Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 582 of 770
Found at i:181615154 original size:40 final size:40
Alignment explanation
Indices: 181615109--181615273 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
181615099 CGGAATATAA
181615109 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
181615149 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
181615189 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* *
181615229 CCGGATATAATTC-C-AGCA-TAATGTCTTCGGG-CTTAGC
1 CCGGATATAA-TCACTAGCACAAATGCCTTCGGGTCTTAGC
181615266 CCGGATAT
1 CCGGATAT
181615274 CATTCAATTT
Statistics
Matches: 106, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
37 13 0.12
38 10 0.09
39 5 0.05
40 77 0.73
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:181629909 original size:40 final size:40
Alignment explanation
Indices: 181629854--181630023 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
181629844 AACATTGGAA
181629854 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
181629894 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
181629934 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
181629973 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
181630014 CTATATCCGG
1 ATATATCCGG
181630024 TTAAATCCCG
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 109 0.98
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:181633130 original size:37 final size:37
Alignment explanation
Indices: 181633076--181633190 Score: 178
Period size: 37 Copynumber: 3.1 Consensus size: 37
181633066 AGATGAAATC
* *
181633076 TCCACACGAAGTTATCGGGTCTTACCCGGAATATATT
1 TCCACACGTAGTCATCGGGTCTTACCCGGAATATATT
*
181633113 TCCACACGTAGTCATCGGGTCTTACCCGGACATA-ATC
1 TCCACACGTAGTCATCGGGTCTTACCCGGA-ATATATT
*
181633150 TCCACACGTAGTCATCGGGTCTTACCCGAAATATATT
1 TCCACACGTAGTCATCGGGTCTTACCCGGAATATATT
181633187 TCCA
1 TCCA
181633191 AGTTTCATGT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
36 3 0.04
37 65 0.92
38 3 0.04
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (37 bp):
TCCACACGTAGTCATCGGGTCTTACCCGGAATATATT
Found at i:181633380 original size:48 final size:48
Alignment explanation
Indices: 181633326--181633564 Score: 433
Period size: 48 Copynumber: 5.0 Consensus size: 48
181633316 CCACACCTCC
* * *
181633326 TACATATTTCACACTAGCCCTTCGGCTTTACCACATATACGTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
181633374 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
181633422 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT-ATCTCA
181633471 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
181633519 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
181633565 TTATCTTGTG
Statistics
Matches: 187, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
48 139 0.74
49 48 0.26
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:181633503 original size:97 final size:97
Alignment explanation
Indices: 181633326--181633561 Score: 429
Period size: 97 Copynumber: 2.4 Consensus size: 97
181633316 CCACACCTCC
* * *
181633326 TACATATTTCACACTAGCCCTTCGGCTTTACCACATATACGT-ATCTCATACATATTTCACACTA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAATCTCATACATATTTCACACTA
181633390 GCCATTCGGCTTTACCACATATACATATCTCA
66 GCCATTCGGCTTTACCACATATACATATCTCA
*
181633422 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAATCTCATACATATTTCACATTA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAATCTCATACATATTTCACACTA
181633487 GCCATTCGGCTTTACCACATATACATATCTCA
66 GCCATTCGGCTTTACCACATATACATATCTCA
181633519 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
181633562 TCTTTATCTT
Statistics
Matches: 135, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
96 39 0.29
97 96 0.71
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (97 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAATCTCATACATATTTCACACTA
GCCATTCGGCTTTACCACATATACATATCTCA
Found at i:181640546 original size:32 final size:31
Alignment explanation
Indices: 181640505--181640568 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 31
181640495 ACCTTTACTC
*
181640505 TTTCTTCATGTTCTCACCTTGTCGTTTCGTTT
1 TTTCTTCATGTTCTCACCTTGTCATTTC-TTT
181640537 TTTCTTCATGTTCTCACCTTGTCATTTCTTT
1 TTTCTTCATGTTCTCACCTTGTCATTTCTTT
181640568 T
1 T
181640569 ACTTACTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 4 0.13
32 27 0.87
ACGTcount: A:0.08, C:0.25, G:0.09, T:0.58
Consensus pattern (31 bp):
TTTCTTCATGTTCTCACCTTGTCATTTCTTT
Found at i:181640675 original size:53 final size:53
Alignment explanation
Indices: 181640606--181640813 Score: 220
Period size: 53 Copynumber: 3.9 Consensus size: 53
181640596 TTTTCCTTTT
* * * **
181640606 TGAACTTACCATTGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTA
1 TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* *
181640659 TGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTA
1 TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTA
* * * * * *
181640712 TAGTAACTCATCAATACCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTA
1 T-G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* * * * *
181640767 TAAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
181640814 ATCTTACCAA
Statistics
Matches: 130, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
52 2 0.02
53 84 0.65
54 1 0.01
55 41 0.32
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (53 bp):
TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
Found at i:181640831 original size:46 final size:45
Alignment explanation
Indices: 181640771--181641045 Score: 200
Period size: 46 Copynumber: 6.0 Consensus size: 45
181640761 ACCTTATAAA
* * *
181640771 CTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTAT
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTAT
** *
181640816 CTTACCAAATGCCATGTTCC-AAACAT-GTCTTACATGGTATCCTTGT
1 CTTACC-AATGCCATG--CCTTGACATGGTCTTACATGGTATCCTTAT
* * *** *
181640862 CTTACAAATACCATGCTCCAAACATGGTCTTACATGGTATCCTTGT
1 CTTACCAATGCCATGC-CTTGACATGGTCTTACATGGTATCCTTAT
*** **
181640908 CTTAGTGCCAATGCCACATCTTGATGTGGTCTTACATGG-AGTCCTTAAT
1 CTTA---CCAATGCCATGCCTTGACATGGTCTTACATGGTA-TCCTT-AT
* * * * * *
181640957 -TAATGCCGATGCCATGTCTTGACATGGTCTTACACGGGATCCTT-C
1 CT--TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTAT
*
181641002 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTA
181641046 ACTCAATTCC
Statistics
Matches: 183, Mismatches: 31, Indels: 32
0.74 0.13 0.13
Matches are distributed among these distances:
43 1 0.01
44 38 0.21
45 19 0.10
46 57 0.31
47 35 0.19
48 24 0.13
49 8 0.04
50 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.35
Consensus pattern (45 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTAT
Found at i:181640986 original size:47 final size:47
Alignment explanation
Indices: 181640883--181641046 Score: 174
Period size: 47 Copynumber: 3.5 Consensus size: 47
181640873 CATGCTCCAA
** * **
181640883 ACATGGTCTTACATGGTATCCTTGTCTTAGTGCCAATGCCACATCTTG
1 ACATGGTCTTACATGGTATCCTT-AATTAATGCCAATGCCATGTCTTG
** *
181640931 ATGTGGTCTTACATGG-AGTCCTTAATTAATGCCGATGCCATGTCTTG
1 ACATGGTCTTACATGGTA-TCCTTAATTAATGCCAATGCCATGTCTTG
* * **
181640978 ACATGGTCTTACACGGGATCCTTCCTT-A--CCAATGCCATGTCTTG
1 ACATGGTCTTACATGGTATCCTTAATTAATGCCAATGCCATGTCTTG
181641022 ACATGGTCTTACATGGTATCCTTAA
1 ACATGGTCTTACATGGTATCCTTAA
181641047 CTCAATTCCT
Statistics
Matches: 96, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
44 36 0.38
46 1 0.01
47 39 0.41
48 20 0.21
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (47 bp):
ACATGGTCTTACATGGTATCCTTAATTAATGCCAATGCCATGTCTTG
Found at i:181641098 original size:44 final size:44
Alignment explanation
Indices: 181641048--181641131 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
181641038 TATCCTTAAC
* *
181641048 TCAATTCCTCCTTAAATGCCATGTTATCAA-CATGGTCTTTTCTA
1 TCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTCTA
* *
181641092 TCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
181641132 GAGATATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 3 0.09
44 32 0.91
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.39
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTCTA
Found at i:181643719 original size:31 final size:31
Alignment explanation
Indices: 181643679--181643824 Score: 258
Period size: 31 Copynumber: 4.7 Consensus size: 31
181643669 TTAGTCTTGA
* *
181643679 CATAT-ACTGGGCTGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
181643709 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
181643740 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
181643771 CATATCACTGGGCCGAAGTCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
181643802 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
181643825 ACTGTAAACG
Statistics
Matches: 111, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 5 0.05
31 106 0.95
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:181643957 original size:42 final size:42
Alignment explanation
Indices: 181643848--181643980 Score: 214
Period size: 42 Copynumber: 3.2 Consensus size: 42
181643838 TGGCCCTTAG
*
181643848 GCCCATTTCAATATCATATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
* * *
181643890 GCCAATTT-AATATCACATATAATGTCAATGGATGTGTGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
*
181643931 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
181643973 GCCCATTT
1 GCCCATTT
181643981 GGGGAGACTA
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 37 0.45
42 45 0.55
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
Found at i:181644162 original size:25 final size:24
Alignment explanation
Indices: 181644115--181644197 Score: 105
