Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 353 of 410
Found at i:109023685 original size:56 final size:56
Alignment explanation
Indices: 109023538--109023717 Score: 240
Period size: 56 Copynumber: 3.2 Consensus size: 56
109023528 CCAAACGAAC
109023538 GGCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGC-AAGACATCCGAAAT
1 GGCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAA-ACATCCGAAAT
* ** * *
109023594 GACAC--AGTGTATGAAGTATTGATGATGACACTTAGTGTGCGAAACATCCGAAAT
1 GGCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAAAT
* **
109023648 GGCACTTAGTGTGCGAAGTATCGAGGATGGCACTTAGTGTGCGAAACATCCGGTAT
1 GGCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAAAT
* *
109023704 AGCACTTAGCGTGC
1 GGCACTTAGTGTGC
109023718 AAGACATCGA
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
54 46 0.43
55 2 0.02
56 58 0.55
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (56 bp):
GGCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAAAT
Found at i:109023708 original size:28 final size:28
Alignment explanation
Indices: 109023622--109023725 Score: 113
Period size: 28 Copynumber: 3.7 Consensus size: 28
109023612 TTGATGATGA
*
109023622 CACTTAGTGTGCGAAACATCCGAAATGG
1 CACTTAGTGTGCGAAACATCCGGAATGG
** *
109023650 CACTTAGTGTGCGAAGTAT-CGAGGATGG
1 CACTTAGTGTGCGAAACATCCG-GAATGG
* *
109023678 CACTTAGTGTGCGAAACATCCGGTATAG
1 CACTTAGTGTGCGAAACATCCGGAATGG
*
109023706 CACTTAGCGTGC-AAGACATC
1 CACTTAGTGTGCGAA-ACATC
109023726 GATTGTGCAG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
27 4 0.06
28 58 0.91
29 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (28 bp):
CACTTAGTGTGCGAAACATCCGGAATGG
Found at i:109025984 original size:19 final size:19
Alignment explanation
Indices: 109025962--109025998 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
109025952 AGAAAGAGAA
109025962 ATATTAACATAAACTAGGG
1 ATATTAACATAAACTAGGG
*
109025981 ATATTAATATAAACTAGG
1 ATATTAACATAAACTAGG
109025999 AATTTCTACG
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:0.49, C:0.08, G:0.14, T:0.30
Consensus pattern (19 bp):
ATATTAACATAAACTAGGG
Found at i:109028740 original size:20 final size:20
Alignment explanation
Indices: 109028714--109028762 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
109028704 AAAGAAAACA
109028714 AACAAAATATAAATTCCTAC
1 AACAAAATATAAATTCCTAC
*
109028734 AATAAAATATAAATTCCTAC
1 AACAAAATATAAATTCCTAC
109028754 AACAAAATA
1 AACAAAATA
109028763 GCAGTAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.59, C:0.16, G:0.00, T:0.24
Consensus pattern (20 bp):
AACAAAATATAAATTCCTAC
Found at i:109029896 original size:23 final size:23
Alignment explanation
Indices: 109029869--109029913 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
109029859 ATTAGATTTT
109029869 TCTTAAATATTATCACAAAATAA
1 TCTTAAATATTATCACAAAATAA
*
109029892 TCTTAAATATTATCACTAAATA
1 TCTTAAATATTATCACAAAATA
109029914 TTATCACTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (23 bp):
TCTTAAATATTATCACAAAATAA
Found at i:109029913 original size:13 final size:13
Alignment explanation
Indices: 109029872--109029949 Score: 80
Period size: 13 Copynumber: 6.5 Consensus size: 13
109029862 AGATTTTTCT
109029872 TAAATATTATCAC
1 TAAATATTATCAC
* *
109029885 -AAA-ATAATC-T
1 TAAATATTATCAC
109029895 TAAATATTATCAC
1 TAAATATTATCAC
109029908 TAAATATTATCAC
1 TAAATATTATCAC
109029921 TAAATAATT-T---
1 TAAAT-ATTATCAC
109029931 TAAATATTATCAC
1 TAAATATTATCAC
109029944 TAAATA
1 TAAATA
109029950 ATTTAAAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
9 3 0.06
10 6 0.11
11 8 0.15
12 8 0.15
13 25 0.47
14 3 0.06
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAATATTATCAC
Found at i:109029934 original size:23 final size:23
Alignment explanation
Indices: 109029908--109029953 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
109029898 ATATTATCAC
109029908 TAAATATTATCACTAAATAATTT
1 TAAATATTATCACTAAATAATTT
109029931 TAAATATTATCACTAAATAATTT
1 TAAATATTATCACTAAATAATTT
109029954 AAAAATCGAA
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:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (23 bp):
TAAATATTATCACTAAATAATTT
Found at i:109029966 original size:36 final size:36
Alignment explanation
Indices: 109029872--109029949 Score: 138
Period size: 36 Copynumber: 2.2 Consensus size: 36
109029862 AGATTTTTCT
*
109029872 TAAATATTATCACAAAATAATCTTAAATATTATCAC
1 TAAATATTATCACAAAATAATTTTAAATATTATCAC
*
109029908 TAAATATTATCACTAAATAATTTTAAATATTATCAC
1 TAAATATTATCACAAAATAATTTTAAATATTATCAC
109029944 TAAATA
1 TAAATA
109029950 ATTTAAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (36 bp):
TAAATATTATCACAAAATAATTTTAAATATTATCAC
Found at i:109032417 original size:27 final size:27
Alignment explanation
Indices: 109032364--109032503 Score: 171
Period size: 27 Copynumber: 5.2 Consensus size: 27
109032354 GTGACGAAGT
109032364 CACCAGATA-AGATAT-TGTGGCAGAGC
1 CACCAGA-ACAGATATATGTGGCAGAGC
109032390 CACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* *
109032417 CACCAGATCAGATA-ATCGTGGCATAGC
1 CACCAGAACAGATATAT-GTGGCAGAGC
* *
109032444 TACCCGAACAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* *
109032471 CACCAGATCAGATA-ATTGTGGCATAGC
1 CACCAGAACAGATATA-TGTGGCAGAGC
109032498 CACCAG
1 CACCAG
109032504 GACGCTTCCT
Statistics
Matches: 99, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.01
26 16 0.16
27 80 0.81
28 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (27 bp):
CACCAGAACAGATATATGTGGCAGAGC
Found at i:109032455 original size:54 final size:54
Alignment explanation
Indices: 109032364--109032503 Score: 228
Period size: 54 Copynumber: 2.6 Consensus size: 54
109032354 GTGACGAAGT
* *
109032364 CACCAGATAAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* * *
109032417 CACCAGATCAGATAATCGTGGCATAGCTACCCGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
109032471 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
109032504 GACGCTTCCT
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
53 12 0.15
54 66 0.85
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:109034122 original size:26 final size:26
Alignment explanation
Indices: 109034091--109034198 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
109034081 TGAAATGTCC
*
109034091 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
109034117 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
109034143 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
109034169 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
109034195 ATCA
1 ATCA
109034199 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:109039366 original size:27 final size:27
Alignment explanation
Indices: 109039318--109039476 Score: 157
Period size: 27 Copynumber: 5.9 Consensus size: 27
109039308 GCGAGGCTGC
* *
109039318 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
109039345 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
109039371 CAGATATATGTGGCAGAGCTACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
109039398 CAGATAATCGTGGCATAGCTACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
109039425 CAGATATATGTGGCAAAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
109039452 CAGATAATTTTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
109039477 GACGCTTCCT
Statistics
Matches: 114, Mismatches: 10, Indels: 16
0.81 0.07 0.11
Matches are distributed among these distances:
26 10 0.09
27 99 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:109039412 original size:54 final size:54
Alignment explanation
Indices: 109039318--109039476 Score: 214
Period size: 54 Copynumber: 3.0 Consensus size: 54
109039308 GCGAGGCTGC
* * * *
109039318 CAGATAT-TGTGACGAAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAAAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGAA
* * * *
109039371 CAGATATATGTGGCAGAGCTACCAGATCAGATAATCGTGGCATAGCTACCAGAA
1 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
*
109039425 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTTTGGCATAGCCACCAG
1 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
109039477 GACGCTTCCT
Statistics
Matches: 91, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
53 12 0.13
54 79 0.87
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.20
Consensus pattern (54 bp):
CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
Found at i:109039881 original size:8 final size:8
Alignment explanation
Indices: 109039865--109039894 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
109039855 CTCAAAATAC
109039865 CGGCTTTT
1 CGGCTTTT
*
109039873 CGGCATTT
1 CGGCTTTT
109039881 CGGCTTTT
1 CGGCTTTT
109039889 CGGCTT
1 CGGCTT
109039895 GTGCCGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:109041103 original size:26 final size:26
Alignment explanation
Indices: 109041072--109041179 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
109041062 TGAAATGCCC
* *
109041072 ATCATGGAATATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
109041098 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
109041124 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
109041150 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
109041176 ATCA
