Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 106 of 205
Found at i:31447092 original size:26 final size:27
Alignment explanation
Indices: 31447063--31447150 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 27
31447053 GGGGCAAAAT
31447063 AATCATTTAACCTCA-AGGGGCATTAC
1 AATCATTTAACCTCACAGGGGCATTAC
* * * * *
31447089 AATCATTTTACCTTATAGGGGTATTTC
1 AATCATTTAACCTCACAGGGGCATTAC
*
31447116 AGTCATTTAACC-CTACAGGGGCATTAC
1 AATCATTTAACCTC-ACAGGGGCATTAC
*
31447143 GATCATTT
1 AATCATTT
31447151 TACCCTATAG
Statistics
Matches: 48, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
26 13 0.27
27 35 0.73
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (27 bp):
AATCATTTAACCTCACAGGGGCATTAC
Found at i:31447152 original size:54 final size:54
Alignment explanation
Indices: 31447065--31447284 Score: 241
Period size: 54 Copynumber: 4.1 Consensus size: 54
31447055 GGCAAAATAA
* *
31447065 TCATTTAA-CCT-CAAGGGGCATTACAATCATTTTACCTTATAGGGGTATTTCAG
1 TCATTTAACCCTAC-AGGGGCATTACGATCATTTTACCCTATAGGGGTATTTCAG
* * *
31447118 TCATTTAACCCTACAGGGGCATTACGATCATTTTACCCTATAGGGGTGTTACGG
1 TCATTTAACCCTACAGGGGCATTACGATCATTTTACCCTATAGGGGTATTTCAG
* * * * * * *
31447172 TCATTTTACCCTACAAGAGCATTACGGTTATTTTACCCTATGGGGGTATTTCGG
1 TCATTTAACCCTACAGGGGCATTACGATCATTTTACCCTATAGGGGTATTTCAG
* * * * *
31447226 T-ATTCT-ACCCTACGGGGGTATTTCGATCATTTTACCCTATAGGGGCATTTTAG
1 TCATT-TAACCCTACAGGGGCATTACGATCATTTTACCCTATAGGGGTATTTCAG
31447279 TCATTT
1 TCATTT
31447285 TATATCAGTT
Statistics
Matches: 139, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
53 49 0.35
54 89 0.64
55 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (54 bp):
TCATTTAACCCTACAGGGGCATTACGATCATTTTACCCTATAGGGGTATTTCAG
Found at i:31447275 original size:27 final size:27
Alignment explanation
Indices: 31447078--31447274 Score: 164
Period size: 27 Copynumber: 7.3 Consensus size: 27
31447068 TTTAACCTCA
* *
31447078 AGGGGCATTACAATCATTTTACCTTAT
1 AGGGGCATTACGATCATTTTACCCTAT
* * * *
31447105 AGGGGTATTTC-AGTCATTTAACCCTAC
1 AGGGGCATTACGA-TCATTTTACCCTAT
31447132 AGGGGCATTACGATCATTTTACCCTAT
1 AGGGGCATTACGATCATTTTACCCTAT
** * *
31447159 AGGGGTGTTACGGTCATTTTACCCTAC
1 AGGGGCATTACGATCATTTTACCCTAT
* * * *
31447186 AAGAGCATTACGGTTATTTTACCCTAT
1 AGGGGCATTACGATCATTTTACCCTAT
* * * * * *
31447213 GGGGGTATTTCGGT-ATTCTACCCTAC
1 AGGGGCATTACGATCATTTTACCCTAT
* * *
31447239 GGGGGTATTTCGATCATTTTACCCTAT
1 AGGGGCATTACGATCATTTTACCCTAT
31447266 AGGGGCATT
1 AGGGGCATT
31447275 TTAGTCATTT
Statistics
Matches: 136, Mismatches: 31, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
26 24 0.18
27 111 0.82
28 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.35
Consensus pattern (27 bp):
AGGGGCATTACGATCATTTTACCCTAT
Found at i:31457963 original size:22 final size:22
Alignment explanation
Indices: 31457930--31457974 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
31457920 GAACATTAAG
31457930 TTTAACACATTAC-ATACCAAC
1 TTTAACACATTACAATACCAAC
* *
31457951 TTTAGACAGATTACAATTCCAAC
1 TTTA-ACACATTACAATACCAAC
31457974 T
1 T
31457975 AGAACATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 8 0.40
23 8 0.40
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.31
Consensus pattern (22 bp):
TTTAACACATTACAATACCAAC
Found at i:31459502 original size:45 final size:44
Alignment explanation
Indices: 31459430--31459599 Score: 171
Period size: 45 Copynumber: 3.8 Consensus size: 44
31459420 GTTATACACC
*
31459430 TAAAATGAGTAAGACCATAACTGAAAGATGCTATGAAATCATGA
1 TAAAATGAGTAAGACCATAGCTGAAAGATGCTATGAAATCATGA
* * * **
31459474 TAAAGATGAGTAAGACCACAGCTTAAAGATGTTATGGCATCATGA
1 TAAA-ATGAGTAAGACCATAGCTGAAAGATGCTATGAAATCATGA
* * **
31459519 TATAAATGAGTAAGACCATGGCTGAAAGACGCTATGGCATCAT-A
1 TA-AAATGAGTAAGACCATAGCTGAAAGATGCTATGAAATCATGA
* * * *
31459563 GTGAACAGGACTAAGACCATAGCTGAAAGAGGCTATG
1 -T-AAAATGAGTAAGACCATAGCTGAAAGATGCTATG
31459600 GTATACTTTT
Statistics
Matches: 106, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
44 5 0.05
45 98 0.92
46 3 0.03
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (44 bp):
TAAAATGAGTAAGACCATAGCTGAAAGATGCTATGAAATCATGA
Found at i:31459600 original size:90 final size:90
Alignment explanation
Indices: 31459432--31459600 Score: 205
Period size: 90 Copynumber: 1.9 Consensus size: 90
31459422 TATACACCTA
* * * *
31459432 AAATGAGTAAGACCATAACTGAAAGATGCTATGAAATCATGATAAAGATGAGTAAGACCACAGCT
1 AAATGAGTAAGACCATAACTGAAAGACGCTATGAAATCATGATAAACAGGACTAAGACCACAGCT
* * *
31459497 TAAAGATGTTATGGCATCATGATAT
66 GAAAGAGGCTATGGCATCATGATAT
** ** * *
31459522 AAATGAGTAAGACCATGGCTGAAAGACGCTATGGCATCAT-AGTGAACAGGACTAAGACCATAGC
1 AAATGAGTAAGACCATAACTGAAAGACGCTATGAAATCATGA-TAAACAGGACTAAGACCACAGC
31459586 TGAAAGAGGCTATGG
65 TGAAAGAGGCTATGG
31459601 TATACTTTTA
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
89 1 0.02
90 64 0.98
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (90 bp):
AAATGAGTAAGACCATAACTGAAAGACGCTATGAAATCATGATAAACAGGACTAAGACCACAGCT
GAAAGAGGCTATGGCATCATGATAT
Found at i:31459708 original size:27 final size:27
Alignment explanation
Indices: 31459676--31459776 Score: 96
Period size: 27 Copynumber: 3.7 Consensus size: 27
31459666 TAGAAAGTTC
*
31459676 AACGAGACATTAAATACGGGATAGTCT
1 AACGAGACATTAAACACGGGATAGTCT
* * **
31459703 GACGAGACGTTAAATGCGGGATAGTCT
1 AACGAGACATTAAACACGGGATAGTCT
* * *
31459730 AATGGGACATTAAACACGAGATAGT-T
1 AACGAGACATTAAACACGGGATAGTCT
* *
31459756 CACCGAGACAATAAACACGGG
1 -AACGAGACATTAAACACGGG
31459777 GAATTTAGGG
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
26 1 0.02
27 57 0.98
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.19
Consensus pattern (27 bp):
AACGAGACATTAAACACGGGATAGTCT
Found at i:31466238 original size:40 final size:40
Alignment explanation
Indices: 31466138--31466402 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
31466128 GCTCCTCGTT
* * * *
31466138 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
31466178 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
31466217 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
31466257 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
31466297 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
31466337 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
31466378 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
31466403 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:31466362 original size:80 final size:80
Alignment explanation
Indices: 31466105--31466402 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
31466095 AAATCACGTA
* ** * * *
31466105 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
31466167 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
31466183 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
31466246 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
31466263 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
31466327 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
31466343 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
31466403 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:31466411 original size:41 final size:41
Alignment explanation
Indices: 31466334--31466411 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
31466324 TTTGTATCTC
* * *
31466334 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
31466375 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
31466412 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:31471812 original size:32 final size:32
Alignment explanation
Indices: 31471769--31471896 Score: 157
Period size: 32 Copynumber: 4.0 Consensus size: 32
31471759 AGCCACAAGT
*
31471769 ACAGTAATATGATTGGCACAAAGCCATCAGTA
1 ACAGTAATATGATCGGCACAAAGCCATCAGTA
** * * * *
31471801 GTAGTGATATGACCGGTACACAGCCATCAGTA
1 ACAGTAATATGATCGGCACAAAGCCATCAGTA
* *
31471833 ACAGAAATATGATCCGCACAAAGCCATCAGTA
1 ACAGTAATATGATCGGCACAAAGCCATCAGTA
* *
31471865 ACGGTAATATGATCAGCACAAAGCCATCAGTA
1 ACAGTAATATGATCGGCACAAAGCCATCAGTA
31471897 GCATCACAGC
Statistics
Matches: 78, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 78 1.00
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.20
Consensus pattern (32 bp):
ACAGTAATATGATCGGCACAAAGCCATCAGTA
Found at i:31471973 original size:27 final size:27
Alignment explanation
Indices: 31471931--31472003 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
31471921 CAGTATCGCA
* * *
31471931 GCAAAGCTACCCGTAATAGT-ATATGTG
1 GCAAAGCCACCAGTAACAGTGAT-TGTG
*
31471958 GCCAAGCCACCAGTAACAGTGATTGTG
1 GCAAAGCCACCAGTAACAGTGATTGTG
31471985 GCAAAGCCACCAGT-ACAGT
1 GCAAAGCCACCAGTAACAGT
31472004 ACTTCCTCCA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
26 5 0.12
27 33 0.82
28 2 0.05
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (27 bp):
GCAAAGCCACCAGTAACAGTGATTGTG
Found at i:31472099 original size:24 final size:24
Alignment explanation
Indices: 31472068--31472125 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
31472058 CCATGCTCAG
31472068 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
* *
31472092 AATTAGTCATACCAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
31472116 AATCAGTCAT
1 AATCAGTCAT
31472126 TTACACTCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.47, C:0.24, G:0.09, T:0.21
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAGACA
Found at i:31472182 original size:27 final size:27
Alignment explanation
Indices: 31472152--31472376 Score: 123
Period size: 27 Copynumber: 8.3 Consensus size: 27
31472142 AAATAGTCAA
* *
31472152 TTACCCTCTAGAGGCATTACGGTCATT
1 TTACCCTATAGGGGCATTACGGTCATT
* * * *** *
31472179 TTACCTTATAGGAGTATTTTAGCCATT
1 TTACCCTATAGGGGCATTACGGTCATT
* * * *
31472206 TAACCCTATTGGGGTATTACGATCATT
1 TTACCCTATAGGGGCATTACGGTCATT
*
31472233 TTACCCTATAGGGGCGTTACGGTCATT
1 TTACCCTATAGGGGCATTACGGTCATT
** ** * * *
31472260 TTACCCTAT-GACAGTTTTTCGATTATT
1 TTACCCTATAG-GGGCATTACGGTCATT
* * *
31472287 TTACCCTACAGGGGTATTACAGTCATT
1 TTACCCTATAGGGGCATTACGGTCATT
* * * * *
31472314 TTACCTTACAGGGCCATTTTCGATCATT
1 TTACCCTATAGGGGCA-TTACGGTCATT
*
31472342 TTACCCTAT-GAGGGTA-TATCGGTCATT
1 TTACCCTATAG-GGGCATTA-CGGTCATT
31472369 TTACCCTA
1 TTACCCTA
31472377 CGAGAGTATT
Statistics
Matches: 143, Mismatches: 50, Indels: 10
0.70 0.25 0.05
Matches are distributed among these distances:
26 2 0.01
27 122 0.85
28 19 0.13
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.38
Consensus pattern (27 bp):
TTACCCTATAGGGGCATTACGGTCATT
Found at i:31472294 original size:81 final size:82
Alignment explanation
Indices: 31472203--31472352 Score: 196
Period size: 81 Copynumber: 1.8 Consensus size: 82
31472193 TATTTTAGCC