Period size: 24 Copynumber: 3.4 Consensus size: 24
181644105 CTAGAGGCCT
181644115 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
181644139 AGCCCTTTCTAATAAACTGGGGCAA
1 AGCCCTTT-TAATAAACTGGGGCAA
** * *
181644164 AGCCCTTTTGGTAAACTGGGGTAG
1 AGCCCTTTTAATAAACTGGGGCAA
181644188 AGCCCTTTTA
1 AGCCCTTTTA
181644198 GCACTTCCTC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
23 4 0.08
24 29 0.56
25 19 0.37
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:181645019 original size:25 final size:26
Alignment explanation
Indices: 181644991--181645082 Score: 64
Period size: 26 Copynumber: 3.5 Consensus size: 26
181644981 TCATATGGAA
*
181644991 CATAAGGGCGTATT-C-GTCATTTTAC
1 CATAAGGG-GTATTACAGTCACTTTAC
*
181645016 CATACAAGGGTATTACAGTCACTTTAC
1 CATA-AGGGGTATTACAGTCACTTTAC
* * **
181645043 CCTAAGGGGCT-TTACGGTCTTTTTAC
1 CATAAGGGG-TATTACAGTCACTTTAC
*
181645069 CTATTAGGGGTATT
1 C-ATAAGGGGTATT
181645083 TTAGTCATTT
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
25 9 0.17
26 22 0.42
27 21 0.40
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.36
Consensus pattern (26 bp):
CATAAGGGGTATTACAGTCACTTTAC
Found at i:181645153 original size:27 final size:27
Alignment explanation
Indices: 181645100--181645333 Score: 177
Period size: 27 Copynumber: 8.7 Consensus size: 27
181645090 TTTCATCCTA
* * * *
181645100 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* **
181645127 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* ** * *
181645154 CAATGGTATTTCTATAATTTTAGAAAGT
1 CAAGGGTATTTCGGTAATTTTACAAA-C
** ** *
181645182 CAAGGGTATTTCTATAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAC
* * * *
181645209 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAC
** *
181645236 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
181645263 C-AGTGGTATTTCGGTAATTTTACAAA-
1 CAAG-GGTATTTCGGTAATTTTACAAAC
* *
181645289 CTAGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTCGGTAATTTTACAAAC
* *
181645315 CTAGGGTATTTTGGTAATT
1 CAAGGGTATTTCGGTAATT
181645334 CTATCCTACA
Statistics
Matches: 173, Mismatches: 31, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
26 43 0.25
27 107 0.62
28 23 0.13
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTACAAAC
Found at i:181645304 original size:26 final size:26
Alignment explanation
Indices: 181645212--181645333 Score: 181
Period size: 27 Copynumber: 4.6 Consensus size: 26
181645202 TGTAAATTAG
*
181645212 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAACT-A
* * *
181645239 GGGTATTTCGGTAATTTCACAAACCA
1 GGGTATTTTGGTAATTTTACAAACTA
*
181645265 GTGGTATTTCGGTAATTTTACAAACTA
1 G-GGTATTTTGGTAATTTTACAAACTA
181645292 GGGTATTTTGGTAATTTTACAAACTA
1 GGGTATTTTGGTAATTTTACAAACTA
181645318 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
181645334 CTATCCTACA
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
26 42 0.48
27 45 0.52
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACTA
Found at i:181645314 original size:53 final size:53
Alignment explanation
Indices: 181645212--181645374 Score: 188
Period size: 52 Copynumber: 3.1 Consensus size: 53
181645202 TGTAAATTAG
*
181645212 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCA
1 GGGTATTTTGGTAATTTTACAAACTGAGGGTATTTCGGTAATTTCACAAACCA
* * * *
181645265 GTGGTATTTCGGTAATTTTACAAACT-AGGGTATTTTGGTAATTTTACAAACTA
1 G-GGTATTTTGGTAATTTTACAAACTGAGGGTATTTCGGTAATTTCACAAACCA
* ** * * *
181645318 GGGTATTTTGGTAATTCTATCCTAC--AGGGTATTTCAGTAATTTCACAATCGA
1 GGGTATTTTGGTAATTTTA-CAAACTGAGGGTATTTCGGTAATTTCACAAACCA
181645370 GGGTA
1 GGGTA
181645375 AAACGATAAT
Statistics
Matches: 94, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
52 43 0.46
53 29 0.31
54 22 0.23
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.39
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAACTGAGGGTATTTCGGTAATTTCACAAACCA
Found at i:181645351 original size:26 final size:26
Alignment explanation
Indices: 181645212--181645336 Score: 153
Period size: 26 Copynumber: 4.7 Consensus size: 26
181645202 TGTAAATTAG
* *
181645212 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTCTACAAACT-A
* *
181645239 GGGTATTTCGGTAATT-TCACAAACCA
1 GGGTATTTTGGTAATTCT-ACAAACTA
* *
181645265 GTGGTATTTCGGTAATTTTACAAACTA
1 G-GGTATTTTGGTAATTCTACAAACTA
*
181645292 GGGTATTTTGGTAATTTTACAAACTA
1 GGGTATTTTGGTAATTCTACAAACTA
181645318 GGGTATTTTGGTAATTCTA
1 GGGTATTTTGGTAATTCTA
181645337 TCCTACAGGG
Statistics
Matches: 89, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
26 45 0.51
27 43 0.48
28 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.41
Consensus pattern (26 bp):
GGGTATTTTGGTAATTCTACAAACTA
Found at i:181645372 original size:26 final size:26
Alignment explanation
Indices: 181645212--181645374 Score: 150
Period size: 26 Copynumber: 6.2 Consensus size: 26
181645202 TGTAAATTAG
* * *
181645212 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTCGGTAATTTCACAAA-CGA
*
181645239 GGGTATTTCGGTAATTTCACAAACCA
1 GGGTATTTCGGTAATTTCACAAACGA
* *
181645265 GTGGTATTTCGGTAATTTTACAAACTA
1 G-GGTATTTCGGTAATTTCACAAACGA
* * *
181645292 GGGTATTTTGGTAATTTTACAAACTA
1 GGGTATTTCGGTAATTTCACAAACGA
* **
181645318 GGGTATTTTGGTAA-TTCTATCCTAC-A
1 GGGTATTTCGGTAATTTC-A-CAAACGA
* *
181645344 GGGTATTTCAGTAATTTCACAATCGA
1 GGGTATTTCGGTAATTTCACAAACGA
181645370 GGGTA
1 GGGTA
181645375 AAACGATAAT
Statistics
Matches: 116, Mismatches: 15, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
25 4 0.03
26 61 0.53
27 51 0.44
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.39
Consensus pattern (26 bp):
GGGTATTTCGGTAATTTCACAAACGA
Found at i:181645400 original size:27 final size:27
Alignment explanation
Indices: 181645364--181645507 Score: 164
Period size: 27 Copynumber: 5.3 Consensus size: 27
181645354 GTAATTTCAC
*
181645364 AATCGAGGGTAAAACGATAA-TCTTGTA
1 AATCGAGGGTAAAACGATAATTC-TATA
* * *
181645391 AATTGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGATAATTCTATA
* * * *
181645418 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGATAATTCTATA
*
181645445 AATCGAGGGTGAAACGATAATTCTATA
1 AATCGAGGGTAAAACGATAATTCTATA
* * *
181645472 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGATAATTCTATA
181645499 AATCGAGGG
1 AATCGAGGG
181645508 CATTTTAGTA
Statistics
Matches: 100, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
27 98 0.98
28 2 0.02
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGATAATTCTATA
Found at i:181645486 original size:54 final size:54
Alignment explanation
Indices: 181645364--181645507 Score: 198
Period size: 54 Copynumber: 2.7 Consensus size: 54
181645354 GTAATTTCAC
* * * * * *
181645364 AATCGAGGGTAAAACGATAATCTTGTAAATTGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATA
*
181645418 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTGAAACGATAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATA
* **
181645472 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGG
181645508 CATTTTAGTA
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 80 1.00
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (54 bp):
AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATA
Found at i:181645519 original size:81 final size:81
Alignment explanation
Indices: 181645364--181645527 Score: 222
Period size: 81 Copynumber: 2.0 Consensus size: 81
181645354 GTAATTTCAC
* * * *
181645364 AATCGAGGGTAAAACGATAATCTTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTA
1 AATCGAGGGTAAAACGATAATCTTATAAATCGAGGGTAAAATGGTAATTCTACAAATCGAGGGCA
* *
181645429 AAATGGTAATTTTGTA
66 AAATAGTAATTTGGTA
*
181645445 AATCGAGGGTGAAACGATAAT-TCTATAAATCGAGGGTAAAATGGTAATTCTACAAATCGAGGGC
1 AATCGAGGGTAAAACGATAATCT-TATAAATCGAGGGTAAAATGGTAATTCTACAAATCGAGGGC
***
181645509 ATTTTAGTAATTTGGTA
65 AAAATAGTAATTTGGTA
181645526 AA
1 AA
181645528 CTAAAGTATT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 1 0.01
81 71 0.99
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (81 bp):
AATCGAGGGTAAAACGATAATCTTATAAATCGAGGGTAAAATGGTAATTCTACAAATCGAGGGCA
AAATAGTAATTTGGTA
Found at i:181647840 original size:40 final size:40
Alignment explanation
Indices: 181647755--181647905 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
181647745 AATTGAATGA
* * *
181647755 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGATA-TAC
* * *
181647795 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGGCTAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGAT--ATAC
*
181647836 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGATATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGATATAC
*
181647875 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
181647906 ACGTGATTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
39 5 0.05
40 82 0.90
41 4 0.04
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGATATAC
Found at i:181647919 original size:40 final size:40
Alignment explanation
Indices: 181647791--181647921 Score: 158
Period size: 40 Copynumber: 3.3 Consensus size: 40
181647781 TATGCTGGAA
* * *
181647791 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * *
181647831 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TG
*
181647871 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
181647911 ATTATATCCGG
1 ATTATATCCGG
181647922 TTATATTCCG
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.03
40 72 0.96
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:181654526 original size:29 final size:29
Alignment explanation
Indices: 181654424--181654525 Score: 125
Period size: 29 Copynumber: 3.5 Consensus size: 29
181654414 GTGACGAGAT
181654424 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
