Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 202 of 295
Found at i:69119095 original size:40 final size:40
Alignment explanation
Indices: 69118956--69119216 Score: 390
Period size: 40 Copynumber: 6.6 Consensus size: 40
69118946 AAACCCAAGA
* * *
69118956 CCTTC-GGATTTAG-CCAGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
69118994 CCTTC-GGTCTTAGCCTATAGGATATAG-CACTAGCACAAATG
1 CCTTCGGGACTTAGCC---CGGATATAGTCACTAGCACAAATG
69119035 CCTTC-GGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
69119074 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
69119114 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
69119154 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
69119194 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
69119217 CATTCGAATA
Statistics
Matches: 208, Mismatches: 9, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
38 19 0.09
39 20 0.10
40 135 0.65
41 26 0.12
42 8 0.04
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:69127120 original size:40 final size:40
Alignment explanation
Indices: 69127044--69127305 Score: 420
Period size: 40 Copynumber: 6.6 Consensus size: 40
69127034 AACCCAAGTA
* * *
69127044 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
69127083 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
69127123 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
69127163 CCTTCGGGACTTAGCTCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
69127203 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
69127243 CCTTCGGGACTTAGCCCGGATATAGTCACTTGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
69127283 CCTTCTGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
69127306 CATTCGAATA
Statistics
Matches: 209, Mismatches: 12, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
39 12 0.06
40 196 0.94
41 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:69129923 original size:40 final size:40
Alignment explanation
Indices: 69129875--69130080 Score: 335
Period size: 40 Copynumber: 5.2 Consensus size: 40
69129865 GGACTAAGAT
69129875 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* *
69129915 CCGAAGGCATTTGTGCTAGTTACTATAACCGGACTAAGAT-
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAG-TC
69129955 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
69129995 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * * *
69130035 TCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
69130074 CCGAAGG
1 CCGAAGG
69130081 TACTTGGGTT
Statistics
Matches: 155, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 15 0.10
40 139 0.90
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
Found at i:69129993 original size:80 final size:80
Alignment explanation
Indices: 69129860--69130080 Score: 374
Period size: 80 Copynumber: 2.8 Consensus size: 80
69129850 ATTCGGATGG
69129860 TAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCAT
1 TAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCAT
69129925 TTGTGCTAGTTACTA
66 TTGTGCTAGTTACTA
69129940 TAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCAT
1 TAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCAT
69130005 TTGTGCTAGTTACTA
66 TTGTGCTAGTTACTA
* * * * *
69130020 TATCCGGGCTAAG-TCTCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCGAAGG
1 TAACCGGACTAAGATC-CGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGG
69130081 TACTTGGGTT
Statistics
Matches: 135, Mismatches: 5, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
79 17 0.13
80 118 0.87
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (80 bp):
TAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCAT
TTGTGCTAGTTACTA
Found at i:69136616 original size:13 final size:13
Alignment explanation
Indices: 69136598--69136625 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
69136588 ACATATTATA
69136598 AATATTTTGTGTT
1 AATATTTTGTGTT
69136611 AATATTTTGTGTT
1 AATATTTTGTGTT
69136624 AA
1 AA
69136626 AAAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
AATATTTTGTGTT
Found at i:69138091 original size:40 final size:39
Alignment explanation
Indices: 69138043--69138328 Score: 423
Period size: 40 Copynumber: 7.2 Consensus size: 39
69138033 GGACTAAGAT
69138043 CCGAAGGCATTTGTGCTAGTTACTATATCCGTGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCG-GCTAAGTC
*
69138083 CCGAAGGCATTTGTGCTAGTTACTATAACCGGACTAAGAT-
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGG-CTAAG-TC
*
69138123 CCGAAGGCATTTGTGCTAATTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCC-GGCTAAGTC
*
69138163 CCGAAGGCATTTGTGCTAGTTACTATAACCGGACTAAGAT-
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGG-CTAAG-TC
*
69138203 CCAAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCC-GGCTAAGTC
69138243 CCGAAGGCATTTGTGCTAGTTACTATATCCAGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCC-GGCTAAGTC
* * *
69138283 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGCTAAGTC
69138322 CCGAAGG
1 CCGAAGG
69138329 TACTTGGGTT
Statistics
Matches: 226, Mismatches: 12, Indels: 17
0.89 0.05 0.07
Matches are distributed among these distances:
39 20 0.09
40 200 0.88
41 6 0.03
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCTAGTTACTATATCCGGCTAAGTC
Found at i:69138160 original size:80 final size:80
Alignment explanation
Indices: 69138027--69138328 Score: 502
Period size: 80 Copynumber: 3.8 Consensus size: 80
69138017 TATTCGGATG
*
69138027 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGTGCTAAGTCCCGAAGGCA
1 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
69138092 TTTGTGCTAGTTACT
66 TTTGTGCTAGTTACT
*
69138107 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAATTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
69138172 TTTGTGCTAGTTACT
66 TTTGTGCTAGTTACT
*
69138187 ATAACCGGACTAAGATCCAAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
69138252 TTTGTGCTAGTTACT
66 TTTGTGCTAGTTACT
* * * *
69138267 ATATCCAGG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCGAAGG
1 ATAACC-GGACTAAGAT-CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGG
69138329 TACTTGGGTT
Statistics
Matches: 211, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
79 16 0.08
80 193 0.91
81 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (80 bp):
ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCTAGTTACT
Found at i:69143326 original size:43 final size:43
Alignment explanation
Indices: 69143169--69143330 Score: 157
Period size: 43 Copynumber: 3.8 Consensus size: 43
69143159 GTACAATGCT
* ** * * *
69143169 ATGTCCCAGATATGGTCTTACATGTTATCATATACCGATGCCA
1 ATGTCCCAGACATGGTCTTACACATAATCACATAACGATGCCA
* * * *
69143212 ATAG-CCCA-ACTATGGTCTTATAGAAAATCAAATAACGATGCCA
1 AT-GTCCCAGAC-ATGGTCTTACACATAATCACATAACGATGCCA
** * *
69143255 ATGTCCCAGACACAGTCTTACACGTAATCACATAATGATGCCA
1 ATGTCCCAGACATGGTCTTACACATAATCACATAACGATGCCA
*
69143298 ATGTCCTAGACATGGTCTTACACATAATCACAT
1 ATGTCCCAGACATGGTCTTACACATAATCACAT
69143331 CTCGTTAATC
Statistics
Matches: 95, Mismatches: 20, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
42 2 0.02
43 90 0.95
44 3 0.03
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (43 bp):
ATGTCCCAGACATGGTCTTACACATAATCACATAACGATGCCA
Found at i:69144986 original size:14 final size:15
Alignment explanation
Indices: 69144962--69145000 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
69144952 GAGTACATAA
69144962 ATTCA-CACAAATG-
1 ATTCAGCACAAATGC
69144975 ATTCAGCACAAATGC
1 ATTCAGCACAAATGC
69144990 ATTCAG-ACAAA
1 ATTCAGCACAAA
69145001 CAGAATACAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.21
14 13 0.54
15 6 0.25
ACGTcount: A:0.46, C:0.23, G:0.10, T:0.21
Consensus pattern (15 bp):
ATTCAGCACAAATGC
Found at i:69146771 original size:22 final size:21
Alignment explanation
Indices: 69146742--69146785 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
69146732 CACACCTCAC
69146742 ACTCAAAC-CCTAGCCACCAAA
1 ACTCAAACTCCTAGCC-CCAAA
*
69146763 ACTCAAAACTTCTAGCCCCAAA
1 ACTC-AAACTCCTAGCCCCAAA
69146785 A
1 A
69146786 TTTGACATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 10 0.50
23 6 0.30
ACGTcount: A:0.43, C:0.39, G:0.05, T:0.14
Consensus pattern (21 bp):
ACTCAAACTCCTAGCCCCAAA
Found at i:69148105 original size:28 final size:28
Alignment explanation
Indices: 69148062--69148117 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
69148052 TAAGGTAAAG
*
69148062 CTAAGACCTCACTTAATCAATGGATGAT
1 CTAAGACCTCACTTAATCAATAGATGAT
* *
69148090 CTAAGACCTCATTTAATCGATAGATGAT
1 CTAAGACCTCACTTAATCAATAGATGAT
69148118 TCAACCTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (28 bp):
CTAAGACCTCACTTAATCAATAGATGAT
Found at i:69155134 original size:11 final size:11
Alignment explanation
Indices: 69155118--69155143 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
69155108 TGTGATGATG
69155118 CTCTGACCGAT
1 CTCTGACCGAT
69155129 CTCTGACCGAT
1 CTCTGACCGAT
69155140 CTCT
1 CTCT
69155144 AACCTTTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.38, G:0.15, T:0.31
Consensus pattern (11 bp):
CTCTGACCGAT
Found at i:69155783 original size:24 final size:23
Alignment explanation
Indices: 69155747--69155793 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
69155737 GAGTTCAAGC
*
69155747 GAGCCATGTCAGGAAGCTCATGA
1 GAGCCATATCAGGAAGCTCATGA
*
69155770 GAGCCTATATCAGGACGCTCATGA
1 GAGCC-ATATCAGGAAGCTCATGA
69155794 ATAGATGCGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (23 bp):
GAGCCATATCAGGAAGCTCATGA
Found at i:69157815 original size:20 final size:18
Alignment explanation
Indices: 69157757--69157816 Score: 50
Period size: 20 Copynumber: 3.1 Consensus size: 18
69157747 GTGCTGGATA
*
69157757 AGGGCACAAATGTGAATAC
1 AGGGCACCAATGTGAA-AC
69157776 AGAGGCACCGAA-GTGTAAAC
1 AG-GGCACC-AATGTG-AAAC
69157796 ATGGGCACCAATGTGCAAAC
1 A-GGGCACCAATGTG-AAAC
69157816 A
1 A
69157817 AGAGAATTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
19 4 0.12
20 25 0.74
21 5 0.15
ACGTcount: A:0.40, C:0.20, G:0.27, T:0.13
Consensus pattern (18 bp):
