Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 42 of 144
Found at i:12770195 original size:8 final size:8
Alignment explanation
Indices: 12770184--12770218 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
12770174 TAAAAAATAT
12770184 TTTTTAAA
1 TTTTTAAA
12770192 TTTTTAAA
1 TTTTTAAA
*
12770200 TTTTAATAA
1 TTTTTA-AA
12770209 TTTTTAAA
1 TTTTTAAA
12770217 TT
1 TT
12770219 CAAAAAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TTTTTAAA
Found at i:12770216 original size:45 final size:48
Alignment explanation
Indices: 12770148--12770241 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 48
12770138 GATGAATATG
* *
12770148 TAAATATTTAATTAATTTTTTAAAATT-AAAAAATATTTTTTAAATTTT
1 TAAATATTTAATTAATTTTTT-AAATTCAAAAAATAGTTCTTAAATTTT
*
12770196 TAAAT-TTTAA-TAA-TTTTTAAATTCAAAAAATAGTTCTTATATTTT
1 TAAATATTTAATTAATTTTTTAAATTCAAAAAATAGTTCTTAAATTTT
12770241 T
1 T
12770242 TTTGAATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
44 5 0.12
45 24 0.57
46 3 0.07
47 5 0.12
48 5 0.12
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (48 bp):
TAAATATTTAATTAATTTTTTAAATTCAAAAAATAGTTCTTAAATTTT
Found at i:12792870 original size:29 final size:30
Alignment explanation
Indices: 12792837--12792917 Score: 85
Period size: 30 Copynumber: 2.8 Consensus size: 30
12792827 AAATTTATCA
* *
12792837 ATTTTATATATTTGA-AATTTAATC-CTTT
1 ATTTTTTATATTTAAGAATTTAATCTCTTT
* *
12792865 ATTTTTTATTTTTAAGAATTTTATCTCTTT
1 ATTTTTTATATTTAAGAATTTAATCTCTTT
* * *
12792895 ATTTTTCAAATTTAAAAATTTAA
1 ATTTTTTATATTTAAGAATTTAA
12792918 GTTTACTAGT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 12 0.29
29 8 0.19
30 22 0.52
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.58
Consensus pattern (30 bp):
ATTTTTTATATTTAAGAATTTAATCTCTTT
Found at i:12801092 original size:22 final size:20
Alignment explanation
Indices: 12801067--12801109 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
12801057 AGTGCATGTC
12801067 TATTAGAATAAGAAATTTTATA
1 TATTAGAAT-A-AAATTTTATA
* *
12801089 TATTATAGTAAAATTTTATA
1 TATTAGAATAAAATTTTATA
12801109 T
1 T
12801110 CATGTATACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 11 0.58
21 1 0.05
22 7 0.37
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (20 bp):
TATTAGAATAAAATTTTATA
Found at i:12805470 original size:34 final size:34
Alignment explanation
Indices: 12805427--12805495 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
12805417 AACTAATTTA
12805427 ACTAAGAACGCAACAGAGAATAAAATAGGAAAAT
1 ACTAAGAACGCAACAGAGAATAAAATAGGAAAAT
12805461 ACTAAGAACGCAACAGAGAATAAAATAGGAAAAT
1 ACTAAGAACGCAACAGAGAATAAAATAGGAAAAT
12805495 A
1 A
12805496 ACCGAAGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.59, C:0.12, G:0.17, T:0.12
Consensus pattern (34 bp):
ACTAAGAACGCAACAGAGAATAAAATAGGAAAAT
Found at i:12812704 original size:2 final size:2
Alignment explanation
Indices: 12812697--12812727 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
12812687 TTATCTTTAA
12812697 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
12812728 AAGTCCCCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:12815358 original size:57 final size:57
Alignment explanation
Indices: 12815270--12815382 Score: 199
Period size: 57 Copynumber: 2.0 Consensus size: 57
12815260 GTCTCCTCTT
*
12815270 TAGGGCCATGCATGAAAAAATGCATGTGATTGCCATTACTATACTTAATTTAATTAG
1 TAGGGCCATGCATGAAAAAATGCATGTGATTGCCATTACCATACTTAATTTAATTAG
* *
12815327 TAGGGCCATGCATGAAAAAATGCATGTGATTGCTATTACCATAGTTAATTTAATTA
1 TAGGGCCATGCATGAAAAAATGCATGTGATTGCCATTACCATACTTAATTTAATTA
12815383 TATATTTAAG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (57 bp):
TAGGGCCATGCATGAAAAAATGCATGTGATTGCCATTACCATACTTAATTTAATTAG
Found at i:12835670 original size:44 final size:44
Alignment explanation
Indices: 12835612--12835697 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
12835602 CACTCAAGCA
*
12835612 TTAATTTAATTAAAAATTTATTTTAAT-TTTTTA-TTTAAAATAAT
1 TTAAATTAATTAAAAA--TATTTTAATCTTTTTATTTTAAAATAAT
*
12835656 TTAAATTATTTAAAAATATTTTAATCTTTTTATTTTAAAATA
1 TTAAATTAATTAAAAATATTTTAATCTTTTTATTTTAAAATA
12835698 TAATAAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
42 9 0.24
43 6 0.16
44 23 0.61
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (44 bp):
TTAAATTAATTAAAAATATTTTAATCTTTTTATTTTAAAATAAT
Found at i:12839595 original size:23 final size:23
Alignment explanation
Indices: 12839569--12839614 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
12839559 GAAGAAGCTA
12839569 AGGCAACGAGAGAGTTCCAAGGT
1 AGGCAACGAGAGAGTTCCAAGGT
12839592 AGGCAACGAGAGAGTTCCAAGGT
1 AGGCAACGAGAGAGTTCCAAGGT
12839615 GAATCAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.35, T:0.13
Consensus pattern (23 bp):
AGGCAACGAGAGAGTTCCAAGGT
Found at i:12841450 original size:75 final size:74
Alignment explanation
Indices: 12841245--12841453 Score: 188
Period size: 80 Copynumber: 2.7 Consensus size: 74
12841235 GCCTTTCATT
* * * *
12841245 TTTTTGGTAAATTGTAAATATTGATATATTATTTATGTAAAATACAGTAGAATACAATATAAACA
1 TTTTT-GTAGATTGTAAATA--GGTATATTATTGATGTAAAATACAATAGAATACAATATAAACA
12841310 AAATTTATATTA
63 AAATTTATATTA
* ** * *
12841322 TTTTTGTAGATTGTAAATAAATAAGTATATACTATTGACATGAAATACAATAGAATACAATA-AC
1 TTTTTGTAGATTG----TAAATAGGTATAT--TATTGATGTAAAATACAATAGAATACAATATAA
* *
12841386 GCAAAATTT-TTTTA
60 ACAAAATTTATATTA
*
12841400 TTTTTTTCTTAGATTGTAAATAGGTATATTATTGATGTAAAATACAATAGAATA
1 --TTTTT-GTAGATTGTAAATAGGTATATTATTGATGTAAAATACAATAGAATA
12841454 ACTTTTTTAT
Statistics
Matches: 107, Mismatches: 16, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
75 22 0.21
76 7 0.07
77 17 0.16
78 9 0.08
79 9 0.08
80 36 0.34
81 7 0.07
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.41
Consensus pattern (74 bp):
TTTTTGTAGATTGTAAATAGGTATATTATTGATGTAAAATACAATAGAATACAATATAAACAAAA
TTTATATTA
Found at i:12843386 original size:19 final size:19
Alignment explanation
Indices: 12843362--12843398 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
12843352 TTAATGTGCG
*
12843362 AATATATGTATATGTGTGT
1 AATATATATATATGTGTGT
12843381 AATATATATATATGTGTG
1 AATATATATATATGTGTG
12843399 GATCGAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (19 bp):
AATATATATATATGTGTGT
Found at i:12843823 original size:41 final size:41
Alignment explanation
Indices: 12843619--12843822 Score: 363
Period size: 41 Copynumber: 5.0 Consensus size: 41
12843609 ATTGGTGAAT
* *
12843619 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATA
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATA
12843660 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATA
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATA
12843701 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATA
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATA
* * *
12843742 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATA
12843783 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAT
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAT
12843823 CCGAATATGA
Statistics
Matches: 156, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 156 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (41 bp):
TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATA
Found at i:12844113 original size:37 final size:36
Alignment explanation
Indices: 12844013--12844130 Score: 110
Period size: 37 Copynumber: 3.5 Consensus size: 36
12844003 TTATGTGTGC
*
12844013 ATATGTAGGCATTCGGCATAGGTGG-AT-A---TAT
1 ATATGTATGCATTCGGCATAGGTGGTATAAGTGTAT
* * * *
12844044 ATTTGTATGCATTCGGCATAGTTAGATGTAAGTGTAT
1 ATATGTATGCATTCGGCATAGGT-GGTATAAGTGTAT
12844081 ATATGTATGCATTCGGCATAGGTGGGTATAAGTG-A-
1 ATATGTATGCATTCGGCATAGGT-GGTATAAGTGTAT
12844116 ATATG--TGCATTCGGC
1 ATATGTATGCATTCGGC
12844131 CTTTATAGTT
Statistics
Matches: 71, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
31 20 0.28
32 1 0.01
33 11 0.15
34 1 0.01
35 5 0.07
36 1 0.01
37 32 0.45
ACGTcount: A:0.27, C:0.10, G:0.28, T:0.35
Consensus pattern (36 bp):
ATATGTATGCATTCGGCATAGGTGGTATAAGTGTAT
Found at i:12849813 original size:19 final size:20
Alignment explanation
Indices: 12849767--12849814 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
12849757 GTCTCCAAAA
12849767 TTAT-TATTTTACAATATTT
1 TTATATATTTTACAATATTT
* *
12849786 TTA-AAATTTT-CAATTTTT
1 TTATATATTTTACAATATTT
12849804 TTATATATTTT
1 TTATATATTTT
12849815 TTAGAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATATATTTTACAATATTT
Found at i:12849887 original size:18 final size:19
Alignment explanation
Indices: 12849856--12849906 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
12849846 TAAAATATAA
*
12849856 ATTTTGATATTTTTATAAA-T
1 ATTTTGA-A-TTTTAAAAATT
12849876 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTAAAAATT
*
12849895 ATTTTAAATTTT
1 ATTTTGAATTTT
12849907 TTTGTAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 8 0.29
19 13 0.46
20 7 0.25
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (19 bp):
ATTTTGAATTTTAAAAATT
Found at i:12850947 original size:5 final size:5
Alignment explanation
Indices: 12850937--12850961 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
12850927 AACAGCTTTC
12850937 TTTTG TTTTG TTTTG TTTTG TTTTG
1 TTTTG TTTTG TTTTG TTTTG TTTTG
12850962 ATGGGGCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (5 bp):
TTTTG
Found at i:12863319 original size:328 final size:328
Alignment explanation
Indices: 12862717--12863370 Score: 1146
Period size: 328 Copynumber: 2.0 Consensus size: 328
12862707 AAAACTTGGC
* *
12862717 ATGAGCACGTCCAAAACAAAATATACATATATATTTTAAGAGAAACACAAAAGAGGCTCAAGTTC
1 ATGAACACGTCCAAAACAAAATATACATATATATTTTAAGAGAAACACAAAAGAAGCTCAAGTTC
12862782 ATCATCTAACTTTACAATTGCTCAAGAAATCTAAGTTTTTGTATATATGCCAATAATCCAATACA
66 ATCATCTAACTTTACAATTGCTCAAGAAATCTAAGTTTTTGTATATATGCCAATAATCCAATACA
* *
12862847 AATGGAATTTAAACGTTTGAATTACAACTTTAGAAGCTCGATGGATGATATGATGCTCCCAAGCC
131 AATGGAATTTAAACGCTTGAATTACAACCTTAGAAGCTCGATGGATGATATGATGCTCCCAAGCC