181654453 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
181654482 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
181654511 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
181654526 GGTTTAAAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 61 0.98
30 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:181654581 original size:28 final size:28
Alignment explanation
Indices: 181654513--181654612 Score: 114
Period size: 29 Copynumber: 3.5 Consensus size: 28
181654503 GAAGGGTATG
* * *
181654513 GCACTAAGTGTGCG-GTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
181654542 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
181654570 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
181654599 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
181654613 GATTCACTAT
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 33 0.52
30 4 0.06
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:181670595 original size:43 final size:44
Alignment explanation
Indices: 181670541--181670635 Score: 120
Period size: 43 Copynumber: 2.2 Consensus size: 44
181670531 GCCTCAGCGA
* * *
181670541 AGCAGATTGAAGTCACTAGCCTTATCTCCTTGAAGT-GCAATGG
1 AGCAGACTGAAGTCACAAGCCTCATCTCCTTGAAGTCGCAATGG
* * *
181670584 AGCAGACTGAAGTTACAAGTCTCATCTCCTTGAAGTCGCAGTGG
1 AGCAGACTGAAGTCACAAGCCTCATCTCCTTGAAGTCGCAATGG
*
181670628 AGTAGACT
1 AGCAGACT
181670636 AAATGTACAG
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 31 0.70
44 13 0.30
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (44 bp):
AGCAGACTGAAGTCACAAGCCTCATCTCCTTGAAGTCGCAATGG
Found at i:181672804 original size:46 final size:44
Alignment explanation
Indices: 181672745--181672859 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
181672735 ACAGGACAGA
* *
181672745 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
181672791 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
181672835 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
181672860 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:181672840 original size:44 final size:45
Alignment explanation
Indices: 181672745--181672878 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
181672735 ACAGGACAGA
* *
181672745 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
181672791 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
181672835 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
181672879 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:181678728 original size:46 final size:44
Alignment explanation
Indices: 181678669--181678783 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
181678659 ACAGGACAGA
* *
181678669 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
181678715 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
181678759 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
181678784 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:181678764 original size:44 final size:45
Alignment explanation
Indices: 181678669--181678802 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
181678659 ACAGGACAGA
* *
181678669 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
181678715 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
181678759 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
181678803 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:181681625 original size:18 final size:19
Alignment explanation
Indices: 181681602--181681644 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
181681592 ATATATTCTC
181681602 ATTATTATCATT-ACTTTT
1 ATTATTATCATTAACTTTT
* *
181681620 ATTATTATTATTAATTTTT
1 ATTATTATCATTAACTTTT
181681639 ATTATT
1 ATTATT
181681645 TGACGTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTATTATCATTAACTTTT
Found at i:181681758 original size:24 final size:23
Alignment explanation
Indices: 181681714--181681770 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
181681704 TTTTACTTAT
*
181681714 TTTCTTATTACTTAGTTATTTACG
1 TTTCTTATTACTTAGTAATTT-CG
181681738 TTTCTTATTCACTTA-TAATTTCG
1 TTTCTTATT-ACTTAGTAATTTCG
*
181681761 -TTATTATTAC
1 TTTCTTATTAC
181681771 GTATAAGCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 2 0.07
22 7 0.23
23 2 0.07
24 14 0.47
25 5 0.17
ACGTcount: A:0.23, C:0.14, G:0.05, T:0.58
Consensus pattern (23 bp):
TTTCTTATTACTTAGTAATTTCG
Found at i:181682874 original size:7 final size:7
Alignment explanation
Indices: 181682854--181682886 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
181682844 CAACTATTAG
181682854 TATAATA
1 TATAATA
181682861 -ATAATA
1 TATAATA
*
181682867 TTTAATA
1 TATAATA
181682874 TATAATA
1 TATAATA
181682881 TATAAT
1 TATAAT
181682887 GTACTACTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TATAATA
Found at i:181683181 original size:17 final size:18
Alignment explanation
Indices: 181683150--181683183 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
181683140 AATTTAACTT
181683150 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
*
181683168 TAATT-AATTTTTTAAA
1 TAATTAAATTATTTAAA
181683184 TTATAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:181683477 original size:21 final size:20
Alignment explanation
Indices: 181683453--181683510 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
181683443 AGGATTTAAT
*
181683453 GTTTAGGGTTCATGGTTATGG
1 GTTTAGGGTTCATGGTTAT-A
181683474 GTTTAGGGTTACAT-GTTATA
1 GTTTAGGGTT-CATGGTTATA
* *
181683494 GTTTAGTGTTCAGGGTT
1 GTTTAGGGTTCATGGTT
181683511 TAAATATTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
19 2 0.06
20 12 0.38
21 15 0.47
22 3 0.09
ACGTcount: A:0.17, C:0.05, G:0.33, T:0.45
Consensus pattern (20 bp):
GTTTAGGGTTCATGGTTATA
Found at i:181684325 original size:19 final size:18
Alignment explanation
Indices: 181684281--181684326 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
181684271 ATCAAATTAA
*
181684281 AATAAAAATAAAATATAG
1 AATAAAAATAAAATAAAG
* *
181684299 AATCAAAACTAAAATAAAT
1 AAT-AAAAATAAAATAAAG
181684318 AATAAAAAT
1 AATAAAAAT
181684327 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.22
Consensus pattern (18 bp):
AATAAAAATAAAATAAAG
Found at i:181686217 original size:46 final size:44
Alignment explanation
Indices: 181686158--181686272 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
181686148 ACAGGACAGA
* *
181686158 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
181686204 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
181686248 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
181686273 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:181686253 original size:44 final size:45
Alignment explanation
Indices: 181686158--181686291 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
181686148 ACAGGACAGA
* *
181686158 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
181686204 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
181686248 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
181686292 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:181693576 original size:46 final size:44
Alignment explanation
Indices: 181693517--181693631 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
181693507 ACAGGACAGA
* *
181693517 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
181693563 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
181693607 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
181693632 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:181693612 original size:44 final size:45
Alignment explanation
Indices: 181693517--181693650 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
181693507 ACAGGACAGA
* *
181693517 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
181693563 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
181693607 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
181693651 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:181698396 original size:14 final size:14
Alignment explanation
Indices: 181698377--181698406 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
181698367 AAATCAAAGG
181698377 GATGGAGATTTAGA
1 GATGGAGATTTAGA
181698391 GATGGAGATTTAGA
1 GATGGAGATTTAGA
181698405 GA
1 GA
181698407 AGCAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.37, T:0.27
Consensus pattern (14 bp):
GATGGAGATTTAGA
Found at i:181698493 original size:14 final size:14
Alignment explanation
Indices: 181698474--181698503 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
181698464 AATGGTGGAA
*
181698474 GGATTTTGATTTGG
1 GGATTTCGATTTGG
181698488 GGATTTCGATTTGG
1 GGATTTCGATTTGG
181698502 GG
1 GG
181698504 GAAAAATTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.03, G:0.40, T:0.43
Consensus pattern (14 bp):
GGATTTCGATTTGG
Found at i:181698548 original size:13 final size:13
Alignment explanation
Indices: 181698532--181698565 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
181698522 TGGGGATACC
181698532 GATTTTAGGAGGA
1 GATTTTAGGAGGA
*
181698545 GATTTTAGGGGGA
1 GATTTTAGGAGGA
*
181698558 AATTTTAG
1 GATTTTAG
181698566 ACGTCCCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.35
Consensus pattern (13 bp):
GATTTTAGGAGGA
Found at i:181699980 original size:21 final size:22
Alignment explanation
Indices: 181699944--181699984 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
181699934 TGTTTTTTGG
181699944 AGTTTAGGGTTTTAGGGGTTAT
1 AGTTTAGGGTTTTAGGGGTTAT
*
181699966 AGTTTAGTG-TTTAGGGGTT
1 AGTTTAGGGTTTTAGGGGTT
181699985 TTTAGAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.46
Consensus pattern (22 bp):
AGTTTAGGGTTTTAGGGGTTAT
Found at i:181700111 original size:39 final size:40
