Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 197 of 335
Found at i:59239642 original size:119 final size:119
Alignment explanation
Indices: 59239483--59239729 Score: 316
Period size: 119 Copynumber: 2.1 Consensus size: 119
59239473 CTGTAATTTT
* * * * *
59239483 GTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGACG
1 GTAAAACGGGGGTAAAATAGTAATTATATAAATCAAGGGTAAAATAGTAATTCTATAAATCAACG
* * * * *
59239548 GTAAAAC-GATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGG
66 GTAAAACAG-TAATTCTATAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGG
* ** * * * *
59239602 GTAAAACGGGGGTAAAATGGTAATTATATAAATCGGGGGTAAAATGGTAATTTTGTAAATCAAGG
1 GTAAAACGGGGGTAAAATAGTAATTATATAAATCAAGGGTAAAATAGTAATTCTATAAATCAACG
*
59239667 GTAAAACAGTAATTCTATAAATCAAGGGTAAAACGGTACTTCTATAAATCGAGG
66 GTAAAACAGTAATTCTATAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGG
59239721 GTAAAACGG
1 GTAAAACGG
59239730 TAATTATGTA
Statistics
Matches: 109, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
119 108 0.99
120 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.27
Consensus pattern (119 bp):
GTAAAACGGGGGTAAAATAGTAATTATATAAATCAAGGGTAAAATAGTAATTCTATAAATCAACG
GTAAAACAGTAATTCTATAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGG
Found at i:59239666 original size:146 final size:146
Alignment explanation
Indices: 59239475--59239750 Score: 417
Period size: 146 Copynumber: 1.9 Consensus size: 146
59239465 GGGTATTTCT
* * *
59239475 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATA
1 GTAATTATATAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
* * * * *
59239540 AATCGACGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTA
66 AATCAACGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTA
59239605 AAACGGGGGTAAAATG
131 AAACGGGGGTAAAATG
* * *
59239621 GTAATTATATAAATCGGGGGTAAAATGGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTATATAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
* * * *
59239686 AATCAAGGGTAAAACGGTACTTCTATAAATCGAGGGTAAAACGGTAATTATGTAAATCGGGGGTA
66 AATCAACGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTA
59239751 CTTTGGTAAT
Statistics
Matches: 115, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
146 115 1.00
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (146 bp):
GTAATTATATAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
AATCAACGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTA
AAACGGGGGTAAAATG
Found at i:59239773 original size:54 final size:54
Alignment explanation
Indices: 59239611--59239775 Score: 186
Period size: 54 Copynumber: 3.1 Consensus size: 54
59239601 GGTAAAACGG
* * *
59239611 GGGTAAAATGGTAATTATATAAATCGGGGGTAAAATGGTAATTTTGTAAATCAA
1 GGGTAAAACGGTAATTATATAAATCGGGGGTAAAATGGTAATTTTATAAATCGA
* * ** * * *
59239665 GGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACGGTACTTCTATAAATCGA
1 GGGTAAAACGGTAATTATATAAATCGGGGGTAAAATGGTAATTTTATAAATCGA
* *** * *
59239719 GGGTAAAACGGTAATTATGTAAATCGGGGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTAAAACGGTAATTATATAAATCGGGGGTAAAATGGTAATTTTATAAATCGA
59239773 GGG
1 GGG
59239776 CATTTCAGTA
Statistics
Matches: 88, Mismatches: 23, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
54 88 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (54 bp):
GGGTAAAACGGTAATTATATAAATCGGGGGTAAAATGGTAATTTTATAAATCGA
Found at i:59240692 original size:6 final size:6
Alignment explanation
Indices: 59240674--59240798 Score: 123
Period size: 6 Copynumber: 20.3 Consensus size: 6
59240664 AAGAAACATT
*
59240674 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ACCAGA ATCAGGTA A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * *
59240723 ATCAGA ATCAGA ACCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
59240772 ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
59240799 GTGAATGTAA
Statistics
Matches: 100, Mismatches: 8, Indels: 22
0.77 0.06 0.17
Matches are distributed among these distances:
5 7 0.07
6 79 0.79
7 9 0.09
8 5 0.05
ACGTcount: A:0.48, C:0.17, G:0.18, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:59240730 original size:37 final size:36