*
12862912 AACATTATGACTTCTATGTAAGTCCAAACCTACACGTGTTAAACAACTAATGTGTGAGCTTAAAA
196 AACATCATGACTTCTATGTAAGTCCAAACCTACACGTGTTAAACAACTAATGTGTGAGCTTAAAA
12862977 AGCTCAATAACTAATCAGGGATAAACTTACTTATCTTAGTCTTTATTAGTGTTGAGCAAGTCCTA
261 AGCTCAATAACTAATCAGGGATAAACTTACTTATCTTAGTCTTTATTAGTGTTGAGCAAGTCCTA
12863042 TGG
326 TGG
* *
12863045 ATGAACACGTCCAAAACAAAATATACATATATTTTTTAATAGAAACACAAAAGAAGCTCAAGTTC
1 ATGAACACGTCCAAAACAAAATATACATATATATTTTAAGAGAAACACAAAAGAAGCTCAAGTTC
* * * *
12863110 ATCATCTAAGTTTACAATTGCTCAAGCAATTTAAGTTTTTGTATATATTCCAATAATCCAATACA
66 ATCATCTAACTTTACAATTGCTCAAGAAATCTAAGTTTTTGTATATATGCCAATAATCCAATACA
* * * * *
12863175 AATGGTATTTAAATGCTTGAATTACATCCTTAGAAGCTCGATGGATGATGTGATGCTCCTAAGCC
131 AATGGAATTTAAACGCTTGAATTACAACCTTAGAAGCTCGATGGATGATATGATGCTCCCAAGCC
12863240 AACATCATGACTTCTATGTAAGTCCAAACCTACACGTGTTAAACAACTAATGTGTGAGCTTAAAA
196 AACATCATGACTTCTATGTAAGTCCAAACCTACACGTGTTAAACAACTAATGTGTGAGCTTAAAA
* *
12863305 AGCTTAGTAACTAATCAGGGATAAACTTACTTATCTTAGTCTTTATTAGTGTTGAGCAAGTCCTA
261 AGCTCAATAACTAATCAGGGATAAACTTACTTATCTTAGTCTTTATTAGTGTTGAGCAAGTCCTA
12863370 T
326 T
12863371 AGATTTCATG
Statistics
Matches: 308, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
328 308 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (328 bp):
ATGAACACGTCCAAAACAAAATATACATATATATTTTAAGAGAAACACAAAAGAAGCTCAAGTTC
ATCATCTAACTTTACAATTGCTCAAGAAATCTAAGTTTTTGTATATATGCCAATAATCCAATACA
AATGGAATTTAAACGCTTGAATTACAACCTTAGAAGCTCGATGGATGATATGATGCTCCCAAGCC
AACATCATGACTTCTATGTAAGTCCAAACCTACACGTGTTAAACAACTAATGTGTGAGCTTAAAA
AGCTCAATAACTAATCAGGGATAAACTTACTTATCTTAGTCTTTATTAGTGTTGAGCAAGTCCTA
TGG
Found at i:12870368 original size:19 final size:19
Alignment explanation
Indices: 12870346--12870401 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
12870336 AAATATAATT
*
12870346 TTTTTAATTTTTATAAATA
1 TTTTGAATTTTTATAAATA
* *
12870365 TTTTGAATTTTGAAAAATA
1 TTTTGAATTTTTATAAATA
12870384 TTTTGAACTTTTTTATAA
1 TTTTGAA--TTTTTATAA
12870402 TTTTTGTTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 23 0.77
21 7 0.23
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTTGAATTTTTATAAATA
Found at i:12870406 original size:19 final size:19
Alignment explanation
Indices: 12870339--12870407 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
12870329 TTTTAAAAAA
* *
12870339 TATAATTTTTTTAA-TTTT
1 TATAATATTTTGAATTTTT
*
12870357 TATAAATATTTTGAATTTTG
1 TAT-AATATTTTGAATTTTT
* *
12870377 AAAAATATTTTGAACTTTTT
1 TATAATATTTTGAA-TTTTT
12870397 TATAAT-TTTTG
1 TATAATATTTTG
12870408 TTGAGAGAGA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
18 3 0.08
19 25 0.62
20 12 0.30
ACGTcount: A:0.33, C:0.01, G:0.06, T:0.59
Consensus pattern (19 bp):
TATAATATTTTGAATTTTT
Found at i:12904424 original size:9 final size:9
Alignment explanation
Indices: 12904410--12904440 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
12904400 TATTAAAGGC
12904410 TTTTATATA
1 TTTTATATA
12904419 TTTTATATA
1 TTTTATATA
12904428 TTTATATATA
1 TTT-TATATA
12904438 TTT
1 TTT
12904441 AAAATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTATATA
Found at i:12904437 original size:10 final size:10
Alignment explanation
Indices: 12904413--12904441 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
12904403 TAAAGGCTTT
12904413 TATATATTT-
1 TATATATTTA
12904422 TATATATTTA
1 TATATATTTA
12904432 TATATATTTA
1 TATATATTTA
12904442 AAATAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TATATATTTA
Found at i:12910308 original size:94 final size:94
Alignment explanation
Indices: 12910147--12910336 Score: 344
Period size: 94 Copynumber: 2.0 Consensus size: 94
12910137 TTAAATTGTA
12910147 ACCTCACTCGTATACTTAGAACTAGATCACTCCACCTCTAAGACTTTCCGAATGAAAGCTTAGTT
1 ACCTCACTCGTATACTTAGAACTAGATCACTCCACCTCTAAGACTTTCCGAATGAAAGCTTAGTT
*
12910212 ACCCACTAATAGAATGATTTGAATACATT
66 ACCCACTAATAGAACGATTTGAATACATT
* *
12910241 ACCTCACTCGTATACTTAGAACTAGATTATTCCACCTCTAAGACTTTCCGAATGAAAGCTTAGTT
1 ACCTCACTCGTATACTTAGAACTAGATCACTCCACCTCTAAGACTTTCCGAATGAAAGCTTAGTT
*
12910306 ACCCACTAATAGAACGATTTGAATGCATT
66 ACCCACTAATAGAACGATTTGAATACATT
12910335 AC
1 AC
12910337 AAATAGGAGT
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 92 1.00
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (94 bp):
ACCTCACTCGTATACTTAGAACTAGATCACTCCACCTCTAAGACTTTCCGAATGAAAGCTTAGTT
ACCCACTAATAGAACGATTTGAATACATT
Found at i:12910747 original size:30 final size:31
Alignment explanation
Indices: 12910713--12910772 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
12910703 CAACCTTTTA
*
12910713 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
12910743 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
12910773 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:12912622 original size:22 final size:20
Alignment explanation
Indices: 12912586--12912635 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 20
12912576 ATAAATGTTT
12912586 TATATATTATATTTT-TTAAA
1 TATATATTATATTTTATT-AA
12912606 TATATATTATGATTTTTATTAA
1 TATATATTAT-A-TTTTATTAA
*
12912628 TTTATATT
1 TATATATT
12912636 TTAATAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 10 0.38
21 1 0.04
22 13 0.50
23 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
TATATATTATATTTTATTAA
Found at i:12912664 original size:39 final size:37
Alignment explanation
Indices: 12912579--12912678 Score: 94
Period size: 39 Copynumber: 2.6 Consensus size: 37
12912569 ACCTTATATA
* *
12912579 AATGTT-TTATATATTATATTTTTTAAATATATATTATG
1 AATGTTATTA-AT-TTATATTTTATAAATATATATTAAG
* * *
12912617 ATTTTTATTAATTTATATTTTAATAATTATTATATTAAG
1 AATGTTATTAATTTATATTTT-ATAAATA-TATATTAAG
* *
12912656 AATGTTATTAAATTATATATTAT
1 AATGTTATTAATTTATATTTTAT
12912679 TTTTATAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
37 9 0.18
38 13 0.26
39 28 0.56
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (37 bp):
AATGTTATTAATTTATATTTTATAAATATATATTAAG
Found at i:12912696 original size:60 final size:61
Alignment explanation
Indices: 12912601--12912776 Score: 182
Period size: 60 Copynumber: 2.9 Consensus size: 61
12912591 ATTATATTTT
* * * * *
12912601 TTAAATATATATTATGATTTTTATTAATTTATATTTTAATAATTATTATATTAAGA-ATG-TTA
1 TTAAAT-TATA-TATTATTTTTATTAAATTGTA-TTTAATAATAATTATATTAAAATATGATTA
* *
12912663 TTAAATTATATATTATTTTTATAAAATTGTATTTAATAATAATTATGTTAAAATATGATTA
1 TTAAATTATATATTATTTTTATTAAATTGTATTTAATAATAATTATATTAAAATATGATTA
* * *
12912724 TTTATTTAT-TAATATTTTTATTAAATTAG-ATTTAATAATAATCT-TATTAAAAT
1 TTAAATTATATATTATTTTTATTAAATT-GTATTTAATAATAAT-TATATTAAAAT
12912777 TTAATAAAAA
Statistics
Matches: 98, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
59 19 0.19
60 57 0.58
61 16 0.16
62 6 0.06
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (61 bp):
TTAAATTATATATTATTTTTATTAAATTGTATTTAATAATAATTATATTAAAATATGATTA
Found at i:12912930 original size:44 final size:45
Alignment explanation
Indices: 12912866--12912962 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 45
12912856 CTATTACAAC
* *
12912866 ATTTATTTCATTCAACCAAACACA-AGAA-TACT-ATTACAGCTCT
1 ATTTATTCCATTCAACCAAACA-ATAGAATTACTGATTACAACTCT
* *
12912909 ATTTAATTCCATTGAACCAAACAATTGAATTACTGATTACAACTCT
1 ATTT-ATTCCATTCAACCAAACAATAGAATTACTGATTACAACTCT
12912955 ATTCTATT
1 ATT-TATT
12912963 ACATCTCTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
43 5 0.11
44 19 0.42
45 4 0.09
46 16 0.36
47 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (45 bp):
ATTTATTCCATTCAACCAAACAATAGAATTACTGATTACAACTCT
Found at i:12912965 original size:16 final size:16
Alignment explanation
Indices: 12912944--12912979 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
12912934 TGAATTACTG
*
12912944 ATTACAACTCTATTCT
1 ATTACAACTCTATTCC
*
12912960 ATTACATCTCTATTCC
1 ATTACAACTCTATTCC
12912976 ATTA
1 ATTA
12912980 AAGCCCCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.25, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:12922619 original size:18 final size:17
Alignment explanation
Indices: 12922591--12922625 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12922581 ATTATTAAGA
*
12922591 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
12922608 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
12922626 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:12922763 original size:18 final size:17
Alignment explanation
Indices: 12922735--12922769 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12922725 ATTATTAAGA
*
12922735 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
12922752 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
12922770 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:12922980 original size:44 final size:45
Alignment explanation
Indices: 12922931--12923025 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
12922921 TTACACCTCT
* * *
12922931 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
** *
12922975 ATTACATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
12923020 ATTACA
1 ATTACA
12923026 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
Found at i:12923025 original size:16 final size:16
Alignment explanation
Indices: 12923006--12923057 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
12922996 GATTTGCTAT
* * *
12923006 TACACATCTATTCCAT
1 TACACCTCTAATCCAA
12923022 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
12923038 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
12923054 TACA
1 TACA
12923058 TTAGTGTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:12923352 original size:12 final size:11
Alignment explanation
Indices: 12923325--12923351 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
12923315 AAAAATAGTT
12923325 AAAAATCCAAA
1 AAAAATCCAAA
12923336 AAAAATCCAAA
1 AAAAATCCAAA
12923347 AAAAA
1 AAAAA
12923352 AAGAAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.78, C:0.15, G:0.00, T:0.07
Consensus pattern (11 bp):
AAAAATCCAAA