1 ATCA
109041180 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:109041129 original size:52 final size:52
Alignment explanation
Indices: 109041072--109041179 Score: 207
Period size: 52 Copynumber: 2.1 Consensus size: 52
109041062 TGAAATGCCC
109041072 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
*
109041124 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
109041176 ATCA
1 ATCA
109041180 ATTTGTACCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:109042300 original size:3 final size:3
Alignment explanation
Indices: 109042292--109042355 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
109042282 CATTTTAAAG
109042292 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
109042340 TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT T
109042356 GTATATATAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:109042438 original size:26 final size:25
Alignment explanation
Indices: 109042357--109042443 Score: 68
Period size: 26 Copynumber: 3.4 Consensus size: 25
109042347 ATTATTATTG
109042357 TATATATATTTGTTTATTTTAAACTAT
1 TATATATA-TT-TTTATTTTAAACTAT
* * * * * *
109042384 CACACATATTTTTATTTGGAGATTA-
1 TATATATATTTTTATTT-TAAACTAT
*
109042409 TATATATATCTTTTATTTTACACTAT
1 TATATATAT-TTTTATTTTAAACTAT
109042435 TATATATAT
1 TATATATAT
109042444 GATACTTATT
Statistics
Matches: 45, Mismatches: 12, Indels: 7
0.70 0.19 0.11
Matches are distributed among these distances:
25 17 0.38
26 23 0.51
27 5 0.11
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (25 bp):
TATATATATTTTTATTTTAAACTAT
Found at i:109055043 original size:45 final size:43
Alignment explanation
Indices: 109054849--109055322 Score: 156
Period size: 44 Copynumber: 10.7 Consensus size: 43
109054839 AATCACAAAC
** * *
109054849 CTTATCTCCCTGAAGTTGCAGTGGAGTGGGTTGAAGTTATAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-TTACAAGT
* ** * * *
109054893 CTTATCTCCTTGAAGTTGCAGAAGAGCAAACTG-ATGACAGATGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATTACA-A-G-T
* * * *
109054938 CTTATCTCTCTGAAGTTGCAGTGGAGTAGA-TCAGA--ACAA-A
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-ATTACAAGT
* * *
109054978 CATCATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAATTTACAAGT
1 C-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AA-TTACAAGT
* * **
109055024 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGTAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-TTACAAG-T
* ** * * * * * *
109055069 TTTATCTCTTTGAAGTTGCAGTAGAGCAAATTAAAGCTATAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-TTACAAGT
* * * * * ****
109055113 CCTATAC-CTCTAAAGTTGCAGTAGG-TCGGGCCAAATCTACCATAGTGAAT
1 CTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTGAAT-TA-CA-A--G--T
** * * * ** * *
109055163 CTTATCTTTCTGAAGTTGTAGCGAAGCAGATTGAAGCCACCAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-TTACAAGT
* **
109055207 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-TTACAAGT
* * *
109055251 CTTATC-CCTCTGAACTTGCAGTGG-GACAGGTTGAAGTTACAATT
1 CTTATCTCC-CTGAAGTTGCAGTGGAG-CAGATTGAA-TTACAAGT
* *
109055295 CTTATCTCTCTGGAGTTGCAGTGGAGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA
109055323 CATTAAGGAT
Statistics
Matches: 311, Mismatches: 90, Indels: 58
0.68 0.20 0.13
Matches are distributed among these distances:
40 1 0.00
41 24 0.08
42 5 0.02
43 7 0.02
44 150 0.48
45 95 0.31
46 4 0.01
48 1 0.00
49 3 0.01
50 21 0.07
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (43 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATTACAAGT
Found at i:109055051 original size:131 final size:130
Alignment explanation
Indices: 109054843--109055090 Score: 336
Period size: 131 Copynumber: 1.9 Consensus size: 130
109054833 CGGTGAAATC
* * ** * *
109054843 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTGGGTTGAAGTTATAAGTCTTATCTCCTTGAAG
1 ACAAACATCATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAG
*
109054908 TTGCAGAAGAGCAAACTGATGACAG-ATGATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATCAG
66 TTGCAGAAGAGCAAACTGAAGACAGTA-GATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATCAG
109054972 A
130 A
* *
109054973 ACAAACATCATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAATTTACAAGTCTTATCTCCCTGAA
1 ACAAACATCATCTCCCTGAAGTTGCAGTGGAGCAGGTTG-AAGTTACAAGTCTTATCTCCCTGAA
** * * * *
109055038 GTTGCAGTGGAGCAGACTGAAGATAGTAGATTTTATCTCTTTGAAGTTGCAGT
65 GTTGCAGAAGAGCAAACTGAAGACAGTAGATCTTATCTCTCTGAAGTTGCAGT
109055091 AGAGCAAATT
Statistics
Matches: 101, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
130 34 0.34
131 66 0.65
132 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (130 bp):
ACAAACATCATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAG
TTGCAGAAGAGCAAACTGAAGACAGTAGATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATCAGA
Found at i:109056733 original size:12 final size:13
Alignment explanation
Indices: 109056711--109056743 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
109056701 GTCCTAGCCT
*
109056711 TTTAATTTATTTA
1 TTTAGTTTATTTA
109056724 TTT-GTTTATTTA
1 TTTAGTTTATTTA
109056736 TTTAGTTT
1 TTTAGTTT
109056744 TTTTTTTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (13 bp):
TTTAGTTTATTTA
Found at i:109056864 original size:3 final size:3
Alignment explanation
Indices: 109056856--109056883 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
109056846 CATTTTAAAG
109056856 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
109056884 GTATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:109057126 original size:2 final size:2
Alignment explanation
Indices: 109057119--109057155 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
109057109 CTAAATTGTT
109057119 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
109057156 TATTTTTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:109057190 original size:18 final size:18
Alignment explanation
Indices: 109057167--109057219 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
109057157 ATTTTTTTAA
109057167 ATTTACTTTTCATATATT
1 ATTTACTTTTCATATATT
109057185 ATTTAC--TT--TA-A--
1 ATTTACTTTTCATATATT
109057196 ATTTACTTTTCATATATT
1 ATTTACTTTTCATATATT
109057214 ATTTAC
1 ATTTAC
109057220 GTTAAACTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 14
0.67 0.00 0.33
Matches are distributed among these distances:
11 6 0.21
13 3 0.11
14 2 0.07
15 2 0.07
16 3 0.11
18 12 0.43
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTACTTTTCATATATT
Found at i:109057201 original size:29 final size:29
Alignment explanation
Indices: 109057150--109057225 Score: 127
Period size: 29 Copynumber: 2.7 Consensus size: 29
109057140 ATATATATAT
*
109057150 ATATATTATTT-TTTTAAATTTACTTTTC
1 ATATATTATTTACTTTAAATTTACTTTTC
109057178 ATATATTATTTACTTTAAATTTACTTTTC
1 ATATATTATTTACTTTAAATTTACTTTTC
*
109057207 ATATATTATTTACGTTAAA
1 ATATATTATTTACTTTAAA
109057226 CTCCTTCATG
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
28 11 0.24
29 34 0.76
ACGTcount: A:0.33, C:0.08, G:0.01, T:0.58
Consensus pattern (29 bp):
ATATATTATTTACTTTAAATTTACTTTTC
Found at i:109058804 original size:46 final size:46
Alignment explanation
Indices: 109058751--109058842 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
109058741 AAAATTTATT
109058751 TTATCATGTTAAATTGAAATGAATGTTTTTAAAAAATCTATTCAAA
1 TTATCATGTTAAATTGAAATGAATGTTTTTAAAAAATCTATTCAAA
109058797 TTATCATGTTAAATTGAAATGAATGTTTTTAAAAAATCTATTCAAA
1 TTATCATGTTAAATTGAAATGAATGTTTTTAAAAAATCTATTCAAA
109058843 AGTTTTCAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (46 bp):
TTATCATGTTAAATTGAAATGAATGTTTTTAAAAAATCTATTCAAA
Found at i:109062333 original size:21 final size:20
Alignment explanation
Indices: 109062292--109062335 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
109062282 GTATGAGTAA
*
109062292 TTTAATTTTTTTTATATTCT
1 TTTAATTTTTTTTATACTCT
109062312 TTTAACTTTTTTTT-TCACTCT
1 TTTAA-TTTTTTTTAT-ACTCT
109062333 TTT
1 TTT
109062336 TTGTTTCTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTAATTTTTTTTATACTCT
Found at i:109063051 original size:119 final size:119
Alignment explanation
Indices: 109062919--109063154 Score: 302
Period size: 119 Copynumber: 2.0 Consensus size: 119
109062909 TTACTACTTG
*
109062919 TGTTTTTTGCTTAGCAAGATTCTCCA-G-TATTCTTAAACCTCT-ATTTTTTGGCT-GAGTAACT
1 TGTTTTTTCCTTAGCAAGATTCT--ATGTTATTCTTAAACCTCTAATTTTTT-G-TAGAGTAACT
* * *
109062980 ATGCTT-AATAATGTGTATAGTGTCTATTTTTTACTTAGCTCGTAGGTCATATTTATTA
62 ACG-TTCAATAATGAGTATAGTGTCTATTTTTTACTTAACTCGTAGGTCATATTTATTA
* *
109063038 TGTTTTTTCCTTAGCAGGATTCTATGTTATTCTTAATCCTCTAATTTTTTGTAGAGTAACTACGT
1 TGTTTTTTCCTTAGCAAGATTCTATGTTATTCTTAAACCTCTAATTTTTTGTAGAGTAACTACGT
* * * *
109063103 TCAATAATGAGTATGGTGTTTATTTTTTACTTAACTCGTAGTTCCTATTTAT
66 TCAATAATGAGTATAGTGTCTATTTTTTACTTAACTCGTAGGTCATATTTAT
109063155 AAGGAAAATT
Statistics
Matches: 102, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
117 1 0.01
118 4 0.04
119 90 0.88
120 7 0.07
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.48
Consensus pattern (119 bp):
TGTTTTTTCCTTAGCAAGATTCTATGTTATTCTTAAACCTCTAATTTTTTGTAGAGTAACTACGT
TCAATAATGAGTATAGTGTCTATTTTTTACTTAACTCGTAGGTCATATTTATTA
Found at i:109064741 original size:105 final size:105