** * * *
31472203 ATTTAACCCTATTGGGGTATTAC-GATCATTTTACCCTATAGGGGC-GTTACGGTCATTTTACCC
1 ATTTAACCCTACAGGGGTATTACAG-TCATTTTACCCTACAGGGCCAGTTACGATCATTTTACCC
31472266 TATGACAGTTTTTCGATT
65 TATGACAGTTTTTCGATT
* * * *
31472284 ATTTTACCCTACAGGGGTATTACAGTCATTTTACCTTACAGGGCCATTTTCGATCATTTTACCCT
1 ATTTAACCCTACAGGGGTATTACAGTCATTTTACCCTACAGGGCCAGTTACGATCATTTTACCCT
31472349 ATGA
66 ATGA
31472353 GGGTATATCG
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 37 0.64
82 21 0.36
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (82 bp):
ATTTAACCCTACAGGGGTATTACAGTCATTTTACCCTACAGGGCCAGTTACGATCATTTTACCCT
ATGACAGTTTTTCGATT
Found at i:31472385 original size:27 final size:27
Alignment explanation
Indices: 31472217--31472423 Score: 145
Period size: 27 Copynumber: 7.7 Consensus size: 27
31472207 AACCCTATTG
* * *
31472217 GGGTATTACGATCATTTTACCCTA-TA
1 GGGTATTTCGGTCATTTTACCCTACGA
** * *
31472243 GGGGCGTTACGGTCATTTTACCCTATGA
1 -GGGTATTTCGGTCATTTTACCCTACGA
** * * *
31472271 CAGTTTTTCGATTATTTTACCCTAC-A
1 GGGTATTTCGGTCATTTTACCCTACGA
* * *
31472297 GGGGTATTACAGTCATTTTACCTTAC-A
1 -GGGTATTTCGGTCATTTTACCCTACGA
* * *
31472324 GGGCCATTTTCGATCATTTTACCCTATGA
1 GGG-TA-TTTCGGTCATTTTACCCTACGA
*
31472353 GGGTATATCGGTCATTTTACCCTACGA
1 GGGTATTTCGGTCATTTTACCCTACGA
* *
31472380 GAGTATTTTGGTCATTTTACCC-ATCGA
1 GGGTATTTCGGTCATTTTACCCTA-CGA
31472407 GGGTATTTCGGT-ATTTT
1 GGGTATTTCGGTCATTTT
31472424 TACAAATATT
Statistics
Matches: 139, Mismatches: 35, Indels: 13
0.74 0.19 0.07
Matches are distributed among these distances:
26 10 0.07
27 108 0.78
28 17 0.12
29 4 0.03
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGGTCATTTTACCCTACGA
Found at i:31476008 original size:22 final size:22
Alignment explanation
Indices: 31475965--31476029 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
31475955 TGTCAGTAAC
* *
31475965 CAGAATGGCTA-AGAGCCGTAAA
1 CAGAATAGCTACA-AGCCATAAA
* * *
31475987 CAGGATAGCTATAAGCTATAAA
1 CAGAATAGCTACAAGCCATAAA
*
31476009 CAGAATGGCTACAAGCCATAA
1 CAGAATAGCTACAAGCCATAA
31476030 GTACAGTATA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
22 33 0.97
23 1 0.03
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (22 bp):
CAGAATAGCTACAAGCCATAAA
Found at i:31476088 original size:32 final size:32
Alignment explanation
Indices: 31476021--31476127 Score: 101
Period size: 32 Copynumber: 3.4 Consensus size: 32
31476011 GAATGGCTAC
* ***
31476021 AAGCCATAAGTA-CAGT-ATATGATTAGCACA
1 AAGCCATCAGTAGCAGTAATATGACCGGCACA
* *
31476051 AAGCCATCAGTAGCAGTGATATGACCGGCATA
1 AAGCCATCAGTAGCAGTAATATGACCGGCACA
* * * * *
31476083 CAGCCATCAGCAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAGCAGTAATATGACCGGCACA
31476115 AAGCCATCAGTAG
1 AAGCCATCAGTAG
31476128 TATTACAGCA
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
30 11 0.18
31 4 0.07
32 45 0.75
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.19
Consensus pattern (32 bp):
AAGCCATCAGTAGCAGTAATATGACCGGCACA
Found at i:31476298 original size:24 final size:24
Alignment explanation
Indices: 31476271--31476351 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
31476261 TCATGCTCAG
*
31476271 AATCAGTCATACAAATCACAGACA
1 AATCAATCATACAAATCACAGACA
* *
31476295 AATCAATCATACCAATCACAGACC
1 AATCAATCATACAAATCACAGACA
** *
31476319 AATCAATCATTTAAATCATAGACA
1 AATCAATCATACAAATCACAGACA
31476343 AATC-ATCAT
1 AATCAATCAT
31476352 TTACACTCGA
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
23 5 0.10
24 44 0.90
ACGTcount: A:0.48, C:0.25, G:0.05, T:0.22
Consensus pattern (24 bp):
AATCAATCATACAAATCACAGACA
Found at i:31476417 original size:27 final size:27
Alignment explanation
Indices: 31476389--31476542 Score: 96
Period size: 27 Copynumber: 5.7 Consensus size: 27
31476379 TACCCTCAAG
31476389 GGGCATTACGATCATTTTACCTTAT-A
1 GGGCATTACGATCATTTTACCTTATAA
* * * **
31476415 GGGATATTTC-AGTCATTTAACCCCATAA
1 GGG-CATTACGA-TCATTTTACCTTATAA
* * * *
31476443 AGGTATTACGGTCATTTTACCTTACAA
1 GGGCATTACGATCATTTTACCTTATAA
* **
31476470 GGGCATTACGATCATTTTACCCTACGA
1 GGGCATTACGATCATTTTACCTTATAA
* * * * **
31476497 GGGTATTTCAATCATTTTACCCTACGA
1 GGGCATTACGATCATTTTACCTTATAA
* *
31476524 GGGTATTTCGATCATTTTA
1 GGGCATTACGATCATTTTA
31476543 TCCATTAAAG
Statistics
Matches: 103, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
26 4 0.04
27 96 0.93
28 3 0.03
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.36
Consensus pattern (27 bp):
GGGCATTACGATCATTTTACCTTATAA
Found at i:31476529 original size:81 final size:80
Alignment explanation
Indices: 31476373--31476705 Score: 250
Period size: 81 Copynumber: 4.1 Consensus size: 80
31476363 AGGCAAAATA
* * * *
31476373 GTCA-TTTACCCT-CAAGGGGCATTACGATCATTTTACCTTA-TAGGGATATTTCAGTCATTTAA
1 GTCATTTTACCTTACAA-GGGCATTACGATCATTTTACCCTACGAGGG-TATTTCAGTCATTTTA
** * *
31476435 CCCCATAAAGGTATTACG
64 -CCCACGAGGGTATTTCG
*
31476453 GTCATTTTACCTTACAAGGGCATTACGATCATTTTACCCTACGAGGGTATTTCAATCATTTTACC
1 GTCATTTTACCTTACAAGGGCATTACGATCATTTTACCCTACGAGGGTATTTCAGTCATTTTACC
31476518 CTACGAGGGTATTTCG
66 C-ACGAGGGTATTTCG
* * * * * *
31476534 ATCATTTTATCCATTA-AA-GGTATTTCAATAATTTTACCC-ATCGAGGGTATTTCGGTCATTTT
1 GTCATTTTA-CC-TTACAAGGGCATTACGATCATTTTACCCTA-CGAGGGTATTTCAGTCATTTT
*
31476596 ACCCATCGAGGGTATTTCA
63 ACCCA-CGAGGGTATTTCG
* * * * ** * * ** *
31476615 GTCATTTTACC-CATCGAGTGTATTTTGGTAATTTTACCC-ATCGAGGGTATTTTGGTCATTATA
1 GTCATTTTACCTTA-CAAGGGCATTACGATCATTTTACCCTA-CGAGGGTATTTCAGTCATTTTA
31476678 CCCATCGAGGGTATTTCG
64 CCCA-CGAGGGTATTTCG
* *
31476696 ATAATTTTAC
1 GTCATTTTAC
31476706 AAATATTGGG
Statistics
Matches: 213, Mismatches: 29, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
78 1 0.00
80 12 0.06
81 186 0.87
82 11 0.05
83 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.38
Consensus pattern (80 bp):
GTCATTTTACCTTACAAGGGCATTACGATCATTTTACCCTACGAGGGTATTTCAGTCATTTTACC
CACGAGGGTATTTCG
Found at i:31476555 original size:27 final size:27
Alignment explanation
Indices: 31476469--31476705 Score: 264
Period size: 27 Copynumber: 8.8 Consensus size: 27
31476459 TTACCTTACA
* *
31476469 AGGGCATTACGATCATTTTACCC-TACG
1 AGGGTATTTCGATCATTTTACCCAT-CG
*
31476496 AGGGTATTTCAATCATTTTACCC-TACG
1 AGGGTATTTCGATCATTTTACCCAT-CG
* **
31476523 AGGGTATTTCGATCATTTTATCCATTA
1 AGGGTATTTCGATCATTTTACCCATCG
* * *
31476550 AAGGTATTTCAATAATTTTACCCATCG
1 AGGGTATTTCGATCATTTTACCCATCG
*
31476577 AGGGTATTTCGGTCATTTTACCCATCG
1 AGGGTATTTCGATCATTTTACCCATCG
31476604 AGGGTATTTC-AGTCATTTTACCCATCG
1 AGGGTATTTCGA-TCATTTTACCCATCG
* * * *
31476631 AGTGTATTTTGGTAATTTTACCCATCG
1 AGGGTATTTCGATCATTTTACCCATCG
* * *
31476658 AGGGTATTTTGGTCATTATACCCATCG
1 AGGGTATTTCGATCATTTTACCCATCG
*
31476685 AGGGTATTTCGATAATTTTAC
1 AGGGTATTTCGATCATTTTAC
31476706 AAATATTGGG
Statistics
Matches: 178, Mismatches: 29, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
27 177 0.99
28 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGATCATTTTACCCATCG
Found at i:31481493 original size:20 final size:20
Alignment explanation
Indices: 31481470--31481522 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
31481460 CTCAAATAAA
31481470 CTAAAGATGAGCTAAATGAG
1 CTAAAGATGAGCTAAATGAG
***
31481490 CT-AAGAATGAGCTCGTTGAG
1 CTAAAG-ATGAGCTAAATGAG
*
31481510 CTAAAGTTGAGCT
1 CTAAAGATGAGCT
31481523 GAGTGAGCCT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 3 0.11
20 21 0.78
21 3 0.11
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.25
Consensus pattern (20 bp):
CTAAAGATGAGCTAAATGAG
Found at i:31484539 original size:40 final size:40
Alignment explanation
Indices: 31484480--31484619 Score: 117
Period size: 40 Copynumber: 3.5 Consensus size: 40
31484470 AACACACCAG
*
31484480 TTTGACATCCAGTGCCTCATCGGATAATTCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
* * * * **
31484520 TTTGACACCCATTGTCTCATTGGCTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
* * ** *
31484558 TTAG-CACCTAGTGCCTCATCAAAT-ATATCTAAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAAT-TC-GAAGTAATAA
*
31484598 TTTGACACCCAGTGTCTCATCG
1 TTTGACACCCAGTGCCTCATCG
31484620 ACTCGAAGTT
Statistics
Matches: 73, Mismatches: 22, Indels: 9
0.70 0.21 0.09
Matches are distributed among these distances:
36 1 0.01
37 14 0.19
38 9 0.12
39 2 0.03
40 33 0.45
41 14 0.19
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
Found at i:31485557 original size:25 final size:23
Alignment explanation
Indices: 31485501--31485557 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
31485491 TGCTTTCTCA
* *
31485501 TTTCTTTTTTTCTCTTTTTCCTT
1 TTTCTTTTCTTCTCTGTTTCCTT
*
31485524 TTTCGTTTTGCTTCTCTGTTTCTTT
1 TTTC-TTTT-CTTCTCTGTTTCCTT
31485549 CTTTCTTTT
1 -TTTCTTTT
31485558 TCTATTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 4 0.14
24 4 0.14
25 16 0.57
26 4 0.14
ACGTcount: A:0.00, C:0.21, G:0.05, T:0.74
Consensus pattern (23 bp):
TTTCTTTTCTTCTCTGTTTCCTT
Found at i:31492440 original size:27 final size:28
Alignment explanation
Indices: 31492379--31492446 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 28
31492369 TATTCTTTTA
*
31492379 AAAATAATA-TTATATTATATTAATATT
1 AAAATATTATTTATATTATATTAATATT
*
31492406 TAAATATT-TTTATCATTA-ATTAAT-TT
1 AAAATATTATTTAT-ATTATATTAATATT
31492432 AAAAGTATTATTTAT
1 AAAA-TATTATTTAT
31492447 TATTTTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
26 5 0.15
27 20 0.59
28 9 0.26
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (28 bp):
AAAATATTATTTATATTATATTAATATT
Found at i:31494160 original size:15 final size:17
Alignment explanation
Indices: 31494129--31494160 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
31494119 ATTCTTTGCA
31494129 CAAAAACCATCTTTATT
1 CAAAAACCATCTTTATT
31494146 CAAAAA-CAT-TTTATT
1 CAAAAACCATCTTTATT
31494161 TGTTTTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 3 0.20
17 6 0.40
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (17 bp):
CAAAAACCATCTTTATT
Found at i:31496431 original size:3 final size:3
Alignment explanation
Indices: 31496423--31496450 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
31496413 AGATGAATCT
31496423 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
31496451 ATTCTTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:31500393 original size:14 final size:15
Alignment explanation
Indices: 31500363--31500426 Score: 60
Period size: 14 Copynumber: 4.3 Consensus size: 15
31500353 TAATTTAAAT
*
31500363 TTTATAAATTATTATA
1 TTTATATATT-TTATA
31500379 TTTAT-TATTTTATA
1 TTTATATATTTTATA
*
31500393 TTTATATATTATATA
1 TTTATATATTTTATA
* * *
31500408 TATAAATA-ATTATA
1 TTTATATATTTTATA
31500422 TTTAT
1 TTTAT
31500427 TTAATATAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
