Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 262 of 276
Found at i:86784176 original size:44 final size:45
Alignment explanation
Indices: 86784114--86784286 Score: 188
Period size: 46 Copynumber: 3.8 Consensus size: 45
86784104 TATCCGTGCC
86784114 GATGCATGTCCCAGACATGTCTTACACTAGC-ACATCTCGTA-GCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTACATCTCG-AGGCT
* * *
86784158 GATGCATGTCCTATACATGTCTTACACTAGCTTATATCTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGC-TACATCTCGAGGCT
* * * * * *
86784204 GATGCATGTCCCAGACATGTCTTACACTAACTCTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCT-ACATCTCGAGGCT
* * *
86784250 GATGCATGTCCCAAACATGTTTTACACTGGCTCACAT
1 GATGCATGTCCCAGACATGTCTTACACTAGCT-ACAT
86784287 AACAGTAGTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
44 29 0.27
45 2 0.02
46 76 0.71
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTACATCTCGAGGCT
Found at i:86786734 original size:140 final size:140
Alignment explanation
Indices: 86786479--86786736 Score: 306
Period size: 140 Copynumber: 1.8 Consensus size: 140
86786469 GTGCCGATGC
* * *
86786479 CATGTCCCAAACATGGTCTTACACTGGCTCACATCTCAAGTCGATCCCATGTCCCATAAATGGTC
1 CATGTCCCAAACATGGTCTTACACTAGCTCACATCTCAAGTCGATCCCATGTCCCAGAAACGGTC
* * * * *
86786544 TTACACTGACTATTATCTCATAGCCGGTGCATGTCCTAGACATGTCTTACACTGGCTTATGTCTT
66 TTACACTGACTATCATATCATAGCCGATGCAAGTCCCAGACATGTCTTACACTGGCTTATGTCTT
86786609 GAGGCCAATA
131 GAGGCCAATA
* ** * *
86786619 CATGTCCCAGACAT-GTCTTACACTAGCTCTTATCTCAA-TACTGATGCCATGTCCCAGACACGG
1 CATGTCCCAAACATGGTCTTACACTAGCTCACATCTCAAGT-C-GATCCCATGTCCCAGAAACGG
* * * * *
86786682 TCTTACACTGGCTCTCATAAT-GTGGCCGATGCAAGTCCCAGACATGTTTTACACT
64 TCTTACACTGACTATCAT-ATCATAGCCGATGCAAGTCCCAGACATGTCTTACACT
86786737 AGCTCACACA
Statistics
Matches: 97, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
138 1 0.01
139 22 0.23
140 73 0.75
141 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (140 bp):
CATGTCCCAAACATGGTCTTACACTAGCTCACATCTCAAGTCGATCCCATGTCCCAGAAACGGTC
TTACACTGACTATCATATCATAGCCGATGCAAGTCCCAGACATGTCTTACACTGGCTTATGTCTT
GAGGCCAATA
Found at i:86788950 original size:24 final size:26
Alignment explanation
Indices: 86788902--86788951 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
86788892 AAATGTTTAA
* *
86788902 ATTTTATATAAAAATATATTTATTTT
1 ATTTTATATAAAAATAAATTAATTTT
86788928 ATTTTAT-T-AAAATAAATTAATTTT
1 ATTTTATATAAAAATAAATTAATTTT
86788952 TAATCAATGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 14 0.64
25 1 0.05
26 7 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
ATTTTATATAAAAATAAATTAATTTT
Found at i:86792319 original size:18 final size:20
Alignment explanation
Indices: 86792283--86792329 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
86792273 TTTTAAGTAT
86792283 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
86792303 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
86792322 ATGATATA
1 AT-ATATA
86792330 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:86792806 original size:50 final size:50
Alignment explanation
Indices: 86792677--86793010 Score: 364
Period size: 50 Copynumber: 6.7 Consensus size: 50
86792667 ATCCGTTGTG
* * * * * * *
86792677 AGTCACGTGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCG-TTAACTTT
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TA
* * * * * *
86792728 GGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTA
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATA
* * *
86792778 AGTCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATTAATA
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATA
* * * * *
86792828 TGTCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTA
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATA
* * * *
86792878 AGTCACGTGTGTAGTACTAAATGCAGGCTACTATGTGTACCAGATTAATA
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATA
* * * * *
86792928 TGTCGCATGTGTAGTACTAAGTTCAGGCTACTACATGTACCAGATTGACA
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATA
*
86792978 AGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTA
86793011 TGCGTATCAG
Statistics
Matches: 236, Mismatches: 46, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
50 199 0.84
51 36 0.15
52 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (50 bp):
AGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATA
Found at i:86792861 original size:100 final size:100
Alignment explanation
Indices: 86792677--86793021 Score: 487
Period size: 100 Copynumber: 3.4 Consensus size: 100
86792667 ATCCGTTGTG
* * * * * *
86792677 AGTCACGTGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCG-TTAACTTTGGTCACGTGTGTA
1 AGTCACGTGTGTAGTACTAAATGCAGGCTACTATGTGTACCAGATTAA-TAT-GTCACATGTGTA
86792741 GTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTA
64 GTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTA
*
86792778 AGTCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATTAATATGTCACATGTGTAGT
1 AGTCACGTGTGTAGTACTAAATGCAGGCTACTATGTGTACCAGATTAATATGTCACATGTGTAGT
86792843 ACTAAGTGTAGGCTACTACGTGTATCAGATGGTTA
66 ACTAAGTGTAGGCTACTACGTGTATCAGATGGTTA
*
86792878 AGTCACGTGTGTAGTACTAAATGCAGGCTACTATGTGTACCAGATTAATATGTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAATGCAGGCTACTATGTGTACCAGATTAATATGTCACATGTGTAGT
* * * **
86792943 ACTAAGT-TCAGGCTACTACATGTACCAGATTGACA
66 ACTAAGTGT-AGGCTACTACGTGTATCAGATGGTTA
* * * * *
86792978 AGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGA
1 AGTCACGTGTGTAGTACTAAATGCAGGCTACTATGTGTACCAGA
86793022 GAGCTTCGGT
Statistics
Matches: 223, Mismatches: 19, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
99 1 0.00
100 178 0.80
101 40 0.18
102 4 0.02
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (100 bp):
AGTCACGTGTGTAGTACTAAATGCAGGCTACTATGTGTACCAGATTAATATGTCACATGTGTAGT
ACTAAGTGTAGGCTACTACGTGTATCAGATGGTTA
Found at i:86792955 original size:150 final size:150
Alignment explanation
Indices: 86792677--86793021 Score: 411
Period size: 150 Copynumber: 2.3 Consensus size: 150
86792667 ATCCGTTGTG
* * * * * * ** **
86792677 AGTCACGTGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCGTTAACTTTGGTCACGTGTGTAG
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGAT-GGTTAAGTCACGTGTGTAG
* * * ** *
86792742 TACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTACTAAATGCAGGCT
65 TACTAAATGCAGGCTACTACGTGTACCAGATGAATAAGTCACATGTGTAGTACTAAATGCAGGCT
* *
86792807 ACTACGTGTACCAGATTAATA
130 ACTACATGTACCAGATTAACA
* * *
86792828 TGTCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGT
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGATGGTTAAGTCACGTGTGTAGT
* * * * * *
86792893 ACTAAATGCAGGCTACTATGTGTACCAGATTAATATGTCGCATGTGTAGTACTAAGTTCAGGCTA
66 ACTAAATGCAGGCTACTACGTGTACCAGATGAATAAGTCACATGTGTAGTACTAAATGCAGGCTA
*
86792958 CTACATGTACCAGATTGACA
131 CTACATGTACCAGATTAACA
* *
86792978 AGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGA
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGA
86793022 GAGCTTCGGT
Statistics
Matches: 161, Mismatches: 33, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
150 125 0.78
151 36 0.22
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (150 bp):
AGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGATGGTTAAGTCACGTGTGTAGT
ACTAAATGCAGGCTACTACGTGTACCAGATGAATAAGTCACATGTGTAGTACTAAATGCAGGCTA
CTACATGTACCAGATTAACA
Found at i:86793242 original size:16 final size:16
Alignment explanation
Indices: 86793221--86793252 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
86793211 AGAATGGAGT
86793221 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
86793237 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
86793253 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:86799421 original size:12 final size:12
Alignment explanation
Indices: 86799404--86799430 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
86799394 ATTTGTAAGT
86799404 TTCCTGAACTTA
1 TTCCTGAACTTA
86799416 TTCCTGAACTTA
1 TTCCTGAACTTA
86799428 TTC
1 TTC
86799431 AAGTAGCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.26, G:0.07, T:0.44
Consensus pattern (12 bp):
TTCCTGAACTTA
Found at i:86804425 original size:21 final size:21
Alignment explanation
Indices: 86804393--86804433 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
86804383 GAACATTTGG
86804393 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
86804414 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
86804434 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:86810784 original size:133 final size:133
Alignment explanation
Indices: 86810542--86810802 Score: 441
Period size: 133 Copynumber: 2.0 Consensus size: 133
86810532 TCAAACTCTA
* * *
86810542 ATAACCCTCATGCAGAGTATTATACTTACAACTTACTGTTCATATACCACATATAAACTCATTCT
1 ATAACCCTCATGCAAAATATTATACTTACAACTTACTATTCATATACCACATATAAACTCATTCT
*
86810607 TTCAAAACATCTAACATGCAGAACTGTAATACTTACCCAGAGATGGAATGATCACTAATTAAAAC
66 TTCAAAACATCTAACATGCAGAACTGTAATACTTACCCAAAGATGGAATGATCACTAATTAAAAC
86810672 TTG
131 TTG
* * *
86810675 ATAACCCTCATGCAAAATCTTATATTTACAACTTACTATTCATATACCACATATAAACTCATTTT
1 ATAACCCTCATGCAAAATATTATACTTACAACTTACTATTCATATACCACATATAAACTCATTCT
* *
86810740 TTCAAAACATCTAACATGCAGAGCTGTAATACTTACCTAAAGATGGAATGATCACTAATTAAA
66 TTCAAAACATCTAACATGCAGAACTGTAATACTTACCCAAAGATGGAATGATCACTAATTAAA
86810803 CCAATAATCC
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
133 119 1.00
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.31
Consensus pattern (133 bp):
ATAACCCTCATGCAAAATATTATACTTACAACTTACTATTCATATACCACATATAAACTCATTCT
TTCAAAACATCTAACATGCAGAACTGTAATACTTACCCAAAGATGGAATGATCACTAATTAAAAC
TTG
Found at i:86812874 original size:29 final size:29
Alignment explanation
Indices: 86812831--86812915 Score: 118
Period size: 29 Copynumber: 3.0 Consensus size: 29
86812821 CATGAATAAG
* *
86812831 AATGTGA-CTAGGCCTAACGGGCCATATA
1 AATGTGATTTAGGCCTAATGGGCCATATA
86812859 AATGTGATTTAGGCCTAATGGGCCATATA
1 AATGTGATTTAGGCCTAATGGGCCATATA
* * *
86812888 CAGGTGATTTGGGCCTAATGGGCCATAT
1 AATGTGATTTAGGCCTAATGGGCCATAT
86812916 GAATATGAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 7 0.14
29 44 0.86
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (29 bp):
AATGTGATTTAGGCCTAATGGGCCATATA
Found at i:86814033 original size:17 final size:18
Alignment explanation
Indices: 86814000--86814034 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
86813990 TTTTAAGAAG
86814000 GGTTTTCAATGAAAACAC
1 GGTTTTCAATGAAAACAC
*
86814018 GGTTTTCACT-AAAACAC
1 GGTTTTCAATGAAAACAC
86814035 TTCAATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAC
Found at i:86823255 original size:29 final size:29
Alignment explanation
Indices: 86823220--86823277 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
86823210 CAAATGAAAA
86823220 AAATGACCAAATTTTATGAAATGAAGTGT
1 AAATGACCAAATTTTATGAAATGAAGTGT
86823249 AAATGACCAAATTTTATGAAATGAAGTGT
1 AAATGACCAAATTTTATGAAATGAAGTGT
86823278 TTTATTGTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.07, G:0.17, T:0.31