Alignment explanation
Indices: 109064554--109064769 Score: 351
Period size: 105 Copynumber: 2.1 Consensus size: 105
109064544 TAATTTAATT
109064554 AAAACATAGTTAAATAAGTAAATTAAGGTTAATTAACAAACTAGTCTTAGTATAAAAGTGAAATT
1 AAAACATAGTTAAATAAGTAAATTAAGGTTAATTAACAAACTAGTCTTAGTATAAAAGTGAAATT
* * * * * *
109064619 TGTGGATGGAAAAATGGTATATCATCTTCTCCAAGTTACC
66 GGTAGATGGAAAAATGGTATATCATATTATCCAACTCACC
*
109064659 AAAACATAGTTAAATAAGTAAGTTAAGGTTAATTAACAAACTAGTCTTAGTATAAAAGTGAAATT
1 AAAACATAGTTAAATAAGTAAATTAAGGTTAATTAACAAACTAGTCTTAGTATAAAAGTGAAATT
* *
109064724 GGTAGATGGAGAGATGGTATATCATATTATCCAACTCACC
66 GGTAGATGGAAAAATGGTATATCATATTATCCAACTCACC
109064764 AAAACA
1 AAAACA
109064770 AATCAACAGC
Statistics
Matches: 102, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
105 102 1.00
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.30
Consensus pattern (105 bp):
AAAACATAGTTAAATAAGTAAATTAAGGTTAATTAACAAACTAGTCTTAGTATAAAAGTGAAATT
GGTAGATGGAAAAATGGTATATCATATTATCCAACTCACC
Found at i:109071481 original size:46 final size:46
Alignment explanation
Indices: 109071431--109071694 Score: 377
Period size: 46 Copynumber: 5.7 Consensus size: 46
109071421 TGCCATAATG
* * * *
109071431 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTA
** * * *
109071477 TCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
* * *
109071523 TCTTTCAACCATAGTCTTACACATCTCATATCAGGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
* *
109071569 TCTTTCAACTATGGTCTTACACATTTCATATCTGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
109071615 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
109071661 TCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTCATATCAG
109071695 AGAGCACACT
Statistics
Matches: 197, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 193 0.98
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
Found at i:109076234 original size:33 final size:33
Alignment explanation
Indices: 109076163--109076313 Score: 160
Period size: 33 Copynumber: 4.5 Consensus size: 33
109076153 ACATCATCAG
* * ** *
109076163 TCCAACCAAACACACCAGATGCTCATTCGAGCCAA
1 TCCAACC-ATCACACCA-ATGTTCATAAGAGCTAA
* * *
109076198 TCCATCCATTACACCATTGTTCATAAGAGCTAA
1 TCCAACCATCACACCAATGTTCATAAGAGCTAA
*
109076231 TCCAACCAGCACACCAATGCTT-ATAAGAGCTAA
1 TCCAACCATCACACCAATG-TTCATAAGAGCTAA
* *
109076264 ACCAACCATCATACCAATGTTCATAAGAGCTAA
1 TCCAACCATCACACCAATGTTCATAAGAGCTAA
*
109076297 TCCAACCAACACACCAA
1 TCCAACCATCACACCAA
109076314 ATAGAGAGTA
Statistics
Matches: 96, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
32 2 0.02
33 79 0.82
34 9 0.09
35 6 0.06
ACGTcount: A:0.39, C:0.32, G:0.09, T:0.19
Consensus pattern (33 bp):
TCCAACCATCACACCAATGTTCATAAGAGCTAA
Found at i:109082798 original size:26 final size:26
Alignment explanation
Indices: 109082769--109082822 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
109082759 TTTAGTGGGA
109082769 GTAAGATTTTGTATTTGGTTTTATAT
1 GTAAGATTTTGTATTTGGTTTTATAT
109082795 GTAAGATTTTGTATTTGGTTTTATAT
1 GTAAGATTTTGTATTTGGTTTTATAT
109082821 GT
1 GT
109082823 TAATGACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.57
Consensus pattern (26 bp):
GTAAGATTTTGTATTTGGTTTTATAT
Found at i:109084983 original size:13 final size:13
Alignment explanation
Indices: 109084961--109085000 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
109084951 AAAAATCCTC
109084961 TTTATATTTTAAA
1 TTTATATTTTAAA
*
109084974 TTTATGTTTTAAA
1 TTTATATTTTAAA
109084987 TTTA-A-TTTAAA
1 TTTATATTTTAAA
109084998 TTT
1 TTT
109085001 TAAAAAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 9 0.36
13 16 0.64
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (13 bp):
TTTATATTTTAAA
Found at i:109085957 original size:15 final size:15
Alignment explanation
Indices: 109085937--109085979 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
109085927 TATTTGACTT
109085937 TTTAAATTAATTTTA
1 TTTAAATTAATTTTA
*
109085952 TTTAAAATTAATTTTT
1 TTT-AAATTAATTTTA
109085968 TTTAAATATAAT
1 TTTAAAT-TAAT
109085980 ACACTAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 7 0.28
16 18 0.72
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTAAATTAATTTTA
Found at i:109086117 original size:38 final size:41
Alignment explanation
Indices: 109086048--109086124 Score: 124
Period size: 38 Copynumber: 2.0 Consensus size: 41
109086038 TAAAAAGTAT
*
109086048 TTATATTAAAAAACACTACCATAAATATAATAAATATTTTG
1 TTATATTAAAAAACACTACAATAAATATAATAAATATTTTG
109086089 TTATATT-AAAAACAC-A-AATAAATATAATAAATATTT
1 TTATATTAAAAAACACTACAATAAATATAATAAATATTT
109086125 CATTGTATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
38 19 0.54
39 1 0.03
40 8 0.23
41 7 0.20
ACGTcount: A:0.55, C:0.08, G:0.01, T:0.36
Consensus pattern (41 bp):
TTATATTAAAAAACACTACAATAAATATAATAAATATTTTG
Found at i:109086266 original size:14 final size:14
Alignment explanation
Indices: 109086226--109086270 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
109086216 GCATCAGGTG
109086226 ATTTAATATATATA
1 ATTTAATATATATA
*
109086240 TATATATATATATATA
1 -ATTTA-ATATATATA
*
109086256 ATTTAACATATATA
1 ATTTAATATATATA
109086270 A
1 A
109086271 GTTATTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 9 0.35
15 8 0.31
16 9 0.35
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTTAATATATATA
Found at i:109086269 original size:2 final size:2
Alignment explanation
Indices: 109086231--109086255 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
109086221 AGGTGATTTA
109086231 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 A
109086256 ATTTAACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:109088820 original size:23 final size:23
Alignment explanation
Indices: 109088752--109088822 Score: 115
Period size: 23 Copynumber: 3.1 Consensus size: 23
109088742 GTTTTCATAT
***
109088752 TTTTATTTAATATTAATATAGTT
1 TTTTATTTAATATTAATATAAAA
109088775 TTTTATTTAATATTAATATAAAA
1 TTTTATTTAATATTAATATAAAA
109088798 TTTTATTTAATATTAATATAAAA
1 TTTTATTTAATATTAATATAAAA
109088821 TT
1 TT
109088823 AAGTTTTATA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (23 bp):
TTTTATTTAATATTAATATAAAA
Found at i:109089952 original size:22 final size:21
Alignment explanation
Indices: 109089927--109089976 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
109089917 AAATTATAGC
109089927 AAAATAGAAAAAAAATAACAA
1 AAAATAGAAAAAAAATAACAA
** **
109089948 GAAAATATCATTAAAATAACAA
1 -AAAATAGAAAAAAAATAACAA
109089970 AAAATAG
1 AAAATAG
109089977 TATTTTTTTG
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.16
Consensus pattern (21 bp):
AAAATAGAAAAAAAATAACAA
Found at i:109095507 original size:33 final size:33
Alignment explanation
Indices: 109095465--109095599 Score: 124
Period size: 33 Copynumber: 4.3 Consensus size: 33
109095455 TTTGTGCACA
*
109095465 TTTCCTTTTCAAATGGTACACGCAAAGTATACC
1 TTTCCTTTTCAAATGGTACACACAAAGTATACC
109095498 TTTCCTTTTCAAATGGT--ACACAAAG--TA--
1 TTTCCTTTTCAAATGGTACACACAAAGTATACC
* * * *
109095525 -TGCCGTTTCAAGT-GTACACACAAAGTATACA
1 TTTCCTTTTCAAATGGTACACACAAAGTATACC
** ** *
109095556 TAGCCTTTTCATGTGGTATACACAAAGTATACC
1 TTTCCTTTTCAAATGGTACACACAAAGTATACC
109095589 TTTCCTTTTCA
1 TTTCCTTTTCA
109095600 CATTTGATAG
Statistics
Matches: 83, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
25 2 0.02
26 10 0.12
27 8 0.10
29 4 0.05
31 7 0.08
32 10 0.12
33 42 0.51
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (33 bp):
TTTCCTTTTCAAATGGTACACACAAAGTATACC
Found at i:109095563 original size:58 final size:60
Alignment explanation
Indices: 109095471--109095585 Score: 144
Period size: 58 Copynumber: 1.9 Consensus size: 60
109095461 CACATTTCCT
* * **
109095471 TTTCAAATGGTACACGCAAAGTATACCTTTCCTTTTCAAATGG-TACACAAAGTATGCCG
1 TTTCAAATGGTACACACAAAGTATACATAGCCTTTTCAAATGGATACACAAAGTATGCCG
* **
109095530 TTTCAAGT-GTACACACAAAGTATACATAGCCTTTTCATGTGGTATACACAAAGTAT
1 TTTCAAATGGTACACACAAAGTATACATAGCCTTTTCAAATGG-ATACACAAAGTAT
109095586 ACCTTTCCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
58 28 0.60
59 7 0.15
60 12 0.26
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (60 bp):
TTTCAAATGGTACACACAAAGTATACATAGCCTTTTCAAATGGATACACAAAGTATGCCG
Found at i:109095637 original size:29 final size:29
Alignment explanation
Indices: 109095592--109095660 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
109095582 GTATACCTTT
*
109095592 CCTTTTCACATTTGATAGCCAAAGCTATC
1 CCTTTTCACATTCGATAGCCAAAGCTATC
*
109095621 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCAAAGCTATC
109095650 CCTTTTCACAT
1 CCTTTTCACAT
109095661 GGTACACACA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.25, C:0.30, G:0.10, T:0.35
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCAAAGCTATC
Found at i:109096485 original size:20 final size:21
Alignment explanation
Indices: 109096452--109096492 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
109096442 GTGATTTCTC
* *
109096452 TATCAATAACCTTTTATTTTA
1 TATCAATAAACTTTTAATTTA
109096473 TATC-ATAAACTTTTAATTTA
1 TATCAATAAACTTTTAATTTA
109096493 CAACATATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (21 bp):
TATCAATAAACTTTTAATTTA
Found at i:109096499 original size:20 final size:20
Alignment explanation