Alignment explanation
Indices: 181700067--181700151 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 40
181700057 ATTATATGAC
*
181700067 TTTTAGCGGCGTTTTAT-CGAAAGCG-CGCTAATGCTCTGG
1 TTTTAGC-GCGTTTTATCCAAAAGCGCCGCTAATGCTCTGG
* * *
181700106 TTTTAGCGCGTTTTTTCCAAAAGCGCCCGCTATTGCTCTGT
1 TTTTAGCGCGTTTTATCCAAAAGCG-CCGCTAATGCTCTGG
181700147 TTTTA
1 TTTTA
181700152 TAAAACGCCG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 8 0.21
39 14 0.36
41 17 0.44
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.39
Consensus pattern (40 bp):
TTTTAGCGCGTTTTATCCAAAAGCGCCGCTAATGCTCTGG
Found at i:181702651 original size:71 final size:71
Alignment explanation
Indices: 181702565--181702728 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
181702555 CGATTTGTCT
181702565 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
181702630 CTTTCA
66 CTTTCA
181702636 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
181702701 CTTTCA
66 CTTTCA
181702707 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
181702729 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:181702766 original size:71 final size:70
Alignment explanation
Indices: 181702565--181702762 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
181702555 CGATTTGTCT
* * * *
181702565 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
181702630 CTTTCA
65 CTTTCA
* * * *
181702636 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
181702701 CTTTCA
65 CTTTCA
* *
181702707 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
181702763 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:181709749 original size:71 final size:71
Alignment explanation
Indices: 181709664--181709827 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
181709654 CAATTTGTCT
181709664 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCAACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCAACCTAGCTACATTTAT
181709729 CTTTCA
66 CTTTCA
*
181709735 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCAACCTAGCTACATTTAT
181709800 CTTTCA
66 CTTTCA
181709806 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
181709828 GATACATCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCAACCTAGCTACATTTAT
CTTTCA
Found at i:181711288 original size:40 final size:39
Alignment explanation
Indices: 181711244--181711473 Score: 302
Period size: 39 Copynumber: 5.9 Consensus size: 39
181711234 GTTCAAAACA
* * ** * *
181711244 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
181711284 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
181711324 CCTTCGGGCTTAG-CCGGATATCATAGCTCG-ACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
*
181711361 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
181711400 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
181711439 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
181711474 TTCATTCACA
Statistics
Matches: 174, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
37 20 0.11
38 32 0.18
39 82 0.47
40 40 0.23
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:181711392 original size:76 final size:78
Alignment explanation
Indices: 181711274--181711473 Score: 305
Period size: 76 Copynumber: 2.6 Consensus size: 78
181711264 TATGGTAACC
* *
181711274 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAG-C
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
* *
181711338 CGGATATCATAGCT
65 CGGATATCACAACT
* *
181711352 CG-ACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
*
181711416 GGATATCACAATT
66 GGATATCACAACT
*
181711429 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
181711474 TTCATTCACA
Statistics
Matches: 110, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
76 41 0.37
77 28 0.25
78 41 0.37
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (78 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
GGATATCACAACT
Found at i:181711408 original size:39 final size:39
Alignment explanation
Indices: 181711274--181711473 Score: 305
Period size: 39 Copynumber: 5.2 Consensus size: 39
181711264 TATGGTAACC
* *
181711274 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
181711314 CGCACAATTGCCTTCGGGCTTAG-CCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
181711352 CG-ACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
181711390 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
181711429 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
181711468 CGCACA
1 CGCACA
181711474 TTCATTCACA
Statistics
Matches: 151, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
37 20 0.13
38 32 0.21
39 82 0.54
40 17 0.11
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:181719272 original size:40 final size:39
Alignment explanation
Indices: 181719214--181719406 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
181719204 CGTTCAAAAC
* * ** * *
181719214 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
181719254 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
181719294 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
181719333 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
181719372 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
181719407 TTCATTCACA
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:181719325 original size:39 final size:39
Alignment explanation
Indices: 181719244--181719406 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
181719234 TATGGTAACC
* *
181719244 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
181719284 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
181719323 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
181719362 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
181719401 CGCACA
1 CGCACA
181719407 TTCATTCACA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:181727189 original size:40 final size:39
Alignment explanation
Indices: 181727131--181727323 Score: 260
Period size: 39 Copynumber: 4.9 Consensus size: 39
181727121 TCGTTCAAAC
* * ** * *
181727131 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
181727171 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
181727211 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
*
181727250 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
181727289 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
181727324 TTCATACACA
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:181730513 original size:29 final size:29
Alignment explanation
Indices: 181730473--181730546 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
181730463 GTTGAGAGAT
* *
181730473 TGGCACTGAGTGTGCGAGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* * *
181730502 TGGCACTAAGTGTACGAGTTTAAAGTATA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
181730531 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
181730547 CGGCTGATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 5 0.13
29 33 0.87
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:181736993 original size:40 final size:40
Alignment explanation
Indices: 181736801--181736986 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
181736791 TCGAATGATG
* * *
181736801 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
181736841 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
181736881 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
181736921 TCCGGGTTAAGTCCCGAAGGCATCTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
181736962 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
181736987 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:181736993 original size:80 final size:80
Alignment explanation
Indices: 181736801--181737019 Score: 238
Period size: 80 Copynumber: 2.8 Consensus size: 80
181736791 TCGAATGATG
* * **
181736801 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
181736865 CGTGCGAGTTACTAAA
65 CGTGCGAGTTACTAAA
* *
181736881 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCAT
181736943 TCTGTGCGAGTTACTATAA
64 TC-GTGCGAGTTACTA-AA
* **
181736962 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
181737020 TACGTGATTC
Statistics
Matches: 119, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
79 19 0.16
80 90 0.76
81 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:181740607 original size:28 final size:27
Alignment explanation
Indices: 181740544--181740613 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
181740534 ATAGTGAGTC
181740544 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
181740571 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
181740599 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
181740614 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:181748630 original size:28 final size:27
Alignment explanation
Indices: 181748567--181748636 Score: 113
Period size: 28 Copynumber: 2.6 Consensus size: 27
181748557 ATAGTGAGTC
*
181748567 CGCACACTTAGTGCTATATAACCAACT
1 CGCACACTTAGTGCTATATAACAAACT
*
181748594 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATAT-AACAAACT
181748622 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
181748637 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 19 0.47
28 21 0.52
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAACAAACT
Found at i:181750801 original size:68 final size:70
Alignment explanation
Indices: 181750729--181750926 Score: 285
Period size: 71 Copynumber: 2.8 Consensus size: 70
181750719 ACACCCTGTA
* * * *
181750729 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
181750791 ATAAAT
65 ATAAAT
*
181750797 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
*
181750862 GTAAAT