Consensus pattern (29 bp):
AAATGACCAAATTTTATGAAATGAAGTGT
Found at i:86823581 original size:28 final size:28
Alignment explanation
Indices: 86823545--86823619 Score: 123
Period size: 28 Copynumber: 2.7 Consensus size: 28
86823535 TCAAATATGG
*
86823545 CACTCAGTGTACGAAATATTGAGAATGA
1 CACTTAGTGTACGAAATATTGAGAATGA
*
86823573 CACTTAGTGTACGAGATATTGAGAATGA
1 CACTTAGTGTACGAAATATTGAGAATGA
*
86823601 CACTTAGTGTGCGAAATAT
1 CACTTAGTGTACGAAATAT
86823620 CGAATGATTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (28 bp):
CACTTAGTGTACGAAATATTGAGAATGA
Found at i:86824049 original size:21 final size:22
Alignment explanation
Indices: 86824018--86824058 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
86824008 GAATGTATTG
*
86824018 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
*
86824040 TGAT-TATGTGCCAATGAAA
1 TGATGTATGTGCAAATGAAA
86824059 CATAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (22 bp):
TGATGTATGTGCAAATGAAATA
Found at i:86826302 original size:39 final size:39
Alignment explanation
Indices: 86826138--86826320 Score: 170
Period size: 40 Copynumber: 4.6 Consensus size: 39
86826128 TTGAATGCTG
* * * * * * *
86826138 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTATGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * * *
86826178 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTATG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
* **
86826218 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTATGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
86826258 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
86826297 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTATGTCCCGAAGGCATT
86826321 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.31
40 74 0.61
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:86826340 original size:79 final size:80
Alignment explanation
Indices: 86826174--86826355 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 80
86826164 GCTAAGTGAA
* * * *
86826174 TATATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGG
1 TATATCCGGGTTAAG-TCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGG
** ** *
86826238 CATTCGTGCGAGTTGT
65 CATTCGAACGAGGAGC
* * * * *
86826254 TAAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
*
86826318 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
*
86826333 TATATCC-GGTTAAATCCCGAAGG
1 TATATCCGGGTTAAGTCCCGAAGG
86826356 TACGTGATTT
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
78 14 0.17
79 50 0.60
80 19 0.23
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:86834084 original size:40 final size:39
Alignment explanation
Indices: 86834048--86834263 Score: 263
Period size: 40 Copynumber: 5.4 Consensus size: 39
86834038 ATATCCGGAC
* * * * *
86834048 TAAGATCCGAAGACCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
86834088 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
86834128 TAAGTCCTGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGTCC-GAAGGCATTCGTGCGAGTTATTAAATCCGGGT
*
86834168 TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGT
1 TAAGT-CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
* * * * *
86834208 TACGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
*
86834247 TATGTCCCGAAGGCATT
1 TAAGT-CCGAAGGCATT
86834264 TGAACGAGGA
Statistics
Matches: 160, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 36 0.22
40 122 0.76
41 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
Found at i:86834150 original size:80 final size:79
Alignment explanation
Indices: 86834064--86834263 Score: 310
Period size: 80 Copynumber: 2.5 Consensus size: 79
86834054 CCGAAGACCT
*
86834064 TTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTT
1 TTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTT
*
86834129 AAGTCCTGAAGGCA
66 AAGTCCCGAAGGCA
* *
86834143 TTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGT
1 TT-GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
*
86834208 TACGTCCCGAAGGCA
65 TAAGTCCCGAAGGCA
* * * *
86834223 TTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
86834264 TGAACGAGGA
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
79 36 0.33
80 74 0.67
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (79 bp):
TTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTT
AAGTCCCGAAGGCA
Found at i:86834283 original size:79 final size:80
Alignment explanation
Indices: 86834066--86834298 Score: 238
Period size: 80 Copynumber: 2.9 Consensus size: 80
86834056 GAAGACCTTT
* * * ** * *
86834066 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TTAAATCCGGGTTA
1 GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCTAAATCCGGGTTA
*
86834130 AGTCCTGAAGGCATTC
65 AGTCCCGAAGGCATTC
* * * ** ** * *
86834146 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAC
1 GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAATCCGGGTTAA
86834211 GTCCCGAAGGCATT-
66 GTCCCGAAGGCATTC
* * * *
86834225 GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCC-GGTTAA
1 GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAATCCGGGTTAA
*
86834289 ATCCCGAAGG
66 GTCCCGAAGG
86834299 TACGTGATTT
Statistics
Matches: 133, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
78 14 0.11
79 47 0.35
80 72 0.54
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAATCCGGGTTAA
GTCCCGAAGGCATTC
Found at i:86845344 original size:28 final size:29
Alignment explanation
Indices: 86845312--86845366 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
86845302 CTGAAATACT
86845312 GATAT-CATGGCCCGAACCCAAATCAGCC
1 GATATGCATGGCCCGAACCCAAATCAGCC
*
86845340 GATATGCATGGCCCGAAGCCAAATCAG
1 GATATGCATGGCCCGAACCCAAATCAG
86845367 TTTATCTCGC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.33, C:0.31, G:0.22, T:0.15
Consensus pattern (29 bp):
GATATGCATGGCCCGAACCCAAATCAGCC
Found at i:86853319 original size:40 final size:40
Alignment explanation
Indices: 86853268--86853539 Score: 341
Period size: 40 Copynumber: 6.8 Consensus size: 40
86853258 CATTTGAATG
* *
86853268 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCAAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGAT
* *
86853308 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGAT
* * * *
86853348 ATACCCCGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGA-T
* * *
86853388 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGAT
* * *
86853428 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGA-T
* * *
86853468 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGAT
* *
86853508 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
86853540 TTGTGGTAAT
Statistics
Matches: 195, Mismatches: 33, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
39 4 0.02
40 187 0.96
41 4 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGAT
Found at i:86853416 original size:80 final size:80
Alignment explanation
Indices: 86853272--86853540 Score: 477
Period size: 80 Copynumber: 3.4 Consensus size: 80
86853262 TGAATGATAT
* * * *
86853272 CCGGGCTAAGTCCCGAAGGCAATTGTGCAAGTTGA-TATATCCGGGCTAAGACCCGAAGGCATTT
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATTTTATCCGGGCTAAGACCCGAAGGCATTT
86853336 GTGCGAGTTGCTATAC
65 GTGCGAGTTGCTATAC
*
86853352 CCCGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
86853417 TGCGAGTTGCTATAC
66 TGCGAGTTGCTATAC
86853432 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
86853497 TGCGAGTTGCTATAC
66 TGCGAGTTGCTATAC
86853512 CCGGGTTAAGACCCGAAGGCAATTGTGCT
1 CCGGGTTAAGACCCGAAGGCAATTGTGCT
86853541 TGTGGTAATA
Statistics
Matches: 182, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
79 3 0.02
80 179 0.98
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
TGCGAGTTGCTATAC
Found at i:86865540 original size:61 final size:61
Alignment explanation
Indices: 86865445--86865582 Score: 276
Period size: 61 Copynumber: 2.3 Consensus size: 61
86865435 GAAAAGGTAA
86865445 TTGAATAGCCATTGAAGTCGTTCGACAACATCCGAGGTAAGTCTTCGAGTAATGACCCTAC
1 TTGAATAGCCATTGAAGTCGTTCGACAACATCCGAGGTAAGTCTTCGAGTAATGACCCTAC
86865506 TTGAATAGCCATTGAAGTCGTTCGACAACATCCGAGGTAAGTCTTCGAGTAATGACCCTAC
1 TTGAATAGCCATTGAAGTCGTTCGACAACATCCGAGGTAAGTCTTCGAGTAATGACCCTAC
86865567 TTGAATAGCCATTGAA
1 TTGAATAGCCATTGAA
86865583 ATCATGCTCT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 77 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (61 bp):
TTGAATAGCCATTGAAGTCGTTCGACAACATCCGAGGTAAGTCTTCGAGTAATGACCCTAC
Found at i:86865781 original size:40 final size:40
Alignment explanation
Indices: 86865719--86865890 Score: 220
Period size: 40 Copynumber: 4.3 Consensus size: 40
86865709 CATTTGAATG
*
86865719 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
86865759 TTATCCGGGTTAAGACCTGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * *
86865799 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * * *
86865839 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
86865879 ATATCC-GGCTAA
1 ATATCCGGGCTAA
86865891 ATTCCGAAGA
Statistics
Matches: 112, Mismatches: 20, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 5 0.04
40 107 0.96
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:86867550 original size:40 final size:40
Alignment explanation
Indices: 86867452--86867660 Score: 243
Period size: 40 Copynumber: 5.3 Consensus size: 40
86867442 TAACTGGACC
* * *
86867452 AAGTCCCGAAGGCATCTGTGCAAGTGACTA-ATTCCGGGCT
1 AAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCT
86867492 AAG-CCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCT
1 AAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCT
* *
86867531 AAGTCTCGAAGGCATTTGTGCGAAG-TACGATATCCGGGCT
1 AAGTCCCGAAGGCATTTGTGCG-AGTTACTATATCCGGGCT
*
86867571 AAGTCCC-AATGGCATTTGTGCGAGTTACTATAACCGGGCT
1 AAGTCCCGAA-GGCATTTGTGCGAGTTACTATATCCGGGCT
* *
86867611 ATGTCCCGAAGGCATTTGAGC-AG-TAGCTATATCC-GGCT
1 AAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCT
**
86867649 AAACCCCGAAGG
1 AAGTCCCGAAGG
86867661 TACTTGGTTG
Statistics
Matches: 148, Mismatches: 14, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
38 15 0.10
39 47 0.32
40 82 0.55
41 4 0.03
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
AAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCT
Found at i:86868937 original size:200 final size:200
Alignment explanation
Indices: 86868594--86868994 Score: 793
Period size: 200 Copynumber: 2.0 Consensus size: 200
86868584 TTATAAATTA
86868594 ACCAGAGATAATTAGAAGTCATTACTTATATGTATAGATTCCTTTTTGAGTCTAGTTTCATTAGA
1 ACCAGAGATAATTAGAAGTCATTACTTATATGTATAGATTCCTTTTTGAGTCTAGTTTCATTAGA
86868659 AACAAACGGCATCAGTATTGAAGCCCTGTACAGGGAGATATCGAAGTCGTAGTGCGTGGAGGCAG
66 AACAAACGGCATCAGTATTGAAGCCCTGTACAGGGAGATATCGAAGTCGTAGTGCGTGGAGGCAG
*
86868724 AGTAGTCGAGCCCTGAAACAGGGGAGAATTTAACTAATAAACTGTACTAATTGGCCCGAGCAAAA
131 AGTAGTCGAGCCCTGAAACAGGGGAGAATTTAACTAATAAACTGTACTAATTGGCCCGACCAAAA
86868789 ATTCT
196 ATTCT