Found at i:12923925 original size:19 final size:19
Alignment explanation
Indices: 12923901--12923937 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12923891 GCCACATGTC
*
12923901 AAAAAATTCTAGAAAATTT
1 AAAAAATTCTAAAAAATTT
*
12923920 AAAAAATTTTAAAAAATT
1 AAAAAATTCTAAAAAATT
12923938 ATTTTTTTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (19 bp):
AAAAAATTCTAAAAAATTT
Found at i:12924419 original size:21 final size:21
Alignment explanation
Indices: 12924393--12924449 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
12924383 CATTTTATCA
12924393 TTTTTG-GAATTTTTCTAAA-AT
1 TTTTTGTG-ATTTTT-TAAAGAT
12924414 TTTTTGTGATTTTTTAAAGAT
1 TTTTTGTGATTTTTTAAAGAT
**
12924435 TTTTAATGATTTTTT
1 TTTTTGTGATTTTTT
12924450 TAAAAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 4 0.12
21 27 0.84
22 1 0.03
ACGTcount: A:0.25, C:0.02, G:0.11, T:0.63
Consensus pattern (21 bp):
TTTTTGTGATTTTTTAAAGAT
Found at i:12924460 original size:22 final size:23
Alignment explanation
Indices: 12924422--12924479 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
12924412 ATTTTTTGTG
* * *
12924422 ATTTTTTAAAGATTTTTAA-TGA
1 ATTTTTTAAAAAATTTTAAGTAA
*
12924444 TTTTTTTAAAAAATTTTAAGTAA
1 ATTTTTTAAAAAATTTTAAGTAA
12924467 ATTTTTTAAAAAA
1 ATTTTTTAAAAAA
12924480 AATTACATGT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 16 0.53
23 14 0.47
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (23 bp):
ATTTTTTAAAAAATTTTAAGTAA
Found at i:12924477 original size:21 final size:20
Alignment explanation
Indices: 12924400--12924477 Score: 50
Period size: 22 Copynumber: 3.6 Consensus size: 20
12924390 TCATTTTTGG
**
12924400 AATTTTTCTAAAATTTTTTGT
1 AATTTTT-TAAAATTTTAAGT
*
12924421 GATTTTTTAAAGATTTTTAA-T
1 AATTTTTTAAA-A-TTTTAAGT
*
12924442 GATTTTTTTAAAAAATTTTAAGT
1 -AATTTTTT--AAAATTTTAAGT
12924465 AAATTTTTTAAAA
1 -AATTTTTTAAAA
12924478 AAAATTACAT
Statistics
Matches: 44, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
20 4 0.09
21 12 0.27
22 16 0.36
23 9 0.20
24 3 0.07
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.55
Consensus pattern (20 bp):
AATTTTTTAAAATTTTAAGT
Found at i:12924795 original size:3 final size:3
Alignment explanation
Indices: 12924787--12924817 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
12924777 ACAAAGCCAA
12924787 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
12924818 GGAAAAAGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:12930306 original size:181 final size:181
Alignment explanation
Indices: 12930003--12930367 Score: 615
Period size: 181 Copynumber: 2.0 Consensus size: 181
12929993 TTGTAATTAG
12930003 ATATTAACACATTTGTATTATTTTAAAAAATATATTTTTTATTTTTAATTAATGATTTTAAAAAA
1 ATATTAACACATTTGTATTATTTTAAAAAATATATTTTTTATTTTTAATTAATGATTTTAAAAAA
12930068 TTTGTAATTAAGCACCAAGAAAGTACTATGTTATTGGAGGGGTGAAAAAGTAATTAAGCACCAAA
66 TTTGTAATTAAGCACCAAGAAAGTACTATGTTATTGGAGGGGTGAAAAAGTAATTAAGCACCAAA
* * * * *
12930133 AGTGC-TTCTAGAAATGAAAATCTAAAAAATTTAGCTTTTCCTTTTCAAAA
131 AGTGCTTTCGAGAAAGGAAAATATAAAAAATTTAGCTTCTCCTTTCCAAAA
* *
12930183 ATATTAACACATTTGTATTATTTTAAAAAATAATTTTTTTTATTTTTAATTAATGATTTTAACAA
1 ATATTAACACATTTGTATTATTTTAAAAAAT-ATATTTTTTATTTTTAATTAATGATTTTAAAAA
* * *
12930248 ATTTGTAATTAAGCACCAAGAGAGTACTATGTTGTTGGAGGGGTGAAAAAGTAATTAAGCACTAA
65 ATTTGTAATTAAGCACCAAGAAAGTACTATGTTATTGGAGGGGTGAAAAAGTAATTAAGCACCAA
*
12930313 AAGTGCTTTCGAGAAAGGAAAATATAAAAACTTTAGCTTCTCCTTTCCAAAA
130 AAGTGCTTTCGAGAAAGGAAAATATAAAAAATTTAGCTTCTCCTTTCCAAAA
12930365 ATA
1 ATA
12930368 CTTTTGAAAC
Statistics
Matches: 172, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
180 31 0.18
181 99 0.58
182 42 0.24
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (181 bp):
ATATTAACACATTTGTATTATTTTAAAAAATATATTTTTTATTTTTAATTAATGATTTTAAAAAA
TTTGTAATTAAGCACCAAGAAAGTACTATGTTATTGGAGGGGTGAAAAAGTAATTAAGCACCAAA
AGTGCTTTCGAGAAAGGAAAATATAAAAAATTTAGCTTCTCCTTTCCAAAA
Found at i:12931567 original size:9 final size:9
Alignment explanation
Indices: 12931553--12931592 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
12931543 GTTTAATTTT
*
12931553 ATAATTCGA
1 ATAATTCAA
12931562 ATAATTCAA
1 ATAATTCAA
12931571 ATAATT-AGA
1 ATAATTCA-A
12931580 ATAATTCAA
1 ATAATTCAA
12931589 ATAA
1 ATAA
12931593 CAAATTTATG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 1 0.04
9 26 0.93
10 1 0.04
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (9 bp):
ATAATTCAA
Found at i:12931576 original size:18 final size:18
Alignment explanation
Indices: 12931553--12931592 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
12931543 GTTTAATTTT
*
12931553 ATAATTCGAATAATTCAA
1 ATAATTAGAATAATTCAA
12931571 ATAATTAGAATAATTCAA
1 ATAATTAGAATAATTCAA
12931589 ATAA
1 ATAA
12931593 CAAATTTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (18 bp):
ATAATTAGAATAATTCAA
Found at i:12931766 original size:20 final size:19
Alignment explanation
Indices: 12931730--12931794 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
12931720 ATTTATATTT
*
12931730 TTAAAAAATTATAAAAAAAA
1 TTAAAAAATT-TTAAAAAAA
*
12931750 TTAAAAAATTTCTAAAAATA
1 TTAAAAAATTT-TAAAAAAA
*
12931770 TATAAATAAA-GTTAAAAAAA
1 T-TAAA-AAATTTTAAAAAAA
12931790 TTAAA
1 TTAAA
12931795 TTTTGGACCT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
19 5 0.13
20 25 0.66
21 5 0.13
22 3 0.08
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
TTAAAAAATTTTAAAAAAA
Found at i:12932563 original size:26 final size:27
Alignment explanation
Indices: 12932534--12932587 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
12932524 AGAGACCATG
* *
12932534 AATAATGTG-GTTTGAAAGGTCCATAA
1 AATAAAGTGCGTTTGAAAGATCCATAA
*
12932560 AATAAAGTGCTTTTGAAAGATCCATAA
1 AATAAAGTGCGTTTGAAAGATCCATAA
12932587 A
1 A
12932588 TCAAGTTAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.30
Consensus pattern (27 bp):
AATAAAGTGCGTTTGAAAGATCCATAA
Found at i:12938815 original size:184 final size:184
Alignment explanation
Indices: 12938506--12938858 Score: 661
Period size: 184 Copynumber: 1.9 Consensus size: 184
12938496 TGATTTTCAT
* *
12938506 TGATGTTAGAAATAGTGGTTCGAGACCACCAAATCTGACAAGTGAGCTCGTATATTTTATTGTTT
1 TGATGTTAGAAATAGTGGTTCGAGACCACCAAATCCGACAAGTGAGCTCGTATATTTTATTATTT
12938571 AGTGTTTATGAGCCAAATGAGATTTTAGAAAGACATTTGAATTAGTGAATTGTGTTTTAGAAGAA
66 AGTGTTTATGAGCCAAATGAGATTTTAGAAAGACATTTGAATTAGTGAATTGTGTTTTAGAAGAA
*
12938636 TTTATTAAGTTAAGTGGTTTCGAAAACGAGGTATCGATAATCAAATCCGACAAG
131 TTTATTAAGTTAAATGGTTTCGAAAACGAGGTATCGATAATCAAATCCGACAAG
* *
12938690 TGATGTTGGAAATAGTGGTTTGAGACCACCAAATCCGACAAGTGAGCTCGTATATTTTATTATTT
1 TGATGTTAGAAATAGTGGTTCGAGACCACCAAATCCGACAAGTGAGCTCGTATATTTTATTATTT
12938755 AGTGTTTATGAGCCAAATGAGATTTTAGAAAGACATTTGAATTAGTGAATTGTGTTTTAGAAGAA
66 AGTGTTTATGAGCCAAATGAGATTTTAGAAAGACATTTGAATTAGTGAATTGTGTTTTAGAAGAA
12938820 TTTATTAAGTTAAATGGTTTCGAAAACGAGGTATCGATA
131 TTTATTAAGTTAAATGGTTTCGAAAACGAGGTATCGATA
12938859 CCTCAATTTC
Statistics
Matches: 164, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
184 164 1.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.35
Consensus pattern (184 bp):
TGATGTTAGAAATAGTGGTTCGAGACCACCAAATCCGACAAGTGAGCTCGTATATTTTATTATTT
AGTGTTTATGAGCCAAATGAGATTTTAGAAAGACATTTGAATTAGTGAATTGTGTTTTAGAAGAA
TTTATTAAGTTAAATGGTTTCGAAAACGAGGTATCGATAATCAAATCCGACAAG
Found at i:12939943 original size:41 final size:41
Alignment explanation
Indices: 12939898--12940092 Score: 214
Period size: 41 Copynumber: 4.8 Consensus size: 41
12939888 AGATCGGGAT
* * * * *
12939898 TTTAGCGGTGTTTTTTAAAAAGCGTCGCTAATGCCCTG-GTC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAG-C
* * * * *
12939939 TTTAGCGGCGTTTTTGGAGAAGCGCTGCAAATGCTCAGAGA
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAGC
* *
12939980 TTTAGCGGCATTTTTGAAAAATCGCCGCTAATGCTCAGAGC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAGC
* * **
12940021 TTTAGCGGCGTTTTTTG-AGAAGCACCGCTAATGCTCAGTTC
1 TTTAGCGGCG-TTTTTGAAAAAGCGCCGCTAATGCTCAGAGC
12940062 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
12940093 AACATTTTAT
Statistics
Matches: 126, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
40 6 0.05
41 113 0.90
42 7 0.06
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAGC
Found at i:12939994 original size:82 final size:82
Alignment explanation
Indices: 12939898--12940092 Score: 248
Period size: 82 Copynumber: 2.4 Consensus size: 82
12939888 AGATCGGGAT
* * * *
12939898 TTTAGCGGTGTTTTTTAAAAAGCGTCGCTAATGCCCTG-GTCTTTAGCGGCGTTTTTGGAGAAGC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCCCAGAG-CTTTAGCGGCGTTTTTGGAGAAGC
* *
12939962 GCTGCAAATGCTCAGAGA
65 ACCGCAAATGCTCAGAGA
* * * *
12939980 TTTAGCGGCATTTTTGAAAAATCGCCGCTAATGCTCAGAGCTTTAGCGGCGTTTTTTGAGAAGCA
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCCCAGAGCTTTAGCGGCGTTTTTGGAGAAGCA
* ***
12940045 CCGCTAATGCTCAGTTC
66 CCGCAAATGCTCAGAGA
12940062 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
12940093 AACATTTTAT
Statistics
Matches: 96, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
82 95 0.99
83 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (82 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCCCAGAGCTTTAGCGGCGTTTTTGGAGAAGCA
CCGCAAATGCTCAGAGA
Found at i:12940891 original size:7 final size:7
Alignment explanation
Indices: 12940879--12940921 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
12940869 ATTGTAAAAG
12940879 AGGGGTT
1 AGGGGTT
12940886 AGGGGTT
1 AGGGGTT
*
12940893 AGAGGTT
1 AGGGGTT
* *
12940900 AAGGATT
1 AGGGGTT
*
12940907 AAGGGTT
1 AGGGGTT
12940914 AGGGGTT
1 AGGGGTT
12940921 A
1 A
12940922 TGGATAGGTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.47, T:0.28
Consensus pattern (7 bp):
AGGGGTT
Found at i:12943645 original size:12 final size:13
Alignment explanation
Indices: 12943628--12943656 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
12943618 TAGTTGCTAC
12943628 TTTTGCTAACT-T
1 TTTTGCTAACTGT
12943640 TTTTGCTAACTGT
1 TTTTGCTAACTGT
12943653 TTTT
