Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 93 of 345
Found at i:25376207 original size:21 final size:21
Alignment explanation
Indices: 25376182--25376243 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 21
25376172 AGATTGTGGC
25376182 TTTTTTTATTATAGA-TTAGTA
1 TTTTTTTATTA-AGATTTAGTA
*
25376203 -TTTTTTATGTAAGATTTAGTT
1 TTTTTTTAT-TAAGATTTAGTA
25376224 TTTTATTTATTGAATGATTT
1 TTTT-TTTATT-AA-GATTT
25376244 TGGTATTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
20 11 0.32
21 7 0.21
22 4 0.12
23 7 0.21
24 5 0.15
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (21 bp):
TTTTTTTATTAAGATTTAGTA
Found at i:25376208 original size:20 final size:20
Alignment explanation
Indices: 25376182--25376227 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
25376172 AGATTGTGGC
25376182 TTTTTTTAT-TATAGA-TTAG
1 TTTTTTTATGTA-AGATTTAG
25376201 TATTTTTTATGTAAGATTTAG
1 T-TTTTTTATGTAAGATTTAG
25376222 TTTTTT
1 TTTTTT
25376228 ATTTATTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 1 0.04
20 16 0.67
21 7 0.29
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.65
Consensus pattern (20 bp):
TTTTTTTATGTAAGATTTAG
Found at i:25379759 original size:15 final size:15
Alignment explanation
Indices: 25379739--25379770 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
25379729 CATACTTAGC
25379739 CAACCAAAACATCCA
1 CAACCAAAACATCCA
*
25379754 CAACCAAGACATCCA
1 CAACCAAAACATCCA
25379769 CA
1 CA
25379771 CATCATTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.41, G:0.03, T:0.06
Consensus pattern (15 bp):
CAACCAAAACATCCA
Found at i:25382293 original size:4 final size:4
Alignment explanation
Indices: 25382284--25382315 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
25382274 GTTTTTTTAG
*
25382284 AAAT AAAT AAAT GAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
25382316 GAGCAAGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:25388934 original size:21 final size:20
Alignment explanation
Indices: 25388894--25388934 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
25388884 TTCTTCCCCT
*
25388894 TTTTATCAATTATATCAATG
1 TTTTATCAATTATATAAATG
*
25388914 TTTTATCAATTTTCATAAATG
1 TTTTATCAATTAT-ATAAATG
25388935 AACATTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.51
Consensus pattern (20 bp):
TTTTATCAATTATATAAATG
Found at i:25389833 original size:22 final size:22
Alignment explanation
Indices: 25389807--25389850 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
25389797 TTATCTCTTT
25389807 TGATTGAAAAGGAGCAATAAAA
1 TGATTGAAAAGGAGCAATAAAA
25389829 TGATTGAAAAGGAGCAATAAAA
1 TGATTGAAAAGGAGCAATAAAA
25389851 AAATCGAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.05, G:0.23, T:0.18
Consensus pattern (22 bp):
TGATTGAAAAGGAGCAATAAAA
Found at i:25405148 original size:14 final size:14
Alignment explanation
Indices: 25405129--25405156 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25405119 TATATTAGTA
25405129 TTTTCTATTCTATT
1 TTTTCTATTCTATT
25405143 TTTTCTATTCTATT
1 TTTTCTATTCTATT
25405157 AGTATTAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:25405164 original size:6 final size:6
Alignment explanation
Indices: 25405153--25405231 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
25405143 TTTTCTATTC
* *
25405153 TATTAG TATTAGAG TATTAG -ATTAG TATT-C TATT-C TATTAG TATTAG
1 TATTAG TATT--AG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
25405200 -ATTAG TATTAG --TTAG -ATTAG -ATTAG TATTAG T
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG T
25405232 TAGTGATCCC
Statistics
Matches: 64, Mismatches: 2, Indels: 14
0.80 0.03 0.17
Matches are distributed among these distances:
4 4 0.06
5 28 0.44
6 26 0.41
8 6 0.09
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (6 bp):
TATTAG
Found at i:25405179 original size:11 final size:11
Alignment explanation
Indices: 25405154--25405235 Score: 50
Period size: 11 Copynumber: 7.5 Consensus size: 11
25405144 TTTCTATTCT
25405154 ATTAGTATTAG
1 ATTAGTATTAG
25405165 ---AGTATTAG
1 ATTAGTATTAG
**
25405173 ATTAGTATTCT
1 ATTAGTATTAG
*
25405184 ATT-CTATTAG
1 ATTAGTATTAG
25405194 TATTAG-ATTAG
1 -ATTAGTATTAG
25405205 TATTAGTTAGATTAG
1 -ATTAG-T--ATTAG
25405220 ATTAGTATTAG
1 ATTAGTATTAG
25405231 -TTAGT
1 ATTAGT
25405236 GATCCCGGCT
Statistics
Matches: 56, Mismatches: 6, Indels: 19
0.69 0.07 0.23
Matches are distributed among these distances:
8 8 0.14
10 9 0.16
11 28 0.50
13 1 0.02
14 5 0.09
15 5 0.09
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (11 bp):
ATTAGTATTAG
Found at i:25405220 original size:20 final size:21
Alignment explanation
Indices: 25405190--25405235 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
25405180 TTCTATTCTA
25405190 TTAGTATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
25405211 TTAG-ATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
25405231 TTAGT
1 TTAGT
25405236 GATCCCGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (21 bp):
TTAGTATTAGATTAGTATTAG
Found at i:25406620 original size:14 final size:14
Alignment explanation
Indices: 25406601--25406629 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
25406591 ACAGATGGAT
25406601 TCGTATAATTCTTA
1 TCGTATAATTCTTA
25406615 TCGTATAATTCTTA
1 TCGTATAATTCTTA
25406629 T
1 T
25406630 ATATATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (14 bp):
TCGTATAATTCTTA
Found at i:25414036 original size:26 final size:26
Alignment explanation
Indices: 25414007--25414114 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
25413997 TGGTACAAAT
25414007 TGATAAT-GAGTTAGGTAAATGTTCCA
1 TGATAATGGA-TTAGGTAAATGTTCCA
*
25414033 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
25414059 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
25414085 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
25414111 TGAT
1 TGAT
25414115 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 75 0.97
27 2 0.03
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:25415750 original size:27 final size:27
Alignment explanation
Indices: 25415710--25415850 Score: 148
Period size: 27 Copynumber: 5.2 Consensus size: 27
25415700 AGGAAGCGTC
*
25415710 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
25415737 TTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* * *
25415763 CCTAGTGGCTATACCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
25415791 CTGGTGGATCTGCCAC-ATATATCT-ATT
1 CTGGTGGCTCTGCCACAAT-TATCTGA-T
25415818 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
25415845 CTGGTG
1 CTGGTG
25415851 ACTTCGTCAC
Statistics
Matches: 94, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
26 11 0.12
27 78 0.83
28 5 0.05
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:25415789 original size:54 final size:54
Alignment explanation
Indices: 25415707--25415850 Score: 209
Period size: 54 Copynumber: 2.7 Consensus size: 54
25415697 TGGAGGAAGC
* *
25415707 GTCCTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGATCTGCCACATATATCT
* *
25415761 GTCCTAGTGGCTATACCACAATTATCTGATCTGGTGGATCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGATCTGCCACATATATCT
* * *
25415815 ATTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
25415851 ACTTCGTCAC
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 6 0.08
54 74 0.93
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGATCTGCCACATATATCT
Found at i:25421076 original size:26 final size:26
Alignment explanation
Indices: 25421047--25421205 Score: 266
Period size: 26 Copynumber: 6.2 Consensus size: 26
25421037 TGGTACAAAT
25421047 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
25421073 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
25421099 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
25421125 TGATAATGGTTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
25421151 TGATAATGGGTTA-GTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
25421176 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
25421202 TGAT
1 TGAT
25421206 GGGTATTTCA
Statistics
Matches: 123, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
25 23 0.19
26 100 0.81
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:25421189 original size:51 final size:52
Alignment explanation
Indices: 25421047--25421205 Score: 293
Period size: 52 Copynumber: 3.1 Consensus size: 52
25421037 TGGTACAAAT
*
25421047 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATATTCCA
25421099 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATATTCCA
*
25421151 TGATAATGGGTTA-GTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATATTCCA
25421202 TGAT
1 TGAT
25421206 GGGTATTTCA
Statistics
Matches: 105, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
