAATAA
Found at i:101152151 original size:24 final size:24
Alignment explanation
Indices: 101152122--101152173 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
101152112 TTTTTAGAAG
* * *
101152122 ATTTAATATTTATTAGTATAATAT
1 ATTTAACATGTATTAGCATAATAT
*
101152146 ATTTAACATGTATTAGCATAATTT
1 ATTTAACATGTATTAGCATAATAT
101152170 ATTT
1 ATTT
101152174 GACCTATGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (24 bp):
ATTTAACATGTATTAGCATAATAT
Found at i:101154722 original size:32 final size:32
Alignment explanation
Indices: 101154675--101154755 Score: 108
Period size: 32 Copynumber: 2.5 Consensus size: 32
101154665 TACCCAAATA
* *
101154675 GTACAACTTGTAAAGGCTATGTACACTTTGTGT
1 GTAC-ACTTGGAAAGGCTAGGTACACTTTGTGT
* *
101154708 GTACACTTGGAAAGGTTAGGTATACTTTGTGT
1 GTACACTTGGAAAGGCTAGGTACACTTTGTGT
101154740 GTACCACTTGGAAAGG
1 GTA-CACTTGGAAAGG
101154756 AATGTGCACC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
32 27 0.63
33 16 0.37
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (32 bp):
GTACACTTGGAAAGGCTAGGTACACTTTGTGT
Found at i:101156842 original size:24 final size:24
Alignment explanation
Indices: 101156814--101156859 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
101156804 TTTCTAGAAG
* *
101156814 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
101156838 ATTTAGCATTTATTAGCATAAT
1 ATTTAGCATTTATTAGCATAAT
101156860 TTAGTTGACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:101158657 original size:144 final size:144
Alignment explanation
Indices: 101158401--101158715 Score: 345
Period size: 144 Copynumber: 2.2 Consensus size: 144
101158391 CGAGGCTAAA
* *
101158401 GCCATGTCCCAGACATGGTCTTACACTGGCTTTCATAATGTAGCCGATGCCATGTCTCAGACATG
1 GCCATGTCCCAGACATGGTCTTACACTGGCTTTCATAATGTAGCCGATACCATGTCTCAAACATG
* * * * *
101158466 GTCTTACACTATCGCACATATCAATACCGATGCCATGTCCCAGACATGGTTTTACACTGGCTCTC
66 GTCTTACACTAGCGCACATATCAATACCGATGCCATGTCCCAAACATGATCTTACACTGACTCTC
*
101158531 AT-TACATTACCGAT
131 ATAT-CATGACCGAT
* *
101158545 GCCATGTTCCA-AGCATGGTCTTACACTGGCTTTCATTACAT-T-GCTGATACCATGT-TCCAAA
1 GCCATGTCCCAGA-CATGGTCTTACACTGGCTTTCA-TA-ATGTAGCCGATACCATGTCT-CAAA
* * ** * ** * *
101158606 CATGGTCTTACACTGGCTCTTATATC-ATGGCCGATGCCATGTTTCAAACATGATCTTGCATTGA
62 CATGGTCTTACACTAGCGCACATATCAAT-ACCGATGCCATGTCCCAAACATGATCTTACACTGA
* *
101158670 CTCTCATATCGTGGCCGAT
126 CTCTCATATCATGACCGAT
101158689 GCCATGTCCCAGACATGGTCTTACACT
1 GCCATGTCCCAGACATGGTCTTACACT
101158716 AGCACACATA
Statistics
Matches: 142, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
143 4 0.03
144 131 0.92
145 5 0.04
146 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.31
Consensus pattern (144 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCTTTCATAATGTAGCCGATACCATGTCTCAAACATG
GTCTTACACTAGCGCACATATCAATACCGATGCCATGTCCCAAACATGATCTTACACTGACTCTC
ATATCATGACCGAT
Found at i:101158727 original size:48 final size:48
Alignment explanation
Indices: 101158401--101158715 Score: 300
Period size: 48 Copynumber: 6.6 Consensus size: 48
101158391 CGAGGCTAAA
*
101158401 GCCATGTCCCAGACATGGTCTTACACTGGCTTTCATA--ATGTAGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATG--GCCGAT
* ** * * *
101158449 GCCATGTCTCAGACATGGTCTTACACTATCGCACATATCAAT-ACCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-ATGGCCGAT
* **
101158497 GCCATGTCCCAGACATGGTTTTACACTGGCTCTCAT-TACATTACCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT-CATGGCCGAT
* * * *
101158545 GCCATGTTCCA-AGCATGGTCTTACACTGGCTTTCAT-TACATTGCTGAT
1 GCCATGTCCCAGA-CATGGTCTTACACTGGCTCTCATAT-CATGGCCGAT
* * * *
101158593 ACCATGTTCCAAACATGGTCTTACACTGGCTCTTATATCATGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGGCCGAT
** * * * * * *
101158641 GCCATGTTTCAAACATGATCTTGCATTGACTCTCATATCGTGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGGCCGAT
101158689 GCCATGTCCCAGACATGGTCTTACACT
1 GCCATGTCCCAGACATGGTCTTACACT
101158716 AGCACACATA
Statistics
Matches: 222, Mismatches: 37, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
47 4 0.02
48 214 0.96
49 2 0.01
51 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.31
Consensus pattern (48 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGGCCGAT
Found at i:101164071 original size:6 final size:6
Alignment explanation
Indices: 101164060--101164095 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
101164050 AACCAGGGTT
101164060 AAGGCA AAGGCA AAGGCA AAGGCA AAGGCA AAGGCA
1 AAGGCA AAGGCA AAGGCA AAGGCA AAGGCA AAGGCA
101164096 GTCCTAATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.50, C:0.17, G:0.33, T:0.00
Consensus pattern (6 bp):
AAGGCA
Found at i:101174533 original size:23 final size:21
Alignment explanation
Indices: 101174507--101174546 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
101174497 AGTTTTTCTA
*
101174507 TATATATTATTTAAAAAATGC
1 TATATATTTTTTAAAAAATGC
101174528 TATATATTTTTTAAAAAAT
1 TATATATTTTTTAAAAAAT
101174547 AGTTTCTTTA
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:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (21 bp):
TATATATTTTTTAAAAAATGC
Found at i:101174534 original size:50 final size:52
Alignment explanation
Indices: 101174469--101174577 Score: 170
Period size: 50 Copynumber: 2.1 Consensus size: 52
101174459 ATATTTATAT
*
101174469 ATAAAATGCTCTATATTTTTTAAAAAATAGTTT-TTCTATATAT-ATTATTTA
1 ATAAAATGCTATATATTTTTTAAAAAATAGTTTCTT-TATATATAATTATTTA
101174520 A-AAAATGCTATATATTTTTTAAAAAATAGTTTCTTTATATATAAATTATTTA
1 ATAAAATGCTATATATTTTTTAAAAAATAGTTTCTTTATATAT-AATTATTTA
101174572 ATAAAA
1 ATAAAA
101174578 ATATTTTTTA
Statistics
Matches: 53, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
50 37 0.70
51 3 0.06
52 9 0.17
53 4 0.08
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.48
Consensus pattern (52 bp):
ATAAAATGCTATATATTTTTTAAAAAATAGTTTCTTTATATATAATTATTTA
Found at i:101174633 original size:24 final size:24
Alignment explanation
Indices: 101174606--101174655 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
101174596 ATTTTTTGTT
*
101174606 TTAAAATCAA-TATTATATAAATAC
1 TTAAAAACAACTATTATA-AAATAC
101174630 TTAAAAACAAGCTATTATAAAATAC
1 TTAAAAACAA-CTATTATAAAATAC
101174655 T
1 T
101174656 AATTAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 9 0.39
25 7 0.30
26 7 0.30
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (24 bp):
TTAAAAACAACTATTATAAAATAC
Found at i:101177959 original size:30 final size:29
Alignment explanation
Indices: 101177902--101177974 Score: 96
Period size: 30 Copynumber: 2.4 Consensus size: 29
101177892 ATTTTAAAAA
101177902 TTTTAAA-TTAAAAACTTGAGTGAGTGAT
1 TTTTAAATTTAAAAACTTGAGTGAGTGAT
101177930 TTTTAAATTTAAAAACTTAAGAG-GAGTGAT
1 TTTTAAATTTAAAAACTT--GAGTGAGTGAT
101177960 TTTTAATATCTTAAA
1 TTTTAA-AT-TTAAA
101177975 GTATTAAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
28 7 0.17
29 10 0.25
30 13 0.32
31 5 0.12
32 5 0.12
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.41
Consensus pattern (29 bp):
TTTTAAATTTAAAAACTTGAGTGAGTGAT
Found at i:101177962 original size:29 final size:27
Alignment explanation
Indices: 101177901--101177962 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 27
101177891 AATTTTAAAA
101177901 ATTTTAAATTAAAAACTTGAGTGAGTG
1 ATTTTAAATTAAAAACTTGAGTGAGTG
101177928 ATTTTTAAATTTAAAAACTTAAGAG-GAGTG
1 A-TTTTAAA-TTAAAAACTT--GAGTGAGTG
101177958 ATTTT
1 ATTTT
101177963 TAATATCTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
27 1 0.03
28 7 0.23
29 14 0.45
30 6 0.19
31 3 0.10
ACGTcount: A:0.40, C:0.03, G:0.16, T:0.40
Consensus pattern (27 bp):
ATTTTAAATTAAAAACTTGAGTGAGTG
Found at i:101187998 original size:2 final size:2
Alignment explanation
Indices: 101187991--101188017 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
101187981 TAAGCCCTTA
101187991 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
101188018 AACACACACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:101195830 original size:25 final size:26
Alignment explanation
Indices: 101195802--101195853 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
101195792 TACGACTGGT
* *
101195802 TTATGAATTGATGTTTA-TTGAATAC
1 TTATGAATTGATATTCATTTGAATAC
*
101195827 TTATTAATTGATATTCATTTGAATAC
1 TTATGAATTGATATTCATTTGAATAC
101195853 T
1 T
101195854 AATTCCAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.50
Consensus pattern (26 bp):
TTATGAATTGATATTCATTTGAATAC
Found at i:101200794 original size:25 final size:25
Alignment explanation