Indices: 109096457--109096499 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
109096447 TTCTCTATCA
* * * *
109096457 ATAACCTTTTATTTTATATC
1 ATAAACTTTTAATTTACAAC
109096477 ATAAACTTTTAATTTACAAC
1 ATAAACTTTTAATTTACAAC
109096497 ATA
1 ATA
109096500 TTCATCCATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAAACTTTTAATTTACAAC
Found at i:109098005 original size:39 final size:39
Alignment explanation
Indices: 109097831--109098007 Score: 221
Period size: 39 Copynumber: 4.5 Consensus size: 39
109097821 ATTCACTTTT
** * * *
109097831 AAGCATATATTACATTACACATATAATCACATAACACTT-
1 AAGCATATATCGCAATACTCATATAATTACATAACA-TTC
* **
109097870 AAGCATATATCACAATACTCATATAATTACATAATGTTC
1 AAGCATATATCGCAATACTCATATAATTACATAACATTC
* *
109097909 AAGCACATATCGCGATACTCATATAATTACATAACATTC
1 AAGCATATATCGCAATACTCATATAATTACATAACATTC
* *
109097948 AAGCATACATCGTAATACTCATATAATTACATAACATTC
1 AAGCATATATCGCAATACTCATATAATTACATAACATTC
*
109097987 AAGCATATGTCGCAATACTCA
1 AAGCATATATCGCAATACTCA
109098008 AAAACATGTT
Statistics
Matches: 119, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
38 2 0.02
39 117 0.98
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.30
Consensus pattern (39 bp):
AAGCATATATCGCAATACTCATATAATTACATAACATTC
Found at i:109107138 original size:2 final size:2
Alignment explanation
Indices: 109107131--109107158 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
109107121 TGCTTGAAAA
109107131 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
109107159 TTTTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109111297 original size:26 final size:26
Alignment explanation
Indices: 109111261--109111370 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
109111251 TGATACAAAT
109111261 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
109111287 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
109111313 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
109111339 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
109111365 TGATAA
1 TGATAA
109111371 GAATTTTATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:109113397 original size:136 final size:136
Alignment explanation
Indices: 109113153--109113438 Score: 545
Period size: 136 Copynumber: 2.1 Consensus size: 136
109113143 TGAGTAGTCC
*
109113153 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTACATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
109113218 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
109113283 CTGTTA
131 CTGTTA
109113289 CCCAAATGGGCTTACATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTACATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
109113354 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
109113419 CTGTTA
131 CTGTTA
**
109113425 CCTGAATGGGCTTA
1 CCCAAATGGGCTTA
109113439 GGCCTAATGG
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
136 147 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (136 bp):
CCCAAATGGGCTTACATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:109117246 original size:26 final size:26
Alignment explanation
Indices: 109117210--109117319 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
109117200 TGATACAAAT
109117210 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
109117236 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
109117262 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
109117288 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
109117314 TGATAA
1 TGATAA
109117320 GAATTTATGT
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:109119339 original size:136 final size:136
Alignment explanation
Indices: 109119095--109119380 Score: 527
Period size: 136 Copynumber: 2.1 Consensus size: 136
109119085 TGAGTAGTCC
*
109119095 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTACATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
109119160 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTATAATCTGAAAAGGGCTCTGGCCCAGTACCA
109119225 CTATTA
131 CTATTA
109119231 CCCAAATGGGCTTACATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTACATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
109119296 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTATAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTATAATCTGAAAAGGGCTCTGGCCCAGTACCA
*
109119361 CTGTTA
131 CTATTA
**
109119367 CCTGAATGGGCTTA
1 CCCAAATGGGCTTA
109119381 GGCCTAATGG
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
136 145 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (136 bp):
CCCAAATGGGCTTACATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTATAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTATTA
Found at i:109122359 original size:14 final size:14
Alignment explanation
Indices: 109122340--109122369 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
109122330 TATTTTTAAG
109122340 ATAGATTAACGCAT
1 ATAGATTAACGCAT
*
109122354 ATAGATTCACGCAT
1 ATAGATTAACGCAT
109122368 AT
1 AT
109122370 TTATAAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (14 bp):
ATAGATTAACGCAT
Found at i:109127003 original size:46 final size:46
Alignment explanation
Indices: 109126936--109127027 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
109126926 TGGTATTGGT
109126936 ACTGTTAAAATTAAGATGCACGATGGGACGATTAGGACTGTAACAA
1 ACTGTTAAAATTAAGATGCACGATGGGACGATTAGGACTGTAACAA
109126982 ACTGTTAAAATTAAGATGCACGATGGGACGATTAGGACTGTAACAA
1 ACTGTTAAAATTAAGATGCACGATGGGACGATTAGGACTGTAACAA
109127028 CCCATATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (46 bp):
ACTGTTAAAATTAAGATGCACGATGGGACGATTAGGACTGTAACAA
Found at i:109127378 original size:3 final size:3
Alignment explanation
Indices: 109127370--109127409 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
109127360 ATATTTACTT
109127370 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
109127410 ATTGAGATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:109142685 original size:14 final size:14
Alignment explanation
Indices: 109142666--109142693 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
109142656 CTGGTGCGCG
109142666 TGTAACACCCCTAA
1 TGTAACACCCCTAA
109142680 TGTAACACCCCTAA
1 TGTAACACCCCTAA
109142694 CCCGTATCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.36, G:0.07, T:0.21
Consensus pattern (14 bp):
TGTAACACCCCTAA
Found at i:109143072 original size:23 final size:25
Alignment explanation
Indices: 109143046--109143092 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
109143036 TATCATTCAT
*
109143046 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
109143069 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
109143093 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:109143755 original size:27 final size:27
Alignment explanation
Indices: 109143723--109143802 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
109143713 TTTCTTTATA
109143723 TATTAATAAAATAATAATAAAATATCT
1 TATTAATAAAATAATAATAAAATATCT
* *
109143750 TATTAA-AGTATTAATAA-AATAATAT-T
1 TATTAATA-AAATAATAATAA-AATATCT
* *
109143776 TATCTAATTAAATAATTATAAAATATC
1 TAT-TAATAAAATAATAATAAAATATC
109143803 AAAATATCTC
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
26 7 0.17
27 32 0.78
28 2 0.05
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (27 bp):
TATTAATAAAATAATAATAAAATATCT
Found at i:109143756 original size:24 final size:24
Alignment explanation
Indices: 109143720--109143775 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
109143710 TTCTTTCTTT
109143720 ATATATTAATAAAATAATAATAAA
1 ATATATTAATAAAATAATAATAAA
* * * *
109143744 ATATCTTATTAAAGTATTAATAAA
1 ATATATTAATAAAATAATAATAAA
109143768 ATAATATT
1 AT-ATATT
109143776 TATCTAATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 22 0.85
25 4 0.15
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (24 bp):
ATATATTAATAAAATAATAATAAA
Found at i:109153633 original size:44 final size:42
Alignment explanation
Indices: 109153582--109153730 Score: 142
Period size: 42 Copynumber: 3.5 Consensus size: 42
109153572 TGAGATATCG
* * * *
109153582 TGTAAGACCGTGTCTGGGACACAGTCCTCGATTTGATATTTACA
1 TGTAAGACCATGTCTGGGACAAAG-CATCGATCTGA-ATTTACA
*
109153626 TGTAAGACCATGTATGGGACATAAGCATCGTATCTG-ATTT-CA
1 TGTAAGACCATGTCTGGGACA-AAGCATCG-ATCTGAATTTACA
* *
109153668 TGTAAGACCCTGTCTGGGACAGAGGCATCGATACTGAA-TTACA
1 TGTAAGACCATGTCTGGGACA-AAGCATCGAT-CTGAATTTACA
* *
109153711 TGTAAGACCACGTCCGGGAC
1 TGTAAGACCATGTCTGGGAC
109153731 GTCGGCATTG
Statistics
Matches: 88, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
41 2 0.02
42 33 0.38
43 24 0.27
44 23 0.26
45 6 0.07
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAAAGCATCGATCTGAATTTACA
Found at i:109156393 original size:84 final size:84
Alignment explanation
Indices: 109156252--109156421 Score: 304
Period size: 84 Copynumber: 2.0 Consensus size: 84
109156242 AATCTCATAT
*
109156252 AGTTGAACAAAGCAATATTCCTCGGTTTCAATACCCTAATCTCATAAATCACGAAGTTATCTTCA
1 AGTTGAACAAAGCAACATTCCTCGGTTTCAATACCCTAATCTCATAAATCACGAAGTTATCTTCA
109156317 TAATTGGTCTACAACTACC
66 TAATTGGTCTACAACTACC
* *
109156336 AGTTGGACAAAGCAACATTCCTCGGTTTCAATAGCCTAATCTCATAAATCACGAAGTTATCTTCA
1 AGTTGAACAAAGCAACATTCCTCGGTTTCAATACCCTAATCTCATAAATCACGAAGTTATCTTCA
*
109156401 TAATTGGTCTATAACTACC