AGGGCACCAATGTGAAAC
Found at i:69160674 original size:20 final size:20
Alignment explanation
Indices: 69160649--69160689 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
69160639 CTACTTCCTC
*
69160649 TGTTTGTTGTTTGTTGCAAT
1 TGTTTGTTGTTTGCTGCAAT
69160669 TGTTTGTTGTTTGCTGCAAT
1 TGTTTGTTGTTTGCTGCAAT
69160689 T
1 T
69160690 CTACTAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.07, G:0.24, T:0.59
Consensus pattern (20 bp):
TGTTTGTTGTTTGCTGCAAT
Found at i:69164186 original size:13 final size:13
Alignment explanation
Indices: 69164168--69164231 Score: 83
Period size: 13 Copynumber: 4.9 Consensus size: 13
69164158 AGTTTGGCAA
*
69164168 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
*
69164181 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
69164194 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
69164207 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
69164220 TGCTTTTGAAAA
1 TGCTTTTGAAAA
69164232 ATTTGGTTTA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:69164197 original size:26 final size:26
Alignment explanation
Indices: 69164168--69164232 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
69164158 AGTTTGGCAA
69164168 TGCTTTTAAAAAGTGCTTTTGAGAAG
1 TGCTTTTAAAAAGTGCTTTTGAGAAG
* **
69164194 TGCTGTGGAAAAGTGCTTTTGAGAAG
1 TGCTTTTAAAAAGTGCTTTTGAGAAG
69164220 TGCTTTTGAAAAA
1 TGCTTTT-AAAAA
69164233 TTTGGTTTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 28 0.88
27 4 0.12
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.35
Consensus pattern (26 bp):
TGCTTTTAAAAAGTGCTTTTGAGAAG
Found at i:69166039 original size:21 final size:20
Alignment explanation
Indices: 69165986--69166031 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
69165976 TATGTCTTGA
69165986 ATTTGTTAGATATTAAATTT
1 ATTTGTTAGATATTAAATTT
*
69166006 ATTATGTTAGATATTGAATTT
1 ATT-TGTTAGATATTAAATTT
69166027 ATTTG
1 ATTTG
69166032 GTTGGATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (20 bp):
ATTTGTTAGATATTAAATTT
Found at i:69167341 original size:29 final size:30
Alignment explanation
Indices: 69167293--69167363 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 30
69167283 AGATCATTGC
*
69167293 AATATATGT--AAAAACAATTTAAAGTATA
1 AATATATGTAAAAAAACAATTTAAAATATA
* *
69167321 AATTTAT-TAAAAAAATAATTTAAAATATA
1 AATATATGTAAAAAAACAATTTAAAATATA
69167350 AATATATGTAAAAA
1 AATATATGTAAAAA
69167364 CAGCTTTTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 1 0.03
28 6 0.17
29 23 0.64
30 6 0.17
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (30 bp):
AATATATGTAAAAAAACAATTTAAAATATA
Found at i:69167896 original size:29 final size:27
Alignment explanation
Indices: 69167876--69167955 Score: 90
Period size: 29 Copynumber: 2.9 Consensus size: 27
69167866 AAACTTGTTT
*
69167876 AAAATTTTAAAATTATTAAAAATTATAA
1 AAAATTTTAAAA-TATTAAAAATTGTAA
*
69167904 AAATATTTTAAAATATTTAAAATTTGTAA
1 AAA-ATTTTAAAATA-TTAAAAATTGTAA
*
69167933 AAAATATTTAAAA-ATTTAAAATT
1 AAAAT-TTTAAAATATTAAAAATT
69167956 TGTGAAAATC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
27 7 0.16
28 8 0.18
29 30 0.67
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (27 bp):
AAAATTTTAAAATATTAAAAATTGTAA
Found at i:69167899 original size:10 final size:10
Alignment explanation
Indices: 69167876--69168015 Score: 79
Period size: 10 Copynumber: 14.8 Consensus size: 10
69167866 AAACTTGTTT
69167876 AAAATT-TT-
1 AAAATTATTA
69167884 AAAATTATTA
1 AAAATTATTA
69167894 AAAATTA-TA
1 AAAATTATTA
*
69167903 AAAA-TATTTT
1 AAAATTA-TTA
*
69167913 AAAA-TATTT
1 AAAATTATTA
69167922 AAAATT-TGTA
1 AAAATTAT-TA
*
69167932 AAAAATATTTA
1 AAAATTA-TTA
69167943 AAAA-T-TT-
1 AAAATTATTA
*
69167950 AAAATT-TGTG
1 AAAATTAT-TA
*
69167960 AAAATCATTA
1 AAAATTATTA
69167970 AAAATTA-T-
1 AAAATTATTA
*
69167978 AAAATGATTA
1 AAAATTATTA
* *
69167988 AAAATTGTAA
1 AAAATTATTA
*
69167998 AAAATTATTT
1 AAAATTATTA
69168008 AAAATTAT
1 AAAATTAT
69168016 AATAATTTTA
Statistics
Matches: 105, Mismatches: 13, Indels: 26
0.73 0.09 0.18
Matches are distributed among these distances:
7 4 0.04
8 18 0.17
9 19 0.18
10 56 0.53
11 7 0.07
12 1 0.01
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (10 bp):
AAAATTATTA
Found at i:69167916 original size:20 final size:19
Alignment explanation
Indices: 69167876--69168026 Score: 79
Period size: 18 Copynumber: 8.1 Consensus size: 19
69167866 AAACTTGTTT
* *
69167876 AAAATTTTAAAATTA-TTA
1 AAAATTATAAAAATATTTA
69167894 AAAATTATAAAAATATTTTA
1 AAAATTATAAAAATA-TTTA
69167914 AAATATT-T-AAAAT-TTGTA
1 AAA-ATTATAAAAATATT-TA
* *
69167932 AAAAATATTTAAAA-ATTTA
1 AAAATTA-TAAAAATATTTA
* * *
69167951 AAATTTGTGAAAATCA-TTA
1 AAAATTATAAAAAT-ATTTA
69167970 AAAATTAT-AAAATGA-TTA
1 AAAATTATAAAAAT-ATTTA
*
69167988 AAAATTGTAAAAAATTATTT-
1 AAAATTAT-AAAAA-TATTTA
*
69168008 AAAATTATAATAAT-TTTA
1 AAAATTATAAAAATATTTA
69168026 A
1 A
69168027 TCTTTTTTTA
Statistics
Matches: 105, Mismatches: 13, Indels: 30
0.71 0.09 0.20
Matches are distributed among these distances:
17 7 0.07
18 41 0.39
19 25 0.24
20 26 0.25
21 6 0.06
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (19 bp):
AAAATTATAAAAATATTTA
Found at i:69167923 original size:38 final size:35
Alignment explanation
Indices: 69167873--69168026 Score: 130
Period size: 38 Copynumber: 4.1 Consensus size: 35
69167863 TAAAAACTTG
69167873 TTTAAAATTTTAAAATTATTAAAAATTATAAAAATA
1 TTTAAAATTTTAAAATTATTAAAAATTATAAAAA-A
* *
69167909 TTTTAAAATATTTAAAATT-TGTAAAAAATATTTAAAAA
1 -TTTAAAAT-TTTAAAATTAT-TAAAAATTA-TAAAAAA
* *
69167947 TTTAAAATTTGTGAAAATCATTAAAAATTATAAAATGA
1 TTTAAAATTT-T-AAAATTATTAAAAATTATAAAA-AA
* * * * *
69167985 TTAAAAATTGTAAAAAATTATTTAAAATTATAATAAT
1 TTTAAAATT-T-TAAAATTATTAAAAATTATAAAAAA
69168022 TTTAA
1 TTTAA
69168027 TCTTTTTTTA
Statistics
Matches: 94, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
36 2 0.02
37 26 0.28
38 59 0.63
39 7 0.07
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (35 bp):
TTTAAAATTTTAAAATTATTAAAAATTATAAAAAA
Found at i:69167934 original size:28 final size:28
Alignment explanation
Indices: 69167879--69167964 Score: 95
Period size: 28 Copynumber: 3.0 Consensus size: 28
69167869 CTTGTTTAAA
* *
69167879 ATTTTAAAATTATTAAAAATTAT-AAAAAT
1 ATTTTAAAA-TATTTAAAATT-TGTAAAAT
*
69167908 ATTTTAAAATATTTAAAATTTGTAAAAA
1 ATTTTAAAATATTTAAAATTTGTAAAAT
69167936 ATATTTAAAA-ATTTAAAATTTGTGAAAAT
1 AT-TTTAAAATATTTAAAATTTGT-AAAAT
69167965 CATTAAAAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
27 1 0.02
28 29 0.58
29 20 0.40
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (28 bp):
ATTTTAAAATATTTAAAATTTGTAAAAT
Found at i:69167955 original size:7 final size:8
Alignment explanation
Indices: 69167873--69168000 Score: 51
Period size: 9 Copynumber: 14.0 Consensus size: 8
69167863 TAAAAACTTG
*
69167873 TTTAAAAT
1 TTTAAAAA
*
69167881 TTTAAAAT
1 TTTAAAAA
69167889 TATTAAAAA
1 T-TTAAAAA
69167898 TTATAAAAATA
1 TT-T-AAAA-A
69167909 TTTTAAAATA
1 -TTTAAAA-A
*
69167919 TTTAAAAT
1 TTTAAAAA
69167927 TTGTAAAAAATA
1 TT-T--AAAA-A
69167939 TTTAAAAA
1 TTTAAAAA
*
69167947 TTTAAAAT
1 TTTAAAAA
*
69167955 TTGTGAAAA
1 TT-TAAAAA
69167964 TCATTAAAAA
1 T--TTAAAAA
69167974 -TTATAAAA
1 TTTA-AAAA
69167982 TGATTAAAAA
1 T--TTAAAAA
69167992 TTGTAAAAA
1 TT-TAAAAA
69168001 ATTATTTAAA
Statistics
Matches: 96, Mismatches: 7, Indels: 33
0.71 0.05 0.24
Matches are distributed among these distances:
7 3 0.03
8 27 0.28
9 31 0.32
10 20 0.21
11 11 0.11
12 4 0.04
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (8 bp):
TTTAAAAA
Found at i:69167973 original size:28 final size:27
Alignment explanation
Indices: 69167876--69167982 Score: 90
Period size: 28 Copynumber: 3.8 Consensus size: 27
69167866 AAACTTGTTT
* * * *
69167876 AAAATTTTAAAATTATTAAAAATTATAA
1 AAAATATTAAAAAT-TTAAAATTTGTAA
* *
69167904 AAATATTTTAAAATATTTAAAATTTGTAA
1 AAA-ATATT-AAAAATTTAAAATTTGTAA
*
69167933 AAAATATTTAAAAATTTAAAATTTGT-G
1 AAAATA-TTAAAAATTTAAAATTTGTAA
69167960 AAAATCATTAAAAATTATAAAAT
1 AAAAT-ATTAAAAATT-TAAAAT
69167983 GATTAAAAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
27 14 0.21
28 28 0.42
29 21 0.31
30 4 0.06
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (27 bp):
AAAATATTAAAAATTTAAAATTTGTAA
Found at i:69168623 original size:10 final size:10
Alignment explanation
Indices: 69168610--69168711 Score: 84
Period size: 10 Copynumber: 9.9 Consensus size: 10
69168600 TTCTTTTTAT
69168610 TTTTTATAAA
1 TTTTTATAAA
69168620 TTTTTAT-AA
1 TTTTTATAAA
69168629 TTTTTAATAAA
1 TTTTT-ATAAA
69168640 TTTTTA-AAA
1 TTTTTATAAA
*
69168649 TTTTTAAATAA
1 TTTTTATA-AA
*
69168660 TTCTTTTTACAA
1 TT-TTTATA-AA
69168672 TTTTT-TAAAA
1 TTTTTAT-AAA
* *
69168682 TTTTTACAAG
1 TTTTTATAAA
*
69168692 TTTTTCTAACA
1 TTTTTATAA-A
69168703 TTTTTATAA
1 TTTTTATAA
69168712 TACTATTATT
Statistics
Matches: 75, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
9 16 0.21
10 28 0.37
11 23 0.31
12 8 0.11
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.58
Consensus pattern (10 bp):
TTTTTATAAA
Found at i:69168630 original size:9 final size:9
Alignment explanation
Indices: 69168589--69168654 Score: 60
Period size: 9 Copynumber: 6.8 Consensus size: 9
69168579 TTTATATATG
69168589 ATTTTTATA
1 ATTTTTATA
*
69168598 ATTTCTTTTTA
1 A-TT-TTTATA
*
69168609 TTTTTTATAA
1 ATTTTTAT-A
69168619 ATTTTTATA
1 ATTTTTATA
69168628 ATTTTTAATAA
1 ATTTTT-AT-A
*
69168639 ATTTTTAAA
1 ATTTTTATA
69168648 ATTTTTA
1 ATTTTTA
69168655 AATAATTCTT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
9 20 0.43
10 15 0.32
11 12 0.26
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (9 bp):
ATTTTTATA
Found at i:69168631 original size:20 final size:20
Alignment explanation
Indices: 69168590--69168712 Score: 97
Period size: 20 Copynumber: 6.0 Consensus size: 20
69168580 TTATATATGA
* *
69168590 TTTTTAT-AATTTCTTTTTAT
1 TTTTTATAAATTT-TTATAAT
69168610 TTTTTATAAATTTTTATAAT
1 TTTTTATAAATTTTTATAAT
* *
69168630 TTTTAATAAATTTTTAAAAT
1 TTTTTATAAATTTTTATAAT
* * *
69168650 TTTTAAATAATTCTTTTTACAAT
1 TTTT-TATAA--ATTTTTATAAT
* *