86868794 ACCAGAGATAATTAGAAGTCATTACTTATATGTATAGATTCCTTTTTGAGTCTAGTTTCATTAGA
1 ACCAGAGATAATTAGAAGTCATTACTTATATGTATAGATTCCTTTTTGAGTCTAGTTTCATTAGA
86868859 AACAAACGGCATCAGTATTGAAGCCCTGTACAGGGAGATATCGAAGTCGTAGTGCGTGGAGGCAG
66 AACAAACGGCATCAGTATTGAAGCCCTGTACAGGGAGATATCGAAGTCGTAGTGCGTGGAGGCAG
86868924 AGTAGTCGAGCCCTGAAACAGGGGAGAATTTAACTAATAAACTGTACTAATTGGCCCGACCAAAA
131 AGTAGTCGAGCCCTGAAACAGGGGAGAATTTAACTAATAAACTGTACTAATTGGCCCGACCAAAA
86868989 ATTCT
196 ATTCT
86868994 A
1 A
86868995 GAAAACAATT
Statistics
Matches: 200, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 200 1.00
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.27
Consensus pattern (200 bp):
ACCAGAGATAATTAGAAGTCATTACTTATATGTATAGATTCCTTTTTGAGTCTAGTTTCATTAGA
AACAAACGGCATCAGTATTGAAGCCCTGTACAGGGAGATATCGAAGTCGTAGTGCGTGGAGGCAG
AGTAGTCGAGCCCTGAAACAGGGGAGAATTTAACTAATAAACTGTACTAATTGGCCCGACCAAAA
ATTCT
Found at i:86875933 original size:39 final size:40
Alignment explanation
Indices: 86875867--86875967 Score: 118
Period size: 39 Copynumber: 2.5 Consensus size: 40
86875857 CGGATGATAA
86875867 CCGGGCTAAGTCCCGAAGGCATCTGTGCAAGTGACTAAT-T
1 CCGGGCTAAGTCCCGAAGGCATCTGTGCAAGTGA-TAATAT
* * * * *
86875907 CCGGGCTAAG-CCTGAAGGTGAT-TGTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGG-CATCTGTGCAAGTGATAATAT
86875946 CCGGGCTAAGTCCCGAAGGCAT
1 CCGGGCTAAGTCCCGAAGGCAT
86875968 TTGAGCAGTA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
38 3 0.06
39 29 0.57
40 19 0.37
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATCTGTGCAAGTGATAATAT
Found at i:86875984 original size:39 final size:40
Alignment explanation
Indices: 86875867--86876002 Score: 115
Period size: 39 Copynumber: 3.5 Consensus size: 40
86875857 CGGATGATAA
*
86875867 CCGGGCTAAGTCCCGAAGGCATCTGTGCAAGT-GACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CTATA-T
* * * *
86875907 CCGGGCTAAG-CCTGAAGGTGA-TTGTGCGAGTTA-TTATAT
1 CCGGGCTAAGTCCCGAAGG-CATTTGTGCAAG-TAGCTATAT
*
86875946 CCGGGCTAAGTCCCGAAGGCATTTGAGC-AGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATAT
**
86875985 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
86876003 TACTTGGTTG
Statistics
Matches: 78, Mismatches: 11, Indels: 16
0.74 0.10 0.15
Matches are distributed among these distances:
38 16 0.21
39 37 0.47
40 25 0.32
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATAT
Found at i:86877445 original size:46 final size:46
Alignment explanation
Indices: 86877378--86877545 Score: 182
Period size: 46 Copynumber: 3.6 Consensus size: 46
86877368 TGCCCCTAAG
*
86877378 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAA
* *
86877424 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCATAAA
* * * ** *
86877471 CGAACTCGGACTAAACTCAACGAGTTCGAGTATTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAA
86877517 TGAACTCGGACTCAACTCAACGAGTTCGG
1 TGAACTCGGACTCAACTCAACGAGTTCGG
86877546 ATGCTCAACC
Statistics
Matches: 99, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 54 0.55
47 27 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAA
Found at i:86877538 original size:93 final size:93
Alignment explanation
Indices: 86877379--86877549 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
86877369 GCCCCTAAGT
* * *
86877379 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTAAACTCAACGAGCTCGAGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
86877444 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
86877472 GAACTCGGACTAAACTCAACGAGTTCGAGTATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTAAACTCAACGAGCTCGAGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
86877537 CGAGTTCGGATGC
66 CGAGTTCGGATGC
86877550 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTAAACTCAACGAGCTCGAGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:86878916 original size:19 final size:20
Alignment explanation
Indices: 86878879--86878916 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
86878869 ATAAGGTGGT
86878879 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
86878899 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
86878917 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:86880925 original size:39 final size:39
Alignment explanation
Indices: 86880881--86880957 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
86880871 TATATTCGAC
86880881 CAAATAAGTAAAATATGTACAAGATGTTATATTATGATA
1 CAAATAAGTAAAATATGTACAAGATGTTATATTATGATA
86880920 CAAATAAGTAAAATATGTACAAGATGTTATATTATGAT
1 CAAATAAGTAAAATATGTACAAGATGTTATATTATGAT
86880958 TCTTGAGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.48, C:0.05, G:0.13, T:0.34
Consensus pattern (39 bp):
CAAATAAGTAAAATATGTACAAGATGTTATATTATGATA
Found at i:86880955 original size:19 final size:19
Alignment explanation
Indices: 86880894--86880955 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
86880884 ATAAGTAAAA
86880894 TATGTACAAGATGTTATAT
1 TATGTACAAGATGTTATAT
* *
86880913 TATGATACAA-ATAAG-TAAAA
1 TATG-TACAAGAT--GTTATAT
86880933 TATGTACAAGATGTTATAT
1 TATGTACAAGATGTTATAT
86880952 TATG
1 TATG
86880956 ATTCTTGAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
18 1 0.03
19 18 0.53
20 14 0.41
21 1 0.03
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.37
Consensus pattern (19 bp):
TATGTACAAGATGTTATAT
Found at i:86889148 original size:27 final size:27
Alignment explanation
Indices: 86889117--86889294 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
86889107 TAAATTGTAC
86889117 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
86889144 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
86889170 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
86889198 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
86889226 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
86889253 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
86889280 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
86889295 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:86889231 original size:82 final size:81
Alignment explanation
Indices: 86889118--86889273 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
86889108 AAATTGTACA
*
86889118 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
86889182 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
86889199 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
86889264 TGCGAGTTGA
65 TGCGAATTGA
86889274 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:86889285 original size:82 final size:81
Alignment explanation
Indices: 86889114--86889294 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
86889104 GATTAAATTG
*
86889114 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
86889179 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
86889195 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
86889259 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
86889277 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
86889295 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:86900333 original size:49 final size:47
Alignment explanation
Indices: 86900276--86900590 Score: 257
Period size: 49 Copynumber: 6.6 Consensus size: 47
86900266 ATATGTAACC
* *
86900276 GATGCCATGTCCCGGACATGGTCTTACACTGGCTATCATCATCGAGTCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCATCGAGGCT
* * * * *
86900325 GATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCGTCTATAC-ATGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATC-AT-CGAGGCT
* * * *
86900375 GATGCATGTCCCAGACATGTCTTACACTAGC-A-CAAC-TCTTA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATC-GAGGCT
* * *
86900419 GATGCGTGTCCCAGACACGTCTTACACTGGCTATCATCGTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAGGCT
* ** * ** *
86900466 GATGCATGTCCCAGACATTTCTTACACTGGCGCTCATTC-TCTACACC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCA-TCATCGAGGCT
* * * *
86900513 GATTCCATGTCCCAGACATGGTCTTACACTGGTTATCAT-ATTGTGGCT
1 GA-TGCATGTCCCAGACAT-GTCTTACACTGGCTATCATCATCGAGGCT
*
86900561 GATGCATGTCCTAGACATGTCTTACACTGG
1 GATGCATGTCCCAGACATGTCTTACACTGG
86900591 TACACAAGTA
Statistics
Matches: 214, Mismatches: 40, Indels: 27
0.76 0.14 0.10
Matches are distributed among these distances:
43 1 0.00
44 31 0.14
45 2 0.01
46 18 0.08
47 55 0.26
48 34 0.16
49 63 0.29
50 9 0.04
51 1 0.00
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.30
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAGGCT
Found at i:86900588 original size:95 final size:91
Alignment explanation
Indices: 86900372--86900590 Score: 260
Period size: 95 Copynumber: 2.4 Consensus size: 91
86900362 GTCTATACAT
* * * *
86900372 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTTAGCCGATGCGTGTCCCAGACAC
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGCACAACTCTTAACCGATCCATGTCCCAGACAC
*
86900437 GTCTTACACTGGCTATCATCGTCGAG
66 GTCTTACACTGGCTATCATCATCGAG
* * * *
86900463 GCTGATGCATGTCCCAGACATTTCTTACACTGGCGCTCATTCTCTACACCGATTCCATGTCCCAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGCAC-AACTCT-TA-ACCGA-TCCATGTCCCAG
* * * *
86900528 ACATGGTCTTACACTGGTTATCAT-ATTGTG
62 ACA-CGTCTTACACTGGCTATCATCATCGAG
*
86900558 GCTGATGCATGTCCTAGACATGTCTTACACTGG
1 GCTGATGCATGTCCCAGACATGTCTTACACTGG
86900591 TACACAAGTA
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
91 33 0.31
92 4 0.04
93 2 0.02
94 4 0.04
95 47 0.44
96 18 0.17
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (91 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTGGCACAACTCTTAACCGATCCATGTCCCAGACAC
GTCTTACACTGGCTATCATCATCGAG
Found at i:86905657 original size:80 final size:80
Alignment explanation
Indices: 86905524--86905683 Score: 320
Period size: 80 Copynumber: 2.0 Consensus size: 80
86905514 ACCAGGTTGT
86905524 GTAACTCTCGAAATGGTCTCAAACGCCCATGTGTTAGGCTTTGTAACTGTTTGACTTGTAACCTT
1 GTAACTCTCGAAATGGTCTCAAACGCCCATGTGTTAGGCTTTGTAACTGTTTGACTTGTAACCTT
86905589 TGAAACCTATAGGGG
66 TGAAACCTATAGGGG
86905604 GTAACTCTCGAAATGGTCTCAAACGCCCATGTGTTAGGCTTTGTAACTGTTTGACTTGTAACCTT
1 GTAACTCTCGAAATGGTCTCAAACGCCCATGTGTTAGGCTTTGTAACTGTTTGACTTGTAACCTT
86905669 TGAAACCTATAGGGG
66 TGAAACCTATAGGGG
86905684 ACACACGGCT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (80 bp):
GTAACTCTCGAAATGGTCTCAAACGCCCATGTGTTAGGCTTTGTAACTGTTTGACTTGTAACCTT
TGAAACCTATAGGGG
Found at i:86907545 original size:20 final size:20
Alignment explanation
Indices: 86907520--86907560 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
86907510 AATACATACC
*
86907520 ATGCAAGAAAACATGGTTTG
1 ATGCAAGAAAACATGGCTTG
86907540 ATGCAAGAAAACATGGCTTG
1 ATGCAAGAAAACATGGCTTG
86907560 A
1 A
86907561 CCGAAACCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.22
Consensus pattern (20 bp):
ATGCAAGAAAACATGGCTTG
Found at i:86913591 original size:33 final size:33
Alignment explanation
Indices: 86913549--86913617 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
86913539 CATACTTGGA
86913549 AACCTTTTCAATTAACTCAATCAAAGGTAGGTT
1 AACCTTTTCAATTAACTCAATCAAAGGTAGGTT
86913582 AACCTTTTCAATTAACTCAATCAAAGGTAGGTT