66 TAATTGGTCTACAACTACC
109156420 AG
1 AG
109156422 ATGGGTGTGT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 82 1.00
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.31
Consensus pattern (84 bp):
AGTTGAACAAAGCAACATTCCTCGGTTTCAATACCCTAATCTCATAAATCACGAAGTTATCTTCA
TAATTGGTCTACAACTACC
Found at i:109156901 original size:9 final size:8
Alignment explanation
Indices: 109156882--109156906 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
109156872 TTTCTTTCAC
109156882 AAAAAAGA
1 AAAAAAGA
109156890 AAAAAAGA
1 AAAAAAGA
109156898 AAAAAAGA
1 AAAAAAGA
109156906 A
1 A
109156907 TCAATCCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:109157955 original size:3 final size:3
Alignment explanation
Indices: 109157947--109157976 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
109157937 AATGGCCATT
*
109157947 ATC ATC ATC ATC ATC ATC ATC ATC ACC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
109157977 CACTATCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (3 bp):
ATC
Found at i:109166021 original size:3 final size:3
Alignment explanation
Indices: 109166013--109166109 Score: 65
Period size: 3 Copynumber: 33.3 Consensus size: 3
109166003 ATGGTTTAAA
* * * * *
109166013 AAT AAT AAT GAT AAT AAA AAT AAT AGT AAT AAT AAT AAT CAT ACT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *** * *
109166060 AAT GAT AGT AAT AAT GGC AA- AAT AAT AAT AAT GAT AAT AGT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
109166106 AAT A
1 AAT A
109166110 TAAAAAAATT
Statistics
Matches: 68, Mismatches: 23, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
2 5 0.07
3 63 0.93
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:109166561 original size:57 final size:57
Alignment explanation
Indices: 109166463--109166573 Score: 159
Period size: 57 Copynumber: 1.9 Consensus size: 57
109166453 TTCCCTCATC
* * *
109166463 TGTCTGAACGCCTTTGCCTTATCCTCTCAAACTCATGGCGAACCTGCTCTGAAAAGA
1 TGTCTGAACGCATTTGCCTTATCCTCTCAAACTCATAGCGAACCTGCTCCGAAAAGA
* * * *
109166520 TGTCTGGACGCATTTGCCTTATCTTCTCTAACTTATAGCGAACCTGCTCCGAAA
1 TGTCTGAACGCATTTGCCTTATCCTCTCAAACTCATAGCGAACCTGCTCCGAAA
109166574 TGCCATTCTC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (57 bp):
TGTCTGAACGCATTTGCCTTATCCTCTCAAACTCATAGCGAACCTGCTCCGAAAAGA
Found at i:109171882 original size:3 final size:3
Alignment explanation
Indices: 109171874--109172264 Score: 240
Period size: 3 Copynumber: 131.3 Consensus size: 3
109171864 TTCTTTTATG
* * *
109171874 ATA ATA ATA ATA TTG ATA ATAA ATA ATA ATA GTA A-A ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
109171919 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG ATG ATG ATG ATG ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * * * * * * * * *
109171967 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* **
109172015 GAAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATGA AGG
1 -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
* * * *
109172062 ATA ATA AAA AT- ACA ACA ATA AT- ATAA ATA ATA A-A AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA
* * * * * *
109172105 GTA ATA ATA ATA ATA ATG ATA AAA GATA ATA GTA ATA GTA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
* * * *
109172151 ATA A-A ATA AAA ATA ATA ATG ATA ATG ATA ATA GTA A-A A-A ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
109172196 ATA ATA ATG ATG ATG ATA ATC ATA ATG GTA ATA ATA AGA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
109172244 GTA ATA ATA ATA A-A ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
109172265 AAAGGACTAA
Statistics
Matches: 325, Mismatches: 51, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
2 15 0.05
3 299 0.92
4 11 0.03
ACGTcount: A:0.58, C:0.01, G:0.11, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:109172101 original size:20 final size:20
Alignment explanation
Indices: 109172065--109172114 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
109172055 ATGAAGGATA
* *
109172065 ATAAA-AATACAACAATAAT
1 ATAAATAATAAAAAAATAAT
109172084 ATAAATAATAAAAAAATAAT
1 ATAAATAATAAAAAAATAAT
109172104 AGT-AATAATAA
1 A-TAAATAATAA
109172115 TAATAATGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 5 0.19
20 21 0.78
21 1 0.04
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (20 bp):
ATAAATAATAAAAAAATAAT
Found at i:109172199 original size:34 final size:35
Alignment explanation
Indices: 109172143--109172215 Score: 121
Period size: 34 Copynumber: 2.1 Consensus size: 35
109172133 ATAGTAATAG
109172143 TAATAGTAATAAAATAAAAATAATAATGATAATGA
1 TAATAGTAATAAAATAAAAATAATAATGATAATGA
* *
109172178 TAATAGTAA-AAAATAATAATAATAATGATGATGA
1 TAATAGTAATAAAATAAAAATAATAATGATAATGA
109172212 TAAT
1 TAAT
109172216 CATAATGGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
34 27 0.75
35 9 0.25
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (35 bp):
TAATAGTAATAAAATAAAAATAATAATGATAATGA
Found at i:109175661 original size:18 final size:18
Alignment explanation
Indices: 109175622--109175661 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
109175612 TTTAGCAATG
* **
109175622 TTTTTATTTTAAAAGTGT
1 TTTTTATTTCAAAAGTAC
109175640 TTTTTATTTCAAAAGTAC
1 TTTTTATTTCAAAAGTAC
109175658 TTTT
1 TTTT
109175662 GAAAAGTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (18 bp):
TTTTTATTTCAAAAGTAC
Found at i:109179436 original size:2 final size:2
Alignment explanation
Indices: 109179429--109179458 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
109179419 TTTTATTCAA
109179429 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
109179459 TACACTCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109180951 original size:11 final size:11
Alignment explanation
Indices: 109180935--109180963 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
109180925 AACTCGACCT
109180935 AATAATTATTA
1 AATAATTATTA
109180946 AATAATTATTA
1 AATAATTATTA
109180957 AATAATT
1 AATAATT
109180964 TGCATACATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
AATAATTATTA
Found at i:109182084 original size:43 final size:44
Alignment explanation
Indices: 109182022--109182104 Score: 132
Period size: 43 Copynumber: 1.9 Consensus size: 44
109182012 TGGCATTTAT
*
109182022 TGGGAAAAAACGCCGCTAAAGATCAAGGTTTTTAGCGGCGTTTG
1 TGGGAAAAAACGCCGCTAAAGATCAAGGCTTTTAGCGGCGTTTG
* *
109182066 TGGG-AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
1 TGGGAAAAAACGCCGCTAAAGATCAAGGCTTTTAGCGGCG
109182105 CTTTTTTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
43 32 0.89
44 4 0.11
ACGTcount: A:0.28, C:0.18, G:0.33, T:0.22
Consensus pattern (44 bp):
TGGGAAAAAACGCCGCTAAAGATCAAGGCTTTTAGCGGCGTTTG
Found at i:109187097 original size:242 final size:242
Alignment explanation
Indices: 109186665--109187312 Score: 1233
Period size: 242 Copynumber: 2.7 Consensus size: 242
109186655 TTGAATATAG
*
109186665 TAATTTTTTAAGATTCATCATACGTGGTGTTGTTACACCTAGGGAGGATCCATTATATCTTACAG
1 TAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAG
109186730 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAA
66 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAA
*
109186795 AAGGTTGGATAGAAGGTCAGTTATTGTTGTAATTTTAATGGACAAGCAAGCTATATGGTAATAAA
131 AAGGTTGGATAGAAGGTCAGTTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAA
109186860 TATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCAAACCA
196 TATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCAAACCA
109186907 TAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAG
1 TAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAG
109186972 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAA
66 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAA
109187037 AAGGTTGGATAGAAGGTCAGTTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAA
131 AAGGTTGGATAGAAGGTCAGTTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAA
109187102 TATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCAAACCA
196 TATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCAAACCA
109187149 TAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAG
1 TAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAG
*
109187214 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAT
66 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAA
* * * *
109187279 AATGTTGGAGAGAAGGTCAGCTATTGTTTTAATT
131 AAGGTTGGATAGAAGGTCAGTTATTGTTGTAATT
109187313 GCTTATAAAT
Statistics
Matches: 399, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
242 399 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.34
Consensus pattern (242 bp):
TAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAG
CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAA
AAGGTTGGATAGAAGGTCAGTTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAA
TATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCAAACCA
Found at i:109190805 original size:40 final size:40
Alignment explanation
Indices: 109190613--109190798 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
109190603 TCGAATGATG
* * *
109190613 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
109190653 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
109190693 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