69168673 TTTTTA-AAATTTTTACAAG
1 TTTTTATAAATTTTTATAAT
*
69168692 TTTTTCTAACATTTTTATAAT
1 TTTTTATAA-ATTTTTATAAT
69168713 ACTATTATTA
Statistics
Matches: 85, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
19 14 0.16
20 36 0.42
21 21 0.25
22 1 0.01
23 13 0.15
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (20 bp):
TTTTTATAAATTTTTATAAT
Found at i:69168821 original size:19 final size:18
Alignment explanation
Indices: 69168799--69168863 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 18
69168789 TTTTCTAGAT
69168799 TATATATTTTAATTTTTAA
1 TATATATTTTAATTTTT-A
69168818 TATATTTATTTCT-ATTTCTTA
1 TATA--TATTT-TAATTT-TTA
69168839 TAT-T-TTTTAATTTTTA
1 TATATATTTTAATTTTTA
*
69168855 TATACATTT
1 TATATATTT
69168864 GATAAAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 15
0.70 0.02 0.28
Matches are distributed among these distances:
16 7 0.18
17 7 0.18
18 4 0.11
19 4 0.11
21 13 0.34
22 3 0.08
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (18 bp):
TATATATTTTAATTTTTA
Found at i:69171267 original size:17 final size:18
Alignment explanation
Indices: 69171245--69171279 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
69171235 ATATATCATG
69171245 TAGTGAAAAT-TTTAAAA
1 TAGTGAAAATATTTAAAA
*
69171262 TAGTGAAACTATTTAAAA
1 TAGTGAAAATATTTAAAA
69171280 AAAAACTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.34
Consensus pattern (18 bp):
TAGTGAAAATATTTAAAA
Found at i:69172459 original size:13 final size:14
Alignment explanation
Indices: 69172441--69172469 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
69172431 ATAATTATGT
69172441 CAATTTC-AATCAC
1 CAATTTCGAATCAC
69172454 CAATTTCGAATCAC
1 CAATTTCGAATCAC
69172468 CA
1 CA
69172470 TCACCCTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.38, C:0.31, G:0.03, T:0.28
Consensus pattern (14 bp):
CAATTTCGAATCAC
Found at i:69178570 original size:39 final size:40
Alignment explanation
Indices: 69178383--69178644 Score: 273
Period size: 40 Copynumber: 6.6 Consensus size: 40
69178373 TTGAATGCTG
* * * * * *
69178383 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
69178423 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA-A
* * * *
69178463 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
69178503 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
69178543 TCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
69178582 TCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
69178621 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
69178645 TGAACGAGGA
Statistics
Matches: 194, Mismatches: 22, Indels: 13
0.85 0.10 0.06
Matches are distributed among these distances:
39 74 0.38
40 110 0.57
41 10 0.05
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:69178591 original size:79 final size:77
Alignment explanation
Indices: 69178436--69178644 Score: 247
Period size: 79 Copynumber: 2.6 Consensus size: 77
69178426 GGACTAAGAT
* * * * * *
69178436 CCGAAGGCATTTGTGCGAGATACAAGTTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTA
1 CCGAAGGCA-TTGTGCGAGTTATAA-ATCCGGGTTAAG-TCCGAAGGCATTCGTGCGAGATACTA
69178501 AATCCGGGTTAAGTC
63 AATCCGGGTTAAGTC
* *
69178516 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGTTATTAA
1 CCGAAGGCATT-GTGCGAGTTA-TAAATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGATACTAA
69178581 ATCCGGGTTAAGTC
64 ATCCGGGTTAAGTC
* * * *
69178595 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 CCGAAGGCATTGTGCGAGTTA-TAAATCCGGGTTAAGT-CCGAAGGCATT
69178645 TGAACGAGGA
Statistics
Matches: 113, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
78 22 0.19
79 60 0.53
80 29 0.26
81 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (77 bp):
CCGAAGGCATTGTGCGAGTTATAAATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGATACTAAAT
CCGGGTTAAGTC
Found at i:69178664 original size:79 final size:79
Alignment explanation
Indices: 69178497--69178679 Score: 219
Period size: 79 Copynumber: 2.3 Consensus size: 79
69178487 TGTGCGAGAT
* * *
69178497 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCGAAGG
** *
69178562 CATTCGTGCGAGTT
66 CATTCGAACGAGTG
* * *
69178576 ATTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGT-CCGAAG
*
69178640 GCATTTGAACGAG-G
65 GCATTCGAACGAGTG
* *
69178654 AGCTATATCC-GGTTAAATCCCGAAGG
1 A-CTAAATCCGGGTTAAGTCCCGAAGG
69178680 TATGTGATTT
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 38 0.43
79 51 0.57
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (79 bp):
ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCGAAGG
CATTCGAACGAGTG
Found at i:69186210 original size:39 final size:40
Alignment explanation
Indices: 69185966--69186228 Score: 282
Period size: 40 Copynumber: 6.6 Consensus size: 40
69185956 TTGAATGCTG
* * * * * *
69185966 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
69186006 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA-A
* * * *
69186046 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
69186086 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
69186126 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
69186166 TCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
69186205 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
69186229 TGAACGAGGA
Statistics
Matches: 196, Mismatches: 22, Indels: 11
0.86 0.10 0.05
Matches are distributed among these distances:
39 35 0.18
40 151 0.77
41 10 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:69186248 original size:79 final size:80
Alignment explanation
Indices: 69185967--69186263 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
69185957 TGAATGCTGT
* ** * * * **
69185967 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * **
69186030 TGTGCGAGATAC-AAGTT
64 CGTGCGAGTTACTAA-AA
* * * * **
69186047 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
69186111 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * *
69186127 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
69186191 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
69186206 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
69186264 TATGTGATTT
Statistics
Matches: 184, Mismatches: 27, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
78 16 0.09
79 47 0.26
80 111 0.60
81 10 0.05
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:69190949 original size:21 final size:21
Alignment explanation
Indices: 69190925--69190964 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
69190915 TTGTATGTAA
69190925 TGTGAGTTATGTTGATGTGAT
1 TGTGAGTTATGTTGATGTGAT
69190946 TGTGAGTTATGTTGATGTG
1 TGTGAGTTATGTTGATGTG
69190965 CTTTACATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.47
Consensus pattern (21 bp):
TGTGAGTTATGTTGATGTGAT
Found at i:69194801 original size:46 final size:47
Alignment explanation
Indices: 69194592--69194861 Score: 175
Period size: 46 Copynumber: 5.7 Consensus size: 47
69194582 GGGGTAAGTT
* * **
69194592 GCCGATGCCATGTCCC-GAACATGGTCTTACACTGGCTA-TCATCATTGAG
1 GCCGATGCCATGTCCCAG-ACAT-GTCTTACACTAGC-ACTCGTC-TCAAG
* * * *
69194641 GCCGATGCCATGTCCCAGACAAGGTCTTACACTAGCTCTCGCATATC-CG
1 GCCGATGCCATGTCCCAGAC-ATGTCTTACACTAGCACTCG--TCTCAAG
* * *
69194690 CGCCAATGCCATGTCCTAGACATGGTCTTACACTTA-CA--CATCTCATA-
1 -GCCGATGCCATGTCCCAGACAT-GTCTTACAC-TAGCACTCGTCTCA-AG
* * * * *
69194737 GCCAAT-ACATGTCTCAGACATGTCTTACATTAGCTTA-T-GTCTCGAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGC--ACTCGTCTCAAG
* *
69194783 GTCGATG-CATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAG
69194829 GCCGATGCCATGTCCCAGACATGGTCTTACACT
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACT
69194862 GGCTCACACC
Statistics
Matches: 174, Mismatches: 27, Indels: 41
0.72 0.11 0.17
Matches are distributed among these distances:
43 2 0.01
44 10 0.06
45 14 0.08
46 55 0.32
47 14 0.08
48 11 0.06
49 34 0.20
50 31 0.18
51 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAG
Found at i:69205323 original size:18 final size:18
Alignment explanation
Indices: 69205292--69205326 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
69205282 ACTTAGGCAG
* *
69205292 TTTCTTCTTTCCCTTAGC
1 TTTCTGCTTCCCCTTAGC
69205310 TTTCTGCTTCCCCTTAG
1 TTTCTGCTTCCCCTTAG
69205327 AGGACGAAGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.06, C:0.34, G:0.09, T:0.51
Consensus pattern (18 bp):
TTTCTGCTTCCCCTTAGC
Found at i:69217784 original size:56 final size:56
Alignment explanation
Indices: 69217724--69217838 Score: 230
Period size: 56 Copynumber: 2.1 Consensus size: 56
69217714 AACATTTTTC
69217724 TCTCTTATGGTAGCCCACATTATCCATTATTTTCTCATTTCTACCACACATTTACA
1 TCTCTTATGGTAGCCCACATTATCCATTATTTTCTCATTTCTACCACACATTTACA
69217780 TCTCTTATGGTAGCCCACATTATCCATTATTTTCTCATTTCTACCACACATTTACA
1 TCTCTTATGGTAGCCCACATTATCCATTATTTTCTCATTTCTACCACACATTTACA
69217836 TCT
1 TCT
69217839 TTTGTAAAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.24, C:0.29, G:0.05, T:0.42
Consensus pattern (56 bp):
TCTCTTATGGTAGCCCACATTATCCATTATTTTCTCATTTCTACCACACATTTACA
Found at i:69221238 original size:24 final size:24
Alignment explanation
Indices: 69221206--69221254 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
69221196 AATAAGTTAG
69221206 ATTGGAAGGGGAGGGGAGAACGAT
1 ATTGGAAGGGGAGGGGAGAACGAT
69221230 ATTGGAAGGGGAGGGGAGAACGAT
1 ATTGGAAGGGGAGGGGAGAACGAT
69221254 A
1 A
69221255 AGAAGGTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.49, T:0.12
Consensus pattern (24 bp):
ATTGGAAGGGGAGGGGAGAACGAT
Found at i:69223309 original size:40 final size:40
Alignment explanation
Indices: 69223239--69223405 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
69223229 CGGGGTTTAG
** * *
69223239 CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAAC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * *
69223278 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * **
69223318 CCGGATATAGTCGCTAGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
69223358 CCGGATGTAGTGC-TTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAGT-CACTAGCACAAATGCCTTCGGGTCTTAAC