Indices: 101200765--101200814 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
101200755 AATTTGAAAG
*
101200765 TTAAAAAGGATTAAATTATTCTAAA
1 TTAAAAAAGATTAAATTATTCTAAA
101200790 TTAAAAAAGATTAAATTATTCTAAA
1 TTAAAAAAGATTAAATTATTCTAAA
101200815 AATAAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (25 bp):
TTAAAAAAGATTAAATTATTCTAAA
Found at i:101200821 original size:25 final size:25
Alignment explanation
Indices: 101200766--101200822 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 25
101200756 ATTTGAAAGT
*
101200766 TAAAAAGGATTAAATTATTCTAAAT
1 TAAAAAGGATTAAATTATTCTAAAA
*
101200791 TAAAAAAGATTAAATTATTCTAAAAA
1 TAAAAAGGATTAAATTATTCT-AAAA
101200817 TAAAAA
1 TAAAAA
101200823 TTAAAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 20 0.69
26 9 0.31
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.32
Consensus pattern (25 bp):
TAAAAAGGATTAAATTATTCTAAAA
Found at i:101202858 original size:82 final size:82
Alignment explanation
Indices: 101202758--101202922 Score: 258
Period size: 82 Copynumber: 2.0 Consensus size: 82
101202748 GAGAAAGTGT
** * * **
101202758 TTTGAATTATGGGTAATGAGTGTGAATGAAATCATGTTCATGTTACTTATAGTAAGTAATGGGAG
1 TTTGAATTATGGGTAATGAGCATGAATGAAATCACGTCCATGTTACTTATAGTAAGTAATAAGAG
101202823 AGAAATTATAAAGATAA
66 AGAAATTATAAAGATAA
* *
101202840 TTTGAATTATGGGTAATGAGCATGAATGAAATCACGTCCATGTTACTTGTAGTGAGTAATAAGAG
1 TTTGAATTATGGGTAATGAGCATGAATGAAATCACGTCCATGTTACTTATAGTAAGTAATAAGAG
101202905 AGAAATTATAAAGATAA
66 AGAAATTATAAAGATAA
101202922 T
1 T
101202923 GGATAATGGT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 75 1.00
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.33
Consensus pattern (82 bp):
TTTGAATTATGGGTAATGAGCATGAATGAAATCACGTCCATGTTACTTATAGTAAGTAATAAGAG
AGAAATTATAAAGATAA
Found at i:101203547 original size:20 final size:21
Alignment explanation
Indices: 101203502--101203547 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
101203492 ATGTAAGAAG
*
101203502 TTCACATGTGTTTAAACCTTTA
1 TTCACATGTGTTTAAA-CTATA
101203524 TTCACATGT-TTTAAA-TATA
1 TTCACATGTGTTTAAACTATA
101203543 CTTCA
1 -TTCA
101203548 AGTCAAATCC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 3 0.14
20 4 0.18
21 6 0.27
22 9 0.41
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.46
Consensus pattern (21 bp):
TTCACATGTGTTTAAACTATA
Found at i:101206671 original size:52 final size:52
Alignment explanation
Indices: 101206609--101206713 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
101206599 CAATTACATA
101206609 TGATGAAACTCAAAGATCTATATATATAATTGCTCATGGTAGATATTGAGTT
1 TGATGAAACTCAAAGATCTATATATATAATTGCTCATGGTAGATATTGAGTT
*
101206661 TGATGAAACTCAAAGATCTGTATATATAATTGCTCATGGTAGATATTGAGTT
1 TGATGAAACTCAAAGATCTATATATATAATTGCTCATGGTAGATATTGAGTT
101206713 T
1 T
101206714 AAGTATGCAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (52 bp):
TGATGAAACTCAAAGATCTATATATATAATTGCTCATGGTAGATATTGAGTT
Found at i:101207291 original size:33 final size:33
Alignment explanation
Indices: 101207249--101207315 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
101207239 ACAATGTGAC
101207249 TGCGCTGTACTTTGAGATGAACCTCAATTCTCT
1 TGCGCTGTACTTTGAGATGAACCTCAATTCTCT
101207282 TGCGCTGTACTTTGAGATGAACCTCAATTCTCT
1 TGCGCTGTACTTTGAGATGAACCTCAATTCTCT
101207315 T
1 T
101207316 CTTTTACATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (33 bp):
TGCGCTGTACTTTGAGATGAACCTCAATTCTCT
Found at i:101210938 original size:6 final size:6
Alignment explanation
Indices: 101210927--101210960 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
101210917 TTTGTAACAA
*
101210927 TTGGGG TTGGGG TTGGGG TTGGTG TTGGGG TTGG
1 TTGGGG TTGGGG TTGGGG TTGGGG TTGGGG TTGG
101210961 AACTACTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.62, T:0.38
Consensus pattern (6 bp):
TTGGGG
Found at i:101213690 original size:20 final size:22
Alignment explanation
Indices: 101213665--101213709 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
101213655 ATCTAACACC
101213665 ATAATTAAATTTAT-TT-AAAA
1 ATAATTAAATTTATATTGAAAA
*
101213685 ATAATTAATTTTATATTGAAAA
1 ATAATTAAATTTATATTGAAAA
101213707 ATA
1 ATA
101213710 TTTTACCAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.59
21 2 0.09
22 7 0.32
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
ATAATTAAATTTATATTGAAAA
Found at i:101227300 original size:21 final size:21
Alignment explanation
Indices: 101227276--101227316 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
101227266 CATCGTCTAT
* *
101227276 TTATGCTTTATATTTATTTGA
1 TTATACTTTATAATTATTTGA
*
101227297 TTATACTTTTTAATTATTTG
1 TTATACTTTATAATTATTTG
101227317 GACATGTACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.05, G:0.07, T:0.63
Consensus pattern (21 bp):
TTATACTTTATAATTATTTGA
Found at i:101233809 original size:25 final size:25
Alignment explanation
Indices: 101233752--101233809 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
101233742 ATTTGTAAGG
*
101233752 ATTTAATTGAATTGATTAATTGTTA
1 ATTTAATTCAATTGATTAATTGTTA
* * * * *
101233777 AATAAATTCAATTTATTTATTTTTA
1 ATTTAATTCAATTGATTAATTGTTA
101233802 ATTTAATT
1 ATTTAATT
101233810 TATTAACTAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (25 bp):
ATTTAATTCAATTGATTAATTGTTA
Found at i:101237560 original size:22 final size:22
Alignment explanation
Indices: 101237532--101237585 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 22
101237522 ATAATAAAAG
101237532 AAATATATAACAAATAACATAA
1 AAATATATAACAAATAACATAA
**
101237554 AAATATATGTATGAAATAACATAA
1 AAATATA--TAACAAATAACATAA
101237578 AAATATAT
1 AAATATAT
101237586 GAATAGCGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 8 0.29
24 20 0.71
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.28
Consensus pattern (22 bp):
AAATATATAACAAATAACATAA
Found at i:101240231 original size:54 final size:54
Alignment explanation
Indices: 101240152--101240332 Score: 298
Period size: 54 Copynumber: 3.4 Consensus size: 54
101240142 GAAAAGTAGA
* *
101240152 TTTTGAAAAACAGACATTAAAAGGCTCAACTCACCTCTCGTAATATGAGTTGAT
1 TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
101240206 TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
1 TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
101240259 TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGA-TTGAT
1 TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
101240312 TCTTTG--AAACAGACATTAAAA
1 T-TTTGAAAAACAGAAATTAAAA
101240333 ACAGAAATTG
Statistics
Matches: 122, Mismatches: 3, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
52 18 0.15
53 49 0.40
54 55 0.45
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (54 bp):
TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
Found at i:101240433 original size:86 final size:84
Alignment explanation
Indices: 101240280--101240595 Score: 374
Period size: 86 Copynumber: 3.7 Consensus size: 84
101240270 AGAAATTAAA
*
101240280 AGGCTCAACTCACCTCTCGCAATATGA-TTGATTCTTTG-AAACAGACATTAAAAACAGAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGA-ATTAAAAACAG-AATTG
* *
101240343 AAAATAGCTCAGTGCATGAGCCA
64 AAAATA-CTCAG-GCATGACCCG
* * * *
101240366 AGACGCAACTCACCTCTCGCAATATGAGTTG-GTTTTTGAAAACATGAATT-AAAACAGAATTTA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACA-GAATTAAAAACAGAA-TTG
101240429 AAAATACCTC-GGCATGTGACCCG
64 AAAATA-CTCAGGCA--TGACCCG
101240452 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAACAAGAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACAG-AATTAAAAAC-AGAATT
* * *
101240517 GAAAATACTTCA-GCGTGTCCTG
63 GAAAATAC-TCAGGCATGACCCG
*
101240539 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATAAAAACA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAATTAAAAACA
101240596 TCAAAATACC
Statistics
Matches: 201, Mismatches: 16, Indels: 28
0.82 0.07 0.11
Matches are distributed among these distances:
84 4 0.02
85 12 0.06
86 89 0.44
87 62 0.31
88 13 0.06
89 17 0.08
90 4 0.02
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (84 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAATTAAAAACAGAATTGAA
AATACTCAGGCATGACCCG
Found at i:101240568 original size:173 final size:171
Alignment explanation
Indices: 101240280--101240592 Score: 438
Period size: 173 Copynumber: 1.8 Consensus size: 171
101240270 AGAAATTAAA
*
101240280 AGGCTCAACTCACCTCTCGCAATATGATTGATTCTTTGAAACAGACATTAAAAACAGAAATTGAA
1 AGGCTCAACTCACCTCTCGCAATATGATTGATTCTTTGAAACAGAAATTAAAAACAGAAATTGAA
