Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 336 of 345
Found at i:112022618 original size:54 final size:53
Alignment explanation
Indices: 112022554--112022671 Score: 202
Period size: 54 Copynumber: 2.2 Consensus size: 53
112022544 CAATATGAAT
112022554 AGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
1 AGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAC
*
112022608 AGAAATTAAAAGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTGAAAAC
1 AGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAC
112022661 ATG-AATTAAAA
1 A-GAAATTAAAA
112022672 CAGAAATTGG
Statistics
Matches: 62, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
53 14 0.23
54 48 0.77
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (53 bp):
AGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAC
Found at i:112022829 original size:140 final size:138
Alignment explanation
Indices: 112022563--112022896 Score: 496
Period size: 140 Copynumber: 2.4 Consensus size: 138
112022553 TAGAAATTAA
*
112022563 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
1 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
* ** *
112022628 TACCTCTCGCAATATGAGTTGATTTTTGAAAACATGAATTAAAACAGAAATTGGAAATACCTTAG
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAACATGAAAAAAAACAGAAATTGGAAATACCTCAG
112022693 CATGTGAGC-C
131 C--GTG-GCTC
*
112022703 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAAACAGGAATTAAAAGGCTCAAC
1 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATTAAAAGGCTCAAC
*
112022768 TCACCTCTCGCAATATGAGTTGATTTTTGAAAA-AT-ATAAAAAAATAGAAATT-GAAATTACCT
65 TCACCTCTCGCAATATGAGTTGATTTTTGAAAACATGA-AAAAAAACAGAAATTGGAAA-TACCT
* *
112022830 CAGCGTGTCTT
128 CAGCGTGGCTC
*
112022841 GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAA
1 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAA
112022897 AAACAGAAAT
Statistics
Matches: 179, Mismatches: 11, Indels: 11
0.89 0.05 0.05
Matches are distributed among these distances:
137 17 0.09
138 41 0.23
139 5 0.03
140 60 0.34
141 56 0.31
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (138 bp):
AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTGAAAACATGAAAAAAAACAGAAATTGGAAATACCTCAG
CGTGGCTC
Found at i:112022900 original size:15 final size:16
Alignment explanation
Indices: 112022880--112022912 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
112022870 TTGATTTTTG
112022880 AAAAACAGAAATT-AA
1 AAAAACAGAAATTGAA
112022895 AAAAACAGAAATTGAA
1 AAAAACAGAAATTGAA
112022911 AA
1 AA
112022913 TACCTCAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.73, C:0.06, G:0.09, T:0.12
Consensus pattern (16 bp):
AAAAACAGAAATTGAA
Found at i:112023111 original size:263 final size:249
Alignment explanation
Indices: 112022759--112023303 Score: 672
Period size: 259 Copynumber: 2.1 Consensus size: 249
112022749 AGGAATTAAA
* *
112022759 AGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAAATATAAAAAAATAGAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATATAAAAAAACAGAAATTA
* ** *
112022821 AAATTACCTCAGCGTGTCTTGAGGCTCAACTCA-CTTCTCGCAATATGAGTTGATTTTTGAAAAA
66 AAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTT-TCGCAATATGAGTTGACTTTTGAAAAA
*
112022885 CAGAAATTAAAAAAACAGAAATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTC
130 CAGAAATT----AAACAGAAATTAAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTC
* *
112022950 GCAATATAAGTTGATTTTGGAAAAGTAGAAATTAAAGACA-GAAATTGAAATTACCTCAGCGTGT
191 GCAATATAAGTTG----T--AAAA--AGAAATT-AA-ACAGGAAATTAAAAATACCTCAGCGTGT
112023014 CCCG
246 CCCG
* *
112023018 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTGAAAAATATAAACTAAACAG-AAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTGAAAAATATAAA-AAAACAGAAAT
112023082 TCAAAAATA-CTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGACTTTTGAAA
64 T-AAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGACTTTTGAAA
** * * * * *
112023146 AGTATAAATTAAATAGGAATTAAAAATTCCTCAGCATGTGAGCCGAGGCTCAACTCATCTCTCGC
128 AACAGAAATTAAACAGAAATTAAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGC
* * * *
112023211 AATATGAGTTGTAAAAATAAATTAAACAGGAATTTAAAAATACCTCAGCGTGTCTCG
193 AATATAAGTTGTAAAAAGAAATTAAACAGGAAATTAAAAATACCTCAGCGTGTCCCG
112023268 AGGCTCAACTCACCTTCTCGCAATATGAGTTGATTT
1 AGGCTCAACTCACC-TCTCGCAATATGAGTTGATTT
112023304 AAAAACAGAA
Statistics
Matches: 254, Mismatches: 23, Indels: 27
0.84 0.08 0.09
Matches are distributed among these distances:
249 3 0.01
250 43 0.17
251 23 0.09
253 4 0.02
255 1 0.00
259 91 0.36
263 76 0.30
264 13 0.05
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (249 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATATAAAAAAACAGAAATTA
AAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGACTTTTGAAAAAC
AGAAATTAAACAGAAATTAAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAAT
ATAAGTTGTAAAAAGAAATTAAACAGGAAATTAAAAATACCTCAGCGTGTCCCG
Found at i:112023113 original size:173 final size:167
Alignment explanation
Indices: 112022759--112023303 Score: 585
Period size: 173 Copynumber: 3.2 Consensus size: 167
112022749 AGGAATTAAA
*
112022759 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAA--AAAATAGAAATTGA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAGTATAAATTAAAATAGAAATTGA
** * ***
112022822 AATTACCTCAGCGTGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACA
65 AATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG-TGATTTTTTTGAAA-A
* * * **
112022887 GAAATTAAAAAAACAGAAATTGAAAATACCTCAGCATGTGAGCCG
128 -ATA-TAAATAAACAG-AATTAAAAATACCTCAGC--GTGTCCCG
* * *
112022932 AGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTGGAAAAGTAGAAATTAAAGACAGAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-GAAAAGTATAAATTAAA-ATAGAAATTG
112022997 AAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTGAA
64 AAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGT-GA--TTTTTTTGAA
112023062 AAATATAAACTAAACAGAATTCAAAAATA-CTCAGCGTGTCCCG
126 AAATATAAA-TAAACAGAATT-AAAAATACCTCAGCGTGTCCCG
* * *
112023105 AGGCTCAACTCACCTTTCGCAATATGAGTTGACTTTTGAAAAGTATAAATT-AAATAGGAATTAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAGTATAAATTAAAATAGAAATT-G
** * *
112023169 AAATT-CCTCAGCATGTGAGCCGAGGCTCAACTCATCTCTCGCAATATGA--G----TTGT-AAA
64 AAATTACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTGATTTTTTTGAAA
* *
112023226 AATA-AATTAAACAGGAATTTAAAAATACCTCAGCGTGTCTCG
127 AATATAAATAAACA-GAA-TTAAAAATACCTCAGCGTGTCCCG
112023268 AGGCTCAACTCACCTTCTCGCAATATGAGTTGATTT
1 AGGCTCAACTCACC-TCTCGCAATATGAGTTGATTT
112023304 AAAAACAGAA
Statistics
Matches: 327, Mismatches: 28, Indels: 44
0.82 0.07 0.11
Matches are distributed among these distances:
161 6 0.02
162 12 0.04
163 39 0.12
164 20 0.06
170 1 0.00
171 14 0.04
172 11 0.03
173 122 0.37
174 4 0.01
175 18 0.06
176 71 0.22
177 1 0.00
178 8 0.02
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (167 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAGTATAAATTAAAATAGAAATTGAA
ATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTGATTTTTTTGAAAAATA
TAAATAAACAGAATTAAAAATACCTCAGCGTGTCCCG
Found at i:112023242 original size:78 final size:78
Alignment explanation
Indices: 112023061--112023299 Score: 254
Period size: 86 Copynumber: 3.0 Consensus size: 78
112023051 TTTTTTTTGA
* * *
112023061 AAAATATAAACTAAACA-GAATTCAAAAA-TACTCAGCGTGTCCCGAGGCTCAACTCACCTTTCG
1 AAAATATAAATTAAACAGGAATT-AAAAATTCCTCAGCGTG-CCCGAGGCTCAACTCACCTCTCG
112023124 CAATATGAGTTGACTTTTG
64 CAATATGAGTTG----TTG
* * *
112023143 AAAAGTATAAATTAAATAGGAATTAAAAATTCCTCAGCATGTGAGCCGAGGCTCAACTCATCTCT
1 AAAA-TATAAATTAAACAGGAATTAAAAATTCCTCAGC--GTG-CCCGAGGCTCAACTCACCTCT
112023208 CGCAATATGAGTTG-T-
62 CGCAATATGAGTTGTTG
* *
112023223 AAAA-ATAAATTAAACAGGAATTTAAAAATACCTCAGCGTGTCTCGAGGCTCAACTCACCTTCTC
1 AAAATATAAATTAAACAGGAA-TTAAAAATTCCTCAGCGTG-CCCGAGGCTCAACTCACC-TCTC
112023287 GCAATATGAGTTG
63 GCAATATGAGTTG
112023300 ATTTAAAAAC
Statistics
Matches: 137, Mismatches: 13, Indels: 18
0.82 0.08 0.11
Matches are distributed among these distances:
77 18 0.13
78 32 0.23
79 15 0.11
80 4 0.03
81 1 0.01
82 4 0.03
83 16 0.12
84 12 0.09
86 35 0.26
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (78 bp):
AAAATATAAATTAAACAGGAATTAAAAATTCCTCAGCGTGCCCGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGTTG
Found at i:112024112 original size:30 final size:30
Alignment explanation
Indices: 112024006--112024135 Score: 138
Period size: 30 Copynumber: 4.3 Consensus size: 30
112023996 CTTAGCCTTT
* * * *
112024006 TCCACCACCAACTCCACCAGTCACTCCTT-T
1 TCCACCACCAACTCCACTAGCCAC-ACTTGC
*
112024036 TCCACCACCAACTCCACTAGCCACACCTT-T
1 TCCACCACCAACTCCACTAGCCACA-CTTGC
*
112024066 TCCACCACCAAATCCACTAGCCACACTTGC
1 TCCACCACCAACTCCACTAGCCACACTTGC
** * *
112024096 TCCATTACCTACTCCACTAACCACACTTGC
1 TCCACCACCAACTCCACTAGCCACACTTGC
112024126 TCCACCACCA
1 TCCACCACCA
112024136 CTTGTACCTA
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
29 3 0.04
30 82 0.96
ACGTcount: A:0.27, C:0.48, G:0.04, T:0.21
Consensus pattern (30 bp):
TCCACCACCAACTCCACTAGCCACACTTGC
Found at i:112024643 original size:23 final size:22
Alignment explanation
Indices: 112024606--112024733 Score: 75
Period size: 23 Copynumber: 5.5 Consensus size: 22
112024596 TTTTTTTTGT
112024606 TATTATTATATTTCTTAATATTA
1 TATTATTATA-TTCTTAATATTA
* *
112024629 TATTATATATATTCTT-TTAATA
1 TATTAT-TATATTCTTAATATTA
*
112024651 TATTAGGTATATT-TTAA-ATTCTA
1 TATTA-TTATATTCTTAATA-T-TA
* *
112024674 TATTACTTATATATATT-ATACTA
1 TATTA-TTATAT-TCTTAATATTA
*
112024697 TTTTATGTATATATCTTTAATATTA
1 TATTAT-TATAT-TC-TTAATATTA
112024722 TATTATTTATAT
1 TATTA-TTATAT
112024734 ATATATATTT
Statistics
Matches: 81, Mismatches: 12, Indels: 22
0.70 0.10 0.19
Matches are distributed among these distances:
21 3 0.04
22 16 0.20
23 36 0.44
24 8 0.10
25 17 0.21
26 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (22 bp):
TATTATTATATTCTTAATATTA
Found at i:112024709 original size:25 final size:26
Alignment explanation
Indices: 112024681--112024739 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
112024671 CTATATTACT
*
112024681 TATATATATT-ATACTATTTTATGTA
1 TATATATATTAATACTATATTATGTA
* * *
112024706 TATATCT-TTAATATTATATTATTTA
1 TATATATATTAATACTATATTATGTA
112024731 TATATATAT
1 TATATATAT
112024740 ATTTTTTTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
24 2 0.07
25 24 0.89
26 1 0.04
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (26 bp):
TATATATATTAATACTATATTATGTA
Found at i:112024733 original size:14 final size:14
Alignment explanation
Indices: 112024623--112024743 Score: 56
Period size: 14 Copynumber: 8.6 Consensus size: 14
112024613 ATATTTCTTA
112024623 ATATTATATTATA-T
1 ATATTAT-TTATATT
* *
112024637 ATATTCTTT-TAAT
1 ATATTATTTATATT
**
112024650 ATATTAGGTATATT
1 ATATTATTTATATT
* *
112024664 TTA-AATTCTATATT
1 ATATTATT-TATATT
* *
112024678 A-CTTATATATATT
1 ATATTATTTATATT
*
112024691 ATACTATTT-TATGT
1 ATATTATTTATAT-T
*
112024705 ATATATCTTTAATATT
1 ATAT-TATTT-ATATT
112024721 ATATTATTTATA-T
1 ATATTATTTATATT
112024734 ATATATATTT
1 ATAT-TATTT
112024744 TTTTACATGT
Statistics
Matches: 78, Mismatches: 19, Indels: 20
0.67 0.16 0.17
Matches are distributed among these distances:
12 2 0.03
13 25 0.32
14 35 0.45
15 8 0.10
16 5 0.06
17 3 0.04
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.57
Consensus pattern (14 bp):
ATATTATTTATATT
Found at i:112024786 original size:22 final size:24
Alignment explanation
Indices: 112024758--112024816 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
112024748 ACATGTTATC
112024758 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
112024780 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
112024805 TTATGTACATAT
1 TTATGTATATAT
112024817 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:112024806 original size:25 final size:25
Alignment explanation
Indices: 112024774--112024822 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
112024764 ATATATCTTA
**
112024774 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
112024799 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
112024823 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:112025009 original size:7 final size:7
Alignment explanation
Indices: 112024981--112025020 Score: 55
Period size: 8 Copynumber: 5.6 Consensus size: 7
112024971 TATTATTCTA
112024981 ATATTTT
1 ATATTTT
112024988 GATATTTT
1 -ATATTTT
112024996 GATATTTT
1 -ATATTTT
112025004 ATA-TTT
1 ATATTTT
112025010 ATATTTT
1 ATATTTT
112025017 ATAT
1 ATAT