*
69223398 CCTGATAT
1 CCGGATAT
69223406 CATTCGAGTA
Statistics
Matches: 104, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
39 15 0.14
40 88 0.85
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:69224636 original size:38 final size:38
Alignment explanation
Indices: 69224594--69224669 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
69224584 CAAGAACTCC
* *
69224594 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAACTGTCGGCCAAAAGAAATGAA
69224632 TTCCTCCTTCCTTAGAACTGTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAACTGTCGGCCAAAAGAAATGAA
69224670 AAAGGATGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAACTGTCGGCCAAAAGAAATGAA
Found at i:69230427 original size:13 final size:11
Alignment explanation
Indices: 69230403--69230453 Score: 66
Period size: 13 Copynumber: 4.3 Consensus size: 11
69230393 ATCTAACCAT
69230403 TTAATAAATTA
1 TTAATAAATTA
69230414 TTAATATAATTTA
1 TTAATA-AA-TTA
69230427 TTAATAAATTA
1 TTAATAAATTA
69230438 TTAATACAAATTA
1 TTAAT--AAATTA
69230451 TTA
1 TTA
69230454 TTTTAATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
11 14 0.39
12 4 0.11
13 18 0.50
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (11 bp):
TTAATAAATTA
Found at i:69230435 original size:24 final size:24
Alignment explanation
Indices: 69230403--69230453 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
69230393 ATCTAACCAT
* *
69230403 TTAATAAATTATTAATATAATTTA
1 TTAATAAATTATTAATACAAATTA
69230427 TTAATAAATTATTAATACAAATTA
1 TTAATAAATTATTAATACAAATTA
69230451 TTA
1 TTA
69230454 TTTTAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
TTAATAAATTATTAATACAAATTA
Found at i:69230570 original size:15 final size:15
Alignment explanation
Indices: 69230550--69230606 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
69230540 ATTCAATATT
69230550 AATATTTTAATAATA
1 AATATTTTAATAATA
*
69230565 AATATTTATCTCAATTATA
1 AATA-TT-T-T-AATAATA
*
69230584 AATATATTAATAATA
1 AATATTTTAATAATA
*
69230599 AATGTTTT
1 AATATTTT
69230607 GTAGTATGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 3 0.09
17 2 0.06
18 2 0.06
19 10 0.30
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:69238120 original size:40 final size:40
Alignment explanation
Indices: 69238075--69238237 Score: 240
Period size: 40 Copynumber: 4.1 Consensus size: 40
69238065 CTAAGATCCA
*
69238075 AAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCG
1 AAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCCG
*
69238115 AAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCG
1 AAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCCG
* *
69238155 AAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCTG
1 AAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCCG
* * *
69238195 AAGGCATTTGTGCGAGTTG-TTATATCC-GGCTAAATCTCG
1 AAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAGTCCCG
69238234 AAGG
1 AAGG
69238238 TACTTGGGTT
Statistics
Matches: 114, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
39 13 0.11
40 100 0.88
41 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
AAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCCG
Found at i:69246075 original size:40 final size:40
Alignment explanation
Indices: 69246027--69246232 Score: 342
Period size: 40 Copynumber: 5.2 Consensus size: 40
69246017 GGACTAAGAT
* *
69246027 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
69246067 CCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
69246107 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
69246147 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
** *
69246187 CCGAAGGCATTTGTGCGAGTTGTTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
69246226 TCGAAGG
1 CCGAAGG
69246233 TACTTGGGTT
Statistics
Matches: 158, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
39 14 0.09
40 144 0.91
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:69254213 original size:17 final size:16
Alignment explanation
Indices: 69254182--69254215 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
69254172 AAATATTATG
69254182 AAATAAAAACAAACAA
1 AAATAAAAACAAACAA
*
69254198 AAATAAACATCAAACAA
1 AAATAAA-AACAAACAA
69254215 A
1 A
69254216 TGCCATCCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.76, C:0.15, G:0.00, T:0.09
Consensus pattern (16 bp):
AAATAAAAACAAACAA
Found at i:69255927 original size:18 final size:17
Alignment explanation
Indices: 69255897--69255943 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
69255887 CATCTAAACA
69255897 TTAAAAAATATTATATTT
1 TTAAAAAATATTAT-TTT
69255915 TCTAAAAAA-ATTATTTT
1 T-TAAAAAATATTATTTT
*
69255932 TTAAAAATTATT
1 TTAAAAAATATT
69255944 TTTCAGAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 6 0.23
17 7 0.27
18 6 0.23
19 7 0.27
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAAAAAATATTATTTT
Found at i:69255939 original size:14 final size:14
Alignment explanation
Indices: 69255920--69255960 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
69255910 TATTTTCTAA
*
69255920 AAAAATTATTTTTT
1 AAAAATTATTTTTC
69255934 AAAAATTATTTTTC
1 AAAAATTATTTTTC
* *
69255948 AGAAACTATTTTT
1 AAAAATTATTTTT
69255961 AATTAAACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.51
Consensus pattern (14 bp):
AAAAATTATTTTTC
Found at i:69257702 original size:28 final size:28
Alignment explanation
Indices: 69257636--69257705 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 28
69257626 TATCATGAAC
*
69257636 ATAATATTATAAAAATTATTAAGAATAGTA
1 ATAA-ATTAT-AAAATTATTAAGAATACTA
* *
69257666 A-AAAATATAAAATTATTAA-AGATTCTA
1 ATAAATTATAAAATTATTAAGA-ATACTA
69257693 ATAAATTATAAAA
1 ATAAATTATAAAA
69257706 ATTAATAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
26 1 0.03
27 16 0.47
28 14 0.41
29 2 0.06
30 1 0.03
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.34
Consensus pattern (28 bp):
ATAAATTATAAAATTATTAAGAATACTA
Found at i:69271040 original size:43 final size:44
Alignment explanation
Indices: 69270992--69271139 Score: 167
Period size: 43 Copynumber: 3.4 Consensus size: 44
69270982 TGCCGAGATG
* * * *
69270992 TGATTACATGGAAGACCATGTCTGGGACATTGGAATTGTAT-TA
1 TGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTATATA
** *
69271035 TGATTATGTGTAAGACTATGTCTAGGACATTGGCATCGT-TATA
1 TGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTATATA
* * * *
69271078 TGATTTCGTGTAAGACCATCTCTAGGACATTGGCATCG-ATATG
1 TGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTATATA
*
69271121 TGATAACATGTAAGACCAT
1 TGATTACATGTAAGACCAT
69271140 ATCTGGGATA
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
42 1 0.01
43 87 0.99
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (44 bp):
TGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTATATA
Found at i:69281418 original size:136 final size:136
Alignment explanation
Indices: 69281174--69281447 Score: 514
Period size: 136 Copynumber: 2.0 Consensus size: 136
69281164 ATCAGATTAG
69281174 TCACAAATTTTAGCCTATAAATAGGGCTTTTAGCAATCCTAGAGAAATAGATTCAACAACATAAT
1 TCACAAATTTTAGCCTATAAATAGGGCTTTTAGCAATCCTAGAGAAATAGATTCAACAACATAAT
*
69281239 TAAGAGAGAATTTGTGAGAATTTCGAGAGAACTTTGTATTTTTGGGTTTAT-TTTGTGTGTTTAT
66 TAAGAGAGAATTTGTGAGAATTTCGACAGAACTTTGTATTTTTGGGTTT-TGTTTGTGTGTTTAT
69281303 CTTATAC
130 CTTATAC
69281310 TCACAAATTTTAGCCTATAAATAGGGCTTTTAGCAATCCTAGAGAAATAGATTCAACAACATAAT
1 TCACAAATTTTAGCCTATAAATAGGGCTTTTAGCAATCCTAGAGAAATAGATTCAACAACATAAT
*
69281375 TAAGAGAGAATTTGTGAGAATTTCGACAGAACTTTGTATTTTTGGGTTTTGTTTGTTTGTTTATC
66 TAAGAGAGAATTTGTGAGAATTTCGACAGAACTTTGTATTTTTGGGTTTTGTTTGTGTGTTTATC
69281440 TTATAC
131 TTATAC
69281446 TC
1 TC
69281448 TTCTTTTGGT
Statistics
Matches: 135, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
135 1 0.01
136 134 0.99
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (136 bp):
TCACAAATTTTAGCCTATAAATAGGGCTTTTAGCAATCCTAGAGAAATAGATTCAACAACATAAT
TAAGAGAGAATTTGTGAGAATTTCGACAGAACTTTGTATTTTTGGGTTTTGTTTGTGTGTTTATC
TTATAC
Found at i:69284621 original size:34 final size:35
Alignment explanation
Indices: 69284560--69284627 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
69284550 AAATTACATG
*
69284560 TTATTTTTTAAATTTTAATTCATAAAATATTTAAT
1 TTATTTTTTAAATTTTAACTCATAAAATATTTAAT
69284595 TTATTTTTTAAATTTTAAACT-A-AAAATATTTAA
1 TTATTTTTTAAATTTT-AACTCATAAAATATTTAA
69284628 AATTCAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
34 11 0.35
35 17 0.55
36 3 0.10
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (35 bp):
TTATTTTTTAAATTTTAACTCATAAAATATTTAAT
Found at i:69286834 original size:24 final size:25
Alignment explanation
Indices: 69286792--69286843 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
69286782 AGTTTTGACC
* *
69286792 TTTGACTATTGGGTAAATTTTA-AA
1 TTTGAATATTGGGTAAATTATATAA
69286816 TTTGAATATT-GGTATAATTATATAA
1 TTTGAATATTGGGTA-AATTATATAA
69286841 TTT
1 TTT
69286844 TTAAAATAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 4 0.17
24 15 0.62
25 5 0.21
ACGTcount: A:0.35, C:0.02, G:0.13, T:0.50
Consensus pattern (25 bp):
TTTGAATATTGGGTAAATTATATAA
Found at i:69287244 original size:24 final size:24
Alignment explanation
Indices: 69287212--69287261 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
69287202 TTTTGGAGTA
69287212 AATTTAAAATATTTTAAAACAAAT
1 AATTTAAAATATTTTAAAACAAAT
69287236 AATTTAAAATATTTTAAAACAAAT
1 AATTTAAAATATTTTAAAACAAAT
69287260 AA
1 AA
69287262 ATTCATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (24 bp):
AATTTAAAATATTTTAAAACAAAT
Found at i:69288975 original size:137 final size:137
Alignment explanation
Indices: 69288739--69288990 Score: 360
Period size: 137 Copynumber: 1.8 Consensus size: 137
69288729 TCGGGTGTTA
* *
69288739 GTCCTGAATGTCCTACTGAAGGGTAAGTTCCAACATTTGTTACGGATACTCGTTAGCTTGTATGA
1 GTCCTGAATGTCCTACTGAAGGCTAAGTTCCAACATTTGTTACGGATACTCGTCAGCTTGTATGA
* * * *
69288804 GCAGCATCATGTAGCTACATTCTGACCGTTAGCTTGTGTGAGTAGACCCAAGTTACCATGTTCAG
66 GCAGCATCATGTAGCTACATTCTGACCATCAGCTTGTGTAAGCAGACCCAAGTTACCATGTTCAG
69288869 GGTACTG
131 GGTACTG
* * * * * ** *