1 AACCTTTTCAATTAACTCAATCAAAGGTAGGTT
86913615 AAC
1 AAC
86913618 ATTTAATGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.32
Consensus pattern (33 bp):
AACCTTTTCAATTAACTCAATCAAAGGTAGGTT
Found at i:86916181 original size:27 final size:27
Alignment explanation
Indices: 86916150--86916204 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
86916140 AGAAAGTCTG
86916150 ATTGATATTGATGAATAGAGTGAATCC
1 ATTGATATTGATGAATAGAGTGAATCC
86916177 ATTGATATTGATGAATAGAGTGAATCC
1 ATTGATATTGATGAATAGAGTGAATCC
86916204 A
1 A
86916205 CAAAAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (27 bp):
ATTGATATTGATGAATAGAGTGAATCC
Found at i:86916337 original size:52 final size:52
Alignment explanation
Indices: 86916277--86916382 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
86916267 CTAAAAAAGA
*
86916277 AAGAGAACAAATCTAAACCTAAGGAAAGAATATAAGCTAATGGAATCATGTC
1 AAGAGAACAAATCTAAACCTAAAGAAAGAATATAAGCTAATGGAATCATGTC
86916329 AAGAGAACAAATCTAAACCTAAAGAAAGAATATAAGCTAATGGAATCATGTC
1 AAGAGAACAAATCTAAACCTAAAGAAAGAATATAAGCTAATGGAATCATGTC
86916381 AA
1 AA
86916383 TAATGTGTGC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.52, C:0.13, G:0.16, T:0.19
Consensus pattern (52 bp):
AAGAGAACAAATCTAAACCTAAAGAAAGAATATAAGCTAATGGAATCATGTC
Found at i:86922676 original size:21 final size:19
Alignment explanation
Indices: 86922621--86922680 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 19
86922611 TTTTCATAAT
86922621 TAATTAATAA-TAATTTATA
1 TAATTAA-AATTAATTTATA
* *
86922640 TAACTCAAATTAAATTTGATA
1 TAATTAAAATT-AATTT-ATA
86922661 TAAATTAAAATTAA-TTATA
1 T-AATTAAAATTAATTTATA
86922680 T
1 T
86922681 TATGAATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
18 2 0.06
19 10 0.30
20 7 0.21
21 6 0.18
22 8 0.24
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (19 bp):
TAATTAAAATTAATTTATA
Found at i:86925112 original size:27 final size:27
Alignment explanation
Indices: 86925072--86925280 Score: 249
Period size: 27 Copynumber: 7.7 Consensus size: 27
86925062 AAAAATTAAA
* *
86925072 AAAATGACTATTTTACCCTTATGTGGT
1 AAAATGACTATTTTGCCCTTATATGGT
* *
86925099 AAAATGACTGTTTTGCCCTTATGTGGT
1 AAAATGACTATTTTGCCCTTATATGGT
*
86925126 AAAATGACTATTTTTCCCTTATATGGT
1 AAAATGACTATTTTGCCCTTATATGGT
*
86925153 AAAATGACTATTTTGCCCCTATATGGT
1 AAAATGACTATTTTGCCCTTATATGGT
*
86925180 AAAATGACTATTTTTCCCTTATGA-GGT
1 AAAATGACTATTTTGCCCTTAT-ATGGT
* **
86925207 AAAATGACTGTTTTGCCCTTCCATGGT
1 AAAATGACTATTTTGCCCTTATATGGT
*** * *
86925234 AAAATGACTAAAATGCCCCTACATGGT
1 AAAATGACTATTTTGCCCTTATATGGT
*
86925261 AAATTGACTATTTTGTCCCT
1 AAAATGACTATTTTG-CCCT
86925281 ATGTGAGATA
Statistics
Matches: 155, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
26 1 0.01
27 150 0.97
28 4 0.03
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (27 bp):
AAAATGACTATTTTGCCCTTATATGGT
Found at i:86925208 original size:81 final size:81
Alignment explanation
Indices: 86925072--86925280 Score: 274
Period size: 81 Copynumber: 2.6 Consensus size: 81
86925062 AAAAATTAAA
* * * * * *
86925072 AAAATGACTATTTTACCCTTATGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAAAATGACTAT
1 AAAATGACTATTTTGCCCCTATATGGTAAAATGACTATTTTTCCCTTATGAGGTAAAATGACTAT
* *
86925137 TTTTCCCTTATATGGT
66 TTTGCCCTTACATGGT
*
86925153 AAAATGACTATTTTGCCCCTATATGGTAAAATGACTATTTTTCCCTTATGAGGTAAAATGACTGT
1 AAAATGACTATTTTGCCCCTATATGGTAAAATGACTATTTTTCCCTTATGAGGTAAAATGACTAT
*
86925218 TTTGCCCTTCCATGGT
66 TTTGCCCTTACATGGT
*** * *
86925234 AAAATGACTAAAATGCCCCTACATGGTAAATTGACTATTTTGTCCCT
1 AAAATGACTATTTTGCCCCTATATGGTAAAATGACTATTTT-TCCCT
86925281 ATGTGAGATA
Statistics
Matches: 112, Mismatches: 15, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
81 107 0.96
82 5 0.04
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (81 bp):
AAAATGACTATTTTGCCCCTATATGGTAAAATGACTATTTTTCCCTTATGAGGTAAAATGACTAT
TTTGCCCTTACATGGT
Found at i:86928900 original size:27 final size:27
Alignment explanation
Indices: 86928859--86928965 Score: 142
Period size: 27 Copynumber: 4.0 Consensus size: 27
86928849 ACCAAATTAA
*
86928859 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
*
86928886 TAAAATAACTATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* * * * *
86928913 TAAAATGATTGTTTTTCCCTTTTGAGG
1 TAAAATGACTATTTTGCCCTTATGTGG
*
86928940 TAAAATGACTATTTTGCCCCTATGTG
1 TAAAATGACTATTTTGCCCTTATGTG
86928966 AGGTATTTAT
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGG
Found at i:86928926 original size:54 final size:54
Alignment explanation
Indices: 86928859--86928965 Score: 160
Period size: 54 Copynumber: 2.0 Consensus size: 54
86928849 ACCAAATTAA
* *
86928859 TAAAATGACTGTTTTGCCCTTATGTGGTAAAATAACTATTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGGTAAAATAACTATTTTGCCCCTATGTGG
* * * *
86928913 TAAAATGATTGTTTTTCCCTTTTGAGGTAAAATGACTATTTTGCCCCTATGTG
1 TAAAATGACTGTTTTGCCCTTATGAGGTAAAATAACTATTTTGCCCCTATGTG
86928966 AGGTATTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (54 bp):
TAAAATGACTGTTTTGCCCTTATGAGGTAAAATAACTATTTTGCCCCTATGTGG
Found at i:86938048 original size:40 final size:39
Alignment explanation
Indices: 86937890--86938067 Score: 202
Period size: 40 Copynumber: 4.5 Consensus size: 39
86937880 CGGATGATAA
*
86937890 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTAATT
86937930 CCGGGCTAAGTCCCGAAGGCA-TTGTTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTG-TGCGAG-TACTAATT
* *
86937970 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAACTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTACTAAT-T
* *
86938010 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTAGCT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTAAT-T
* *
86938050 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
86938068 TACTTGGTTT
Statistics
Matches: 123, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
39 22 0.18
40 96 0.78
41 5 0.04
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAATT
Found at i:86938053 original size:80 final size:80
Alignment explanation
Indices: 86937890--86938041 Score: 229
Period size: 80 Copynumber: 1.9 Consensus size: 80
86937880 CGGATGATAA
* *
86937890 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAACTGACTAATTCCGGGCTAAGTCCCGAAGGCATTGT
*
86937955 TGCGAGTTACTAATT
66 AGCGAGTTACTAATT
86937970 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAACT-ACT-ATATCCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AACTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATT
86938033 CG-AGCGAGT
64 -GTAGCGAGT
86938042 AGCTATATCC
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
79 2 0.03
80 61 0.92
81 3 0.05
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAACTGACTAATTCCGGGCTAAGTCCCGAAGGCATTGT
AGCGAGTTACTAATT
Found at i:86946429 original size:10 final size:10
Alignment explanation
Indices: 86946416--86946443 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
86946406 TTATGTTTTA
86946416 TTATATTAAC
1 TTATATTAAC
86946426 TTATATTAAC
1 TTATATTAAC
86946436 TTATATTA
1 TTATATTA
86946444 CTAATTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (10 bp):
TTATATTAAC
Found at i:86947396 original size:9 final size:9
Alignment explanation
Indices: 86947382--86947425 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
86947372 TCCGGGCCTC
86947382 AATGGGCCG
1 AATGGGCCG
*
86947391 AATGGGCCC
1 AATGGGCCG
*
86947400 AATGGGCTG
1 AATGGGCCG
86947409 AATGGGCTCG
1 AATGGGC-CG
86947419 -ATGGGCC
1 AATGGGCC
86947426 TGCTTGTGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
8 1 0.03
9 28 0.93
10 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.41, T:0.16
Consensus pattern (9 bp):
AATGGGCCG
Found at i:86947404 original size:18 final size:18
Alignment explanation
Indices: 86947375--86947425 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
86947365 GGGTTGTTCC
86947375 GGGCCTCAATGGGCCGAAT
1 GGGCC-CAATGGGCCGAAT
*
86947394 GGGCCCAATGGGCTGAAT
1 GGGCCCAATGGGCCGAAT
* *
86947412 GGGCTCGATGGGCC
1 GGGCCCAATGGGCC
86947426 TGCTTGTGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 23 0.82
19 5 0.18
ACGTcount: A:0.18, C:0.25, G:0.41, T:0.16
Consensus pattern (18 bp):
GGGCCCAATGGGCCGAAT
Found at i:86947501 original size:28 final size:28
Alignment explanation
Indices: 86947461--86947552 Score: 139
Period size: 28 Copynumber: 3.3 Consensus size: 28
86947451 TGGAAAGTAG
*
86947461 TTGGGCCTGATGGGCCATATAAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
*
86947489 TTGGGCCTGATGGGCCATATGTATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * *
86947517 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
86947545 TTGGGCCT
1 TTGGGCCT
86947553 AAAGGGGCCA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.20, C:0.16, G:0.36, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:86947899 original size:27 final size:27
Alignment explanation
Indices: 86947869--86948170 Score: 236
Period size: 27 Copynumber: 11.2 Consensus size: 27
86947859 TAATAAAGAG
*
86947869 AAATTACTAAAATACCCCCAGTTTGTA
1 AAATTACTAAAATACCCCCAATTTGTA
* * *
86947896 AAATTA-TCGAAATACCCTCAATTTG-G
1 AAATTACT-AAAATACCCCCAATTTGTA
* *
86947922 AAATTA-TCAAAGTACCCCCGATTTGTA
1 AAATTACT-AAAATACCCCCAATTTGTA
** ** *
86947949 AAATTACCGAAATACCCCTGATTTATA
1 AAATTACTAAAATACCCCCAATTTGTA
* *
86947976 AAATTACTGAAATACCCCTAATTTGTA
1 AAATTACTAAAATACCCCCAATTTGTA
* **
86948003 AAATTACCAAAATACCTTCAATTTGTA
1 AAATTACTAAAATACCCCCAATTTGTA
*
86948030 AAATTACTAAAATACCCCTAATTTGTA
1 AAATTACTAAAATACCCCCAATTTGTA
* **
86948057 AAATTACCAAAATACCCTTAATTTGTA
1 AAATTACTAAAATACCCCCAATTTGTA
* ***
86948084 AAATTACTAAAACACCCTTGATTTGTA
1 AAATTACTAAAATACCCCCAATTTGTA
* * * *** *
86948111 ATATTA-TCGAAATA-TCCTTGTAGTGTA
1 AAATTACT-AAAATACCCCCAAT-TTGTA
* *
86948138 AAATTACTAAAACACCCCCGATTTGTA
1 AAATTACTAAAATACCCCCAATTTGTA
86948165 AAATTA
1 AAATTA
86948171 TCGAAATACC
Statistics
Matches: 221, Mismatches: 47, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
26 26 0.12
27 191 0.86
28 4 0.02
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACTAAAATACCCCCAATTTGTA
Found at i:86948004 original size:54 final size:54
Alignment explanation
Indices: 86947869--86948208 Score: 348
Period size: 54 Copynumber: 6.3 Consensus size: 54
86947859 TAATAAAGAG
* * * *
86947869 AAATTACTAAAATACCCCCAGTTTGTAAAATTATCGAAATACCCTCAATTTG-G
1 AAATTACTAAAATACCCCCAATTTGTAAAATTACCGAAATACCCTTAATTTGTA
* * * * *
86947922 AAATTA-TCAAAGTACCCCCGATTTGTAAAATTACCGAAATACCCCTGATTTATA
1 AAATTACT-AAAATACCCCCAATTTGTAAAATTACCGAAATACCCTTAATTTGTA
* * *
86947976 AAATTACTGAAATACCCCTAATTTGTAAAATTACCAAAATA-CCTTCAATTTGTA
1 AAATTACTAAAATACCCCCAATTTGTAAAATTACCGAAATACCCTT-AATTTGTA
* *
86948030 AAATTACTAAAATACCCCTAATTTGTAAAATTACCAAAATACCCTTAATTTGTA
1 AAATTACTAAAATACCCCCAATTTGTAAAATTACCGAAATACCCTTAATTTGTA
* *** * * * * *
86948084 AAATTACTAAAACACCCTTGATTTGTAATATTATCGAAATATCCTT-GTAGTGTA
1 AAATTACTAAAATACCCCCAATTTGTAAAATTACCGAAATACCCTTAAT-TTGTA
* * * * *
86948138 AAATTACTAAAACACCCCCGATTTGTAAAATTATCGAAATACCCTT-GTAGTGTA