14 17 0.44
15 17 0.44
16 5 0.13
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTATATATTTTATA
Found at i:31500433 original size:25 final size:28
Alignment explanation
Indices: 31500405--31500459 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
31500395 TATATATTAT
*
31500405 ATATATAAAT-AATT-A-TATTTATTTA
1 ATATAAAAATAAATTGAGTATTTATTTA
31500430 ATATAAAAATAAATTGAGGTATTTATTTA
1 ATATAAAAATAAATTGA-GTATTTATTTA
31500459 A
1 A
31500460 ATGTGTATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 9 0.36
26 4 0.16
27 1 0.04
29 11 0.44
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.45
Consensus pattern (28 bp):
ATATAAAAATAAATTGAGTATTTATTTA
Found at i:31500434 original size:29 final size:29
Alignment explanation
Indices: 31500388--31500443 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
31500378 ATTTATTATT
* * *
31500388 TTATATTTATATATTATATATATAAATAA
1 TTATATTTATATAATATAAAAATAAATAA
*
31500417 TTATATTTATTTAATATAAAAATAAAT
1 TTATATTTATATAATATAAAAATAAAT
31500444 TGAGGTATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (29 bp):
TTATATTTATATAATATAAAAATAAATAA
Found at i:31502045 original size:68 final size:69
Alignment explanation
Indices: 31501921--31502062 Score: 205
Period size: 68 Copynumber: 2.1 Consensus size: 69
31501911 CTTCAAAGTG
* * * * * * * *
31501921 GATTGTTTTTATTTTGATCACTTTTTTTCTTTTAATTTGGTTATTATTGTTAAAATAATTGATTA
1 GATTATTTTTATTTTGATCACATTTATTCTTTTAATTTAGTTACTACTGCTAAAATAATTGATCA
31501986 AATT
66 AATT
31501990 GATTATTTTTATTTTGATCACATTTATT-TTTTAATTTAGTTACTACTGCTAAAATAATTGATCA
1 GATTATTTTTATTTTGATCACATTTATTCTTTTAATTTAGTTACTACTGCTAAAATAATTGATCA
31502054 AATT
66 AATT
31502058 GATTA
1 GATTA
31502063 CAATGCCATT
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
68 40 0.62
69 25 0.38
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (69 bp):
GATTATTTTTATTTTGATCACATTTATTCTTTTAATTTAGTTACTACTGCTAAAATAATTGATCA
AATT
Found at i:31503000 original size:16 final size:17
Alignment explanation
Indices: 31502951--31503000 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
31502941 CACTGTTCAT
*
31502951 TTTTTTGTTCATTCTTC
1 TTTTTTGTTCATTTTTC
* *
31502968 TTTTTCTCTTTATTTTTC
1 TTTTT-TGTTCATTTTTC
31502986 -TTTTTGTTCATTTTT
1 TTTTTTGTTCATTTTT
31503001 TTCCTCTCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 9 0.33
17 9 0.33
18 9 0.33
ACGTcount: A:0.06, C:0.14, G:0.04, T:0.76
Consensus pattern (17 bp):
TTTTTTGTTCATTTTTC
Found at i:31511708 original size:23 final size:23
Alignment explanation
Indices: 31511682--31511768 Score: 165
Period size: 23 Copynumber: 3.8 Consensus size: 23
31511672 AGTTAGAAAT
31511682 GTGAAGAGACTTGAATATGAAGA
1 GTGAAGAGACTTGAATATGAAGA
*
31511705 GTGAAGAGACTTCAATATGAAGA
1 GTGAAGAGACTTGAATATGAAGA
31511728 GTGAAGAGACTTGAATATGAAGA
1 GTGAAGAGACTTGAATATGAAGA
31511751 GTGAAGAGACTTGAATAT
1 GTGAAGAGACTTGAATAT
31511769 AAAAAGTTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.43, C:0.06, G:0.29, T:0.23
Consensus pattern (23 bp):
GTGAAGAGACTTGAATATGAAGA
Found at i:31513216 original size:404 final size:401
Alignment explanation
Indices: 31512470--31513275 Score: 1272
Period size: 404 Copynumber: 2.0 Consensus size: 401
31512460 TAACGTGAAG
*
31512470 ACCAAAATAGAGAGTAAAAATTGGGAAAGGAAAGAAGAAAACGAGAAAACTTGGAAGTGGGAAAA
1 ACCAAAATAGAGAGTAAAAATTGGGAAAGAAAAGAAGAAAACGAGAAAACTTGGAAGTGGGAAAA
*
31512535 TAAGACGGTAAGAGAAGGAGACTTTTGGGAAAATTTTCAAAAAAGAATTTTAGAAAAACTACCCA
66 TAAGACGATAAGAGAAGGAGACTTTTGGGAAAATTTTCAAAAAAGAATTTTAGAAAAACTACCCA
* *
31512600 TATCCCCACTAAATCTAGTTAGTTATTCTTACCAGATTTCCCTTAAAATTCAAATTCAACACAAC
131 TATCCCCACTAAATCTAGTTAGTTATTCTTACCAAATTTCCCTCAAAATTCAAATTCAACACAAC
* * * *
31512665 TTGTATCCCCTTTGGCGACACAGACAGAGAAAAACAATAAGAATTTTGTTTTGCACGCTCAAGAT
196 TTCTACCCCCTTTGGCAACACAGACAGAGAAAAACAATAAGAATTTTGTTTTGCACACTCAAGAT
* * * *
31512730 TTGAACACAATACCTTTGAGTAAATTAAAGCCTTACTACTGAACCAACAAATTCATTTTTGTCAA
261 TTGAACACAATAACTTTGAGTAAATTAAAGCCTTACCACTAAACCAACAAACTCATTTTTGTCAA
* * *
31512795 TAAACACTCAGAATTTAAAATAAGTCGACTCTTCTAAGTTAGAGGTTGGGACAAAAGTAATAAAA
326 TAAACACTCAAAATTTAAAATAAGCCAACTCTTCTAAGTTAGAGGTTGGGACAAAAGTAATAAAA
31512860 ATTTAAGGGAA
391 ATTTAAGGGAA
* * *
31512871 ACCAAAATAGAGAGTAAAAATTGGGAAAGAAAATAAGAAAATGAGAAAATTTGGAAGTGGGAAAA
1 ACCAAAATAGAGAGTAAAAATTGGGAAAGAAAAGAAGAAAACGAGAAAACTTGGAAGTGGGAAAA
* * * * *
31512936 TAAGGCGATAAGAGAGGGAGGCTTTTGGGAAATTTTTCAAAAAAAAATAATTTTAGAAAAACTAC
66 TAAGACGATAAGAGAAGGAGACTTTTGGGAAAATTTTC---AAAAAAGAATTTTAGAAAAACTAC
* *
31513001 CCATATCCCCACTAAATCTAGTTAGTTATTCTTACCAAATTTTCCC-CAGAATTCAAATTCAACC
128 CCATATCCCCACTAAATCTAGTTAGTTATTCTTACCAAA-TTTCCCTCAAAATTCAAATTCAACA
31513065 CAACTTCTACCCCCTTTGGCAACACAGACAGAGAAAAACAATAAGAATTTTGTTTTGCACACTCA
192 CAACTTCTACCCCCTTTGGCAACACAGACAGAGAAAAACAATAAGAATTTTGTTTTGCACACTCA
* * * * *
31513130 AGATTTGAACAGAATAACTTTGATTAAATTAAAGCCTTACCATTAAACCAGCAAACTCATTTTTT
257 AGATTTGAACACAATAACTTTGAGTAAATTAAAGCCTTACCACTAAACCAACAAACTCATTTTTG
* * *
31513195 TCAATCAACACTTAAAATTTAAAATAAGCCAACTCTTCTAGGTTAGAGGTTGGGACAAAAGTAAT
322 TCAATAAACACTCAAAATTTAAAATAAGCCAACTCTTCTAAGTTAGAGGTTGGGACAAAAGTAAT
31513260 AAAAATTTAAGGGAA
387 AAAAATTTAAGGGAA
31513275 A
1 A
31513276 ATATTTGAAT
Statistics
Matches: 368, Mismatches: 33, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
401 94 0.26
404 268 0.73
405 6 0.02
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.26
Consensus pattern (401 bp):
ACCAAAATAGAGAGTAAAAATTGGGAAAGAAAAGAAGAAAACGAGAAAACTTGGAAGTGGGAAAA
TAAGACGATAAGAGAAGGAGACTTTTGGGAAAATTTTCAAAAAAGAATTTTAGAAAAACTACCCA
TATCCCCACTAAATCTAGTTAGTTATTCTTACCAAATTTCCCTCAAAATTCAAATTCAACACAAC
TTCTACCCCCTTTGGCAACACAGACAGAGAAAAACAATAAGAATTTTGTTTTGCACACTCAAGAT
TTGAACACAATAACTTTGAGTAAATTAAAGCCTTACCACTAAACCAACAAACTCATTTTTGTCAA
TAAACACTCAAAATTTAAAATAAGCCAACTCTTCTAAGTTAGAGGTTGGGACAAAAGTAATAAAA
ATTTAAGGGAA
Found at i:31513560 original size:21 final size:20
Alignment explanation
Indices: 31513534--31513573 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
31513524 GCTTGTTGAG
*
31513534 CTCAATTCAGCTTGTTTCCAA
1 CTCAA-TCAGCTCGTTTCCAA
*
31513555 CTCAATGAGCTCGTTTCCA
1 CTCAATCAGCTCGTTTCCA
31513574 TCTTTTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.30, G:0.12, T:0.35
Consensus pattern (20 bp):
CTCAATCAGCTCGTTTCCAA
Found at i:31515311 original size:40 final size:41
Alignment explanation
Indices: 31515287--31515427 Score: 124
Period size: 40 Copynumber: 3.3 Consensus size: 41
31515277 TAAAATGATT
31515287 AAAGTTTATAAAAATTATAAAAAAT-TAATTAAAAACCATA
1 AAAGTTTATAAAAATTATAAAAAATATAATTAAAAACCATA
* * * *
31515327 AAATTTTATAAAACTTATAAAAAATAATTTACTAAAAACCATAA
1 AAAGTTTATAAAAATTATAAAAAAT-A-TAATTAAAAACCAT-A
* * * * *
31515371 AAATGTATAAAAAATAATTATTAAAAAT-GAGTTAAAAACCATA
1 AAA-GT-TTATAAA-AATTATAAAAAATATAATTAAAAACCATA
*
31515414 AAATTTTATAAAAA
1 AAAGTTTATAAAAA
31515428 AATATTAATA
Statistics
Matches: 78, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
40 25 0.32
41 5 0.06
42 1 0.01
43 16 0.21
44 14 0.18
45 1 0.01
46 5 0.06
47 11 0.14
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (41 bp):
AAAGTTTATAAAAATTATAAAAAATATAATTAAAAACCATA
Found at i:31515371 original size:33 final size:33
Alignment explanation
Indices: 31515334--31515397 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
31515324 ATAAAATTTT
*
31515334 ATAAAACT-TATAAAAAATAATTTACTAAAAACC
1 ATAAAAATGTATAAAAAATAA-TTACTAAAAACC
*
31515367 ATAAAAATGTATAAAAAATAATTATTAAAAA
1 ATAAAAATGTATAAAAAATAATTACTAAAAA
31515398 TGAGTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 16 0.57
34 12 0.43
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (33 bp):
ATAAAAATGTATAAAAAATAATTACTAAAAACC
Found at i:31515601 original size:20 final size:21
Alignment explanation
Indices: 31515565--31515617 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
31515555 TTAAAAATTG
* *
31515565 TATAATTTTAAT-GATTTT-T
1 TATAATTTTTATAAATTTTGT
31515584 TATAATTTTTATAAATTTTGT
1 TATAATTTTTATAAATTTTGT
*
31515605 TAT-GTTTTTATAA
1 TATAATTTTTATAA
31515618 TTCTAGTCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 11 0.38
20 14 0.48
21 4 0.14
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (21 bp):
TATAATTTTTATAAATTTTGT
Found at i:31515602 original size:19 final size:19
Alignment explanation
Indices: 31515553--31515602 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
31515543 TATCTAATAC
*
31515553 TTTTAA-AAA-TTGTATAA
1 TTTTAATAAATTTTTATAA
* *
31515570 TTTTAATGATTTTTTATAA
1 TTTTAATAAATTTTTATAA
*
31515589 TTTTTATAAATTTT
1 TTTTAATAAATTTT
31515603 GTTATGTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
17 6 0.24
18 1 0.04
19 18 0.72
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (19 bp):
TTTTAATAAATTTTTATAA
Found at i:31523506 original size:132 final size:132
Alignment explanation
Indices: 31523364--31524750 Score: 1946
Period size: 132 Copynumber: 10.5 Consensus size: 132
31523354 TAGGGAGATA
* * *
31523364 AGAA-TACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCT
1 AGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCT
* * * * * * *
31523428 GCTCCACTACTACTTAGGGGGACAAGATCTGAAATCTTCAGTCTATTCCACTACAGCCCAGGG-A
66 GCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGAA
31523492 GAT
131 G-T
* * *
31523495 AGAATTACTGGCTTCAATGTACTCCATTGCAACCTCAGGGAGGTAAAATCCGCCATCCTTGATCT
1 AGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCT
* ** * *
31523560 GCTCCACTACTGCTTAGGGAGGTAAGATCTGAAATCTTCAATCTCTTCCACTGCTGCCCAGGG-A
66 GCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGAA
31523624 GAT
131 G-T
* * * *
31523627 AGAATTACTAGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCT
1 AGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCT
* *
31523692 GCCCTACTACTGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCATTGCTGCCCAGGGAA
66 GCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGAA
31523757 GT
131 GT
* * * *
31523759 AGAATTATTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCT
1 AGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCT
*
31523824 GCCCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGAA
66 GCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGAA
*
31523889 TT
131 GT
** *
31523891 AGAATTACTGGCTTCAATGTACTCCACTACAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCT
1 AGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCT
* *
31523956 GCCCCACTACTGCTTAGGGAGACAATATCTGAAATCTTTAATCTATTCCACTGTTGCCCAGGGAA
66 GCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGAA
31524021 GT
131 GT
* * *
31524023 AGAATTACTAGCTTCAATGTACTCCACTGTAACCTTAGGGAGGTAAAATCCGCCATCTTCGATCT