65 ATAAAT
*
181750868 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
181750927 AGACAAATCG
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.03
70 1 0.01
71 92 0.77
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:181750852 original size:71 final size:71
Alignment explanation
Indices: 181750763--181750926 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
181750753 GAGATGTATC
181750763 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
181750828 AGGACA
66 AGGACA
*
181750834 CCATGTAGACAAGAGAGCTACGTGAAAGGTAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
181750899 AGGACA
66 AGGACA
181750905 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
181750927 AGACAAATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:181755364 original size:42 final size:42
Alignment explanation
Indices: 181755271--181755392 Score: 117
Period size: 41 Copynumber: 2.9 Consensus size: 42
181755261 TTTTATCAAA
* * *
181755271 TCACCGGC-TTTCAGCTTGCTAGGTTTTAAACCCGAATTCAT
1 TCACCGGCATTTCAGCTTGCTAGGCTTGAAGCCCGAATTCAT
**
181755312 TCATTGGCATTTCA-CTTGCTAGGCTTGAAGCCCG-ATATCATT
1 TCACCGGCATTTCAGCTTGCTAGGCTTGAAGCCCGAAT-TCA-T
* *
181755354 TCACCGGCATTAT-AGCCTGCTAGGCTCGAAGGCCCGAAT
1 TCACCGGCATT-TCAGCTTGCTAGGCTTGAA-GCCCGAAT
181755393 AGTATATCAC
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
40 2 0.03
41 26 0.40
42 16 0.25
43 14 0.22
44 5 0.08
45 2 0.03
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.30
Consensus pattern (42 bp):
TCACCGGCATTTCAGCTTGCTAGGCTTGAAGCCCGAATTCAT
Found at i:181755409 original size:45 final size:45
Alignment explanation
Indices: 181755328--181755445 Score: 161
Period size: 45 Copynumber: 2.7 Consensus size: 45
181755318 GCATTTCACT
* * *
181755328 TGCTAGGCTTGAA-GCCCG-ATA-TCATTTCACCGGCATTATAGCC
1 TGCTAGGCTCGAAGGCCCGAATAGT-ATATCACCAGCATTATAGCC
181755371 TGCTAGGCTCGAAGGCCCGAATAGTATATCACCAGCATTATAGCC
1 TGCTAGGCTCGAAGGCCCGAATAGTATATCACCAGCATTATAGCC
* *
181755416 TGCTAGGCTCAAAGGCCTGAATAGTATATC
1 TGCTAGGCTCGAAGGCCCGAATAGTATATC
181755446 TGTGACAGCC
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
43 12 0.18
44 5 0.07
45 49 0.73
46 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (45 bp):
TGCTAGGCTCGAAGGCCCGAATAGTATATCACCAGCATTATAGCC
Found at i:181757243 original size:40 final size:39
Alignment explanation
Indices: 181757167--181757291 Score: 171
Period size: 40 Copynumber: 3.2 Consensus size: 39
181757157 GGACTAAGAT
* *
181757167 CCGAAGGCATTTGT-CTAGTCACTATATCCGAGCTAAGTC
1 CCGAAGGCATTTGTGCAAGTTACTATATCCG-GCTAAGTC
* *
181757206 TCGAAGGCATTTGTGCGAGTTACTATATCCGGTCTAAGTC
1 CCGAAGGCATTTGTGCAAGTTACTATATCCGG-CTAAGTC
* *
181757246 CCGAAGGCATTTGTGCAAGTTGCTATATCCGGCTAAATC
1 CCGAAGGCATTTGTGCAAGTTACTATATCCGGCTAAGTC
181757285 CCGAAGG
1 CCGAAGG
181757292 TACTTGGGTT
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
39 27 0.35
40 50 0.65
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCAAGTTACTATATCCGGCTAAGTC
Found at i:181765210 original size:40 final size:40
Alignment explanation
Indices: 181765162--181765327 Score: 228
Period size: 40 Copynumber: 4.2 Consensus size: 40
181765152 GGACTAAGAT
*
181765162 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
* * *
181765202 TCGAAGGCATTTGTGCGAGTTACTATATCCGAGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
* * *
181765242 CCGAAGGCATTTGTGTGAGTTACTATATCCGAGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
* *
181765282 CCGAAGGCATTTGTGCGAGTTG-CTATAT-CTGGCTAAATC
1 CCGAAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAGTC
181765321 CCGAAGG
1 CCGAAGG
181765328 TACTTGGGTT
Statistics
Matches: 114, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 15 0.13
40 98 0.86
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
Found at i:181765288 original size:80 final size:79
Alignment explanation
Indices: 181765162--181765327 Score: 253
Period size: 80 Copynumber: 2.1 Consensus size: 79
181765152 GGACTAAGAT
* *
181765162 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
*
181765227 TATCCGAGCTAAGTC
66 TATCCG-GCTAAATC
* *
181765242 CCGAAGGCATTTGTG-TGAGTTACTATATCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
1 CCGAAGGCATTTGTGCT-AGTGACTATATCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
181765306 ATATCTGGCTAAATC
65 ATATCCGGCTAAATC
181765321 CCGAAGG
1 CCGAAGG
181765328 TACTTGGGTT
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
79 15 0.19
80 64 0.81
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
TATCCGGCTAAATC
Found at i:181769767 original size:40 final size:40
Alignment explanation
Indices: 181769722--181769851 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
181769712 CGGAATACAA
181769722 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
181769762 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
181769802 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGATCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
181769842 CCGGATATAA
1 CCGGATATAA
181769852 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.04
40 72 0.96
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:181796679 original size:16 final size:16
Alignment explanation
Indices: 181796658--181796689 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
181796648 TAAGCTAACA
181796658 AAGTAAATGTTAACGT
1 AAGTAAATGTTAACGT
181796674 AAGTAAATGTTAACGT
1 AAGTAAATGTTAACGT
181796690 GAAATGAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
AAGTAAATGTTAACGT
Found at i:181797357 original size:26 final size:26
Alignment explanation
Indices: 181797328--181797437 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
181797318 TGATACAAAT
181797328 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
181797354 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
181797380 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
181797406 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
181797432 TGATAA
1 TGATAA
181797438 GAAATTCATG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:181799195 original size:21 final size:21
Alignment explanation
Indices: 181799169--181799216 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
181799159 ATTCCCCACA
181799169 TGGAGTGTA-TGGCTGGTAGGG
1 TGGAGTGTAGTGGCTGGT-GGG
*
181799190 TGGAGTGTAGTGGTTGGTGGG
1 TGGAGTGTAGTGGCTGGTGGG
*
181799211 TTGAGT
1 TGGAGT
181799217 AGTCTCCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.12, C:0.02, G:0.52, T:0.33
Consensus pattern (21 bp):
TGGAGTGTAGTGGCTGGTGGG
Found at i:181806900 original size:80 final size:80
Alignment explanation
Indices: 181806816--181806964 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
181806806 TATGGTAACC
* * * *
181806816 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
181806880 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
181806896 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
181806961 CCGG
66 CCGG
181806965 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:181806906 original size:40 final size:38
Alignment explanation
Indices: 181806857--181806964 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
181806847 ATCACGATTT
*
181806857 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
181806897 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
181806937 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
181806965 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:181809582 original size:40 final size:40
Alignment explanation
Indices: 181809474--181809683 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
181809464 CGGGATTTAA
* * * * *
181809474 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
181809514 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
181809554 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
181809594 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
181809634 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
181809674 CCGGATATAT
1 CCGGATATAT
181809684 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:181817893 original size:22 final size:22
Alignment explanation
Indices: 181817865--181817909 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
181817855 AATATAAAGT
*
181817865 AAATAAAGTAATCATCATTGGG
1 AAATAAAATAATCATCATTGGG
181817887 AAATAAAATAATCATCATTGGG
1 AAATAAAATAATCATCATTGGG
181817909 A
1 A
181817910 CATCCTTGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.09, G:0.16, T:0.27
Consensus pattern (22 bp):
AAATAAAATAATCATCATTGGG
Found at i:181822977 original size:36 final size:36
Alignment explanation
Indices: 181822937--181823010 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
181822927 TGCATAGCGA
181822937 AATTGTGATAA-GAAAATATTAGTTCATTGATTATCT
1 AATTGTGATAATG-AAATATTAGTTCATTGATTATCT
181822973 AATTGTGATAATGAAATATTAGTTCATTGATTATCT
1 AATTGTGATAATGAAATATTAGTTCATTGATTATCT
181823009 AA
1 AA
181823011 GTTCAAACTG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 36 0.97
37 1 0.03
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.42
Consensus pattern (36 bp):
AATTGTGATAATGAAATATTAGTTCATTGATTATCT
Found at i:181835276 original size:127 final size:129
Alignment explanation
Indices: 181835118--181835348 Score: 371
Period size: 127 Copynumber: 1.8 Consensus size: 129
181835108 ATTCGTGAAG
* *
181835118 TGAAATTTTAAAAGGATATTCAGTTATTTGGTCAAAC-GATAAATCGAAACCCAGCACGTTAGGG
1 TGAAATTTTAAAAGGATATTCAGTCATTTGGTCAAACGGA-AAATCGAAACCCAACACGTTAGGG
*
181835182 CACGATTTCTCGAA-TT-CCAAACACGAAA-ATTGCCTTGCTTTATTAATTGAAGAAAACACAGA
65 CACGATTTCTCGAATTTCCCAAACACAAAATATTGCCTTGCTTTATTAATTGAAGAAAACACAGA
*