112025021 ATTTTATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.19
7 10 0.32
8 15 0.48
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (7 bp):
ATATTTT
Found at i:112025015 original size:13 final size:14
Alignment explanation
Indices: 112024981--112025020 Score: 55
Period size: 13 Copynumber: 2.8 Consensus size: 14
112024971 TATTATTCTA
112024981 ATATTTTGATATTTTG
1 ATATTTT-ATA-TTTG
112024997 ATATTTTATATTT-
1 ATATTTTATATTTG
112025010 ATATTTTATAT
1 ATATTTTATAT
112025021 ATTTTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 11 0.46
14 3 0.12
15 3 0.12
16 7 0.29
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (14 bp):
ATATTTTATATTTG
Found at i:112025021 original size:15 final size:15
Alignment explanation
Indices: 112024981--112025028 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 15
112024971 TATTATTCTA
112024981 ATATTTTGATAT-TTT
1 ATATTTT-ATATATTT
112024996 GATA-TTT-TATATTT
1 -ATATTTTATATATTT
112025010 ATATTTTATATATTT
1 ATATTTTATATATTT
112025025 -TATT
1 ATATT
112025029 ATTCAAATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 6 0.21
14 10 0.34
15 10 0.34
16 3 0.10
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (15 bp):
ATATTTTATATATTT
Found at i:112025042 original size:72 final size:68
Alignment explanation
Indices: 112024894--112025043 Score: 153
Period size: 72 Copynumber: 2.1 Consensus size: 68
112024884 ATTTTTAAAC
* *
112024894 ATCATTATTATTTCTAATATATATATTATGTACATTTTTTATTTCTATTTTATTTTTTATTTGTC
1 ATCATTATTATTTCTAATATATATATTATGTACATTTTATATTTATATTTTATTTTTTATTTGTC
112024959 AAT
66 AAT
* * * *
112024962 ATTAATTATTATTATTCTAATATTTTGATATTTTG-ATATTTTATATTTATATTTTATATATTTT
1 A-TCATTATTA-T-TTCTAATA-TAT-ATATTATGTACATTTTATATTTATATTTTAT-T-TTTT
112025026 ATTAT-TCAA-
59 ATT-TGTCAAT
112025035 ATCATTATT
1 ATCATTATT
112025044 CGCATTTTTT
Statistics
Matches: 67, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
68 1 0.01
69 8 0.12
70 1 0.01
71 8 0.12
72 28 0.42
73 9 0.13
74 11 0.16
75 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (68 bp):
ATCATTATTATTTCTAATATATATATTATGTACATTTTATATTTATATTTTATTTTTTATTTGTC
AAT
Found at i:112026618 original size:12 final size:12
Alignment explanation
Indices: 112026601--112026636 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
112026591 ATTCATTTGA
112026601 CATTCATGCATT
1 CATTCATGCATT
*
112026613 CATTCATGCATC
1 CATTCATGCATT
*
112026625 CATTCATTCATT
1 CATTCATGCATT
112026637 GCATATCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:112026630 original size:16 final size:17
Alignment explanation
Indices: 112026609--112026640 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
112026599 GACATTCATG
112026609 CATTCATTCA-TGCATC
1 CATTCATTCATTGCATC
112026625 CATTCATTCATTGCAT
1 CATTCATTCATTGCAT
112026641 ATCCCATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.41
Consensus pattern (17 bp):
CATTCATTCATTGCATC
Found at i:112034988 original size:69 final size:71
Alignment explanation
Indices: 112034802--112035667 Score: 948
Period size: 68 Copynumber: 12.3 Consensus size: 71
112034792 TATTTTGATG
* * *
112034802 TTTT-AATTTCATGCTTTCAAGGAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACA
1 TTTTCAATTTC-TGTTTTCAA--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACA
112034866 CG-TGAGGTA
62 CGCTGAGGTA
*
112034875 TTTTTAATTT-TGTTTTCAAAAATCAACTCATATTGCGAGA--TGAGTTGAGCCTCGGGACACGC
1 TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGC
112034937 TGAGGTA
65 TGAGGTA
* *
112034944 TTTT-AATTTCTGTTTTC-AAAATTAACTCATATTGCGAGA-GTGAGTTGAGCCTCGG-CAC-AT
1 TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCT
*
112035004 GCAGGTC
66 G-AGGTA
*
112035011 TTTTCAA--TCTGTTGTT-AAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTTCAATTTCTGTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACG
*
112035073 CTGA-GAA
64 CTGAGGTA
112035080 TTTT-AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-GG-CACGC
1 TTTTCAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGC
112035142 TGAGGTA
65 TGAGGTA
112035149 -TTTCAATTT-TGTTTTTAAATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TTTTCAATTTCTG---------TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* **
112035212 -AAGCACATTGAGGTA
57 GGA-CACGCTGAGGTA
* ** *
112035227 TTTTCAA--T-T-TTCTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGTTCACAC
1 TTTTCAATTTCTGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGC
112035288 -GAGGTA
65 TGAGGTA
* * *
112035294 TTTTCAATTTCTGTTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AAGAC
1 TTTTCAATTTCTG-TTTT--CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACAC
112035358 GCTGAGGTA
63 GCTGAGGTA
* *
112035367 -TTTCAATTT-TGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACAC-AT
1 TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCT
112035429 GAGGTA
66 GAGGTA
*
112035435 -TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTC--A-ACGCT
1 TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCT
112035496 GAGGTTTTTCAA
66 GAGG----T--A
112035508 TTTTTCTTCAATTTCTGTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAG-C-C-GACA
1 ---TT-TTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACA
112035569 CGCTGAGGTA
62 CGCTGAGGTA
112035579 TTTTCAA-TTCT-TTTTCAAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCGGACACGC
1 TTTTCAATTTCTGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGC
112035641 TGAGGTA
65 TGAGGTA
112035648 TTTTCAATTTCTGTTTTCAA
1 TTTTCAATTTCTGTTTTCAA
112035668 TTACTTTTCA
Statistics
Matches: 697, Mismatches: 33, Indels: 129
0.81 0.04 0.15
Matches are distributed among these distances:
65 5 0.01
66 24 0.03
67 84 0.12
68 177 0.25
69 116 0.17
70 42 0.06
71 49 0.07
72 23 0.03
73 50 0.07
74 5 0.01
75 1 0.00
76 45 0.06
77 44 0.06
78 26 0.04
79 6 0.01
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (71 bp):
TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCT
GAGGTA
Found at i:112035387 original size:141 final size:141
Alignment explanation
Indices: 112034802--112035892 Score: 1128
Period size: 141 Copynumber: 7.6 Consensus size: 141
112034792 TATTTTGATG
* * * *
112034802 TTTT-AATTTCATGCTTTCAAGGAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACA
1 TTTTCAATTTC-TGTTTTCAA--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGACACA
* *
112034866 CGTGAGGTATTTTTAATTT-TG-TTTTCAAAAATCAACTCATATTGCGAGA--TGAGTTGAGCCT
63 C-TGAGGTATTTTCAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
*
112034927 CGGGACACGCTGAGGTA
127 C--AACACGCTGAGGTA
* *
112034944 TTTT-AATTTCTGTTTTC-AAAATTAACTCATATTGCGAGA-GTGAGTTGAGCCTCGGCACA-TG
1 TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGACACACTG
* *
112035005 CAGGTCTTTTCAA--TCTGTTGTTAAAAAA-CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
66 -AGGTATTTTCAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-
*
112035067 GACACGCTGA-GAA
129 -ACACGCTGAGGTA
* *
112035080 TTTT-AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-GGCACGCT
1 TTTTCAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGACACACT
112035143 GAGGTA-TTTCAATTT-TGTTTTTAAATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
65 GAGGTATTTTCAATTTCTGTTTTT--A------AAAAATCAACTCATATTGCGAGAGGTGAGTTG
**
112035206 AGCCTCAAGCACATTGAGGTA
122 AGCCTCAA-CACGCTGAGGTA
* *
112035227 TTTTCAA--T-T-TTCTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGTTCACAC
1 TTTTCAATTTCTGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-ACACAC
112035288 -GAGGTATTTTCAATTTCTGTTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
64 TGAGGTATTTTCAATTTCTGTTTTT--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
*
112035352 CAAGACGCTGAGGTA
127 CAACACGCTGAGGTA
112035367 -TTTCAATTT-TGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACA-T
1 TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GACACACT
* *
112035429 GAGGTA-TTTCAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTC-A
65 GAGGTATTTTCAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
112035491 -ACGCTGAGGTTTTTCAA
130 CACGCTGAGG----T--A
112035508 TTTTTCTTCAATTTCTGTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAG-C-CGACAC
1 ---TT-TTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGACAC
* *
112035570 GCTGAGGTATTTTCAA-TTCT-TTTTCAAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCT
62 ACTGAGGTATTTTCAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
*
112035632 CGGACACGCTGAGGTA
127 C-AACACGCTGAGGTA
112035648 TTTTCAATTTCTGTTTTCAATTACTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 TTTTCAATTTCTG-----------TTTTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAG
* *
112035713 CCTCGGTCACACGCTGAGG--TTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAG
53 CCTC-G--ACACACTGAGGTATTTTCAATTTCTG-TTTTTAAAAAATCAACTCATATTGCGAGAG
*
112035776 GTGAGTTGAGCCTC-ACACGCTGAGGCA
114 GTGAGTTGAGCCTCAACACGCTGAGGTA
* * *
112035803 TTTTCAATTTCTGCTTTCAAAAATCAACT--TATTGCGAGAGGTGAGTTGAGTCCGGCCACACAC
1 TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CC-TCGACACAC
* *
112035866 TGAGGTCTTTTCAAATTCTGTTTTTAA
64 TGAGGTATTTTCAATTTCTGTTTTTAA
112035893 TTTCTGCTTT
Statistics
Matches: 829, Mismatches: 40, Indels: 162
0.80 0.04 0.16
Matches are distributed among these distances:
134 1 0.00
135 30 0.04
136 44 0.05
137 88 0.11
138 56 0.07
139 37 0.04
140 51 0.06
141 111 0.13
142 25 0.03
143 25 0.03
144 79 0.10
145 18 0.02
146 75 0.09
147 61 0.07
148 2 0.00
149 2 0.00
150 31 0.04
151 1 0.00
152 1 0.00
153 8 0.01
154 4 0.00
155 36 0.04
156 29 0.03
157 14 0.02
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (141 bp):
TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGACACACTG
AGGTATTTTCAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAC
ACGCTGAGGTA
Found at i:112035530 original size:78 final size:77
Alignment explanation
Indices: 112035436--112035812 Score: 368
Period size: 77 Copynumber: 5.0 Consensus size: 77
112035426 CATGAGGTAT
*
112035436 TTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA-ACGCTGAGG
1 TTCAATTTC--TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACACGCTGAGG
112035500 TTTTTCAATTTTTC
64 TTTTTCAATTTTTC
*
112035514 TTCAATTTCTGTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-GACACGCTGAGG
1 TTCAATTTC--TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACACGCTGAGG
112035577 TATTTTCAA---TTC
64 T-TTTTCAATTTTTC
*
112035589 TT---TTTC----AAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCGGACACGCTGAGG
1 TTCAATTTCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--ACACGCTGAGG
*
112035646 TATTTTCAATTTCTGTT
64 T-TTTTCAATTT-T-TC
*
112035663 TTCAATTACTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACACGCT
1 TTCAATTTCTTTTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAG-C-C--TCACACGCT
112035728 GAGG-TTTTCAA----T-
60 GAGGTTTTTCAATTTTTC
*
112035740 TTC---TGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACACGCTGAGGC
1 TTCAATTTCTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACACGCTGAGG-
*
112035802 ATTTTCAATTT
64 TTTTTCAATTT
112035813 CTGCTTTCAA
Statistics
Matches: 261, Mismatches: 8, Indels: 64
0.78 0.02 0.19
Matches are distributed among these distances:
66 12 0.05
67 22 0.08
69 33 0.13
71 8 0.03
72 5 0.02
73 32 0.12
74 14 0.05
75 5 0.02
76 1 0.00
77 50 0.19
78 24 0.09
82 3 0.01
83 20 0.08
84 17 0.07
85 1 0.00
86 12 0.05
88 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (77 bp):
TTCAATTTCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACACGCTGAGGTT
TTTCAATTTTTC
Found at i:112035741 original size:84 final size:83
Alignment explanation
Indices: 112035579--112035822 Score: 315
Period size: 73 Copynumber: 3.1 Consensus size: 83
112035569 CGCTGAGGTA
112035579 TTTTCAATTCTTTTTCAAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCGG--ACACGC
1 TTTTCAATTC-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACACGC
112035641 TGAGGTATTTTCAATTTCTG
65 TGAGG-ATTTTCAATTTCTG
112035661 TTTTCAATTACTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACACG
1 TTTTCAATT-CTTTTCAAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACACG
112035726 CTGAGG-TTTTCAATTTCTG
64 CTGAGGATTTTCAATTTCTG
112035745 ---------CTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-C-C--TCACACGCT
1 TTTTCAATTCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACACGCT
112035797 GAGGCATTTTCAATTTCTG
66 GAGG-ATTTTCAATTTCTG
*
112035816 CTTTCAA
1 TTTTCAA
112035823 AAATCAACTT
Statistics
Matches: 148, Mismatches: 0, Indels: 32
0.82 0.00 0.18
Matches are distributed among these distances:
69 13 0.09
71 14 0.09
72 1 0.01
73 31 0.21
74 10 0.07
82 18 0.12
83 21 0.14
84 29 0.20
86 11 0.07
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (83 bp):
TTTTCAATTCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACACGCT
GAGGATTTTCAATTTCTG
Found at i:112035825 original size:69 final size:71
Alignment explanation
Indices: 112035660--112035852 Score: 276
Period size: 73 Copynumber: 2.8 Consensus size: 71
112035650 TTCAATTTCT
*
112035660 GTTTTCAATTACT--TTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCAC
1 GTTTTCAATTTCTGCTTTCAAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GTCAC
112035723 ACGCTGAG
64 ACGCTGAG
112035731 GTTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-C-C-TCACA
1 GTTTTCAATTTCTGC-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGTCACA
112035793 CGCTGAG
65 CGCTGAG
112035800 GCATTTTCAATTTCTGCTTTC-AAAAATCAACT--TATTGCGAGAGGTGAGTTGAG
1 G--TTTTCAATTTCTGCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
112035853 TCCGGCCACA
Statistics
Matches: 116, Mismatches: 1, Indels: 14
0.89 0.01 0.11
Matches are distributed among these distances:
67 21 0.18
69 24 0.21
70 4 0.03
71 27 0.23
72 1 0.01
73 31 0.27
74 8 0.07
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (71 bp):
GTTTTCAATTTCTGCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGTCACAC
GCTGAG
Found at i:112035877 original size:70 final size:70
Alignment explanation
Indices: 112035661--112035885 Score: 275
Period size: 73 Copynumber: 3.2 Consensus size: 70
112035651 TCAATTTCTG
* *
112035661 TTTTCAATTACT--TTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACA
1 TTTTCAATTTCTGCTTTC-AAAAAATCAACT-ATATTGCGAGAGGTGAGTTGAG-C-CGGTCACA
112035724 CGCTGAGG-
62 CGCTGAGGC
112035732 TTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC--TCACACG
1 TTTTCAATTTCTGC-TTTCAAAAAATCAACT-ATATTGCGAGAGGTGAGTTGAGCCGGTCACACG
112035795 CTGAGGC
64 CTGAGGC
* *
112035802 ATTTTCAATTTCTGCTTTC-AAAAATCAACT-TATTGCGAGAGGTGAGTTGAGTCCGGCCACACA
1 -TTTTCAATTTCTGCTTTCAAAAAATCAACTATATTGCGAGAGGTGAGTTGAG-CCGGTCACACG
112035865 CTGAGGTC
64 CTGAGG-C
*
112035873 TTTTCAAATTCTG
1 TTTTCAATTTCTG
112035886 TTTTTAATTT
Statistics
Matches: 140, Mismatches: 5, Indels: 19
0.85 0.03 0.12
Matches are distributed among these distances:
67 21 0.15
68 2 0.01
69 24 0.17
70 27 0.19
71 27 0.19
72 1 0.01
73 34 0.24
74 4 0.03
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (70 bp):
TTTTCAATTTCTGCTTTCAAAAAATCAACTATATTGCGAGAGGTGAGTTGAGCCGGTCACACGCT
GAGGC
Found at i:112035897 original size:13 final size:14
Alignment explanation
Indices: 112035872--112035909 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
112035862 ACACTGAGGT
*
112035872 CTTTTCAAATTCTG
1 CTTTTCAATTTCTG
*
112035886 -TTTTTAATTTCTG
1 CTTTTCAATTTCTG
112035899 CTTTTCAATTT
1 CTTTTCAATTT
112035910 AATTTTTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.18, C:0.16, G:0.05, T:0.61
Consensus pattern (14 bp):
CTTTTCAATTTCTG
Found at i:112035924 original size:14 final size:15
Alignment explanation
Indices: 112035900--112035931 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
112035890 TAATTTCTGC
112035900 TTTTCAATTTA-ATT
1 TTTTCAATTTATATT
112035914 TTTTCAATTTATATT
1 TTTTCAATTTATATT
112035929 TTT
1 TTT
112035932 CAAAATCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTCAATTTATATT
Found at i:112036122 original size:14 final size:14
Alignment explanation
Indices: 112036089--112036123 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
112036079 ACGCTGAGGT
*
112036089 CTTTTCCATTTCTG
1 CTTTTCAATTTCTG
112036103 -TTTTCAATTTCTG
1 CTTTTCAATTTCTG
112036116 CTTTTCAA
1 CTTTTCAA
112036124 AAAATCAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.14, C:0.23, G:0.06, T:0.57
Consensus pattern (14 bp):
CTTTTCAATTTCTG
Found at i:112036207 original size:13 final size:14
Alignment explanation
Indices: 112036179--112036227 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
112036169 AGCTGAGGTC
112036179 TTTCAA-TTCTG-T
1 TTTCAATTTCTGCT
*
112036191 TTTTAATTTCTGCT
1 TTTCAATTTCTGCT
**
112036205 TTTCAATTTCTATT
1 TTTCAATTTCTGCT
112036219 TTTCAATTT
1 TTTCAATTT
112036228 ATATTTTTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
12 5 0.16
13 5 0.16
14 21 0.68
ACGTcount: A:0.18, C:0.14, G:0.04, T:0.63
Consensus pattern (14 bp):
TTTCAATTTCTGCT
Found at i:112036232 original size:14 final size:14
Alignment explanation
Indices: 112036204--112036238 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
112036194 TAATTTCTGC
*
112036204 TTTTCAATTTCTAT
1 TTTTCAATTTATAT
112036218 TTTTCAATTTATAT
1 TTTTCAATTTATAT
112036232 TTTTCAA
1 TTTTCAA
112036239 AATCAACTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTATAT
Found at i:112036235 original size:28 final size:26
Alignment explanation
Indices: 112036179--112036238 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
112036169 AGCTGAGGTC
* * *
112036179 TTTCAATTCTGTTTTTAATTTCTGCT
1 TTTCAATTCTATTTTTAATTTATACT
*
112036205 TTTCAATTTCTATTTTTCAATTTATATT
1 TTTCAA-TTCTATTTTT-AATTTATACT
112036233 TTTCAA
1 TTTCAA
112036239 AATCAACTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.21
27 9 0.32
28 13 0.46
ACGTcount: A:0.22, C:0.13, G:0.03, T:0.62
Consensus pattern (26 bp):
TTTCAATTCTATTTTTAATTTATACT
Found at i:112037128 original size:30 final size:30
Alignment explanation
Indices: 112037097--112037196 Score: 130
Period size: 30 Copynumber: 3.3 Consensus size: 30
112037087 CTTAGCTTTT
*
112037097 TCCACCACCAACTCCACTAGCCACACCTT-T
1 TCCACCACCAACTCCACTAGCCACA-CTTGC
*
112037127 TCCACCACCAAATCCACTAGCCACACTTGC
1 TCCACCACCAACTCCACTAGCCACACTTGC
** * *
112037157 TCCATTACCTACTCCACTAACCACACTTGC
1 TCCACCACCAACTCCACTAGCCACACTTGC
112037187 TCCACCACCA
1 TCCACCACCA
112037197 CTTGTACCTA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 3 0.05
30 56 0.95
ACGTcount: A:0.28, C:0.48, G:0.04, T:0.20
Consensus pattern (30 bp):
TCCACCACCAACTCCACTAGCCACACTTGC
Found at i:112037805 original size:29 final size:27
Alignment explanation
Indices: 112037772--112037845 Score: 78
Period size: 29 Copynumber: 2.7 Consensus size: 27
112037762 TATATATTAC
*
112037772 TATTTATGTATATATCTTTAATATTATAT
1 TATTTATGTATATATCTTT-ATA-CATAT
* * *
112037801 TATTTATATATATAT-TTTTTACATGT
1 TATTTATGTATATATCTTTATACATAT
112037827 TATCTTATGTATATATCTT
1 TAT-TTATGTATATATCTT
112037846 AACTTTATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
26 6 0.16
27 13 0.34
28 5 0.13
29 14 0.37
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.59
Consensus pattern (27 bp):
TATTTATGTATATATCTTTATACATAT
Found at i:112038071 original size:16 final size:15
Alignment explanation
Indices: 112038047--112038094 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
112038037 TAATTATTAT
*
112038047 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
112038063 TATTTTAATATTTTA
1 TATTTTAATATTTTA
112038078 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
112038094 T
1 T
112038095 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:112038082 original size:7 final size:8
Alignment explanation
Indices: 112038047--112038098 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
112038037 TAATTATTAT
*
112038047 TATTCTAA
1 TATTTTAA
*
112038055 TATTTTGA
1 TATTTTAA
112038063 TATTTTAA
1 TATTTTAA
112038071 TATTTT-A
1 TATTTTAA
112038078 TATTTTATA
1 TATTTTA-A
*
112038087 TATTTTAT
1 TATTTTAA
112038095 TATT
1 TATT
112038099 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:112050666 original size:26 final size:24
Alignment explanation
Indices: 112050634--112050692 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 24
112050624 CTAAGAATAT
* *
112050634 ATATATATACAATATAGTATTTAAAA
1 ATATATACACAAGATAGTA--TAAAA
*
112050660 ATATATACATAAGATAGTATAAAA
1 ATATATACACAAGATAGTATAAAA
*
112050684 ATATGTACA
1 ATATATACA
112050693 TGGAAATGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 13 0.45
26 16 0.55
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (24 bp):
ATATATACACAAGATAGTATAAAA
Found at i:112050939 original size:22 final size:24
Alignment explanation
Indices: 112050857--112050939 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 24
112050847 TAGTATTAGA
112050857 AATAATATAGTATAAAGATATATA-ACT
1 AATAATATA-TAT-AA-ATATATACA-T
*
112050884 GATAATAT-TA-AAATATATACAT
1 AATAATATATATAAATATATACAT
* *
112050906 AATATTATATATAAAT-TATTCAT
1 AATAATATATATAAATATATACAT
112050929 -ATAATATATAT
1 AATAATATATAT
112050940 TAAAAAATTG
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
22 24 0.50
23 11 0.23
24 4 0.08
25 2 0.04
27 7 0.15
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (24 bp):
AATAATATATATAAATATATACAT
Found at i:112051235 original size:3 final size:3
Alignment explanation
Indices: 112051227--112051293 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
112051217 ACTAATGTAC
112051227 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
112051275 AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
112051294 TTGAAATACA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:112051241 original size:101 final size:99
Alignment explanation
Indices: 112051058--112051251 Score: 241
Period size: 101 Copynumber: 1.9 Consensus size: 99
112051048 AATAAAATGA
* * * *
112051058 TATTAAAATAAAGTCATTAAAAACAATAATATATATATATACATCTAATAAGAATATATAGTAAT
1 TATTAAAATAAAGTCAATAAAAACAATAACATATATATATACATC-AATAAGAATATACACTAAT
* *
112051123 GTTAATGATAATAATAATAATAATAATATTATTAT
65 GTCAATAATAATAATAATAATAATAATATTATTAT
* *
112051158 TATTAAAATAAAGT-AATAAAAATATTACTACATATATATATACAT-ACATGAAG-ATATACACT
1 TATTAAAATAAAGTCAATAAAAACAATA--ACATATATATATACATCA-AT-AAGAATATACACT
112051220 AATGTACAATAATAATAATAATAATAATAATA
62 AATGT-CAATAATAATAATAATAATAATAATA
112051252 ATAATAATAA
Statistics
Matches: 81, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
99 11 0.14
100 28 0.35
101 42 0.52
ACGTcount: A:0.55, C:0.06, G:0.05, T:0.35
Consensus pattern (99 bp):
TATTAAAATAAAGTCAATAAAAACAATAACATATATATATACATCAATAAGAATATACACTAATG
TCAATAATAATAATAATAATAATAATATTATTAT
Found at i:112051748 original size:11 final size:12
Alignment explanation
Indices: 112051734--112051769 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
112051724 AAGAAAAAAA
112051734 GAAGAGAG-AGG
1 GAAGAGAGAAGG
112051745 GAAGAGAGAAGG
1 GAAGAGAGAAGG
112051757 G-AGAGAGAAGG
1 GAAGAGAGAAGG
112051768 GA
1 GA
112051770 GGGGGAAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:112051887 original size:13 final size:13
Alignment explanation
Indices: 112051842--112051892 Score: 54
Period size: 12 Copynumber: 4.0 Consensus size: 13
112051832 GGGGCCGGTA
112051842 ATTTTTTT-TTAAT
1 ATTTTTTTATT-AT
112051855 ATTTGTTTTA-TAT
1 ATTT-TTTTATTAT
*
112051868 ATATTTTTATTAT
1 ATTTTTTTATTAT
112051881 A-TTTTTTATTAT
1 ATTTTTTTATTAT
112051893 GATGTATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 15 0.45
13 13 0.39
14 5 0.15
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (13 bp):
ATTTTTTTATTAT
Found at i:112051965 original size:17 final size:17
Alignment explanation
Indices: 112051945--112051983 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
112051935 AAATAAAATA
*
112051945 AAAATAA-AAATAAGAGT
1 AAAATAATAAAGAAGA-T
112051962 AAAATAATAAAGAAGAT
1 AAAATAATAAAGAAGAT
112051979 AAAAT
1 AAAAT
112051984 CACCTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAATAATAAAGAAGAT
Found at i:112055435 original size:16 final size:16
Alignment explanation
Indices: 112055414--112055481 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
112055404 TTTGGTTCGC
112055414 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
112055430 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
*
112055446 TGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
112055462 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
112055478 TGTA
1 TGTA
112055482 ATAGCAAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:112055734 original size:16 final size:16
Alignment explanation
Indices: 112055710--112055751 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
112055700 AACATAATTA
112055710 TTATT-AAATA-TATT
1 TTATTAAAATATTATT
112055724 TTAATTAAAATATTTATT
1 TT-ATTAAAATA-TTATT
112055742 TTATTAAAAT
1 TTATTAAAAT
112055752 TCTTAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.08
15 3 0.12
16 5 0.21
17 8 0.33
18 6 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATTAAAATATTATT
Found at i:112055913 original size:120 final size:120
Alignment explanation
Indices: 112055700--112056082 Score: 721