1 AGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCT
* * * *
31524088 GCCCCACTACTGCTTAGGGAGACAAGATTTGAAATCTTTAATCTATTCCACTACTGTCTAGGGAA
66 GCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGAA
31524153 GT
131 GT
* * * * *
31524155 AGAATTGCTGGCTTCAATGTACTCCACTGTAACCAC-GAGGAGGGAAAATTCACCATCTTTGATC
1 AGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAG-GGAGGTAAAATCCGCCATCTTTGATC
*
31524219 TGCCCCACTACTGCTTAGGGAGACAATATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGA
65 TGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGA
31524284 AGT
130 AGT
* *
31524287 AGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCGCCATCCTTGATCT
1 AGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCT
* *
31524352 GCCCCACTACTGCTTAGGGAGACAAGATTTGAAATCTTTAATCTATTCCACTGTTGCCCAGGGAA
66 GCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGAA
31524417 GT
131 GT
* * *
31524419 AGAATTACTAGCTTCAATGTACTCCACTGTAACCTTAGGGAGGTAAAATCCGCCATCTTCGATCT
1 AGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCT
* * * *
31524484 GCCCCACTACTGCTTAGGGAGACAAGATTTGAAATCTTTAATCTATTCCACTACTGTCTAGGGAA
66 GCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGAA
31524549 GT
131 GT
* * *
31524551 AGAATTGCTGGCTTCAATGTACTCCACTGTAACCAC-GAGGAGGTAAAATCCGCCATCTTCGATC
1 AGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAG-GGAGGTAAAATCCGCCATCTTTGATC
** *** * ** * * *
31524615 TGCTTCGCTGTCTA-TGC--AAAAAGGCAAGATCTGTTATCTTCAATTTATTCCGCTGCTGCCCA
65 TGC--C-C-CACTACTGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCA
31524677 GGGAAGT
126 GGGAAGT
* * *
31524684 AGAATTACTGGCTTCAATGTACTCCACCGTAACCAC-GAGGAGGTAAAATCCGCCATCTTCGATC
1 AGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAG-GGAGGTAAAATCCGCCATCTTTGATC
31524748 TGC
65 TGC
31524751 TTCGCTGTCT
Statistics
Matches: 1139, Mismatches: 108, Indels: 16
0.90 0.09 0.01
Matches are distributed among these distances:
131 6 0.01
132 1018 0.89
133 107 0.09
134 1 0.00
135 4 0.00
136 3 0.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (132 bp):
AGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCT
GCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGAA
GT
Found at i:31528478 original size:283 final size:282
Alignment explanation
Indices: 31527971--31528527 Score: 1051
Period size: 283 Copynumber: 2.0 Consensus size: 282
31527961 GTGGTGGTTA
31527971 AACTTGGACTGCGACCTCCCTCCATCTCTGTGCATACTGCCTAAAGCTTTCGCTCGGCTTCTTCT
1 AACTTGGACTGCGACCTCCCTCCATCTCTGTGCATACTGCCTAAAGCTTTCGCTCGGCTTCTTCT
31528036 CCATATTCTGAAGGGTGATTCTATCAGGAGCCATGTCTGTCACATGACTATATTGTTTCATGAAT
66 CCATATTCTGAAGGGTGATTCTATCAGGAGCCATGTCTGTCACATGACTATATTGTTTCATGAAT
*
31528101 GCTTGCGCCAAGTCCCTCCATGAACCAATCGTGGCACGACTCAATTGATTGTACCATTTGGATGC
131 GATTGCGCCAAGTCCCTCCATGAACCAATCGTGGCACGACTCAATTGATTGTACCATTTGGATGC
* *
31528166 TGCCCCTGCAAGGCTGTCTTGGAAACAATGTATCAAGAGTTGGTCGTTGTTAACATATCCCACCA
196 TGCCCCTACAAGGCTGTCTTGGAAACAATGTATCAAGAGTTGGTCGTTATTAACATATCCCACCA
31528231 TTCGCCTGCAGAACNGGTGGCTG
261 TTCGCCTGCAGAAC-GGTGGCTG
31528254 AACTTGGACTGCGACCTCCCTCCATCTCTGTGCATACTGCCTAAAGCTTTCGCTCGGCTTCTTCT
1 AACTTGGACTGCGACCTCCCTCCATCTCTGTGCATACTGCCTAAAGCTTTCGCTCGGCTTCTTCT
*
31528319 CCATATTCTGAAGGGTGATTCTATCAGGAGCCATGTCTGTCACATGACTATATTGTTTTATGAAT
66 CCATATTCTGAAGGGTGATTCTATCAGGAGCCATGTCTGTCACATGACTATATTGTTTCATGAAT
31528384 GATTGCGCCAAGTCCCTCCATGAACCAATCGTGGCACGACTCAATTGATTGTACCATTTGGATGC
131 GATTGCGCCAAGTCCCTCCATGAACCAATCGTGGCACGACTCAATTGATTGTACCATTTGGATGC
* *
31528449 TGCCCCTACAAGGCTGTCTTGGAAACAATGTATCAAGAGTTGGTCGTTATTAACATGTCCCGCCA
196 TGCCCCTACAAGGCTGTCTTGGAAACAATGTATCAAGAGTTGGTCGTTATTAACATATCCCACCA
31528514 TTCGCCTGCAGAAC
261 TTCGCCTGCAGAAC
31528528 ATGGTGATGT
Statistics
Matches: 268, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
283 268 1.00
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (282 bp):
AACTTGGACTGCGACCTCCCTCCATCTCTGTGCATACTGCCTAAAGCTTTCGCTCGGCTTCTTCT
CCATATTCTGAAGGGTGATTCTATCAGGAGCCATGTCTGTCACATGACTATATTGTTTCATGAAT
GATTGCGCCAAGTCCCTCCATGAACCAATCGTGGCACGACTCAATTGATTGTACCATTTGGATGC
TGCCCCTACAAGGCTGTCTTGGAAACAATGTATCAAGAGTTGGTCGTTATTAACATATCCCACCA
TTCGCCTGCAGAACGGTGGCTG
Found at i:31531733 original size:15 final size:15
Alignment explanation
Indices: 31531715--31531743 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
31531705 CGAATTTAGA
31531715 AAAAATAAAAAAAAT
1 AAAAATAAAAAAAAT
31531730 AAAAATAAAAAAAA
1 AAAAATAAAAAAAA
31531744 AATAAAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAAATAAAAAAAAT
Found at i:31537834 original size:19 final size:19
Alignment explanation
Indices: 31537793--31537837 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
31537783 TTCCCCATTG
*
31537793 TATTATTTTTTTATAAGAT
1 TATTATTTTTTTATAAGAA
*
31537812 TATTATTTTATTTCTAA-AA
1 TATTATTTT-TTTATAAGAA
31537831 TATTATT
1 TATTATT
31537838 ATAATAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
TATTATTTTTTTATAAGAA
Found at i:31541606 original size:13 final size:13
Alignment explanation
Indices: 31541585--31541615 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
31541575 CTGTGTGTCA
31541585 CACACGAGCAACC
1 CACACGAGCAACC
*
31541598 CACATGAGCAACC
1 CACACGAGCAACC
31541611 CACAC
1 CACAC
31541616 AAGCTTGTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.39, C:0.45, G:0.13, T:0.03
Consensus pattern (13 bp):
CACACGAGCAACC
Found at i:31541691 original size:13 final size:13
Alignment explanation
Indices: 31541673--31541716 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
31541663 ACAAAGAGTT
31541673 ACACGGCCTGGTG
1 ACACGGCCTGGTG
*
31541686 ACACGGCCTAGTG
1 ACACGGCCTGGTG
* *
31541699 ACACGGTCTGGCG
1 ACACGGCCTGGTG
31541712 ACACG
1 ACACG
31541717 ACCGTGTGAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.20, C:0.32, G:0.34, T:0.14
Consensus pattern (13 bp):
ACACGGCCTGGTG
Found at i:31542300 original size:12 final size:11
Alignment explanation
Indices: 31542283--31542317 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
31542273 ACTTGTCCTC
31542283 AAGAAAACGAAA
1 AAGAAAAC-AAA
31542295 AAGAAAACAAA
1 AAGAAAACAAA
*
31542306 AAAAAAACAAA
1 AAGAAAACAAA
31542317 A
1 A
31542318 TAATAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.64
12 8 0.36
ACGTcount: A:0.83, C:0.09, G:0.09, T:0.00
Consensus pattern (11 bp):
AAGAAAACAAA
Found at i:31543680 original size:3 final size:3
Alignment explanation
Indices: 31543672--31543701 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
31543662 GGGAAAGGTC
31543672 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
31543702 TTCCCTCGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:31551778 original size:21 final size:21
Alignment explanation
Indices: 31551754--31551803 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
31551744 TTTGCCTAAG
*
31551754 ATGTGAATTGGATTAAATTGA
1 ATGTAAATTGGATTAAATTGA
* *
31551775 ATGTAAATTGTATTGAATTGA
1 ATGTAAATTGGATTAAATTGA
*
31551796 GT-TAAATT
1 ATGTAAATT
31551804 TACTCATACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (21 bp):
ATGTAAATTGGATTAAATTGA
Found at i:31560304 original size:14 final size:15
Alignment explanation
Indices: 31560277--31560309 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
31560267 TCTATTTTAA
31560277 TATTATATTAAATTT
1 TATTATATTAAATTT
31560292 TATTATA-TAAATTT
1 TATTATATTAAATTT
31560306 TATT
1 TATT
31560310 GAATTGATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTATATTAAATTT
Found at i:31564195 original size:14 final size:15
Alignment explanation
Indices: 31564166--31564196 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
31564156 GGAAATCCTA
31564166 TTGAGGATGAAAATT
1 TTGAGGATGAAAATT
31564181 TTGAGGATG-AAATT
1 TTGAGGATGAAAATT
31564195 TT
1 TT
31564197 ATTAAGGGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.39
Consensus pattern (15 bp):
TTGAGGATGAAAATT
Found at i:31566337 original size:28 final size:28
Alignment explanation
Indices: 31566291--31566346 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
31566281 TGGTTCTTGA
* *
31566291 AACATTAGATGTGATGTGCAAGTATGAT
1 AACATTAGATGCGACGTGCAAGTATGAT
31566319 AACATTAGATGCGACGTGCAAGTATGAT
1 AACATTAGATGCGACGTGCAAGTATGAT
31566347 TCAGGTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
AACATTAGATGCGACGTGCAAGTATGAT
Found at i:31569171 original size:27 final size:27
Alignment explanation
Indices: 31569135--31569200 Score: 107
Period size: 26 Copynumber: 2.5 Consensus size: 27
31569125 TTTGACTTTG
31569135 ACTAGCGAACCCCTAGTTCGCAACTTA
1 ACTAGCGAACCCCTAGTTCGCAACTTA
* *
31569162 CCTAGTGAA-CCCTAGTTCGCAACTTA
1 ACTAGCGAACCCCTAGTTCGCAACTTA
31569188 ACTAGCGAACCCC
1 ACTAGCGAACCCC
31569201 CTTACCGCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 24 0.71
27 10 0.29
ACGTcount: A:0.29, C:0.35, G:0.15, T:0.21
Consensus pattern (27 bp):
ACTAGCGAACCCCTAGTTCGCAACTTA
Found at i:31569327 original size:74 final size:74
Alignment explanation
Indices: 31569245--31569401 Score: 296
Period size: 74 Copynumber: 2.1 Consensus size: 74
31569235 AAATTTGGGC
* *
31569245 GAACTCCTTACTGAAACTCTTTTGGCAAACTTCTTACTGATTCTTTTAATGGGCTAATTGACCAA
1 GAACTCCTTACTGAAACTCTTTTGGCAAACTTCTTACTGATTCTTTTAACGAGCTAATTGACCAA
31569310 AACACTAGT
66 AACACTAGT
31569319 GAACTCCTTACTGAAACTCTTTTGGCAAACTTCTTACTGATTCTTTTAACGAGCTAATTGACCAA
1 GAACTCCTTACTGAAACTCTTTTGGCAAACTTCTTACTGATTCTTTTAACGAGCTAATTGACCAA
31569384 AACACTAGT
66 AACACTAGT
31569393 GAACTCCTT
1 GAACTCCTT
31569402 GTTAATATTC
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
74 81 1.00
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (74 bp):
GAACTCCTTACTGAAACTCTTTTGGCAAACTTCTTACTGATTCTTTTAACGAGCTAATTGACCAA
AACACTAGT
Found at i:31570125 original size:38 final size:38
Alignment explanation
Indices: 31570054--31570127 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
31570044 CATGACTAAC
*
31570054 TAGATATCTAATAAATGTACATTCAAACATACCCGAAT
1 TAGATATCTAATAAAGGTACATTCAAACATACCCGAAT
*
31570092 TAGATATCTAATAAAGGTACATTCAAGCATACCCGA
1 TAGATATCTAATAAAGGTACATTCAAACATACCCGA
31570128 TCACAATGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.27
Consensus pattern (38 bp):
TAGATATCTAATAAAGGTACATTCAAACATACCCGAAT
Found at i:31572123 original size:157 final size:157
Alignment explanation
Indices: 31571837--31572150 Score: 628
Period size: 157 Copynumber: 2.0 Consensus size: 157
31571827 TTATAATAAT
31571837 TATTTCAGTAAACTATATATTTATTTGAATTTATATACAAACCAAATTCATGTTCTCATTATGCG
1 TATTTCAGTAAACTATATATTTATTTGAATTTATATACAAACCAAATTCATGTTCTCATTATGCG
31571902 TACAATAACCTTGTACATATAATGTATTCAATATTTGATTATCCAATTAAATTAATTCTATAATT
66 TACAATAACCTTGTACATATAATGTATTCAATATTTGATTATCCAATTAAATTAATTCTATAATT