101240345 AATAGCTCAGTGCATGAGCCAAGACGCAACTCACCTCTCGCAATATGAGTTG-GTTTTTGAAAAC
66 AATAGCTCAG-GCATGAGCCAAGACGCAACTCACCTCTCGCAATATGAGTTGAGTTTTTGAAAAC
*
101240409 ATGAATTAAAACAGAATTTAAAAATACCTCGGCATGTGACCCG
130 A-GAAATAAAACAGAATTTAAAAATACCTCGGCATGTGACCCG
*
101240452 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAACA-AGAAT
1 AGGCTCAACTCACCTCTCGCAATATGA-TTGATTCTTTG--AAACAGAAATTAAAAACAGA-AAT
* * * * * *
101240516 TGAAAATA-CTTCA-GCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
62 TGAAAATAGC-TCAGGCATGAGCC-AAGACGCAACTCACCTCTCGCAATATGAGTTGAGTTTTTG
101240578 AAAACAGAAATAAAA
125 AAAACAGAAATAAAA
101240593 ACATCAAAAT
Statistics
Matches: 125, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
172 29 0.23
173 51 0.41
174 14 0.11
175 31 0.25
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (171 bp):
AGGCTCAACTCACCTCTCGCAATATGATTGATTCTTTGAAACAGAAATTAAAAACAGAAATTGAA
AATAGCTCAGGCATGAGCCAAGACGCAACTCACCTCTCGCAATATGAGTTGAGTTTTTGAAAACA
GAAATAAAACAGAATTTAAAAATACCTCGGCATGTGACCCG
Found at i:101252878 original size:22 final size:22
Alignment explanation
Indices: 101252850--101252903 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 22
101252840 ATAATAAAAG
101252850 AAATATATAACAAATAACATAA
1 AAATATATAACAAATAACATAA
**
101252872 AAATATATGTATGAAATAACATAA
1 AAATATA--TAACAAATAACATAA
101252896 AAATATAT
1 AAATATAT
101252904 GAATAGCGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 8 0.29
24 20 0.71
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.28
Consensus pattern (22 bp):
AAATATATAACAAATAACATAA
Found at i:101253195 original size:31 final size:31
Alignment explanation
Indices: 101253160--101253226 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
101253150 TTATAAGAAA
101253160 ATATAACTAATAATATTGAAAA-A-ATATATAT
1 ATATAAC--ATAATATTGAAAACACATATATAT
*
101253191 ATATAACATAATATTTAAAACACATATATAT
1 ATATAACATAATATTGAAAACACATATATAT
101253222 ATATA
1 ATATA
101253227 TATGATATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 12 0.36
30 1 0.03
31 20 0.61
ACGTcount: A:0.57, C:0.06, G:0.01, T:0.36
Consensus pattern (31 bp):
ATATAACATAATATTGAAAACACATATATAT
Found at i:101253201 original size:29 final size:28
Alignment explanation
Indices: 101253160--101253252 Score: 89
Period size: 31 Copynumber: 3.1 Consensus size: 28
101253150 TTATAAGAAA
101253160 ATATAACTAATAATATTGAAAAAATATATAT
1 ATATAAC--ATAATATT-AAAAAATATATAT
101253191 ATATAACATAATATTTAAAACACATATATAT
1 ATATAACATAATA-TTAAAA-A-ATATATAT
* * *
101253222 ATAT-ATATGATATATAAAAATTATATAT
1 ATATAACATAATAT-TAAAAAATATATAT
101253250 ATA
1 ATA
101253253 ATACACTATA
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
28 10 0.18
29 12 0.22
30 14 0.25
31 19 0.35
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (28 bp):
ATATAACATAATATTAAAAAATATATAT
Found at i:101254642 original size:30 final size:30
Alignment explanation
Indices: 101254608--101254670 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
101254598 ACTTAACAAG
*
101254608 CAAATGCTTTTAAAATAATAAAAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
*
101254638 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
101254668 CAA
1 CAA
101254671 TAAAATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.27
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:101254698 original size:29 final size:32
Alignment explanation
Indices: 101254657--101254716 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
101254647 TTAAAATAAT
101254657 AAGAAAATTAACAAT-AAA-ATAAAAAAAAAC
1 AAGAAAATTAACAATCAAATATAAAAAAAAAC
*
101254687 AAGAAAA-TAACATTCAAATATAAAAAAAAA
1 AAGAAAATTAACAATCAAATATAAAAAAAAA
101254717 TATGCAGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 6 0.22
30 10 0.37
31 11 0.41
ACGTcount: A:0.75, C:0.07, G:0.03, T:0.15
Consensus pattern (32 bp):
AAGAAAATTAACAATCAAATATAAAAAAAAAC
Found at i:101255610 original size:17 final size:18
Alignment explanation
Indices: 101255574--101255610 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
101255564 TAACATATTT
101255574 TTTAATATTTACATTATA
1 TTTAATATTTACATTATA
101255592 TTTAAT-TTT-CATATATA
1 TTTAATATTTACAT-TATA
101255609 TT
1 TT
101255611 ATAAATTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.17
17 9 0.50
18 6 0.33
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTAATATTTACATTATA
Found at i:101259716 original size:22 final size:21
Alignment explanation
Indices: 101259688--101259752 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 21
101259678 AGCTTACTAT
101259688 TTTCAGCTTAT-TGGAGCTTACC
1 TTTCAGCTTATAT-GAGCTTA-C
*
101259710 TTTCAGCTTGTATGAGCTTAC
1 TTTCAGCTTATATGAGCTTAC
*
101259731 TATTCAGCTCGATA-GAGCTTAC
1 T-TTCAGCT-TATATGAGCTTAC
101259753 CATTTCAACT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
21 2 0.05
22 32 0.86
23 3 0.08
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (21 bp):
TTTCAGCTTATATGAGCTTAC
Found at i:101259768 original size:23 final size:22
Alignment explanation
Indices: 101259723--101259781 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
101259713 CAGCTTGTAT
* * *
101259723 GAGCTTACTATTCAGCTCGATA
1 GAGCTTACCATTCAACTCAATA
101259745 GAGCTTACCATTTCAACTCAATA
1 GAGCTTACCA-TTCAACTCAATA
*
101259768 GAGCTTACTATTCA
1 GAGCTTACCATTCA
101259782 TCAGCTTAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 13 0.41
23 19 0.59
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.32
Consensus pattern (22 bp):
GAGCTTACCATTCAACTCAATA
Found at i:101266648 original size:31 final size:31
Alignment explanation
Indices: 101266613--101266671 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
101266603 TTTTATGTGT
* *
101266613 TAAGGATTAAATTGCAAAGTAGTCAAAAGTC
1 TAAGGATAAAATTGCAAAGTACTCAAAAGTC
* * *
101266644 TAAGGGTAAAATTGTAAATTACTCAAAA
1 TAAGGATAAAATTGCAAAGTACTCAAAA
101266672 CGAATGTTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.47, C:0.08, G:0.17, T:0.27
Consensus pattern (31 bp):
TAAGGATAAAATTGCAAAGTACTCAAAAGTC
Found at i:101267126 original size:22 final size:22
Alignment explanation
Indices: 101267101--101267158 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 22
101267091 AGCTTGTTTG
*
101267101 AGCTTATTGTTCAACTCAATAA
1 AGCTTACTGTTCAACTCAATAA
* *
101267123 AGCTTACCGTTTCAGCTCAATAA
1 AGCTTACTG-TTCAACTCAATAA
*
101267146 AGATTACTGTTCA
1 AGCTTACTGTTCA
101267159 TCAGCTCAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 11 0.37
23 19 0.63
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (22 bp):
AGCTTACTGTTCAACTCAATAA
Found at i:101267141 original size:23 final size:23
Alignment explanation
Indices: 101267110--101267167 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
101267100 GAGCTTATTG
* *
101267110 TTCAACTCAATAAAGCTTACCGT
1 TTCAGCTCAATAAAGATTACCGT
*
101267133 TTCAGCTCAATAAAGATTACTGT
1 TTCAGCTCAATAAAGATTACCGT
101267156 TCATCAGCTCAA
1 T--TCAGCTCAA
101267168 GAGGAGCTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 21 0.70
25 9 0.30
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.31
Consensus pattern (23 bp):
TTCAGCTCAATAAAGATTACCGT
Found at i:101268722 original size:27 final size:27
Alignment explanation
Indices: 101268692--101268746 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
101268682 GTTATGAGAG
* *
101268692 TGTGGATAATCTTAGCATTTATTCTAT
1 TGTGGAGAATCTTAGCACTTATTCTAT
101268719 TGTGGAGAATCTTAGCACTTATTCTAT
1 TGTGGAGAATCTTAGCACTTATTCTAT
101268746 T
1 T
101268747 ATTTAGAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.45
Consensus pattern (27 bp):
TGTGGAGAATCTTAGCACTTATTCTAT
Found at i:101278120 original size:27 final size:27
Alignment explanation
Indices: 101278090--101278149 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
101278080 AAAAATCATC
*
101278090 AAAAATTATAATTTCAAAAAAATATAT
1 AAAAATAATAATTTCAAAAAAATATAT
** *
101278117 AAAAATAATTCTTTTAAAAAAATATAT
1 AAAAATAATAATTTCAAAAAAATATAT
*
101278144 GAAAAT
1 AAAAAT
101278150 GCACTCAAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (27 bp):
AAAAATAATAATTTCAAAAAAATATAT
Found at i:101288847 original size:21 final size:22
Alignment explanation
Indices: 101288803--101288844 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
101288793 TTTGATGAAA
101288803 TTTTTTTTTACCTTTTATTAAG
1 TTTTTTTTTACCTTTTATTAAG
101288825 TTTTTTTTTACCTTTTATTA
1 TTTTTTTTTACCTTTTATTA
101288845 GTTAATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.17, C:0.10, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTTTTTTACCTTTTATTAAG
Found at i:101289183 original size:25 final size:26
Alignment explanation
Indices: 101289155--101289205 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
101289145 TATTTTATAA
*
101289155 TTTTTAT-TTTTAAAAAA-TATGATT
1 TTTTTATATTTTAAAAAAGTATAATT
101289179 TTTTTATATTTTAAAAAAGTATAATT
1 TTTTTATATTTTAAAAAAGTATAATT
101289205 T
1 T
101289206 AAAATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 7 0.29
25 10 0.42
26 7 0.29
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (26 bp):
TTTTTATATTTTAAAAAAGTATAATT
Found at i:101289243 original size:21 final size:22
Alignment explanation
Indices: 101289207--101289247 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
101289197 GTATAATTTA
*
101289207 AAATTTTTATTTTTTTAAATGT
1 AAATATTTATTTTTTTAAATGT
101289229 AAATATTTA-TTTTTTAAAT
1 AAATATTTATTTTTTTAAAT
101289248 TTTTTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
AAATATTTATTTTTTTAAATGT
Found at i:101290480 original size:18 final size:19
Alignment explanation
Indices: 101290441--101290503 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 19
101290431 CCCAACTTGA
*
101290441 ATATTATGTT-ATAAACTA-
1 ATATTATATTAAT-AACTAT
*
101290459 ATATTATATTAATTA-TAT
1 ATATTATATTAATAACTAT
*
101290477 ATATTA-AATAATAACTAT
1 ATATTATATTAATAACTAT
101290495 ATATT-TATT
1 ATATTATATT
101290504 TATATTAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
17 8 0.22
18 26 0.72
19 2 0.06
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (19 bp):
ATATTATATTAATAACTAT
Found at i:101290720 original size:19 final size:19
Alignment explanation
Indices: 101290696--101290760 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
101290686 ATATAAATAT
101290696 TTTTTAATGTGTTAGAAAA
1 TTTTTAATGTGTTAGAAAA
* * ** *
101290715 TTTTTATTTTAATATTAAATA
1 TTTTTAATGTGTTA-GAAA-A
101290736 TTTTTAATGTGTTAGAAAA
1 TTTTTAATGTGTTAGAAAA
101290755 TTTTTA
1 TTTTTA
101290761 TTTTAACATT
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 17 0.50
20 6 0.18
21 11 0.32
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTTAATGTGTTAGAAAA
Found at i:101290727 original size:40 final size:40
Alignment explanation
Indices: 101290681--101290766 Score: 156
Period size: 40 Copynumber: 2.1 Consensus size: 40
101290671 TGGCGGAGTT
101290681 TTTTAATA-TAAATATTTTTTAATGTGTTAGAAAATTTTTA
1 TTTTAATATTAAATA-TTTTTAATGTGTTAGAAAATTTTTA
101290721 TTTTAATATTAAATATTTTTAATGTGTTAGAAAATTTTTA
1 TTTTAATATTAAATATTTTTAATGTGTTAGAAAATTTTTA
101290761 TTTTAA
1 TTTTAA
101290767 CATTTTTAGT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 39 0.87
41 6 0.13
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (40 bp):
TTTTAATATTAAATATTTTTAATGTGTTAGAAAATTTTTA
Found at i:101291453 original size:30 final size:30
Alignment explanation
Indices: 101291419--101291481 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
101291409 ACTTATTTTA
*
101291419 TTGTTAATTTTGTT-ATTATTTTAAAGGCAT
1 TTGTTAA-TTTGTTAATTATTTTAAAGACAT
*
101291449 TTGTTAATTTGTTAATTATTTTAGAGACAT
1 TTGTTAATTTGTTAATTATTTTAAAGACAT
101291479 TTG
1 TTG
101291482 CTTATTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 6 0.20
30 24 0.80
ACGTcount: A:0.27, C:0.03, G:0.14, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTGTTAATTATTTTAAAGACAT
Found at i:101292059 original size:20 final size:21
Alignment explanation
Indices: 101292003--101292061 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
101291993 AAAACTGCTT
101292003 TTATTTAACTAAATTAAACCA
1 TTATTTAACTAAATTAAACCA
* *
101292024 TTATTTGAA-TACATTAATCC-
1 TTATTT-AACTAAATTAAACCA
*
101292044 TTATTTAACCAAATTAAA
1 TTATTTAACTAAATTAAA
101292062 AAATTTTAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 2 0.06
20 12 0.39
21 15 0.48
22 2 0.06
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.41
Consensus pattern (21 bp):
TTATTTAACTAAATTAAACCA
Found at i:101293398 original size:116 final size:116
Alignment explanation
Indices: 101293164--101293381 Score: 305
Period size: 116 Copynumber: 1.9 Consensus size: 116
101293154 AAGGATATTC
*
101293164 AAATACTTAAATCGAATAAAAAACGAAACCCAGTACGGTAGGGCACGTTTTTTTAAAACGATTAA
1 AAATACTTAAATCGAATAAAAAACGAAACCCAATACGGTAGGGCACGTTTTTTTAAAACGATTAA
* * * * * *
101293229 GTATAGAAAATTGCCTTTATTAAAAACTATTTGGGAACAAAACGTTGAATA
66 GTATAAAAAATTGCCTTTATTAAAAACAAGTTGAGAACAAAACATGGAATA
*
101293280 AAATACTTAAATCGAATAAAAAAACG-AACCCAATACGGTAGGGCATG-TTTTTTAAAACGATTA
1 AAATACTTAAATCGAAT-AAAAAACGAAACCCAATACGGTAGGGCACGTTTTTTTAAAACGATTA
** *
101293343 AGTATAAAAAATTGTTTTTATGTTAAAACAAGTTGAGAA
65 AGTATAAAAAATTGCCTTTAT-TAAAAACAAGTTGAGAA
101293382 TACATTATGG
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
115 34 0.37
116 49 0.54
117 8 0.09
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.28
Consensus pattern (116 bp):
AAATACTTAAATCGAATAAAAAACGAAACCCAATACGGTAGGGCACGTTTTTTTAAAACGATTAA
GTATAAAAAATTGCCTTTATTAAAAACAAGTTGAGAACAAAACATGGAATA
Found at i:101293416 original size:116 final size:117
Alignment explanation
Indices: 101293168--101293416 Score: 281
Period size: 116 Copynumber: 2.1 Consensus size: 117
101293158 ATATTCAAAT
* *
101293168 ACTTAAATCGAAT-AAAAAACGAAACCCAGTACGGTAGGGCACGTTTTTTTAAAACGATTAAGTA
1 ACTTAAAACGAATAAAAAAACGAAACCCAATACGGTAGGGCACGTTTTTTTAAAACGATTAAGTA
* * * * * * *
101293232 TAGAAAATTGCCTTTATTAAAAACTATTTGGGAACAAAACGTTGAATAAAAT
66 TAAAAAATTGCCTTTATTAAAAACAAGTTGAGAACAAAACATGGAATAAAAA
* *
101293284 ACTTAAATCGAATAAAAAAACG-AACCCAATACGGTAGGGCATG-TTTTTTAAAACGATTAAGTA
1 ACTTAAAACGAATAAAAAAACGAAACCCAATACGGTAGGGCACGTTTTTTTAAAACGATTAAGTA
** * * * **
101293347 TAAAAAATTGTTTTTATGTTAAAACAAGTTGAGAATACATTATGGAATAAAAGA
66 TAAAAAATTGCCTTTAT-TAAAAACAAGTTGAGAACAAAACATGGAATAAAA-A
*
101293401 AC-TAAAACGATTAAAA
1 ACTTAAAACGAATAAAA
101293417 TTTGGGGAGG
Statistics
Matches: 112, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
115 34 0.30
116 68 0.61
117 10 0.09
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.28
Consensus pattern (117 bp):
ACTTAAAACGAATAAAAAAACGAAACCCAATACGGTAGGGCACGTTTTTTTAAAACGATTAAGTA
TAAAAAATTGCCTTTATTAAAAACAAGTTGAGAACAAAACATGGAATAAAAA
Found at i:101294395 original size:17 final size:18
Alignment explanation
Indices: 101294375--101294408 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
101294365 ACTAAAGGGA
101294375 TAATC-TATAAATAAAAC
1 TAATCATATAAATAAAAC
*
101294392 TAATCATTTAAATAAAA
1 TAATCATATAAATAAAA
101294409 TTACGGGCCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (18 bp):
TAATCATATAAATAAAAC
Found at i:101305045 original size:27 final size:27
Alignment explanation
Indices: 101305008--101305076 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
101304998 GTCATACATG
*
101305008 TCAT-GGGGTATATCAGCCATTTTACC
1 TCATAGGGGTATAACAGCCATTTTACC
*
101305034 TCATAGGGGTATAACAGTCATTTTACC
1 TCATAGGGGTATAACAGCCATTTTACC
*
101305061 TCATAGGGGCATAACA
1 TCATAGGGGTATAACA
101305077 ATCATTTCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 4 0.10
27 35 0.90
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.30
Consensus pattern (27 bp):
TCATAGGGGTATAACAGCCATTTTACC
Found at i:101305081 original size:27 final size:27
Alignment explanation
Indices: 101305025--101305083 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
101305015 GTATATCAGC
* *
101305025 CATTTTACCTCATAGGGGTATAACAGT
1 CATTTTACCTCATAGGGGCATAACAAT
101305052 CATTTTACCTCATAGGGGCATAACAAT
1 CATTTTACCTCATAGGGGCATAACAAT
101305079 CATTT
1 CATTT
101305084 CATCAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (27 bp):
CATTTTACCTCATAGGGGCATAACAAT
Found at i:101306348 original size:10 final size:10
Alignment explanation
Indices: 101306333--101306359 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
101306323 GTTTTTAGTT
101306333 ATTAAAATGA
1 ATTAAAATGA
101306343 ATTAAAATGA
1 ATTAAAATGA
101306353 ATTAAAA
1 ATTAAAA
101306360 ACAAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (10 bp):
ATTAAAATGA
Found at i:101317640 original size:29 final size:28
Alignment explanation
Indices: 101317602--101317677 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 28
101317592 ATTTAAATAA
*
101317602 ATTTTTAAAATTTAAAAATAATAAAAACT
1 ATTTTAAAAATTTAAAAATAATAAAAA-T
* * *
101317631 ATTTTCAAAAA-TTAAATATCATTAAAAT
1 ATTTT-AAAAATTTAAAAATAATAAAAAT
*
101317659 TTTTTAAAAATTATAAAAA
1 ATTTTAAAAATT-TAAAAA
101317678 ATTACAAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
27 5 0.13
28 6 0.16
29 23 0.61
30 4 0.11