51 41 0.39
52 64 0.61
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATATTCCA
Found at i:25422397 original size:8 final size:8
Alignment explanation
Indices: 25422384--25422413 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
25422374 AGATCGGCAC
25422384 AAGCCGAA
1 AAGCCGAA
25422392 AAGCCGAA
1 AAGCCGAA
*
25422400 ATGCCGAA
1 AAGCCGAA
25422408 AAGCCG
1 AAGCCG
25422414 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:25422882 original size:54 final size:54
Alignment explanation
Indices: 25422800--25422943 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
25422790 TGGGGGAAAC
*
25422800 GTCCTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
25422854 GTCCTGGTGGTTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
25422908 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
25422944 ACTTCGTCAC
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 6 0.07
54 78 0.93
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:25422954 original size:27 final size:27
Alignment explanation
Indices: 25422803--25422961 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
25422793 GGGAAACGTC
*
25422803 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
* *
25422830 TTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
25422857 CTGGTGGTTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
25422884 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
25422911 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
25422938 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
25422962 GCAGCCTCAC
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.09
27 101 0.89
28 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:25422955 original size:81 final size:80
Alignment explanation
Indices: 25422803--25422961 Score: 200
Period size: 81 Copynumber: 2.0 Consensus size: 80
25422793 GGGAAACGTC
* *
25422803 CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTCCTGGTGGTTAT
1 CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTCCTGGTGCTTAC
25422868 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* *
25422884 CTGGTGGCTCTGCCAC-ATATATCTG-TTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGAC
1 CTGGTGGCTATGCCACAAT-TATCTGATT-TGGTGGCTCTGCCACATATATCTGT-CCTGGTG-C
*
25422946 TT-CGTCACAATATCTG
62 TTACGCCACAATATCTG
25422962 GCAGCCTCAC
Statistics
Matches: 69, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
80 18 0.26
81 49 0.71
82 2 0.03
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTCCTGGTGCTTAC
GCCACAATATCTGAT
Found at i:25425831 original size:136 final size:136
Alignment explanation
Indices: 25425587--25425841 Score: 492
Period size: 136 Copynumber: 1.9 Consensus size: 136
25425577 TAATAAATTC
25425587 TTTTAAATTCACACTTGACTCATTAATATCAATTTACTAAATTTTCAAACTTGGTGGATTTAGTG
1 TTTTAAATTCACACTTGACTCATTAATATCAATTTACTAAATTTTCAAACTTGGTGGATTTAGTG
* *
25425652 ATCTCGAATCACTGTTTCCGACACCACTGAAATTTAGGCTGTTACATCAGAGATCTCTAATTCAA
66 ATCTCGAATCACTATTCCCGACACCACTGAAATTTAGGCTGTTACATCAGAGATCTCTAATTCAA
25425717 AAATAT
131 AAATAT
25425723 TTTTAAATTCACACTTGACTCATTAATATCAATTTACTAAATTTTCAAACTTGGTGGATTTAGTG
1 TTTTAAATTCACACTTGACTCATTAATATCAATTTACTAAATTTTCAAACTTGGTGGATTTAGTG
25425788 ATCTCGAATCACTATTCCCGACACCACTGAAATTTAGGCTGTTACATCAGAGAT
66 ATCTCGAATCACTATTCCCGACACCACTGAAATTTAGGCTGTTACATCAGAGAT
25425842 TCCCTTACCA
Statistics
Matches: 117, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
136 117 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (136 bp):
TTTTAAATTCACACTTGACTCATTAATATCAATTTACTAAATTTTCAAACTTGGTGGATTTAGTG
ATCTCGAATCACTATTCCCGACACCACTGAAATTTAGGCTGTTACATCAGAGATCTCTAATTCAA
AAATAT
Found at i:25427317 original size:9 final size:9
Alignment explanation
Indices: 25427300--25427336 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
25427290 TGAGTTTTCG
25427300 AATTCGAAT
1 AATTCGAAT
*
25427309 AACTCGAAT
1 AATTCGAAT
25427318 AATTCGAAT
1 AATTCGAAT
25427327 AATTCGAAT
1 AATTCGAAT
25427336 A
1 A
25427337 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:25428884 original size:15 final size:15
Alignment explanation
Indices: 25428860--25428896 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
25428850 ACATTTATGC
*
25428860 CAAAATATCATTAAT
1 CAAAACATCATTAAT
25428875 CAAAACATCATTAAT
1 CAAAACATCATTAAT
25428890 CAAAACA
1 CAAAACA
25428897 AAGCAACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.57, C:0.19, G:0.00, T:0.24
Consensus pattern (15 bp):
CAAAACATCATTAAT
Found at i:25435959 original size:21 final size:20
Alignment explanation
Indices: 25435935--25436004 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 20
25435925 TTTAGTATCA
25435935 TTTTTATTTGTTTTAATATTT
1 TTTTTATTT-TTTTAATATTT
*
25435956 TTTTTATGTTTTTAAATATATT
1 TTTTTAT-TTTTTTAATAT-TT
** *
25435978 TCATTATATTTTTAA-A-TT
1 TTTTTATTTTTTTAATATTT
25435996 TTTTTATTT
1 TTTTTATTT
25436005 AATGAAATAA
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
18 8 0.21
20 1 0.03
21 21 0.54
22 9 0.23
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.71
Consensus pattern (20 bp):
TTTTTATTTTTTTAATATTT
Found at i:25437357 original size:15 final size:15
Alignment explanation
Indices: 25437313--25437357 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
25437303 TAGTTTAGTT
*
25437313 TTAATTAAAC-TTAA
1 TTAATTAATCATTAA
25437327 TTAACTTAATCA-TAA
1 TTAA-TTAATCATTAA
25437342 TTAATTAATCATTAA
1 TTAATTAATCATTAA
25437357 T
1 T
25437358 CATTAATTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (15 bp):
TTAATTAATCATTAA
Found at i:25437364 original size:14 final size:14
Alignment explanation
Indices: 25437313--25437353 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
25437303 TAGTTTAGTT
* *
25437313 TTAATTAAACTTAA
1 TTAATTAATCATAA
25437327 TTAACTTAATCATAA
1 TTAA-TTAATCATAA
25437342 TTAATTAATCAT
1 TTAATTAATCAT
25437354 TAATCATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAATTAATCATAA
Found at i:25439358 original size:39 final size:39
Alignment explanation
Indices: 25439305--25439387 Score: 157
Period size: 39 Copynumber: 2.1 Consensus size: 39
25439295 CATTCATAAA
*
25439305 AAAATGCTTGCATACAAATTTTTAAATTTTTATATAATT
1 AAAATGCTTGCATACAAATTTTTAAAATTTTATATAATT
25439344 AAAATGCTTGCATACAAATTTTTAAAATTTTATATAATT
1 AAAATGCTTGCATACAAATTTTTAAAATTTTATATAATT
25439383 AAAAT
1 AAAAT
25439388 TTAGAATATA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (39 bp):
AAAATGCTTGCATACAAATTTTTAAAATTTTATATAATT
Found at i:25445109 original size:24 final size:24
Alignment explanation
Indices: 25445062--25445110 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
25445052 TAATTTAAAC
*
25445062 TATTTTTTATTTTAATATCGTACA
1 TATTTTTTATTTTAATATCATACA
*
25445086 TATTTATTTATTTTAA-ATTATACA
1 TATTT-TTTATTTTAATATCATACA
25445110 T
1 T
25445111 TTCATTATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (24 bp):
TATTTTTTATTTTAATATCATACA
Found at i:25454413 original size:9 final size:9
Alignment explanation
Indices: 25454401--25454433 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
25454391 ATTATTATTA
25454401 TTTTATTTC
1 TTTTATTTC
25454410 TTTTATTTC
1 TTTTATTTC
25454419 TTTTATTTC
1 TTTTATTTC
25454428 TTTTAT
1 TTTTAT
25454434 GCTTTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTATTTC
Found at i:25454455 original size:13 final size:13
Alignment explanation
Indices: 25454437--25454463 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25454427 CTTTTATGCT
25454437 TTATTATATTATA
1 TTATTATATTATA
25454450 TTATTATATTATA
1 TTATTATATTATA
25454463 T
1 T
25454464 ATGCTTAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATTATATTATA
Found at i:25455358 original size:21 final size:23
Alignment explanation
Indices: 25455312--25455364 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
25455302 AAGTAGGTTG
* *
25455312 TATATTATTTTTTTATAATATTA
1 TATATTATTTTTATATAATATCA
25455335 TATATTATTTTTAT-TAAT-TCA
1 TATATTATTTTTATATAATATCA
*
25455356 TATTTTATT
1 TATATTATT
25455365 AATTGTTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 10 0.37
22 4 0.15
23 13 0.48
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (23 bp):
TATATTATTTTTATATAATATCA
Found at i:25456289 original size:32 final size:32
Alignment explanation
Indices: 25456253--25456316 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
25456243 TTCAAGGAAC
25456253 ATCGACACCCGTGTTTCAATTCTCTTCACATA
1 ATCGACACCCGTGTTTCAATTCTCTTCACATA
25456285 ATCGACACCCGTGTTTCAATTCTCTTCACATA
1 ATCGACACCCGTGTTTCAATTCTCTTCACATA
25456317 GTTCTTGGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.31, G:0.09, T:0.34
Consensus pattern (32 bp):
ATCGACACCCGTGTTTCAATTCTCTTCACATA