31571967 AATTTAATTCAAGTGACAACCAAACAC
131 AATTTAATTCAAGTGACAACCAAACAC
31571994 TATTTCAGTAAACTATATATTTATTTGAATTTATATACAAACCAAATTCATGTTCTCATTATGCG
1 TATTTCAGTAAACTATATATTTATTTGAATTTATATACAAACCAAATTCATGTTCTCATTATGCG
31572059 TACAATAACCTTGTACATATAATGTATTCAATATTTGATTATCCAATTAAATTAATTCTATAATT
66 TACAATAACCTTGTACATATAATGTATTCAATATTTGATTATCCAATTAAATTAATTCTATAATT
31572124 AATTTAATTCAAGTGACAACCAAACAC
131 AATTTAATTCAAGTGACAACCAAACAC
31572151 AATACCAACT
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 157 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.39
Consensus pattern (157 bp):
TATTTCAGTAAACTATATATTTATTTGAATTTATATACAAACCAAATTCATGTTCTCATTATGCG
TACAATAACCTTGTACATATAATGTATTCAATATTTGATTATCCAATTAAATTAATTCTATAATT
AATTTAATTCAAGTGACAACCAAACAC
Found at i:31577590 original size:12 final size:13
Alignment explanation
Indices: 31577573--31577601 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
31577563 CTCATACATG
31577573 AATAAATAAA-GC
1 AATAAATAAATGC
31577585 AATAAATAAATGC
1 AATAAATAAATGC
31577598 AATA
1 AATA
31577602 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:31579617 original size:18 final size:18
Alignment explanation
Indices: 31579594--31579629 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
31579584 TAAAAATAGC
31579594 CACAAATTGGTCTAAGTA
1 CACAAATTGGTCTAAGTA
31579612 CACAAATTGGTCTAAGTA
1 CACAAATTGGTCTAAGTA
31579630 TGGCTGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (18 bp):
CACAAATTGGTCTAAGTA
Found at i:31581497 original size:13 final size:13
Alignment explanation
Indices: 31581457--31581497 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
31581447 AAACGAATCC
31581457 AATTAAAATAAA-
1 AATTAAAATAAAT
*
31581469 AAATAAAATAAAAT
1 AATTAAAAT-AAAT
31581483 AATTAAAATAAAT
1 AATTAAAATAAAT
31581496 AA
1 AA
31581498 CTAAGGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 8 0.32
13 9 0.36
14 8 0.32
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AATTAAAATAAAT
Found at i:31585170 original size:21 final size:21
Alignment explanation
Indices: 31585135--31585184 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
31585125 ACTTTTTTTC
* *
31585135 AGCTTTTACGAGCTTCTGTTA
1 AGCTCTTATGAGCTTCTGTTA
* * *
31585156 AGTTCTTATGAGCTTTTGTTC
1 AGCTCTTATGAGCTTCTGTTA
31585177 AGCTCTTA
1 AGCTCTTA
31585185 CGAACATTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.46
Consensus pattern (21 bp):
AGCTCTTATGAGCTTCTGTTA
Found at i:31585279 original size:118 final size:118
Alignment explanation
Indices: 31585071--31585305 Score: 416
Period size: 118 Copynumber: 2.0 Consensus size: 118
31585061 GAGACAACAG
* * * *
31585071 CATTTTTTCCCAAGTAAATCGGGGTTCAAAATTTGTTACAAACTCTCGTGTTTTACTTTTTTTCA
1 CATTTTTTCCCAACTAAACCAGGGTTCAAAATTTGTTACAAACTCTCATGTTTTACTTTTTTTCA
31585136 GCTTTTACGAGCTTCTGTTAAGTTCTTATGAGCTTTTGTTCAGCTCTTACGAA
66 GCTTTTACGAGCTTCTGTTAAGTTCTTATGAGCTTTTGTTCAGCTCTTACGAA
* *
31585189 CATTTTTTCCCAACTAAACCAGGGTTCAAAATTTGTTGCAAACTCTCATGTTTTACTTTTTTTTA
1 CATTTTTTCCCAACTAAACCAGGGTTCAAAATTTGTTACAAACTCTCATGTTTTACTTTTTTTCA
31585254 GCTTTTACGAGCTTCTGTTAAGTTCTTATGAGCTTTTGTTCAGCTCTTACGA
66 GCTTTTACGAGCTTCTGTTAAGTTCTTATGAGCTTTTGTTCAGCTCTTACGA
31585306 GCTTCTGTTA
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
118 111 1.00
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.44
Consensus pattern (118 bp):
CATTTTTTCCCAACTAAACCAGGGTTCAAAATTTGTTACAAACTCTCATGTTTTACTTTTTTTCA
GCTTTTACGAGCTTCTGTTAAGTTCTTATGAGCTTTTGTTCAGCTCTTACGAA
Found at i:31585288 original size:21 final size:21
Alignment explanation
Indices: 31585253--31585340 Score: 113
Period size: 21 Copynumber: 4.2 Consensus size: 21
31585243 ACTTTTTTTT
* *
31585253 AGCTTTTACGAGCTTCTGTTA
1 AGCTCTTATGAGCTTCTGTTA
* * *
31585274 AGTTCTTATGAGCTTTTGTTC
1 AGCTCTTATGAGCTTCTGTTA
*
31585295 AGCTCTTACGAGCTTCTGTTA
1 AGCTCTTATGAGCTTCTGTTA
*
31585316 AGCTCTTATGAGCTTCTGTTC
1 AGCTCTTATGAGCTTCTGTTA
31585337 AGCT
1 AGCT
31585341 TTCGAGCTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.17, C:0.20, G:0.19, T:0.43
Consensus pattern (21 bp):
AGCTCTTATGAGCTTCTGTTA
Found at i:31585305 original size:42 final size:41
Alignment explanation
Indices: 31585257--31585354 Score: 153
Period size: 42 Copynumber: 2.4 Consensus size: 41
31585247 TTTTTTAGCT
*
31585257 TTTACGAGCTTCTGTTAAGTTCTTATGAGCTTTTGTTCAGC
1 TTTACGAGCTTCTGTTAAGCTCTTATGAGCTTTTGTTCAGC
*
31585298 TCTTACGAGCTTCTGTTAAGCTCTTATGAGCTTCTGTTCAGC
1 T-TTACGAGCTTCTGTTAAGCTCTTATGAGCTTTTGTTCAGC
*
31585340 TTT-CGAGCTTTTGTT
1 TTTACGAGCTTCTGTT
31585355 GGCGTATTCG
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
40 11 0.21
41 3 0.06
42 39 0.74
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.46
Consensus pattern (41 bp):
TTTACGAGCTTCTGTTAAGCTCTTATGAGCTTTTGTTCAGC
Found at i:31591325 original size:22 final size:20
Alignment explanation
Indices: 31591282--31591320 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
31591272 CAATTTAAAA
31591282 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
31591302 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
31591321 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:31591450 original size:34 final size:32
Alignment explanation
Indices: 31591408--31591471 Score: 76
Period size: 34 Copynumber: 1.9 Consensus size: 32
31591398 AAACACCAGA
*
31591408 AAATATTTT-TAGTAAATCATTTTCCAGAAAATT
1 AAATATTTTCTA-AAAATCATTTTCC-GAAAATT
*
31591441 AAATCATTTTCTAAAAATTATTTTCCGAAAA
1 AAAT-ATTTTCTAAAAATCATTTTCCGAAAA
31591472 ACATTTTACT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 9 0.33
34 16 0.59
35 2 0.07
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.41
Consensus pattern (32 bp):
AAATATTTTCTAAAAATCATTTTCCGAAAATT
Found at i:31591459 original size:19 final size:20
Alignment explanation
Indices: 31591420--31591460 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
31591410 ATATTTTTAG
31591420 TAAATCATTTTCCAGAAAAT
1 TAAATCATTTTCCAGAAAAT
*
31591440 TAAATCATTTTCTA-AAAAT
1 TAAATCATTTTCCAGAAAAT
31591459 TA
1 TA
31591461 TTTTCCGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.39
Consensus pattern (20 bp):
TAAATCATTTTCCAGAAAAT
Found at i:31597841 original size:21 final size:22
Alignment explanation
Indices: 31597815--31597855 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
31597805 TCCAGTAAAC
* *
31597815 TTTTTCTGGAAAAT-GAGAAGA
1 TTTTTCAGAAAAATAGAGAAGA
31597836 TTTTTCAGAAAAATAGAGAA
1 TTTTTCAGAAAAATAGAGAA
31597856 TTTTTTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.32
Consensus pattern (22 bp):
TTTTTCAGAAAAATAGAGAAGA
Found at i:31598161 original size:12 final size:12
Alignment explanation
Indices: 31598144--31598168 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31598134 AACCCAAGAT
31598144 AATCTTATTTTA
1 AATCTTATTTTA
31598156 AATCTTATTTTA
1 AATCTTATTTTA
31598168 A
1 A
31598169 TATTAATATT
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:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (12 bp):
AATCTTATTTTA
Found at i:31600437 original size:212 final size:212
Alignment explanation
Indices: 31600070--31600499 Score: 797
Period size: 212 Copynumber: 2.0 Consensus size: 212
31600060 TATAGATGTC
31600070 TCATCTACATTTTACTTTGCATCTTAAAGGTCAGGTTTAGTTTAGTTTGTATACACAACACCATT
1 TCATCTACATTTTACTTTGCATCTTAAAGGTCAGGTTTAGTTTAGTTTGTATACACAACACCATT
*
31600135 GATTAGGGAGAGACCTTGCTAGCTTTCAGGTTTTGGATCAAATGTGACTTGCAATGACTAGTGTG
66 GATTAGGGAGAGACCTTGCTAGCTTTCAGGTTTTGGATCAAATGTGACTTGCAATGACTAGTGCG
*
31600200 CTCTATGTAGAAACATAACAGAAGACAGAAAATTAAGAAATTGAAAAAATGAATTGCGTATGTCT
131 CTCTATGTAGAAACATAACAGAAGACAGAAAATTAAGAAACTGAAAAAATGAATTGCGTATGTCT
*
31600265 TGTTTTTTCCTTCTGTT
196 TGTATTTTCCTTCTGTT
*
31600282 TCATCTACATTTTACTTTGCATCTTAAAGGTTAGGTTTAGTTTAGTTTGTATACACAACACCATT
1 TCATCTACATTTTACTTTGCATCTTAAAGGTCAGGTTTAGTTTAGTTTGTATACACAACACCATT
*
31600347 GATTAGGGAGAGACCTTGCTAGCTTTCAGGTTTTGGATCAAATGTGACTTGCAATGAGTAGTGCG
66 GATTAGGGAGAGACCTTGCTAGCTTTCAGGTTTTGGATCAAATGTGACTTGCAATGACTAGTGCG
* *
31600412 CTCTATGTAGAAACATAACAGAAGACAGAAAATTAAGAAACTGAATAAATGAATTGCTTATGTCT
131 CTCTATGTAGAAACATAACAGAAGACAGAAAATTAAGAAACTGAAAAAATGAATTGCGTATGTCT
31600477 TGTATTTTCCTTCTGTT
196 TGTATTTTCCTTCTGTT
31600494 TCATCT
1 TCATCT
31600500 TTTTTCTCTT
Statistics
Matches: 211, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
212 211 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (212 bp):
TCATCTACATTTTACTTTGCATCTTAAAGGTCAGGTTTAGTTTAGTTTGTATACACAACACCATT
GATTAGGGAGAGACCTTGCTAGCTTTCAGGTTTTGGATCAAATGTGACTTGCAATGACTAGTGCG
CTCTATGTAGAAACATAACAGAAGACAGAAAATTAAGAAACTGAAAAAATGAATTGCGTATGTCT
TGTATTTTCCTTCTGTT
Found at i:31604925 original size:3 final size:3
Alignment explanation
Indices: 31604917--31604950 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
31604907 GAGTTTTCTC
31604917 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
31604951 TCCTTCAGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:31609300 original size:32 final size:31
Alignment explanation
Indices: 31609264--31609324 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 31
31609254 ATATTTATGC
*
31609264 CTTAAATTGAAAATGATTTTTATATAAGGGAG
1 CTTAAATTGAAAATGACTTTTAT-TAAGGGAG
31609296 CTTAAATTGAAAATGACTTTTATTAAGGG
1 CTTAAATTGAAAATGACTTTTATTAAGGG
31609325 GGAGCAATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 6 0.21
32 22 0.79
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.38
Consensus pattern (31 bp):
CTTAAATTGAAAATGACTTTTATTAAGGGAG
Found at i:31609698 original size:20 final size:20
Alignment explanation
Indices: 31609673--31609723 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
31609663 GTATTGATCC
*
31609673 GGTATCGATACT-TTTCTTAA
1 GGTATCGATA-TATTTCATAA
31609693 GGTATCGATATATTTCATAA
1 GGTATCGATATATTTCATAA
31609713 GGTATCGATAT
1 GGTATCGATAT
31609724 TTCAGCTCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (20 bp):
GGTATCGATATATTTCATAA
Found at i:31612833 original size:20 final size:20
Alignment explanation
Indices: 31612804--31612846 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
31612794 AAACTTTTGG
31612804 AAAAAGGACTAAATCATAAT
1 AAAAAGGACTAAATCATAAT
* *
31612824 AAAAATGACTAAATCGTAAT
1 AAAAAGGACTAAATCATAAT
31612844 AAA
1 AAA
31612847 TTGGAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.21
Consensus pattern (20 bp):
AAAAAGGACTAAATCATAAT
Found at i:31613441 original size:54 final size:54
Alignment explanation
Indices: 31613382--31613518 Score: 195
Period size: 54 Copynumber: 2.5 Consensus size: 54
31613372 AATCGTCTGC
* * *
31613382 CAGACCGTGTAACTCACAT-ATTTGGGCCACACGCCCGTGTCTCAACCCGTGTGT