69288876 GTCCTGAATGTCCTATTGATGGCTGAGTTCCGATATTTGTTGTGGATACTCGTCAGCTTGTGTGA
1 GTCCTGAATGTCCTACTGAAGGCTAAGTTCCAACATTTGTTACGGATACTCGTCAGCTTGTATGA
* *
69288941 GCGGCATCGTGTAGCTACATTCTGACCATCAGCTTGTGTAAGCAGACCCA
66 GCAGCATCATGTAGCTACATTCTGACCATCAGCTTGTGTAAGCAGACCCA
69288991 TTTGTGGCTT
Statistics
Matches: 99, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
137 99 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (137 bp):
GTCCTGAATGTCCTACTGAAGGCTAAGTTCCAACATTTGTTACGGATACTCGTCAGCTTGTATGA
GCAGCATCATGTAGCTACATTCTGACCATCAGCTTGTGTAAGCAGACCCAAGTTACCATGTTCAG
GGTACTG
Found at i:69290563 original size:47 final size:48
Alignment explanation
Indices: 69290491--69290622 Score: 185
Period size: 47 Copynumber: 2.8 Consensus size: 48
69290481 CTCAATCGAT
* * * *
69290491 AAGTACTTATACCATGGCTCGTAGCCAAATCAAGGTAACTTATC-CTG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCTA
* * *
69290538 GAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCCTCTCTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCTA
*
69290586 AAATACCTATACCATGGCCCGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
69290623 TCATTCGCAC
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
47 38 0.51
48 36 0.49
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.23
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCTA
Found at i:69290611 original size:48 final size:47
Alignment explanation
Indices: 69290498--69290622 Score: 178
Period size: 48 Copynumber: 2.6 Consensus size: 47
69290488 GATAAGTACT
* * ** *
69290498 TATACCATGGCTCGTAGCCAAATCAAGGTAACTTATCCTGGAGTACC
1 TATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCTAAAATACC
* *
69290545 TATACCATGGCCCATAGCCAAATCAAGGTAACTCCTCTCTAAAATACC
1 TATACCATGGCCCGTAGCCAAATCAAGGTAACTCATC-CTAAAATACC
69290593 TATACCATGGCCCGTAGCCAAATCAAGGTA
1 TATACCATGGCCCGTAGCCAAATCAAGGTA
69290623 TCATTCGCAC
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
47 33 0.48
48 36 0.52
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (47 bp):
TATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCTAAAATACC
Found at i:69293473 original size:20 final size:20
Alignment explanation
Indices: 69293448--69293494 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
69293438 CGGGCGAGGG
69293448 ACACGGGTGTGTCCCTAAGC
1 ACACGGGTGTGTCCCTAAGC
69293468 ACACGGGTGTGTCCCTAAGC
1 ACACGGGTGTGTCCCTAAGC
69293488 ACACGGG
1 ACACGGG
69293495 CGTATGCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.21, C:0.30, G:0.32, T:0.17
Consensus pattern (20 bp):
ACACGGGTGTGTCCCTAAGC
Found at i:69295564 original size:12 final size:12
Alignment explanation
Indices: 69295547--69295572 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
69295537 TCAGGCAGTT
69295547 ACACGGCCTGGC
1 ACACGGCCTGGC
69295559 ACACGGCCTGGC
1 ACACGGCCTGGC
69295571 AC
1 AC
69295573 GTGGGCGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.42, G:0.31, T:0.08
Consensus pattern (12 bp):
ACACGGCCTGGC
Found at i:69298970 original size:25 final size:26
Alignment explanation
Indices: 69298935--69298985 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
69298925 CTAACAAAAA
*
69298935 GAAGTCTTTGGTTTTT-GGGTTGTCT
1 GAAGTCGTTGGTTTTTAGGGTTGTCT
69298960 GAAGTCGTTGGTTTTTAGGGTTGTCT
1 GAAGTCGTTGGTTTTTAGGGTTGTCT
69298986 AAATTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.10, C:0.08, G:0.33, T:0.49
Consensus pattern (26 bp):
GAAGTCGTTGGTTTTTAGGGTTGTCT
Found at i:69302730 original size:31 final size:31
Alignment explanation
Indices: 69302695--69302756 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
69302685 AAAGAAGTAA
69302695 AACATATCAATATGCATTGGCCTTGCACATG
1 AACATATCAATATGCATTGGCCTTGCACATG
69302726 AACATATCAATATGCATTGGCCTTGCACATG
1 AACATATCAATATGCATTGGCCTTGCACATG
69302757 GCATTTATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (31 bp):
AACATATCAATATGCATTGGCCTTGCACATG
Found at i:69308595 original size:27 final size:27
Alignment explanation
Indices: 69308548--69308601 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
69308538 GATGTGAAAG
*
69308548 AATGAGTTGCTTGCATACATGTATATT
1 AATGAGTTGCTTGCACACATGTATATT
*
69308575 AATGAGTTGCTTGCACGCATGTATATT
1 AATGAGTTGCTTGCACACATGTATATT
69308602 GGATGTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (27 bp):
AATGAGTTGCTTGCACACATGTATATT
Found at i:69310626 original size:73 final size:73
Alignment explanation
Indices: 69310549--69310703 Score: 159
Period size: 73 Copynumber: 2.1 Consensus size: 73
69310539 ATCTATCGAT
* * * * * *
69310549 TCTATAGAACAACACCGTGACGATAGTTATCGAT-TGGCTCACTATAGTGGTACCATGACAATGG
1 TCTATAGAACAACACCGTGACAACAGTTATAG-TCTGGCTCACTAGAGTGATACCATAACAATGG
* *
69310613 TTTATTGAC
65 TCTATTAAC
* *** * * *
69310622 TCTATGGAGTGACACTGTGACAACGGTTATAGTCTGGCTCACTAGAGTGATACCGTAACAATGGT
1 TCTATAGAACAACACCGTGACAACAGTTATAGTCTGGCTCACTAGAGTGATACCATAACAATGGT
69310687 CTATTAAC
66 CTATTAAC
69310695 TCTATAGAA
1 TCTATAGAA
69310704 TGACACCACG
Statistics
Matches: 64, Mismatches: 17, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
72 1 0.02
73 63 0.98
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (73 bp):
TCTATAGAACAACACCGTGACAACAGTTATAGTCTGGCTCACTAGAGTGATACCATAACAATGGT
CTATTAAC
Found at i:69315207 original size:160 final size:160
Alignment explanation
Indices: 69314943--69315262 Score: 572
Period size: 160 Copynumber: 2.0 Consensus size: 160
69314933 CATTTCAGCA
*
69314943 CTACTTTCCATCCGTAAATTAATGGCCAGTCCGAACGAGTCATTTAGATACTTGAGGATATGTTG
1 CTACTTTCCATCCGTAAATCAATGGCCAGTCCGAACGAGTCATTTAGATACTTGAGGATATGTTG
69315008 AGATGTTGCATTCTAGAGATCAAAGGTACGCAGGAACTATACTTATCTTTGATTGAATTTGCATA
66 AGATGTTGCATTCTAGAGATCAAAGGTACGCAGGAACTATACTTATCTTTGATTGAATTTGCATA
69315073 CAATAATAGCTTTCAATCGAGTATCAAAAT
131 CAATAATAGCTTTCAATCGAGTATCAAAAT
*
69315103 CTACTTTCCATCCGTAAA-CAGATGGCCAGTCTGAACGAGTCATTTAGATACTTGAGGATATGTT
1 CTACTTTCCATCCGTAAATCA-ATGGCCAGTCCGAACGAGTCATTTAGATACTTGAGGATATGTT
* *
69315167 GAGATGTTGCATTCTCGAGATCGAAGGTACGC-GAGAACTATACTTATCTTTGATTGAATTTGCA
65 GAGATGTTGCATTCTAGAGATCAAAGGTACGCAG-GAACTATACTTATCTTTGATTGAATTTGCA
69315231 TACAATAATAGCTTTCAATCGAGTATCAAAAT
129 TACAATAATAGCTTTCAATCGAGTATCAAAAT
69315263 GGCACCTTAC
Statistics
Matches: 154, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
159 2 0.01
160 152 0.99
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (160 bp):
CTACTTTCCATCCGTAAATCAATGGCCAGTCCGAACGAGTCATTTAGATACTTGAGGATATGTTG
AGATGTTGCATTCTAGAGATCAAAGGTACGCAGGAACTATACTTATCTTTGATTGAATTTGCATA
CAATAATAGCTTTCAATCGAGTATCAAAAT
Found at i:69315571 original size:22 final size:22
Alignment explanation
Indices: 69315546--69315590 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
69315536 TTCGAGATAT
69315546 ATTGGGCCCTATGAAATTATAG
1 ATTGGGCCCTATGAAATTATAG
69315568 ATTGGGCCCTATGAAATTATAG
1 ATTGGGCCCTATGAAATTATAG
69315590 A
1 A
69315591 GCGTATCGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.31
Consensus pattern (22 bp):
ATTGGGCCCTATGAAATTATAG
Found at i:69317205 original size:43 final size:44
Alignment explanation
Indices: 69317158--69317311 Score: 135
Period size: 43 Copynumber: 3.6 Consensus size: 44
69317148 GTATTCTCGA
69317158 GTAAGACCACGTCTGGGACGTTGGCATCGATATGTGGTTACGA-
1 GTAAGACCACGTCTGGGACGTTGGCATCGATATGTGGTTACGAT
* * * * * *
69317201 GTAAGACCATGTTTGGGACATCGGCATCG-TATTTGATT-C-AT
1 GTAAGACCACGTCTGGGACGTTGGCATCGATATGTGGTTACGAT
* * * *
69317242 GGAAGACC-CTGTCTGGGATAG-TGGCATCGATATG-AGATA-GCAT
1 GTAAGACCAC-GTCTGGGA-CGTTGGCATCGATATGTGGTTACG-AT
69317285 GTAAGACCACGTCTGGGACGTTGGCAT
1 GTAAGACCACGTCTGGGACGTTGGCAT
69317312 TATTCGATAT
Statistics
Matches: 84, Mismatches: 18, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
40 1 0.01
41 23 0.27
42 11 0.13
43 48 0.57
44 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.27
Consensus pattern (44 bp):
GTAAGACCACGTCTGGGACGTTGGCATCGATATGTGGTTACGAT
Found at i:69331082 original size:16 final size:15
Alignment explanation
Indices: 69331057--69331087 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
69331047 AAAATCTGTG
69331057 TTTTCTTTATTTTTA
1 TTTTCTTTATTTTTA
69331072 TTTTACTTTATTTTTA
1 TTTT-CTTTATTTTTA
69331088 CAATTTGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTCTTTATTTTTA
Found at i:69334270 original size:16 final size:17
Alignment explanation
Indices: 69334221--69334273 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 17
69334211 GATAAATAAC
*
69334221 TTAAAAATAGATATATT
1 TTAAAAATAGATTTATT
*
69334238 TTAAATTAATTATATTTATT
1 TTAAA--AA-TAGATTTATT
69334258 TTAAAAATA-ATTTATT
1 TTAAAAATAGATTTATT
69334274 ATATAAACTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
16 7 0.23
17 7 0.23
18 2 0.06
19 2 0.06
20 13 0.42
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
TTAAAAATAGATTTATT
Found at i:69334273 original size:20 final size:20
Alignment explanation
Indices: 69334234--69334273 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
69334224 AAAATAGATA
*
69334234 TATTTTAAATTAATTATATT
1 TATTTTAAAATAATTATATT
69334254 TATTTTAAAAATAATT-TATT
1 TATTTT-AAAATAATTATATT
69334274 ATATAAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTTTAAAATAATTATATT
Found at i:69336853 original size:47 final size:47
Alignment explanation
Indices: 69336790--69336894 Score: 183
Period size: 47 Copynumber: 2.2 Consensus size: 47
69336780 CCCTTCGGGA
* *
69336790 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
69336837 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
*
69336884 CTTACCACATA
1 CTTATCACATA
69336895 ATTAATACTA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:69343581 original size:42 final size:43
Alignment explanation
Indices: 69343467--69343624 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 43
69343457 GTACAATGCT
** * * *
69343467 ATATCCCAGTTATGGTCTTACATGTTATCAAATATTGATGCCA
1 ATATCCCAGACATGGTCTTACACGTAATCAAATAATGATGCCA
* * * *
69343510 ATAGCCTAG-CTATGGTCTTACACGAAATCAAATAACGATGCCA
1 ATATCCCAGAC-ATGGTCTTACACGTAATCAAATAATGATGCCA
*
69343553 AT-TCCCAGACATGGTCTTACACGTAATCACATAATGATGCCA