Period size: 120 Copynumber: 3.2 Consensus size: 120
112055690 ATCATATTTA
* * * *
112055700 AACATAATTATTATTAAATATATTTTAATTAAAATATTTATTTTATTAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
*
112055765 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
112055820 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
112055885 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
112055940 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
112056005 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
112056060 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
112056083 AACTTGAAAA
Statistics
Matches: 258, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 258 1.00
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:112068473 original size:24 final size:24
Alignment explanation
Indices: 112068441--112068489 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
112068431 AGAACAAAAA
112068441 AAAAAGGAGACCAAAAGAGAGCGT
1 AAAAAGGAGACCAAAAGAGAGCGT
112068465 AAAAAGGAGACCAAAAGAGAGCGT
1 AAAAAGGAGACCAAAAGAGAGCGT
112068489 A
1 A
112068490 TTTTATTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.55, C:0.12, G:0.29, T:0.04
Consensus pattern (24 bp):
AAAAAGGAGACCAAAAGAGAGCGT
Found at i:112071475 original size:3 final size:3
Alignment explanation
Indices: 112071467--112071496 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
112071457 CTACTTTAAT
112071467 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
112071497 CTTCTAATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:112071732 original size:23 final size:21
Alignment explanation
Indices: 112071674--112071738 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
112071664 ATATTGTGTT
* * *
112071674 TATATTTTAATACTACGCTATA
1 TATATTTTTATATTATG-TATA
*
112071696 TATATTTTTGTATTATGTATA
1 TATATTTTTATATTATGTATA
*
112071717 TATATTTTTA-AATAT-TATA
1 TATATTTTTATATTATGTATA
112071736 TAT
1 TAT
112071739 TGAGTATTTC
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
19 7 0.19
20 4 0.11
21 13 0.35
22 13 0.35
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (21 bp):
TATATTTTTATATTATGTATA
Found at i:112084737 original size:74 final size:74
Alignment explanation
Indices: 112084471--112084879 Score: 472
Period size: 74 Copynumber: 5.5 Consensus size: 74
112084461 CTACGGTTCA
* * *
112084471 AAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTTGACTGACACGTTGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-AGACACGTTGAGGTATTTTCAAT
*
112084536 TTCTGCCTTTC
64 TTCTGTCTTTC
* * *
112084547 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
1 -AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAAT
112084612 TTCTG--TTTC
64 TTCTGTCTTTC
* * * * * *
112084621 -AAAATTCAATTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCGATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
112084685 CTGTCTTTC
66 CTGTCTTTC
* * * *
112084694 AAAAAATTAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
112084759 CTGTCTTTC
66 CTGTCTTTC
* * *
112084768 AAAATTATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC-TCTGAGGTAATTTT-GA
1 AAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT-TGAGGT-ATTTTCAA
* **
112084831 TCTCCAT-TTTC
63 TTTCTGTCTTTC
* * *
112084842 -GAAAATCAACTCATATTGCGAGAGATGAGTGGAGCCTC
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
112084880 GGATCACATG
Statistics
Matches: 287, Mismatches: 38, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
71 54 0.19
72 36 0.13
73 6 0.02
74 75 0.26
75 49 0.17
76 29 0.10
77 8 0.03
78 30 0.10
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (74 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
CTGTCTTTC
Found at i:112084742 original size:145 final size:148
Alignment explanation
Indices: 112084467--112084879 Score: 525
Period size: 149 Copynumber: 2.8 Consensus size: 148
112084457 ATTTCTACGG
** * * *
112084467 TTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTTGACTGACACGTTGAGGTATTTT
1 TTCAAAATTATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-AGACACGTTGAGGTATTTT
* * *
112084532 CAATTTCTGCCTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
64 CGATTTCTGTCTTTC-AAAAAATT-AACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGC
112084597 TGAGGTAATTTCAATTTCTG-T
127 TGAGGTAATTTCAATTTCTGCT
* * * *
112084618 TTCAAAA-T-TCAATTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCG
1 TTCAAAATTATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCG
*
112084681 ATTTCTGTCTTTCAAAAAATTAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACGCTGAG
66 ATTTCTGTCTTTCAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAG
112084746 GTAATTTCAATTTCTGTCT
131 GTAATTTCAATTTCTG-CT
*
112084765 TTCAAAATTATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC-TCTGAGGTAATTTT
1 TTCAAAATTATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT-TGAGGT-ATTTT
* ** * * * *
112084829 -GATCTCCAT-TTTC-GAAAATCAACTCATATTGCGAGAGATGAGTGGAGCCTC
64 CGATTTCTGTCTTTCAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC
112084880 GGATCACATG
Statistics
Matches: 231, Mismatches: 25, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
145 58 0.25
146 8 0.03
147 72 0.31
148 8 0.03
149 73 0.32
150 5 0.02
151 7 0.03
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (148 bp):
TTCAAAATTATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCG
ATTTCTGTCTTTCAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAG
GTAATTTCAATTTCTGCT
Found at i:112085744 original size:3 final size:3
Alignment explanation
Indices: 112085736--112085780 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
112085726 CTACTTTAAT
112085736 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
112085781 CTTCTAATGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:112086015 original size:23 final size:21
Alignment explanation
Indices: 112085957--112086021 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
112085947 ATATTGTGTT
* * *
112085957 TATATTTTAATACTACGCTATA
1 TATATTTTTATATTATG-TATA
*
112085979 TATATTTTTGTATTATGTATA
1 TATATTTTTATATTATGTATA
*
112086000 TATATTTTTA-AATAT-TATA
1 TATATTTTTATATTATGTATA
112086019 TAT
1 TAT
112086022 TAAGTATTTC
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
19 7 0.19
20 4 0.11
21 13 0.35
22 13 0.35
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (21 bp):
TATATTTTTATATTATGTATA
Found at i:112093646 original size:26 final size:25
Alignment explanation
Indices: 112093610--112093693 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 25
112093600 CATGAAATTC
112093610 TTATCATGAAACATTTACCTAACTCA
1 TTATCATGAAACATTTACCTAAC-CA
112093636 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAA-CCA
*
112093662 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACC-A
112093688 TTATCA
1 TTATCA
112093694 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
25 2 0.04
26 52 0.95
27 1 0.02
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (25 bp):
TTATCATGAAACATTTACCTAACCA
Found at i:112094525 original size:129 final size:128
Alignment explanation
Indices: 112094244--112094572 Score: 396
Period size: 129 Copynumber: 2.6 Consensus size: 128
112094234 AACAAAAAAC
* * * * * *
112094244 CGAAATCCAGCACGATAGAGCACGATTCCTCGAACTTCCAAACATTGAACATTGCCTTG-CTTAG
1 CGAAACCCAGCACGATAGGGCACGATTCCCCGAATTTCTAAACATTGAACATTGCCTTGTTTTAG
* *
112094308 GAATTTATAAAACACGAGTGAAATACTAAAAGAACATTCAATTATTTGGAAGAAACCAGAAAT
66 GAATTTAGAAAACACGAGTGAAATACTAAAAGAACATTCAATTATTTGGAACAAACCAGAAAT
112094371 CGAAACCCAGCACGATAGGGCACGATTCCCCGAATTTCTAAACATTGAACATTGCCTTGTTTTA-
1 CGAAACCCAGCACGATAGGGCACGATTCCCCGAATTTCTAAACATTGAACATTGCCTTGTTTTAG
* * * * * * **
112094435 GATTTTGGGAAAACACGAGTGAAATTCT-AAAGAAATATTCGATTTATTTTGAACAAACGGGAAA
66 GAATTT-AGAAAACACGAGTGAAATACTAAAAG-AACATTC-AATTATTTGGAACAAACCAGAAA
112094499 T
128 T
* * **
112094500 CGAAACCCAGCACGGTAGGGCACGATTTCCCGAATTT-TCAAACATCAAACATTGCCTTCGTTTT
1 CGAAACCCAGCACGATAGGGCACGATTCCCCGAATTTCT-AAACATTGAACATTGCCTT-GTTTT
112094564 AAGGAATTT
64 -AGGAATTT
112094573 TCAGACGAAT
Statistics
Matches: 173, Mismatches: 21, Indels: 11
0.84 0.10 0.05
Matches are distributed among these distances:
127 63 0.36
128 28 0.16
129 71 0.41
130 5 0.03
131 1 0.01
132 5 0.03
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.26
Consensus pattern (128 bp):
CGAAACCCAGCACGATAGGGCACGATTCCCCGAATTTCTAAACATTGAACATTGCCTTGTTTTAG
GAATTTAGAAAACACGAGTGAAATACTAAAAGAACATTCAATTATTTGGAACAAACCAGAAAT
Found at i:112095674 original size:31 final size:31
Alignment explanation
Indices: 112095613--112095675 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
112095603 AGGAAATACT
* *
112095613 TATACATATAATAGATTAAAAAACATATATA
1 TATACATATAATAAATTAAAAAACAAATATA
112095644 TATACATA-AATAAATTTAGAAAAA-AAATATA
1 TATACATATAATAAA-TTA-AAAAACAAATATA
112095675 T
1 T
112095676 GCGAGAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 5 0.18
31 18 0.64
32 5 0.18
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (31 bp):
TATACATATAATAAATTAAAAAACAAATATA
Found at i:112101606 original size:434 final size:434
Alignment explanation
Indices: 112100798--112101664 Score: 1689
Period size: 434 Copynumber: 2.0 Consensus size: 434
112100788 TTATCATCAG
112100798 TATTCTGATCTTGTTTCTCACGAACAATGAGACCCTCTACCTGAGAGTCGGATTTAACTACAAGA
1 TATTCTGATCTTGTTTCTCACGAACAATGAGACCCTCTACCTGAGAGTCGGATTTAACTACAAGA
112100863 TGTTTCATCTTATCATACGAGGTTAAAGAATTATAAACCTCATCAACTGTGAGAGACTCGCTGCT
66 TGTTTCATCTTATCATACGAGGTTAAAGAATTATAAACCTCATCAACTGTGAGAGACTCGCTGCT
* *
112100928 ATATAGAATTGTGTCTCTAAAGATTGAATAAGACGGGGGCAACAAACAAAGTAAAATAAACCCTA
131 ATATAAAATTGTGTCTCTAAAGATTGAATAAGACGGGGACAACAAACAAAGTAAAATAAACCCTA
112100993 AATTTTCCTTATCATACTGAACCTCCATGGCCTCCAAGTTTGTGAGAATTTCTTTAAACATTGTT
196 AATTTTCCTTATCATACTGAACCTCCATGGCCTCCAAGTTTGTGAGAATTTCTTTAAACATTGTT
*
112101058 AAGTGTTTGTGTACAGACGCACCTTCCTCCAAACGATGACCATAAAGACACTGCTTCATAATGCA
261 AAGTGTTTGTGTACAGACGCACCTTCCTCCAAACGATGAACATAAAGACACTGCTTCATAATGCA
112101123 ACTTGCTTGTTAGAGACATACATATTTGTTCTAGCCTCTTCCATAATGCAGCGGCTGTAGTCAAC
326 ACTTGCTTGTTAGAGACATACATATTTGTTCTAGCCTCTTCCATAATGCAGCGGCTGTAGTCAAC
112101188 CAATTTTGCCCGAGCCCGTTTTATTTATTTGCAAATAAGTAAAA
391 CAATTTTGCCCGAGCCCGTTTTATTTATTTGCAAATAAGTAAAA
*
112101232 TATTCTGATCTTGTTTCTCACGAACAATGAGACCTTCTACCTGAGAGTCGGATTTAACTACAAGA
1 TATTCTGATCTTGTTTCTCACGAACAATGAGACCCTCTACCTGAGAGTCGGATTTAACTACAAGA
112101297 TGTTTCATCTTATCATACGAGGTTAAAGAATTATAAACCTCATCAACTGTGAGAGACTCGCTGCT
66 TGTTTCATCTTATCATACGAGGTTAAAGAATTATAAACCTCATCAACTGTGAGAGACTCGCTGCT
*
112101362 ATATAAAATTGTGTCTCTAAAGATTGAATAAGACGGGGACAACGAACAAAGTAAAATAAACCCTA
131 ATATAAAATTGTGTCTCTAAAGATTGAATAAGACGGGGACAACAAACAAAGTAAAATAAACCCTA
112101427 AATTTTCCTTATCATACTGAACCTCCATGGCCTCCAAGTTTGTGAGAATTTCTTTAAACATTGTT
196 AATTTTCCTTATCATACTGAACCTCCATGGCCTCCAAGTTTGTGAGAATTTCTTTAAACATTGTT
112101492 AAGTGTTTGTGTACAGACGCACCTTCCTCCAAACGATGAACATAAAGACACTGCTTCATAATGCA
261 AAGTGTTTGTGTACAGACGCACCTTCCTCCAAACGATGAACATAAAGACACTGCTTCATAATGCA
112101557 ACTTGCTTGTTAGAGACATACATATTTGTTCTAGCCTCTTCCATAATGCAGCGGCTGTAGTCAAC
326 ACTTGCTTGTTAGAGACATACATATTTGTTCTAGCCTCTTCCATAATGCAGCGGCTGTAGTCAAC
112101622 CAATTTTGCCCGAGCCCGTTTTATTTATTTGCAAATAAGTAAA
391 CAATTTTGCCCGAGCCCGTTTTATTTATTTGCAAATAAGTAAA
112101665 CCCAAATAAA
Statistics
Matches: 428, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
434 428 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (434 bp):
TATTCTGATCTTGTTTCTCACGAACAATGAGACCCTCTACCTGAGAGTCGGATTTAACTACAAGA
TGTTTCATCTTATCATACGAGGTTAAAGAATTATAAACCTCATCAACTGTGAGAGACTCGCTGCT
ATATAAAATTGTGTCTCTAAAGATTGAATAAGACGGGGACAACAAACAAAGTAAAATAAACCCTA
AATTTTCCTTATCATACTGAACCTCCATGGCCTCCAAGTTTGTGAGAATTTCTTTAAACATTGTT
AAGTGTTTGTGTACAGACGCACCTTCCTCCAAACGATGAACATAAAGACACTGCTTCATAATGCA
ACTTGCTTGTTAGAGACATACATATTTGTTCTAGCCTCTTCCATAATGCAGCGGCTGTAGTCAAC
CAATTTTGCCCGAGCCCGTTTTATTTATTTGCAAATAAGTAAAA
Found at i:112104161 original size:19 final size:18
Alignment explanation
Indices: 112104128--112104163 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
112104118 GTCATGTTAA
112104128 TTATTGTTGTATATCATT
1 TTATTGTTGTATATCATT
*
112104146 TTATTGATTGTTTATCAT
1 TTATTG-TTGTATATCAT
112104164 CCATGGTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.22, C:0.06, G:0.11, T:0.61
Consensus pattern (18 bp):
TTATTGTTGTATATCATT
Found at i:112108210 original size:10 final size:10
Alignment explanation
Indices: 112108158--112108321 Score: 56
Period size: 10 Copynumber: 16.4 Consensus size: 10
112108148 AAAAAATATG