109190733 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
109190774 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
109190799 AACGAGTAGC
Statistics
Matches: 134, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 1 0.01
40 123 0.92
41 10 0.07
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:109190805 original size:80 final size:80
Alignment explanation
Indices: 109190613--109190831 Score: 270
Period size: 80 Copynumber: 2.8 Consensus size: 80
109190603 TCGAATGATG
* * **
109190613 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
109190677 TGTGCGAGTTACTAAA
65 TGTGCGAGTTACTAAA
* *
109190693 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCATT
109190757 TGTGCGAGTTACTATAA
65 TGTGCGAGTTACTA-AA
* **
109190774 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
109190832 TACGTGATTC
Statistics
Matches: 122, Mismatches: 11, Indels: 13
0.84 0.08 0.09
Matches are distributed among these distances:
79 16 0.13
80 97 0.80
81 9 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:109198750 original size:40 final size:40
Alignment explanation
Indices: 109198693--109198877 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
109198683 TCGAATGATG
* * *
109198693 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
109198733 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
109198773 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
109198813 TCC-GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATGA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
109198853 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
109198878 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
39 37 0.28
40 86 0.66
41 8 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:109198857 original size:79 final size:79
Alignment explanation
Indices: 109198693--109198909 Score: 264
Period size: 79 Copynumber: 2.7 Consensus size: 79
109198683 TCGAATGATG
* * *
109198693 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGG-TTAAG-TCCCGAAGGCAT
109198756 TTGTGCGAGTTACTAAA
63 TTGTGCGAGTTACTAAA
* *
109198773 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGTTAAGTCCCGAAGGCATTTG
*
109198838 TGCGAGTTACTATGA
66 TGCGAGTTACTA-AA
* ** *
109198853 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAA-ACCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGTTAAGTCCCGAAGG
109198910 TACGTGATTC
Statistics
Matches: 121, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
78 11 0.09
79 69 0.57
80 34 0.28
81 7 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGTTAAGTCCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:109202086 original size:25 final size:25
Alignment explanation
Indices: 109202052--109202116 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
109202042 TGCGGAAGCG
109202052 GAGAGCGACGGCGAAGGGACGCAGAA
1 GAGA-CGACGGCGAAGGGACGCAGAA
109202078 GAGACGACGGCGAAGGGACGCAGAA
1 GAGACGACGGCGAAGGGACGCAGAA
109202103 GAGACGACGGCGAA
1 GAGACGACGGCGAA
109202117 CAACGATGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
25 35 0.90
26 4 0.10
ACGTcount: A:0.35, C:0.20, G:0.45, T:0.00
Consensus pattern (25 bp):
GAGACGACGGCGAAGGGACGCAGAA
Found at i:109203563 original size:13 final size:15
Alignment explanation
Indices: 109203545--109203578 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
109203535 ACATGTCTAA
109203545 TTAAACTC-T-AACC
1 TTAAACTCATAAACC
109203558 TTAAACTCATAAACC
1 TTAAACTCATAAACC
109203573 TTAAAC
1 TTAAAC
109203579 CCCAAACCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
14 1 0.05
15 10 0.53
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.29
Consensus pattern (15 bp):
TTAAACTCATAAACC
Found at i:109203723 original size:14 final size:14
Alignment explanation
Indices: 109203703--109203747 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
109203693 TCCTACACCT
109203703 TAAACCCTAAACTA
1 TAAACCCTAAACTA
*
109203717 TATACCCTAAA-TCA
1 TAAACCCTAAACT-A
109203731 TAAACCCTAAACTA
1 TAAACCCTAAACTA
109203745 TAA
1 TAA
109203748 TGATAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 1 0.04
14 25 0.93
15 1 0.04
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:109204031 original size:7 final size:7
Alignment explanation
Indices: 109204019--109204138 Score: 100
Period size: 7 Copynumber: 17.1 Consensus size: 7
109204009 AAAAATGCCA
109204019 CTAAACC
1 CTAAACC
109204026 CTAAACC
1 CTAAACC
109204033 CTAAACC
1 CTAAACC
**
109204040 CTAAATA
1 CTAAACC
*
109204047 CTAAACT
1 CTAAACC
109204054 CTAAACC
1 CTAAACC
*
109204061 CTTAACC
1 CTAAACC
*
109204068 CTTAACC
1 CTAAACC
*
109204075 CCAAACC
1 CTAAACC
*
109204082 CTTACACC
1 C-TAAACC
*
109204090 TTAAACTC
1 CTAAAC-C
109204098 C--AACC
1 CTAAACC
*
109204103 CTAACCC
1 CTAAACC
109204110 CTAAACC
1 CTAAACC
*
109204117 CTAAATC
1 CTAAACC
* *
109204124 ATAATCC
1 CTAAACC
109204131 CTAAACC
1 CTAAACC
109204138 C
1 C
109204139 ATAATTCATC
Statistics
Matches: 88, Mismatches: 21, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
5 2 0.02
6 3 0.03
7 78 0.89
8 5 0.06
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:109204207 original size:21 final size:21
Alignment explanation
Indices: 109204181--109204265 Score: 89
Period size: 21 Copynumber: 3.9 Consensus size: 21
109204171 ACTCCTAAAC
*
109204181 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
* * *
109204202 CTTAAACTATAGTTAACTCATAAAC
1 CTTAAACCATA---AAC-CATATAT
*
109204227 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
109204248 CTTAAACCATAAACCATA
1 CTTAAACCATAAACCATA
109204266 AACTATAATG
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
21 31 0.61
22 3 0.06
24 3 0.06
25 14 0.27
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.28
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:109204218 original size:46 final size:46
Alignment explanation
Indices: 109204165--109204254 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
109204155 CTTCAAATAC
*
109204165 TAGTTAACTCCTAAACCTTAAACCCTAAACCATATATCTTAAACTA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACTA
109204211 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAAC
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAAC
109204255 CATAAACCAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.42, C:0.26, G:0.02, T:0.30
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACTA
Found at i:109204234 original size:7 final size:7
Alignment explanation
Indices: 109204220--109204273 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
109204210 ATAGTTAACT
109204220 CATAAAC
1 CATAAAC
*
109204227 CTTAAAC
1 CATAAAC
*
109204234 CCTAAAC
1 CATAAAC
* *
109204241 CATATAT
1 CATAAAC
*
109204248 CTTAAAC
1 CATAAAC
109204255 CATAAAC
1 CATAAAC
109204262 CATAAAC
1 CATAAAC
*
109204269 TATAA
1 CATAA
109204274 TGATAATTAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (7 bp):
CATAAAC
Found at i:109204475 original size:41 final size:41
Alignment explanation
Indices: 109204430--109204508 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
109204420 GTTATATGAC
*
109204430 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
*
109204471 TTTTAGCGGCGTTTTGCCAGAAGCGCCGCTAATGCTCT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCT
109204509 ATTTTTTTGC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.16, C:0.25, G:0.25, T:0.33
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
Found at i:109205269 original size:22 final size:22
Alignment explanation
Indices: 109205243--109205287 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
109205233 TAAAACAAAG
109205243 ATTAAAACTCATAATTAAGAAT
1 ATTAAAACTCATAATTAAGAAT
109205265 ATTAAAACTCATAATTAAGAAT
1 ATTAAAACTCATAATTAAGAAT
109205287 A
1 A
109205288 AGAACAAGTA
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:0.56, C:0.09, G:0.04, T:0.31
Consensus pattern (22 bp):
ATTAAAACTCATAATTAAGAAT
Found at i:109209476 original size:20 final size:20
Alignment explanation
Indices: 109209451--109209496 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
109209441 CGAAAAATAA
109209451 TTTCTGGAAAATAATTTACT
1 TTTCTGGAAAATAATTTACT
*
109209471 TTTCT-GAAAATGATTTACT
1 TTTCTGGAAAATAATTTACT
109209490 TTTCTGG
1 TTTCTGG
109209497 TGTTTGGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATAATTTACT
Found at i:109211421 original size:19 final size:19
Alignment explanation
Indices: 109211385--109211421 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
109211375 TAACTAGGCT
* *
109211385 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAAATTAGC
109211404 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
109211422 GAAAAATGAC
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:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:109211626 original size:16 final size:18
Alignment explanation
Indices: 109211594--109211627 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
109211584 TAATTATGGT
109211594 TTATATATTAGTTATTAA
1 TTATATATTAGTTATTAA
109211612 TTAT-TATTA-TTATTAA
1 TTATATATTAGTTATTAA
109211628 ATAAATTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 5 0.31
18 4 0.25
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TTATATATTAGTTATTAA