1 ATATCCCAGACATGGTCTTACACGTAATCAAATAATGATGCCA
* * * *
69343595 ATGTCCCAAACATGGTCTAACACATAATCA
1 ATATCCCAGACATGGTCTTACACGTAATCA
69343625 CATTTCGTTA
Statistics
Matches: 96, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 35 0.36
43 61 0.64
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (43 bp):
ATATCCCAGACATGGTCTTACACGTAATCAAATAATGATGCCA
Found at i:69343625 original size:43 final size:42
Alignment explanation
Indices: 69343521--69343627 Score: 144
Period size: 42 Copynumber: 2.5 Consensus size: 42
69343511 TAGCCTAGCT
* *
69343521 ATGGTCTTACACGA-AATCAAATAACGATGCCAATTCCCAGAC
1 ATGGTCTTACAC-ATAATCACATAACGATGCCAATTCCCAAAC
* *
69343563 ATGGTCTTACACGTAATCACATAATGATGCCAATGTCCCAAAC
1 ATGGTCTTACACATAATCACATAACGATGCCAAT-TCCCAAAC
*
69343606 ATGGTCTAACACATAATCACAT
1 ATGGTCTTACACATAATCACAT
69343628 TTCGTTAATC
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
42 30 0.53
43 27 0.47
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.24
Consensus pattern (42 bp):
ATGGTCTTACACATAATCACATAACGATGCCAATTCCCAAAC
Found at i:69362575 original size:42 final size:42
Alignment explanation
Indices: 69362527--69362623 Score: 149
Period size: 42 Copynumber: 2.3 Consensus size: 42
69362517 ACGACCGGCT
*
69362527 ACACGCCCATGTGCTAGCCCGTGTGTCACACACGGCCAGTAG
1 ACACGCCCATGTGCTAGCCCGTGTGTCACACACGGCCAATAG
* *
69362569 ACACGCCTACGTGCTAGCCCGTGTGTCACACACGGCCAATAG
1 ACACGCCCATGTGCTAGCCCGTGTGTCACACACGGCCAATAG
* *
69362611 ACATGCCCGTGTG
1 ACACGCCCATGTG
69362624 TCTAAGGCCT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.22, C:0.35, G:0.26, T:0.18
Consensus pattern (42 bp):
ACACGCCCATGTGCTAGCCCGTGTGTCACACACGGCCAATAG
Found at i:69370847 original size:19 final size:20
Alignment explanation
Indices: 69370823--69370860 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
69370813 GGTACCACCA
69370823 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
69370842 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
69370861 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:69371208 original size:93 final size:93
Alignment explanation
Indices: 69371090--69371260 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
69371080 GCCCCTAAGT
* * *
69371090 GAACTCAGACTCAACTCAATGAGTTCGGGCGTTCACATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGTTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
*
69371155 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* * *
69371183 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGTTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
69371248 CGAGCTCGGATGC
66 CGAGCTCGGATGC
69371261 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGTTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:69371257 original size:46 final size:46
Alignment explanation
Indices: 69371085--69371257 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
69371075 AACCCGCCCC
* * * *
69371085 TAAGTGAACTCAGACTCAACTCAATGAGTTCGGGCGTTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
*
69371131 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACATCCA
* * *
69371179 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
*
69371224 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
69371258 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 58 0.54
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
Found at i:69374023 original size:28 final size:28
Alignment explanation
Indices: 69373992--69374049 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
69373982 ATGTGTTGGT
69373992 AAATGTTGAACTAGATATGGATGTTTGA
1 AAATGTTGAACTAGATATGGATGTTTGA
69374020 AAATGTTGAACTAGATATGGATGTTTGA
1 AAATGTTGAACTAGATATGGATGTTTGA
69374048 AA
1 AA
69374050 TTTATTAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.34
Consensus pattern (28 bp):
AAATGTTGAACTAGATATGGATGTTTGA
Found at i:69379409 original size:19 final size:19
Alignment explanation
Indices: 69379385--69379425 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
69379375 AATGAGATTA
69379385 GATGTAAGACCATATTTGG
1 GATGTAAGACCATATTTGG
69379404 GATGTAAGACCATATTTGG
1 GATGTAAGACCATATTTGG
69379423 GAT
1 GAT
69379426 ATGAAATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.10, G:0.27, T:0.32
Consensus pattern (19 bp):
GATGTAAGACCATATTTGG
Found at i:69379494 original size:42 final size:42
Alignment explanation
Indices: 69379405--69379555 Score: 131
Period size: 42 Copynumber: 3.6 Consensus size: 42
69379395 CATATTTGGG
* ** * ** *
69379405 ATGTAAGACCATATTTGGGATATGAAATCAATATGAGACTAC
1 ATGTAAGACCATATATGGGATATGGCATCGATACAAGATTAC
* * * * *
69379447 GTGTAAGACTATATATGGGATATGGCGTCGATATAAGATTTC
1 ATGTAAGACCATATATGGGATATGGCATCGATACAAGATTAC
** * * *
69379489 ATGTAAGACCATAGCTGGGCTATTGGTATCGATACGAGATTAC
1 ATGTAAGACCATATATGGGATA-TGGCATCGATACAAGATTAC
*
69379532 ATGTAAGACCATATTTGGGATATG
1 ATGTAAGACCATATATGGGATATG
69379556 ACATTGGTAT
Statistics
Matches: 85, Mismatches: 23, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
42 51 0.60
43 34 0.40
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (42 bp):
ATGTAAGACCATATATGGGATATGGCATCGATACAAGATTAC
Found at i:69383240 original size:42 final size:42
Alignment explanation
Indices: 69383181--69383281 Score: 168
Period size: 42 Copynumber: 2.4 Consensus size: 42
69383171 TTGCAAATAC
*
69383181 TCCACAGCTCATGTGAGCAGCATCGTGTAGCTTAGATT-TCGA
1 TCCACAGCTCATGTGAGCAGCATCGTGTAGCTTACATTCT-GA
69383223 TCCACAGCTCATGTGAGCAGCATCGTGTAGCTTACATTCTGA
1 TCCACAGCTCATGTGAGCAGCATCGTGTAGCTTACATTCTGA
*
69383265 TCCACAACTCATGTGAG
1 TCCACAGCTCATGTGAG
69383282 GAGGCCCATT
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
42 55 0.98
43 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.28
Consensus pattern (42 bp):
TCCACAGCTCATGTGAGCAGCATCGTGTAGCTTACATTCTGA
Found at i:69384951 original size:24 final size:24
Alignment explanation
Indices: 69384901--69384962 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
69384891 TTTACTGCAA
**
69384901 TATTGAGTGGCTTGACCCTAACAC
1 TATTGAGTGGCTTGACCAGAACAC
*
69384925 TATTGAGTGGCTTGTCCAGAA-AGC
1 TATTGAGTGGCTTGACCAGAACA-C
*
69384949 TATTGAATGGCTTG
1 TATTGAGTGGCTTG
69384963 GCCACAACGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 1 0.03
24 32 0.97
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (24 bp):
TATTGAGTGGCTTGACCAGAACAC
Found at i:69389749 original size:40 final size:40
Alignment explanation
Indices: 69389694--69389871 Score: 263
Period size: 40 Copynumber: 4.5 Consensus size: 40
69389684 CGGATGATAA
* *
69389694 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
69389734 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
69389774 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
**
69389814 CCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
69389854 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
69389872 TACTTGGTTT
Statistics
Matches: 129, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
39 17 0.13
40 111 0.86
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:69397890 original size:39 final size:40
Alignment explanation
Indices: 69397674--69397890 Score: 343
Period size: 40 Copynumber: 5.5 Consensus size: 40
69397664 CGGATGATAA
* *
69397674 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
69397714 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
69397753 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
69397793 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
69397833 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
**
69397873 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
69397891 TACTTGGTTT
Statistics
Matches: 169, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
39 51 0.30
40 118 0.70
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:69400646 original size:40 final size:39
Alignment explanation
Indices: 69400572--69400879 Score: 384
Period size: 40 Copynumber: 7.6 Consensus size: 39
69400562 AACCCAAGTA
* *
69400572 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTAGCACAAATG
* *
69400611 CCTCCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
*
69400651 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTA---GCACAAATG
*
69400694 CCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
* *
69400734 CCTTCGAGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTA---GCACAAATG
*
69400777 CCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
* * *
69400817 CCTTCGAGACTTAGCCCGGATATAGGAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATA-GCACTAGCACAAATG
69400857 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
69400880 CATCCGAATA
Statistics
Matches: 236, Mismatches: 20, Indels: 25
0.84 0.07 0.09
Matches are distributed among these distances:
39 13 0.06
40 148 0.63
41 2 0.01
43 71 0.30
44 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGCACTAGCACAAATG
Found at i:69400692 original size:83 final size:81
Alignment explanation
Indices: 69400572--69400879 Score: 469
Period size: 83 Copynumber: 3.8 Consensus size: 81
69400562 AACCCAAGTA
* * * *
69400572 CCTTCGGGATTTAG-CCGGATATAGC-AACTCGCACAAATGCCTCCGGGTCTTAGCCCGGATATA
1 CCTTCGAGACTTAGCCCGGATATAGCAAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
69400635 GTCACTAGCACAAATG
66 GTCACTAGCACAAATG
* * *
69400651 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGAGACTTAGCCCGGATATAGCAA--ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
69400716 TAGTCACTAGCACAAATG
64 TAGTCACTAGCACAAATG
* *
69400734 CCTTCGAGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGAGACTTAGCCCGGATATAGCAA--ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
69400799 TAGTCACTAGCACAAATG
64 TAGTCACTAGCACAAATG
*
69400817 CCTTCGAGACTTAGCCCGGATATAG-GAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGAGACTTAGCCCGGATATAGCAAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
69400880 CATCCGAATA
Statistics
Matches: 216, Mismatches: 9, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
79 13 0.06
80 45 0.21
81 1 0.00