Found at i:25456434 original size:28 final size:26
Alignment explanation
Indices: 25456382--25456438 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 26
25456372 TTCATCTTGA
25456382 TATTAAAAATTCTCAAATTCAATTTTT
1 TATTAAAAATTCTCAAATT-AATTTTT
*
25456409 TATTAAAAAATTCATCAAAGTTATTTTTT
1 TATT-AAAAATTC-TCAAA-TTAATTTTT
25456438 T
1 T
25456439 TCTAATAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 4 0.15
28 8 0.31
29 12 0.46
30 2 0.08
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (26 bp):
TATTAAAAATTCTCAAATTAATTTTT
Found at i:25458465 original size:113 final size:113
Alignment explanation
Indices: 25458328--25458593 Score: 423
Period size: 112 Copynumber: 2.4 Consensus size: 113
25458318 TTTTATAGTT
* * * *
25458328 GATTTGGTTATATAAATTGTTAGTGTTTAGTAGTTTAGTGTATTAATGTATTGTGATTTTTTTAG
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAACGTATTGTAATTTTTTTAG
25458393 TAATATATTTTTAAAAAAAA-A-ATTATAGCTATTTTATTAGTAATTTAA
66 TAATATA--TTTAAAAAAAATATATTATAGCTATTTTATTAGTAATTTAA
*
25458441 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTA--GTATTAGCGTATTGTAATTTTTTTAG
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAACGTATTGTAATTTTTTTAG
*
25458504 TAATATATTTAAAAAAAATATTTTTATAGCTATTTTATTAGTAATTTAA
66 TAATATATTTAAAAAAAATA-TATTATAGCTATTTTATTAGTAATTTAA
25458553 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGT
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGT
25458594 TGTAACACCC
Statistics
Matches: 142, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
109 11 0.08
110 1 0.01
111 30 0.21
112 63 0.44
113 35 0.25
114 2 0.01
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.50
Consensus pattern (113 bp):
GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAACGTATTGTAATTTTTTTAG
TAATATATTTAAAAAAAATATATTATAGCTATTTTATTAGTAATTTAA
Found at i:25459556 original size:27 final size:27
Alignment explanation
Indices: 25459508--25459663 Score: 151
Period size: 27 Copynumber: 5.8 Consensus size: 27
25459498 GCGAGGCTGC
* *
25459508 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
* *
25459535 CAAATATTATGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
25459561 CAGATATATGTGGTAGTGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
25459588 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
25459615 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
25459642 CAGATAATTGTGGCATAGCCAC
1 CAGAT-ATTGTGGCAGAGCCAC
25459664 AAGGACGCTT
Statistics
Matches: 106, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
26 9 0.08
27 92 0.87
28 5 0.05
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:25459669 original size:54 final size:54
Alignment explanation
Indices: 25459526--25459669 Score: 209
Period size: 54 Copynumber: 2.7 Consensus size: 54
25459516 GTGACGAAGT
* * * * * *
25459526 CACCAGATACAAAT-ATTATGGCAGAGCCACCAGAACAGATATATGTGGTAGTGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
25459580 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
25459634 CACCAGATCAGATAATTGTGGCATAGCCACAAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
25459670 GCTTCCTCCA
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 4 0.05
54 78 0.95
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:25460072 original size:8 final size:8
Alignment explanation
Indices: 25460056--25460085 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
25460046 CTCAAAATAC
25460056 CGGCTTTT
1 CGGCTTTT
*
25460064 CGGCATTT
1 CGGCTTTT
25460072 CGGCTTTT
1 CGGCTTTT
25460080 CGGCTT
1 CGGCTT
25460086 GTGCCGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:25460380 original size:26 final size:26
Alignment explanation
Indices: 25460349--25460456 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
25460339 TGAAATGCCC
*
25460349 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
25460375 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
25460401 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
25460427 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
25460453 ATCA
1 ATCA
25460457 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:25465745 original size:27 final size:27
Alignment explanation
Indices: 25465698--25465854 Score: 182
Period size: 27 Copynumber: 5.9 Consensus size: 27
25465688 CGAGGCTGCT
* *
25465698 AGATATTGTGAC-GAAGTCACCAGATAC
1 AGATATTGTGGCAG-AGCCACCAGATAC
25465725 AGATATTGTGGCAGAGCCACCAGA-AC
1 AGATATTGTGGCAGAGCCACCAGATAC
*
25465751 AGATATATGTGGCAGTGCCACCAGAT-C
1 AGATAT-TGTGGCAGAGCCACCAGATAC
*
25465778 AGATAATTGTGGCATAGCCACCAG--AC
1 AGAT-ATTGTGGCAGAGCCACCAGATAC
25465804 AGATATATGTGGCAGAGCCACCAGAT-C
1 AGATAT-TGTGGCAGAGCCACCAGATAC
*
25465831 AGATAATTGTGGCATAGCCACCAG
1 AGAT-ATTGTGGCAGAGCCACCAG
25465855 GACGCTTCCT
Statistics
Matches: 114, Mismatches: 7, Indels: 18
0.82 0.05 0.13
Matches are distributed among these distances:
25 2 0.02
26 29 0.25
27 78 0.68
28 5 0.04
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (27 bp):
AGATATTGTGGCAGAGCCACCAGATAC
Found at i:25465781 original size:53 final size:53
Alignment explanation
Indices: 25465715--25465854 Score: 237
Period size: 53 Copynumber: 2.6 Consensus size: 53
25465705 GTGACGAAGT
* *
25465715 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGTGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAG-ACAGATATATGTGGCAGAGC
25465769 CACCAGATCAGATAATTGTGGCATAGCCACCAGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGACAGATATATGTGGCAGAGC
25465822 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
25465855 GACGCTTCCT
Statistics
Matches: 83, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
53 57 0.69
54 26 0.31
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.19
Consensus pattern (53 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGACAGATATATGTGGCAGAGC
Found at i:25466259 original size:8 final size:8
Alignment explanation
Indices: 25466243--25466272 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
25466233 CTCAAAATAC
25466243 CGGCTTTT
1 CGGCTTTT
*
25466251 CGGCATTT
1 CGGCTTTT
25466259 CGGCTTTT
1 CGGCTTTT
25466267 CGGCTT
1 CGGCTT
25466273 GTGCCGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:25466565 original size:26 final size:26
Alignment explanation
Indices: 25466534--25466640 Score: 187
Period size: 26 Copynumber: 4.1 Consensus size: 26
25466524 TGAAATGCCC
*
25466534 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
25466560 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
25466586 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
25466612 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
25466638 ATC
1 ATC
25466641 GATTTGTACC
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:25467231 original size:15 final size:16
Alignment explanation
Indices: 25467202--25467233 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
25467192 TGTGATTTTT
25467202 TAATGTAATTTTTATA
1 TAATGTAATTTTTATA
25467218 TAATGTAA-TTTTATA
1 TAATGTAATTTTTATA
25467233 T
1 T
25467234 TATTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TAATGTAATTTTTATA
Found at i:25469317 original size:33 final size:33
Alignment explanation
Indices: 25469280--25469359 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
25469270 ATTTATCTCA
* * *
25469280 GTACTCTACTCCTTCCAGCCCGTATCCACCGCT
1 GTACTCTACTCCTCCCAGCCCATATCCACCGCC
*
25469313 GTACTCTACTCCTCCCGGCCCATATCCACCGCC
1 GTACTCTACTCCTCCCAGCCCATATCCACCGCC
* *
25469346 ATATTCTACTCCTC
1 GTACTCTACTCCTC
25469360 TCGGCACAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.16, C:0.46, G:0.10, T:0.28
Consensus pattern (33 bp):
GTACTCTACTCCTCCCAGCCCATATCCACCGCC
Found at i:25476104 original size:27 final size:28
Alignment explanation
Indices: 25476059--25476113 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
25476049 CGCCGGACCT
*
25476059 GACCATCTGCTGCATCACCGTCG-ACTC
1 GACCATCTGCTGCACCACCGTCGCACTC
**
25476086 GACCATCTGCTGTGCCACCGTCGCACTC
1 GACCATCTGCTGCACCACCGTCGCACTC
25476114 CTATTTGTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.16, C:0.42, G:0.20, T:0.22
Consensus pattern (28 bp):
GACCATCTGCTGCACCACCGTCGCACTC
Found at i:25476355 original size:107 final size:107
Alignment explanation
Indices: 25476169--25476380 Score: 354
Period size: 107 Copynumber: 2.0 Consensus size: 107
25476159 AAACCCTCAC
* * *
25476169 TCAGCTCTTTTTTCCATCTTCTTCTCGGTTTTCATTCGCCTCTTTTGGTAGAACATCTTATTGTT
1 TCAGCTCTTTTTTCCATCTTCTTCTCGGTTCTCATTCGCCTCTTTTGGGAGAACAACTTATTGTT
*
25476234 TCAAGGGGTTTTTGT-TCAGTTTCAAGGTTTTTTACTTTTTGT
66 TCAAGGGGTTTTTGTCT-AGTTTCAAGGTTTCTTACTTTTTGT
*
25476276 TCAGCTCTTTTTTCCATCTTCTTCTCTGTTCTCATTCGCCTCTTTTGGGAGAACAACTTATTGTT