1 CAGACCGTGTAACTCAC-TGACTTGGGCCACACACCCATGTCTCAACCCGTGTGT
* *
31613436 TAGACCATGTAACTCACTGACTTGGGCCACACACCCATGTCTCAACCCGTGTGT
1 CAGACCGTGTAACTCACTGACTTGGGCCACACACCCATGTCTCAACCCGTGTGT
* *
31613490 CAAACCGTGTAACTCACTAACTTGGGCCA
1 CAGACCGTGTAACTCACTGACTTGGGCCA
31613519 TACGTCTGTT
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 1 0.01
54 72 0.99
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (54 bp):
CAGACCGTGTAACTCACTGACTTGGGCCACACACCCATGTCTCAACCCGTGTGT
Found at i:31618590 original size:46 final size:46
Alignment explanation
Indices: 31618537--31619141 Score: 146
Period size: 47 Copynumber: 12.9 Consensus size: 46
31618527 TATATATACA
* * *
31618537 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
* * *
31618583 CATCTCATACACGTTTCGCATTAGCCATTCGGCCTTACCACATAT-
1 CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
* * * *
31618628 -ATACAT-GTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAT-
1 CAT-C-TCATACACA-TC-TCACATTAGCCATTCGGCCTTACCACATATC
* * * *
31618675 -ATGCAT-GTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAT-
1 CAT-C-TCATACACA-TC-TCACATTAGCCATTCGGCCTTACCACATATC
* * * *
31618722 -ATGCAT-GTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAT-
1 CAT-C-TCATACACA-TC-TCACATTAGCCATTCGGCCTTACCACATATC
* * * *
31618769 -ATGCAT-GTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAT-
1 CAT-C-TCATACACA-TC-TCACATTAGCCATTCGGCCTTACCACATATC
* * * *
31618816 -ATGCAT-GTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAT-
1 CAT-C-TCATACACA-TC-TCACATTAGCCATTCGGCCTTACCACATATC
* * * *
31618863 -ATGCAT-GTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAT-
1 CAT-C-TCATACACA-TC-TCACATTAGCCATTCGGCCTTACCACATATC
* * *
31618910 -ATGCAT-GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATA-C
1 CAT-C-TCATACACA-TC-TCACATTAGCCATTCGGCCTTA-C-CACATATC
* * *
31618959 ACATGT--T-CACATTCATCACATTGGCCATTCGGCCTTATCACACATATG
1 -CATCTCATACACA-TC-TCACATTAGCCATTCGGCCTTA-C-CACATATC
* *
31619007 CATGT--T-CACATTCATCACATTGGCCATTCGGCCTTATCACACATA-C
1 CATCTCATACACA-TC-TCACATTAGCCATTCGGCCTTA-C-CACATATC
* * * *
31619053 ACATGT--T-CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATG
1 -CATCTCATACACA-TC-TCACATTAGCCATTCGGCCTTA-C-CACATATC
* * *
31619101 CATGT--T-CACATTCATCACATTGGCCATTCGGCCTTATCACA
1 CATCTCATACACA-TC-TCACATTAGCCATTCGGCCTTACCACA
31619142 CATACGCATG
Statistics
Matches: 524, Mismatches: 23, Indels: 25
0.92 0.04 0.04
Matches are distributed among these distances:
44 2 0.00
45 8 0.02
46 41 0.08
47 463 0.88
48 1 0.00
49 7 0.01
51 2 0.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
Found at i:31618663 original size:47 final size:47
Alignment explanation
Indices: 31618601--31619167 Score: 1008
Period size: 47 Copynumber: 12.1 Consensus size: 47
31618591 ACACGTTTCG
* * *
31618601 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
31618648 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
31618695 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
31618742 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
31618789 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
31618836 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
31618883 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* **
31618930 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
31618977 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* **
31619024 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
31619071 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
31619118 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
31619165 CAT
1 CAT
31619168 AAAATCCTAA
Statistics
Matches: 502, Mismatches: 18, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 502 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:31627018 original size:35 final size:35
Alignment explanation
Indices: 31626965--31627096 Score: 104
Period size: 35 Copynumber: 3.6 Consensus size: 35
31626955 ATAATGACGT
* * * *
31626965 GCCCAACACCAGTTAGATAAACTGACGAAGGTTGC
1 GCCCAACGCTAGTCAGATAAACTGACGAAAGTTGC
* ** *
31627000 GCCCAGCGCTAGTCAGATAAA-TCGAAAAATACAATGTTGT
1 GCCCAACGCTAGTCAGATAAACT-G---ACGA-AA-GTTGC
* * *
31627040 GCCCATCACTAGTCAGATAAACTGAAGAAAGTTGC
1 GCCCAACGCTAGTCAGATAAACTGACGAAAGTTGC
31627075 GCCCAACGCTAGTCAGATAAAC
1 GCCCAACGCTAGTCAGATAAAC
31627097 CGAAAAATAT
Statistics
Matches: 76, Mismatches: 14, Indels: 14
0.73 0.13 0.13
Matches are distributed among these distances:
34 1 0.01
35 42 0.55
36 2 0.03
37 3 0.04
38 2 0.03
39 1 0.01
40 24 0.32
41 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.19
Consensus pattern (35 bp):
GCCCAACGCTAGTCAGATAAACTGACGAAAGTTGC
Found at i:31627055 original size:40 final size:38
Alignment explanation
Indices: 31627008--31627136 Score: 131
Period size: 40 Copynumber: 3.4 Consensus size: 38
31626998 GCGCCCAGCG
*
31627008 CTAGTCAGATAAATCGAAAAATACAATGTTGTGCCCATCA
1 CTAGTCAGATAAA-CGAAAAATA-AATGTTGTGCCCAACA
* * *
31627048 CTAGTCAGATAAACTG---AAGAAA-GTTGCGCCCAACG
1 CTAGTCAGATAAAC-GAAAAATAAATGTTGTGCCCAACA
*
31627083 CTAGTCAGATAAACCGAAAAATATAATGGTGTGCCCAACA
1 CTAGTCAGATAAA-CGAAAAATA-AATGTTGTGCCCAACA
*
31627123 CTAGTCAAATAAAC
1 CTAGTCAGATAAAC
31627137 TGGCGAAAGT
Statistics
Matches: 73, Mismatches: 9, Indels: 15
0.75 0.09 0.15
Matches are distributed among these distances:
35 24 0.33
36 3 0.04
37 3 0.04
38 3 0.04
39 4 0.05
40 36 0.49
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.21
Consensus pattern (38 bp):
CTAGTCAGATAAACGAAAAATAAATGTTGTGCCCAACA
Found at i:31627058 original size:75 final size:74
Alignment explanation
Indices: 31626953--31627239 Score: 326
Period size: 75 Copynumber: 3.8 Consensus size: 74
31626943 AAACCAATAG
** * * * * *
31626953 ATATAATGACGTGCCCAACACCAGTTAGATAAACTGACGAAGGTTGCGCCCAGCGCTAGTCAGAT
1 ATATAATGGTGTGCCCAACACTAGTCAAATAAACTGACGAAAGTTGCGCCCAACGCTAGTCAGAT
31627018 AAATCGAAAA
66 AAA-CGAAAA
* * * * *
31627028 ATACAATGTTGTGCCCATCACTAGTCAGATAAACTGAAGAAAGTTGCGCCCAACGCTAGTCAGAT
1 ATATAATGGTGTGCCCAACACTAGTCAAATAAACTGACGAAAGTTGCGCCCAACGCTAGTCAGAT
31627093 AAACCGAAAA
66 AAA-CGAAAA
* ** * *
31627103 ATATAATGGTGTGCCCAACACTAGTCAAATAAACTGGCGAAAGTCACGCCCAATGCTAGTCGGAT
1 ATATAATGGTGTGCCCAACACTAGTCAAATAAACTGACGAAAGTTGCGCCCAACGCTAGTCAGAT
* *
31627168 ACACCAACAA
66 AAACGAA-AA
*
31627178 ATATAATGGTGTGCCCAGCACTAGTCAAATAAA-TCGAC-AAAGGTTTGCGCCCAACGCTAGTC
1 ATATAATGGTGTGCCCAACACTAGTCAAATAAACT-GACGAAA-G-TTGCGCCCAACGCTAGTC
31627240 GAATGAATCG
Statistics
Matches: 181, Mismatches: 27, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
74 7 0.04
75 159 0.88
76 15 0.08
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.20
Consensus pattern (74 bp):
ATATAATGGTGTGCCCAACACTAGTCAAATAAACTGACGAAAGTTGCGCCCAACGCTAGTCAGAT
AAACGAAAA
Found at i:31628164 original size:28 final size:28
Alignment explanation
Indices: 31628124--31628177 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
31628114 TAAATTCACT
31628124 TTACAAGGTAGTCTCACTTAACTTCCTA
1 TTACAAGGTAGTCTCACTTAACTTCCTA
31628152 TTACAAGGTAGTCTCACTTAACTTCC
1 TTACAAGGTAGTCTCACTTAACTTCC
31628178 AATCCTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (28 bp):
TTACAAGGTAGTCTCACTTAACTTCCTA
Found at i:31628450 original size:6 final size:7
Alignment explanation
Indices: 31628433--31628457 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
31628423 GAGAAATGTT
31628433 TTTTTAA
1 TTTTTAA
31628440 TTTTTAA
1 TTTTTAA
31628447 TTTTTAA
1 TTTTTAA
31628454 TTTT
1 TTTT
31628458 CTCCTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTAA
Found at i:31635941 original size:50 final size:50
Alignment explanation
Indices: 31635852--31636007 Score: 204
Period size: 50 Copynumber: 3.1 Consensus size: 50
31635842 CTACAATACT
* * * *
31635852 AATTCACACATATAACTTATATAATTAACACACAAATACTTTGTATAGAC
1 AATTCACACATAGAACTTATATAATCAACACGCACATACTTTGTATAGAC
* * * *
31635902 AGTTCACACAGAGAAATTATATAATCAACGCGCACATACTTTGTATAGAC
1 AATTCACACATAGAACTTATATAATCAACACGCACATACTTTGTATAGAC
* * * *
31635952 AATTCATACATAGAACTTAAATAAGCAGCACGCACATACTTTGTATAGAC
1 AATTCACACATAGAACTTATATAATCAACACGCACATACTTTGTATAGAC
31636002 AATTCA
1 AATTCA
31636008 TGGACCCTTT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 90 1.00
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.28
Consensus pattern (50 bp):
AATTCACACATAGAACTTATATAATCAACACGCACATACTTTGTATAGAC
Found at i:31645762 original size:20 final size:19
Alignment explanation
Indices: 31645737--31645788 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
31645727 GATTTTTGGG
*
31645737 AAAATTAATTTTAATCAAGT
1 AAAATTAA-ATTAATCAAGT
*
31645757 AAAATTAAATTAATCAAAT
1 AAAATTAAATTAATCAAGT
*
31645776 -TAATTAAATTAAT
1 AAAATTAAATTAAT
31645789 ATGATATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 12 0.41
19 9 0.31
20 8 0.28
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAATTAAATTAATCAAGT
Found at i:31646219 original size:18 final size:17
Alignment explanation
Indices: 31646185--31646272 Score: 58
Period size: 20 Copynumber: 5.2 Consensus size: 17
31646175 TTTTTAATAT
31646185 ATTTAATATTAAATTAA
1 ATTTAATATTAAATTAA
**
31646202 ATTTAATAATTATGTT-A
1 ATTTAAT-ATTAAATTAA
* **
31646219 A--TAGTATTTTATT-A
1 ATTTAATATTAAATTAA
31646233 ATTTAATATTAAATTAA
1 ATTTAATATTAAATTAA
*
31646250 TTATCTTAATATTAAATTTA
1 --AT-TTAATATTAAATTAA
31646270 ATT
1 ATT
31646273 CATTATTTGC
Statistics
Matches: 55, Mismatches: 9, Indels: 14
0.71 0.12 0.18
Matches are distributed among these distances:
14 8 0.15
15 3 0.05
16 9 0.16
17 11 0.20
18 8 0.15
19 2 0.04
20 14 0.25
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (17 bp):
ATTTAATATTAAATTAA
Found at i:31646258 original size:25 final size:25
Alignment explanation
Indices: 31646230--31646278 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
31646220 TAGTATTTTA
31646230 TTAAT-TTAATATTAAATTAATTATC
1 TTAATATTAA-ATTAAATTAATTATC
* *
31646255 TTAATATTAAATTTAATTCATTAT
1 TTAATATTAAATTAAATTAATTAT
31646279 TTGCATACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (25 bp):
TTAATATTAAATTAAATTAATTATC
Found at i:31656260 original size:25 final size:26
Alignment explanation
Indices: 31656206--31656266 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 26
31656196 TAGATTAGAT
*
31656206 TTAATACTT-ATATTAATAGTATTTTA
1 TTAATA-TTAATATTAATAGTATTATA
*
31656232 TTAAT-TTAATATTAA-AGTGATTATC
1 TTAATATTAATATTAATAGT-ATTATA
31656257 TTAATATTAA
1 TTAATATTAA
31656267 ATTTAATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
24 5 0.17
25 16 0.53
26 9 0.30
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (26 bp):
TTAATATTAATATTAATAGTATTATA