82 1 0.00
83 156 0.72
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (81 bp):
CCTTCGAGACTTAGCCCGGATATAGCAAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
GTCACTAGCACAAATG
Found at i:69400812 original size:123 final size:120
Alignment explanation
Indices: 69400572--69400879 Score: 399
Period size: 123 Copynumber: 2.5 Consensus size: 120
69400562 AACCCAAGTA
* * *
69400572 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTCCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
69400636 TCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
65 TCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTA--CGCACAAATG
* * * *
69400694 CCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATGCCTTCGAGACTTAGCCCGGGTATAG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
69400759 -CAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATATAGTC-ACTA-GCACAAATG
65 TC-ACTA---GCACAAATGCCTTCGGGACTTAGCCCGGATATAG-CAACTACGCACAAATG
* *
69400817 CCTTCGAGACTTAGCCCGGATATAGGAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATA-GCACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
69400880 CATCCGAATA
Statistics
Matches: 163, Mismatches: 15, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
122 13 0.08
123 111 0.68
124 2 0.01
126 36 0.22
127 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (120 bp):
CCTTCGGGACTTAGCCCGGATATAGCACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTACGCACAAATG
Found at i:69407283 original size:22 final size:22
Alignment explanation
Indices: 69407236--69407285 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
69407226 ACGTTTTGCC
*
69407236 TTTTTTTTAACTTATCACTTTT
1 TTTTTTTTAACTTATAACTTTT
* *
69407258 TTTTTTTTAA-TTTTAAGTTTT
1 TTTTTTTTAACTTATAACTTTT
*
69407279 ATTTTTT
1 TTTTTTT
69407286 ATTTTTTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTTTTTAACTTATAACTTTT
Found at i:69413281 original size:114 final size:114
Alignment explanation
Indices: 69413076--69413310 Score: 461
Period size: 114 Copynumber: 2.1 Consensus size: 114
69413066 AAGAAAAAAA
69413076 AATTAAATTACTCAAAATGAAAAATATGGGGACCAATTGTATAATTTAACCTAAAAATTTGTTTG
1 AATT-AATTACTCAAAATGAAAAATATGGGGACCAATTGTATAATTTAACCTAAAAATTTGTTTG
69413141 AAATGATGATTTAACTTGTCACATCAGCTTACCGTTACACTGTTAATGAC
65 AAATGATGATTTAACTTGTCACATCAGCTTACCGTTACACTGTTAATGAC
69413191 AATTAATTACTCAAAATGAAAAATATGGGGACCAATTGTATAATTTAACCTAAAAATTTGTTTGA
1 AATTAATTACTCAAAATGAAAAATATGGGGACCAATTGTATAATTTAACCTAAAAATTTGTTTGA
69413256 AATGATGATTTAACTTGTCACATCAGCTTACCGTTACACTGTTAATGAC
66 AATGATGATTTAACTTGTCACATCAGCTTACCGTTACACTGTTAATGAC
69413305 AATTAA
1 AATTAA
69413311 CAACTCAATA
Statistics
Matches: 120, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
114 116 0.97
115 4 0.03
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.34
Consensus pattern (114 bp):
AATTAATTACTCAAAATGAAAAATATGGGGACCAATTGTATAATTTAACCTAAAAATTTGTTTGA
AATGATGATTTAACTTGTCACATCAGCTTACCGTTACACTGTTAATGAC
Found at i:69413876 original size:11 final size:11
Alignment explanation
Indices: 69413860--69413893 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
69413850 CACATCTAGT
69413860 TTTGTTCTTGA
1 TTTGTTCTTGA
69413871 TTTGTTCTTGA
1 TTTGTTCTTGA
*
69413882 TTTATTCTTGA
1 TTTGTTCTTGA
69413893 T
1 T
69413894 GATTTGACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.12, C:0.09, G:0.15, T:0.65
Consensus pattern (11 bp):
TTTGTTCTTGA
Found at i:69418454 original size:45 final size:45
Alignment explanation
Indices: 69418386--69418473 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
69418376 TATTGTACGG
*
69418386 TACTATTCGGGCCTTTGAACCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAACCTAGCAGGCTATAATGCCGGTGAGA
* *
69418431 TACTATTTGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
1 TACTATTCGGGCCTTTGAACCTAGCAGGCTATAATGCCGGTGA
69418474 AATGATATCG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAACCTAGCAGGCTATAATGCCGGTGAGA
Found at i:69423700 original size:53 final size:54
Alignment explanation
Indices: 69423643--69423839 Score: 200
Period size: 55 Copynumber: 3.6 Consensus size: 54
69423633 AACTTGCCAT
* * *
69423643 TGCCATGTATTGATATGGTCTTAGGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATAGAACTCACCAA
* * * * *
69423696 TGCCATGCCTTGGCATGGTCTTACGTGG-AACCTTTTCCTTATAGTAACTCATCAA
1 TGCCATGTCTTGACATGGTCTTACGTGGTATCC-TTGCCTTATAG-AACTCACCAA
* * * * **
69423751 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATTAA
1 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATAGAACTCACCAA
* * * *
69423805 TGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTT
69423840 ATCTTACCAA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
52 3 0.03
53 31 0.26
54 41 0.34
55 43 0.36
56 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (54 bp):
TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATAGAACTCACCAA
Found at i:69423756 original size:55 final size:53
Alignment explanation
Indices: 69423657--69423828 Score: 204
Period size: 55 Copynumber: 3.2 Consensus size: 53
69423647 ATGTATTGAT
* *
69423657 ATGGTCTTAGGTGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGGC
1 ATGGTCTTACGTGG-ATCCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGC
* * * *
69423710 ATGGTCTTACGTGGAACCTTTTCCTTATAGTAACTCATCAATGCCATGTCTTGAC
1 ATGGTCTTACGTGGATCC-TTGCCTTATAG-AACTCATCAATGCCATGCCTTGGC
* * *
69423765 ATGGTCTTACAT-GATTTCCTTGCCTTATAGAACTTATTAATGCCATGCCTTGGC
1 ATGGTCTTACGTGGA--TCCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGC
69423819 ATGGTCTTAC
1 ATGGTCTTAC
69423829 ATGATATCCT
Statistics
Matches: 101, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
52 3 0.03
53 21 0.21
54 33 0.33
55 42 0.42
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (53 bp):
ATGGTCTTACGTGGATCCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGC
Found at i:69423827 original size:54 final size:53
Alignment explanation
Indices: 69423673--69423839 Score: 203
Period size: 54 Copynumber: 3.1 Consensus size: 53
69423663 TTAGGTGGTA
* *
69423673 TCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTACGTGGA-
1 TCCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACAT-GAT
* * * *
69423725 ACCTTTTCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATT
1 TCC-TTGCCTTATAG-AACTCATCAATGCCATGCCTTGGCATGGTCTTACATGA-T
* *
69423781 TCCTTGCCTTATAGAACTTATTAATGCCATGCCTTGGCATGGTCTTACATGAT
1 TCCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAT
69423834 ATCCTT
1 -TCCTT
69423840 ATCTTACCAA
Statistics
Matches: 97, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
52 2 0.02
53 9 0.09
54 42 0.43
55 42 0.43
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (53 bp):
TCCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAT
Found at i:69424583 original size:20 final size:21
Alignment explanation
Indices: 69424558--69424598 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
69424548 TTTTGGTTTT
69424558 TCTCACGTTCTAGG-TCTAAA
1 TCTCACGTTCTAGGATCTAAA
* *
69424578 TCTCACTTTCTGGGATCTAAA
1 TCTCACGTTCTAGGATCTAAA
69424599 ACATCATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (21 bp):
TCTCACGTTCTAGGATCTAAA
Found at i:69429716 original size:51 final size:51
Alignment explanation
Indices: 69429652--69429784 Score: 140
Period size: 51 Copynumber: 2.6 Consensus size: 51
69429642 TGGAAACATG
*
69429652 ATCTTAAAAGATATGATATTATAATCTTAGAAATCTTAGATATGATATGGA
1 ATCTTAAAAGATATGATATTATAATCTTAGAAATCTTAGATAAGATATGGA
* * * ** * * ** *
69429703 ATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGTA
1 ATCTTAAAAGATATGATATTATAATCTTAGAAATCTTAGATAAGATATGGA
* * *
69429754 ATATTAGAAGATATGATATTATATTCTTAGA
1 ATCTTAAAAGATATGATATTATAATCTTAGA
69429785 GATTTGATGG
Statistics
Matches: 63, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.41, C:0.06, G:0.11, T:0.41
Consensus pattern (51 bp):
ATCTTAAAAGATATGATATTATAATCTTAGAAATCTTAGATAAGATATGGA
Found at i:69431632 original size:96 final size:96
Alignment explanation
Indices: 69431466--69431755 Score: 456
Period size: 96 Copynumber: 3.0 Consensus size: 96
69431456 GTGTCCGAGG
* * * * * *
69431466 AAGTCTGTTATCGATGGGAATGATTGAGCAGATACGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
*
69431531 AAAAGCCGAAGCCAAGAGGGTAAAGAGGAGC
66 TAAAGCCGAAGCCAAGAGGGTAAAGAGGAGC
69431562 AAGTCTGTCATCGAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
*
69431627 TAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
66 TAAAGCCGAAGCCAAGAGGGTAAAGAGGAGC
* *
69431658 AAGTCTGTCATCGCAGGGAACGATGGAGTAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
* *
69431723 TAAAGCTGAAACCAAGAGGGCT-AAGAGGAGC
66 TAAAGCCGAAGCCAAGAGGG-TAAAGAGGAGC
69431754 AA
1 AA
69431756 AAAGAAACGA
Statistics
Matches: 180, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
96 180 1.00
ACGTcount: A:0.35, C:0.17, G:0.34, T:0.13
Consensus pattern (96 bp):
AAGTCTGTCATCGAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
TAAAGCCGAAGCCAAGAGGGTAAAGAGGAGC
Found at i:69432726 original size:51 final size:51
Alignment explanation
Indices: 69432662--69432794 Score: 149
Period size: 51 Copynumber: 2.6 Consensus size: 51
69432652 TGGAAACATG
*
69432662 ATCTTAAAAGATATGATATTATAATCTTAGAAATCTTAGATATGATATGGA
1 ATCTTAAAAGATATGATATTATAATCTTAGAAATCTTAGATAAGATATGGA
* * * ** * * ** *
69432713 ATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGTA
1 ATCTTAAAAGATATGATATTATAATCTTAGAAATCTTAGATAAGATATGGA
* *
69432764 ATCTTAGAAGATATGATATTATATTCTTAGA
1 ATCTTAAAAGATATGATATTATAATCTTAGA
69432795 GATTTGATGG
Statistics
Matches: 64, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (51 bp):
ATCTTAAAAGATATGATATTATAATCTTAGAAATCTTAGATAAGATATGGA
Found at i:69434048 original size:17 final size:19
Alignment explanation
Indices: 69434015--69434049 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
69434005 ATTATTTGGA
69434015 TATTGTATAACTTTTGTTT
1 TATTGTATAACTTTTGTTT
69434034 TATTGT-TAA-TTTTGTT
1 TATTGTATAACTTTTGTT
69434050 ACTAATTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.20, C:0.03, G:0.11, T:0.66