1 TCAGCTCTTTTTTCCATCTTCTTCTCGGTTCTCATTCGCCTCTTTTGGGAGAACAACTTATTGTT
*
25476341 TCAAGGGGTTTTTGTCTAGTTTCAAGGTTTCTTGCTTTTT
66 TCAAGGGGTTTTTGTCTAGTTTCAAGGTTTCTTACTTTTT
25476381 TGTTTTTACA
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
107 97 0.99
108 1 0.01
ACGTcount: A:0.13, C:0.20, G:0.16, T:0.51
Consensus pattern (107 bp):
TCAGCTCTTTTTTCCATCTTCTTCTCGGTTCTCATTCGCCTCTTTTGGGAGAACAACTTATTGTT
TCAAGGGGTTTTTGTCTAGTTTCAAGGTTTCTTACTTTTTGT
Found at i:25479577 original size:5 final size:6
Alignment explanation
Indices: 25479564--25479610 Score: 76
Period size: 6 Copynumber: 7.5 Consensus size: 6
25479554 ATAATTTAAT
25479564 AAATAA AAATAA AAATCTAA AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAA
25479611 ACATATAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
6 33 0.85
8 6 0.15
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:25479611 original size:20 final size:20
Alignment explanation
Indices: 25479564--25479604 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
25479554 ATAATTTAAT
**
25479564 AAATAAAAATAAAAATCTAA
1 AAATAAAAATAAAAATAAAA
25479584 AAATAAAAATAAAAATAAAA
1 AAATAAAAATAAAAATAAAA
25479604 A
1 A
25479605 TAAAAAACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (20 bp):
AAATAAAAATAAAAATAAAA
Found at i:25479644 original size:9 final size:9
Alignment explanation
Indices: 25479630--25479679 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
25479620 TTTATACAAA
25479630 TAATTCGGT
1 TAATTCGGT
*
25479639 TAATTCGGA
1 TAATTCGGT
*
25479648 TAATTCGGA
1 TAATTCGGT
**
25479657 TAATTCAAT
1 TAATTCGGT
*
25479666 TAATTTGGT
1 TAATTCGGT
25479675 TAATT
1 TAATT
25479680 TTATACTTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:25479678 original size:18 final size:18
Alignment explanation
Indices: 25479628--25479679 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
25479618 ATTTTATACA
25479628 AATAATTCGGTTAATTCG
1 AATAATTCGGTTAATTCG
* *
25479646 GATAATTCGGATAATTC-
1 AATAATTCGGTTAATTCG
*
25479663 AATTAATTTGGTTAATT
1 AA-TAATTCGGTTAATT
25479680 TTATACTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
17 1 0.04
18 27 0.96
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (18 bp):
AATAATTCGGTTAATTCG
Found at i:25484132 original size:13 final size:13
Alignment explanation
Indices: 25484093--25484156 Score: 74
Period size: 13 Copynumber: 4.9 Consensus size: 13
25484083 AGTTCTTCAT
25484093 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
25484106 TACTGTAGAAAAG
1 TGCTTTTGAAAAG
*
25484119 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
25484132 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
*
25484145 TGCTTTGGAAAA
1 TGCTTTTGAAAA
25484157 ATTTAAGTTT
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.34
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:25484132 original size:26 final size:26
Alignment explanation
Indices: 25484093--25484156 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 26
25484083 AGTTCTTCAT
25484093 TGCTTTTGAAAAGTACTGTAGAAAAG
1 TGCTTTTGAAAAGTACTGTAGAAAAG
* * *
25484119 TGCTTTTGAGAAGTACTTTTGAAAAG
1 TGCTTTTGAAAAGTACTGTAGAAAAG
*
25484145 TGCTTTGGAAAA
1 TGCTTTTGAAAA
25484157 ATTTAAGTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.34
Consensus pattern (26 bp):
TGCTTTTGAAAAGTACTGTAGAAAAG
Found at i:25488295 original size:28 final size:28
Alignment explanation
Indices: 25488234--25488312 Score: 110
Period size: 28 Copynumber: 2.9 Consensus size: 28
25488224 TTTAGTTAAA
*
25488234 TAATTAATAGAA-TCAGTTGATC--AAAT
1 TAATTAATAAAACT-AGTTGATCAAAAAT
*
25488260 TAGTTAATAAAACTAGTTGATCAAAAAT
1 TAATTAATAAAACTAGTTGATCAAAAAT
25488288 TAATTAATAAAACTAGTTGATCAAA
1 TAATTAATAAAACTAGTTGATCAAA
25488313 CCAATTACTG
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
26 18 0.38
27 1 0.02
28 28 0.60
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (28 bp):
TAATTAATAAAACTAGTTGATCAAAAAT
Found at i:25488313 original size:13 final size:13
Alignment explanation
Indices: 25488248--25488313 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
25488238 TAATAGAATC
*
25488248 AGTTGATCAAATT
1 AGTTGATCAAACT
* *
25488261 AGTTAATAAAACT
1 AGTTGATCAAACT
*
25488274 AGTTGATCAAAAATT
1 AGTTGATC--AAACT
* * *
25488289 AATTAATAAAACT
1 AGTTGATCAAACT
25488302 AGTTGATCAAAC
1 AGTTGATCAAAC
25488314 CAATTACTGT
Statistics
Matches: 38, Mismatches: 13, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
13 29 0.76
15 9 0.24
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.32
Consensus pattern (13 bp):
AGTTGATCAAACT
Found at i:25491946 original size:30 final size:30
Alignment explanation
Indices: 25491857--25491981 Score: 90
Period size: 30 Copynumber: 4.1 Consensus size: 30
25491847 TTGGCCCCAT
* * * *
25491857 AAATTTTTTAAAGTTTCAATTAAACTCTCTCA
1 AAATTTTTAAAAATTTTAATTAAA-TC-CTCC
* * * * *
25491889 AAAGTTTTCAAAATTCTCATTATATCCTCC
1 AAATTTTTAAAAATTTTAATTAAATCCTCC
*
25491919 AAATTTTTAAAAATTTTAATTAAATCCTCT
1 AAATTTTTAAAAATTTTAATTAAATCCTCC
* * * *
25491949 AGAACTTCTAAAAAATTTAATT-AAGCCTCC
1 A-AATTTTTAAAAATTTTAATTAAATCCTCC
25491979 AAA
1 AAA
25491982 ACTTAATGTT
Statistics
Matches: 73, Mismatches: 19, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
29 2 0.03
30 35 0.48
31 19 0.26
32 17 0.23
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.39
Consensus pattern (30 bp):
AAATTTTTAAAAATTTTAATTAAATCCTCC
Found at i:25493895 original size:16 final size:16
Alignment explanation
Indices: 25493874--25493908 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
25493864 ATCAAATATG
25493874 TTAGTACAACATTGAA
1 TTAGTACAACATTGAA
25493890 TTAGTACAACATTGAA
1 TTAGTACAACATTGAA
25493906 TTA
1 TTA
25493909 AGACATATTT
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:0.11, G:0.11, T:0.34
Consensus pattern (16 bp):
TTAGTACAACATTGAA
Found at i:25506782 original size:26 final size:26
Alignment explanation
Indices: 25506753--25506806 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
25506743 TAATTTATAG
25506753 TTGTTTTTATTTTTCTTTACTAACAT
1 TTGTTTTTATTTTTCTTTACTAACAT
25506779 TTGTTTTTATTTTTCTTTACTAACAT
1 TTGTTTTTATTTTTCTTTACTAACAT
25506805 TT
1 TT
25506807 TAACTTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.19, C:0.11, G:0.04, T:0.67
Consensus pattern (26 bp):
TTGTTTTTATTTTTCTTTACTAACAT
Found at i:25506818 original size:23 final size:23
Alignment explanation
Indices: 25506756--25506819 Score: 69
Period size: 26 Copynumber: 2.7 Consensus size: 23
25506746 TTTATAGTTG
25506756 TTTTT-ATTTTTCTTTACTAACA
1 TTTTTAATTTTTCTTTACTAACA
*
25506778 TTTGTTTTTATTTTTCTTTACTAACA
1 --T-TTTTAATTTTTCTTTACTAACA
25506804 -TTTTAACTTTTTCTTT
1 TTTTTAA-TTTTTCTTT
25506820 GTGGTTTCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
22 5 0.14
23 9 0.25
24 1 0.03
25 4 0.11
26 17 0.47
ACGTcount: A:0.19, C:0.12, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTTTAATTTTTCTTTACTAACA
Found at i:25508655 original size:43 final size:43
Alignment explanation
Indices: 25508509--25508667 Score: 182
Period size: 43 Copynumber: 3.7 Consensus size: 43
25508499 TATGTGTTAT
* * *
25508509 CGTGTAAGATCACGTCTGAGACGTTGGCATCGACT-TATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTA
* *
25508553 CGTGTAAGACCACATCTGGGACGTTGGCATCG-TATTTGATTT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
25508595 CGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTA
* * *
25508638 CATGTAAGACCACGTCTGAGATGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
25508668 TTTACGAATT
Statistics
Matches: 99, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.01
42 31 0.31
43 37 0.37
44 30 0.30
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
Found at i:25514481 original size:7 final size:7
Alignment explanation
Indices: 25514469--25514507 Score: 69
Period size: 7 Copynumber: 5.4 Consensus size: 7
25514459 TTTAGCGTAA
25514469 GGTTTAG
1 GGTTTAG
25514476 GGTTTAG
1 GGTTTAG
25514483 GGTTTTAG
1 GG-TTTAG
25514491 GGTTTAG
1 GGTTTAG
25514498 GGTTTAG
1 GGTTTAG
25514505 GGT
1 GGT
25514508 ACCAGTTGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 24 0.77
8 7 0.23
ACGTcount: A:0.13, C:0.00, G:0.44, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:25514491 original size:15 final size:14
Alignment explanation
Indices: 25514469--25514507 Score: 69
Period size: 15 Copynumber: 2.7 Consensus size: 14
25514459 TTTAGCGTAA
25514469 GGTTTAGGGTTTAG
1 GGTTTAGGGTTTAG
25514483 GGTTTTAGGGTTTAG
1 GG-TTTAGGGTTTAG
25514498 GGTTTAGGGT
1 GGTTTAGGGT
25514508 ACCAGTTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.13, C:0.00, G:0.44, T:0.44
Consensus pattern (14 bp):
GGTTTAGGGTTTAG
Found at i:25516180 original size:42 final size:43
Alignment explanation