181835244 TGAAATTTTAAAAAGGATATTCAGTCATTTGGTCGAACGGAAAATCGAAACCCAACACGTTAGGG
1 TGAAATTTT-AAAAGGATATTCAGTCATTTGGTCAAACGGAAAATCGAAACCCAACACGTTAGGG
*
181835309 CACGATTTCTTGAATTTCCCAAACACAAAATATTGCCTTG
65 CACGATTTCTCGAATTTCCCAAACACAAAATATTGCCTTG
181835349 TTCTCGAAAG
Statistics
Matches: 95, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
126 9 0.09
127 62 0.65
128 4 0.04
129 11 0.12
130 9 0.09
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (129 bp):
TGAAATTTTAAAAGGATATTCAGTCATTTGGTCAAACGGAAAATCGAAACCCAACACGTTAGGGC
ACGATTTCTCGAATTTCCCAAACACAAAATATTGCCTTGCTTTATTAATTGAAGAAAACACAGA
Found at i:181838059 original size:45 final size:44
Alignment explanation
Indices: 181838017--181838125 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 44
181838007 TCGTCTTCGA
* *
181838017 TCTGC-CCCACTGCTATCTCAAGGAGACAAAATCTACAATCTTCAG
1 TCTGCTCCC-CTGCTACCTCAAGAAGACAAAA-CTACAATCTTCAG
* * *
181838062 TCTGCTCCCTTGCTACCTCAAGAAGATAAGACTACAATCTTCAG
1 TCTGCTCCCCTGCTACCTCAAGAAGACAAAACTACAATCTTCAG
* * *
181838106 CCTACTCCCTTGCTACCTCA
1 TCTGCTCCCCTGCTACCTCA
181838126 GAGAGATAAG
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
44 31 0.55
45 22 0.39
46 3 0.05
ACGTcount: A:0.28, C:0.34, G:0.12, T:0.27
Consensus pattern (44 bp):
TCTGCTCCCCTGCTACCTCAAGAAGACAAAACTACAATCTTCAG
Found at i:181838114 original size:44 final size:44
Alignment explanation
Indices: 181838049--181838135 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
181838039 GAGACAAAAT
* *
181838049 CTACAATCTTCAGTCTGCTCCCTTGCTACCTCA-AGAAGATAAGA
1 CTACAATCTTCAGCCTACTCCCTTGCTACCTCAGAG-AGATAAGA
181838093 CTACAATCTTCAGCCTACTCCCTTGCTACCTCAGAGAGATAAG
1 CTACAATCTTCAGCCTACTCCCTTGCTACCTCAGAGAGATAAG
181838136 GCTGGTGGCT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 38 0.95
45 2 0.05
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (44 bp):
CTACAATCTTCAGCCTACTCCCTTGCTACCTCAGAGAGATAAGA
Found at i:181838136 original size:178 final size:177
Alignment explanation
Indices: 181837773--181838174 Score: 624
Period size: 178 Copynumber: 2.3 Consensus size: 177
181837763 CAACTTTAGG
* ** * **
181837773 GAGATAAGGCTGGTGACTTTAATCTGCTCCCCTACTACCTCAAGAAGATAAGATTCATCATCTTC
1 GAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCATCATCTTC
* * * *
181837838 GATCTTCCCCACTACTATCTCGAGGAGACAAATCTACAGTCTTCAGTCTGCTCCCTTGCTACGTC
66 GATCTGCCCCACTACTATCTCAAGGAGACAAATCTACAATCTTCAGTCTGCTCCCTTGCTACCTC
* * *
181837903 AGGAAAATAAGACTACAATCTCCAGCCTACTCCCTTGCTACTTTAGA
131 AAGAAAATAAGACTACAATCTCCAGCCTACTCCCTTGCTACCTCAGA
* *
181837950 GAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTGCCTCGGGAAGATAAGATTCATCGTCTTC
1 GAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCATCATCTTC
*
181838015 GATCTGCCCCACTGCTATCTCAAGGAGACAAAATCTACAATCTTCAGTCTGCTCCCTTGCTACCT
66 GATCTGCCCCACTACTATCTCAAGGAGAC-AAATCTACAATCTTCAGTCTGCTCCCTTGCTACCT
* *
181838080 CAAGAAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTACCTCAGA
130 CAAGAAAATAAGACTACAATCTCCAGCCTACTCCCTTGCTACCTCAGA
*
181838128 GAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGGTACCTCGGGAAG
1 GAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAG
181838175 TGATAAACTG
Statistics
Matches: 204, Mismatches: 20, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
177 83 0.41
178 121 0.59
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (177 bp):
GAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCATCATCTTC
GATCTGCCCCACTACTATCTCAAGGAGACAAATCTACAATCTTCAGTCTGCTCCCTTGCTACCTC
AAGAAAATAAGACTACAATCTCCAGCCTACTCCCTTGCTACCTCAGA
Found at i:181838914 original size:12 final size:13
Alignment explanation
Indices: 181838878--181838915 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
181838868 AAATATTTAA
181838878 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
181838891 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
181838905 CTTG-TCTTAAT
1 CTTGTTCTTAAT
181838916 ATTCCAAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:181843863 original size:143 final size:141
Alignment explanation
Indices: 181843655--181843949 Score: 563
Period size: 143 Copynumber: 2.1 Consensus size: 141
181843645 TGAGTTAAAT
*
181843655 TTCGGCCATGCATGTTGTTTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
181843720 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTA--TGTGT
181843785 GTGTGCATGAGTA
129 GTGTGCATGAGTA
181843798 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
181843863 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
181843928 GTGCATGAGTA
131 GTGCATGAGTA
181843939 TTCGGCCATGC
1 TTCGGCCATGC
181843950 TATAGAATTT
Statistics
Matches: 151, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
141 29 0.19
143 122 0.81
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (141 bp):
TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
GTGCATGAGTA
Found at i:181850552 original size:81 final size:81
Alignment explanation
Indices: 181850417--181850579 Score: 310
Period size: 81 Copynumber: 2.0 Consensus size: 81
181850407 TGTCGAGCCC
181850417 AAGTATAGTCCTATTCGGAAAAGGCTACTTTTGAGTGCTCTAGGCATTTTAAAGCCTATTTAAAC
1 AAGTATAGTCCTATTCGGAAAAGGCTACTTTTGAGTGCTCTAGGCATTTTAAAGCCTATTTAAAC
181850482 ACCTGAGGAGGCACTT
66 ACCTGAGGAGGCACTT
181850498 AAGTATAGTCCTATTCGG-AAAGGCTACTTTTGAGTGCTCTTAGGCATTTTAAAGCCTATTTAAA
1 AAGTATAGTCCTATTCGGAAAAGGCTACTTTTGAGTGCTC-TAGGCATTTTAAAGCCTATTTAAA
181850562 CACCTGAGGAGGCACTT
65 CACCTGAGGAGGCACTT
181850579 A
1 A
181850580 GAACATACAC
Statistics
Matches: 81, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
80 21 0.26
81 60 0.74
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.31
Consensus pattern (81 bp):
AAGTATAGTCCTATTCGGAAAAGGCTACTTTTGAGTGCTCTAGGCATTTTAAAGCCTATTTAAAC
ACCTGAGGAGGCACTT
Found at i:181857304 original size:40 final size:39
Alignment explanation
Indices: 181857259--181857386 Score: 161
Period size: 40 Copynumber: 3.3 Consensus size: 39
181857249 CGGAATACAA
181857259 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
181857299 CCGGATAGAACGAC-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
* * * *
181857337 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
181857377 CCGGATATAA
1 CCGGATATAA
181857387 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
38 33 0.44
39 2 0.03
40 40 0.53
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:181865396 original size:40 final size:39
Alignment explanation
Indices: 181865351--181865478 Score: 161
Period size: 40 Copynumber: 3.3 Consensus size: 39
181865341 CGGAATACAA
181865351 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
181865391 CCGGATAGAACGAC-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
* * * *
181865429 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
181865469 CCGGATATAA
1 CCGGATATAA
181865479 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
38 33 0.44
39 2 0.03
40 40 0.53
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:181872416 original size:5 final size:5
Alignment explanation
Indices: 181872406--181872430 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
181872396 TATTGGGGTT
181872406 GACAG GACAG GACAG GACAG GACAG
1 GACAG GACAG GACAG GACAG GACAG
181872431 AAATGAGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.40, T:0.00
Consensus pattern (5 bp):
GACAG
Found at i:181883430 original size:40 final size:40
Alignment explanation
Indices: 181883385--181883552 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
181883375 CGGAATATAA
*
181883385 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
181883425 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
181883465 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
181883505 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
181883545 CCGGATAT
1 CCGGATAT
181883553 CATTCAATTT
Statistics
Matches: 103, Mismatches: 24, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
40 102 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:181883535 original size:80 final size:80
Alignment explanation
Indices: 181883401--181883550 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
181883391 ATAACCATGT
* *
181883401 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
181883466 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * *
181883481 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
181883544 CCCGGAT
64 CCCGGAT
181883551 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:181891425 original size:40 final size:40
Alignment explanation
Indices: 181891380--181891546 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
181891370 CGGAATATAA
*
181891380 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
181891420 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
181891460 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
181891500 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
181891539 CCGGATAT
1 CCGGATAT
181891547 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 13 0.13
40 89 0.86
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:181896429 original size:40 final size:40
Alignment explanation
Indices: 181896188--181896415 Score: 397
Period size: 40 Copynumber: 5.7 Consensus size: 40
181896178 TATTCGGATG
* *
181896188 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
181896228 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
181896267 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
181896307 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
181896347 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
181896387 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
181896416 AGCAAGTAGC
Statistics