Consensus pattern (19 bp):
TATTGTATAACTTTTGTTT
Found at i:69435160 original size:9 final size:9
Alignment explanation
Indices: 69435140--69435208 Score: 68
Period size: 9 Copynumber: 7.4 Consensus size: 9
69435130 TTCGTACGAC
69435140 TTTATAAAAT
1 TTTAT-AAAT
69435150 TTTATAAAT
1 TTTATAAAT
69435159 TTTATAAAT
1 TTTATAAAT
* *
69435168 TTTTTATAT
1 TTTATAAAT
*
69435177 TTCTATATA-
1 TT-TATAAAT
*
69435186 TTTATAATT
1 TTTATAAAT
69435195 TTTATAAAAT
1 TTTAT-AAAT
69435205 TTTA
1 TTTA
69435209 CAATTTTTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
8 4 0.08
9 29 0.58
10 17 0.34
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (9 bp):
TTTATAAAT
Found at i:69435213 original size:19 final size:19
Alignment explanation
Indices: 69435140--69435216 Score: 79
Period size: 19 Copynumber: 4.2 Consensus size: 19
69435130 TTCGTACGAC
*
69435140 TTTATAAAATTTTATAAAT
1 TTTATAAAATTTTATAATT
*
69435159 TTTAT-AAATTTTTTATATT
1 TTTATAAAATTTTATA-ATT
* *
69435178 TCTAT-ATA-TTTATAATT
1 TTTATAAAATTTTATAATT
*
69435195 TTTATAAAATTTTACAATT
1 TTTATAAAATTTTATAATT
69435214 TTT
1 TTT
69435217 TAATTTTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
17 7 0.15
18 16 0.34
19 24 0.51
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTATAAAATTTTATAATT
Found at i:69435217 original size:10 final size:9
Alignment explanation
Indices: 69435186--69435254 Score: 52
Period size: 10 Copynumber: 7.3 Consensus size: 9
69435176 TTTCTATATA
69435186 TTTATAATTT
1 TTTA-AATTT
*
69435196 TTATAAA-AT
1 TT-TAAATTT
69435205 TTTACAATTT
1 TTTA-AATTT
*
69435215 TTTAATTTT
1 TTTAAATTT
*
69435224 TTTACGATTT
1 TTTA-AATTT
69435234 TTT-AATTT
1 TTTAAATTT
69435242 TTTAATATTT
1 TTTAA-ATTT
69435252 TTT
1 TTT
69435255 TCTAATTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
8 9 0.19
9 14 0.30
10 22 0.47
11 2 0.04
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (9 bp):
TTTAAATTT
Found at i:69435221 original size:8 final size:8
Alignment explanation
Indices: 69435210--69435253 Score: 52
Period size: 8 Copynumber: 5.0 Consensus size: 8
69435200 AAAATTTTAC
69435210 AATTTTTT
1 AATTTTTT
69435218 AATTTTTTT
1 AA-TTTTTT
69435227 ACGATTTTTT
1 A--ATTTTTT
69435237 AATTTTTT
1 AATTTTTT
69435245 AATATTTTT
1 AAT-TTTTT
69435254 TTCTAATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 12 0.38
9 12 0.38
10 7 0.22
11 1 0.03
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (8 bp):
AATTTTTT
Found at i:69435226 original size:19 final size:19
Alignment explanation
Indices: 69435204--69435244 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
69435194 TTTTATAAAA
69435204 TTTTACAATTTTTTAATTT
1 TTTTACAATTTTTTAATTT
*
69435223 TTTTACGATTTTTTAATTT
1 TTTTACAATTTTTTAATTT
69435242 TTT
1 TTT
69435245 AATATTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTACAATTTTTTAATTT
Found at i:69435253 original size:19 final size:19
Alignment explanation
Indices: 69435212--69435271 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
69435202 AATTTTACAA
**
69435212 TTTTTTAATTTTTTTACGA-
1 TTTTTTAA-TTTTTTAATAT
69435231 TTTTTTAATTTTTTAATATT
1 TTTTTTAATTTTTTAATA-T
69435251 TTTTTCTAA-TTTTTAATAT
1 TTTTT-TAATTTTTTAATAT
69435270 TT
1 TT
69435272 GAATTTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
18 8 0.22
19 11 0.31
20 14 0.39
21 3 0.08
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTTTTAATTTTTTAATAT
Found at i:69435254 original size:20 final size:20
Alignment explanation
Indices: 69435231--69435271 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
69435221 TTTTTTACGA
69435231 TTTTT-TAATTTTTTAATATT
1 TTTTTCTAA-TTTTTAATATT
69435251 TTTTTCTAATTTTTAATATT
1 TTTTTCTAATTTTTAATATT
69435271 T
1 T
69435272 GAATTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTTCTAATTTTTAATATT
Found at i:69435271 original size:9 final size:9
Alignment explanation
Indices: 69435148--69435253 Score: 53
Period size: 9 Copynumber: 11.7 Consensus size: 9
69435138 ACTTTATAAA
69435148 ATTTTATAA-
1 ATTTT-TAAT
69435157 ATTTTATAA-
1 ATTTT-TAAT
*
69435166 ATTTTTTAT
1 ATTTTTAAT
*
69435175 ATTTCTATAT
1 ATTTTTA-AT
*
69435185 ATTTATAAT
1 ATTTTTAAT
*
69435194 -TTTTATAAA
1 ATTTT-TAAT
*
69435203 ATTTTACAAT
1 ATTTT-TAAT
69435213 -TTTTTAAT
1 ATTTTTAAT
*
69435221 TTTTTTACGAT
1 ATTTTTA--AT
69435232 -TTTTTAAT
1 ATTTTTAAT
69435240 -TTTTTAAT
1 ATTTTTAAT
69435248 ATTTTT
1 ATTTTT
69435254 TTCTAATTTT
Statistics
Matches: 80, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
8 18 0.22
9 39 0.49
10 21 0.26
11 2 0.03
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:69435288 original size:27 final size:27
Alignment explanation
Indices: 69435190--69435289 Score: 87
Period size: 27 Copynumber: 3.7 Consensus size: 27
69435180 TATATATTTA
*
69435190 TAATTTTTA-TAAAATTTTACAATTTTT
1 TAATTTTTATTAAAATTTT-TAATTTTT
* *
69435217 TAATTTTT-TTACGATTTTTTAATTTTT
1 TAATTTTTATTA-AAATTTTTAATTTTT
* ** *
69435244 TAATATTTTTTTCTAATTTTTAATATTT
1 TAAT-TTTTATTAAAATTTTTAATTTTT
*
69435272 GAATTTTTATTAAAATTT
1 TAATTTTTATTAAAATTT
69435290 AATAATATAT
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
27 32 0.55
28 24 0.41
29 2 0.03
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (27 bp):
TAATTTTTATTAAAATTTTTAATTTTT
Found at i:69435509 original size:32 final size:32
Alignment explanation
Indices: 69435439--69435509 Score: 90
Period size: 34 Copynumber: 2.2 Consensus size: 32
69435429 TAAGGGTTTA
* *
69435439 ATTGCTTTTTTTTAAATGGTTTGAGAGCTTTT
1 ATTGATTTTTTTTAAATGGTTTGAGAGCCTTT
*
69435471 AATTGATTTTTTTTAAAATGGTTTGAGGGCCTTT
1 -ATTGATTTTTTTT-AAATGGTTTGAGAGCCTTT
69435505 -TTGAT
1 ATTGAT
69435510 GAATTTTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 5 0.15
33 12 0.35
34 17 0.50
ACGTcount: A:0.21, C:0.06, G:0.20, T:0.54
Consensus pattern (32 bp):
ATTGATTTTTTTTAAATGGTTTGAGAGCCTTT
Found at i:69436353 original size:23 final size:23
Alignment explanation
Indices: 69436327--69436371 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
69436317 ATTCTATCAA
69436327 AAAATGATAAATACTTGACTTAG
1 AAAATGATAAATACTTGACTTAG
69436350 AAAATGATAAATACTTGACTTA
1 AAAATGATAAATACTTGACTTA
69436372 TTTGTCTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (23 bp):
AAAATGATAAATACTTGACTTAG
Found at i:69438290 original size:35 final size:35
Alignment explanation
Indices: 69438225--69438322 Score: 92
Period size: 35 Copynumber: 2.8 Consensus size: 35
69438215 ATAGGTAAGT
*
69438225 ACATGTAAGCTTATATTGAACTTGTATATTCGGCA
1 ACATGTAAGCTTATATTGAAATTGTATATTCGGCA
* * * ***
69438260 ACATGTGAGGTTATATT-AAATTTTAGTATTCGATT
1 ACATGTAAGCTTATATTGAAATTGTA-TATTCGGCA
*
69438295 ACATGTGAA-CTTATTTTGAAATTGTATA
1 ACATGT-AAGCTTATATTGAAATTGTATA
69438323 CTCATATATA
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
34 6 0.12
35 35 0.71
36 8 0.16
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (35 bp):
ACATGTAAGCTTATATTGAAATTGTATATTCGGCA
Found at i:69443662 original size:35 final size:35
Alignment explanation
Indices: 69443623--69443691 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
69443613 CAATGTTAGT
69443623 ATAAAATACATGCTTCAAACACCATGTTCTCAATA
1 ATAAAATACATGCTTCAAACACCATGTTCTCAATA
69443658 ATAAAATACATGCTTCAAACACCATGTTCTCAAT
1 ATAAAATACATGCTTCAAACACCATGTTCTCAAT
69443692 CACCATATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.29
Consensus pattern (35 bp):
ATAAAATACATGCTTCAAACACCATGTTCTCAATA
Found at i:69447957 original size:21 final size:21
Alignment explanation
Indices: 69447908--69447948 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
69447898 CATGTATTTT
*
69447908 AATGATTGATGATAGATTATA
1 AATGTTTGATGATAGATTATA
69447929 AATGTTTGATGATAG-TTATA
1 AATGTTTGATGATAGATTATA
69447949 CAAGTTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (21 bp):
AATGTTTGATGATAGATTATA
Found at i:69451638 original size:15 final size:16
Alignment explanation
Indices: 69451614--69451647 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
69451604 TTAGTTTATA
*
69451614 TAATATAATTTAATAT
1 TAATATAATTGAATAT
69451630 TAATA-AATTGAATAT
1 TAATATAATTGAATAT
69451645 TAA
1 TAA
69451648 GTAATAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
TAATATAATTGAATAT
Found at i:69452854 original size:50 final size:50
Alignment explanation
Indices: 69452773--69452880 Score: 171
Period size: 50 Copynumber: 2.2 Consensus size: 50
69452763 AACGGGCATG
**
69452773 AAAAAGGAAAGGAAAGGTATGTGTTCAAATGAACTATGTCATGAAATTAT
1 AAAAAGGAAAGGAAAGGTATGTACTCAAATGAACTATGTCATGAAATTAT
**
69452823 AAAAAGGAAAGGAAAGGTATGTACTGGAATGAACTATGTCATGAAATTAT
1 AAAAAGGAAAGGAAAGGTATGTACTCAAATGAACTATGTCATGAAATTAT
*
69452873 GAAAAGGA
1 AAAAAGGA
69452881 TTGAAATAGA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.47, C:0.06, G:0.24, T:0.23
Consensus pattern (50 bp):
AAAAAGGAAAGGAAAGGTATGTACTCAAATGAACTATGTCATGAAATTAT
Found at i:69455518 original size:42 final size:42
Alignment explanation
Indices: 69455454--69455558 Score: 147
Period size: 42 Copynumber: 2.5 Consensus size: 42
69455444 TTGAGCACAT
* *
69455454 GGGCGTGTCTCTCAGCCGTGTGTGCTACACGGCCTAGAACAC
1 GGGCGTGTGTCTCAGCCATGTGTGCTACACGGCCTAGAACAC
* *
69455496 GGGCGTGTGTCTCAGTCATGTGTGCTACACTGCCTAGAACAC
1 GGGCGTGTGTCTCAGCCATGTGTGCTACACGGCCTAGAACAC
* **
69455538 GGGTGTGTGTCTTGGCCATGT
1 GGGCGTGTGTCTCAGCCATGT
69455559 TAAAACTTCA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.15, C:0.26, G:0.32, T:0.27
Consensus pattern (42 bp):
GGGCGTGTGTCTCAGCCATGTGTGCTACACGGCCTAGAACAC
Found at i:69461909 original size:34 final size:34
Alignment explanation
Indices: 69461865--69461955 Score: 128
Period size: 34 Copynumber: 2.7 Consensus size: 34
69461855 TCCCGGCGTC
***
69461865 GAATATGGGTAAGGGGTGTTACAGTTTTGGCATT
1 GAATATGGGTAAGGGGTGTTACAGTTTCAACATT
*
69461899 GAATACGGGTAAGGGGTGTTACAGTTTCAACATT
1 GAATATGGGTAAGGGGTGTTACAGTTTCAACATT
* *
69461933 GAATATGAGTAAGGGGTATTACA
1 GAATATGGGTAAGGGGTGTTACA
69461956 TTTAGTGGTA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.31
Consensus pattern (34 bp):
GAATATGGGTAAGGGGTGTTACAGTTTCAACATT
Done.