1 AAATTACTAAAATACCCCCAATTTGTAAAATTACCGAAATACCCTTAAT-TTGTA
*
86948192 AAATTACTAATATACCC
1 AAATTACTAAAATACCC
86948209 TTGTACTGTA
Statistics
Matches: 248, Mismatches: 33, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
52 1 0.00
53 46 0.19
54 196 0.79
55 5 0.02
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (54 bp):
AAATTACTAAAATACCCCCAATTTGTAAAATTACCGAAATACCCTTAATTTGTA
Found at i:86948046 original size:81 final size:82
Alignment explanation
Indices: 86947869--86948208 Score: 297
Period size: 81 Copynumber: 4.2 Consensus size: 82
86947859 TAATAAAGAG
* * * *
86947869 AAATTACTAAAATACCCC-CAGTTTGTAAAATTA-TCGAAATA-CCCTCAATTTG-GAAATTATC
1 AAATTACTAAAATACCCCTGA-TTTGTAAAATTACT-AAAATACCCCT-AATTTGTAAAATTACC
* *
86947930 AAAGTACCC-CCGATTTGTA
63 AAAATACCCTTCGATTTGTA
** * *
86947949 AAATTACCGAAATACCCCTGATTTATAAAATTACTGAAATACCCCTAATTTGTAAAATTACCAAA
1 AAATTACTAAAATACCCCTGATTTGTAAAATTACTAAAATACCCCTAATTTGTAAAATTACCAAA
*
86948014 ATA-CCTTCAATTTGTA
66 ATACCCTTCGATTTGTA
* * * *
86948030 AAATTACTAAAATACCCCTAATTTGTAAAATTACCAAAATACCCTTAATTTGTAAAATTACTAAA
1 AAATTACTAAAATACCCCTGATTTGTAAAATTACTAAAATACCCCTAATTTGTAAAATTACCAAA
*
86948095 ACACCCTT-GATTTGTA
66 ATACCCTTCGATTTGTA
* * * * * * ** * *
86948111 ATATTA-TCGAAATATCCTTG-TAGTGTAAAATTACTAAAACACCCCCGATTTGTAAAATTATCG
1 AAATTACT-AAAATACCCCTGAT-TTGTAAAATTACTAAAATACCCCTAATTTGTAAAATTACCA
*
86948174 AAATACCCTT-G-TAGTGTA
64 AAATACCCTTCGAT-TTGTA
*
86948192 AAATTACTAATATACCC
1 AAATTACTAAAATACCC
86948209 TTGTACTGTA
Statistics
Matches: 211, Mismatches: 39, Indels: 19
0.78 0.14 0.07
Matches are distributed among these distances:
80 44 0.21
81 162 0.77
82 5 0.02
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (82 bp):
AAATTACTAAAATACCCCTGATTTGTAAAATTACTAAAATACCCCTAATTTGTAAAATTACCAAA
ATACCCTTCGATTTGTA
Found at i:86948191 original size:27 final size:26
Alignment explanation
Indices: 86948053--86948241 Score: 105
Period size: 27 Copynumber: 7.0 Consensus size: 26
86948043 ACCCCTAATT
* * *
86948053 TGTAAAATTACCAAAATACCCTT-AATT
1 TGTAAAATTA-CGAAATACCCTTGTA-G
* * *
86948080 TGTAAAATTACTAAAACACCCTTG-ATT
1 TGTAAAATTAC-GAAATACCCTTGTA-G
* *
86948107 TGTAATATTATCGAAATATCCTTGTAG
1 TGTAAAATTA-CGAAATACCCTTGTAG
* * ** *
86948134 TGTAAAATTACTAAAACACCCCCG-ATT
1 TGTAAAATTAC-GAAATACCCTTGTA-G
86948161 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTA-CGAAATACCCTTGTAG
* *
86948188 TGTAAAATTACTAATATACCCTTGTAC
1 TGTAAAATTACGAA-ATACCCTTGTAG
* * *
86948215 TGTAAAATGACCGACATACCCCTGTAG
1 TGTAAAATTA-CGAAATACCCTTGTAG
86948242 GATAAAAAGA
Statistics
Matches: 127, Mismatches: 25, Indels: 20
0.74 0.15 0.12
Matches are distributed among these distances:
26 6 0.05
27 115 0.91
28 6 0.05
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (26 bp):
TGTAAAATTACGAAATACCCTTGTAG
Found at i:86948219 original size:54 final size:54
Alignment explanation
Indices: 86947935--86948241 Score: 289
Period size: 54 Copynumber: 5.7 Consensus size: 54
86947925 TTATCAAAGT
* * * * * *
86947935 ACCCCCGATTTGTAAAATTACCGAAATACCCCTG-ATTTATAAAATTACTGAAAT
1 ACCCCTGATTTGTAAAATTACCGAAATACCCTTGTA-GTGTAAAATTACTAAAAC
* * ** * *
86947989 ACCCCTAATTTGTAAAATTACCAAAATA-CCTTCAATTTGTAAAATTACTAAAAT
1 ACCCCTGATTTGTAAAATTACCGAAATACCCTTGTA-GTGTAAAATTACTAAAAC
* * * *
86948043 ACCCCTAATTTGTAAAATTACCAAAATACCCTT-AATTTGTAAAATTACTAAAAC
1 ACCCCTGATTTGTAAAATTACCGAAATACCCTTGTA-GTGTAAAATTACTAAAAC
* * * *
86948097 ACCCTTGATTTGTAATATTATCGAAATATCCTTGTAGTGTAAAATTACTAAAAC
1 ACCCCTGATTTGTAAAATTACCGAAATACCCTTGTAGTGTAAAATTACTAAAAC
* * * *
86948151 ACCCCCGATTTGTAAAATTATCGAAATACCCTTGTAGTGTAAAATTACTAATAT
1 ACCCCTGATTTGTAAAATTACCGAAATACCCTTGTAGTGTAAAATTACTAAAAC
* * * * *
86948205 ACCCTTG-TACTGTAAAATGACCGACATACCCCTGTAG
1 ACCCCTGAT-TTGTAAAATTACCGAAATACCCTTGTAG
86948242 GATAAAAAGA
Statistics
Matches: 220, Mismatches: 29, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
53 4 0.02
54 211 0.96
55 5 0.02
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (54 bp):
ACCCCTGATTTGTAAAATTACCGAAATACCCTTGTAGTGTAAAATTACTAAAAC
Found at i:86950648 original size:24 final size:24
Alignment explanation
Indices: 86950616--86950666 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
86950606 GTAAATTGGC
*
86950616 AAATCCCGAAATGTCGAAAAGCCG
1 AAATCCCGAAAAGTCGAAAAGCCG
* * *
86950640 AAATGCCGAAAAGTTGAAAAGCTG
1 AAATCCCGAAAAGTCGAAAAGCCG
86950664 AAA
1 AAA
86950667 GTTTGGCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (24 bp):
AAATCCCGAAAAGTCGAAAAGCCG
Found at i:86950658 original size:16 final size:16
Alignment explanation
Indices: 86950621--86950652 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
86950611 TTGGCAAATC
*
86950621 CCGAAATGTCGAAAAG
1 CCGAAATGCCGAAAAG
86950637 CCGAAATGCCGAAAAG
1 CCGAAATGCCGAAAAG
86950653 TTGAAAAGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.22, G:0.25, T:0.09
Consensus pattern (16 bp):
CCGAAATGCCGAAAAG
Found at i:86951746 original size:37 final size:37
Alignment explanation
Indices: 86951687--86951792 Score: 167
Period size: 37 Copynumber: 2.9 Consensus size: 37
86951677 AGCTCAGACG
* *
86951687 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
86951724 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
86951761 TACTCTCCACACGTAGTCATCGGGTCTCACCC
1 AAATCTCCACACGTAGTCATCGGGTCTTACCC
86951793 AGAATATATT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:86952009 original size:47 final size:47
Alignment explanation
Indices: 86951958--86952049 Score: 130
Period size: 47 Copynumber: 2.0 Consensus size: 47
86951948 TTTCACACTA
* * **
86951958 GCCATTCGGCTTTACCACATATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTACCACATATATACACACTCACATTCATCACATTG
* *
86952005 GCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTACCACATATATACACACTCACATTCATCACAT
86952050 AAAATCCTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTACCACATATATACACACTCACATTCATCACATTG
Found at i:86954852 original size:29 final size:29
Alignment explanation
Indices: 86954810--86954917 Score: 139
Period size: 29 Copynumber: 3.8 Consensus size: 29
86954800 GAAAGCATGT
*
86954810 ATATGAATGCGATTTGGGCCTAATGGTCC
1 ATATGAATGTGATTTGGGCCTAATGGTCC
*
86954839 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGTCC
* **
86954868 ATACGAATGTCCTTTGGGCCTAATGGGT-C
1 ATATGAATGTGATTTGGGCCTAAT-GGTCC
*
86954897 ATATGAATGAGA-TTGGGCCTA
1 ATATGAATGTGATTTGGGCCTA
86954918 CTGGGCATAT
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
28 9 0.13
29 57 0.84
30 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.31
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGTCC
Found at i:86965192 original size:12 final size:12
Alignment explanation
Indices: 86965175--86965199 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
86965165 TATGTGTTTC
86965175 CCAAAGAATAGA
1 CCAAAGAATAGA
86965187 CCAAAGAATAGA
1 CCAAAGAATAGA
86965199 C
1 C
86965200 TATCTCAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.20, G:0.16, T:0.08
Consensus pattern (12 bp):
CCAAAGAATAGA
Found at i:86968216 original size:35 final size:35
Alignment explanation
Indices: 86968130--86968254 Score: 110
Period size: 35 Copynumber: 3.5 Consensus size: 35
86968120 AGTACATTGA
* *
86968130 CAATCCAGCCAAAACACACCAGATGCTCACAAGAGT
1 CAATCCATCCAAAACACACCA-ATGCTCATAAGAGT
*
86968166 CAATCTATCCAAAACACACCAATGCTCATAAGAG-
1 CAATCCATCCAAAACACACCAATGCTCATAAGAGT
* * * * *
86968200 CTAATCCCTTCGAAACACATCAATACTCATAA-AGGT
1 C-AATCCATCCAAAACACACCAATGCTCATAAGA-GT
* * *
86968236 TAATCCCTCTAAAACACAC
1 CAATCCATCCAAAACACAC
86968255 TGAAACAAAA
Statistics
Matches: 72, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
34 2 0.03
35 51 0.71
36 19 0.26
ACGTcount: A:0.42, C:0.31, G:0.09, T:0.18
Consensus pattern (35 bp):
CAATCCATCCAAAACACACCAATGCTCATAAGAGT
Found at i:86974114 original size:21 final size:21
Alignment explanation
Indices: 86974085--86974124 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
86974075 CGTGGTACTC
86974085 GTGGAAGGGGTAC-TAGAGGCT
1 GTGGAAGGGGT-CGTAGAGGCT
*
86974106 GTGGCAGGGGTCGTAGAGG
1 GTGGAAGGGGTCGTAGAGG
86974125 GGCTCAAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.20, C:0.10, G:0.53, T:0.17
Consensus pattern (21 bp):
GTGGAAGGGGTCGTAGAGGCT
Found at i:86974708 original size:16 final size:16
Alignment explanation
Indices: 86974687--86974719 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
86974677 TGCACGAGGC
86974687 ATGGTGGCAACTATGT
1 ATGGTGGCAACTATGT
86974703 ATGGTGGCAACTATGT
1 ATGGTGGCAACTATGT
86974719 A
1 A
86974720 CGAGTTCTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.12, G:0.30, T:0.30
Consensus pattern (16 bp):
ATGGTGGCAACTATGT
Found at i:86975749 original size:32 final size:31
Alignment explanation
Indices: 86975713--86975804 Score: 72
Period size: 32 Copynumber: 3.1 Consensus size: 31
86975703 ATTTAGTTAA
86975713 TAGGACTTATGTGAGAAATTTTAGAAATGTGC
1 TAGGACTTATGTG-GAAATTTTAGAAATGTGC
*** **
86975745 TAGGAAACATGT-G-AA-TTTAG---T-TAA
1 TAGGACTTATGTGGAAATTTTAGAAATGTGC
86975769 TAGGACTTATGTGTGAAATTTTAGAAATGTGC
1 TAGGACTTATGTG-GAAATTTTAGAAATGTGC
86975801 TAGG
1 TAGG
86975805 CAAATGTAAG
Statistics
Matches: 42, Mismatches: 10, Indels: 16
0.62 0.15 0.24
Matches are distributed among these distances:
24 10 0.24
25 1 0.02
26 1 0.02
27 2 0.05
28 10 0.24
29 2 0.05
30 1 0.02
31 1 0.02
32 14 0.33
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (31 bp):
TAGGACTTATGTGGAAATTTTAGAAATGTGC
Found at i:86975761 original size:56 final size:56
Alignment explanation
Indices: 86975696--86975804 Score: 209
Period size: 56 Copynumber: 1.9 Consensus size: 56
86975686 TAGTCGATTG
86975696 CATGTGAATTTAGTTAATAGGACTTATGTGAGAAATTTTAGAAATGTGCTAGGAAA
1 CATGTGAATTTAGTTAATAGGACTTATGTGAGAAATTTTAGAAATGTGCTAGGAAA
*
86975752 CATGTGAATTTAGTTAATAGGACTTATGTGTGAAATTTTAGAAATGTGCTAGG
1 CATGTGAATTTAGTTAATAGGACTTATGTGAGAAATTTTAGAAATGTGCTAGG
86975805 CAAATGTAAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (56 bp):
CATGTGAATTTAGTTAATAGGACTTATGTGAGAAATTTTAGAAATGTGCTAGGAAA
Found at i:86976059 original size:47 final size:48
Alignment explanation
Indices: 86975990--86976083 Score: 163
Period size: 47 Copynumber: 2.0 Consensus size: 48
86975980 GGTGAGTGGG
* *
86975990 AGGAGAAACCAAAGTTGTCCCCCTTACTCCCTATTG-CGTGACTAGAC
1 AGGAGAAACCAAAGTTGTCCCCCTTACTCCCCATTGCCATGACTAGAC
86976037 AGGAGAAACCAAAGTTGTCCCCCTTACTCCCCATTGCCATGACTAGA
1 AGGAGAAACCAAAGTTGTCCCCCTTACTCCCCATTGCCATGACTAGA
86976084 AAAAGAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
47 35 0.80
48 9 0.20
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (48 bp):
AGGAGAAACCAAAGTTGTCCCCCTTACTCCCCATTGCCATGACTAGAC
Found at i:86977500 original size:40 final size:40
Alignment explanation
Indices: 86977445--86977685 Score: 369
Period size: 40 Copynumber: 6.0 Consensus size: 40
86977435 GATGATAACC
* * *
86977445 GGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCCG
86977485 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