Matches: 181, Mismatches: 4, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
39 36 0.20
40 145 0.80
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:181896429 original size:120 final size:119
Alignment explanation
Indices: 181896188--181896448 Score: 393
Period size: 119 Copynumber: 2.2 Consensus size: 119
181896178 TATTCGGATG
* *
181896188 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
* * *
181896253 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66 TTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACT
*
181896307 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGC
181896371 ATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCT
64 ATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTA-CT
* * *
181896427 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
181896449 TACTTGGTTT
Statistics
Matches: 130, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
118 2 0.02
119 64 0.49
120 64 0.49
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
TTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACT
Found at i:181905236 original size:77 final size:80
Alignment explanation
Indices: 181905147--181905292 Score: 192
Period size: 77 Copynumber: 1.9 Consensus size: 80
181905137 ATAGCGACTT
* * *
181905147 GCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCAC-AAGCCTTCGGGA-TTAGC
1 GCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGC
*
181905208 TCGGATTTATTAACTC
65 CCGGATTTATTAACTC
** *
181905224 GCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCC
1 GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
181905289 CGGA
66 CGGA
181905293 CATCATTCGA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
76 3 0.05
77 30 0.52
78 4 0.07
79 12 0.21
80 9 0.16
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (80 bp):
GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
CGGATTTATTAACTC
Found at i:181905292 original size:40 final size:39
Alignment explanation
Indices: 181905110--181905292 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 39
181905100 ACGACTCGCT
** * **
181905110 CAAATGCCTTCGGGACGAAGCCCGGTTATAGCGACTTGCA
1 CAAA-GCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * * *
181905150 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCA
1 C-AAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * * *
181905190 C-AAGCCTTCGGGA-TTAGCTCGGATTTATTAACTCGCA
1 CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * * *
181905227 CGAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCA
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTAACTT-GCA
181905268 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
181905293 CATCATTCGA
Statistics
Matches: 111, Mismatches: 25, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
37 20 0.18
38 14 0.13
39 7 0.06
40 61 0.55
41 9 0.08
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.25
Consensus pattern (39 bp):
CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
Found at i:181908199 original size:40 final size:40
Alignment explanation
Indices: 181908140--181908281 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
181908130 AAATTGAATG
* * *
181908140 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
181908180 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
181908220 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
181908260 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
181908282 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:181908305 original size:40 final size:40
Alignment explanation
Indices: 181908178--181908307 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
181908168 ATGCTGGAAA
* * *
181908178 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
181908218 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
181908258 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
181908298 TTATATCCGG
1 TTATATCCGG
181908308 TTATATTCCG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:181916270 original size:40 final size:40
Alignment explanation
Indices: 181916225--181916391 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
181916215 CGGAATATAA
*
181916225 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
181916265 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
181916305 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
181916345 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
181916384 CCGGATAT
1 CCGGATAT
181916392 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 13 0.13
40 89 0.86
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:181921708 original size:40 final size:40
Alignment explanation
Indices: 181921649--181921790 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
181921639 AAATTGAATG
* * *
181921649 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
181921689 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
181921729 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
181921769 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
181921791 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:181921748 original size:80 final size:80
Alignment explanation
Indices: 181921649--181921800 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
181921639 AAATTGAATG
* *
181921649 ATATCCGGGCTAAGCCCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGTTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGAC-ATTCATGC-GAGAAATTATATCCGGGCTAAGACCCGAAGG
181921712 CAATTGTGCTAGTGGCT
64 CAATTGTGCTAGTGGCT
* * ** *
181921729 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCGAGAAATTATATCCGGGCTAAGACCCGAAGGCA
*
181921794 TTTGTGC
66 ATTGTGC
181921801 ACATGGTTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 4 0.06
80 58 0.94
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCGAGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:181921814 original size:40 final size:40
Alignment explanation
Indices: 181921687--181921816 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
181921677 ATGCTGGAAA
* * *
181921687 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
181921727 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
181921767 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
181921807 TTATATCCGG
1 TTATATCCGG
181921817 TTATATTCCG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:181922469 original size:35 final size:35
Alignment explanation
Indices: 181922429--181922502 Score: 148
Period size: 35 Copynumber: 2.1 Consensus size: 35
181922419 TGTTGGTCAC
181922429 ATGATCAGCCATTGGTATGGTTAAAACGATCATAT
1 ATGATCAGCCATTGGTATGGTTAAAACGATCATAT
181922464 ATGATCAGCCATTGGTATGGTTAAAACGATCATAT
1 ATGATCAGCCATTGGTATGGTTAAAACGATCATAT
181922499 ATGA
1 ATGA
181922503 ACCTATGTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (35 bp):
ATGATCAGCCATTGGTATGGTTAAAACGATCATAT
Found at i:181929956 original size:40 final size:39
Alignment explanation
Indices: 181929912--181930040 Score: 111
Period size: 40 Copynumber: 3.3 Consensus size: 39
181929902 GACTCGCTCA
*
181929912 AATGCCTTCGGGAC-GAAGCCC-GGTTATAGCGACTTGCAC
1 AATGCCTTCGGGACTGAA-CCCGGGTT-TAGCAACTTGCAC
* *
181929951 GAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCAC
1 -AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
* * * * ** *
181929991 AAAGCCTTCGGGA-TTAGCCCGGATTTATTAACTCGCAC
1 AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
181930029 GAATGCCTTCGG
1 -AATGCCTTCGG
181930041 ATCCTAGTCC
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
38 21 0.27
39 22 0.29
40 28 0.36
41 6 0.08
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
Found at i:181930040 original size:78 final size:80
Alignment explanation
Indices: 181929947--181930093 Score: 210
Period size: 78 Copynumber: 1.9 Consensus size: 80
181929937 ATAGCGACTT
* * *
181929947 GCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAAAGCCTTCGGGA-TTAGC
1 GCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGC
181930009 CCGGATTTATTAACTC
65 CCGGATTTATTAACTC
** *
181930025 GCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCC
1 GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
181930090 CGGA
66 CGGA
181930094 CATCATTCGA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
77 3 0.05
78 30 0.50
79 17 0.28
80 10 0.17
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
CGGATTTATTAACTC
Found at i:181930077 original size:40 final size:37
Alignment explanation
Indices: 181929928--181930093 Score: 125
Period size: 40 Copynumber: 4.2 Consensus size: 37
181929918 TTCGGGACGA
* ** *
181929928 AGCCCGGTTATAGCGACTTGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAGTAACTTGCAC-AAAGCCTTC-GGA-TT
* * *
181929968 AACCCGGGTTTAGTAACTTGCACAAAGCCTTCGGGATT
1 AGCCCGGATATAGTAACTTGCACAAAGCCTTC-GGATT
* * * *
181930006 AGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCT
1 AGCCCGGATATAGTAACTTGCAC-AAAGCCTTCGGAT--T
* *
181930046 AGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 AGCCCGGATATAGTAACTT-GCACAAAGCCTTC-GGA-TT
181930086 AGCCCGGA
1 AGCCCGGA
181930094 CATCATTCGA
Statistics
Matches: 102, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
38 25 0.25
39 20 0.20
40 49 0.48
41 7 0.07
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (37 bp):
AGCCCGGATATAGTAACTTGCACAAAGCCTTCGGATT
Found at i:181934715 original size:29 final size:27
Alignment explanation
Indices: 181934681--181934783 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
181934671 TACTCAATCA
*
181934681 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
181934710 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