Indices: 25516118--25516200 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 43
25516108 TATAGTTTAT
25516118 GTGTAAGACCACGTTTGGGAC-GTTGGCATCG-TATTTGATTTC
1 GTGTAAGACCACGTTTGGGACAG-TGGCATCGATATTTGATTTC
25516160 GTGTAAGACC-C-TATTCGGGACAGTGGCATCGATATTTGATT
1 GTGTAAGACCACGT-TT-GGGACAGTGGCATCGATATTTGATT
25516201 ACATGTAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
40 1 0.03
41 3 0.08
42 23 0.62
43 10 0.27
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.34
Consensus pattern (43 bp):
GTGTAAGACCACGTTTGGGACAGTGGCATCGATATTTGATTTC
Found at i:25516981 original size:10 final size:10
Alignment explanation
Indices: 25516941--25516987 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 10
25516931 TATTGAAACA
*
25516941 TATGCTTTGG
1 TATGATTTGG
25516951 TATGATTTTGG
1 TATGA-TTTGG
*
25516962 TTTAGATTTGG
1 TAT-GATTTGG
25516973 TATGATTTGG
1 TATGATTTGG
25516983 T-TGAT
1 TATGAT
25516988 AAATTGAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 4 0.12
10 12 0.38
11 14 0.44
12 2 0.06
ACGTcount: A:0.17, C:0.02, G:0.28, T:0.53
Consensus pattern (10 bp):
TATGATTTGG
Found at i:25520043 original size:24 final size:24
Alignment explanation
Indices: 25520011--25520060 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
25520001 AGAAAGAGAT
*
25520011 TTCAATTAACCAACCTGGAGTTAG
1 TTCAATTAACCAACCTAGAGTTAG
* *
25520035 TTCAATTAATCAGCCTAGAGTTAG
1 TTCAATTAACCAACCTAGAGTTAG
25520059 TT
1 TT
25520061 ATTTTTACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (24 bp):
TTCAATTAACCAACCTAGAGTTAG
Found at i:25520230 original size:36 final size:36
Alignment explanation
Indices: 25520183--25520256 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
25520173 CTTTCCTGGG
25520183 TATTATGTCTCTCATTAGTTCATTCGAATATTTTCT
1 TATTATGTCTCTCATTAGTTCATTCGAATATTTTCT
25520219 TATTATGTCTCTCATTAGTTCATTCGAATATTTTCT
1 TATTATGTCTCTCATTAGTTCATTCGAATATTTTCT
25520255 TA
1 TA
25520257 CTTAATTCTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.23, C:0.16, G:0.08, T:0.53
Consensus pattern (36 bp):
TATTATGTCTCTCATTAGTTCATTCGAATATTTTCT
Found at i:25525289 original size:26 final size:26
Alignment explanation
Indices: 25525258--25525365 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
25525248 TGAAATGCCC
25525258 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
25525284 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
25525310 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
25525336 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
25525362 ATCA
1 ATCA
25525366 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 3 0.04
26 73 0.96
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:25526723 original size:80 final size:80
Alignment explanation
Indices: 25526590--25526749 Score: 311
Period size: 80 Copynumber: 2.0 Consensus size: 80
25526580 AAGCCATACA
*
25526590 TGGTAATTTAGTTTTTAAGCTCCATTTTGACAGAGCACAACCAGCTAGATAATTCAATCTGACAG
1 TGGTAATTTAGTTTTTAAGCTCCATTTTGACAGAGCACAACCAGCTAGATAATTCAATCTGAAAG
25526655 ATTGCGGTACAAACC
66 ATTGCGGTACAAACC
25526670 TGGTAATTTAGTTTTTAAGCTCCATTTTGACAGAGCACAACCAGCTAGATAATTCAATCTGAAAG
1 TGGTAATTTAGTTTTTAAGCTCCATTTTGACAGAGCACAACCAGCTAGATAATTCAATCTGAAAG
25526735 ATTGCGGTACAAACC
66 ATTGCGGTACAAACC
25526750 GGAAAATCCA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (80 bp):
TGGTAATTTAGTTTTTAAGCTCCATTTTGACAGAGCACAACCAGCTAGATAATTCAATCTGAAAG
ATTGCGGTACAAACC
Found at i:25529653 original size:25 final size:25
Alignment explanation
Indices: 25529613--25529664 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
25529603 AGTTAGTTTT
* *
25529613 ATTTTGTTTAAGAAATAATGATGTA
1 ATTTTGTATAAAAAATAATGATGTA
25529638 ATTTTGTATAAAAAATAATGATGTA
1 ATTTTGTATAAAAAATAATGATGTA
25529663 AT
1 AT
25529665 CTATTACAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.42
Consensus pattern (25 bp):
ATTTTGTATAAAAAATAATGATGTA
Found at i:25530199 original size:2 final size:2
Alignment explanation
Indices: 25530192--25530218 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
25530182 AAAGATGGTC
25530192 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
25530219 AAATTTTAAT
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:25538349 original size:2 final size:2
Alignment explanation
Indices: 25538342--25538366 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25538332 TTAGAGTAAA
25538342 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 A
25538367 AGACCGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25555532 original size:2 final size:2
Alignment explanation
Indices: 25555527--25555552 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25555517 ATTACTAATC
25555527 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
25555553 AGTTTATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25563793 original size:14 final size:14
Alignment explanation
Indices: 25563774--25563803 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25563764 AAGATATTCT
25563774 TTTTCTAAATAAAG
1 TTTTCTAAATAAAG
*
25563788 TTTTCTAAATGAAG
1 TTTTCTAAATAAAG
25563802 TT
1 TT
25563804 GAACCAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (14 bp):
TTTTCTAAATAAAG
Found at i:25572084 original size:44 final size:44
Alignment explanation
Indices: 25572034--25572143 Score: 148
Period size: 44 Copynumber: 2.5 Consensus size: 44
25572024 AGGGAACAAG
* *
25572034 TTGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGA
1 TTGAAGATAGCAGATTTGGCATATCTGTATTGACAGAGAGCAGA
* *
25572078 TTGAAGATACCAGATTTGGCATATCTGTATTGACGGAGAGCAGA
1 TTGAAGATAGCAGATTTGGCATATCTGTATTGACAGAGAGCAGA
* *
25572122 TCGAAGACATAGCTGATTTGGC
1 TTGAAG--ATAGCAGATTTGGC
25572144 TTTCACGTGT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 45 0.79
46 12 0.21
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (44 bp):
TTGAAGATAGCAGATTTGGCATATCTGTATTGACAGAGAGCAGA
Found at i:25572473 original size:205 final size:200
Alignment explanation
Indices: 25572121--25572619 Score: 741
Period size: 205 Copynumber: 2.5 Consensus size: 200
25572111 CGGAGAGCAG
* * * *
25572121 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTTCGTTGAAGCAAATCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGTA
* *
25572186 TCTTTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATA
66 TCTCTGTATTTTCAGAGAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATA
*
25572251 GCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTAGCATCCTTATGCTTA
131 GCAGATCTAACCTTCAGATG-----ACTGAAGCAGATCCAAGATGATTTAGCATCCTTATGCTTA
25572316 CAAGGAACAA
191 CAAGGAACAA
* * *
25572326 ATCGAAGACATAGCTGATTTGGCTTTCACGTACTTACGATGAAGTAAATCTAAGATAATTTGGTA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGTA
* * *
25572391 TCTCTGGATTTTCAGAGAACAAATCGAAGTCTGGTATCTCCATTTCGACGTAGAGCAGATACATA
66 TCTCTGTATTTTCAGAGAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATA
* *
25572456 GCAGATCTAACCTTCAGATGACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGG
131 GCAGATCTAACCTTCAGATGACTGAAGCAGATCCAAGATGATTTAGCATCCTTATGCTTACAAGG
25572521 AACAA
196 AACAA
* * * * *
25572526 ATAGAAGACATAGCTGATTTGGATTTCGCGTGCTTACGCTGAAGCAAATCTAATATGATTT-GTC
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGT-
25572590 ATCTCTGTATTGTT-AGAGAACAAATCGAAG
65 ATCTCTGTATT-TTCAGAGAACAAATCGAAG
25572620 AAGCAGATTT
Statistics
Matches: 268, Mismatches: 24, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
199 2 0.01
200 126 0.47
201 2 0.01
205 138 0.51
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (200 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGTA
TCTCTGTATTTTCAGAGAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATA
GCAGATCTAACCTTCAGATGACTGAAGCAGATCCAAGATGATTTAGCATCCTTATGCTTACAAGG
AACAA
Found at i:25574271 original size:25 final size:23
Alignment explanation
Indices: 25574240--25574290 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
25574230 CTTGCTTTTA
25574240 TATTATATAT-TGTAAGATTATTT
1 TATTATATATAT-TAAGATTATTT
*
25574263 TATTATATATATTAATATTA-TT
1 TATTATATATATTAAGATTATTT
25574285 TATTAT
1 TATTAT
25574291 CTATTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 8 0.31
23 17 0.65
24 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (23 bp):
TATTATATATATTAAGATTATTT
Found at i:25574345 original size:34 final size:36
Alignment explanation
Indices: 25574256--25574356 Score: 102
Period size: 37 Copynumber: 2.8 Consensus size: 36
25574246 ATATTGTAAG
* *
25574256 ATTATTTTATTATATATATTAATATTA-TTTATTATCT
1 ATTATTTT-TTATAT-TATTATTATTATTTTATCATCT
* *
25574293 ATTATTTTTCACAAATTATTATTATTATTTTA-CATC-
1 ATTATTTTT--TATATTATTATTATTATTTTATCATCT
25574329 ATTATTTTTTATATTATTATTA-TATTTT
1 ATTATTTTTTATATTATTATTATTATTTT