86977525 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATATCCA
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
86977565 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
*
86977605 GGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* * *
86977645 GGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCG
86977685 G
1 G
86977686 TTAAATCCGG
Statistics
Matches: 188, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
39 3 0.02
40 185 0.98
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:86985689 original size:40 final size:40
Alignment explanation
Indices: 86985634--86985811 Score: 202
Period size: 40 Copynumber: 4.5 Consensus size: 40
86985624 TGGATGATAA
* *
86985634 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTA-TAT
*
86985674 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
* *
86985714 CCCGGCTAAGTCCCGAAGGCATTGGTG-TGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTATAT
* * * *
86985754 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTA-CTATAT
* *
86985794 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
86985812 TACTTGGCTT
Statistics
Matches: 120, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
39 16 0.13
40 104 0.87
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
Found at i:86995275 original size:27 final size:27
Alignment explanation
Indices: 86995245--86995422 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
86995235 ATATTGAGTC
* *
86995245 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
86995272 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
86995299 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** **
86995327 CGCACACTTAGTGCCGCATGGTCAGTT
1 CGCACACTTAGTGCTACATAATCAACT
* **
86995354 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
86995381 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
86995408 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
86995423 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:86995384 original size:82 final size:81
Alignment explanation
Indices: 86995271--86995421 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
86995261 TATAATCAAC
* *
86995271 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
86995336 AGTGCCGCATGGTCAGT
65 AGTGCCGCATGGTCAGT
* **
86995353 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
86995417 AGTGC
65 AGTGC
86995422 TGTACAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCAGT
Found at i:86997755 original size:40 final size:39
Alignment explanation
Indices: 86997705--86997858 Score: 141
Period size: 40 Copynumber: 3.9 Consensus size: 39
86997695 TCCAGTTACT
* *
86997705 AGCACAAAGCCTGTGGGAAATTAGGCCCGGATATA-GTACC
1 AGCACAAAGCCTGCGGG-AATTA-ACCCGGATATACGTACC
* * *
86997745 AGCACTAAGCCTGCGGGATTTAACCCGGATATACTTTACC
1 AGCACAAAGCCTGCGGGAATTAACCCGGATATAC-GTACC
* * * *
86997785 AGCACGAAGCCTGC-GGAATTTAACCTGGATATACATTACT
1 AGCACAAAGCCTGCGGGAA-TTAACCCGGATATAC-GTACC
* * *
86997825 AGCACTAAGCCTGCGGGATTTAACCTGGATATAC
1 AGCACAAAGCCTGCGGGAATTAACCCGGATATAC
86997859 AATATATCGA
Statistics
Matches: 98, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
38 10 0.10
39 7 0.07
40 78 0.80
41 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.23
Consensus pattern (39 bp):
AGCACAAAGCCTGCGGGAATTAACCCGGATATACGTACC
Found at i:86997859 original size:40 final size:40
Alignment explanation
Indices: 86997741--86997859 Score: 193
Period size: 40 Copynumber: 3.0 Consensus size: 40
86997731 CCGGATATAG
* *
86997741 TACCAGCACTAAGCCTGCGGGATTTAACCCGGATATACTT
1 TACCAGCACTAAGCCTGCGGGATTTAACCTGGATATACAT
* *
86997781 TACCAGCACGAAGCCTGCGGAATTTAACCTGGATATACAT
1 TACCAGCACTAAGCCTGCGGGATTTAACCTGGATATACAT
*
86997821 TACTAGCACTAAGCCTGCGGGATTTAACCTGGATATACA
1 TACCAGCACTAAGCCTGCGGGATTTAACCTGGATATACA
86997860 ATATATCGAG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.24
Consensus pattern (40 bp):
TACCAGCACTAAGCCTGCGGGATTTAACCTGGATATACAT
Found at i:86999998 original size:14 final size:15
Alignment explanation
Indices: 86999970--87000002 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
86999960 AGTAATGTAC
86999970 ATAT-GTCAAATATG
1 ATATGGTCAAATATG
86999984 ATATGGTCAAA-ATG
1 ATATGGTCAAATATG
86999998 ATATG
1 ATATG
87000003 ATTATGAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.42, C:0.06, G:0.18, T:0.33
Consensus pattern (15 bp):
ATATGGTCAAATATG
Found at i:87005702 original size:28 final size:27
Alignment explanation
Indices: 87005623--87005716 Score: 89
Period size: 28 Copynumber: 3.3 Consensus size: 27
87005613 CAGAGATCGT
*
87005623 CACAAAGGCATTTCCTTTCAGAGATTTTC
1 CACAAAGGC-TTTCCTATCAGAG-TTTTC
* * * *
87005652 CACAAAGGCGTTCTTAAACAGAGGTTTC
1 CACAAAGGCTTTCCT-ATCAGAGTTTTC
87005680 CACAAAGGCTTTCCTATCTAGAGTTTTGC
1 CACAAAGGCTTTCCTATC-AGAGTTTT-C
*
87005709 CATAAAGG
1 CACAAAGG
87005717 TTGTCCTTTA
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
27 2 0.04
28 28 0.54
29 22 0.42
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (27 bp):
CACAAAGGCTTTCCTATCAGAGTTTTC
Found at i:87006022 original size:53 final size:53
Alignment explanation
Indices: 87005872--87006024 Score: 227
Period size: 53 Copynumber: 2.9 Consensus size: 53
87005862 TTAAATTTCT
* *
87005872 CCATATGATGCCATAACCCACCAGTTATGATCTTACATGATATGATCTTCTTC
1 CCATATGATGCCATAACCCACCAGTTACGATCTTACATGATATGGTCTTCTTC
* * *
87005925 TCATATGATGTCATAACCCACTAGTTAC-AGTCTTACATGATATGGTCTTCTTC
1 CCATATGATGCCATAACCCACCAGTTACGA-TCTTACATGATATGGTCTTCTTC
* *
87005978 CCATATGATGCCATAACCCACCAGTTACGACCTTACAAGATATGGTC
1 CCATATGATGCCATAACCCACCAGTTACGATCTTACATGATATGGTC
87006025 CTTTAGTGCC
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
52 1 0.01
53 86 0.98
54 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (53 bp):
CCATATGATGCCATAACCCACCAGTTACGATCTTACATGATATGGTCTTCTTC
Found at i:87010049 original size:11 final size:11
Alignment explanation
Indices: 87010033--87010057 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
87010023 GTGACCACTA
87010033 CTATAAACATT
1 CTATAAACATT
87010044 CTATAAACATT
1 CTATAAACATT
87010055 CTA
1 CTA
87010058 ACCAACATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (11 bp):
CTATAAACATT
Found at i:87020002 original size:16 final size:16
Alignment explanation
Indices: 87019964--87019994 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
87019954 CCCAATGCTG
87019964 TAGTCGAATAGATCCA
1 TAGTCGAATAGATCCA
87019980 TAGTCGAATAGATCC
1 TAGTCGAATAGATCC
87019995 TCGATCGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (16 bp):
TAGTCGAATAGATCCA
Found at i:87020617 original size:16 final size:16
Alignment explanation
Indices: 87020596--87020628 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
87020586 TCGGTTCAGA
87020596 GCATTTTAACAAATTT
1 GCATTTTAACAAATTT
87020612 GCATTTTAACAAATTT
1 GCATTTTAACAAATTT
87020628 G
1 G
87020629 GGCTTTGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.42
Consensus pattern (16 bp):
GCATTTTAACAAATTT
Found at i:87020785 original size:17 final size:18
Alignment explanation
Indices: 87020752--87020788 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
87020742 TATACACTTG
87020752 TAAAGTAAATTCAATAAT
1 TAAAGTAAATTCAATAAT
87020770 TAAA-TAAATATC-ATAAT
1 TAAAGTAAAT-TCAATAAT
87020787 TA
1 TA
87020789 TCCACAAGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (18 bp):
TAAAGTAAATTCAATAAT
Found at i:87020936 original size:26 final size:23
Alignment explanation
Indices: 87020907--87020953 Score: 67
Period size: 26 Copynumber: 1.9 Consensus size: 23
87020897 CTGGCATTTC
87020907 TTTTAATTAGCTTAATTAATTGATAG
1 TTTTAATTAG-TT-A-TAATTGATAG
87020933 TTTTAATTAGTTATAATTGAT
1 TTTTAATTAGTTATAATTGAT
87020954 TCATTGCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 8 0.38
24 1 0.05
25 2 0.10
26 10 0.48
ACGTcount: A:0.34, C:0.02, G:0.11, T:0.53
Consensus pattern (23 bp):
TTTTAATTAGTTATAATTGATAG
Found at i:87032942 original size:37 final size:37
Alignment explanation
Indices: 87032892--87033044 Score: 306
Period size: 37 Copynumber: 4.1 Consensus size: 37
87032882 TTATTACGAA
87032892 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
87032929 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
87032966 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
87033003 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
87033040 GTCTT
1 GTCTT
87033045 TAGAGCTCGG
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 116 1.00
ACGTcount: A:0.26, C:0.35, G:0.19, T:0.20
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
Found at i:87033232 original size:47 final size:47
Alignment explanation
Indices: 87033163--87033620 Score: 898
Period size: 47 Copynumber: 9.7 Consensus size: 47
87033153 CCCTTCGGGA
* *
87033163 CTTATCACATTTATACACTTTCACATCCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
87033210 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
87033257 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
87033304 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
87033351 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
87033398 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
87033445 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
87033492 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
87033539 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
87033586 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
87033621 AGAATCCTAA
Statistics
Matches: 409, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 409 1.00
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:87036255 original size:40 final size:40
Alignment explanation
Indices: 87036228--87036453 Score: 328
Period size: 40 Copynumber: 5.7 Consensus size: 40
87036218 TGATTACTCT
* * * *
87036228 TCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCT
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
* * * * *
87036268 TCGAGG-TTTAGCACAGATATATTACTAGCACGAATGCTCT
1 TCG-GGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
* *
87036308 TCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
*
87036348 TCGGGACTTAGCCCAGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
87036388 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
87036428 TCGGGACTTAGCCCGGATATATCACT
1 TCGGGACTTAGCCCGGATATATCACT
87036454 CTCAATTCTC
Statistics
Matches: 166, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 163 0.98
41 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
Found at i:87052026 original size:56 final size:56
Alignment explanation
Indices: 87051932--87052042 Score: 152
Period size: 56 Copynumber: 2.0 Consensus size: 56
87051922 AATCTTGGTC
* * * * *
87051932 CAAGAAACCGAATCTTGCAGCCAAAGCGCGTTGTATCTCCATTATGAGCGTCAACA
1 CAAGAAACCAAATCTTGCAGCCAAAGCGCATTGGATCTCCATTACGAGCATCAACA
*
87051988 CAAGAAACCAAATCTTGCAGCCAACA-CGCATTGGATCTCCGTTACGAGCATCAAC
1 CAAGAAACCAAATCTTGCAGCCAA-AGCGCATTGGATCTCCATTACGAGCATCAAC
87052043 GACCCAATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