Found at i:109211991 original size:142 final size:142
Alignment explanation
Indices: 109211733--109212029 Score: 345
Period size: 142 Copynumber: 2.1 Consensus size: 142
109211723 TTTAGAACAA
* * *
109211733 AAGATATTTATTAATTAAATAATTAAATAATGAGATTTTTGTTTAATAAATAAATTAAATAATGA
1 AAGATATTTATTAATTAAATAATTAAATAATGAGATTTTTATGTAACAAATAAATTAAATAATGA
* * * * * * * *
109211798 CAATTGTAATAAATTTATTGGTACAAATGTGAAAATATAAGTGTGTCCAATTGTAATATTAGTAT
66 CAAATGTAATAAATTTAGTGGTACAAATGTGAAAATAAAAATGTATCCAATTGTAAAATAAATA-
109211863 TTGA-TATTAAAT
130 TTGATTATTAAAT
* * * *
109211875 AAGATATTTATTAATTAAATAATTATATTATGAGATTTTTATGTAACAAATATATTAAATTATGA
1 AAGATATTTATTAATTAAATAATTAAATAATGAGATTTTTATGTAACAAATAAATTAAATAATGA
* * *
109211940 CAAATGTATGGTAAAATTT-GT-G-ACATATGT-AATAATAAAAATGTATGCAATTGTAAAATAA
66 CAAATGTA--AT-AAATTTAGTGGTACAAATGTGAA-AATAAAAATGTATCCAATTGTAAAATAA
109212001 ATATTGATTATTAAAT
127 ATATTGATTATTAAAT
109212017 -AGATATTTATTAA
1 AAGATATTTATTAA
109212030 CTTATTATAT
Statistics
Matches: 132, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
141 19 0.14
142 104 0.79
143 1 0.01
144 2 0.02
145 6 0.05
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.41
Consensus pattern (142 bp):
AAGATATTTATTAATTAAATAATTAAATAATGAGATTTTTATGTAACAAATAAATTAAATAATGA
CAAATGTAATAAATTTAGTGGTACAAATGTGAAAATAAAAATGTATCCAATTGTAAAATAAATAT
TGATTATTAAAT
Found at i:109212861 original size:15 final size:15
Alignment explanation
Indices: 109212841--109212897 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
109212831 CGATGAATTT
109212841 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
109212856 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
109212871 ATTGAATTTATATTG
1 ATTGAATTTATATTG
109212886 ATTGAA-TTATAT
1 ATTGAATTTATAT
109212898 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:109213361 original size:27 final size:28
Alignment explanation
Indices: 109213327--109213396 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
109213317 AATGCCTTAT
109213327 TGGTGTGTTTGGGAGG-CTATATTATAC
1 TGGTGTGTTTGGGAGGACTATATTATAC
* *
109213354 TGGTGTGTTAT-GGAGGATTTATATTATTC
1 TGGTGTGTT-TGGGAGGA-CTATATTATAC
109213383 TGGGTGTGTTTGGG
1 T-GGTGTGTTTGGG
109213397 TTGGATATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
27 14 0.39
28 1 0.03
29 11 0.31
30 10 0.28
ACGTcount: A:0.16, C:0.04, G:0.36, T:0.44
Consensus pattern (28 bp):
TGGTGTGTTTGGGAGGACTATATTATAC
Found at i:109216199 original size:6 final size:6
Alignment explanation
Indices: 109216141--109216197 Score: 96
Period size: 6 Copynumber: 9.5 Consensus size: 6
109216131 CGAAAAGGAT
*
109216141 GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GAGGAA GGGGAA
1 GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA
*
109216189 GGGAAA GGG
1 GGGGAA GGG
109216198 AAGATCATGT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (6 bp):
GGGGAA
Found at i:109234023 original size:4 final size:4
Alignment explanation
Indices: 109234014--109234062 Score: 98
Period size: 4 Copynumber: 12.2 Consensus size: 4
109234004 TTTATAAAAA
109234014 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
109234062 A
1 A
109234063 TTAGTCTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:109239609 original size:29 final size:29
Alignment explanation
Indices: 109239576--109239633 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
109239566 CAATACATTT
109239576 GGCCATATCATAATGACACATACACAAAA
1 GGCCATATCATAATGACACATACACAAAA
109239605 GGCCATATCATAATGACACATACACAAAA
1 GGCCATATCATAATGACACATACACAAAA
109239634 TGACTAAGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.48, C:0.24, G:0.10, T:0.17
Consensus pattern (29 bp):
GGCCATATCATAATGACACATACACAAAA
Found at i:109239637 original size:16 final size:16
Alignment explanation
Indices: 109239587--109239637 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
109239577 GCCATATCAT
109239587 AATGACACATACACAA
1 AATGACACATACACAA
* * *
109239603 AA-GGC-CATA-TCAT
1 AATGACACATACACAA
109239616 AATGACACATACACAA
1 AATGACACATACACAA
109239632 AATGAC
1 AATGAC
109239638 TAAGTCTTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
13 4 0.15
14 6 0.23
15 6 0.23
16 10 0.38
ACGTcount: A:0.51, C:0.24, G:0.10, T:0.16
Consensus pattern (16 bp):
AATGACACATACACAA
Found at i:109240627 original size:21 final size:21
Alignment explanation
Indices: 109240603--109240672 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
109240593 CACATACATC
109240603 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCACAACTCA
** * * *
109240624 ATGAGTTCAAATGTCACATATATC-
1 ATGAACTCAGA--CCACA-A-CTCA
109240648 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCACAACTCA
109240669 ATGA
1 ATGA
109240673 GTACAGATTT
Statistics
Matches: 34, Mismatches: 10, Indels: 10
0.63 0.19 0.19
Matches are distributed among these distances:
20 2 0.06
21 13 0.38
22 4 0.12
23 4 0.12
24 9 0.26
25 2 0.06
ACGTcount: A:0.41, C:0.26, G:0.11, T:0.21
Consensus pattern (21 bp):
ATGAACTCAGACCACAACTCA
Found at i:109240639 original size:45 final size:45
Alignment explanation
Indices: 109240589--109240674 Score: 163
Period size: 45 Copynumber: 1.9 Consensus size: 45
109240579 GCCAAAACAT
109240589 ATGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAA
1 ATGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAA
*
109240634 ATGTCACATATATCATGAACTCAGACCACAACTCAATGAGT
1 ATGTCACATACATCATGAACTCAGACCACAACTCAATGAGT
109240675 ACAGATTTCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.40, C:0.26, G:0.12, T:0.23
Consensus pattern (45 bp):
ATGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAA
Found at i:109243290 original size:31 final size:31
Alignment explanation
Indices: 109243252--109243314 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
109243242 TTAAATAAAA
109243252 GAAAAAAACTCATTTTAGCAAAGAAAGAAGT
1 GAAAAAAACTCATTTTAGCAAAGAAAGAAGT
109243283 GAAAAAAACTCATTTTAGCAAAGAAAGAAGT
1 GAAAAAAACTCATTTTAGCAAAGAAAGAAGT
109243314 G
1 G
109243315 TTTATTGCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.54, C:0.10, G:0.17, T:0.19
Consensus pattern (31 bp):
GAAAAAAACTCATTTTAGCAAAGAAAGAAGT
Found at i:109244787 original size:48 final size:48
Alignment explanation
Indices: 109244731--109244829 Score: 189
Period size: 48 Copynumber: 2.1 Consensus size: 48
109244721 TCGAATGGAA
*
109244731 GAATTATATACTGCGAACATTATTGATGATTCTTTGGAGGAAATTATT
1 GAATTATATACTGCAAACATTATTGATGATTCTTTGGAGGAAATTATT
109244779 GAATTATATACTGCAAACATTATTGATGATTCTTTGGAGGAAATTATT
1 GAATTATATACTGCAAACATTATTGATGATTCTTTGGAGGAAATTATT
109244827 GAA
1 GAA
109244830 ACAAAGGTAG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.38
Consensus pattern (48 bp):
GAATTATATACTGCAAACATTATTGATGATTCTTTGGAGGAAATTATT
Found at i:109244824 original size:24 final size:24
Alignment explanation
Indices: 109244749--109244828 Score: 78
Period size: 24 Copynumber: 3.3 Consensus size: 24
109244739 TACTGCGAAC
109244749 ATTATTGATGATTCTTTGGAGGAA
1 ATTATTGATGATTCTTTGGAGGAA
* *
109244773 ATTATTGA--ATTATATACTGCA--AA
1 ATTATTGATGATTCT-T--TGGAGGAA
109244796 CATTATTGATGATTCTTTGGAGGAA
1 -ATTATTGATGATTCTTTGGAGGAA
109244821 ATTATTGA
1 ATTATTGA
109244829 AACAAAGGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
22 4 0.09
23 6 0.14
24 24 0.55
25 6 0.14
26 4 0.09
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (24 bp):
ATTATTGATGATTCTTTGGAGGAA
Found at i:109244952 original size:39 final size:39
Alignment explanation
Indices: 109244898--109244976 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
109244888 CCAAAGCCAA
109244898 TTGGTTAAGGTACGGGGACCAGAACACCATTTTTTTTCT
1 TTGGTTAAGGTACGGGGACCAGAACACCATTTTTTTTCT
109244937 TTGGTTAAGGTACGGGGACCAGAACACCATTTTTTTTCT
1 TTGGTTAAGGTACGGGGACCAGAACACCATTTTTTTTCT
109244976 T
1 T
109244977 CTTATAGACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.37
Consensus pattern (39 bp):
TTGGTTAAGGTACGGGGACCAGAACACCATTTTTTTTCT
Found at i:109247469 original size:7 final size:7
Alignment explanation
Indices: 109247452--109247483 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
109247442 ACATACCAAT
109247452 TTCAC-A
1 TTCACAA
109247458 TTCACAA
1 TTCACAA
109247465 TTCACAA
1 TTCACAA
109247472 TTCACAA
1 TTCACAA
109247479 TTCAC
1 TTCAC
109247484 CTAAATGGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (7 bp):
TTCACAA
Found at i:109251327 original size:21 final size:22
Alignment explanation
Indices: 109251298--109251339 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
109251288 TTTTATCATA
*
109251298 TTAATTTAATTTTAA-AAAATT
1 TTAAATTAATTTTAATAAAATT
109251319 TTAAATTAATTTTAATAAAAT
1 TTAAATTAATTTTAATAAAAT
109251340 AAAATTCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTAAATTAATTTTAATAAAATT
Found at i:109251843 original size:9 final size:9
Alignment explanation
Indices: 109251824--109251877 Score: 74
Period size: 9 Copynumber: 5.8 Consensus size: 9
109251814 TTTTAGAAAA
109251824 TTTTTAA-T
1 TTTTTAATT
109251832 TTTTTAATT
1 TTTTTAATT
109251841 TTTTTATATAT
1 TTTTTA-AT-T
109251852 TTTTTAGATT
1 TTTTTA-ATT
109251862 TTTTTAATT
1 TTTTTAATT
109251871 TTTTTAA
1 TTTTTAA
109251878 ATAAAAATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
8 7 0.17