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (28 bp):
ATTTTAAAAATTTAAAAATAATAAAAAT
Found at i:101320902 original size:21 final size:21
Alignment explanation
Indices: 101320876--101320958 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 21
101320866 TGATCAGTAT
*
101320876 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * *
101320897 ACGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* *
101320918 ACGACACACGAGGTGCCTAAAA
1 ACGACACACAAAGTGCCT-AAA
*
101320940 TACGACACATAAAGTGCCT
1 -ACGACACACAAAGTGCCT
101320959 GATCGATAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
21 34 0.68
22 1 0.02
23 15 0.30
ACGTcount: A:0.39, C:0.27, G:0.20, T:0.14
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:101320942 original size:23 final size:22
Alignment explanation
Indices: 101320874--101320948 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 22
101320864 CCTGATCAGT
** *
101320874 ATACGACACATAAAGTGCCTAA
1 ATACGACACACGAGGTGCCTAA
*
101320896 A-ACGACACACGAGGTGCCT-G
1 ATACGACACACGAGGTGCCTAA
101320916 ATACGACACACGAGGTGCCTAAA
1 ATACGACACACGAGGTGCCT-AA
101320939 ATACGACACA
1 ATACGACACA
101320949 TAAAGTGCCT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.02
21 33 0.73
22 1 0.02
23 10 0.22
ACGTcount: A:0.40, C:0.27, G:0.20, T:0.13
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTAA
Found at i:101321359 original size:15 final size:15
Alignment explanation
Indices: 101321333--101321389 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
101321323 CATATATATT
101321333 ATATAA-TTCAATCA
1 ATATAATTTCAATCA
101321347 ATATAATTTCAATCA
1 ATATAATTTCAATCA
*
101321362 AAATAATTTCAATCA
1 ATATAATTTCAATCA
*
101321377 ATATAAATTCAAT
1 ATATAATTTCAAT
101321390 AAATTCATCG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 6 0.15
15 33 0.85
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATAATTTCAATCA
Found at i:101322668 original size:5 final size:5
Alignment explanation
Indices: 101322660--101322701 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
101322650 TCTTTAGTTT
101322660 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
101322702 TAAAACATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:101322737 original size:8 final size:8
Alignment explanation
Indices: 101322724--101322760 Score: 74
Period size: 8 Copynumber: 4.6 Consensus size: 8
101322714 TATCTTTATT
101322724 ATATAATA
1 ATATAATA
101322732 ATATAATA
1 ATATAATA
101322740 ATATAATA
1 ATATAATA
101322748 ATATAATA
1 ATATAATA
101322756 ATATA
1 ATATA
101322761 CTAAACATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:101331759 original size:33 final size:33
Alignment explanation
Indices: 101331722--101331794 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
101331712 TTTTGGGCCA
* **
101331722 CACGCCCATATCCCATGCCCGTGTGAGTTCTGC
1 CACGCCCATATCCCACGCCCGTGTGAGTTCCAC
* * * *
101331755 CACGCCCGTGTCCTACGCCTGTGTGAGTTCCAC
1 CACGCCCATATCCCACGCCCGTGTGAGTTCCAC
101331788 CACGCCC
1 CACGCCC
101331795 GTGTCTTAGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.14, C:0.42, G:0.22, T:0.22
Consensus pattern (33 bp):
CACGCCCATATCCCACGCCCGTGTGAGTTCCAC
Found at i:101337735 original size:14 final size:14
Alignment explanation
Indices: 101337716--101337742 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
101337706 AGTCGTACAC
101337716 AGTACGAGGAGTAT
1 AGTACGAGGAGTAT
101337730 AGTACGAGGAGTA
1 AGTACGAGGAGTA
101337743 GGATTCTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.37, T:0.19
Consensus pattern (14 bp):
AGTACGAGGAGTAT
Found at i:101340106 original size:19 final size:19
Alignment explanation
Indices: 101340082--101340121 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
101340072 ACCACATGAT
101340082 ACCGCTTAGTATTAGTTAA
1 ACCGCTTAGTATTAGTTAA
101340101 ACCGCTTAGTATTAGTTAA
1 ACCGCTTAGTATTAGTTAA
101340120 AC
1 AC
101340122 ATTAGACAAC
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:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (19 bp):
ACCGCTTAGTATTAGTTAA
Found at i:101340402 original size:14 final size:14
Alignment explanation
Indices: 101340380--101340410 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
101340370 CACTCTATAA
101340380 TCTTCTCTCCTTTC
1 TCTTCTCTCCTTTC
*
101340394 TCTTTTCTCCTTTC
1 TCTTCTCTCCTTTC
101340408 TCT
1 TCT
101340411 CATTTTCTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (14 bp):
TCTTCTCTCCTTTC
Found at i:101344430 original size:23 final size:23
Alignment explanation
Indices: 101344403--101344446 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
101344393 TTTAGAAATA
*
101344403 TAAAAAATTAAAAATATAATTTT
1 TAAAAAATTAAAAAAATAATTTT
**
101344426 TAAAATTTTAAAAAAATAATT
1 TAAAAAATTAAAAAAATAATT
101344447 AATACTAACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
TAAAAAATTAAAAAAATAATTTT
Found at i:101352992 original size:28 final size:27
Alignment explanation
Indices: 101352949--101353065 Score: 155
Period size: 28 Copynumber: 4.3 Consensus size: 27
101352939 AGCATGGCTG
* * *
101352949 CCAGAATAGAT-TTTGTGACAGAGTCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
*
101352975 CCAGATACAGATATTTGTGGCAGTGCCA
1 CCAGA-ACAGATATTTGTGGCAGAGCCA
101353003 CCAGAATCAGATATTTGTGGCAGAGCCA
1 CCAGAA-CAGATATTTGTGGCAGAGCCA
*
101353031 CCAGAAACAGATATTTGTGGCATAGCCA
1 CCAG-AACAGATATTTGTGGCAGAGCCA
101353059 CCAGAAC
1 CCAGAAC
101353066 GCTTCCTCCA
Statistics
Matches: 81, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
26 5 0.06
27 9 0.11
28 65 0.80
29 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.22
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCAGAGCCA
Found at i:101353033 original size:56 final size:54
Alignment explanation
Indices: 101352949--101353064 Score: 171
Period size: 56 Copynumber: 2.1 Consensus size: 54
101352939 AGCATGGCTG
* *
101352949 CCAGAATAGATTTTGTGACAGAGTCACCAGATACAGATATTTGTGGCAGT-GCCA
1 CCAGAATAGATTTTGTGACAGAGCCACCAGAAACAGATATTTGTGGCA-TAGCCA
*
101353003 CCAGAATCAGATATTTGTGGCAGAGCCACCAGAAACAGATATTTGTGGCATAGCCA
1 CCAGAAT-AGAT-TTTGTGACAGAGCCACCAGAAACAGATATTTGTGGCATAGCCA
101353059 CCAGAA
1 CCAGAA
101353065 CGCTTCCTCC
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
54 7 0.12
55 5 0.09
56 44 0.79
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (54 bp):
CCAGAATAGATTTTGTGACAGAGCCACCAGAAACAGATATTTGTGGCATAGCCA
Found at i:101359683 original size:6 final size:6
Alignment explanation
Indices: 101359674--101359701 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
101359664 ATCTAAATAT
101359674 AAATCC AAATCC AAATCC AAATCC AAAT
1 AAATCC AAATCC AAATCC AAATCC AAAT
101359702 TTTCAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATCC
Found at i:101359689 original size:18 final size:18
Alignment explanation
Indices: 101359662--101359701 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
101359652 AAAAATTTTA
* *
101359662 AAATCTAAATATAAATCC
1 AAATCCAAATACAAATCC
*
101359680 AAATCCAAATCCAAATCC
1 AAATCCAAATACAAATCC
101359698 AAAT
1 AAAT
101359702 TTTCAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.23
Consensus pattern (18 bp):
AAATCCAAATACAAATCC
Found at i:101361124 original size:33 final size:33
Alignment explanation
Indices: 101361077--101361391 Score: 244
Period size: 33 Copynumber: 9.5 Consensus size: 33
101361067 TATTACTATG
* *
101361077 ACTGCTAGGGAGAGTGATGTTGAAGGAGTAGAA
1 ACTGATAGGGAGGGTGATGTTGAAGGAGTAGAA
*
101361110 ACTGATAGGGAGAGTGATGTTGAAGGAGTAGAA
1 ACTGATAGGGAGGGTGATGTTGAAGGAGTAGAA
* * * * *
101361143 ACTGATGGGGAGAGTGATGTTGTAGGGGTACAA
1 ACTGATAGGGAGGGTGATGTTGAAGGAGTAGAA
* * * * * *
101361176 GCTAATGGGGAGGGTAATGTTGAAGGGGTACAA
1 ACTGATAGGGAGGGTGATGTTGAAGGAGTAGAA
** *
101361209 GTTGAT-GGGAAGGGTGATGTTAAAGGAGTAGAA
1 ACTGATAGGG-AGGGTGATGTTGAAGGAGTAGAA
* * * * *
101361242 ATTGAT-GATGAGGGTGATGTAGAAGGGGTACAA
1 ACTGATAG-GGAGGGTGATGTTGAAGGAGTAGAA
** * *
101361275 GTTGATAGGGAGTGTGATGTTAAAGGAGTAGAA
1 ACTGATAGGGAGGGTGATGTTGAAGGAGTAGAA
* * * *
101361308 ATTGAT-GATGAGGGTGATGTAGAA-GAGGTACAA
1 ACTGATAG-GGAGGGTGATGTTGAAGGA-GTAGAA
* * *
101361341 GCTAACAGGGAGGGTGATGTTGAAGGAGTAGAA
1 ACTGATAGGGAGGGTGATGTTGAAGGAGTAGAA
*
101361374 GCTGAT-GTGGAGGGTGAT
1 ACTGATAG-GGAGGGTGAT
101361392 ATAGAAGGGG
Statistics
Matches: 230, Mismatches: 44, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
32 7 0.03
33 218 0.95
34 5 0.02
ACGTcount: A:0.32, C:0.04, G:0.41, T:0.23
Consensus pattern (33 bp):
ACTGATAGGGAGGGTGATGTTGAAGGAGTAGAA