Found at i:31656842 original size:40 final size:44
Alignment explanation
Indices: 31656789--31656874 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
31656779 ATAAACATTA
* *
31656789 AAAATTATTTT-AAA-AATAAA-AAAAATAAAAAATATAT-TTT
1 AAAAGTATTTTAAAATAAAAAATAAAAATAAAAAATATATATTT
31656829 AAAAGTATTTTAAAATTAAAAAATAAAAATAAAAAATATATATTT
1 AAAAGTATTTTAAAA-TAAAAAATAAAAATAAAAAATATATATTT
31656874 A
1 A
31656875 TTATATTCGG
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
40 10 0.26
41 3 0.08
43 5 0.13
44 17 0.44
45 4 0.10
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (44 bp):
AAAAGTATTTTAAAATAAAAAATAAAAATAAAAAATATATATTT
Found at i:31658165 original size:27 final size:27
Alignment explanation
Indices: 31658099--31658166 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
31658089 ACAAAATTCT
* * *
31658099 CGTGTTTACTATCCTAATGGACTACCC
1 CGTGTTTAATGTCCTAATAGACTACCC
* * * *
31658126 CATGTTCAGTGTCCTGATAGACTACCC
1 CGTGTTTAATGTCCTAATAGACTACCC
31658153 CGTGTTTAATGTCC
1 CGTGTTTAATGTCC
31658167 CAGCGGACTA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.34
Consensus pattern (27 bp):
CGTGTTTAATGTCCTAATAGACTACCC
Found at i:31660469 original size:25 final size:25
Alignment explanation
Indices: 31660441--31660500 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
31660431 GAAAACCAAA
*
31660441 TATTGGGTTTGCTCAAATTATAAAG
1 TATTGGGTTCGCTCAAATTATAAAG
31660466 TATTGGGTTCGCTCAAATTATAAAG
1 TATTGGGTTCGCTCAAATTATAAAG
31660491 TATTGGGTTC
1 TATTGGGTTC
31660501 AAAGCTCGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (25 bp):
TATTGGGTTCGCTCAAATTATAAAG
Found at i:31662321 original size:9 final size:9
Alignment explanation
Indices: 31662307--31662334 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
31662297 TTTTGTTACA
31662307 ACAATTAAT
1 ACAATTAAT
31662316 ACAATTAAT
1 ACAATTAAT
31662325 ACAATTAAT
1 ACAATTAAT
31662334 A
1 A
31662335 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:31662355 original size:68 final size:66
Alignment explanation
Indices: 31662277--31662418 Score: 248
Period size: 68 Copynumber: 2.1 Consensus size: 66
31662267 TCAAGTTTGT
*
31662277 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
31662342 AAA
64 AAA
31662345 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
*
31662410 T
66 A
31662411 TTTACTAA
1 TTTACTAA
31662419 CAATTAATTT
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
66 27 0.38
67 1 0.01
68 44 0.61
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
A
Found at i:31662428 original size:16 final size:16
Alignment explanation
Indices: 31662407--31662448 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
31662397 AATAATTTGA
*
31662407 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
*
31662423 TAATTTTAATAATAAT
1 TAATTTTAATAACAAT
*
31662439 TATTTTTAAT
1 TAATTTTAAT
31662449 TTTATTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:31664250 original size:29 final size:28
Alignment explanation
Indices: 31664193--31664258 Score: 71
Period size: 29 Copynumber: 2.4 Consensus size: 28
31664183 AGTAAATTTC
* **
31664193 TCATTTTTGTAATTAATTTGTTTCTTAT
1 TCATTTTTATAATTAATTTGTTTAATAT
* *
31664221 TCCATTTTTATAGTTAATTTTTTTAATAT
1 T-CATTTTTATAATTAATTTGTTTAATAT
31664250 T-ATTTTTAT
1 TCATTTTTAT
31664259 CAAAAGACCT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
27 8 0.25
28 1 0.03
29 23 0.72
ACGTcount: A:0.24, C:0.06, G:0.05, T:0.65
Consensus pattern (28 bp):
TCATTTTTATAATTAATTTGTTTAATAT
Found at i:31665638 original size:26 final size:25
Alignment explanation
Indices: 31665591--31665642 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
31665581 GATTTTTTTG
*
31665591 TTTAGGGTTTTTTAGGTTTAAGGTT
1 TTTAGGGTTTATTAGGTTTAAGGTT
31665616 TTTAGGGTTTGATTA-GTTCTAAGGTT
1 TTTAGGGTTT-ATTAGGTT-TAAGGTT
31665642 T
1 T
31665643 AAAGTTTAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.17, C:0.02, G:0.27, T:0.54
Consensus pattern (25 bp):
TTTAGGGTTTATTAGGTTTAAGGTT
Found at i:31665764 original size:17 final size:17
Alignment explanation
Indices: 31665721--31665767 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
31665711 TTTTTTAGTT
31665721 TTTAAGGTTTTTTATAG
1 TTTAAGGTTTTTTATAG
* *
31665738 GTTAAGGGTTTTTTCT-G
1 TTTAA-GGTTTTTTATAG
31665755 CTTTAAGGTTTTT
1 -TTTAAGGTTTTT
31665768 ACGAGTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.17, C:0.04, G:0.21, T:0.57
Consensus pattern (17 bp):
TTTAAGGTTTTTTATAG
Found at i:31669945 original size:16 final size:17
Alignment explanation
Indices: 31669911--31669948 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
31669901 AAAACTAAGA
*
31669911 TTTTTAGAACATCTAAT
1 TTTTTACAACATCTAAT
*
31669928 TTTTTACAACAT-TCAT
1 TTTTTACAACATCTAAT
31669944 TTTTT
1 TTTTT
31669949 TTTCTAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.29, C:0.13, G:0.03, T:0.55
Consensus pattern (17 bp):
TTTTTACAACATCTAAT
Found at i:31673014 original size:77 final size:76
Alignment explanation
Indices: 31672916--31673107 Score: 260
Period size: 77 Copynumber: 2.5 Consensus size: 76
31672906 ATTAAAGGTA
* ** *
31672916 AAATAAAAATCATTTTGGGATTGATTCTTGCCGTTCAACGATTTTATTCCAAAATTGTCTTATTT
1 AAATAAAAATCGTTTTGGGATTGATTCCCGCCGTTCAACAATTTTATTCCAAAATTGTCTTATTT
*
31672981 CCAAAAATGAGT
66 -CAAAAACGAGT
* * *
31672993 AAATAAAAATCGTTTTAGGATTGATTCCCGCCGTTCAACAATTTTATTCCAAATTTGTTTTATTT
1 AAATAAAAATCGTTTTGGGATTGATTCCCGCCGTTCAACAATTTTATTCCAAAATTGTCTTATTT
31673058 CAAAAACGAGT
66 CAAAAACGAGT
* *
31673069 AACAT-AAAATCCGTTTCGGGATTGATTCCCACCGTTCAA
1 AA-ATAAAAAT-CGTTTTGGGATTGATTCCCGCCGTTCAA
31673108 TAGATTTATT
Statistics
Matches: 102, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
76 17 0.17
77 85 0.83
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.36
Consensus pattern (76 bp):
AAATAAAAATCGTTTTGGGATTGATTCCCGCCGTTCAACAATTTTATTCCAAAATTGTCTTATTT
CAAAAACGAGT
Found at i:31673269 original size:84 final size:84
Alignment explanation
Indices: 31673151--31673306 Score: 213
Period size: 84 Copynumber: 1.9 Consensus size: 84
31673141 AATGAGAAAT
* * * *
31673151 TAAATTAAATTAAATCTATTTCAGAATTTATTCCCACTATTTAACAAGATTTTATTTGATTTTAT
1 TAAATTAAATAAAATCTATTTCAGAATTTATTCCCACCATTTAACAAGATTTTATTCGATATTAT
31673216 TTTGTTTCCAAATTCGAAC
66 TTTGTTTCCAAATTCGAAC
* * * * * * *
31673235 TAAATTAAATAAAATTTGTTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTCGATATTGT
1 TAAATTAAATAAAATCTATTTCAGAATTTATTCCCACCATTTAACAAGATTTTATTCGATATTAT
31673300 TTTGTTT
66 TTTGTTT
31673307 TCAAGCAAAG
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
84 61 1.00
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (84 bp):
TAAATTAAATAAAATCTATTTCAGAATTTATTCCCACCATTTAACAAGATTTTATTCGATATTAT
TTTGTTTCCAAATTCGAAC
Found at i:31685109 original size:39 final size:39
Alignment explanation
Indices: 31685013--31685111 Score: 126
Period size: 39 Copynumber: 2.5 Consensus size: 39
31685003 ATTCACTTTT
* * *
31685013 AAGCATATATCACATTACACATATAATTACATAATATTC
1 AAGCATATATCACAATACTCATATAATTACATAACATTC
* * * * *
31685052 AAGCACACATCGCAATACTCATATAATTGCATAACGTTC
1 AAGCATATATCACAATACTCATATAATTACATAACATTC
31685091 AAGCATATATCACAATACTCA
1 AAGCATATATCACAATACTCA
31685112 AAAACATGTT
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.43, C:0.22, G:0.06, T:0.28
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATTACATAACATTC
Found at i:31689639 original size:50 final size:48
Alignment explanation
Indices: 31689556--31689741 Score: 153
Period size: 50 Copynumber: 3.7 Consensus size: 48
31689546 GGTGCTCACG
* *
31689556 TGTGTAGTATTATGTGCAGGTTACTACGTGTACCTGAATGATAGGCCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATGATA-GCCGCA
* *
31689606 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCG---GATAGCTTCGATCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAGC--CG--CA
* * * * * *
31689655 CGTTATAGTACTATATGCAGGCTACTACGTGTATCGGATAGTGATAGTCACA
1 TG-TGTAGTACTATGTGCAGGCTACTACGTGTA-CCGA-A-TGATAGCCGCA
* *
31689707 TGTGTAGTACTATGTGCAGGCTACTATGTGAACCG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
31689742 GTATCGTTAA
Statistics
Matches: 107, Mismatches: 18, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
45 2 0.02
46 4 0.04
47 2 0.02
49 4 0.04
50 58 0.54
51 28 0.26
52 3 0.03
54 1 0.01
56 5 0.05
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (48 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAGCCGCA
Found at i:31689709 original size:101 final size:101
Alignment explanation
Indices: 31689551--31689734 Score: 264
Period size: 101 Copynumber: 1.8 Consensus size: 101
31689541 AAAGTGGTGC
* * * * * *
31689551 TCACGTGTGTAGTATTATGTGCAGGTTACTACGTGTACCTGAATGATAGGCCGCATGTGTAGTAC
1 TCACGTGTATAGTACTATATGCAGGCTACTACGTGTACCGGAATGATAGGCCACATGTGTAGTAC
31689616 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
* *
31689652 TCACGT-TATAGTACTATATGCAGGCTACTACGTGTATCGGATAGTGATA-GTCACATGTGTAGT
1 TCACGTGTATAGTACTATATGCAGGCTACTACGTGTACCGGA-A-TGATAGGCCACATGTGTAGT
31689715 ACTATGTGCAGGCTACTATG
64 ACTATGTGCAGGCTACTATG
31689735 TGAACCGGTA
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
100 29 0.40
101 39 0.53
102 5 0.07
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (101 bp):
TCACGTGTATAGTACTATATGCAGGCTACTACGTGTACCGGAATGATAGGCCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:31689981 original size:16 final size:16
Alignment explanation
Indices: 31689960--31689991 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31689950 TGATTGAAAG
*
31689960 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
31689976 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
31689992 GCAACAAAAA
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:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:31695264 original size:50 final size:49
Alignment explanation
Indices: 31695210--31695396 Score: 175
Period size: 50 Copynumber: 3.7 Consensus size: 49
31695200 GATGGTCACG
31695210 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCTGAATGATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATGATAGGTCGCA
* * * *
31695260 TGTGTAGTACTATGTGTAGGCTACTATGCGTACC--A-GATAGCTTCGATCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAG-GTCG--CA
* * * * *
31695309 CGTTATAGTACTATATGCAGGCTACTACGTGTATCAGATAGTGAT-GGTCACA
1 TG-TGTAGTACTATGTGCAGGCTACTACGTGTA-CCGA-A-TGATAGGTCGCA
* *
31695361 TGTGTAGTACTATGTGCAGGCTACTATGTGAACCGA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGA
31695397 TATCGTTAAT
Statistics
Matches: 108, Mismatches: 19, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
46 5 0.05
47 4 0.04
49 3 0.03
50 59 0.55
51 27 0.25
52 3 0.03
54 3 0.03
55 1 0.01