1 TTTT
12943657 TGCTCAGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.14, C:0.14, G:0.10, T:0.62
Consensus pattern (13 bp):
TTTTGCTAACTGT
Found at i:12945842 original size:42 final size:43
Alignment explanation
Indices: 12945781--12946047 Score: 199
Period size: 42 Copynumber: 6.3 Consensus size: 43
12945771 GATATGTTTT
* * **
12945781 TAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGT-TTGTTCTA
1 TAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTAATCTA
* *
12945823 TAGCGACGTTTGTGGGAAAAAGCGCCGCTAAAGGTTTTTATCTA
1 TAGCGACGTTTGTGGG-AAAAGCGCCGCTAAAGGTCTTAATCTA
* * * *
12945867 TAGC-AGCGTTT-TGTGAAAAAGCGTCGTTAAAAGTCTTAATCTA
1 TAGCGA-CGTTTGTG-GGAAAAGCGCCGCTAAAGGTCTTAATCTA
* * **
12945910 TAGCGGCGTTTTGTGTG-ATTGCGCCGCTAAAGGTCTTAATCTA
1 TAGCGACG-TTTGTGGGAAAAGCGCCGCTAAAGGTCTTAATCTA
* * * * *
12945953 TAG-TAGCGTTTGT--GAAATAGCGTCGCTAAAGGTCCTGATCCA
1 TAGCGA-CGTTTGTGGGAAA-AGCGCCGCTAAAGGTCTTAATCTA
** * *
12945995 TAGCGGTGTTTGTGGG-AAAGCGCCGCTAAAGGTCATGATCTA
1 TAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTAATCTA
* *
12946037 TAACGGCGTTT
1 TAGCGACGTTT
12946048 ATTTCAAAAA
Statistics
Matches: 178, Mismatches: 34, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 77 0.43
43 77 0.43
44 20 0.11
45 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (43 bp):
TAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTAATCTA
Found at i:12945857 original size:43 final size:43
Alignment explanation
Indices: 12945781--12946047 Score: 208
Period size: 43 Copynumber: 6.3 Consensus size: 43
12945771 GATATGTTTT
* **
12945781 TAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGT-TTGTTCTA
1 TAGCGACGTTTGTGTGAAAAGCGCCGCTAAAGGTCTTAATCTA
* * *
12945823 TAGCGACGTTTGTGGGAAAAAGCGCCGCTAAAGGTTTTTATCTA
1 TAGCGACGTTTGTGTG-AAAAGCGCCGCTAAAGGTCTTAATCTA
* * *
12945867 TAGC-AGCGTTT-TGTGAAAAAGCGTCGTTAAAAGTCTTAATCTA
1 TAGCGA-CGTTTGTGTG-AAAAGCGCCGCTAAAGGTCTTAATCTA
* **
12945910 TAGCGGCGTTTTGTGTG-ATTGCGCCGCTAAAGGTCTTAATCTA
1 TAGCGACG-TTTGTGTGAAAAGCGCCGCTAAAGGTCTTAATCTA
* * * * *
12945953 TAG-TAGCG-TT-TGTGAAATAGCGTCGCTAAAGGTCCTGATCCA
1 TAGCGA-CGTTTGTGTGAAA-AGCGCCGCTAAAGGTCTTAATCTA
** * * *
12945995 TAGCGGTGTTTGTG-GGAAAGCGCCGCTAAAGGTCATGATCTA
1 TAGCGACGTTTGTGTGAAAAGCGCCGCTAAAGGTCTTAATCTA
* *
12946037 TAACGGCGTTT
1 TAGCGACGTTT
12946048 ATTTCAAAAA
Statistics
Matches: 180, Mismatches: 33, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
40 4 0.02
41 3 0.02
42 67 0.37
43 82 0.46
44 20 0.11
45 4 0.02
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (43 bp):
TAGCGACGTTTGTGTGAAAAGCGCCGCTAAAGGTCTTAATCTA
Found at i:12948322 original size:90 final size:90
Alignment explanation
Indices: 12948164--12948420 Score: 430
Period size: 90 Copynumber: 2.9 Consensus size: 90
12948154 ATAGTAAAAA
12948164 TGTAATTTCACCATTTGAATAGCCTATA-TTTTTATAATTTTAAATGGATTAAATCAAATTTTTA
1 TGTAATTTCACCATTTGAATAGCCTATATTTTTTATAATTTTAAATGGATTAAATCAAATTTTTA
12948228 TTATTTTTAGGGGGTGAAATTAAAT
66 TTATTTTTAGGGGGTGAAATTAAAT
* *
12948253 TGTAATTTCACCATTTGAATAGCCTCTATTTTTTATAATTTTCAATGGATTAAATCAAAATTTTT
1 TGTAATTTCACCATTTGAATAGCCTATATTTTTTATAATTTTAAATGGATTAAATC-AAATTTTT
12948318 -TTATTTTTAGGGGGTGAAATTAAAT
65 ATTATTTTTAGGGGGTGAAATTAAAT
* * * *
12948343 TATAATTTCACCATTTGAATAGCCTAT-TTTTTTATAATTTTTAATGGATTAAATGAATTTTTTA
1 TGTAATTTCACCATTTGAATAGCCTATATTTTTTATAATTTTAAATGGATTAAATCAAATTTTTA
12948407 TTATTTTTAGGGGG
66 TTATTTTTAGGGGG
12948421 CCAAAGTGCA
Statistics
Matches: 158, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
88 7 0.04
89 67 0.42
90 76 0.48
91 8 0.05
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.48
Consensus pattern (90 bp):
TGTAATTTCACCATTTGAATAGCCTATATTTTTTATAATTTTAAATGGATTAAATCAAATTTTTA
TTATTTTTAGGGGGTGAAATTAAAT
Found at i:12950263 original size:18 final size:17
Alignment explanation
Indices: 12950238--12950288 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
12950228 AGTTTTTTTT
12950238 ATTAAATTATTTATTTA
1 ATTAAATTATTTATTTA
*
12950255 ATATAAATTAATTT-TATA
1 AT-TAAATT-ATTTATTTA
*
12950273 ATTAAATTAATTATTT
1 ATTAAATTATTTATTT
12950289 GGATTGAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 3 0.11
17 10 0.36
18 11 0.39
19 4 0.14
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTAAATTATTTATTTA
Found at i:12958820 original size:60 final size:60
Alignment explanation
Indices: 12958727--12958846 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
12958717 ACTAAAACAT
12958727 TCAATAAACACAAACAAAAAATCAAAAAGATCTCATGCATATTCTTGATGAGTTTGGTAA
1 TCAATAAACACAAACAAAAAATCAAAAAGATCTCATGCATATTCTTGATGAGTTTGGTAA
12958787 TCAATAAACACAAACAAAAAATCAAAAAGATCTCATGCATATTCTTGATGAGTTTGGTAA
1 TCAATAAACACAAACAAAAAATCAAAAAGATCTCATGCATATTCTTGATGAGTTTGGTAA
12958847 ACATCCAAGT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.27
Consensus pattern (60 bp):
TCAATAAACACAAACAAAAAATCAAAAAGATCTCATGCATATTCTTGATGAGTTTGGTAA
Found at i:12965451 original size:33 final size:32
Alignment explanation
Indices: 12965380--12965461 Score: 111
Period size: 27 Copynumber: 2.7 Consensus size: 32
12965370 ACATAAAAAG
*
12965380 GGGGTTGCTAAGTGCTGATTCCCCCAA--A--
1 GGGGTTGCTAAGTGCTGATTCCCCAAATCATC
12965408 -GGGTTGCTAAGTGCTGATTCCCCAAATCATC
1 GGGGTTGCTAAGTGCTGATTCCCCAAATCATC
12965439 GGCGGTTGCTAAGTGCTGATTCC
1 GG-GGTTGCTAAGTGCTGATTCC
12965462 ACCGTGTCTT
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
27 25 0.53
29 1 0.02
32 1 0.02
33 20 0.43
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.28
Consensus pattern (32 bp):
GGGGTTGCTAAGTGCTGATTCCCCAAATCATC
Found at i:12965527 original size:33 final size:33
Alignment explanation
Indices: 12965485--12965611 Score: 112
Period size: 33 Copynumber: 3.6 Consensus size: 33
12965475 ATATGAAAGG
*
12965485 GGTTGCTAAGTGCTGATTCCCCAAATCATCGGT
1 GGTTGCTAAGTGCTGATTCCCCAAATCATAGGT
*
12965518 GGTTGCTAAGTGCTGATTCCACCGTAACGGATTGTATAAGG-
1 GGTTGCTAAGTGCTGATTCC-CC--AA---A-T-CAT-AGGT
* *
12965559 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCAAATCATAGGT
* *
12965592 GGTTCCTAAGTGTTGATTCC
1 GGTTGCTAAGTGCTGATTCC
12965612 ACCATATTTT
Statistics
Matches: 77, Mismatches: 7, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
32 2 0.03
33 40 0.52
34 3 0.04
35 1 0.01
36 2 0.03
38 1 0.01
39 1 0.01
40 3 0.04
41 22 0.29
42 2 0.03
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCAAATCATAGGT
Found at i:12965534 original size:76 final size:74
Alignment explanation
Indices: 12965408--12965659 Score: 301
Period size: 74 Copynumber: 3.3 Consensus size: 74
12965398 TTCCCCCAAA
*
12965408 GGGTTGCTAAGTGCTGATTCCCCAAATCATCGGCGGTTGCTAAGTGCTGATTCCACCGTGTCTTC
1 GGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTAAGTGCTGATTCCACC-TGT-TTC
12965473 AGATATG-AAAG
64 AGAT-TGAAAAG
** *
12965484 GGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTAAGTGCTGATTCCACC-GTAACGG
1 GGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTAAGTGCTGATTCCACCTGTTTCAG
*
12965548 ATTGTATAAG
66 ATTG-AAAAG
* * * * * **
12965558 GGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTCCTAAGTGTTGATTCCACCATATTTTT
1 GGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTAAGTGCTGATTCCACC-TGTTTCA
12965623 GAATGTGCAAAAGG
65 G-AT-TG-AAAA-G
12965637 GGGTTGCTAAGTGCTGATTCCCC
1 GGGTTGCTAAGTGCTGATTCCCC
12965660 CAAAGGGTTG
Statistics
Matches: 153, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
72 2 0.01
73 4 0.03
74 58 0.38
76 58 0.38
77 2 0.01
78 5 0.03
79 24 0.16
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.31
Consensus pattern (74 bp):
GGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTAAGTGCTGATTCCACCTGTTTCAG
ATTGAAAAG
Found at i:12967503 original size:24 final size:25
Alignment explanation
Indices: 12967474--12967535 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 25
12967464 TTCCAAGCCA
**
12967474 AATAACAGGAAGCTTATGTGAGCTT
1 AATAACAGGAAGCTTATCCGAGCTT
* *
12967499 -GTAACGGGAAGCTTATCCGAGCTT
1 AATAACAGGAAGCTTATCCGAGCTT
12967523 AATAACAGGAAGC
1 AATAACAGGAAGC
12967536 CCATAAGAGC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
24 20 0.67
25 10 0.33
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (25 bp):
AATAACAGGAAGCTTATCCGAGCTT
Found at i:12967746 original size:25 final size:25
Alignment explanation
Indices: 12967718--12967779 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
12967708 GAATGCTCAT
12967718 AAGAGCATATATACAGAAAGCTT-GG
1 AAGAGCATATAT-CAGAAAGCTTAGG
*
12967743 AAGAGCCATGTATCAGAAAGCTTAGG
1 AAGAG-CATATATCAGAAAGCTTAGG
*
12967769 -AGAGCTTATAT
1 AAGAGCATATAT
12967780 TGGGATGCTC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
24 5 0.16
25 19 0.59
26 8 0.25
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.23
Consensus pattern (25 bp):
AAGAGCATATATCAGAAAGCTTAGG
Found at i:12969877 original size:73 final size:73
Alignment explanation
Indices: 12969800--12969948 Score: 174
Period size: 73 Copynumber: 2.0 Consensus size: 73
12969790 CTAAAGGAGG
* ** * * * * * *
12969800 CAATTGTTATGCAACCTTTTGCTACCCACCAAAATAATCCCTTACTGGGCA-CTTTTCGAGAGTA
1 CAATTGTTATGCAACCCTTCACAACCCACCAAAACAACCCCTTACTAGGCACCCTTT-GAGAGAA
12969864 CCCCTCGTC
65 CCCCTCGTC
* *
12969873 CAATTGTTATGCCACCCTTCACAACCCACCAAGACAACCCCTTACTAGGCACCCTTTGAGAGAAC
1 CAATTGTTATGCAACCCTTCACAACCCACCAAAACAACCCCTTACTAGGCACCCTTTGAGAGAAC
*
12969938 CCCTTGTC
66 CCCTCGTC
12969946 CAA
1 CAA
12969949 GGACAAGTGG
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
73 59 0.94
74 4 0.06
ACGTcount: A:0.27, C:0.35, G:0.13, T:0.26
Consensus pattern (73 bp):
CAATTGTTATGCAACCCTTCACAACCCACCAAAACAACCCCTTACTAGGCACCCTTTGAGAGAAC
CCCTCGTC
Found at i:12972921 original size:15 final size:15
Alignment explanation
Indices: 12972901--12972929 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
12972891 AACATCATTT
12972901 TTATAGCATAAAAAA
1 TTATAGCATAAAAAA
12972916 TTATAGCATAAAAA
1 TTATAGCATAAAAA
12972930 GATGAAATAT
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:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (15 bp):