56 47 0.98
57 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (56 bp):
CAAGAAACCAAATCTTGCAGCCAAAGCGCATTGGATCTCCATTACGAGCATCAACA
Found at i:87055519 original size:28 final size:27
Alignment explanation
Indices: 87055456--87055689 Score: 308
Period size: 27 Copynumber: 8.6 Consensus size: 27
87055446 ATATTAAGTC
* * *
87055456 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
87055483 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
87055511 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
87055538 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
87055566 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
87055594 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
87055621 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
87055648 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
87055675 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
87055690 GTACAATTTA
Statistics
Matches: 188, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
27 109 0.58
28 79 0.42
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:87055540 original size:55 final size:55
Alignment explanation
Indices: 87055456--87055689 Score: 321
Period size: 55 Copynumber: 4.3 Consensus size: 55
87055446 ATATTAAGTC
* * * *
87055456 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
87055511 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
** * *
87055566 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTC-AATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAAACT
* ** *
87055621 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAA-T
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
87055675 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
87055690 GTACAATTTA
Statistics
Matches: 161, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
54 38 0.24
55 99 0.61
56 24 0.15
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:87055869 original size:66 final size:66
Alignment explanation
Indices: 87055763--87055887 Score: 232
Period size: 66 Copynumber: 1.9 Consensus size: 66
87055753 TAGTGCCGAG
87055763 ATCAACAACTCAGTACATCTTACCTCTTTTCGTTCATTCAACAATTTCATCATCACATATGTACA
1 ATCAACAACTCAGTACATCTTACCTCTTTTCGTTCATTCAACAATTTCATCATCACATATGTACA
87055828 T
66 T
* *
87055829 ATCAACAACTCAGTACATCTTCCCTCTTTTCTTTCATTCAACAATTTCATCATCACATA
1 ATCAACAACTCAGTACATCTTACCTCTTTTCGTTCATTCAACAATTTCATCATCACATA
87055888 CGTCCATGCA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.31, C:0.29, G:0.03, T:0.37
Consensus pattern (66 bp):
ATCAACAACTCAGTACATCTTACCTCTTTTCGTTCATTCAACAATTTCATCATCACATATGTACA
T
Found at i:87057208 original size:14 final size:14
Alignment explanation
Indices: 87057191--87057220 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
87057181 TTAAGAAAAC
87057191 TTAATTCACATTTA
1 TTAATTCACATTTA
87057205 TTAATTCACATTTA
1 TTAATTCACATTTA
87057219 TT
1 TT
87057221 GATTGAATGT
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:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (14 bp):
TTAATTCACATTTA
Found at i:87063675 original size:26 final size:25
Alignment explanation
Indices: 87063635--87063699 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
87063625 AAAATGGTTT
* **
87063635 CATTACTTATTTTAAATTGTTCTACA
1 CATTA-TTATGTTAAATAATTCTACA
* *
87063661 CATTATTTATGTTAAATAATTTTATA
1 CATTA-TTATGTTAAATAATTCTACA
87063687 CATTATTATGTTA
1 CATTATTATGTTA
87063700 TACATTCTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 8 0.24
26 25 0.76
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.52
Consensus pattern (25 bp):
CATTATTATGTTAAATAATTCTACA
Found at i:87077915 original size:40 final size:39
Alignment explanation
Indices: 87077855--87077935 Score: 126
Period size: 40 Copynumber: 2.1 Consensus size: 39
87077845 CTTAAAGAGG
* * *
87077855 GAAAGAGGCCAAATTGAAAACCCGTAAAGGGCGCTTTGA
1 GAAAGAGGCCAAAGTAAAAACCCGCAAAGGGCGCTTTGA
87077894 GANAAGAGGCCAAAGTAAAAACCCGCAAAGGGCGCTTTGA
1 GA-AAGAGGCCAAAGTAAAAACCCGCAAAGGGCGCTTTGA
87077934 GA
1 GA
87077936 CCTTCAAAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
39 2 0.05
40 36 0.95
ACGTcount: A:0.40, C:0.19, G:0.28, T:0.12
Consensus pattern (39 bp):
GAAAGAGGCCAAAGTAAAAACCCGCAAAGGGCGCTTTGA
Found at i:87080692 original size:40 final size:40
Alignment explanation
Indices: 87080647--87080758 Score: 147
Period size: 40 Copynumber: 2.8 Consensus size: 40
87080637 CGAAATTTAA
** *
87080647 CCGGTTATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGTTATAG-TAACTCGCACAAATGCCTTCGGGACATAAC
*
87080687 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACATAAC
*
87080727 CCGGATT-TAGTAACTCGCACCAATGCCTTCGG
1 CCGG-TTATAGTAACTCGCACAAATGCCTTCGG
87080759 ATCTTAGTCC
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.02
40 62 0.95
41 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACATAAC
Found at i:87080771 original size:40 final size:41
Alignment explanation
Indices: 87080666--87080811 Score: 167
Period size: 40 Copynumber: 3.6 Consensus size: 41
87080656 GCTACTCGTT
*
87080666 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
*
87080706 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
* * * * *
87080746 CCAATGCCTTC-GGATCTTAGTCCGGA-TATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAGTAAC-TCGCA
*
87080787 CAAA-GCCTTCGGGACTTAGCACGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
87080812 CATCATTCGA
Statistics
Matches: 90, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
39 4 0.04
40 74 0.82
41 12 0.13
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
Found at i:87082582 original size:44 final size:45
Alignment explanation
Indices: 87082533--87082631 Score: 139
Period size: 44 Copynumber: 2.2 Consensus size: 45
87082523 ATCCACCAGC
**
87082533 CTTATCTCTTTGAGGTAGCAAGGGAGCAGGTTGAAGATTGTAG-T
1 CTTATCTCTTTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGAT
*
87082577 CTTATCT-TCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGAT
1 CTTATCTCT-TTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGAT
*
87082622 CTTCTCTCTT
1 CTTATCTCTT
87082632 GAAATTACAG
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
43 1 0.02
44 38 0.81
45 7 0.15
46 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (45 bp):
CTTATCTCTTTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGAT
Found at i:87082895 original size:178 final size:178
Alignment explanation
Indices: 87082510--87083269 Score: 912
Period size: 178 Copynumber: 4.3 Consensus size: 178
87082500 GTCACAAACA
* * *
87082510 GGGAGTAGATTTTATCCACCAGCCTTATCTCTTTGAGGTAGCAAGGGAGC-AGGTTGAAGATTGT
1 GGGAGTAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGGGAGCGAGGCTGAAGATTGT
* * *
87082574 AGTCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCT-TCTCTCTTGAAATT
66 AGTCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAAATTGTAGATCTGTCTC-CTCGAGA-T
* *
87082638 A-CAGTGGAACAGATCGAAGACGGCGAATCTTATCTTCCCAAGGTATCAG
129 AGCAGTGGAACAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTAGCAG
* * * *
87082687 GGGAGTAGATTTTAACCACTAGCCTTATCTCTCTGAGATAG-TAGGAGAGCGA-GCTGAAGATTG
1 GGGAGTAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGG-GAGCGAGGCTGAAGATTG
* * *
87082750 TAGTCTTATCTTCCTGAGGTAGCAAGGGAGTAAACTAAAAATTGTAGATACTGTCTCCTCGAGAT
65 TAGTCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAAATTGTAGAT-CTGTCTCCTCGAGAT
* * * *
87082815 AGCAGTGGAGCAGATCGAAAATGGTGAATCTTATCTTTCCAAGGTAGCAG
129 AGCAGTGGAACAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTAGCAG
* * * * *
87082865 GGGAGCAGATTTGAGCCACCAGTCTTATCTCTCTGAGGTAGCAAGGGAG-TAGGCTAAAGATTGT
1 GGGAGTAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGGGAGCGAGGCTGAAGATTGT
* * *
87082929 AGTCTTATCTTCCTGAGGTAGTAAGGGAGCAGACTGAAGATTGTATG-TCTTGTCTCCTTGAGAT
66 AGTCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAAATTGTA-GATC-TGTCTCCTCGAGAT
* * * * * *
87082993 AGCAGTGAAATAGACCGAAGACAGTAAATCTTATCTTCCCGAGGTAGCAG
129 AGCAGTGGAACAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTAGCAG
* * *
87083043 GGGAGTAGATTTTACCCACTAGCCTTATCTCTCTGAGGTAG-AAGGAGAGCG-GGTTGAAGATTG
1 GGGAGTAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGG-GAGCGAGGCTGAAGATTG
* * * *
87083106 TAGTCTTATCTTCCTGAGGTAGCAACGGAGCAGACTGAAAATTGTAGATATTGTCTTCTCAAGAT
65 TAGTCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAAATTGTAGAT-CTGTCTCCTCGAGAT
* * * * *
87083171 AACAGTGGAGCAGATCGAATACGATGAATCTTATCTTCCCGAGGTAGTC-G
129 AGCAGTGGAACAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTAG-CAG
* * * *
87083221 GGGAGTAGAGTTTAGCCACTAGCTTTATCT-TCTTGAGGTAGAAAGGGAG
1 GGGAGTAGATTTTAGCCACCAGCCTTATCTCTC-TGAGGTAGCAAGGGAG
87083270 TAGACTGATG
Statistics
Matches: 497, Mismatches: 70, Indels: 31
0.83 0.12 0.05
Matches are distributed among these distances:
176 3 0.01
177 107 0.22
178 374 0.75
179 13 0.03
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (178 bp):
GGGAGTAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGGGAGCGAGGCTGAAGATTGT
AGTCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAAATTGTAGATCTGTCTCCTCGAGATAG
CAGTGGAACAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTAGCAG
Found at i:87082933 original size:44 final size:45
Alignment explanation
Indices: 87082710--87083152 Score: 157
Period size: 44 Copynumber: 10.0 Consensus size: 45
87082700 AACCACTAGC
* * *
87082710 CTTATCTCT-CTGAGATAG-TAGGAGAGC-GAGCTGAAGATTGTAGT
1 CTTATCTCTCCTGAGGTAGCAAGG-GAGCAGA-CTAAAGATTGTAGT
* * *
87082754 CTTATCT-TCCTGAGGTAGCAAGGGAGTAAACTAAAAATTGTAG-
1 CTTATCTCTCCTGAGGTAGCAAGGGAGCAGACTAAAGATTGTAGT
* * * * * *
87082797 -ATACTGTCTCCTCGAGATAGC-AGTGGAGCAGATCGAAA-ATGGTGAAT
1 CTTA-TCTCTCCT-GAGGTAGCAAG-GGAGCAGA-CTAAAGATTGT-AGT
* * * * ** *****
87082844 CTTATCTTTCC-AAGGTAGCAGGGGAGCAGATTTGAGCCACCAGT
1 CTTATCTCTCCTGAGGTAGCAAGGGAGCAGACTAAAGATTGTAGT
* *
87082888 CTTATCTCT-CTGAGGTAGCAAGGGAGTAGGCTAAAGATTGTAGT
1 CTTATCTCTCCTGAGGTAGCAAGGGAGCAGACTAAAGATTGTAGT
* *
87082932 CTTATCT-TCCTGAGGTAGTAAGGGAGCAGACTGAAGATTGTATGT
1 CTTATCTCTCCTGAGGTAGCAAGGGAGCAGACTAAAGATTGTA-GT
* * * * ** ** ** *
87082977 CTTGTCTC-CTTGAGATAGC-AGTGAAATAGACCGAAGACAGTAAAT
1 CTTATCTCTCCTGAGGTAGCAAG-GGAGCAGACTAAAGATTGT-AGT
* * * * ** ***** *
87083022 CTTATCT-TCCCGAGGTAGCAGGGGAGTAGATTTTACCCACTAGC
1 CTTATCTCTCCTGAGGTAGCAAGGGAGCAGACTAAAGATTGTAGT
* ** *
87083066 CTTATCTCT-CTGAGGTAG-AAGGAGAGCGGGTTGAAGATTGTAGT
1 CTTATCTCTCCTGAGGTAGCAAGG-GAGCAGACTAAAGATTGTAGT
*
87083110 CTTATCT-TCCTGAGGTAGCAACGGAGCAGACTGAAA-ATTGTAG
1 CTTATCTCTCCTGAGGTAGCAAGGGAGCAGACT-AAAGATTGTAG
87083153 ATATTGTCTT
Statistics
Matches: 281, Mismatches: 92, Indels: 52
0.66 0.22 0.12
Matches are distributed among these distances:
42 2 0.01
43 9 0.03
44 160 0.57
45 95 0.34
46 8 0.03
47 5 0.02
48 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (45 bp):
CTTATCTCTCCTGAGGTAGCAAGGGAGCAGACTAAAGATTGTAGT
Found at i:87083179 original size:356 final size:353
Alignment explanation
Indices: 87082510--87083272 Score: 1066