112108158 AAAATTTATA
1 AAAATTTATA
* *
112108168 TAAATTTTTAA
1 AAAATTTAT-A
112108179 AAGAACTTTA-A
1 AA-AA-TTTATA
* *
112108190 AAAAATCATA
1 AAAATTTATA
112108200 AAAATTTAT-
1 AAAATTTATA
*
112108209 -AAATGTAATA
1 AAAAT-TTATA
112108219 AAACATATT-TA
1 AAA-AT-TTATA
112108230 AAAATTTATA
1 AAAATTTATA
** *
112108240 AAAACATATT
1 AAAATTTATA
112108250 AAAATTCTATA
1 AAAATT-TATA
*
112108261 AAAA-TCAT-
1 AAAATTTATA
*
112108269 AAAA-TAATAA
1 AAAATTTAT-A
* *
112108279 AAAATATATT
1 AAAATTTATA
* *
112108289 GAAATTGATA
1 AAAATTTATA
* *
112108299 TAAACTTATA
1 AAAATTTATA
112108309 AAAA-TTATA
1 AAAATTTATA
112108318 AAAA
1 AAAA
112108322 AAATATATAA
Statistics
Matches: 111, Mismatches: 30, Indels: 27
0.66 0.18 0.16
Matches are distributed among these distances:
8 11 0.10
9 18 0.16
10 53 0.48
11 21 0.19
12 5 0.05
13 3 0.03
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (10 bp):
AAAATTTATA
Found at i:112108234 original size:22 final size:22
Alignment explanation
Indices: 112108203--112108253 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
112108193 AATCATAAAA
*
112108203 ATTTATAAATGTAAT-AAAACAT
1 ATTTAAAAAT-TAATAAAAACAT
*
112108225 ATTTAAAAATTTATAAAAACAT
1 ATTTAAAAATTAATAAAAACAT
112108247 A-TTAAAA
1 ATTTAAAA
112108254 TTCTATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (22 bp):
ATTTAAAAATTAATAAAAACAT
Found at i:112108242 original size:21 final size:20
Alignment explanation
Indices: 112108216--112108263 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 20
112108206 TATAAATGTA
112108216 ATAAAACATATTTAAAAATT-T
1 ATAAAACATA-TT-AAAATTCT
112108237 ATAAAAACATATTAAAATTCT
1 AT-AAAACATATTAAAATTCT
112108258 ATAAAA
1 ATAAAA
112108264 ATCATAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 10 0.40
21 7 0.28
22 8 0.32
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAAAACATATTAAAATTCT
Found at i:112108264 original size:22 final size:22
Alignment explanation
Indices: 112108218--112108269 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
112108208 TAAATGTAAT
112108218 AAAACATATTTAAAAATTTATA
1 AAAACATATTTAAAAATTTATA
112108240 AAAACATA-TT-AAAATTCTATA
1 AAAACATATTTAAAAATT-TATA
112108261 AAAATCATA
1 AAAA-CATA
112108270 AAATAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.21
21 10 0.36
22 12 0.43
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAACATATTTAAAAATTTATA
Found at i:112108893 original size:19 final size:17
Alignment explanation
Indices: 112108834--112108944 Score: 84
Period size: 19 Copynumber: 6.2 Consensus size: 17
112108824 TTTTAAATAC
*
112108834 TTTTTTAAAATTTTTATA
1 TTTTTTATAA-TTTTATA
*
112108852 TTTTATTAGAATTTT-TA
1 TTTT-TTATAATTTTATA
112108869 TATTTTTATAATTTCTATA
1 T-TTTTTATAATTT-TATA
112108888 TGTTTTTATAATTTTAATAA
1 T-TTTTTATAATTTT-AT-A
* *
112108908 GTTTATATCAATTTTAATA
1 TTTTTTAT-AATTTT-ATA
112108927 TTTTTT-T-ATTTTATA
1 TTTTTTATAATTTTATA
112108942 TTT
1 TTT
112108945 CTTGTGATTT
Statistics
Matches: 79, Mismatches: 7, Indels: 17
0.77 0.07 0.17
Matches are distributed among these distances:
15 6 0.08
16 5 0.06
17 11 0.14
18 14 0.18
19 33 0.42
20 10 0.13
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (17 bp):
TTTTTTATAATTTTATA
Found at i:112108913 original size:36 final size:36
Alignment explanation
Indices: 112108837--112108914 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 36
112108827 TAAATACTTT
* * * **
112108837 TTTAAAATTTTTATATTTTATTAGAATTTTTATATT
1 TTTATAATTTCTATATTTTATTAGAATTTTAATAAG
*
112108873 TTTATAATTTCTATATGTTT-TTATAATTTTAATAAG
1 TTTATAATTTCTATAT-TTTATTAGAATTTTAATAAG
112108909 TTTATA
1 TTTATA
112108915 TCAATTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
36 32 0.91
37 3 0.09
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (36 bp):
TTTATAATTTCTATATTTTATTAGAATTTTAATAAG
Found at i:112121799 original size:58 final size:58
Alignment explanation
Indices: 112121700--112121816 Score: 137
Period size: 57 Copynumber: 2.0 Consensus size: 58
112121690 TTAATAGGCA
* * * * *
112121700 AAAATGGAGAAATGGGAAACATTTGGAGATGATTATGGTTTTTTTCCAAAATAAAAATG
1 AAAATGGAGAAATGAGAAACATTTGGAAATGAATATAG-TTTTCTCCAAAATAAAAATG
* * * *
112121759 AAAATGGAGAAAT-AGAATCATTTGGAAATTAATATAGTTTTCTCCTAAATGAAAATG
1 AAAATGGAGAAATGAGAAACATTTGGAAATGAATATAGTTTTCTCCAAAATAAAAATG
112121816 A
1 A
112121817 CCTGAGAATG
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
57 18 0.37
58 18 0.37
59 13 0.27
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (58 bp):
AAAATGGAGAAATGAGAAACATTTGGAAATGAATATAGTTTTCTCCAAAATAAAAATG
Found at i:112129504 original size:16 final size:17
Alignment explanation
Indices: 112129471--112129504 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
112129461 ATCATTATTT
*
112129471 ATTAGATTACTTTGAAA
1 ATTAGATTACTTTAAAA
112129488 ATTA-ATTACTTTAAAA
1 ATTAGATTACTTTAAAA
112129504 A
1 A
112129505 CAAAAATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (17 bp):
ATTAGATTACTTTAAAA
Found at i:112130149 original size:25 final size:20
Alignment explanation
Indices: 112130099--112130137 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
112130089 AGCTTTTTCA
112130099 TTATAAGAAAAGAAAAAAAT
1 TTATAAGAAAAGAAAAAAAT
112130119 TTATAAGAAAAGAAAAAAA
1 TTATAAGAAAAGAAAAAAA
112130138 ATTAGAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (20 bp):
TTATAAGAAAAGAAAAAAAT
Found at i:112144202 original size:10 final size:10
Alignment explanation
Indices: 112144183--112144232 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
112144173 TTAAAATTTA
112144183 AAAGATAAAT
1 AAAGATAAAT
112144193 ACAA-ATAAAT
1 A-AAGATAAAT
*
112144203 AAAGATAATT
1 AAAGATAAAT
112144213 AAAGATAAAT
1 AAAGATAAAT
*
112144223 AAAAATAAAT
1 AAAGATAAAT
112144233 CCTAAATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:112145037 original size:95 final size:96
Alignment explanation
Indices: 112144867--112145049 Score: 278
Period size: 95 Copynumber: 1.9 Consensus size: 96
112144857 ATTTAATTTA
* ** *
112144867 TTTATTTTAACTTAAGAATATATTGAACCTTTTGACGCGAAGAGATATGACAGCCAAGCACCCCA
1 TTTATTTTAACTTAAGAACATATCAAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
*
112144932 CCTCGATTACTCAACCCAACATACTCCTAAT
66 CCCCGATTACTCAACCCAACATACTCCTAAT
* *
112144963 TTTATTTT-TCTTAAGAACATATCAAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCTCA
1 TTTATTTTAACTTAAGAACATATCAAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
* *
112145027 CCCCGGTTACTCAGCCCAACATA
66 CCCCGATTACTCAACCCAACATA
112145050 TTCTTAAAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
95 70 0.90
96 8 0.10
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (96 bp):
TTTATTTTAACTTAAGAACATATCAAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
CCCCGATTACTCAACCCAACATACTCCTAAT
Found at i:112146252 original size:5 final size:5
Alignment explanation
Indices: 112146244--112146294 Score: 63
Period size: 5 Copynumber: 10.4 Consensus size: 5
112146234 ATGAATAAAT
112146244 AATAA AAT-A AATAA AAT-A AATAA AATAA AATAAA AATAA AGA-AA AATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AAT-AA AATAA A-ATAA AATAA
112146293 AA
1 AA
112146295 ATTGGGTTGC
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
4 9 0.22
5 26 0.63
6 6 0.15
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:112146258 original size:9 final size:9
Alignment explanation
Indices: 112146240--112146293 Score: 65
Period size: 9 Copynumber: 5.8 Consensus size: 9
112146230 AGTAATGAAT
112146240 AAAT-AATA
1 AAATAAATA
112146248 AAATAAATA
1 AAATAAATA
112146257 AAATAAATA
1 AAATAAATA
112146266 AAATAAAATAA
1 AAAT-AAAT-A
*
112146277 AAATAAAGAA
1 AAATAAA-TA
112146287 AAATAAA
1 AAATAAA
112146294 AATTGGGTTG
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
8 4 0.10
9 17 0.41
10 15 0.37
11 5 0.12
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.19
Consensus pattern (9 bp):
AAATAAATA
Found at i:112146263 original size:14 final size:14
Alignment explanation
Indices: 112146244--112146294 Score: 59
Period size: 14 Copynumber: 3.5 Consensus size: 14
112146234 ATGAATAAAT
112146244 AATAAAATAAATAA
1 AATAAAATAAATAA
112146258 AAT-AAATAAAATAA
1 AATAAAAT-AAATAA
*
112146272 AATAAAAATAAAGAAA
1 AAT-AAAATAAA-TAA
112146288 AATAAAA
1 AATAAAA
112146295 ATTGGGTTGC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
13 4 0.12
14 12 0.38
15 7 0.22
16 9 0.28
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (14 bp):
AATAAAATAAATAA
Found at i:112146294 original size:16 final size:16
Alignment explanation
Indices: 112146237--112146296 Score: 68
Period size: 16 Copynumber: 3.6 Consensus size: 16
112146227 TAAAGTAATG
112146237 AATAAATAATAAAATAA
1 AATAAA-AATAAAATAA
*
112146254 ATAAAATAAATAAAATAA
1 A-ATAA-AAATAAAATAA
112146272 AATAAAAATAAAGA-AA
1 AATAAAAATAAA-ATAA
112146288 AATAAAAAT
1 AATAAAAAT
112146297 TGGGTTGCCT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
16 18 0.47
17 5 0.13
18 14 0.37
19 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (16 bp):
AATAAAAATAAAATAA
Found at i:112149275 original size:17 final size:18
Alignment explanation
Indices: 112149255--112149288 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
112149245 AGTCGAATTG
112149255 AAATTGC-AAAATTAAAT
1 AAATTGCGAAAATTAAAT
112149272 AAATTGCGAAAATTAAA
1 AAATTGCGAAAATTAAA
112149289 ATGGAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Found at i:112150036 original size:10 final size:10
Alignment explanation
Indices: 112150017--112150066 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
112150007 TTAAAATTTA
112150017 AAAGATAAAT
1 AAAGATAAAT
112150027 ACAA-ATAAAT
1 A-AAGATAAAT
*
112150037 AAAGATAATT
1 AAAGATAAAT
112150047 AAAGATAAAT
1 AAAGATAAAT
*
112150057 AAAAATAAAT
1 AAAGATAAAT
112150067 CCTAAATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:112154097 original size:25 final size:24
Alignment explanation
Indices: 112154069--112154123 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 24
112154059 GATTCTGCAT
112154069 ATCTGAAACTGAGTCTGTTATCTGA
1 ATCTGAAACTGAGTCTG-TATCTGA
* *
112154094 ATCTGAAACTGAGTTTGTATCTGT
1 ATCTGAAACTGAGTCTGTATCTGA
112154118 ATCTGA
1 ATCTGA
112154124 CTATACATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 12 0.43
25 16 0.57
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (24 bp):
ATCTGAAACTGAGTCTGTATCTGA
Found at i:112160485 original size:132 final size:133
Alignment explanation
Indices: 112160225--112160488 Score: 359
Period size: 132 Copynumber: 2.0 Consensus size: 133
112160215 ACGAGACCTG
* *
112160225 CAATCTTCAGCCTATTCCACTACAACTTTAGGGAGATAGGACGGTGGCTTAAATCAGCTTCACTG
1 CAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGACGGTGGCTTAAATCAGCTTCACTA
* * ** * *
112160290 CAACTTCAGGAAGACATGATTCGCCGTTTTCGATCTGCTCTACTGCAACTTCAGGGAAACAAGAT
66 CAACTTCAGGAAAACAAGATTCGCCGTCGTAGATCTGCTCCACTGCAACTTCAGGGAAACAAGAT
112160355 CTC
131 CTC
* * * ** *
112160358 CAATTTTCAGCCTACTCCACTA-AACTTTAGGGAGCTAGGATGGTGGCTTAAATTTGCTTTACTA
1 CAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGACGGTGGCTTAAATCAGCTTCACTA
* * * *
112160422 CAACTTCAGGAAAACAAGATTCGCCGTCGTATATCTGCTCCACTGTAATTTCAGGGAGACAAGAT
66 CAACTTCAGGAAAACAAGATTCGCCGTCGTAGATCTGCTCCACTGCAACTTCAGGGAAACAAGAT
112160487 CT
131 CT
112160489 GTAGGATTCG
Statistics
Matches: 113, Mismatches: 18, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
132 93 0.82
133 20 0.18
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (133 bp):
CAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGACGGTGGCTTAAATCAGCTTCACTA
CAACTTCAGGAAAACAAGATTCGCCGTCGTAGATCTGCTCCACTGCAACTTCAGGGAAACAAGAT
CTC
Found at i:112176651 original size:61 final size:62
Alignment explanation
Indices: 112176548--112176676 Score: 170
Period size: 61 Copynumber: 2.1 Consensus size: 62
112176538 GTTCCTTGGT
*
112176548 CGTGTGGTTTTTAAGCACAAACAATGAATTACACAGCTTGGGCA-ACACTCGTGTCCCTAGC
1 CGTGTGGTTTTTAAGCACAAACAATGAATTACACAGCCTGGGCACACACTCGTGTCCCTAGC
* * * * * * * *
112176609 TGTGTGGTTTTTAAGTACAAACAGTGAGTTACACGGCCTGGGCACACGCTTGTGTCCCTGGC
1 CGTGTGGTTTTTAAGCACAAACAATGAATTACACAGCCTGGGCACACACTCGTGTCCCTAGC
112176671 CGTGTG
1 CGTGTG
112176677 AACCCTACAC
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
61 38 0.67
62 19 0.33
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.28
Consensus pattern (62 bp):
CGTGTGGTTTTTAAGCACAAACAATGAATTACACAGCCTGGGCACACACTCGTGTCCCTAGC
Found at i:112182754 original size:25 final size:27
Alignment explanation
Indices: 112182721--112182772 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 27
112182711 GATATTTAAG