TTATAGCATAAAAAA
Found at i:12982658 original size:41 final size:41
Alignment explanation
Indices: 12982573--12982711 Score: 192
Period size: 41 Copynumber: 3.4 Consensus size: 41
12982563 ATTGATCTCG
* * *
12982573 GTTTTGCACACTTAGTGC-CAGTTATT-AACATAATTATTTG
1 GTTTCGCACACTTAGTGCTC-GTTATTCAACATCATTATTTA
* *
12982613 GTTTCGCACGCTTAGTGCTCGTTATTCAACATCATTACTTA
1 GTTTCGCACACTTAGTGCTCGTTATTCAACATCATTATTTA
*
12982654 GTTTCGCACAATTAGTGCTCGTTATTCAACATCATTATTTA
1 GTTTCGCACACTTAGTGCTCGTTATTCAACATCATTATTTA
*
12982695 ATTTCGCACACTTAGTG
1 GTTTCGCACACTTAGTG
12982712 TCAATCATAT
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
40 22 0.25
41 65 0.75
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.40
Consensus pattern (41 bp):
GTTTCGCACACTTAGTGCTCGTTATTCAACATCATTATTTA
Found at i:12992133 original size:108 final size:107
Alignment explanation
Indices: 12991882--12992202 Score: 502
Period size: 108 Copynumber: 3.0 Consensus size: 107
12991872 TGGTTTGAGA
* ** * * * *
12991882 TTTAAGAGGATATTTGGCTATTTGGTCAAATG-AGAAATCGAAACCTAACACATTAGGGCACGTT
1 TTTAAAAGGATATTTGGCTATTTGGTTGAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTT
12991946 TTCTCGAATTTTCCAAACGCAAAACATTGCCTTACTTTGAAAT
66 TTCTCGAA-TTTCCAAACGCAAAACATTGCCTTACTTTGAAAT
*
12991989 TTTAAAAGGATATTTGGCTATTTAGTTGAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTT
1 TTTAAAAGGATATTTGGCTATTTGGTTGAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTT
12992054 TTCTCGAATTTCCAAACGCAAAACATTGCCTTACTTTGAAAT
66 TTCTCGAATTTCCAAACGCAAAACATTGCCTTACTTTGAAAT
* *
12992096 TTTAAAATGATATTTGGCTATTTGGTTGAACGAAAAAAATCGAAACCCAGCAAATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTTGAACG-AAAAAATCGAAACCCAGCACATTAGGGCACGT
*
12992161 TTTCTCGAATTTCCAAACGCAAAATATTGCCTTA-TTTAGAAA
65 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTACTTT-GAAA
12992203 AATTTTCCTT
Statistics
Matches: 199, Mismatches: 12, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
107 94 0.47
108 105 0.53
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (107 bp):
TTTAAAAGGATATTTGGCTATTTGGTTGAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTT
TTCTCGAATTTCCAAACGCAAAACATTGCCTTACTTTGAAAT
Found at i:12992718 original size:52 final size:51
Alignment explanation
Indices: 12992595--12992723 Score: 135
Period size: 51 Copynumber: 2.5 Consensus size: 51
12992585 AAGCTAGAAG
* *
12992595 TAAATAATAA-ATAATAAAATATAAAAAGGAATACAAAACTAATTTATATAA
1 TAAATAATAATATAATAAAATAAAAAAAGGAAAACAAAACTAA-TTATATAA
* *
12992646 T-AAT-ATAATAATAAT-GAATAAATAAAAGGAAAATGAAAACTAA-TA-ATAA
1 TAAATAATAAT-ATAATAAAATAAA-AAAAGGAAAA-CAAAACTAATTATATAA
12992695 TAAATAATAATATAACTAAAATAAAAAAA
1 TAAATAATAATATAA-TAAAATAAAAAAA
12992724 AGGCTAAATT
Statistics
Matches: 65, Mismatches: 5, Indels: 16
0.76 0.06 0.19
Matches are distributed among these distances:
49 9 0.14
50 17 0.26
51 25 0.38
52 14 0.22
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (51 bp):
TAAATAATAATATAATAAAATAAAAAAAGGAAAACAAAACTAATTATATAA
Found at i:12996792 original size:95 final size:95
Alignment explanation
Indices: 12996677--12996931 Score: 327
Period size: 95 Copynumber: 2.7 Consensus size: 95
12996667 GTTTTTAGAT
* * * * * * *
12996677 TTTAGGGTTTTAAGGAAAAAATTAAATCAATAAGAGTTTAGGGTTTCTTAATTAACTTAATTAT-
1 TTTAGGCTTTTAAGGAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATT-ATTATA
*
12996741 AAATTTTAAAAAATTAGATTAGAGTTTAGTG
65 AAATTTTAAAAAAATAGATTAGAGTTTAGTG
* * *
12996772 TTTATGCTTTTAAGAAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTATTATAA
1 TTTAGGCTTTTAAGGAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTATTATAA
*
12996837 AATTTTAAAAAAATAGATTAGGGTTTAGTG
66 AATTTTAAAAAAATAGATTAGAGTTTAGTG
* * * * *
12996867 TTTAGGGTTTTAAGGGAAAAATTAAATAAATTAGGGTATAGGGTTACTTTA-TAAATT-TTAAAA
1 TTTAGGCTTTTAAGGAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTATTATAA
12996930 AA
66 AA
12996932 AATTAGACTG
Statistics
Matches: 140, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
93 7 0.05
94 11 0.08
95 122 0.87
ACGTcount: A:0.42, C:0.02, G:0.17, T:0.39
Consensus pattern (95 bp):
TTTAGGCTTTTAAGGAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTATTATAA
AATTTTAAAAAAATAGATTAGAGTTTAGTG
Found at i:12997408 original size:163 final size:163
Alignment explanation
Indices: 12997232--12997557 Score: 652
Period size: 163 Copynumber: 2.0 Consensus size: 163
12997222 ATGAAAAACA
12997232 GAAAAAGAGTTAAAAGTTTTTATATATTAAATTTATCTTTGTTGTAATTTTAAATTTATAATAAA
1 GAAAAAGAGTTAAAAGTTTTTATATATTAAATTTATCTTTGTTGTAATTTTAAATTTATAATAAA
12997297 TTAAAAATATTAATATAATATAATATTCAAAAAAAACATGAAATTTAATATAATACAATCATATT
66 TTAAAAATATTAATATAATATAATATTCAAAAAAAACATGAAATTTAATATAATACAATCATATT
12997362 AATAATAGAATATTTTAGGGATAATAATTCCTT
131 AATAATAGAATATTTTAGGGATAATAATTCCTT
12997395 GAAAAAGAGTTAAAAGTTTTTATATATTAAATTTATCTTTGTTGTAATTTTAAATTTATAATAAA
1 GAAAAAGAGTTAAAAGTTTTTATATATTAAATTTATCTTTGTTGTAATTTTAAATTTATAATAAA
12997460 TTAAAAATATTAATATAATATAATATTCAAAAAAAACATGAAATTTAATATAATACAATCATATT
66 TTAAAAATATTAATATAATATAATATTCAAAAAAAACATGAAATTTAATATAATACAATCATATT
12997525 AATAATAGAATATTTTAGGGATAATAATTCCTT
131 AATAATAGAATATTTTAGGGATAATAATTCCTT
12997558 AATTAAGGTC
Statistics
Matches: 163, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
163 163 1.00
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.40
Consensus pattern (163 bp):
GAAAAAGAGTTAAAAGTTTTTATATATTAAATTTATCTTTGTTGTAATTTTAAATTTATAATAAA
TTAAAAATATTAATATAATATAATATTCAAAAAAAACATGAAATTTAATATAATACAATCATATT
AATAATAGAATATTTTAGGGATAATAATTCCTT
Found at i:12997792 original size:11 final size:11
Alignment explanation
Indices: 12997776--12997802 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
12997766 TTAGACTTAA
12997776 TAATTAATTTC
1 TAATTAATTTC
12997787 TAATTAATTTC
1 TAATTAATTTC
12997798 TAATT
1 TAATT
12997803 TTTTAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (11 bp):
TAATTAATTTC
Found at i:12998055 original size:39 final size:40
Alignment explanation
Indices: 12997968--12998089 Score: 156
Period size: 39 Copynumber: 3.0 Consensus size: 40
12997958 CGAGGAGCAC
* *
12997968 TTTGTCCACGTGGACACAAAGTGCTCCCTCAAGGAAGCGTTT
1 TTTGTCCACGTGG--ACAAAGCGCTTCCTCAAGGAAGCGTTT
* **
12998010 TCTGTCCACGTGGACAAAGCGCTTCCTTGA-GAAGCGTTT
1 TTTGTCCACGTGGACAAAGCGCTTCCTCAAGGAAGCGTTT
* *
12998049 TTTGTCCACGTGGACAAATCGCTTCCTCAATGAAGCGTTT
1 TTTGTCCACGTGGACAAAGCGCTTCCTCAAGGAAGCGTTT
12998089 T
1 T
12998090 CCTGTTTTAT
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
39 35 0.50
40 23 0.33
42 12 0.17
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (40 bp):
TTTGTCCACGTGGACAAAGCGCTTCCTCAAGGAAGCGTTT
Found at i:12998712 original size:121 final size:121
Alignment explanation
Indices: 12998494--12998848 Score: 473
Period size: 121 Copynumber: 2.9 Consensus size: 121
12998484 TTGTAACAGT
* * * * * * *
12998494 TCATTTTCAATGGTGTCAGAAACAATTATTTTGGGACTACAATTTCGATCAGTGAGTTAGTAAAT
1 TCATTTTCAGTAGAGTCAGAAACAGTAATTTTGGGACCACAATTT-GACCAGTGAGTTAGTAAAT
* *
12998559 ATTATTTATTTAATATTTACAAGGTTATTAGAGTGTCGTATAAAAATTTGTAACAAAC
65 ATTATTTATTTAATATTTACAAAGTTATTAGAGTGTCGTATTAAAATTTGTAA-AAAC
* * * *
12998617 -CA-TTTCAGTAGAGTCGGAAACCGTAATTTTGAGACCACAATTTAGACCAATGAGTTAGTAAAT
1 TCATTTTCAGTAGAGTCAGAAACAGTAATTTTGGGACCACAATTT-GACCAGTGAGTTAGTAAAT
* *
12998680 ATTATTTATTTAATATTTACAACGTTATTAGAGTGTCGTATTAAAA-TTGTAATAAC
65 ATTATTTATTTAATATTTACAAAGTTATTAGAGTGTCGTATTAAAATTTGTAAAAAC
* * *
12998736 TCATTTTCAGTGGTGTCAGAAACAGTAGTTTTGGGACCACAATTCTGACCAGTGAGTTAGTAAAT
1 TCATTTTCAGTAGAGTCAGAAACAGTAATTTTGGGACCACAATT-TGACCAGTGAGTTAGTAAAT
* *
12998801 ATTATTTATTTAATATTTACAAATTTATTATAGTGTCGTATTAAAATT
65 ATTATTTATTTAATATTTACAAAGTTATTAGAGTGTCGTATTAAAATT
12998849 CAATTAGGTA
Statistics
Matches: 203, Mismatches: 25, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
119 3 0.01
120 8 0.04
121 188 0.93
122 4 0.02
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (121 bp):
TCATTTTCAGTAGAGTCAGAAACAGTAATTTTGGGACCACAATTTGACCAGTGAGTTAGTAAATA
TTATTTATTTAATATTTACAAAGTTATTAGAGTGTCGTATTAAAATTTGTAAAAAC
Found at i:13007677 original size:27 final size:26
Alignment explanation
Indices: 13007623--13007674 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 26
13007613 TCTGACTCCA
*
13007623 AGGGAGAGTGAGGAGGAGAGGAGAAG
1 AGGGAGAGTGAGGAGGAGAGAAGAAG
13007649 AGGGAGAGTGGAGGAGGAAGAGAAGA
1 AGGGAGAGT-GAGGAGG-AGAGAAGA
13007675 GAGCAAATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 9 0.39
27 7 0.30
28 7 0.30
ACGTcount: A:0.40, C:0.00, G:0.56, T:0.04
Consensus pattern (26 bp):
AGGGAGAGTGAGGAGGAGAGAAGAAG
Found at i:13007907 original size:3 final size:3
Alignment explanation
Indices: 13007901--13007926 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13007891 TTTCGTTATT
13007901 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
13007927 TGTCTGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:13018029 original size:67 final size:67
Alignment explanation
Indices: 13017921--13018055 Score: 216
Period size: 67 Copynumber: 2.0 Consensus size: 67
13017911 TTTCCATTTC
* * * **
13017921 AGAGAGCACGCTTCCGCGAACCTTATTTCTTACAGTGGGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAACGGGATTACCAGTCCAGGCTAAATCCCCTG
13017986 TA
66 TA
*
13017988 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAACGGGATTACCAGTCCAGGCTAAATCCCTTG
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAACGGGATTACCAGTCCAGGCTAAATCCCCTG
13018053 TA
66 TA
13018055 A
1 A
13018056 TATAAACTTA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCGAACCTCATTTCTTACAACGGGATTACCAGTCCAGGCTAAATCCCCTG
TA
Found at i:13018267 original size:57 final size:59
Alignment explanation
Indices: 13018174--13018320 Score: 183
Period size: 57 Copynumber: 2.5 Consensus size: 59
13018164 ACCTTAATTC
* * * *
13018174 GGATTACCCGTCTGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGGCTATATC-A-A