25574357 TACTTGTATT
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
33 6 0.11
34 11 0.20
36 10 0.18
37 21 0.38
38 7 0.13
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (36 bp):
ATTATTTTTTATATTATTATTATTATTTTATCATCT
Found at i:25574608 original size:8 final size:8
Alignment explanation
Indices: 25574595--25574619 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
25574585 CATTATATTA
25574595 TTTAAAAT
1 TTTAAAAT
25574603 TTTAAAAT
1 TTTAAAAT
25574611 TTTAAAAT
1 TTTAAAAT
25574619 T
1 T
25574620 AAATTATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTTAAAAT
Found at i:25574689 original size:19 final size:19
Alignment explanation
Indices: 25574663--25574726 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 19
25574653 TAAATTATTA
25574663 ATTA-TTTATTTATTATGT
1 ATTATTTTATTTATTATGT
**
25574681 ATTATTTTACTTTAAAATG-
1 ATTATTTTA-TTTATTATGT
*
25574700 A-TATTTT-TATATTATGT
1 ATTATTTTATTTATTATGT
*
25574717 GTTATTTTAT
1 ATTATTTTAT
25574727 AAATTCTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
16 6 0.17
18 16 0.46
19 6 0.17
20 7 0.20
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (19 bp):
ATTATTTTATTTATTATGT
Found at i:25581778 original size:18 final size:18
Alignment explanation
Indices: 25581750--25581790 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
25581740 AAGTTTGATG
25581750 TATAATAAATTA-AAATT
1 TATAATAAATTAGAAATT
25581767 TATAAGTAAATTAGAAATT
1 TATAA-TAAATTAGAAATT
25581786 TATAA
1 TATAA
25581791 AATAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 5 0.23
18 7 0.32
19 10 0.45
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (18 bp):
TATAATAAATTAGAAATT
Found at i:25581955 original size:21 final size:21
Alignment explanation
Indices: 25581929--25581970 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
25581919 TGATGCTAGA
25581929 GTTTTAAGAAATACTAACATG
1 GTTTTAAGAAATACTAACATG
25581950 GTTTTAAGAAATACTAACATG
1 GTTTTAAGAAATACTAACATG
25581971 CGTTGCTTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (21 bp):
GTTTTAAGAAATACTAACATG
Found at i:25584869 original size:21 final size:21
Alignment explanation
Indices: 25584843--25584883 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25584833 AGACAAGCGA
* *
25584843 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
25584864 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
25584884 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:25588691 original size:6 final size:6
Alignment explanation
Indices: 25588680--25588740 Score: 95
Period size: 6 Copynumber: 10.2 Consensus size: 6
25588670 TTTTTTTTAA
*
25588680 AGGAAT AGGAAT AGGAAT AGGAAT AGGAAT AGGAAT AGGAAA AGGAAT
1 AGGAAT AGGAAT AGGAAT AGGAAT AGGAAT AGGAAT AGGAAT AGGAAT
**
25588728 TTGAAT AGGAAT A
1 AGGAAT AGGAAT A
25588741 TGGTATTAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.31, T:0.18
Consensus pattern (6 bp):
AGGAAT
Found at i:25590479 original size:13 final size:14
Alignment explanation
Indices: 25590453--25590481 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
25590443 TTTAGATTTG
25590453 ATTTTCTATCTTTT
1 ATTTTCTATCTTTT
25590467 ATTTTCT-TCTTTT
1 ATTTTCTATCTTTT
25590480 AT
1 AT
25590482 GTTACATATT
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:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (14 bp):
ATTTTCTATCTTTT
Found at i:25594122 original size:43 final size:43
Alignment explanation
Indices: 25593838--25594120 Score: 494
Period size: 43 Copynumber: 6.6 Consensus size: 43
25593828 CAGCATTACT
25593838 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
* *
25593881 CCTGCTAGGCACGAAGGCCCGAATACACATCACTGACACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
* * *
25593924 CCTTCTAGGCACGAAGGCCCAAATATACATCACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
25593967 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
*
25594010 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
* *
25594053 CCTGCTAGGCACGAAGGCCCGAATATACATCACCAGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
25594096 CCTGCTAGGCACGAAGGCCCGAATA
1 CCTGCTAGGCACGAAGGCCCGAATA
25594121 TAATACCAGC
Statistics
Matches: 226, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 226 1.00
ACGTcount: A:0.31, C:0.34, G:0.24, T:0.11
Consensus pattern (43 bp):
CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
Found at i:25594169 original size:38 final size:38
Alignment explanation
Indices: 25594113--25594255 Score: 133
Period size: 38 Copynumber: 3.7 Consensus size: 38
25594103 GGCACGAAGG
* * * * *
25594113 CCCGAATATAATACCAGCACTAGGCCTGCGAGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTACGAGATTTAA
* *
25594151 CCCTGATATAATACCAGCACGAAGCCTACGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTACGAGATTTAA
** * * * *
25594189 CCCGGATATTTTACCAGCATGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTACGAG-ATTTAA
**
25594228 GCCCGGATATTTTACCAGCACGAAGCCT
1 -CCCGGATATAATACCAGCACGAAGCCT
25594256 GCGGGTCTTT
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
38 58 0.65
39 5 0.06
40 26 0.29
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTACGAGATTTAA
Found at i:25594243 original size:40 final size:40
Alignment explanation
Indices: 25594162--25594276 Score: 189
Period size: 40 Copynumber: 2.9 Consensus size: 40
25594152 CCTGATATAA
* *
25594162 TACCAGCACGAAGCCTACGGG-ATTTAA-CCCGGATATTT
1 TACCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATATTT
*
25594200 TACCAGCATGAAGCCTGCGGGTCTTTAAGCCCGGATATTT
1 TACCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATATTT
25594240 TACCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATA
1 TACCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATA
25594277 CACATCAAAT
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
38 19 0.27
39 5 0.07
40 47 0.66
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
TACCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATATTT
Found at i:25595240 original size:2 final size:2
Alignment explanation
Indices: 25595233--25595258 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25595223 ATCACTTTCA
25595233 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
25595259 TCAACTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25598643 original size:42 final size:43
Alignment explanation
Indices: 25598582--25598671 Score: 130
Period size: 42 Copynumber: 2.1 Consensus size: 43
25598572 TCCTTTGTAT
* * *
25598582 TAATATCTCATTAAGAATCAAATTGCTAAGAGATAATATCCTA
1 TAATATCTCATTAAGAATCAAATTGCTAAAAAATAATATCCCA
25598625 TAATATC-CATT-AGAAATCAAATTGCTAAAAAATAATATCCCA
1 TAATATCTCATTAAG-AATCAAATTGCTAAAAAATAATATCCCA
25598667 TAATA
1 TAATA
25598672 ATATATTAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
41 2 0.05
42 34 0.79
43 7 0.16
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.31
Consensus pattern (43 bp):
TAATATCTCATTAAGAATCAAATTGCTAAAAAATAATATCCCA
Found at i:25601898 original size:40 final size:41
Alignment explanation
Indices: 25601854--25601948 Score: 120
Period size: 41 Copynumber: 2.3 Consensus size: 41
25601844 AAATATTATA
*
25601854 CAATAGCGGTGTTTGCAAT-AAAACGCCGCAAAAAACTAAG
1 CAATAGCGGCGTTTGCAATCAAAACGCCGCAAAAAACTAAG
*** * *
25601894 CAATAGCGGCGTTTTTGATCCAAACGCCGCTAAAAACTAAG
1 CAATAGCGGCGTTTGCAATCAAAACGCCGCAAAAAACTAAG
*
25601935 CAATAGTGGCGTTT
1 CAATAGCGGCGTTT
25601949 TTGGAAAAAC
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 15 0.32
41 32 0.68
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (41 bp):
CAATAGCGGCGTTTGCAATCAAAACGCCGCAAAAAACTAAG
Found at i:25601929 original size:41 final size:41
Alignment explanation
Indices: 25601874--25601951 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
25601864 GTTTGCAATA
25601874 AAACGCCGCAAAAAACTAAGCAATAGCGGCGTTTTTGATCC
1 AAACGCCGCAAAAAACTAAGCAATAGCGGCGTTTTTGATCC
* *
25601915 AAACGCCGCTAAAAACTAAGCAATAGTGGCGTTTTTG
1 AAACGCCGCAAAAAACTAAGCAATAGCGGCGTTTTTG
25601952 GAAAAACGCC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (41 bp):
AAACGCCGCAAAAAACTAAGCAATAGCGGCGTTTTTGATCC
Found at i:25601998 original size:41 final size:41
Alignment explanation
Indices: 25601942--25602045 Score: 172
Period size: 41 Copynumber: 2.5 Consensus size: 41
25601932 AAGCAATAGT
*
25601942 GGCGTTTTTGGAAAAACGCCGCTATAGGTCGAGGTTTTAGC
1 GGCGCTTTTGGAAAAACGCCGCTATAGGTCGAGGTTTTAGC
* *
25601983 GGCGCTTTTGGAAAAACGCCGATATAGGTTGAGGTTTTAGC
1 GGCGCTTTTGGAAAAACGCCGCTATAGGTCGAGGTTTTAGC
*
25602024 GGCGCTTTTAGAAAAACGCCGC
1 GGCGCTTTTGGAAAAACGCCGC
25602046 AAAAAAGTAA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (41 bp):
GGCGCTTTTGGAAAAACGCCGCTATAGGTCGAGGTTTTAGC
Found at i:25602769 original size:35 final size:35