Found at i:101361286 original size:99 final size:98
Alignment explanation
Indices: 101361082--101361327 Score: 285
Period size: 99 Copynumber: 2.5 Consensus size: 98
101361072 CTATGACTGC
* * *
101361082 TAGGGAGAGTGATGTTGAAGGAGTAGAAACTGATAGGGAGAGTGATGTTGAAGGAGTAGAAACTG
1 TAGGGAGAGTGATGTTGAAGGAGTAGAAATTGAT-GGGAGGGTGATGTTAAAGGAGTAGAAACTG
* * *
101361147 ATGGGGAGAGTGATGTTGTAGGGGTACAAGCTAA
65 ATGAGGAGAGTGATGTAGAAGGGGTACAAGCTAA
* * * * * * *
101361181 TGGGGAGGGTAATGTTGAAGGGGTACAAGTTGATGGGAAGGGTGATGTTAAAGGAGTAGAAATTG
1 TAGGGAGAGTGATGTTGAAGGAGTAGAAATTGATGGG-AGGGTGATGTTAAAGGAGTAGAAACTG
* * * *
101361246 ATGATGAGGGTGATGTAGAAGGGGTACAAGTTGA
65 ATGAGGAGAGTGATGTAGAAGGGGTACAAGCTAA
* * *
101361280 TAGGGAGTGTGATGTTAAAGGAGTAGAAATTGATGATGAGGGTGATGT
1 TAGGGAGAGTGATGTTGAAGGAGTAGAAATTGATG-GGAGGGTGATGT
101361328 AGAAGAGGTA
Statistics
Matches: 120, Mismatches: 25, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
98 3 0.03
99 116 0.97
100 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.41, T:0.24
Consensus pattern (98 bp):
TAGGGAGAGTGATGTTGAAGGAGTAGAAATTGATGGGAGGGTGATGTTAAAGGAGTAGAAACTGA
TGAGGAGAGTGATGTAGAAGGGGTACAAGCTAA
Found at i:101361421 original size:66 final size:66
Alignment explanation
Indices: 101361084--101361421 Score: 335
Period size: 66 Copynumber: 5.1 Consensus size: 66
101361074 ATGACTGCTA
* * * * * *
101361084 GGGAGAGTGATGTTGAAGGAGTAGAAACTGATAG-GGAGAGTGATGTTGAAGGAGTAGAAACTGA
1 GGGAGGGTGATGTTGAAGGAGTAGAAACTGAT-GTGGAGGGTGATGTAGAAGGGGTACAAGCTGA
*
101361148 TG
65 TC
* * * * * * * * * *
101361150 GGGAGAGTGATGTTGTAGGGGTACAAGCTAATGGGGAGGGTAATGTTGAAGGGGTACAAGTTGAT
1 GGGAGGGTGATGTTGAAGGAGTAGAAACTGATGTGGAGGGTGATGTAGAAGGGGTACAAGCTGAT
101361215 -
66 C
* * *
101361215 GGGAAGGGTGATGTTAAAGGAGTAGAAATTGATGAT-GAGGGTGATGTAGAAGGGGTACAAGTTG
1 GGG-AGGGTGATGTTGAAGGAGTAGAAACTGATG-TGGAGGGTGATGTAGAAGGGGTACAAGCTG
*
101361279 ATA
64 ATC
* * * *
101361282 GGGAGTGTGATGTTAAAGGAGTAGAAATTGATGAT-GAGGGTGATGTAGAAGAGGTACAAGCT-A
1 GGGAGGGTGATGTTGAAGGAGTAGAAACTGATG-TGGAGGGTGATGTAGAAGGGGTACAAGCTGA
*
101361345 AC
65 TC
* *
101361347 AGGGAGGGTGATGTTGAAGGAGTAGAAGCTGATGTGGAGGGTGATATAGAAGGGGTACAAGCTGA
1 -GGGAGGGTGATGTTGAAGGAGTAGAAACTGATGTGGAGGGTGATGTAGAAGGGGTACAAGCTGA
101361412 TC
65 TC
*
101361414 GGAAGGGT
1 GGGAGGGT
101361422 AGAAGCTGAT
Statistics
Matches: 230, Mismatches: 35, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
65 6 0.03
66 219 0.95
67 5 0.02
ACGTcount: A:0.32, C:0.04, G:0.41, T:0.22
Consensus pattern (66 bp):
GGGAGGGTGATGTTGAAGGAGTAGAAACTGATGTGGAGGGTGATGTAGAAGGGGTACAAGCTGAT
C
Found at i:101361506 original size:33 final size:31
Alignment explanation
Indices: 101361418--101361507 Score: 81
Period size: 33 Copynumber: 2.7 Consensus size: 31
101361408 CTGATCGGAA
*
101361418 GGGTAGAAGCTGATGGGGAGGGTGATGTAGATG
1 GGGTAGAAGC-GAT-GGGAGGGTGATGTAGAAG
* ** *
101361451 GGGTACAAGTTATTGGGAAGGGTGATGTTGAAG
1 GGGTAGAAGCGA-TGGG-AGGGTGATGTAGAAG
101361484 GGGTAGAAGGCGATGAGGAGGGTG
1 GGGTAGAA-GCGATG-GGAGGGTG
101361508 TGACTGCTAC
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
32 4 0.09
33 37 0.82
34 4 0.09
ACGTcount: A:0.26, C:0.03, G:0.50, T:0.21
Consensus pattern (31 bp):
GGGTAGAAGCGATGGGAGGGTGATGTAGAAG
Found at i:101365110 original size:30 final size:30
Alignment explanation
Indices: 101365076--101365132 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
101365066 TCCTTAACTC
101365076 AAACTTTGGAAAAATTACAATTTTGCCACT
1 AAACTTTGGAAAAATTACAATTTTGCCACT
* * * *
101365106 AAACTTTTGCATATTTACAATTTTGCC
1 AAACTTTGGAAAAATTACAATTTTGCC
101365133 CCTAGGCTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.39
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCACT
Found at i:101367541 original size:3 final size:3
Alignment explanation
Indices: 101367533--101367884 Score: 207
Period size: 3 Copynumber: 115.7 Consensus size: 3
101367523 TACTGACAAG
* * *
101367533 TAA TAA TAA TAA TAA TAA -AA GTAA TAA TAT TGA TAA TAGA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TA-A TAA TAA
* * * * * * * * *
101367579 TAA -AA GGAG CAA AAA TAA TAG CAA TAA TAA GAA TATT TAA TAA TAG
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * * *
101367625 TAA TAA TAA CAA TAA T-A TAAA TAA TAA TATA TGTA TGA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TA-A T-AA TAA TAA TAA TAA
* *
101367672 TAA -AA TAA GTTAA TAA TAA TTA TAA TAA TAA CCTAA TAA TAA AAA T-A
1 TAA TAA TAA --TAA TAA TAA TAA TAA TAA TAA --TAA TAA TAA TAA TAA
* * * * * *
101367719 TAA CAG TAA TAA TAA TAG TGAA T-A TAA CAA TAG TAA TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * *
101367764 TAA AAA TAA TAG CAA TAA AAA TAA AAA TAA TAA CAA TGA CAA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* *
101367810 GAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
101367858 TAA T-A TAA -AA TAA TAA GAA TAA GAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
101367885 TTAAAAGTAA
Statistics
Matches: 260, Mismatches: 68, Indels: 42
0.70 0.18 0.11
Matches are distributed among these distances:
2 16 0.06
3 221 0.85
4 17 0.07
5 6 0.02
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:101367718 original size:20 final size:20
Alignment explanation
Indices: 101367685--101367733 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
101367675 AATAAGTTAA
* *
101367685 TAATAATTATAATAATAAC-C
1 TAATAATAAAAAT-ATAACAC
*
101367705 TAATAATAAAAATATAACAG
1 TAATAATAAAAATATAACAC
101367725 TAATAATAA
1 TAATAATAA
101367734 TAGTGAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (20 bp):
TAATAATAAAAATATAACAC
Found at i:101369024 original size:3 final size:3
Alignment explanation
Indices: 101369018--101369319 Score: 142
Period size: 3 Copynumber: 100.0 Consensus size: 3
101369008 TTGTTATCAC
* * * *
101369018 TAT TAT T-T T-T TAT TCT TTT TAT TAT TACT TAT TAT CAA TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
* * * * *
101369061 TAT TAT TAT TAT TAT TGT TAT CAT TAT TGT TAT TAT TAT TAT GAT TCT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
101369109 T-T T-T TGT TAA TA- TAGC TAT TAT AAT TA- TAC T-T TAT TTT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
101369150 GT-T TATT TATT TAT TCAT T-T TAT TAT TAGT CCAT TAA T-T TAT TAT
1 -TAT TA-T TA-T TAT T-AT TAT TAT TAT TA-T -TAT TAT TAT TAT TAT
* * * * * * *
101369195 TAC TAA CA- TAT TCT TAT TAT TTT TAT TAACG TAT TAT TAT TATT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-A-T TAT TAT TAT TA-T TAT
* * * *
101369242 TGCT CTACT TTT TAT TAC TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT
1 T-AT -TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
101369290 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
101369320 CAATATTTAC
Statistics
Matches: 230, Mismatches: 46, Indels: 46
0.71 0.14 0.14
Matches are distributed among these distances:
2 20 0.09
3 182 0.79
4 24 0.10
5 4 0.02
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:101369224 original size:23 final size:23
Alignment explanation
Indices: 101369188--101369239 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
101369178 GTCCATTAAT
* *
101369188 TTATTATTACTAACATATTCTTA
1 TTATTTTTACTAACATATTATTA
* *
101369211 TTATTTTTATTAACGTATTATTA
1 TTATTTTTACTAACATATTATTA
101369234 TTATTT
1 TTATTT
101369240 GTTGCTCTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.60
Consensus pattern (23 bp):
TTATTTTTACTAACATATTATTA
Found at i:101369453 original size:19 final size:19
Alignment explanation
Indices: 101369426--101369462 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
101369416 TATTTCACTA
101369426 TTATCATTTTTTATTACTG
1 TTATCATTTTTTATTACTG
*
101369445 TTATTATTTTTTATTACT
1 TTATCATTTTTTATTACT
101369463 TACTATCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.08, G:0.03, T:0.68
Consensus pattern (19 bp):
TTATCATTTTTTATTACTG
Found at i:101369516 original size:37 final size:36
Alignment explanation
Indices: 101369438--101369518 Score: 87
Period size: 35 Copynumber: 2.2 Consensus size: 36
101369428 ATCATTTTTT
* *
101369438 ATTACTGTTATTATTTTTTATTACTTACTATCTAAC
1 ATTATTGTTATTATTTTTTATTACTTACCATCTAAC
*
101369474 A-TATTGTTATTCTTTTTT-TTA-TTACCATCTTATTAC
1 ATTATTGTTATTATTTTTTATTACTTACCATC-TA--AC
101369510 ATTATTGTT
1 ATTATTGTT
101369519 TTTCAAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
33 7 0.18
34 5 0.13
35 15 0.39
36 4 0.11
37 7 0.18
ACGTcount: A:0.25, C:0.12, G:0.04, T:0.59
Consensus pattern (36 bp):