Period size: 356 Copynumber: 2.1 Consensus size: 353
87082500 GTCACAAACA
* * * * *
87082510 GGGAGTAGATTTTATCCACCAGCCTTATCTCTTTGAGGTAGCAAGGGAGCAGGTTGAAGATTGTA
1 GGGAGTAGA-TTTAGCCACCAG-CTTATCTCTCTGAGGTAGCAAGGGAGTAGGCTAAAGATTGTA
87082575 GTCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTCTCTCTTGAAATTAC
64 GTCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTCTCTCTTGAAATTAC
* * * * *
87082640 AGTGGAACAGATCGAAGACGGCGAATCTTATCTTCCCAAGGTATCAGGGGAGTAGATTTTAACCA
129 AGTGAAACAGACCGAAGACAGCAAATCTTATCTTCCCAAGGTAGCAGGGGAGTAGATTTTAACCA
*
87082705 CTAGCCTTATCTCTCTGAGATAGTAGGAGAGCGAGCTGAAGATTGTAGTCTTATCTTCCTGAGGT
194 CTAGCCTTATCTCTCTGAGATAGAAGGAGAGCGAGCTGAAGATTGTAGTCTTATCTTCCTGAGGT
* * * *
87082770 AGCAAGGGAGTAAACTAAAAATTGTAGATACTGTCTCCTCGAGATAGCAGTGGAGCAGATCGAAA
259 AGCAACGGAGCAAACTAAAAATTGTAGATACTGTCTCCTCAAGATAACAGTGGAGCAGATCGAAA
* * *
87082835 ATGGTGAATCTTATCTTTCCAAGGTAG-CAG
324 ACGATGAATCTTATCTTCCCAAGGTAGTC-G
*
87082865 GGGAGCAGATTTGAGCCACCAGTCTTATCTCTCTGAGGTAGCAAGGGAGTAGGCTAAAGATTGTA
1 GGGAGTAGATTT-AGCCACCAG-CTTATCTCTCTGAGGTAGCAAGGGAGTAGGCTAAAGATTGTA
* * *
87082930 GTCTTATCTTCCTGAGGTAGTAAGGGAGCAGACTGAAGATTGTATG-TCTTGTCTCCTTGAGA-T
64 GTCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTA-GATCTTCTCT-CTTGAAATT
* * * *
87082993 AGCAGTGAAATAGACCGAAGACAGTAAATCTTATCTTCCCGAGGTAGCAGGGGAGTAGATTTTAC
127 A-CAGTGAAACAGACCGAAGACAGCAAATCTTATCTTCCCAAGGTAGCAGGGGAGTAGATTTTAA
* * *
87083058 CCACTAGCCTTATCTCTCTGAGGTAGAAGGAGAGCGGGTTGAAGATTGTAGTCTTATCTTCCTGA
191 CCACTAGCCTTATCTCTCTGAGATAGAAGGAGAGCGAGCTGAAGATTGTAGTCTTATCTTCCTGA
* * * *
87083123 GGTAGCAACGGAGCAGACTGAAAATTGTAGATATTGTCTTCTCAAGATAACAGTGGAGCAGATCG
256 GGTAGCAACGGAGCAAACTAAAAATTGTAGATACTGTCTCCTCAAGATAACAGTGGAGCAGATCG
* *
87083188 AATACGATGAATCTTATCTTCCCGAGGTAGTCG
321 AAAACGATGAATCTTATCTTCCCAAGGTAGTCG
* *
87083221 GGGAGTAGAGTTTAGCCACTAGCTTTATCT-TCTTGAGGTAGAAAGGGAGTAG
1 GGGAGTAGA-TTTAGCCACCAGC-TTATCTCTC-TGAGGTAGCAAGGGAGTAG
87083273 ACTGATGATG
Statistics
Matches: 361, Mismatches: 39, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
354 3 0.01
355 109 0.30
356 245 0.68
357 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (353 bp):
GGGAGTAGATTTAGCCACCAGCTTATCTCTCTGAGGTAGCAAGGGAGTAGGCTAAAGATTGTAGT
CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTCTCTCTTGAAATTACAG
TGAAACAGACCGAAGACAGCAAATCTTATCTTCCCAAGGTAGCAGGGGAGTAGATTTTAACCACT
AGCCTTATCTCTCTGAGATAGAAGGAGAGCGAGCTGAAGATTGTAGTCTTATCTTCCTGAGGTAG
CAACGGAGCAAACTAAAAATTGTAGATACTGTCTCCTCAAGATAACAGTGGAGCAGATCGAAAAC
GATGAATCTTATCTTCCCAAGGTAGTCG
Found at i:87107355 original size:35 final size:34
Alignment explanation
Indices: 87107289--87107361 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 34
87107279 TTACTATTTT
* *
87107289 TTTTCTTTTTGGTTCAACGCTATTTATTTTACTA
1 TTTTCTTTTTGCTTCAACGCTATTGATTTTACTA
*
87107323 TTTTCTTTTATGCTTCAACGCTACTTGA-TTTACTG
1 TTTTCTTTT-TGCTTCAACGCTA-TTGATTTTACTA
87107358 TTTT
1 TTTT
87107362 GCCCTTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 9 0.26
35 22 0.65
36 3 0.09
ACGTcount: A:0.16, C:0.16, G:0.10, T:0.58
Consensus pattern (34 bp):
TTTTCTTTTTGCTTCAACGCTATTGATTTTACTA
Found at i:87107714 original size:15 final size:15
Alignment explanation
Indices: 87107694--87107726 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
87107684 AATTATTTAA
87107694 AAATTA-TAAAAATAT
1 AAATTATTAAAAAT-T
87107709 AAATTATTAAAAATT
1 AAATTATTAAAAATT
87107724 AAA
1 AAA
87107727 ATTTTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATTATTAAAAATT
Found at i:87114205 original size:7 final size:8
Alignment explanation
Indices: 87114193--87114227 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
87114183 CCAACTCTAC
87114193 TTTTCT-T
1 TTTTCTCT
*
87114200 TTTTCTTT
1 TTTTCTCT
87114208 TTTTCTCT
1 TTTTCTCT
87114216 TTTTCTCT
1 TTTTCTCT
87114224 TTTT
1 TTTT
87114228 AATTATAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTCTCT
Found at i:87115816 original size:25 final size:26
Alignment explanation
Indices: 87115787--87115838 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
87115777 TTTTTTTCTT
*
87115787 ATTTATTAAAT-AAAAAAATTTAAAA
1 ATTTAATAAATCAAAAAAATTTAAAA
*
87115812 ATTTAATAAATCAAAAATATTTAAAA
1 ATTTAATAAATCAAAAAAATTTAAAA
87115838 A
1 A
87115839 CATAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (26 bp):
ATTTAATAAATCAAAAAAATTTAAAA
Found at i:87115854 original size:22 final size:21
Alignment explanation
Indices: 87115826--87115871 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
87115816 AATAAATCAA
87115826 AAATATTTAAA-AACATAAAAAT
1 AAATA-TTAAACAA-ATAAAAAT
87115848 AAATATTAAACCAAATAAAAAT
1 AAATATTAAA-CAAATAAAAAT
87115870 AA
1 AA
87115872 TACTAAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 5 0.23
22 15 0.68
23 2 0.09
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.24
Consensus pattern (21 bp):
AAATATTAAACAAATAAAAAT
Found at i:87115980 original size:21 final size:21
Alignment explanation
Indices: 87115914--87115980 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
87115904 TAACAATATA
87115914 ATAAAAAATAGTTATATTAAAAT
1 ATAAAAAATA--TATATTAAAAT
** * *
87115937 -TTTAAAATA-ATTTTAAAAA
1 ATAAAAAATATATATTAAAAT
*
87115956 ATAAAAAATATATATTAATAT
1 ATAAAAAATATATATTAAAAT
87115977 ATAA
1 ATAA
87115981 TTCGGGCCGG
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
19 8 0.24
20 7 0.21
21 11 0.33
22 7 0.21
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (21 bp):
ATAAAAAATATATATTAAAAT
Found at i:87121552 original size:37 final size:37
Alignment explanation
Indices: 87121510--87121585 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
87121500 TAAAATCAAG
87121510 AAAATTTTATTTCAACCAATTATTCCACAAGGTCCAA
1 AAAATTTTATTTCAACCAATTATTCCACAAGGTCCAA
87121547 AAAATTTTATTTCAACCAATTATTCCACAAGGTCCAA
1 AAAATTTTATTTCAACCAATTATTCCACAAGGTCCAA
87121584 AA
1 AA
87121586 CAACTCATAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.32
Consensus pattern (37 bp):
AAAATTTTATTTCAACCAATTATTCCACAAGGTCCAA
Found at i:87136853 original size:18 final size:19
Alignment explanation
Indices: 87136819--87136854 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
87136809 GCTTGTTTGC
*
87136819 TTAAGTAGAAATGAATGAT
1 TTAAGTAGAAATCAATGAT
87136838 TTAAGT-GAAATCAATGA
1 TTAAGTAGAAATCAATGA
87136855 CCCTATACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.31
Consensus pattern (19 bp):
TTAAGTAGAAATCAATGAT
Found at i:87141163 original size:25 final size:24
Alignment explanation
Indices: 87141135--87141200 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 24
87141125 CAACTCTTTA
* *
87141135 TGAGCGTCCTGTTATATGCTCTTCT
1 TGAGCATCCTGTTATATGCTC-GCT
*
87141160 TGAGCTTCCTG--ATATGGCTCGCT
1 TGAGCATCCTGTTATAT-GCTCGCT
*
87141183 TGAACATCCTGTTATATG
1 TGAGCATCCTGTTATATG
87141201 GCTATCTAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
23 15 0.44
24 5 0.15
25 14 0.41
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (24 bp):
TGAGCATCCTGTTATATGCTCGCT
Found at i:87141184 original size:23 final size:23
Alignment explanation
Indices: 87141158--87141221 Score: 56
Period size: 25 Copynumber: 2.7 Consensus size: 23
87141148 ATATGCTCTT
*
87141158 CTTGAGCTTCCTGATATGGCTCG
1 CTTGAGCTTCCTGATATGGCTAG
* * *
87141181 CTTGAACATCCTGTTATATGGCTAT
1 CTTGAGCTTCCTG--ATATGGCTAG
* *
87141206 CTAGAGCTCCCTGATA
1 CTTGAGCTTCCTGATA
87141222 ATAGCTCTTG
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
23 14 0.45
25 17 0.55
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (23 bp):
CTTGAGCTTCCTGATATGGCTAG
Found at i:87143305 original size:17 final size:18
Alignment explanation
Indices: 87143285--87143318 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
87143275 TTAATAATCA
87143285 ATTTTTATATTT-TTTTC
1 ATTTTTATATTTATTTTC
*
87143302 ATTTTTTTATTTATTTT
1 ATTTTTATATTTATTTT
87143319 TACCATATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (18 bp):
ATTTTTATATTTATTTTC
Found at i:87145813 original size:13 final size:12
Alignment explanation
Indices: 87145795--87145850 Score: 96
Period size: 12 Copynumber: 4.7 Consensus size: 12
87145785 TCGGTATTGT
87145795 AAAAAAAATTCA
1 AAAAAAAATTCA
87145807 AAAAAAAATTCAA
1 AAAAAAAATTC-A
87145820 AAAAAAAATTC-
1 AAAAAAAATTCA
87145831 AAAAAAAATTCA
1 AAAAAAAATTCA
87145843 AAAAAAAA
1 AAAAAAAA
87145851 GTTTGTATTC
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.26
12 19 0.45
13 12 0.29
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:87145937 original size:27 final size:26
Alignment explanation
Indices: 87145896--87145962 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
87145886 GTATTGAAGA
* *
87145896 AAAAAAAGAAGAAAAAAATTCGGAATT
1 AAAAAAA-AAGAAAAAAAATCGAAATT
87145923 AAAAAAAAAGAAAAAAAATCGAAATT
1 AAAAAAAAAGAAAAAAAATCGAAATT
*
87145949 AAAAACAAA-AAAAA
1 AAAAAAAAAGAAAAA
87145963 GAGTGATTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 5 0.14
26 25 0.68
27 7 0.19
ACGTcount: A:0.76, C:0.04, G:0.09, T:0.10
Consensus pattern (26 bp):
AAAAAAAAAGAAAAAAAATCGAAATT
Found at i:87146884 original size:17 final size:15
Alignment explanation
Indices: 87146864--87146902 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
87146854 GCGAGCGAGA
87146864 AAATGAACATGAAAAAG
1 AAATGAA-A-GAAAAAG
87146881 AAATGAAAGAAAAAG
1 AAATGAAAGAAAAAG
87146896 AAGATGA
1 AA-ATGA
87146903 GTGGGACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.67, C:0.03, G:0.21, T:0.10
Consensus pattern (15 bp):
AAATGAAAGAAAAAG
Found at i:87150435 original size:13 final size:12
Alignment explanation
Indices: 87150417--87150472 Score: 96
Period size: 12 Copynumber: 4.7 Consensus size: 12
87150407 TCGGTATTGT
87150417 AAAAAAAATTCA
1 AAAAAAAATTCA
87150429 AAAAAAAATTCAA
1 AAAAAAAATTC-A
87150442 AAAAAAAATTC-
1 AAAAAAAATTCA
87150453 AAAAAAAATTCA
1 AAAAAAAATTCA
87150465 AAAAAAAA
1 AAAAAAAA
87150473 GTTTGTATTC
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.26
12 19 0.45
13 12 0.29
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:87150559 original size:27 final size:26
Alignment explanation
Indices: 87150518--87150584 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
87150508 GTATTGAAGA
* *
87150518 AAAAAAAGAAGAAAAAAATTCGGAATT
1 AAAAAAA-AAGAAAAAAAATCGAAATT
87150545 AAAAAAAAAGAAAAAAAATCGAAATT
1 AAAAAAAAAGAAAAAAAATCGAAATT
*
87150571 AAAAACAAA-AAAAA
1 AAAAAAAAAGAAAAA
87150585 GAGTGATTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 5 0.14
26 25 0.68
27 7 0.19
ACGTcount: A:0.76, C:0.04, G:0.09, T:0.10
Consensus pattern (26 bp):
AAAAAAAAAGAAAAAAAATCGAAATT
Found at i:87151506 original size:17 final size:15
Alignment explanation
Indices: 87151486--87151524 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
87151476 GCGAGCGAGA
87151486 AAATGAACATGAAAAAG
1 AAATGAA-A-GAAAAAG
87151503 AAATGAAAGAAAAAG
1 AAATGAAAGAAAAAG
87151518 AAGATGA
1 AA-ATGA
87151525 GTGGGACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.67, C:0.03, G:0.21, T:0.10
Consensus pattern (15 bp):
AAATGAAAGAAAAAG
Done.