1 GGATCACCCGTCTGGGCTAGAT-CTTTTTCCACATATTCTTCAGGAGGGCTATATCGATA
* *
13018232 -GATCACCCGTCCGGGCTAGATCTTTTTCACACATATTCTTTAGGAGGGCTATATCAGGATA
1 GGATCACCCGTCTGGGCTAGATCTTTTTC-CACATATTCTTCAGGAGGGCTATATC--GATA
13018293 GGATCACCCGTCTGGGCTAGATCTTTTT
1 GGATCACCCGTCTGGGCTAGATCTTTTT
13018321 TACCGTCAAT
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
56 6 0.08
57 42 0.55
60 1 0.01
61 1 0.01
62 26 0.34
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (59 bp):
GGATCACCCGTCTGGGCTAGATCTTTTTCCACATATTCTTCAGGAGGGCTATATCGATA
Found at i:13024345 original size:2 final size:2
Alignment explanation
Indices: 13024338--13024364 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13024328 GTAAACTTAA
13024338 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
13024365 GAACTTATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13029704 original size:15 final size:15
Alignment explanation
Indices: 13029662--13029709 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
13029652 CTAATATCTC
*
13029662 GATACCCATATCTTT
1 GATACCCATATATTT
**
13029677 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
13029692 GATACCCATATATTT
1 GATACCCATATATTT
13029707 GAT
1 GAT
13029710 TTTCCATAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
14 4 0.15
15 18 0.69
16 4 0.15
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (15 bp):
GATACCCATATATTT
Found at i:13030776 original size:35 final size:36
Alignment explanation
Indices: 13030730--13030799 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 36
13030720 ACTTAGTCCT
13030730 TCTCGACCCCTCAATGGTCACCCCA-TGGGTATGGC
1 TCTCGACCCCTCAATGGTCACCCCATTGGGTATGGC
*
13030765 TCTCGACCCCTCGATGGTCACCCCATTGGGTATGG
1 TCTCGACCCCTCAATGGTCACCCCATTGGGTATGG
13030800 TCATCTTGGC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 24 0.73
36 9 0.27
ACGTcount: A:0.16, C:0.36, G:0.24, T:0.24
Consensus pattern (36 bp):
TCTCGACCCCTCAATGGTCACCCCATTGGGTATGGC
Found at i:13033455 original size:21 final size:22
Alignment explanation
Indices: 13033431--13033472 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13033421 TGTTAGTGTT
*
13033431 TTGCTGCTA-TTTGTTATTATA
1 TTGCTACTATTTTGTTATTATA
*
13033452 TTGCTACTATTTTGTTGTTAT
1 TTGCTACTATTTTGTTATTAT
13033473 TATTTAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.17, C:0.10, G:0.14, T:0.60
Consensus pattern (22 bp):
TTGCTACTATTTTGTTATTATA
Found at i:13042404 original size:23 final size:23
Alignment explanation
Indices: 13042374--13042463 Score: 81
Period size: 23 Copynumber: 3.9 Consensus size: 23
13042364 ATGTGTGTAT
*
13042374 CTTTTCATATTCATGCCTCTTAA
1 CTTTTCATATTCAAGCCTCTTAA
* * *
13042397 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGCCTCTTAA
* ** * **
13042420 CTATTCATATTCAAGTTTTTTCG
1 CTTTTCATATTCAAGCCTCTTAA
*
13042443 CTTTTCATATTCAAGTCTCTT
1 CTTTTCATATTCAAGCCTCTT
13042464 CACTCTTCTA
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.20, C:0.24, G:0.06, T:0.50
Consensus pattern (23 bp):
CTTTTCATATTCAAGCCTCTTAA
Found at i:13042430 original size:46 final size:46
Alignment explanation
Indices: 13042377--13042467 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
13042367 TGTGTATCTT
* *
13042377 TTCATATTCATGCCTCTTAACTTTTCATCTTCAAGTCTCTTCACTA
1 TTCATATTCAAGCCTCTTAACTTTTCATATTCAAGTCTCTTCACTA
** * **
13042423 TTCATATTCAAGTTTTTTCGCTTTTCATATTCAAGTCTCTTCACT
1 TTCATATTCAAGCCTCTTAACTTTTCATATTCAAGTCTCTTCACT
13042468 CTTCTAACTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.21, C:0.25, G:0.05, T:0.48
Consensus pattern (46 bp):
TTCATATTCAAGCCTCTTAACTTTTCATATTCAAGTCTCTTCACTA
Found at i:13046909 original size:23 final size:23
Alignment explanation
Indices: 13046881--13046974 Score: 125
Period size: 23 Copynumber: 4.1 Consensus size: 23
13046871 ATGTGTGTAT
* *
13046881 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
13046904 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * * *
13046927 CTATTCATATTCAAATTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
13046950 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
13046973 CT
1 CT
13046975 CTTCTAACTT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.23, C:0.26, G:0.03, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:13054770 original size:11 final size:11
Alignment explanation
Indices: 13054745--13054825 Score: 82
Period size: 11 Copynumber: 7.5 Consensus size: 11
13054735 ATTTTTTTTA
13054745 TTTTAAAATACTT
1 TTTTAAAAT--TT
13054758 TTTTAAAATTT
1 TTTTAAAATTT
13054769 TTTT--AA---
1 TTTTAAAATTT
*
13054775 TTTTAAAATAT
1 TTTTAAAATTT
*
13054786 GTTTAAAATTT
1 TTTTAAAATTT
13054797 TTTTAAAATTTT
1 TTTTAAAA-TTT
13054809 TTTTAAAATTT
1 TTTTAAAATTT
13054820 TTTTAA
1 TTTTAA
13054826 TTTTAAAATA
Statistics
Matches: 59, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
6 4 0.07
8 2 0.03
9 2 0.03
11 31 0.53
12 11 0.19
13 9 0.15
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (11 bp):
TTTTAAAATTT
Found at i:13054771 original size:12 final size:12
Alignment explanation
Indices: 13054740--13054823 Score: 64
Period size: 12 Copynumber: 6.6 Consensus size: 12
13054730 TTTTTATTTT
13054740 TTTTATTTTAAAA
1 TTTT-TTTTAAAA
*
13054753 TACTTTTTTAAAA
1 T-TTTTTTTAAAA
13054766 TTTTTTTAATTTTAAAA
1 --TTTTT--T-TTAAAA
* *
13054783 TATGTT-TAAAA
1 TTTTTTTTAAAA
13054794 -TTTTTTTAAAA
1 TTTTTTTTAAAA
13054805 TTTTTTTTAAAA
1 TTTTTTTTAAAA
13054817 TTTTTTT
1 TTTTTTT
13054824 AATTTTAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 17
0.71 0.08 0.21
Matches are distributed among these distances:
10 3 0.05
11 10 0.18
12 18 0.32
13 10 0.18
14 5 0.09
15 4 0.07
16 1 0.02
17 6 0.11
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (12 bp):
TTTTTTTTAAAA
Found at i:13054820 original size:51 final size:52
Alignment explanation
Indices: 13054745--13054845 Score: 177
Period size: 51 Copynumber: 2.0 Consensus size: 52
13054735 ATTTTTTTTA
13054745 TTTTAAAATACTTTTTTAAAATTTTTTTAATTTTAAAATATGTTTAAAATTT
1 TTTTAAAATACTTTTTTAAAATTTTTTTAATTTTAAAATATGTTTAAAATTT
* *
13054797 TTTTAAAAT-TTTTTTTAAAATTTTTTTAATTTTAAAATATTTTTAAAAT
1 TTTTAAAATACTTTTTTAAAATTTTTTTAATTTTAAAATATGTTTAAAAT
13054846 AATTTTTTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 38 0.81
52 9 0.19
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (52 bp):
TTTTAAAATACTTTTTTAAAATTTTTTTAATTTTAAAATATGTTTAAAATTT
Found at i:13054840 original size:11 final size:11
Alignment explanation
Indices: 13054775--13054852 Score: 67
Period size: 11 Copynumber: 7.4 Consensus size: 11
13054765 ATTTTTTTAA
13054775 TTTTAAAATAT
1 TTTTAAAATAT
* *
13054786 GTTTAAAATTT
1 TTTTAAAATAT
*
13054797 TTTTAAAATTTT
1 TTTTAAAA-TAT
13054809 TTTTAAAAT-T
1 TTTTAAAATAT
*
13054819 TTTT----TAA
1 TTTTAAAATAT
13054826 TTTTAAAATAT
1 TTTTAAAATAT
13054837 TTTTAAAATAAT
1 TTTTAAAAT-AT
13054849 TTTT
1 TTTT
13054853 TTAATTTTTA
Statistics
Matches: 55, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
6 1 0.02
7 4 0.07
10 5 0.09
11 28 0.51
12 17 0.31
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:13054850 original size:22 final size:22
Alignment explanation
Indices: 13054775--13054873 Score: 68
Period size: 22 Copynumber: 4.7 Consensus size: 22
13054765 ATTTTTTTAA
*
13054775 TTTTAAAAT-ATGTTTAAAATTT
1 TTTTAAAATAAT-TTTAAAATAT
**
13054797 TTTTAAAATTTTTTTTAAAAT-T
1 TTTTAAAA-TAATTTTAAAATAT
13054819 TTTT----TAATTTTAAAATAT
1 TTTTAAAATAATTTTAAAATAT
***
13054837 TTTTAAAATAATTTTTTTA-AT
1 TTTTAAAATAATTTTAAAATAT
13054858 TTTTAAAATAAATTTT
1 TTTTAAAAT-AATTTT
13054874 TGGTATTTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
17 10 0.16
18 5 0.08
21 11 0.17
22 27 0.43
23 9 0.14
24 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (22 bp):
TTTTAAAATAATTTTAAAATAT
Found at i:13054850 original size:31 final size:31
Alignment explanation
Indices: 13054796--13054867 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
13054786 GTTTAAAATT
**
13054796 TTTTTAAAAT-TTTTTTTAAAATTTTTTTAA
1 TTTTTAAAATATTTTTAAAAAATTTTTTTAA
13054826 -TTTTAAAATATTTTTAAAATAATTTTTTTAA
1 TTTTTAAAATATTTTTAAAA-AATTTTTTTAA
13054857 TTTTTAAAATA
1 TTTTTAAAATA
13054868 AATTTTTGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
29 9 0.24
30 7 0.19
31 11 0.30
32 10 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (31 bp):
TTTTTAAAATATTTTTAAAAAATTTTTTTAA
Found at i:13054861 original size:21 final size:21
Alignment explanation
Indices: 13054835--13054874 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
13054825 ATTTTAAAAT
*
13054835 ATTTTTAAAATAATTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
13054856 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
13054875 GGTATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:13054874 original size:51 final size:49
Alignment explanation
Indices: 13054756--13054867 Score: 138
Period size: 51 Copynumber: 2.2 Consensus size: 49
13054746 TTTAAAATAC
*
13054756 TTTTTTAAAATTTTTTTAATTTTAAAATATGTTTAAAATTTTTTTAAAA
1 TTTTTTAAAATATTTTTAATTTTAAAATATGTTTAAAATTTTTTTAAAA
* * *
13054805 TTTTTTTTAAAATTTTTTTAATTTTAAAATATTTTTAAAATAATTTTTT-TAA
1 --TTTTTTAAAATATTTTTAATTTTAAAATATGTTTAAAAT--TTTTTTAAAA
13054857 -TTTTTAAAATA
1 TTTTTTAAAATA
13054868 AATTTTTGGT
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
49 10 0.18
51 38 0.68
52 2 0.04
53 6 0.11
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (49 bp):
TTTTTTAAAATATTTTTAATTTTAAAATATGTTTAAAATTTTTTTAAAA
Found at i:13054881 original size:22 final size:20
Alignment explanation
Indices: 13054834--13054881 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 20
13054824 AATTTTAAAA
*
13054834 TATTTTTAAAATAATTTTTT
1 TATTTTTAAAATAATTTTTG
13054854 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAAT-AATTTTT-G
13054877 TATTT
1 TATTT
13054882 ATTTAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 1 0.04
21 11 0.46
22 11 0.46
23 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTG
Found at i:13060818 original size:26 final size:25