ATTATTGTTATTATTTTTTATTACTTACCATCTAAC
Found at i:101369565 original size:34 final size:34
Alignment explanation
Indices: 101369527--101369624 Score: 81
Period size: 34 Copynumber: 2.9 Consensus size: 34
101369517 TTTTTCAAAA
*
101369527 TTATTGTTACAAATATTATTATTATTATTAATTT
1 TTATTATTACAAATATTATTATTATTATTAATTT
** * * * *
101369561 TTATTATTTGACATATTATTCTTATCACTAATTT
1 TTATTATTACAAATATTATTATTATTATTAATTT
* * *
101369595 TTCTTTCTTAC-TATCATTATTATTATTATT
1 TT-ATTATTACAAAT-ATTATTATTATTATT
101369625 TTTCTATTTT
Statistics
Matches: 47, Mismatches: 15, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
34 31 0.66
35 16 0.34
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (34 bp):
TTATTATTACAAATATTATTATTATTATTAATTT
Found at i:101374252 original size:60 final size:59
Alignment explanation
Indices: 101374119--101374253 Score: 148
Period size: 60 Copynumber: 2.2 Consensus size: 59
101374109 GTGTTAACTA
* *
101374119 GGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCTCTTACAGTAACAGAGTATACTG
1 GGCCTT-GCCCATATCAATATCAATCTGGGCCATAGCCTATTACAGT-ACAGAGTATACTG
* * * *
101374180 GGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGT-C-GAGATATATTG
1 GGCCTTGCCCATATCAATATCAATCTGGGCCATAG-CCTATTAC-AGTACAGAG-TATACTG
*
101374240 GGCCTTGTCCATAT
1 GGCCTTGCCCATAT
101374254 TGACACAGTT
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
59 3 0.05
60 45 0.71
61 12 0.19
62 3 0.05
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (59 bp):
GGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCTATTACAGTACAGAGTATACTG
Found at i:101374300 original size:19 final size:20
Alignment explanation
Indices: 101374258--101374301 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
101374248 CCATATTGAC
** *
101374258 ACAGTTGGGCCCATTTTAAT
1 ACAGTTGGGCCCATAATAAA
101374278 ACAGTT-GGCCCATAATAAA
1 ACAGTTGGGCCCATAATAAA
101374297 ACAGT
1 ACAGT
101374302 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.27
Consensus pattern (20 bp):
ACAGTTGGGCCCATAATAAA
Found at i:101375576 original size:17 final size:19
Alignment explanation
Indices: 101375554--101375591 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
101375544 TGAGAGAAGG
*
101375554 ATAGAA-AA-GAATAAAAA
1 ATAGAAGAAGGAAAAAAAA
101375571 ATAGAAGAAGGAAAAAAAA
1 ATAGAAGAAGGAAAAAAAA
101375590 AT
1 AT
101375592 CCTAAAGGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 2 0.11
19 10 0.56
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.11
Consensus pattern (19 bp):
ATAGAAGAAGGAAAAAAAA
Found at i:101377761 original size:30 final size:30
Alignment explanation
Indices: 101377727--101377813 Score: 165
Period size: 30 Copynumber: 2.9 Consensus size: 30
101377717 CAAAACCCTA
101377727 ACCACCTTGCCTCCCACTTGCACCTACTCC
1 ACCACCTTGCCTCCCACTTGCACCTACTCC
101377757 ACCACCTTGCCTCCCACTTGCACCTACTCC
1 ACCACCTTGCCTCCCACTTGCACCTACTCC
*
101377787 ACCACCTTGTCTCCCACTTGCACCTAC
1 ACCACCTTGCCTCCCACTTGCACCTAC
101377814 ACCATCAAAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.17, C:0.52, G:0.07, T:0.24
Consensus pattern (30 bp):
ACCACCTTGCCTCCCACTTGCACCTACTCC
Found at i:101378368 original size:18 final size:18
Alignment explanation
Indices: 101378312--101378371 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
101378302 TTTATTTTTT
*
101378312 TATTACTATTAT-TTATA
1 TATTATTATTATATTATA
*
101378329 TTATTATTATTTCTCATGTATA
1 -TATTATTA-TTAT-AT-TATA
101378351 TATTATTATTATATTATA
1 TATTATTATTATATTATA
101378369 TAT
1 TAT
101378372 ACCCTATCCA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
18 14 0.40
19 5 0.14
20 3 0.09
21 9 0.26
22 4 0.11
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (18 bp):
TATTATTATTATATTATA
Found at i:101378485 original size:12 final size:13
Alignment explanation
Indices: 101378445--101378490 Score: 53
Period size: 12 Copynumber: 3.7 Consensus size: 13
101378435 TGACTAATAT
101378445 TATTA-TATATATG
1 TATTATTAT-TATG
*
101378458 TATTATTGTT-TG
1 TATTATTATTATG
101378470 TATTATTATTAT-
1 TATTATTATTATG
101378482 TATTATTAT
1 TATTATTAT
101378491 CACCCCTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 20 0.69
13 7 0.24
14 2 0.07
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (13 bp):
TATTATTATTATG
Found at i:101378553 original size:3 final size:3
Alignment explanation
Indices: 101378529--101378579 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
101378519 TATTCTAATA
* *
101378529 TAT TAT TAA TAT TACT CA- TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
101378574 TAT TAT
1 TAT TAT
101378580 GTATATATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 1 0.02
3 39 0.93
4 2 0.05
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:101380659 original size:19 final size:19
Alignment explanation
Indices: 101380635--101380680 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
101380625 CTTCCTTTCT
*
101380635 TTTGCATT-CATTTCATGCA
1 TTTGCATTGCATTGCAT-CA
*
101380654 TTTGCATTGCATTGCATTA
1 TTTGCATTGCATTGCATCA
101380673 TTTGCATT
1 TTTGCATT
101380681 AGGCTTTTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (19 bp):
TTTGCATTGCATTGCATCA
Found at i:101388909 original size:87 final size:87
Alignment explanation
Indices: 101388806--101389589 Score: 972
Period size: 87 Copynumber: 9.1 Consensus size: 87
101388796 GTGGAGCAGA
* * *
101388806 CTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAATG-CGATGGACCTTAAC
1 CTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAA-GACGATGGGCCTTAAA
101388870 CCCCTAAGCAGTAGGGTAACAGG
65 CCCCTAAGCAGTAGGGTAACAGG
* * * *
101388893 CTGAATTTCCAGATCTTAACCCCCTAAGCAGTAGAGAAACAGATCGAAGACGAAGGGTCTTAAAC
1 CTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAAC
* **
101388958 CCCTAAGCAGTAAGGTAACATA
66 CCCTAAGCAGTAGGGTAACAGG
* * * * * * * * *
101388980 C-CAAATTGCAGATCTTATCTCCCTAAGTAGTAGTGG-AGCAGATCGAAGACGAAGGGTCTTAAA
1 CTGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGATGGGCCTTAAA
101389043 CCCCTAAGCAGTAGGGTAACAGG
65 CCCCTAAGCAGTAGGGTAACAGG
* * * * *
101389066 CTGAATTTACAGATCTTATCCCCCTAAGTAGTAGTGG-AGCAGATCGAAGGCGAT-GGCCTTAAC
1 CTGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGATGGGCCTTAAA
* * *
101389129 CCCCTAAGCAATAGAGTAGCAGG
65 CCCCTAAGCAGTAGGGTAACAGG
* * *
101389152 CTAAATTTACAGATATTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAAC
1 CTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAAC
101389217 CCCTAAGCAGTAGGGTAACAGG
66 CCCTAAGCAGTAGGGTAACAGG
* * * * *
101389239 TTGAATTTGCAGATCTTAACCCCCTAAGCAGTAGTGG-AGCAGATCGAAGGCGAT-GGCCTTAAC
1 CTGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGATGGGCCTTAAA
*
101389302 CCCCTAAGCAGTAGGGTAGCAGG
65 CCCCTAAGCAGTAGGGTAACAGG
* * * *
101389325 CTAAATTTACAGATCTTAACCCCCTAAGTAGTAGGGAAACTGATCGAAGATGATGGGCCTTAAAC
1 CTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAAC
*
101389390 CCCTAAGCAGTAGGGTAACAAG
66 CCCTAAGCAGTAGGGTAACAGG
* * * * ** ***
101389412 TTCAATTTACAGATCTTAACCCCCTAACCAGTAGGGAAATAGATCGAAGGTGACAAGCCTT-AAC
1 CTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAAC
*
101389476 CCCTAAACAGTAGGGTAACAGG
66 CCCTAAGCAGTAGGGTAACAGG
* *
101389498 CTAAATTTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAAC
1 CTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAAC
* * *
101389563 CCCTAAGCAATAGGGTACCAAG
66 CCCTAAGCAGTAGGGTAACAGG
101389585 CTGAA
1 CTGAA
101389590 AATTACAACT
Statistics
Matches: 598, Mismatches: 90, Indels: 18
0.85 0.13 0.03
Matches are distributed among these distances:
85 4 0.01
86 292 0.49
87 300 0.50
88 2 0.00
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (87 bp):
CTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAAC
CCCTAAGCAGTAGGGTAACAGG
Found at i:101389027 original size:86 final size:86
Alignment explanation
Indices: 101388812--101389579 Score: 843
Period size: 86 Copynumber: 8.9 Consensus size: 86
101388802 CAGACTGAAT
* * * *
101388812 TTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAATG-CGATGGACCTTAACCCCCTA
1 TTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAA-GACGAAGGGCCTTAAACCCCTA
*
101388876 AGCAGTAGGGTAACAGGCTGAAT
65 AGCAGTAGGGTAACAGGC-GAAA
* * *
101388899 TTCCAGATCTTAACCCCCTAAGCAGTAGAGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAA
1 TTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACCCCTAA
* ** *
101388964 GCAGTAAGGTAACATACCAAA
66 GCAGTAGGGTAACAGGCGAAA
* * * * * *
101388985 TTGCAGATCTTATCTCCCTAAGTAGTAGTGG-AGCAGATCGAAGACGAAGGGTCTTAAACCCCTA