Alignment explanation
Indices: 25602708--25602782 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
25602698 ATGGTTTAAG
* *
25602708 GGTTTAGGGTTTATGATATAATGTTTATTGTTTTT
1 GGTTTAGAGTTTATGATATAATGTTTATGGTTTTT
* *
25602743 GGTTTAGAGTTTATGGTTTAGA-GTTTATGGTTTTT
1 GGTTTAGAGTTTATGATATA-ATGTTTATGGTTTTT
*
25602778 TGTTT
1 GGTTT
25602783 TACAGTTGGG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 33 0.97
36 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.25, T:0.57
Consensus pattern (35 bp):
GGTTTAGAGTTTATGATATAATGTTTATGGTTTTT
Found at i:25602782 original size:14 final size:14
Alignment explanation
Indices: 25602737--25602775 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
25602727 AATGTTTATT
*
25602737 GTTTTTGGTTTAGA
1 GTTTATGGTTTAGA
25602751 GTTTATGGTTTAGA
1 GTTTATGGTTTAGA
25602765 GTTTATGGTTT
1 GTTTATGGTTT
25602776 TTTGTTTTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.15, C:0.00, G:0.28, T:0.56
Consensus pattern (14 bp):
GTTTATGGTTTAGA
Found at i:25602941 original size:2 final size:2
Alignment explanation
Indices: 25602934--25602963 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
25602924 ATCCCTTGTA
25602934 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
25602964 TTAGGGTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25603241 original size:17 final size:18
Alignment explanation
Indices: 25603219--25603252 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25603209 TATTTGTTTT
25603219 AATATA-TTAAAATTATC
1 AATATAGTTAAAATTATC
*
25603236 AATATAGTTTAAATTAT
1 AATATAGTTAAAATTAT
25603253 TTAAGAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATAGTTAAAATTATC
Found at i:25605448 original size:2 final size:2
Alignment explanation
Indices: 25605405--25605437 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
25605395 ATATTAAACA
25605405 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25605438 CATGCATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25606221 original size:24 final size:24
Alignment explanation
Indices: 25606189--25606235 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
25606179 TTCAACTTAG
25606189 TAAGAGAAACATAGGAAGAGGCAA
1 TAAGAGAAACATAGGAAGAGGCAA
*
25606213 TAAGGGAAACATAGGAAGAGGCA
1 TAAGAGAAACATAGGAAGAGGCA
25606236 GGTGTTGAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.51, C:0.09, G:0.32, T:0.09
Consensus pattern (24 bp):
TAAGAGAAACATAGGAAGAGGCAA
Found at i:25606914 original size:42 final size:43
Alignment explanation
Indices: 25606847--25606938 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 43
25606837 TATATATTTT
* * * * *
25606847 TAAAGGTTATATTCTTTAGCGGCGTTTGTGACAAAAGCGCCGC
1 TAAAGGTTATATTCTATAGCGGCGTTTGTAAAAAAAGCACAGC
* *
25606890 TAAAGGTT-TGTTCTATGGCGGCGTTTGTAAAAAAAGCACAGC
1 TAAAGGTTATATTCTATAGCGGCGTTTGTAAAAAAAGCACAGC
25606932 TAAAGGT
1 TAAAGGT
25606939 CATGGTCTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 34 0.81
43 8 0.19
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (43 bp):
TAAAGGTTATATTCTATAGCGGCGTTTGTAAAAAAAGCACAGC
Found at i:25614847 original size:39 final size:39
Alignment explanation
Indices: 25614757--25615012 Score: 345
Period size: 39 Copynumber: 6.5 Consensus size: 39
25614747 ACAAAGCATG
* * *
25614757 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
* **
25614797 CGGGACTTTAGCCCAGATATAACACTTGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
25614837 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
25614876 CGAGACTTAGCCCGGATA-AACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
25614914 CGGGACTTAGCTCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
** * * *
25614953 CAAGACTTAACCCGGATATAACATCAGCAGGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
25614992 CGGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
25615013 TTCTCCATTA
Statistics
Matches: 191, Mismatches: 23, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
38 36 0.19
39 134 0.70
40 21 0.11
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:25614923 original size:77 final size:78
Alignment explanation
Indices: 25614757--25615013 Score: 365
Period size: 77 Copynumber: 3.3 Consensus size: 78
25614747 ACAAAGCATG
* * * *
25614757 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTGCGGGACTTTAGCCCAGATATAACA
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTTCGAGAC-TTAGCCCGGATATAACA
**
25614821 CTTGCACGAATGCCTT
63 CCAGCACGAATGCCTT
*
25614837 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGAGACTTAGCCCGGATA-AACACCA
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGAGACTTAGCCCGGATATAACACCA
25614901 GCACGAATGCCTT
66 GCACGAATGCCTT
* * * *
25614914 CGGGACTTAGCTCGGATATAATACCAGCACGAATGCCTTCAAGACTTAACCCGGATATAACATCA
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGAGACTTAGCCCGGATATAACACCA
*
25614979 GCAGGAATGCCTT
66 GCACGAATGCCTT
25614992 CGGGACTTAGCCCGGATATAAT
1 CGGGACTTAGCCCGGATATAAT
25615014 TCTCCATTAT
Statistics
Matches: 161, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
77 71 0.44
78 71 0.44
79 13 0.08
80 6 0.04
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (78 bp):
CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGAGACTTAGCCCGGATATAACACCA
GCACGAATGCCTT
Found at i:25614972 original size:116 final size:117
Alignment explanation
Indices: 25614767--25615012 Score: 343
Period size: 116 Copynumber: 2.1 Consensus size: 117
25614757 CGGGACTTTA
* **
25614767 AGCCCGGATATAATACCAGCACAAAGCCTGCGGGACTTTAGCCCAGATATAACACTTGCACGAAT
1 AGCCCGGATATAACACCAGCACAAAGCCTGCGGGACTTTAGCCCAGATATAACACCAGCACGAAT
** *
25614832 GCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGAGACTT
66 GCCTTCAAGACTTAACCCGGATATAACACCAGCACGAATGCCTTCGAGACTT
* * * * *
25614884 AGCCCGGATA-AACACCAGCACGAATGCCTTCGGGAC-TTAGCTCGGATATAATACCAGCACGAA
1 AGCCCGGATATAACACCAGCAC-AAAGCCTGCGGGACTTTAGCCCAGATATAACACCAGCACGAA
* * *
25614947 TGCCTTCAAGACTTAACCCGGATATAACATCAGCAGGAATGCCTTCGGGACTT
65 TGCCTTCAAGACTTAACCCGGATATAACACCAGCACGAATGCCTTCGAGACTT
25615000 AGCCCGGATATAA
1 AGCCCGGATATAA
25615013 TTCTCCATTA
Statistics
Matches: 113, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
116 89 0.79
117 24 0.21
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.20
Consensus pattern (117 bp):
AGCCCGGATATAACACCAGCACAAAGCCTGCGGGACTTTAGCCCAGATATAACACCAGCACGAAT
GCCTTCAAGACTTAACCCGGATATAACACCAGCACGAATGCCTTCGAGACTT
Found at i:25622166 original size:135 final size:136
Alignment explanation
Indices: 25621961--25622279 Score: 432
Period size: 135 Copynumber: 2.3 Consensus size: 136
25621951 CTTAAAAGGT
* * * *
25621961 TTTAATTTTGATGTTTGATTTATAAAGGGTTGCAATCGGAGTTAAAATATCAAAATTTGAATTTG
1 TTTAATTTTGA-ATTTGATTTAGAGAGTGTTGCAATCGGAGTT-AAATATCAAAATTTGAATTTG
** * ***
25622026 ATTTAGCTTCTTTTGTGGTGAATTTTGAACTTTTAATTTCAGTTCCAAGTTAGTATCTTT-TTTA
64 ATTTAGCTTCTTTTGTGCCGAATTTTGAACTTTTAATTTCAGTTCCAAGTTAGTAACTTTAAAAA
25622090 AA-ATTAA
129 AATATTAA
*
25622097 TTTAATTTTGAATTTGATTTAGAGAGTGTTGCAATCGGAGTTAACTATCAAAATTTGAATTTGAT
1 TTTAATTTTGAATTTGATTTAGAGAGTGTTGCAATCGGAGTTAAATATCAAAATTTGAATTTGA-
* *
25622162 TTTAGTTTCTTTTGTGCCGAATTTTGAACTTTTAATTTCAGTTCCAAGTTATTAACTTTGAAAAA
65 TTTAGCTTCTTTTGTGCCGAATTTTGAACTTTTAATTTCAGTTCCAAGTTAGTAACTTT--AAAA
25622227 AAATATTAA
128 AAATATTAA
*
25622236 CTTAATTTTGAATTTGATTTAGAGAGTG-T--AATCGGAGTTAAATA
1 TTTAATTTTGAATTTGATTTAGAGAGTGTTGCAATCGGAGTTAAATA
25622280 CCGTGTCCCG
Statistics
Matches: 163, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
134 21 0.13
135 81 0.50
136 25 0.15
138 4 0.02
139 32 0.20
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.45
Consensus pattern (136 bp):
TTTAATTTTGAATTTGATTTAGAGAGTGTTGCAATCGGAGTTAAATATCAAAATTTGAATTTGAT
TTAGCTTCTTTTGTGCCGAATTTTGAACTTTTAATTTCAGTTCCAAGTTAGTAACTTTAAAAAAA
TATTAA
Found at i:25623358 original size:26 final size:26
Alignment explanation
Indices: 25623323--25623379 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
25623313 ACTATTGATG
25623323 GTCA-AACTTTTAAGCATTTTATGAA
1 GTCATAACTTTTAAGCATTTTATGAA
25623348 GTCATAACTTTTAAGCATTTTATGAA
1 GTCATAACTTTTAAGCATTTTATGAA
25623374 GTCATA
1 GTCATA
25623380 GTTTCATCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 4 0.13
26 27 0.87
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (26 bp):
GTCATAACTTTTAAGCATTTTATGAA
Found at i:25628445 original size:3 final size:3
Alignment explanation
Indices: 25628437--25628468 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
25628427 AACTATTTGG
25628437 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
25628469 TTTTGTGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:25629021 original size:6 final size:6
Alignment explanation