9 17 0.40
10 9 0.21
11 9 0.21
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTTTAATT
Found at i:109251855 original size:20 final size:19
Alignment explanation
Indices: 109251830--109251877 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
109251820 AAAATTTTTA
109251830 ATTTTTTAATTTTTTTATAT
1 ATTTTTTAATTTTTTTA-AT
109251850 ATTTTTTAGATTTTTTTAAT
1 ATTTTTTA-ATTTTTTTAAT
109251870 -TTTTTTAA
1 ATTTTTTAA
109251878 ATAAAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 1 0.04
19 7 0.26
20 10 0.37
21 9 0.33
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (19 bp):
ATTTTTTAATTTTTTTAAT
Found at i:109252544 original size:19 final size:21
Alignment explanation
Indices: 109252498--109252544 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
109252488 TATATAAATT
*
109252498 TATTAAATATTAATTTAAAAA
1 TATTATATATTAATTTAAAAA
*
109252519 TAATATATATT-ATTTAAAAA
1 TATTATATATTAATTTAAAAA
109252539 -ATTATA
1 TATTATA
109252545 AGACCGGGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 5 0.22
20 9 0.39
21 9 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TATTATATATTAATTTAAAAA
Found at i:109260375 original size:10 final size:10
Alignment explanation
Indices: 109260360--109260417 Score: 68
Period size: 10 Copynumber: 5.9 Consensus size: 10
109260350 AATTTTAGCT
109260360 TTTATCTTTA
1 TTTATCTTTA
109260370 TTTATCTTT-
1 TTTATCTTTA
109260379 TTCTATCTTTA
1 TT-TATCTTTA
*
109260390 ATTATC-TTA
1 TTTATCTTTA
109260399 TTTAT-TTGTA
1 TTTATCTT-TA
109260409 TTTATCTTT
1 TTTATCTTT
109260418 TAGAATTTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
9 10 0.24
10 28 0.68
11 3 0.07
ACGTcount: A:0.19, C:0.10, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:109260387 original size:20 final size:19
Alignment explanation
Indices: 109260359--109260418 Score: 77
Period size: 20 Copynumber: 3.1 Consensus size: 19
109260349 TAATTTTAGC
109260359 TTTTATCTTTATTTATCTT
1 TTTTATCTTTATTTATCTT
*
109260378 TTTCTATCTTTAATTATCTT
1 TTT-TATCTTTATTTATCTT
*
109260398 ATTTAT-TTGTATTTATCTT
1 TTTTATCTT-TATTTATCTT
109260417 TT
1 TT
109260419 AGAATTTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
18 2 0.06
19 16 0.46
20 17 0.49
ACGTcount: A:0.18, C:0.10, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTATCTTTATTTATCTT
Found at i:109266665 original size:5 final size:5
Alignment explanation
Indices: 109266649--109266723 Score: 61
Period size: 5 Copynumber: 15.4 Consensus size: 5
109266639 GCAACCCAAT
*
109266649 TTTTA -TTT- TTTTA TTTTA TTTT- TCTTAA TTTTTA TTTTA --TTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA -TTTTA TTTTA TTTTA TTTTA
* *
109266696 TTATA TTTTA TTTTA TTATTA CTTTA TT
1 TTTTA TTTTA TTTTA TT-TTA TTTTA TT
109266724 CTGTTTGGAT
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
3 3 0.05
4 7 0.12
5 38 0.68
6 7 0.12
7 1 0.02
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:109266679 original size:23 final size:21
Alignment explanation
Indices: 109266649--109266715 Score: 82
Period size: 21 Copynumber: 3.1 Consensus size: 21
109266639 GCAACCCAAT
*
109266649 TTTTATTTTTTTATTTTATTT
1 TTTTATTTTTTTATTTTATTA
*
109266670 TTCTTA-ATTTTTATTTTATTA
1 TT-TTATTTTTTTATTTTATTA
109266691 TTTTATTATATTTTATTTTATTA
1 TTTTATT-T-TTTTATTTTATTA
109266714 TT
1 TT
109266716 ACTTTATTCT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
20 3 0.08
21 17 0.44
22 4 0.10
23 15 0.38
ACGTcount: A:0.21, C:0.01, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTATTTTTTTATTTTATTA
Found at i:109266704 original size:10 final size:9
Alignment explanation
Indices: 109266650--109266723 Score: 55
Period size: 8 Copynumber: 7.7 Consensus size: 9
109266640 CAACCCAATT
109266650 TTTATTTT-
1 TTTATTTTA
109266658 TTTATTTTA
1 TTTATTTTA
109266667 TTT-TTCTTAA
1 TTTATT-TT-A
109266677 TTTTTATTTTA
1 --TTTATTTTA
109266688 -TTATTTTA
1 TTTATTTTA
109266696 TTATATTTTA
1 TT-TATTTTA
109266706 TTTTATTATTA
1 -TTTATT-TTA
109266717 CTTTATT
1 -TTTATT
109266724 CTGTTTGGAT
Statistics
Matches: 55, Mismatches: 1, Indels: 17
0.75 0.01 0.23
Matches are distributed among these distances:
8 18 0.33
9 6 0.11
10 12 0.22
11 12 0.22
12 5 0.09
13 2 0.04
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTATTTTA
Found at i:109266722 original size:23 final size:21
Alignment explanation
Indices: 109266656--109266723 Score: 82
Period size: 23 Copynumber: 3.1 Consensus size: 21
109266646 AATTTTTATT
* *
109266656 TTTTTATTTTATTTTTCTTAA
1 TTTTTATTTTATTATTCTTTA
*
109266677 TTTTTATTTTATTATTTTATTA
1 TTTTTATTTTATTATTCT-TTA
109266699 TATTTTATTTTATTATTACTTTA
1 T-TTTTATTTTATTATT-CTTTA
109266722 TT
1 TT
109266724 CTGTTTGGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
21 16 0.40
22 4 0.10
23 19 0.47
24 1 0.03
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTTATTTTATTATTCTTTA
Found at i:109266722 original size:34 final size:34
Alignment explanation
Indices: 109266650--109266723 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
109266640 CAACCCAATT
* * * *
109266650 TTTATTTTTTTATTTTATTTTTCTTAATTTTTAT
1 TTTATTATTTTATTATATTTTTCTTAATTATTAC
*
109266684 TTTATTATTTTATTATATTTTAT-TTTATTATTAC
1 TTTATTATTTTATTATATTTT-TCTTAATTATTAC
109266718 TTTATT
1 TTTATT
109266724 CTGTTTGGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 33 0.97
35 1 0.03
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (34 bp):
TTTATTATTTTATTATATTTTTCTTAATTATTAC
Found at i:109267049 original size:3 final size:3
Alignment explanation
Indices: 109267041--109267065 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
109267031 TTGCTACCCA
109267041 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
109267066 TAAGAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:109267783 original size:15 final size:15
Alignment explanation
Indices: 109267773--109267808 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
109267763 CAAAAAGGAA
*
109267773 AAAATAGAAAAAATAG
1 AAAA-AGAAAAAAAAG
109267789 AAAAAGAAAAAAAAG
1 AAAAAGAAAAAAAAG
109267804 AAAAA
1 AAAAA
109267809 AAAGTGATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (15 bp):
AAAAAGAAAAAAAAG
Found at i:109267810 original size:9 final size:9
Alignment explanation
Indices: 109267764--109267812 Score: 50
Period size: 9 Copynumber: 5.8 Consensus size: 9
109267754 AAACAAAAAC
*
109267764 AAAAAGGAA
1 AAAAAAGAA
*
109267773 AAAATAGAA
1 AAAAAAGAA
*
109267782 AAAATAG--
1 AAAAAAGAA
109267789 -AAAAAGAA
1 AAAAAAGAA
109267797 AAAAAAGAA
1 AAAAAAGAA
109267806 AAAAAAG
1 AAAAAAG
109267813 TGATGTATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
6 5 0.15
9 29 0.85
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:109268456 original size:10 final size:10
Alignment explanation
Indices: 109268441--109268489 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
109268431 AATTTTAGCT
109268441 TTTATCTTTA
1 TTTATCTTTA
109268451 TTTATCTTTA
1 TTTATCTTTA
**
109268461 AATATCTTTA
1 TTTATCTTTA
109268471 TTTAT-TTGTA
1 TTTATCTT-TA
109268481 TTTATCTTT
1 TTTATCTTT
109268490 TAGAATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 2 0.06
10 29 0.88
11 2 0.06
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:109270678 original size:6 final size:6
Alignment explanation
Indices: 109270652--109270724 Score: 60
Period size: 6 Copynumber: 12.3 Consensus size: 6
109270642 AAATTCTAAG
* * * * *
109270652 AAAATT AAAATA AATAGA AAAATA AAAATA AAAACTA AAATTA AAAATT
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA-TA AAAATA AAAATA
* *
109270701 AAAA-G AAAA-G AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
109270725 TGGACTCAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
5 9 0.16
6 41 0.75
7 5 0.09
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:109270709 original size:18 final size:18
Alignment explanation
Indices: 109270649--109270709 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 18
109270639 AAAAAATTCT
109270649 AAGAAAATT-AAAA-TAA
1 AAGAAAATTAAAAATTAA
* *
109270665 ATAGAAAAATAAAAATAAA
1 A-AGAAAATTAAAAATTAA
*
109270684 AACTAAAATTAAAAATTAA
1 AA-GAAAATTAAAAATTAA
109270703 AAGAAAA
1 AAGAAAA
109270710 GAAAATAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
16 1 0.03
17 7 0.20
18 9 0.26
19 18 0.51
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (18 bp):
AAGAAAATTAAAAATTAA
Found at i:109279919 original size:13 final size:13
Alignment explanation
Indices: 109279901--109279926 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
109279891 GGTACACAAG
109279901 GCCGTGTCGCACA
1 GCCGTGTCGCACA
109279914 GCCGTGTCGCACA
1 GCCGTGTCGCACA
109279927 TTGTTCGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GCCGTGTCGCACA
Found at i:109280811 original size:35 final size:35
Alignment explanation
Indices: 109280761--109280831 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
109280751 TCCTATAAAA
*
109280761 GTAGGTTGTATCATATTGTCAGTTTTAGTAGAATG
1 GTAGGTTGTACCATATTGTCAGTTTTAGTAGAATG
109280796 GTAGGTTGTACCATATTGTCAGTTTTAGTAGAATG
1 GTAGGTTGTACCATATTGTCAGTTTTAGTAGAATG
109280831 G
1 G
109280832 GTTAAACGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.25, C:0.07, G:0.27, T:0.41
Consensus pattern (35 bp):
GTAGGTTGTACCATATTGTCAGTTTTAGTAGAATG
Done.