1 TTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGGGCCTTAAACCCCTA
*
101389049 AGCAGTAGGGTAACAGGCTGAAT
65 AGCAGTAGGGTAACAGGC-GAAA
* * * * * *
101389072 TTACAGATCTTATCCCCCTAAGTAGTAGTGG-AGCAGATCGAAGGCG-ATGGCCTTAACCCCCTA
1 TTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGGGCCTTAAACCCCTA
* * * *
101389135 AGCAATAGAGTAGCAGGCTAAA
65 AGCAGTAGGGTAACAGGCGAAA
* * *
101389157 TTTACAGATATTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCCTA
1 -TTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACCCCTA
* *
101389222 AGCAGTAGGGTAACAGGTTGAAT
65 AGCAGTAGGGTAACAGG-CGAAA
* * * * *
101389245 TTGCAGATCTTAACCCCCTAAGCAGTAGTGG-AGCAGATCGAAGGCG-ATGGCCTTAACCCCCTA
1 TTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGGGCCTTAAACCCCTA
* *
101389308 AGCAGTAGGGTAGCAGGCTAAA
65 AGCAGTAGGGTAACAGGCGAAA
* * * *
101389330 TTTACAGATCTTAACCCCCTAAGTAGTAGGGAAACTGATCGAAGATGATGGGCCTTAAACCCCTA
1 -TTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACCCCTA
* *
101389395 AGCAGTAGGGTAACAAGTTC-AAT
65 AGCAGTAGGGTAAC-AG-GCGAAA
* * ** *
101389418 TTACAGATCTTAACCCCCTAACCAGTAGGGAAATAGATCGAAGGTGACA-AGCCTT-AACCCCTA
1 TTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGCCTTAAACCCCTA
* *
101389481 AACAGTAGGGTAACAGGCTAAA
65 AGCAGTAGGGTAACAGGCGAAA
* *
101389503 TTTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAACCCCTA
1 -TTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACCCCTA
*
101389568 AGCAATAGGGTA
65 AGCAGTAGGGTA
101389580 CCAAGCTGAA
Statistics
Matches: 571, Mismatches: 92, Indels: 36
0.82 0.13 0.05
Matches are distributed among these distances:
84 1 0.00
85 12 0.02
86 275 0.48
87 274 0.48
88 8 0.01
89 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (86 bp):
TTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACCCCTAA
GCAGTAGGGTAACAGGCGAAA
Found at i:101389049 original size:173 final size:173
Alignment explanation
Indices: 101388809--101389589 Score: 1014
Period size: 173 Copynumber: 4.5 Consensus size: 173
101388799 GAGCAGACTG
* * *
101388809 AATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAATG-CGATGGACCTTAACCCC
1 AATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAA-GACGATGGGCCTTAAACCC
* *
101388873 CTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAACCCCCTAAGCAGTAGAGAAACAGATC
65 CTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGTGAAACAGATC
* * * ** *
101388938 GAAGACGAAGGGTCTTAAACCCCTAAGCAGTAAGGTAACATACCA
130 GAAGGCG-ATGGCCTTAAACCCCTAAGCAGTAAGGTAACAGGCTA
* * * * * * *
101388983 AA-TTGCAGATCTTATCTCCCTAAGTAGTAGTGG-AGCAGATCGAAGACGAAGGGTCTTAAACCC
1 AATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGATGGGCCTTAAACCC
* * * *
101389046 CTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCCCCCTAAGTAGTAGTGGAGCAGATC
65 CTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGTGAAACAGATC
* * *
101389111 GAAGGCGATGGCCTTAACCCCCTAAGCAAT-AGAGTAGCAGGCTA
130 GAAGGCGATGGCCTTAAACCCCTAAGCAGTAAG-GTAACAGGCTA
* *
101389155 AATTTACAGATATTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCC
1 AATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAACCCC
* * * *
101389220 TAAGCAGTAGGGTAACAGGTTGAATTTGCAGATCTTAACCCCCTAAGCAGTAGTGGAGCAGATCG
66 TAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGTGAAACAGATCG
* * *
101389285 AAGGCGATGGCCTTAACCCCCTAAGCAGTAGGGTAGCAGGCTA
131 AAGGCGATGGCCTTAAACCCCTAAGCAGTAAGGTAACAGGCTA
* * *
101389328 AATTTACAGATCTTAACCCCCTAAGTAGTAGGGAAACTGATCGAAGATGATGGGCCTTAAACCCC
1 AATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAACCCC
* * * * * *
101389393 TAAGCAGTAGGGTAACAAGTTCAATTTACAGATCTTAACCCCCTAACCAGTAGGGAAATAGATCG
66 TAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGTGAAACAGATCG
* ** * *
101389458 AAGGTGACAAGCCTT-AACCCCTAAACAGTAGGGTAACAGGCTA
131 AAGGCGA-TGGCCTTAAACCCCTAAGCAGTAAGGTAACAGGCTA
*
101389501 AATTTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAACCCC
1 AATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAACCCC
* * *
101389566 TAAGCAATAGGGTACCAAGCTGAA
66 TAAGCAGTAGGGTAACAGGCTGAA
101389590 AATTACAACT
Statistics
Matches: 535, Mismatches: 65, Indels: 15
0.87 0.11 0.02
Matches are distributed among these distances:
171 2 0.00
172 31 0.06
173 492 0.92
174 10 0.02
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.20
Consensus pattern (173 bp):
AATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAACCCC
TAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGTGAAACAGATCG
AAGGCGATGGCCTTAAACCCCTAAGCAGTAAGGTAACAGGCTA
Found at i:101390134 original size:30 final size:30
Alignment explanation
Indices: 101390100--101390179 Score: 151
Period size: 30 Copynumber: 2.7 Consensus size: 30
101390090 AAAACCCTAG
101390100 CCACCTTGCCTCCCACTTGCACCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
101390130 CCACCTTGCCTCCCACTTGCACCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
*
101390160 CCACCTTGTCTCCCACTTGC
1 CCACCTTGCCTCCCACTTGC
101390180 CCCCACACCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.15, C:0.53, G:0.07, T:0.25
Consensus pattern (30 bp):
CCACCTTGCCTCCCACTTGCACCTACTCCA
Found at i:101390690 original size:3 final size:3
Alignment explanation
Indices: 101390679--101390763 Score: 79
Period size: 3 Copynumber: 27.7 Consensus size: 3
101390669 TTTATTTTTT
*
101390679 TTA TT- TTA TTA TTA TTA CTA TTA TT- TATA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
101390723 TTA TTA TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TT
1 TTA TTA TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TT
101390764 GTATTATATA
Statistics
Matches: 70, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
2 5 0.07
3 56 0.80
4 7 0.10
5 2 0.03
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:101390744 original size:36 final size:35
Alignment explanation
Indices: 101390679--101390763 Score: 104
Period size: 36 Copynumber: 2.4 Consensus size: 35
101390669 TTTATTTTTT
101390679 TTATT-TTATTATTATTACTATTATTTATATTATTA
1 TTATTATTATTATTATTACTATTA-TTATATTATTA
*
101390714 TTATTATTATTATTATTTCTCATGTA-TATATTATTA
1 TTATTATTATTATTATTACT-AT-TATTATATTATTA
101390750 TT-TATATTATTATT
1 TTAT-TATTATTATT
101390764 GTATTATATA
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
35 6 0.13
36 35 0.78
37 2 0.04
38 2 0.04
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.65
Consensus pattern (35 bp):
TTATTATTATTATTATTACTATTATTATATTATTA
Found at i:101390853 original size:3 final size:3
Alignment explanation
Indices: 101390845--101390900 Score: 53
Period size: 3 Copynumber: 18.0 Consensus size: 3
101390835 TTCTGACTAA
*
101390845 TAT TAT TA- TAT ATAT ATAT GTAT TAT TGT T-T GTAT TAT TAT TAT TAT
1 TAT TAT TAT TAT -TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT
101390892 TAT TAT TAT
1 TAT TAT TAT
101390901 CACCCCTATT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 3 0.06
3 33 0.70
4 11 0.23
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:101390861 original size:89 final size:89
Alignment explanation
Indices: 101390699--101390863 Score: 201
Period size: 89 Copynumber: 1.9 Consensus size: 89
101390689 ATTATTACTA
* * * * *
101390699 TTATTTATATTATTATTATTATTATTATTATTTCTCATGTATATATTATTATTTATATTATTATT
1 TTATTTATATTATTACTATCATTATTATTACTTCTCATGTATATATTATTATTGATAATATTATT
*
101390764 GTATTATATATACCCTCTCCATAT
66 ATATTATATATACCCTCTCCATAT
* * *
101390788 TTATTTATATTATTACTATCATTATTGTTACTTCT-AT-TATTTTTTATT-TCTGACTAATATTA
1 TTATTTATATTATTACTATCATTATTATTACTTCTCATGTATATATTATTAT-TGA-TAATATTA
101390850 TTATATATATATAT
64 TTATAT-TATATAT
101390864 GTATTATTGT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
86 1 0.02
87 11 0.17
88 14 0.22
89 38 0.59
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.59
Consensus pattern (89 bp):
TTATTTATATTATTACTATCATTATTATTACTTCTCATGTATATATTATTATTGATAATATTATT
ATATTATATATACCCTCTCCATAT
Found at i:101390892 original size:12 final size:13
Alignment explanation
Indices: 101390845--101390900 Score: 59
Period size: 12 Copynumber: 4.7 Consensus size: 13
101390835 TTCTGACTAA
*
101390845 TATTATTATATA-
1 TATTATTATGTAT
101390857 TA-TA-TATGTAT
1 TATTATTATGTAT
*
101390868 TATTGTT-TGTAT
1 TATTATTATGTAT
101390880 TATTATTAT-TAT
1 TATTATTATGTAT
101390892 TATTATTAT
1 TATTATTAT
101390901 CACCCCTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 5 0.14
11 4 0.11
12 26 0.70
13 2 0.05
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (13 bp):
TATTATTATGTAT
Done.