181934739 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
181934768 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
181934784 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:181942511 original size:29 final size:27
Alignment explanation
Indices: 181942477--181942579 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
181942467 TACTCAATCA
*
181942477 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
181942506 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
181942535 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
181942564 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
181942580 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:181950307 original size:29 final size:27
Alignment explanation
Indices: 181950273--181950375 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
181950263 TACTCAATCA
*
181950273 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
181950302 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
181950331 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
181950360 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
181950376 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:181953075 original size:23 final size:23
Alignment explanation
Indices: 181953042--181953089 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
181953032 TAATTGCATG
* *
181953042 ATTTATGTAT-GCATGATAATTGC
1 ATTTATATATGGCATGA-AAATGC
181953065 ATTTATATATGGCATGAAAATGC
1 ATTTATATATGGCATGAAAATGC
181953088 AT
1 AT
181953090 CTTTGATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (23 bp):
ATTTATATATGGCATGAAAATGC
Found at i:181960479 original size:40 final size:40
Alignment explanation
Indices: 181960405--181960546 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
181960395 CCGCACCAAG
* * * * * *
181960405 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
181960445 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * * *
181960485 GCCTTCGGGTCTTGGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
181960525 GCCTTCGGGTCTTAACCCGGAT
1 GCCTTCGGGTCTTAGCCCGGAT
181960547 GTAATTTTCA
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:181968585 original size:40 final size:40
Alignment explanation
Indices: 181968511--181968656 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
181968501 CCGCACCAAG
* * * * * *
181968511 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
181968551 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
181968591 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
181968631 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
181968657 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:181968671 original size:40 final size:40
Alignment explanation
Indices: 181968543--181968694 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
181968533 ATCACGATTT
* * * * *
181968543 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
181968583 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
181968623 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
181968663 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
181968695 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:181976931 original size:40 final size:40
Alignment explanation
Indices: 181976886--181977052 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
181976876 CGGAATATAA
181976886 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
181976926 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
181976966 CCGGGTATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
181977006 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
181977045 CCGGATAT
1 CCGGATAT
181977053 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:181982492 original size:24 final size:24
Alignment explanation
Indices: 181982465--181982550 Score: 66
Period size: 24 Copynumber: 3.3 Consensus size: 24
181982455 ACTTATAGTC
181982465 GAATGGTCACTATGGGTTAAGTTT
1 GAATGGTCACTATGGGTTAAGTTT
* * *
181982489 GAATGGTGA-AATGGAAATGTGATATGTTGT
1 GAATGGTCACTATGG----GT--TAAGTT-T
181982519 CGAATGGTCACTATGGGTTAAGTTT
1 -GAATGGTCACTATGGGTTAAGTTT
181982544 GAATGGT
1 GAATGGT
181982551 GAAATGGAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 18
0.66 0.08 0.25
Matches are distributed among these distances:
23 4 0.09
24 15 0.32
25 1 0.02
26 5 0.11
27 2 0.04
28 2 0.04
29 5 0.11
30 1 0.02
31 8 0.17
32 4 0.09
ACGTcount: A:0.28, C:0.06, G:0.31, T:0.35
Consensus pattern (24 bp):
GAATGGTCACTATGGGTTAAGTTT
Found at i:181982522 original size:55 final size:55
Alignment explanation
Indices: 181982462--181982572 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
181982452 ATGACTTATA
181982462 GTCGAATGGTCACTATGGGTTAAGTTTGAATGGTGAAATGGAAATGTGATATGTT
1 GTCGAATGGTCACTATGGGTTAAGTTTGAATGGTGAAATGGAAATGTGATATGTT
181982517 GTCGAATGGTCACTATGGGTTAAGTTTGAATGGTGAAATGGAAATGTGATATGTT
1 GTCGAATGGTCACTATGGGTTAAGTTTGAATGGTGAAATGGAAATGTGATATGTT
181982572 G
1 G
181982573 AATGAGATAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.29, C:0.05, G:0.32, T:0.34
Consensus pattern (55 bp):
GTCGAATGGTCACTATGGGTTAAGTTTGAATGGTGAAATGGAAATGTGATATGTT
Found at i:181982701 original size:38 final size:38
Alignment explanation
Indices: 181982640--181982743 Score: 111
Period size: 38 Copynumber: 2.7 Consensus size: 38
181982630 TAAAGACCCG
* ** *
181982640 CAGGCTTCGTACTGGTAAAATAT-CTGGATTAAATCCCA
1 CAGGCTTCGTGCTGGTATTATATCCGGGA-TAAATCCCA
* *
181982678 CAGGCTTCGTGCTGGTATTATATCCGGGATAAATGCCG
1 CAGGCTTCGTGCTGGTATTATATCCGGGATAAATCCCA
* * *
181982716 CAGGCCTAGTGCTGGTATTATATTCGGG
1 CAGGCTTCGTGCTGGTATTATATCCGGG
181982744 CCTTCGTGCC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
38 52 0.93
39 4 0.07
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (38 bp):
CAGGCTTCGTGCTGGTATTATATCCGGGATAAATCCCA
Found at i:181982859 original size:43 final size:43
Alignment explanation
Indices: 181982736--181982846 Score: 206
Period size: 42 Copynumber: 2.6 Consensus size: 43
181982726 GCTGGTATTA
*
181982736 TATTCGGGCCTTCGTGCCTAGCAGGTTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
181982779 TATTCGGGCCTTCGT-CCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
181982821 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
181982847 GTAAAGCCGG
Statistics
Matches: 66, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
42 41 0.62
43 25 0.38
ACGTcount: A:0.10, C:0.26, G:0.33, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:181984424 original size:29 final size:29
Alignment explanation
Indices: 181984390--181984467 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
181984380 GTGACGAGAT
* *
181984390 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
181984419 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
181984448 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
181984468 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:181992284 original size:57 final size:57
Alignment explanation
Indices: 181992215--181992402 Score: 200
Period size: 58 Copynumber: 3.3 Consensus size: 57
181992205 TGACGAGATC
*
181992215 GGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGAGCTGAAATATAT
* * *
181992272 GGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGAGCT-GAAATATAT
** * *** ** * *
181992330 GGCACTGGGTGTGCGAGCTCGG-AGGGTATGGCACTGTGTGTGCGGGCTTAAAT-TACGT
1 GGCACTAAGTGTGCGTGCT-GGAAATATATGGCACTAAGTGTGCGAGCTGAAATATA--T
181992388 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
181992403 AAATCGAGTA
Statistics
Matches: 108, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
56 2 0.02
57 49 0.45
58 55 0.51
59 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (57 bp):
GGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGAGCTGAAATATAT
Found at i:181992348 original size:29 final size:29
Alignment explanation
Indices: 181992215--181992344 Score: 199
Period size: 29 Copynumber: 4.5 Consensus size: 29
181992205 TGACGAGATC
181992215 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
181992244 GGCACTAAGTGTGCGTGCT-GAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
181992272 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * *
181992301 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
181992330 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
181992345 AGCTCGGAGG
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
28 28 0.30
29 65 0.70
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:181992364 original size:58 final size:57
Alignment explanation
Indices: 181992214--181992348 Score: 171
Period size: 57 Copynumber: 2.4 Consensus size: 57
181992204 GTGACGAGAT
* * ** *
181992214 CGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAGATATGGCACTAAGTGTGCAAGCTGAAAAATA
* * *
181992271 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAGATATGGCACTAAGTGTGCAAGCT-GAAAAATA
**
181992329 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
181992349 CGGAGGGTAT
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
57 46 0.67
58 23 0.33
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.24
Consensus pattern (57 bp):
CGGCACTAAGTGTGCGAGCTGGAAAGATATGGCACTAAGTGTGCAAGCTGAAAAATA
Found at i:181994493 original size:17 final size:18
Alignment explanation
Indices: 181994451--181994499 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
181994441 AGTTGAAAAG
181994451 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
181994470 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
181994487 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
181994500 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Done.