56 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAGGTCGCA
Found at i:31695364 original size:101 final size:101
Alignment explanation
Indices: 31695205--31695388 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
31695195 AAAGTGATGG
* * * *
31695205 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCTGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTATAGTACTATATGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTAC
*
31695270 TATGTGTAGGCTACTATGCGTACCAGATAGCTTCGA
66 TATGTGCAGGCTACTATGCGTACCAGATAGCTTCGA
*
31695306 TCACGT-TATAGTACTATATGCAGGCTACTACGTGTATCAGATAGTGAT-GGTCACATGTGTAGT
1 TCACGTGTATAGTACTATATGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCACATGTGTAGT
31695369 ACTATGTGCAGGCTACTATG
64 ACTATGTGCAGGCTACTATG
31695389 TGAACCGATA
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
100 31 0.41
101 40 0.53
102 4 0.05
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (101 bp):
TCACGTGTATAGTACTATATGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCAGATAGCTTCGA
Found at i:31695635 original size:16 final size:16
Alignment explanation
Indices: 31695614--31695645 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31695604 TGATTGAAAG
*
31695614 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
31695630 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
31695646 GCAACAAAAC
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:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:31698161 original size:3 final size:3
Alignment explanation
Indices: 31698153--31698206 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
31698143 AGATGAAGGA
31698153 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
*
31698201 AGC ATC
1 ATC ATC
31698207 TTATTGCTGG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.33, G:0.02, T:0.31
Consensus pattern (3 bp):
ATC
Found at i:31718075 original size:17 final size:17
Alignment explanation
Indices: 31718053--31718149 Score: 51
Period size: 17 Copynumber: 5.6 Consensus size: 17
31718043 ATACAAGATA
31718053 AATATTAAATTAAATTT
1 AATATTAAATTAAATTT
31718070 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAA--A-TTT
**
31718090 AATATTAAAATT-AATAA
1 AATATT-AAATTAAATTT
* * *
31718107 AATACT--A-TCAAGTT
1 AATATTAAATTAAATTT
*
31718121 AAGTATTAAATTCAATTT
1 AA-TATTAAATTAAATTT
31718139 AATATTAAATT
1 AATATTAAATT
31718150 TATTAAAATA
Statistics
Matches: 61, Mismatches: 8, Indels: 22
0.67 0.09 0.24
Matches are distributed among these distances:
13 1 0.02
14 5 0.08
15 3 0.05
17 27 0.44
18 10 0.16
19 1 0.02
20 11 0.18
21 3 0.05
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (17 bp):
AATATTAAATTAAATTT
Found at i:31718140 original size:18 final size:17
Alignment explanation
Indices: 31718114--31718149 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
31718104 TAAAATACTA
31718114 TCAAGTTAAGTATTAAAT
1 TCAAGTTAA-TATTAAAT
*
31718132 TCAATTTAATATTAAAT
1 TCAAGTTAATATTAAAT
31718149 T
1 T
31718150 TATTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (17 bp):
TCAAGTTAATATTAAAT
Found at i:31718910 original size:80 final size:80
Alignment explanation
Indices: 31718777--31718938 Score: 324
Period size: 80 Copynumber: 2.0 Consensus size: 80
31718767 AGAATTTTTT
31718777 TTGATTCAAATGCAGTCCAATAGAGTTTTGATTGAGCTAGTAGATGAACCAATCAAACATATACA
1 TTGATTCAAATGCAGTCCAATAGAGTTTTGATTGAGCTAGTAGATGAACCAATCAAACATATACA
31718842 ATTAGGCTCTAGTAA
66 ATTAGGCTCTAGTAA
31718857 TTGATTCAAATGCAGTCCAATAGAGTTTTGATTGAGCTAGTAGATGAACCAATCAAACATATACA
1 TTGATTCAAATGCAGTCCAATAGAGTTTTGATTGAGCTAGTAGATGAACCAATCAAACATATACA
31718922 ATTAGGCTCTAGTAA
66 ATTAGGCTCTAGTAA
31718937 TT
1 TT
31718939 ACAATTATGT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 82 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (80 bp):
TTGATTCAAATGCAGTCCAATAGAGTTTTGATTGAGCTAGTAGATGAACCAATCAAACATATACA
ATTAGGCTCTAGTAA
Found at i:31727395 original size:41 final size:41
Alignment explanation
Indices: 31727338--31727420 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
31727328 AAACATGCTG
*
31727338 TAATTGTCTTCGAGTATCAGGAATGATATCCAGATGTGATA
1 TAATTGTATTCGAGTATCAGGAATGATATCCAGATGTGATA
31727379 TAATTGTATTCGAGTATCAGGAATGATATCCAGATGTGATA
1 TAATTGTATTCGAGTATCAGGAATGATATCCAGATGTGATA
31727420 T
1 T
31727421 GATATATATA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.35
Consensus pattern (41 bp):
TAATTGTATTCGAGTATCAGGAATGATATCCAGATGTGATA
Found at i:31727611 original size:41 final size:40
Alignment explanation
Indices: 31727459--31727628 Score: 143
Period size: 41 Copynumber: 4.2 Consensus size: 40
31727449 GCTAATCGAG
* *
31727459 GTCTAAATTCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 GTCT-AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
* * *
31727500 G-CTAATGATCGAACTTAGTTTCGAAGGGCTTTTTAGAGCCAGT
1 GTCTAAT--CCGAGCTTAGTCTCGAAGGGC-TTTT-GAGCCAGT
* *
31727543 GTCATAA-CCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGT
1 GTC-TAATCCGAG-CTTAGTCT-CGAAGGGCTTTTGAGCCAGT
* *
31727583 AGTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCGGT
1 -GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
31727624 G-CTAA
1 GTCTAA
31727629 GAGTCGGACT
Statistics
Matches: 106, Mismatches: 11, Indels: 26
0.74 0.08 0.18
Matches are distributed among these distances:
39 7 0.07
40 14 0.13
41 50 0.47
42 22 0.21
43 9 0.08
44 1 0.01
45 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (40 bp):
GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
Found at i:31732475 original size:25 final size:27
Alignment explanation
Indices: 31732447--31732502 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 27
31732437 AGAGGCCTAG
31732447 CCTTTTTTAAT-AACTAGGGC-AAAGC
1 CCTTTTTTAATAAACTAGGGCAAAAGC
*
31732472 CC--TTTTGATAAACTAGGGCAAAAGC
1 CCTTTTTTAATAAACTAGGGCAAAAGC
*
31732497 CATTTT
1 CCTTTT
31732503 CGGTAAACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
23 6 0.24
24 9 0.36
25 8 0.32
27 2 0.08
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (27 bp):
CCTTTTTTAATAAACTAGGGCAAAAGC
Found at i:31732477 original size:24 final size:24
Alignment explanation
Indices: 31732431--31732502 Score: 65
Period size: 24 Copynumber: 2.9 Consensus size: 24
31732421 GCTTTATCAT
** *
31732431 ATAACTAGAGGCCTAGCCTTTTTTA
1 ATAACTAG-GGCAAAGCCATTTTTA
* *
31732456 ATAACTAGGGCAAAGCC-CTTTTG
1 ATAACTAGGGCAAAGCCATTTTTA
31732479 ATAAACTAGGGCAAAAGCCATTTT
1 AT-AACTAGGGC-AAAGCCATTTT
31732503 CGGTAAACTG
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 6 0.15
24 16 0.41
25 14 0.36
26 3 0.08
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (24 bp):
ATAACTAGGGCAAAGCCATTTTTA
Found at i:31732516 original size:26 final size:25
Alignment explanation
Indices: 31732458--31732517 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
31732448 CTTTTTTAAT
*
31732458 AACTAGGGC-AAAGCCCTTTTGATA
1 AACTAGGGCAAAAGCCATTTTGATA
*
31732482 AACTAGGGCAAAAGCCATTTTCGGTA
1 AACTAGGGCAAAAGCCATTTT-GATA
*
31732508 AACTGGGGCA
1 AACTAGGGCA
31732518 TAGCCCTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 9 0.29
25 10 0.32
26 12 0.39
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (25 bp):
AACTAGGGCAAAAGCCATTTTGATA
Found at i:31732522 original size:25 final size:24
Alignment explanation
Indices: 31732458--31732527 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 24
31732448 CTTTTTTAAT
31732458 AACTAGGGCAAAGCCCTTTTGATA
1 AACTAGGGCAAAGCCCTTTTGATA
* *
31732482 AACTAGGGCAAAAGCCATTTTCGGTA
1 AACTAGGGC-AAAGCCCTTTT-GATA
* *
31732508 AACTGGGGCATAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTT
31732528 TGCACTTCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
24 9 0.23
25 19 0.49
26 11 0.28
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
AACTAGGGCAAAGCCCTTTTGATA
Found at i:31732604 original size:20 final size:20
Alignment explanation
Indices: 31732578--31732644 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
31732568 TTATGAATAA
31732578 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
31732598 GTCATGTGCATATCTTACAT
1 ATCATGTGCATATCATACAT
31732618 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
31732638 ATCATGT
1 ATCATGT
31732645 ATATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:31732631 original size:11 final size:11
Alignment explanation
Indices: 31732578--31732633 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
31732568 TTATGAATAA
31732578 ATCATGTGCAT
1 ATCATGTGCAT
*
31732589 ATCA--TACAT
1 ATCATGTGCAT
*
31732598 GTCATGTGCAT
1 ATCATGTGCAT
*
31732609 ATC-T-TACAT
1 ATCATGTGCAT
31732618 ATCATGTGCAT
1 ATCATGTGCAT
31732629 ATCAT
1 ATCAT
31732634 ACATATCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 14 0.40
10 2 0.06
11 19 0.54
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:31735538 original size:8 final size:8
Alignment explanation
Indices: 31735525--31735551 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
31735515 ATGCTTATTA
31735525 TATGCATG
1 TATGCATG
31735533 TATGCATG
1 TATGCATG
31735541 TATGCATG
1 TATGCATG
31735549 TAT
1 TAT
31735552 AAAAATTCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.41
Consensus pattern (8 bp):
TATGCATG
Found at i:31737470 original size:40 final size:40
Alignment explanation
Indices: 31737398--31737641 Score: 343
Period size: 40 Copynumber: 6.2 Consensus size: 40
31737388 TGGATGATAA
* * *
31737398 CGAAGGCATTTGTGCTAGTGACTA-ATTTCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCC
*
31737438 CGAAGGCATTTGTGCGAGTTATTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
*
31737478 CGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
31737518 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* *
31737558 CGAAGGCATTTGTGCGAGTTACTATAACCGGGCT-AGTCT
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * * *
31737597 CGAAGACATTTGAGCGAG-TAGCTATATCC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCC
31737636 CGAAGG
1 CGAAGG
31737642 TACTTGGTTT
Statistics
Matches: 185, Mismatches: 16, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
38 5 0.03
39 35 0.19
40 144 0.78
41 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:31740870 original size:37 final size:37
Alignment explanation
Indices: 31740820--31740935 Score: 187
Period size: 37 Copynumber: 3.1 Consensus size: 37
31740810 TTATTACTAA
* * * * *
31740820 GTCTTAGCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
31740857 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
31740894 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
31740931 GTCTT
1 GTCTT
31740936 TAGAGCTCGG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
Done.