Indices: 25629012--25629049 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
25629002 AGTTGTAGAA
25629012 GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GA
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GA
25629050 AATTGAGGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.18, C:0.00, G:0.50, T:0.32
Consensus pattern (6 bp):
GATGGT
Found at i:25636318 original size:15 final size:15
Alignment explanation
Indices: 25636298--25636327 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
25636288 ATAACTAAAA
25636298 TTAAATATGGAATAT
1 TTAAATATGGAATAT
25636313 TTAAATATGGAATAT
1 TTAAATATGGAATAT
25636328 GATGATAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (15 bp):
TTAAATATGGAATAT
Found at i:25640127 original size:20 final size:20
Alignment explanation
Indices: 25640104--25640158 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
25640094 TATTTATTTG
25640104 TATTTTTTAATATAATAAAA
1 TATTTTTTAATATAATAAAA
* * *
25640124 TATTTATT-ATAT-TTATAA
1 TATTTTTTAATATAATAAAA
25640142 TAGTGTTTTTAATATAA
1 TA-T-TTTTTAATATAA
25640159 ATATTTTGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 6
0.70 0.14 0.16
Matches are distributed among these distances:
18 6 0.23
19 5 0.19
20 11 0.42
21 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (20 bp):
TATTTTTTAATATAATAAAA
Found at i:25640541 original size:23 final size:23
Alignment explanation
Indices: 25640515--25640588 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
25640505 TGATTTTTAA
* * *
25640515 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAATAATAAT
* * *
25640538 ATTTAAAATTACTTATTAATAAT
1 ATTTAGAATTATTTAATAATAAT
*
25640561 ATTTAGGATTATTTAATAATAAT
1 ATTTAGAATTATTTAATAATAAT
25640584 ATTTA
1 ATTTA
25640589 AAAAAAATCT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.42, C:0.01, G:0.07, T:0.50
Consensus pattern (23 bp):
ATTTAGAATTATTTAATAATAAT
Found at i:25644870 original size:39 final size:39
Alignment explanation
Indices: 25644786--25644938 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
25644776 TATGGTAACC
** * *
25644786 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
25644826 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
25644865 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
25644904 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
25644939 TCGAATATTC
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 86 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:25644912 original size:78 final size:79
Alignment explanation
Indices: 25644755--25644937 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
25644745 TCGTTCAAAC
* * **
25644755 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
25644820 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** * *
25644835 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGGTATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
25644899 CAATTTGCACAATT
66 CAATTTGCACAATT
25644913 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
25644938 CTCGAATATT
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:25647008 original size:19 final size:19
Alignment explanation
Indices: 25646966--25647008 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
25646956 TATTTACAAA
25646966 AAAAATATAAAAAAAAAGT
1 AAAAATATAAAAAAAAAGT
* *
25646985 TAAAATATAACAATAAAA-T
1 AAAAATATAA-AAAAAAAGT
25647004 AAAAA
1 AAAAA
25647009 AATTTAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (19 bp):
AAAAATATAAAAAAAAAGT
Found at i:25647270 original size:22 final size:20
Alignment explanation
Indices: 25647226--25647272 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
25647216 AAAATTAAGA
* *
25647226 GAGAATTTTGAGAGTGGTTT
1 GAGAATTTTGAGAGAGATTT
25647246 GAGAATTTTGAGAGAGTATTGT
1 GAGAATTTTGAGAGAG-ATT-T
25647268 GAGAA
1 GAGAA
25647273 ATGAGTAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 15 0.65
21 2 0.09
22 6 0.26
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (20 bp):
GAGAATTTTGAGAGAGATTT
Found at i:25647300 original size:2 final size:2
Alignment explanation
Indices: 25647293--25647319 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
25647283 GTGGGGGTTT
25647293 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 T
25647320 TTACTGTTAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25647436 original size:29 final size:29
Alignment explanation
Indices: 25647404--25647465 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
25647394 GCTGAATGCA
* *
25647404 TTTTCCATAAATGTTTCCAGCTGGAAACG
1 TTTTCCATAAACGTTTCCAACTGGAAACG
*
25647433 TTTTCCATAAACGTTTCCAACTGGAAGCG
1 TTTTCCATAAACGTTTCCAACTGGAAACG
25647462 TTTT
1 TTTT
25647466 TCTGCATTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (29 bp):
TTTTCCATAAACGTTTCCAACTGGAAACG
Found at i:25648329 original size:3 final size:3
Alignment explanation
Indices: 25648323--25648354 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
25648313 ACAATATGAT
25648323 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
25648355 CAAATTTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:25652182 original size:12 final size:12
Alignment explanation
Indices: 25652165--25652212 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
25652155 TGGGAGTAAA
25652165 GTTTTATATTTG
1 GTTTTATATTTG
*
25652177 GTTTTATATGTTAAA
1 GTTTTATAT-TT--G
25652192 GTTTTATATTTG
1 GTTTTATATTTG
25652204 GTTTTATAT
1 GTTTTATAT
25652213 GTTAATGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 18 0.58
13 2 0.06
14 2 0.06
15 9 0.29
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (12 bp):
GTTTTATATTTG
Found at i:25652195 original size:27 final size:27
Alignment explanation
Indices: 25652161--25652217 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
25652151 TTAGTGGGAG
25652161 TAAAGTTTTATATTTGGTTTTATATGT
1 TAAAGTTTTATATTTGGTTTTATATGT
25652188 TAAAGTTTTATATTTGGTTTTATATGT
1 TAAAGTTTTATATTTGGTTTTATATGT
25652215 TAA
1 TAA
25652218 TGACATACTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.58
Consensus pattern (27 bp):
TAAAGTTTTATATTTGGTTTTATATGT
Found at i:25656374 original size:131 final size:130
Alignment explanation
Indices: 25656125--25656518 Score: 520
Period size: 132 Copynumber: 3.0 Consensus size: 130
25656115 GCCTTAGAAT
* * * * * * *
25656125 AACACGAGTGAAATTCCAAAGGAATATTTGATTATTTTGAACAAACGGAAAATCGAAACCCAGCA
1 AACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCA
* * * * *
25656190 CGATAGGACACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTTC-CTTTAAAGAGTTTTTA
66 CGATAGGGCACGATT-CCCGAATTGCCAAACATCGAACATTGCC-TTCGTTTTAAAGAGTTTTTA
25656254 AA
129 AA
* * *
25656256 GATATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAATGGGAAATTGCAACCCAGCA
1 AACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCA
* *
25656321 CGATAGGGCACGACTCCCTGAATTGCCAAACATCGAACATTTCCTTCGTTTTAAAGAGTTTTTAG
66 CGATAGGGCACGATTCCC-GAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAGAGTTTTTA-
25656386 AA
129 AA
* * * * *
25656388 AACATGAGTGAAGTTCTAAAGGGACATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACA
1 AACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCA
* *
25656453 CGATAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAGTTTTTAA
66 CGATAGGGCACGATTCC-CGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAGAGTTTTTAA
25656518 A
130 A
25656519 TGAATAATTA
Statistics
Matches: 230, Mismatches: 29, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
130 6 0.03
131 106 0.46
132 117 0.51
133 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (130 bp):
AACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCA
CGATAGGGCACGATTCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAGAGTTTTTAAA
Found at i:25662572 original size:29 final size:31
Alignment explanation
Indices: 25662507--25662572 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
25662497 AAATTTAAAA
* *
25662507 TTAATAAATATAAAATTATATTTCAACTCTC
1 TTAAAAAATAAAAAATTATATTTCAACTCTC
*
25662538 TTAAAAAATAAAAAATTA-ATTT-AATTCT-
1 TTAAAAAATAAAAAATTATATTTCAACTCTC
25662566 TTAAAAA
1 TTAAAAA
25662573 TTATAAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 7 0.22
29 5 0.16
30 4 0.12
31 16 0.50
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (31 bp):
TTAAAAAATAAAAAATTATATTTCAACTCTC
Found at i:25663846 original size:16 final size:17
Alignment explanation
Indices: 25663825--25663859 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
25663815 CAAAAAAATC
25663825 ATTAAT-AAATTGAAAA
1 ATTAATGAAATTGAAAA
*
25663841 ATTAATGTAATTGAAAA
1 ATTAATGAAATTGAAAA
25663858 AT
1 AT
25663860 ATTTTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (17 bp):
ATTAATGAAATTGAAAA
Done.