Alignment explanation
Indices: 13060771--13060820 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
13060761 AATAACGTGT
*
13060771 AATATATTTAAAAATTTTAATTTTA
1 AATAGATTTAAAAATTTTAATTTTA
*
13060796 AATAGATTTAAAAATTTTAAATTTA
1 AATAGATTTAAAAATTTTAATTTTA
13060821 GAAACAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
AATAGATTTAAAAATTTTAATTTTA
Found at i:13060996 original size:18 final size:19
Alignment explanation
Indices: 13060975--13061010 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
13060965 CTAATAATAA
13060975 TGTGCATATT-AATTTAAT
1 TGTGCATATTAAATTTAAT
13060993 TGTGCATATTAAATTTAA
1 TGTGCATATTAAATTTAA
13061011 ATTAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (19 bp):
TGTGCATATTAAATTTAAT
Found at i:13064869 original size:107 final size:107
Alignment explanation
Indices: 13064698--13064985 Score: 355
Period size: 107 Copynumber: 2.7 Consensus size: 107
13064688 TGACAATAAA
* * * * *
13064698 ACATGAAATAT-TTCAATCTTAGAATGCAAAAAAATTAGATTAACTTGTGAGTAAAACGAAATTT
1 ACATGAAATATGTACAATATTAAAATG-AAAAAAA-TAGATTAAATTGTGAGTAAAATGAAATTT
** * * *
13064762 AAACACATAAATGTATCAGATTAAGTATACTAAATGAATACAAC
64 AAACACATAAATACATCAAATTAAGAATACTAAATGAATAAAAC
* ** *
13064806 ACATGAAATTTGTATGATATTAAAATGAAAAAAATAGATTAAATTGTGAATAAAATGAAATTTAA
1 ACATGAAATATGTACAATATTAAAATGAAAAAAATAGATTAAATTGTGAGTAAAATGAAATTTAA
* *
13064871 ACAGACAAATACATCAAATTAAGAATACTAAATGAATAAAAC
66 ACACATAAATACATCAAATTAAGAATACTAAATGAATAAAAC
* * * * *
13064913 ACGTGAAATATGTACAATATTAAAATG-AAAAAAGAGATTAAATTGTGAGCAAAATAAAATTTAG
1 ACATGAAATATGTACAATATTAAAATGAAAAAAATAGATTAAATTGTGAGTAAAATGAAATTTAA
13064977 ACACATAAA
66 ACACATAAA
13064986 AGCATAAGAC
Statistics
Matches: 152, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
106 39 0.26
107 86 0.57
108 17 0.11
109 10 0.07
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.27
Consensus pattern (107 bp):
ACATGAAATATGTACAATATTAAAATGAAAAAAATAGATTAAATTGTGAGTAAAATGAAATTTAA
ACACATAAATACATCAAATTAAGAATACTAAATGAATAAAAC
Found at i:13065014 original size:106 final size:106
Alignment explanation
Indices: 13064692--13065014 Score: 343
Period size: 107 Copynumber: 3.0 Consensus size: 106
13064682 ACTAATTGAC
* * * * *
13064692 AATAAAACA-TGAAATAT-TTCAATCTTAGAATGCAAAAAAATTAGATTAACTTGTGAGTAAAAC
1 AATAAAACACTGAAATATGTACAATATTAAAATG-AAAAAAA-TAGATTAAATTGTGAGTAAAAT
* * *
13064755 GAAATTTAAACACATAAATGTATCAGATTAAGT-ATACTAAATG
64 GAAATTTAAACACATAAAAGCATAAGATTAA-TAATACTAAATG
* * ** *
13064798 AATACAACACATGAAATTTGTATGATATTAAAATGAAAAAAATAGATTAAATTGTGAATAAAATG
1 AATAAAACAC-TGAAATATGTACAATATTAAAATGAAAAAAATAGATTAAATTGTGAGTAAAATG
* * *
13064863 AAATTTAAACAGACAAATA-CATCAA-ATTAAGAATACTAAATG
65 AAATTTAAACACATAAA-AGCAT-AAGATTAATAATACTAAATG
* * *
13064905 AATAAAACACGTGAAATATGTACAATATTAAAATG-AAAAAAGAGATTAAATTGTGAGCAAAATA
1 AATAAAACAC-TGAAATATGTACAATATTAAAATGAAAAAAATAGATTAAATTGTGAGTAAAATG
* * *
13064969 AAATTTAGACACATAAAAGCATAAGACTAATAATATTAAATG
65 AAATTTAAACACATAAAAGCATAAGATTAATAATACTAAATG
13065011 AATA
1 AATA
13065015 TAACTATTTA
Statistics
Matches: 178, Mismatches: 31, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
105 3 0.02
106 68 0.38
107 82 0.46
108 15 0.08
109 10 0.06
ACGTcount: A:0.54, C:0.08, G:0.11, T:0.27
Consensus pattern (106 bp):
AATAAAACACTGAAATATGTACAATATTAAAATGAAAAAAATAGATTAAATTGTGAGTAAAATGA
AATTTAAACACATAAAAGCATAAGATTAATAATACTAAATG
Found at i:13067017 original size:11 final size:9
Alignment explanation
Indices: 13066959--13067020 Score: 72
Period size: 9 Copynumber: 6.9 Consensus size: 9
13066949 CAAATCTAAC
13066959 TCTCTCAAT
1 TCTCTCAAT
13066968 TCTCTCTAA-
1 TCTCTC-AAT
* *
13066977 ACTCTTAAT
1 TCTCTCAAT
*
13066986 TCTCTCAAC
1 TCTCTCAAT
13066995 TCTCTCAAT
1 TCTCTCAAT
13067004 TCTCTCAAT
1 TCTCTCAAT
*
13067013 TTTCTCAA
1 TCTCTCAA
13067021 GTTTTGTTCG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
8 2 0.05
9 40 0.91
10 2 0.05
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (9 bp):
TCTCTCAAT
Found at i:13071563 original size:20 final size:21
Alignment explanation
Indices: 13071540--13071579 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13071530 GTTATTATGG
13071540 TTTTCTA-ATAATTATAAAAC
1 TTTTCTATATAATTATAAAAC
*
13071560 TTTTCTATTTAATTATAAAA
1 TTTTCTATATAATTATAAAA
13071580 ATATAATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTTCTATATAATTATAAAAC
Found at i:13079576 original size:21 final size:23
Alignment explanation
Indices: 13079552--13079594 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
13079542 TAGGAGTTGG
*
13079552 GTATTGCAATACC-C-ATAGTTA
1 GTATCGCAATACCACTATAGTTA
*
13079573 GTATCGCGATACCACTATAGTT
1 GTATCGCAATACCACTATAGTT
13079595 GGTCTCGATC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 11 0.61
22 1 0.06
23 6 0.33
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (23 bp):
GTATCGCAATACCACTATAGTTA
Found at i:13095631 original size:51 final size:53
Alignment explanation
Indices: 13095576--13095684 Score: 150
Period size: 53 Copynumber: 2.1 Consensus size: 53
13095566 TTTCTCCTCC
*
13095576 CATTTCTT-TACCTATT-CTCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTGT
1 CATTTCTTGTACCTATTGATCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTGT
* *** *
13095627 CATTTGTTGTGGTTTTTGATCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTGT
1 CATTTCTTGTACCTATTGATCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTGT
13095680 CATTT
1 CATTT
13095685 TGTTGTGGTT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
51 7 0.14
52 4 0.08
53 39 0.78
ACGTcount: A:0.07, C:0.25, G:0.10, T:0.58
Consensus pattern (53 bp):
CATTTCTTGTACCTATTGATCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTGT
Found at i:13095656 original size:53 final size:54
Alignment explanation
Indices: 13095593--13095699 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 54
13095583 TTACCTATTC
13095593 TCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTGTCA-TTTGTTGTGGTTTTTGA
1 TCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTGTCATTTTGTTGTGGTTTTTGA
13095646 TCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTGTCATTTTGTTGTGGTTTTTGA
1 TCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTGTCATTTTGTTGTGGTTTTTGA
13095700 AATTCACTGC
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 36 0.68
54 17 0.32
ACGTcount: A:0.06, C:0.21, G:0.15, T:0.59
Consensus pattern (54 bp):
TCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTGTCATTTTGTTGTGGTTTTTGA
Found at i:13098005 original size:24 final size:24
Alignment explanation
Indices: 13097978--13098055 Score: 58
Period size: 26 Copynumber: 3.3 Consensus size: 24
13097968 TATATATTTT
13097978 TTATTAAATTATATTTAATAATAA
1 TTATTAAATTATATTTAATAATAA
* *
13098002 TTATTTTAAATTAT-TATTAA-ATTAT
1 TTA--TTAAATTATAT-TTAATAATAA
* *
13098027 TTATT-ATTTATA-TTAATAAT-C
1 TTATTAAATTATATTTAATAATAA
13098048 TTATTAAA
1 TTATTAAA
13098056 ATTTAATAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
21 9 0.21
22 8 0.19
23 2 0.05
24 3 0.07
25 7 0.17
26 13 0.31
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (24 bp):
TTATTAAATTATATTTAATAATAA
Found at i:13098019 original size:56 final size:57
Alignment explanation
Indices: 13097910--13098042 Score: 155
Period size: 56 Copynumber: 2.3 Consensus size: 57
13097900 TATATTATTA
* *
13097910 TATATTATGATTTTAGTAAATTAATATAAGAATAATTATATTAAGAATTTTATTAAAT
1 TATA-TATTATTTTATTAAATTAATATAAGAATAATTATATTAAGAATTTTATTAAAT
* * *
13097968 TATATATT-TTTTATTAAATTATATTTAATAATAATTAT-TTTA-AATTATTATTAAAT
1 TATATATTATTTTATTAAATTA-ATATAAGAATAATTATATTAAGAATT-TTATTAAAT
*
13098024 TATTTATTATTTATATTAA
1 TATATATTATTT-TATTAA
13098043 TAATCTTATT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
55 4 0.06
56 31 0.48
57 20 0.31
58 10 0.15
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (57 bp):
TATATATTATTTTATTAAATTAATATAAGAATAATTATATTAAGAATTTTATTAAAT
Found at i:13098027 original size:11 final size:11
Alignment explanation
Indices: 13098000--13098032 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
13097990 ATTTAATAAT
13098000 AATTATT-TTA
1 AATTATTATTA
13098010 AATTATTATTA
1 AATTATTATTA
13098021 AATTATTTATTA
1 AATTA-TTATTA
13098033 TTTATATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 8 0.38
12 6 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
AATTATTATTA
Found at i:13098181 original size:39 final size:43
Alignment explanation
Indices: 13098138--13098244 Score: 132
Period size: 45 Copynumber: 2.5 Consensus size: 43
13098128 TTTCCTTCTG
*
13098138 CTATTACGCCTCTATTCCATT-CAACCAA-ACACAA-GAA-TA
1 CTATTACGCCTCTATTCCATTACAACCAACAAACAATGAATTA
** *
13098177 CTATTACGCCTCTATTCCATTACATTCAACTAAACAATTGAATTG
1 CTATTACGCCTCTATTCCATTACAACCAAC-AAACAA-TGAATTA
13098222 CTATTACGCCTCTATTCCATTAC
1 CTATTACGCCTCTATTCCATTAC
13098245 GTCTCTATTC
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
39 21 0.36
40 5 0.09
42 5 0.09
44 3 0.05
45 24 0.41
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.33
Consensus pattern (43 bp):
CTATTACGCCTCTATTCCATTACAACCAACAAACAATGAATTA
Found at i:13098245 original size:16 final size:16
Alignment explanation
Indices: 13098224--13098276 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
13098214 TTGAATTGCT
13098224 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
13098240 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
13098256 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
13098272 ATTAC
1 ATTAC
13098277 AGTGAACCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.40
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:13108347 original size:11 final size:11
Alignment explanation
Indices: 13108328--13108360 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
13108318 TTTTTTGTAT
13108328 AATTT-TTTTA
1 AATTTATTTTA
13108338 AATTTATTTTA
1 AATTTATTTTA
*
13108349 TATTTATTTTA
1 AATTTATTTTA
13108360 A
1 A