112182721 TTTGATATTTTTTCT-TTAATATGGTA
1 TTTGATATTTTTTCTATTAATATGGTA
112182747 TTTG-TATTTTTTCTATTAATATGGTA
1 TTTGATATTTTTTCTATTAATATGGTA
112182773 CATGCATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.23, C:0.04, G:0.12, T:0.62
Consensus pattern (27 bp):
TTTGATATTTTTTCTATTAATATGGTA
Found at i:112182781 original size:26 final size:25
Alignment explanation
Indices: 112182727--112182781 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 25
112182717 TAAGTTTGAT
** *
112182727 ATTTTTTCTTTAATATGGTATTTGT
1 ATTTTTTCTTTAATATGGTACATGC
112182752 ATTTTTTCTATTAATATGGTACATGC
1 ATTTTTTCT-TTAATATGGTACATGC
112182778 ATTT
1 ATTT
112182782 GATAAAAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 9 0.35
26 17 0.65
ACGTcount: A:0.24, C:0.07, G:0.11, T:0.58
Consensus pattern (25 bp):
ATTTTTTCTTTAATATGGTACATGC
Found at i:112183583 original size:22 final size:25
Alignment explanation
Indices: 112183558--112183606 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 25
112183548 TATTGTATTT
112183558 AACAAATT-AA-AACAC-AAAATTA
1 AACAAATTCAAGAACACTAAAATTA
112183580 AACAAATTCAATGAACACTAAAATTA
1 AACAAATTCAA-GAACACTAAAATTA
112183606 A
1 A
112183607 TCTATTAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.35
23 2 0.09
25 5 0.22
26 8 0.35
ACGTcount: A:0.63, C:0.14, G:0.02, T:0.20
Consensus pattern (25 bp):
AACAAATTCAAGAACACTAAAATTA
Found at i:112184315 original size:15 final size:16
Alignment explanation
Indices: 112184273--112184315 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
112184263 CAGAAAACTA
**
112184273 CTTTAACAACTAATTG
1 CTTTAACAACTAACAG
*
112184289 CTTTAACTACTAACAG
1 CTTTAACAACTAACAG
112184305 C-TTAACAACTA
1 CTTTAACAACTA
112184316 TTTGTTTCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.33
Consensus pattern (16 bp):
CTTTAACAACTAACAG
Found at i:112189014 original size:16 final size:17
Alignment explanation
Indices: 112188993--112189026 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
112188983 TTATATTATA
112188993 TATTATAA-AATTATTT
1 TATTATAAGAATTATTT
*
112189009 TATTATAAGTATTATTT
1 TATTATAAGAATTATTT
112189026 T
1 T
112189027 TAATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TATTATAAGAATTATTT
Found at i:112189024 original size:17 final size:16
Alignment explanation
Indices: 112188993--112189081 Score: 65
Period size: 17 Copynumber: 5.1 Consensus size: 16
112188983 TTATATTATA
*
112188993 TATTATAAAATTATTT
1 TATTATAATATTATTT
112189009 TATTATAAGTATTATTTT
1 TATTATAA-TATTA-TTT
112189027 TAATTAT-ATATTATTAT
1 T-ATTATAATATTATT-T
112189044 TACTTATTATATATTATTT
1 TA-TTA-TA-ATATTATTT
*
112189063 TCCTTA-AATTATTATTT
1 T-ATTATAA-TATTATTT
112189080 TA
1 TA
112189082 CATCTCTTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
16 12 0.20
17 24 0.40
18 6 0.10
19 10 0.17
20 8 0.13
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (16 bp):
TATTATAATATTATTT
Found at i:112189024 original size:54 final size:53
Alignment explanation
Indices: 112188950--112189104 Score: 133
Period size: 54 Copynumber: 2.9 Consensus size: 53
112188940 TCTATATATA
** * *
112188950 TATTTTATTATTTGTTTTATTTTAATTTTACTTTTATATTATATATTATAAAAT
1 TATTTTATTATAAGTATTATTTTAATTATACTTTTATATTAT-TATTATAAAAT
* *
112189004 TATTTTATTATAAGTATTATTTTTAATTATA-TATTATTATTACTTATTAT-ATAT
1 TATTTTATTATAAGTATTA-TTTTAATTATACTTTTA-TATTA-TTATTATAAAAT
* * *
112189058 TATTTTCCTTA-AATTATTATTTTACA-TCT-CTTTTATA-TATTATTATA
1 TATTTT-ATTATAAGTATTATTTTA-ATTATACTTTTATATTATTATTATA
112189105 TTTTCACATA
Statistics
Matches: 84, Mismatches: 10, Indels: 17
0.76 0.09 0.15
Matches are distributed among these distances:
50 7 0.08
51 2 0.02
52 2 0.02
53 11 0.13
54 37 0.44
55 24 0.29
56 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (53 bp):
TATTTTATTATAAGTATTATTTTAATTATACTTTTATATTATTATTATAAAAT
Found at i:112189043 original size:20 final size:21
Alignment explanation
Indices: 112189018--112189061 Score: 54
Period size: 20 Copynumber: 2.0 Consensus size: 21
112189008 TTATTATAAG
112189018 TATTATTTTTAATTATATATTAT
1 TATTA-TT-TAATTATATATTAT
*
112189041 TATTACTT-ATTATATATTAT
1 TATTATTTAATTATATATTAT
112189061 T
1 T
112189062 TTCCTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 13 0.65
21 1 0.05
22 1 0.05
23 5 0.25
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTATTTAATTATATATTAT
Found at i:112189078 original size:3 final size:3
Alignment explanation
Indices: 112189002--112189061 Score: 50
Period size: 3 Copynumber: 19.0 Consensus size: 3
112188992 ATATTATAAA
* * *
112189002 ATT ATT -TT ATT ATA AGT ATT ATT TTT AATT ATAT ATT ATT ATT ACTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT AT-T ATT ATT ATT A-TT
112189049 ATT ATAT ATT ATT
1 ATT AT-T ATT ATT
112189062 TTCCTTAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
2 2 0.04
3 33 0.72
4 11 0.24
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:112189078 original size:20 final size:21
Alignment explanation
Indices: 112189032--112189078 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
112189022 ATTTTTAATT
112189032 ATATATTATTATTACTT-ATT
1 ATATATTATTATTACTTAATT
*
112189052 ATATATTATT-TTCCTTAAATT
1 ATATATTATTATTACTT-AATT
112189073 AT-TATT
1 ATATATT
112189079 TTACATCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 5 0.21
20 14 0.58
21 5 0.21
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATATTATTATTACTTAATT
Found at i:112189844 original size:16 final size:17
Alignment explanation
Indices: 112189823--112189856 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
112189813 CATTTTTTTG
*
112189823 CTTTATA-TGTATTATT
1 CTTTATATTGTAGTATT
112189839 CTTTATATTGTAGTATT
1 CTTTATATTGTAGTATT
112189856 C
1 C
112189857 ATTTTTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.59
Consensus pattern (17 bp):
CTTTATATTGTAGTATT
Found at i:112191977 original size:16 final size:16
Alignment explanation
Indices: 112191958--112192005 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
112191948 TTTAACAGAA
112191958 AACTACTTTAACAACT
1 AACTACTTTAACAACT
* *
112191974 AACTGCTTTAACTACT
1 AACTACTTTAACAACT
*
112191990 AACAAC-TTAACAACT
1 AACTACTTTAACAACT
112192005 A
1 A
112192006 TTTGTTTCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
15 9 0.33
16 18 0.67
ACGTcount: A:0.44, C:0.25, G:0.02, T:0.29
Consensus pattern (16 bp):
AACTACTTTAACAACT
Found at i:112196745 original size:24 final size:24
Alignment explanation
Indices: 112196701--112196746 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
112196691 TTTCTTTGAA
*
112196701 ATTTTTATGAACTTATTTTTTTTT
1 ATTTTTATGAACTTATATTTTTTT
* *
112196725 ATTTTTTTGAA-TTATAATTTTT
1 ATTTTTATGAACTTATATTTTTT
112196747 AAATTATTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.70
Consensus pattern (24 bp):
ATTTTTATGAACTTATATTTTTTT
Found at i:112199551 original size:29 final size:28
Alignment explanation
Indices: 112199509--112199564 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
112199499 GTGCAAGAGA
112199509 CACAAGCCCGTGTGGCCAGGCCGTGTGAG
1 CACAAGCCCGTGT-GCCAGGCCGTGTGAG
* *
112199538 CACACGCCCGTGTGCTAGGCCGTGTGA
1 CACAAGCCCGTGTGCCAGGCCGTGTGA
112199565 ACAATTGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.16, C:0.32, G:0.36, T:0.16
Consensus pattern (28 bp):
CACAAGCCCGTGTGCCAGGCCGTGTGAG
Found at i:112201096 original size:40 final size:39
Alignment explanation
Indices: 112201052--112201171 Score: 97
Period size: 40 Copynumber: 3.1 Consensus size: 39
112201042 TTAACTGACA
112201052 ATATTAAATGTGAGCCCAGCTCTAGTTGGATAAACCAACG
1 ATATT-AATGTGAGCCCAGCTCTAGTTGGATAAACCAACG
* * * * * *
112201092 ATATT--TG-CA-CCCA-ATGCTAGTCGGGTATACCGACG
1 ATATTAATGTGAGCCCAGCT-CTAGTTGGATAAACCAACG
* * *
112201127 ATAGTAATTGTGAGCCCAGCTCTAGTTGGATAAAACAATG
1 ATATTAA-TGTGAGCCCAGCTCTAGTTGGATAAACCAACG
112201167 ATATT
1 ATATT
112201172 TGCACCCAGT
Statistics
Matches: 57, Mismatches: 16, Indels: 14
0.66 0.18 0.16
Matches are distributed among these distances:
34 1 0.02
35 23 0.40
36 1 0.02
37 2 0.04
38 2 0.04
39 1 0.02
40 26 0.46
41 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (39 bp):
ATATTAATGTGAGCCCAGCTCTAGTTGGATAAACCAACG
Found at i:112201149 original size:75 final size:75
Alignment explanation
Indices: 112201060--112201364 Score: 333
Period size: 75 Copynumber: 3.9 Consensus size: 75
112201050 CAATATTAAA
*
112201060 TGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAATGCTAGTCGGGTATACCGA
1 TGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCTAGTCGGGTATACCGA
112201125 CGATAGTAAT
66 CGATAGTAAT
* * *
112201135 TGTGAGCCCAGCTCTAGTTGGATAAAACAATGATATTTGCACCCAGTGCTAGTCGAGTATACCGA
1 TGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCTAGTCGGGTATACCGA
112201200 CGATAGTTACCGACGAT
66 CGATAG-T----A--AT
* * ** * *
112201217 AGTAATTG-TGAGCCTAGCTCTAGTTGGACAAACCAACGATATTTGCACCCAGTGCTAGTTGGGT
1 TGTGA--GCCCAG-C----TCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCTAGTCGGGT
*
112201281 ATACCGAAGATAGTAAT
59 ATACCGACGATAGTAAT
* * * * *
112201298 TGTGAGCCCAGCTCTAGTTGGATAAACCAACGATAATTGCGCCCAGCGCTAGTCGGATAAACCGA
1 TGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCTAGTCGGGTATACCGA
112201363 CG
66 CG
112201365 GTTATACAAT
Statistics
Matches: 189, Mismatches: 26, Indels: 30
0.77 0.11 0.12
Matches are distributed among these distances:
75 114 0.60
76 1 0.01
79 2 0.01
80 3 0.02
81 5 0.03
82 5 0.03
83 3 0.02
84 2 0.01
87 1 0.01
88 53 0.28
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.25
Consensus pattern (75 bp):
TGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCTAGTCGGGTATACCGA
CGATAGTAAT
Found at i:112201212 original size:13 final size:13
Alignment explanation
Indices: 112201194--112201219 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
112201184 TAGTCGAGTA
112201194 TACCGACGATAGT
1 TACCGACGATAGT
112201207 TACCGACGATAGT
1 TACCGACGATAGT
112201220 AATTGTGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (13 bp):
TACCGACGATAGT
Found at i:112201268 original size:88 final size:88
Alignment explanation
Indices: 112201119--112201294 Score: 289
Period size: 88 Copynumber: 2.0 Consensus size: 88
112201109 TAGTCGGGTA
* *
112201119 TACCGACGATAGTAATTGTGAGCCCAGCTCTAGTTGGATAAAACAATGATATTTGCACCCAGTGC
1 TACCGACGATAGTAATTGTGAGCCCAGCTCTAGTTGGACAAAACAACGATATTTGCACCCAGTGC
*
112201184 TAGTCGAGTATACCGACGATAGT
66 TAGTCGAGTATACCGAAGATAGT
* *
112201207 TACCGACGATAGTAATTGTGAGCCTAGCTCTAGTTGGACAAACCAACGATATTTGCACCCAGTGC
1 TACCGACGATAGTAATTGTGAGCCCAGCTCTAGTTGGACAAAACAACGATATTTGCACCCAGTGC
* *
112201272 TAGTTGGGTATACCGAAGATAGT
66 TAGTCGAGTATACCGAAGATAGT
112201295 AATTGTGAGC
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 81 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (88 bp):
TACCGACGATAGTAATTGTGAGCCCAGCTCTAGTTGGACAAAACAACGATATTTGCACCCAGTGC
TAGTCGAGTATACCGAAGATAGT
Found at i:112201343 original size:35 final size:35
Alignment explanation
Indices: 112201232--112201360 Score: 109
Period size: 35 Copynumber: 3.5 Consensus size: 35
112201222 TTGTGAGCCT
* * *
112201232 AGCTCTAGTTGGACAAACCAACGATATTTGCACCC
1 AGCTCTAGTTGGATAAACCAACGATAATTGCGCCC
* * *
112201267 AG-TGCTAGTTGGGTATACCGAA-GATAGTAATTGTGAGCCC
1 AGCT-CTAGTTGGATAAACC-AACG--A-TAA-T-TGCGCCC
112201307 AGCTCTAGTTGGATAAACCAACGATAATTGCGCCC
1 AGCTCTAGTTGGATAAACCAACGATAATTGCGCCC
* *
112201342 AGCGCTAGTCGGATAAACC
1 AGCTCTAGTTGGATAAACC
112201361 GACGGTTATA
Statistics
Matches: 74, Mismatches: 11, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
34 1 0.01
35 38 0.51
36 3 0.04
37 4 0.05
38 3 0.04
39 3 0.04
40 21 0.28
41 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (35 bp):
AGCTCTAGTTGGATAAACCAACGATAATTGCGCCC
Found at i:112201364 original size:163 final size:163
Alignment explanation
Indices: 112201060--112201364 Score: 495
Period size: 163 Copynumber: 1.9 Consensus size: 163
112201050 CAATATTAAA
*
112201060 TGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAATGCTAGTCGGGTATACCGA
1 TGTGAGCCCAGCTCTAGTTGGACAAACCAACGATATTTGCACCCAATGCTAGTCGGGTATACCGA
* * * *
112201125 CGATAGTAATTGTGAGCCCAGCTCTAGTTGGATAAAACAATGATATTTGCACCCAGTGCTAGTCG
66 AGATAGTAATTGTGAGCCCAGCTCTAGTTGGATAAAACAACGATAATTGCACCCAGCGCTAGTCG
*
112201190 AGTATACCGACGATAGTTACCGACGATAGTAAT
131 AGTAAACCGACGATAGTTACCGACGATAGTAAT
* * *
112201223 TGTGAGCCTAGCTCTAGTTGGACAAACCAACGATATTTGCACCCAGTGCTAGTTGGGTATACCGA
1 TGTGAGCCCAGCTCTAGTTGGACAAACCAACGATATTTGCACCCAATGCTAGTCGGGTATACCGA
* *
112201288 AGATAGTAATTGTGAGCCCAGCTCTAGTTGGATAAACCAACGATAATTGCGCCCAGCGCTAGTCG
66 AGATAGTAATTGTGAGCCCAGCTCTAGTTGGATAAAACAACGATAATTGCACCCAGCGCTAGTCG
112201353 -GATAAACCGACG
131 AG-TAAACCGACG
112201365 GTTATACAAT
Statistics
Matches: 130, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
162 1 0.01
163 129 0.99
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.25
Consensus pattern (163 bp):
TGTGAGCCCAGCTCTAGTTGGACAAACCAACGATATTTGCACCCAATGCTAGTCGGGTATACCGA
AGATAGTAATTGTGAGCCCAGCTCTAGTTGGATAAAACAACGATAATTGCACCCAGCGCTAGTCG
AGTAAACCGACGATAGTTACCGACGATAGTAAT
Found at i:112202087 original size:22 final size:22
Alignment explanation
Indices: 112202036--112202088 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
112202026 GTTATTTTCT
* *
112202036 TATTATTTTCTCTCTATTTTGC
1 TATTATTTTCTATCTATGTTGC
**
112202058 TACCATTTTACTAT-TATGTTGC
1 TATTATTTT-CTATCTATGTTGC
112202080 TATTATTTT
1 TATTATTTT
112202089 GTTGTTATTG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.19, C:0.15, G:0.06, T:0.60
Consensus pattern (22 bp):
TATTATTTTCTATCTATGTTGC
Found at i:112202186 original size:29 final size:30
Alignment explanation
Indices: 112202126--112202187 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
112202116 ATTTATTTTA
**
112202126 TTGTTAATTTTCTTATTATTTTAAAGGTAT
1 TTGTTAATTTTCTTATTATTTTAAAGACAT
112202156 TTGTTAATTTT-TTATTATTTTAGAA-ACAT
1 TTGTTAATTTTCTTATTATTTTA-AAGACAT
112202185 TTG
1 TTG
112202188 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 16 0.55
30 13 0.45
ACGTcount: A:0.27, C:0.03, G:0.10, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAAAGACAT
Found at i:112210522 original size:31 final size:31
Alignment explanation
Indices: 112210487--112210553 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
112210477 AACAACCCAA
*
112210487 TGACTTAAATAATAACTTTCAAATAGTTCAG
1 TGACTTAAATAAAAACTTTCAAATAGTTCAG
*
112210518 TGACTTAAATAAAAATTTTCAAATAGTTCAG
1 TGACTTAAATAAAAACTTTCAAATAGTTCAG
112210549 TGACT
1 TGACT
112210554 ATTTTGTAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCAAATAGTTCAG
Found at i:112212489 original size:28 final size:27
Alignment explanation
Indices: 112212447--112212536 Score: 110
Period size: 27 Copynumber: 3.2 Consensus size: 27
112212437 GAAACAGAGT
112212447 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
** *
112212476 CACCAGAACAGATATACGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
112212503 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
112212531 CACCAG
1 CACCAG
112212537 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 23 0.43
28 23 0.43
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:112212689 original size:28 final size:28
Alignment explanation
Indices: 112212642--112212705 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
112212632 AAATTAACCT
*
112212642 TAGGGGTATAGAGGTTATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTTGCATACA
112212670 TAGGGGTATA-ATGGTAATTTTGCATACA
1 TAGGGGTATAGA-GGTAATTTTGCATACA
112212698 TAGGGGTA
1 TAGGGGTA
112212706 CTCTAGTATA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.30, C:0.06, G:0.30, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTTGCATACA
Found at i:112216656 original size:21 final size:23
Alignment explanation
Indices: 112216609--112216662 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
112216599 CATTCAAGAT
**
112216609 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
112216632 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
112216653 AAAAT-ATATA
1 AAAATAATATA
112216663 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:112216898 original size:15 final size:17
Alignment explanation
Indices: 112216878--112216917 Score: 66
Period size: 15 Copynumber: 2.5 Consensus size: 17
112216868 ATAGAAACAA
112216878 AAATATAATAA-A-TAG
1 AAATATAATAAGAGTAG
112216893 AAATATAATAAGAGTAG
1 AAATATAATAAGAGTAG
112216910 AAATATAA
1 AAATATAA
112216918 ATAGATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 11 0.48
16 1 0.04
17 11 0.48
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.25
Consensus pattern (17 bp):
AAATATAATAAGAGTAG
Found at i:112216930 original size:44 final size:43
Alignment explanation
Indices: 112216873--112216990 Score: 111
Period size: 44 Copynumber: 2.7 Consensus size: 43
112216863 TATAAATAGA
*
112216873 AACAAAA-ATATAATAAATAGAAATATAATAAGAGTA-GA-AAT
1 AACAAAATAAATAATAAATAGAAA-ATAATAAGAGTATGAGAAT
* * *
112216914 ATA-AATAGATAAATAATAATTAGATAAATAATAATAGTATTAGAAT
1 A-ACAA-A-ATAAATAATAAATAGA-AAATAATAAGAGTATGAGAAT
112216960 AACAAAATAAAT-ATAAATAGAAACATAATAA
1 AACAAAATAAATAATAAATAGAAA-ATAATAA
112216991 TAATAGCAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
41 3 0.05
42 4 0.06
43 16 0.25
44 29 0.46
45 5 0.08
46 6 0.10
ACGTcount: A:0.64, C:0.03, G:0.08, T:0.25
Consensus pattern (43 bp):
AACAAAATAAATAATAAATAGAAAATAATAAGAGTATGAGAAT
Found at i:112216937 original size:15 final size:15
Alignment explanation
Indices: 112216910--112216948 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
112216900 ATAAGAGTAG
*
112216910 AAAT-ATAAATAGAT
1 AAATAATAATTAGAT
112216924 AAATAATAATTAGAT
1 AAATAATAATTAGAT
112216939 AAATAATAAT
1 AAATAATAAT
112216949 AGTATTAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (15 bp):
AAATAATAATTAGAT
Found at i:112216942 original size:29 final size:27
Alignment explanation
Indices: 112216885--112216990 Score: 67
Period size: 29 Copynumber: 3.7 Consensus size: 27
112216875 CAAAAATATA
* *
112216885 ATAAATAGAAATATAATAAGAGTAGAAAT
1 ATAAATAGAAACATAATAA-AG-ATAAAT
112216914 ATAAATAGATAA-ATAATAATTAGATAAAT
1 ATAAATAGA-AACATAATAA--AGATAAAT
*
112216943 A-ATAATAGTATTAGA-ATAACAAA-ATAAAT
1 ATA-AATAG-A--A-ACATAATAAAGATAAAT
112216972 ATAAATAGAAACATAATAA
1 ATAAATAGAAACATAATAA
112216991 TAATAGCAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 19
0.74 0.05 0.22
Matches are distributed among these distances:
25 1 0.02
26 7 0.11
28 2 0.03
29 39 0.60
30 7 0.11
31 2 0.03
32 7 0.11
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.26
Consensus pattern (27 bp):
ATAAATAGAAACATAATAAAGATAAAT
Found at i:112220995 original size:88 final size:88
Alignment explanation
Indices: 112220840--112222021 Score: 1013
Period size: 88 Copynumber: 13.4 Consensus size: 88
112220830 TTTCAATTTT
* * * * * * * * *
112220840 CTCCGCTACTGCTTAGGGAGATATGATTTGTAATCTT-CAACCTG-CTCCGTTGCTGCTCAGGGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCCAGCCTGTTTCC-CTACTGCTTAGGGG
* * *
112220903 GATAAGGCTTACTGTCATCGATCTG
64 GATAAGGCTCACCGTCTTCGATCTG
* *
112220928 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTATTTCCCTACTGCTTAGAGGGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGA
*
112220993 TAAGGCTCACCGTC-TCTGATCCG
66 TAAGGCTCACCGTCTTC-GATCTG
* * * * *
112221016 CTCCACTTCTTCTTAGGGAGATAAGATCTGTAATCTT-TAGCCTATTTCCCTACTGCTTAGGAGG
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCCAGCCTGTTTCCCTACTGCTTAGGGGG
* ** *
112221080 ATAAGGCTCACCGTTTTTTATCCG
65 ATAAGGCTCACCGTCTTCGATCTG
* * * *
112221104 CTCCACTACTTCTTTGGGAGATAATATC-GATAATTTCCATCCTGTTTCCCTACTGCTTAGGGGG
1 CTCCACTACTGCTTAGGGAGATAAGATCTG-TAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGG
* * *
112221168 ATAAGGCTCACCATATTCAATCTG
65 ATAAGGCTCACCGTCTTCGATCTG
* * * * *
112221192 TTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGCTACCCTACTACTTAGGGGGT
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGA
* *
112221257 TAAGACTCACCGTCTTCGATTTG
66 TAAGGCTCACCGTCTTCGATCTG
* * ** *
112221280 CTCCACTACTGCTTGGGGAGATAAAATCTGTAATTTTTAGCCTGTTTCCCTACTACTTAGGGGGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGA
* *
112221345 TAATGCTCACCATCTTCGATCTG
66 TAAGGCTCACCGTCTTCGATCTG
* * * * * * * * * * *
112221368 CTCTACTATTGCTTAAGGAGATATGATCTATAATTTCTAGTCTGTTACCTTACTACTTAGGGGGT
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGA
112221433 TAAGGCTCACCGTCTTCGATCTG
66 TAAGGCTCACCGTCTTCGATCTG
* ** * *
112221456 CTCCACTACTGCTTAAGGAGATAAGATCTGTAATTTTTAGCCTGTTACCCTACTGCTTAGGGGGT
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGA
112221521 TAAGGCT-ACCGTCTTCGATCTG
66 TAAGGCTCACCGTCTTCGATCTG
* * * * **
112221543 CTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTTCAGTCTGTTACCCTACTGCTTAGGAAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGA
* * * * *
112221608 TAAGATCTGTA--ATTTTC-AGCTTG
66 TAAG-GCT-CACCGTCTTCGATC-TG
* * * * * ** * *
112221631 TTATCCA--ACTGCTTAAGGG-GTTAAGGCTCACCGT--CTT-CAATCTG-CTCCACTACTACTT
1 --CTCCACTACTGCTT-AGGGAGATAA-GAT--CTGTAATTTCCAGCCTGTTTCC-CTACTGCTT
* ** * ** * * * *
112221689 AGGGAGATAAGATTTGTA-ATTTTTAG-CCTA
59 AGGGGGATAAG-GCT-CACCGTCTTCGATCTG
* * * * *
112221719 TTACC-CTACTGCTTAAGGGGTTAAGGCTAAGATCTATAATTTTCAGCCTGTTACCCTACTGCTT
1 CT-CCACTACTGCTT-A-GGG---A-GATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTT
*
112221783 AGGGGGTTAAGGCTCACCGTCTTCGATCTG
59 AGGGGGATAAGGCTCACCGTCTTCGATCTG
* * *
112221813 CTCCATTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACATGTTTCCCTACTGCTTAGGGGGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGA
* *
112221878 CAAGGCTCACCGTCTTCGATCTA
66 TAAGGCTCACCGTCTTCGATCTG
* * * *
112221901 CT---CTACTGCTTAGAGAGATAAGATCTATAATTTTCAGCCTATTTCCCTACTGCTTAGGGGGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGA
*
112221963 TAAGGCTCACCATCTTCGATCTG
66 TAAGGCTCACCGTCTTCGATCTG
* *
112221986 CTCCACTACTACTTAGGGAGATAAGATCTGCAATTT
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTT
112222022 TCAGTCTTCT
Statistics
Matches: 898, Mismatches: 156, Indels: 80
0.79 0.14 0.07
Matches are distributed among these distances:
85 75 0.08
86 1 0.00
87 90 0.10
88 644 0.72
89 24 0.03
90 5 0.01
91 4 0.00
92 4 0.00
93 12 0.01
94 37 0.04
95 2 0.00
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.33
Consensus pattern (88 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGA
TAAGGCTCACCGTCTTCGATCTG
Found at i:112221759 original size:50 final size:50
Alignment explanation
Indices: 112221696--112221796 Score: 157
Period size: 50 Copynumber: 2.0 Consensus size: 50
112221686 CTTAGGGAGA
* * *
112221696 TAAGATTTGTAATTTTTAGCCTATTACCCTACTGCTTAAGGGGTTAAGGC
1 TAAGATCTATAATTTTCAGCCTATTACCCTACTGCTTAAGGGGTTAAGGC
* *
112221746 TAAGATCTATAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
1 TAAGATCTATAATTTTCAGCCTATTACCCTACTGCTTAAGGGGTTAAGGC
112221796 T
1 T
112221797 CACCGTCTTC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.37
Consensus pattern (50 bp):
TAAGATCTATAATTTTCAGCCTATTACCCTACTGCTTAAGGGGTTAAGGC
Found at i:112221812 original size:138 final size:132
Alignment explanation
Indices: 112221461--112221873 Score: 578
Period size: 138 Copynumber: 3.1 Consensus size: 132
112221451 ATCTGCTCCA
*
112221461 CTACTGCTTAAGG-AGATAAGATCTGTAATTTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
1 CTACTGCTT-AGGAAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
* *
112221525 GCT-ACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTTCAGTCTGTT
65 GCTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTTCAGCCTATT
112221589 ACC
130 ACC
* * * *
112221592 CTACTGCTTAGGAAGATAAGATCTGTAATTTTCAGCTTGTTATCCAACTGCTTAAGGGGTTAAGG
1 CTACTGCTTAGGAAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG
* * *
112221657 CTCACCGTCTTCAATCTGCTCCACTACTACTTAGGGAGATAAGATTTGTAATTTTTAGCCTATTA
66 CTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTTCAGCCTATTA
112221722 CC
131 CC
* *
112221724 CTACTGCTTAAGGGGTTAAGGCTAAGATCTATAATTTTCAGCCTGTTACCCTACTGCTTAGGGGG
1 CTACTGCTT-A--GG--AA-GATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGG
* * * *
112221789 TTAAGGCTCACCGTCTTCGATCTGCTCCATTACTGCTTAGGGAGATAAGATCTGTAATTTCCAAC
60 TTAAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTTCAGC
* * *
112221854 ATGTTTCC
125 CTATTACC
112221862 CTACTGCTTAGG
1 CTACTGCTTAGG
112221874 GGGACAAGGC
Statistics
Matches: 248, Mismatches: 26, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
130 3 0.01
131 58 0.23
132 68 0.27
133 1 0.00
135 4 0.02
137 3 0.01
138 111 0.45
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.34
Consensus pattern (132 bp):
CTACTGCTTAGGAAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG
CTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTTCAGCCTATTA
CC
Found at i:112221966 original size:44 final size:44
Alignment explanation
Indices: 112220933--112221966 Score: 196
Period size: 44 Copynumber: 23.5 Consensus size: 44
112220923 ATCTGCTCCA
* * *
112220933 CTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTATTTCC
1 CTACTGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGTTTCC
* *** * * * *