13108361 GTACAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
AATTTATTTTA
Found at i:13108910 original size:11 final size:10
Alignment explanation
Indices: 13108851--13108911 Score: 59
Period size: 10 Copynumber: 5.9 Consensus size: 10
13108841 TGCTATATGC
*
13108851 TTATAATTTT
1 TTATATTTTT
*
13108861 TTGTATTTTT
1 TTATATTTTT
*
13108871 TTAGATTTTT
1 TTATATTTTT
*
13108881 TTATATTTAT
1 TTATATTTTT
*
13108891 TCATCATTTTT
1 TTAT-ATTTTT
13108902 TTATTATTTT
1 TTA-TATTTT
13108912 CAAAAGAAAG
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
10 27 0.68
11 12 0.30
12 1 0.03
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.72
Consensus pattern (10 bp):
TTATATTTTT
Found at i:13109244 original size:21 final size:21
Alignment explanation
Indices: 13109199--13109245 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
13109189 TCTCTTTTTT
* *
13109199 TTTTTTGGTATTCCATTATAA
1 TTTTTTGGTAATCCATCATAA
13109220 -TTTTTGGTACATCC-TCATAA
1 TTTTTTGGTA-ATCCATCATAA
13109240 TTTTTT
1 TTTTTT
13109246 TATACTTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.21, C:0.13, G:0.09, T:0.57
Consensus pattern (21 bp):
TTTTTTGGTAATCCATCATAA
Found at i:13109401 original size:20 final size:20
Alignment explanation
Indices: 13109376--13109583 Score: 97
Period size: 20 Copynumber: 10.4 Consensus size: 20
13109366 TTGGTATTTA
*
13109376 TACATCCTTATAATTTTTGG
1 TACATCCTCATAATTTTTGG
* **
13109396 TACATCCTCAT-TTTTTTTA
1 TACATCCTCATAATTTTTGG
* * **
13109415 TACTTCCTCATATTTTTTAA
1 TACATCCTCATAATTTTTGG
* *
13109435 TATATTCTCTCATAATTTTTTG
1 TACA-TC-CTCATAATTTTTGG
* *
13109457 TACATCTTTATAATTTTTGG
1 TACATCCTCATAATTTTTGG
* * * **
13109477 TGCATCCTCGTATTTTTTCA
1 TACATCCTCATAATTTTTGG
* *
13109497 TGCAT-C-CATGTATTTTTGG
1 TACATCCTCAT-AATTTTTGG
13109516 T--ATCCTTCAT-ATTTTTGG
1 TACATCC-TCATAATTTTTGG
* * **
13109534 TA-TTCCCTCGTAACTTTTTTA
1 TACAT-CCTCATAA-TTTTTGG
*
13109555 TACATCTTCATAATTTTTGG
1 TACATCCTCATAATTTTTGG
13109575 TACATCCTC
1 TACATCCTC
13109584 TCTTTTTTTT
Statistics
Matches: 139, Mismatches: 37, Indels: 24
0.69 0.19 0.12
Matches are distributed among these distances:
17 2 0.01
18 12 0.09
19 26 0.19
20 67 0.48
21 17 0.12
22 15 0.11
ACGTcount: A:0.21, C:0.19, G:0.08, T:0.52
Consensus pattern (20 bp):
TACATCCTCATAATTTTTGG
Found at i:13109438 original size:22 final size:19
Alignment explanation
Indices: 13109400--13109455 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 19
13109390 TTTTGGTACA
13109400 TCCTCAT-TTTTTTTATACT
1 TCCTCATATTTTTTTATA-T
13109419 TCCTCATATTTTTTAATATAT
1 TCCTCATATTTTTT--TATAT
13109440 TCTCTCATAATTTTTT
1 TC-CTCAT-ATTTTTT
13109456 GTACATCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 7 0.22
20 6 0.19
21 3 0.09
22 9 0.28
23 7 0.22
ACGTcount: A:0.21, C:0.18, G:0.00, T:0.61
Consensus pattern (19 bp):
TCCTCATATTTTTTTATAT
Found at i:13109656 original size:20 final size:20
Alignment explanation
Indices: 13109616--13109664 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
13109606 TCCTCATTTC
* *
13109616 TTTTGGTA-TCTCTCGTAAT
1 TTTTGGTATTCGCTCATAAT
13109635 TTTTGGTATTCGCTCATAAT
1 TTTTGGTATTCGCTCATAAT
*
13109655 TTTTGTTATT
1 TTTTGGTATT
13109665 TTTTGTGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.16, C:0.12, G:0.14, T:0.57
Consensus pattern (20 bp):
TTTTGGTATTCGCTCATAAT
Found at i:13109769 original size:20 final size:19
Alignment explanation
Indices: 13109719--13109770 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
13109709 ACTTCCTCGT
* *
13109719 ATTTTTAGTACTTTCTCTTA
1 ATTTTTAGTA-TTTATCATA
* *
13109739 ATTCTTGGTATTCTATCATA
1 ATTTTTAGTATT-TATCATA
13109759 ATTTTTAGTATT
1 ATTTTTAGTATT
13109771 GGAATGTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.23, C:0.12, G:0.08, T:0.58
Consensus pattern (19 bp):
ATTTTTAGTATTTATCATA
Found at i:13110458 original size:20 final size:19
Alignment explanation
Indices: 13110435--13110536 Score: 69
Period size: 20 Copynumber: 5.1 Consensus size: 19
13110425 TTCTCGTGTT
**
13110435 TTTTTTGTGTTTCCTCATAA
1 TTTTTTGTACTTCCTCAT-A
*
13110455 TTTTTTATACTTCCTCATA
1 TTTTTTGTACTTCCTCATA
* * *
13110474 TTTTTTGGTACTTCTTTAGA
1 TTTTTT-GTACTTCCTCATA
* * *
13110494 TTTTTTAGTATTTTCTTATAA
1 TTTTTT-GTACTTCCTCAT-A
*
13110515 TTTTTTGATACTTCCTTATA
1 TTTTTTG-TACTTCCTCATA
13110535 TT
1 TT
13110537 CTCTCATAAT
Statistics
Matches: 65, Mismatches: 14, Indels: 6
0.76 0.16 0.07
Matches are distributed among these distances:
19 7 0.11
20 42 0.65
21 16 0.25
ACGTcount: A:0.19, C:0.13, G:0.07, T:0.62
Consensus pattern (19 bp):
TTTTTTGTACTTCCTCATA
Found at i:13110532 original size:21 final size:20
Alignment explanation
Indices: 13110445--13110534 Score: 78
Period size: 20 Copynumber: 4.5 Consensus size: 20
13110435 TTTTTTGTGT
*
13110445 TTCCTCATAATTTTTTATAC
1 TTCCTTATAATTTTTTATAC
* *
13110465 TTCCTCAT-ATTTTTTGGTAC
1 TTCCTTATAATTTTTT-ATAC
*
13110485 TT-CTT-TAGATTTTTTAGTAT
1 TTCCTTATA-ATTTTTTA-TAC
*
13110505 TTTCTTATAATTTTTTGATAC
1 TTCCTTATAATTTTTT-ATAC
13110526 TTCCTTATA
1 TTCCTTATA
13110535 TTCTCTCATA
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
18 1 0.02
19 9 0.16
20 24 0.42
21 20 0.35
22 3 0.05
ACGTcount: A:0.21, C:0.14, G:0.06, T:0.59
Consensus pattern (20 bp):
TTCCTTATAATTTTTTATAC
Found at i:13115392 original size:14 final size:14
Alignment explanation
Indices: 13115373--13115404 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
13115363 AGGTCATTTA
13115373 GCCCAACCAAACTG
1 GCCCAACCAAACTG
13115387 GCCCAACCAAACTG
1 GCCCAACCAAACTG
13115401 GCCC
1 GCCC
13115405 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:13126563 original size:5 final size:5
Alignment explanation
Indices: 13126553--13126584 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
13126543 TCTAAATCTA
13126553 AATAT AATAT AATAT AATAT AATAT AAT-T AAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AAT
13126585 TATGATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
AATAT
Found at i:13131363 original size:3 final size:3
Alignment explanation
Indices: 13131355--13131382 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
13131345 TATGAACTGA
13131355 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
13131383 ACCAATCTAA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:13132482 original size:36 final size:37
Alignment explanation
Indices: 13132415--13132486 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 37
13132405 CGACAGGCCC
*
13132415 TCCTAAGAATATACTAAGGACAATACCCAGTTATCCA
1 TCCTAAGAATATAATAAGGACAATACCCAGTTATCCA
** *
13132452 TCCTAAGAA-ATAATAAGTTCAATACTCAGTTATCC
1 TCCTAAGAATATAATAAGGACAATACCCAGTTATCC
13132487 GAAACTTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 22 0.71
37 9 0.29
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (37 bp):
TCCTAAGAATATAATAAGGACAATACCCAGTTATCCA
Found at i:13132530 original size:6 final size:6
Alignment explanation
Indices: 13132521--13132553 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
13132511 TATCACATTC
13132521 ACCTCA ACCTCA ACCTCA ACCTCA ACCTCA ACC
1 ACCTCA ACCTCA ACCTCA ACCTCA ACCTCA ACC
13132554 AGACCGTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.52, G:0.00, T:0.15
Consensus pattern (6 bp):
ACCTCA
Found at i:13138679 original size:163 final size:163
Alignment explanation
Indices: 13138409--13138736 Score: 620
Period size: 163 Copynumber: 2.0 Consensus size: 163
13138399 GCCATTGACA
13138409 AGATCAGCAATATCTTTTGACCAGGCTAGATTAGGTTATAGGATTAAAGCAAATAGCGAGCAAAA
1 AGATCAGCAATATCTTTTGACCAGGCTAGATTAGGTTATAGGATTAAAGCAAATAGCGAGCAAAA
* *
13138474 GAATCCTAACATGTAGCTTTTGTCAAGTCAAGTCCAAGCCTTTGTTTTCCTTATTGTAGAGTAAT
66 GAATCCTAACATGCAGCTTTTGTCAAGTCAAGTCCAAGCCTTTGTTTTCCTTATTGTACAGTAAT
13138539 TCGCATCACCAAAAAAATCATCTATGAATACCT
131 TCGCATCACCAAAAAAATCATCTATGAATACCT
*
13138572 AGATCAGCAATATCTTTTGACCAGGCTAGATTAGGTTATAGGATTAAATCAAATAGCGAGCAAAA
1 AGATCAGCAATATCTTTTGACCAGGCTAGATTAGGTTATAGGATTAAAGCAAATAGCGAGCAAAA
*
13138637 GAATCCTAATATGCAGCTTTTGTCAAGTCAAGTCCAAGCCTTTGTTTTCCTTATTGTACAGTAAT
66 GAATCCTAACATGCAGCTTTTGTCAAGTCAAGTCCAAGCCTTTGTTTTCCTTATTGTACAGTAAT
13138702 TCGCATCACCAAAAAAATCATCTATGAATACCT
131 TCGCATCACCAAAAAAATCATCTATGAATACCT
13138735 AG
1 AG
13138737 CTATGAAACA
Statistics
Matches: 161, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
163 161 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (163 bp):
AGATCAGCAATATCTTTTGACCAGGCTAGATTAGGTTATAGGATTAAAGCAAATAGCGAGCAAAA
GAATCCTAACATGCAGCTTTTGTCAAGTCAAGTCCAAGCCTTTGTTTTCCTTATTGTACAGTAAT
TCGCATCACCAAAAAAATCATCTATGAATACCT
Found at i:13142278 original size:9 final size:9
Alignment explanation
Indices: 13142260--13142317 Score: 64
Period size: 9 Copynumber: 6.4 Consensus size: 9
13142250 TTTGGTTAAA
13142260 AATTAACCG
1 AATTAACCG
*
13142269 AATTACCCG
1 AATTAACCG
13142278 AATTAACCG
1 AATTAACCG
*
13142287 GATT-ACTCG
1 AATTAAC-CG
*
13142296 AATTAGCCG
1 AATTAACCG
*
13142305 AATTAGCCG
1 AATTAACCG
13142314 AATT
1 AATT
13142318 GAATCACTAC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
8 2 0.05
9 39 0.93
10 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:13142283 original size:18 final size:18
Alignment explanation
Indices: 13142260--13142317 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
13142250 TTTGGTTAAA
13142260 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
* *
13142278 AATTAACCGGATTACTCG
1 AATTAACCGAATTACCCG
* *
13142296 AATTAGCCGAATTAGCCG
1 AATTAACCGAATTACCCG
13142314 AATT
1 AATT
13142318 GAATCACTAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:13146399 original size:20 final size:20
Alignment explanation
Indices: 13146374--13146411 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
13146364 CTTTTTAAAA
13146374 TTTTTATTCCCTGCCTCAAG
1 TTTTTATTCCCTGCCTCAAG
13146394 TTTTTATTCCCTGCCTCA
1 TTTTTATTCCCTGCCTCA
13146412 TGATGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.32, G:0.08, T:0.47
Consensus pattern (20 bp):
TTTTTATTCCCTGCCTCAAG
Done.