112220977 CTACTGCTTAGAGG-GATAAG-GCTCACCGTCTCTGATCC-G-CTCC
1 CTACTGCTTAG-GGAGATAAGATCT-ATAAT-TTTCAGCCTGTTTCC
* * * *
112221020 ACTTCTTCTTAGGGAGATAAGATCTGTAATCTTT-AGCCTATTTCC
1 -CTACTGCTTAGGGAGATAAGATCTATAAT-TTTCAGCCTGTTTCC
* *** * * *
112221065 CTACTGCTTA-GGAGGATAAG-GCTCACCGTTTTTTATCC-G-CTCC
1 CTACTGCTTAGGGA-GATAAGATCT-A-TAATTTTCAGCCTGTTTCC
* * * * * *
112221108 ACTACTTCTTTGGGAGATAATATCGATAATTTCCATCCTGTTTCC
1 -CTACTGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGTTTCC
* * ** * **
112221153 CTACTGCTTAGGGGGATAAG-GCTCACCATATTCAATCTG-TTCC
1 CTACTGCTTAGGGAGATAAGATCT-ATAATTTTCAGCCTGTTTCC
* * * *
112221196 ACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGCTACC
1 -CTACTGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGTTTCC
* * * *** * *
112221241 CTACTACTTAGGGGGTTAAGA-CTCACCGTCTTC-G-AT-TTGCTCC
1 CTACTGCTTAGGGAGATAAGATCT-ATAATTTTCAGCCTGTT--TCC
* * * *
112221284 ACTACTGCTTGGGGAGATAAAATCTGTAATTTTTAGCCTGTTTCC
1 -CTACTGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGTTTCC
* * * ** * * * *
112221329 CTACTACTTAGGGGGATAATGCTC-ACCATCTTC-GATCTG-CTCTA
1 CTACTGCTTAGGGAGATAA-GATCTATAATTTTCAG-CCTGTTTC-C
* * * * *
112221373 CTATTGCTTAAGGAGATATGATCTATAA-TTTCTAGTCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCTATAATTTTC-AGCCTGTTTCC
* * * * * *** * * *
112221417 TTACTACTTAGGGGGTTAAG-GCTCACCGTCTTC-GATCTG-CTCC
1 CTACTGCTTAGGGAGATAAGATCT-ATAATTTTCAG-CCTGTTTCC
* * * *
112221460 ACTACTGCTTAAGGAGATAAGATCTGTAATTTTTAGCCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGTTTCC
* * * *** * * *
112221505 CTACTGCTTAGGGGGTTAAG-GCTACCGTCTTC-GATCTG-CTCC
1 CTACTGCTTAGGGAGATAAGATCTATAATTTTCAG-CCTGTTTCC
* * * *
112221547 ACTACTGCTTAGGGAGATAAGATTTGTAATTTTCAGTCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGTTTCC
* * *
112221592 CTACTGCTTAGGAAGATAAGATCTGTAATTTTCAGCTTGTTAT-C
1 CTACTGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGTT-TCC
* * * *** * ** *
112221636 CAACTGCTTAAGGG-GTTAAG-GCTCACCGTCTTCAATCTG-CTCC
1 CTACTGCTT-AGGGAGATAAGATCT-ATAATTTTCAGCCTGTTTCC
* * * * * *
112221679 ACTACTACTTAGGGAGATAAGATTTGTAATTTTTAGCCTATTACC
1 -CTACTGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGTTTCC
* *
112221724 CTACTGCTTAAGGGGTTAAGGCTAAGATCTATAATTTTCAGCCTGTTACC
1 CTACTGCTT-A-GGG---A-GATAAGATCTATAATTTTCAGCCTGTTTCC
* * * *** * * *
112221774 CTACTGCTTAGGGGGTTAAG-GCTCACCGTCTTC-GATCTG-CTCC
1 CTACTGCTTAGGGAGATAAGATCT-ATAATTTTCAG-CCTGTTTCC
* * * * *
112221817 ATTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACATGTTTCC
1 -CTACTGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGTTTCC
* * * *** * * * * *
112221862 CTACTGCTTAGGGGGACAAG-GCTCACCGTCTTC-G-AT-CTACT
1 CTACTGCTTAGGGAGATAAGATCT-ATAATTTTCAGCCTGTTTCC
* *
112221903 CTACTGCTTAGAGAGATAAGATCTATAATTTTCAGCCTATTTCC
1 CTACTGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGTTTCC
*
112221947 CTACTGCTTAGGGGGATAAG
1 CTACTGCTTAGGGAGATAAG
112221967 GCTCACCATC
Statistics
Matches: 658, Mismatches: 259, Indels: 146
0.62 0.24 0.14
Matches are distributed among these distances:
41 25 0.04
42 10 0.02
43 90 0.14
44 428 0.65
45 60 0.09
46 4 0.01
47 2 0.00
48 3 0.00
49 2 0.00
50 34 0.05
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.34
Consensus pattern (44 bp):
CTACTGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGTTTCC
Found at i:112221995 original size:44 final size:43
Alignment explanation
Indices: 112221772--112222010 Score: 141
Period size: 44 Copynumber: 5.5 Consensus size: 43
112221762 CAGCCTGTTA
* * *
112221772 CCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCT
1 CCCTACTGCTTAGGGAGATAAGGCTCACCATCTTCGATCTGCT
* * * * * *
112221815 CCATTACTGCTTAGGGAGATAAGATCTGTA--AT-TTCCAACATGTTT
1 CC-CTACTGCTTAGGGAGATAAG-GCT-CACCATCTTCGATC-TG-CT
* * * *
112221860 CCCTACTGCTTAGGGGGACAAGGCTCACCGTCTTCGATCTACT
1 CCCTACTGCTTAGGGAGATAAGGCTCACCATCTTCGATCTGCT
* * ** * * **
112221903 --CTACTGCTTAGAGAGATAA-GATCTATAATTTTC-AGCCTATTT
1 CCCTACTGCTTAGGGAGATAAGGCTC-ACCATCTTCGA-TCT-GCT
*
112221945 CCCTACTGCTTAGGGGGATAAGGCTCACCATCTTCGATCTGCT
1 CCCTACTGCTTAGGGAGATAAGGCTCACCATCTTCGATCTGCT
*
112221988 CCACTACTACTTAGGGAGATAAG
1 CC-CTACTGCTTAGGGAGATAAG
112222011 ATCTGCAATT
Statistics
Matches: 139, Mismatches: 41, Indels: 31
0.66 0.19 0.15
Matches are distributed among these distances:
40 4 0.03
41 23 0.17
42 2 0.01
43 13 0.09
44 82 0.59
45 14 0.10
46 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (43 bp):
CCCTACTGCTTAGGGAGATAAGGCTCACCATCTTCGATCTGCT
Found at i:112222164 original size:177 final size:177
Alignment explanation
Indices: 112221961--112222730 Score: 1076
Period size: 177 Copynumber: 4.4 Consensus size: 177
112221951 TGCTTAGGGG
* * * * *
112221961 GATAAGGCTCACCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAG
1 GATAAGACTCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAG
* * *
112222026 TCTTCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCAACCTACTCTCTTGTTACATCAG
66 TCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACATCAG
* * * * *
112222091 AGAGATAAGGCTGGTGGCTAAAATCTACTCCATTGCTGATACATGGG
131 AGAGATAAGGCTGGTGACTAAAATCTGCTCCATAGCCGATACATGGA
* * * * *
112222138 GATAAGACTCGCTATTTTTTATCTGCTCTACTACTGCTTAGGGAGATAAGATCTATAATTTTCAG
1 GATAAGACTCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAG
* * * ** * * *
112222203 TCTGTTTCTTTGCTACCTTAGGAAGATAAGAAATGTATC-TCAACATGCTCTTTTGCTACCTCAG
66 TCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACATCAG
112222267 AGAGATAAGGCTGGTGACTAAAATCTGCTCCATAGCCGATACATGGA
131 AGAGATAAGGCTGGTGACTAAAATCTGCTCCATAGCCGATACATGGA
* * * * *
112222314 GATAAGACTCACCATTTTTGATCTGCTCCA-TAGCTGATACATGGAGATAAGATCTGTAATTTTC
1 GATAAGACTCGCCATCTTTGATCTGCTCCACTA-CTGCT-TAGGGAGATAAGATCTGTAATTTTC
*
112222378 AGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATTTTCAACCTGCTCTCTTGCTACATC
64 AGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACATC
* * *
112222443 AGAGATATAAGGTTGGTGACTAAAATCTGCTCCATAGTCGATACATGGA
129 AGAGAGATAAGGCTGGTGACTAAAATCTGCTCCATAGCCGATACATGGA
* * * * * *
112222492 GATAAGAGTCGCCATCTTTAATTTGCTCCGCTACTGCTTAGAGAGATAAGATCTGCAATTTTCAG
1 GATAAGACTCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAG
* * * * *
112222557 TCCGCTTCCTTTCTACCTCAGGAAGATAAGACTTGTATCTTCAACTTGCTCTCTTGTTACATCAA
66 TCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACATCAG
* *
112222622 AGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCAATACATGGA
131 AGAGATAAGGCTGGTGACTAAAATCTGCTCCATAGCCGATACATGGA
112222669 GATAAGACTCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTT
1 GATAAGACTCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTT
112222731 TCGATGTCGT
Statistics
Matches: 515, Mismatches: 74, Indels: 8
0.86 0.12 0.01
Matches are distributed among these distances:
175 2 0.00
176 92 0.18
177 325 0.63
178 94 0.18
179 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (177 bp):
GATAAGACTCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAG
TCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACATCAG
AGAGATAAGGCTGGTGACTAAAATCTGCTCCATAGCCGATACATGGA
Found at i:112222436 original size:44 final size:45
Alignment explanation
Indices: 112222358--112222444 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 45
112222348 TGATACATGG
** *
112222358 AGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGA
1 AGATAAGATCTGTAATTTTCAACCTGCTTCCTTGCTACATCAGGA
112222403 AGATAAGA-CTTGT-ATTTTCAACCTGC-TCTCTTGCTACATCAG
1 AGATAAGATC-TGTAATTTTCAACCTGCTTC-CTTGCTACATCAG
112222445 AGATATAAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
43 2 0.05
44 24 0.65
45 11 0.30
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (45 bp):
AGATAAGATCTGTAATTTTCAACCTGCTTCCTTGCTACATCAGGA
Found at i:112229612 original size:15 final size:15
Alignment explanation
Indices: 112229588--112229633 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
112229578 ATATAAATAG
*
112229588 AAATAAAAATATAAT
1 AAATAGAAATATAAT
*
112229603 AAATAGAAATAAAAT
1 AAATAGAAATATAAT
112229618 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
112229634 ATAGATAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 15 0.58
16 1 0.04
17 10 0.38
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.24
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:112230894 original size:32 final size:30
Alignment explanation
Indices: 112230858--112230916 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 30
112230848 TCTAGTATTT
*
112230858 TTTTTGTTATAAATATTTTATTTAAAATACAC
1 TTTTTGTCATAAATA-TTT-TTTAAAATACAC
*
112230890 TTTTTGTCATAGATATTTTTTAAAATA
1 TTTTTGTCATAAATATTTTTTAAAATA
112230917 TAGTTTTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 9 0.36
31 3 0.12
32 13 0.52
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (30 bp):
TTTTTGTCATAAATATTTTTTAAAATACAC
Found at i:112232620 original size:16 final size:16
Alignment explanation
Indices: 112232599--112232631 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
112232589 TAAAAGTTTA
112232599 AAAGTAA-ATAATACAC
1 AAAGTAATAT-ATACAC
112232615 AAAGTAATATATACAC
1 AAAGTAATATATACAC
112232631 A
1 A
112232632 CGAAAAGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.61, C:0.12, G:0.06, T:0.21
Consensus pattern (16 bp):
AAAGTAATATATACAC
Found at i:112233882 original size:15 final size:16
Alignment explanation
Indices: 112233864--112233893 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
112233854 GGTTTTGGGT
112233864 TGTTGGG-TTTTTAGA
1 TGTTGGGCTTTTTAGA
112233879 TGTTGGGCTTTTTAG
1 TGTTGGGCTTTTTAG
112233894 CCCGGGCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.10, C:0.03, G:0.33, T:0.53
Consensus pattern (16 bp):
TGTTGGGCTTTTTAGA
Found at i:112234301 original size:43 final size:44
Alignment explanation
Indices: 112234220--112234302 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 44
112234210 CATGTTGATA
*
112234220 TCTTCGATCTGCTCTCTGTCGAACACAGAGACGCCAAATCTGCT
1 TCTTCGATCTGCTCTCTGACGAACACAGAGACGCCAAATCTGCT
* * * *
112234264 TCTTCGATTTGTTCTCTGAC-AATACAGAGATGCCAAATC
1 TCTTCGATCTGCTCTCTGACGAACACAGAGACGCCAAATC
112234303 ATCTTAGATT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
43 17 0.50
44 17 0.50
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (44 bp):
TCTTCGATCTGCTCTCTGACGAACACAGAGACGCCAAATCTGCT
Found at i:112234733 original size:205 final size:205
Alignment explanation
Indices: 112234265--112234811 Score: 853
Period size: 205 Copynumber: 2.7 Consensus size: 205
112234255 AAATCTGCTT
* * *
112234265 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGTAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCAC
* *
112234330 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
66 GTGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * *
112234395 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTTGAAATG
131 GGATC-TACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTATCTACTCTCCATCGAAATG
112234460 GAGATGCCAGA
195 GAGATGCCAGA
*
112234471 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGGCTTGCTTTAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCAC
* * *
112234536 GTGAAAACCAAATAAGCTATGTCTTGGATTTGCTCCTTGTAAGCATAAGGATGCCAAACCATCTT
66 GTGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
**** *
112234601 GGATCTACTTCAGTATAAACATCTGAAGTTTGGATCTGCTATGTATCTATTCTCCATCGAAATGG
131 GGATCTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTATCTACTCTCCATCGAAATGG
*
112234666 AGATGCCGGA
196 AGATGCCAGA
* * * *
112234676 CTTCGACTTGTTCTCTGACAATACAAAGTTGCCAAATCATCTTAGACTTGGTTTAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCAC
*
112234741 GCGAAAACCAAATCAGCTATGTCTTTC-ATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCT
66 GTGAAAACCAAATCAGCTATGTC-TTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCT
112234805 TGGATCT
130 TGGATCT
112234812 GCTTTAGCCA
Statistics
Matches: 312, Mismatches: 28, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
205 184 0.59
206 128 0.41
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCAC
GTGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTATCTACTCTCCATCGAAATGG
AGATGCCAGA
Found at i:112244754 original size:17 final size:18
Alignment explanation
Indices: 112244724--112244769 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
112244714 ATTTAAATTA
112244724 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
112244742 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
112244758 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
112244770 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Done.