Alignment explanation
Indices: 59240683--59240789 Score: 151
Period size: 37 Copynumber: 2.9 Consensus size: 36
59240673 TATCAGAACT
59240683 AGAATCAGAATCAGAATCAGAACCAGAATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAA-CAGAATCAGGTAAC
* *
59240720 AGAATCAGAATCAGAACCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGAA-CAGAATCAGGTAAC
*
59240757 AGAATCAGAATCAGTATCAGGTAACAGAATCAG
1 AGAATCAGAATCAGAATCA-G-AACAGAATCAG
59240790 AATCAGAATG
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
37 51 0.82
38 9 0.15
39 2 0.03
ACGTcount: A:0.48, C:0.17, G:0.20, T:0.16
Consensus pattern (36 bp):
AGAATCAGAATCAGAATCAGAACAGAATCAGGTAAC
Found at i:59240759 original size:25 final size:25
Alignment explanation
Indices: 59240683--59240798 Score: 134
Period size: 25 Copynumber: 4.7 Consensus size: 25
59240673 TATCAGAACT
59240683 AGAATCAGAATCAGAATCA-G-AACC
1 AGAATCAGAATCAGAATCAGGTAA-C
59240707 AGAATCAGGTAA-CAGAATCA-G-AATC
1 AGAATCA-G-AATCAGAATCAGGTAA-C
* *
59240732 AGAACCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
59240757 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
59240782 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
59240799 GTGAATGTAA
Statistics
Matches: 80, Mismatches: 7, Indels: 9
0.83 0.07 0.09
Matches are distributed among these distances:
23 2 0.03
24 15 0.19
25 59 0.74
26 4 0.05
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.16
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:59240798 original size:31 final size:31
Alignment explanation
Indices: 59240688--59240797 Score: 145
Period size: 31 Copynumber: 3.5 Consensus size: 31
59240678 GAACTAGAAT
59240688 CAGAATCAGAATCAGAACCAGAATCAGGTAA
1 CAGAATCAGAATCAGAACCAGAATCAGGTAA
59240719 CAGAATCAGAATCAGAACCAGAATCA-G-AA
1 CAGAATCAGAATCAGAACCAGAATCAGGTAA
* * *
59240748 TTAGGTAA-CAGAATCAGAATCAGTATCAGGTAA
1 -CA-G-AATCAGAATCAGAACCAGAATCAGGTAA
59240781 CAGAATCAGAATCAGAA
1 CAGAATCAGAATCAGAA
59240798 TGTGAATGTA
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
29 2 0.03
30 4 0.06
31 57 0.83
32 4 0.06
33 2 0.03
ACGTcount: A:0.48, C:0.17, G:0.19, T:0.15
Consensus pattern (31 bp):
CAGAATCAGAATCAGAACCAGAATCAGGTAA
Found at i:59241783 original size:48 final size:48
Alignment explanation
Indices: 59241570--59241792 Score: 356
Period size: 48 Copynumber: 4.6 Consensus size: 48
59241560 AAGTCTTATA
* * *
59241570 GCTTTACCACATATACATATCTCATACATATCTCACATTCGCCATTCG
1 GCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCG
* *
59241618 GCTTTACCACATATACATATCTCATACATATTTCACATTCGCCATTCG
1 GCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCG
59241666 GCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCG
1 GCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCG
* * *
59241714 GCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCA
1 GCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCG
* *
59241762 GCTTTACCACATATACATATCACACATATAT
1 GCTTTACCACATATACATATCTCATATATAT
59241793 ATATTTATCT
Statistics
Matches: 169, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 169 1.00
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (48 bp):
GCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCG
Found at i:59244758 original size:27 final size:27
Alignment explanation
Indices: 59244728--59245193 Score: 553
Period size: 27 Copynumber: 17.3 Consensus size: 27
59244718 GGGGCAAAAT
* * *
59244728 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
59244755 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
59244782 GGTATTTCTACCGTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
59244809 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
59244836 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
59244863 GATAATTCTACCCTAC-AGTGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
*
59244890 GGTAATTTTACCCTAC-AGTGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
*
59244917 GGTAATTTTACCCTAC-AGTGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
*
59244944 GGTAATTCTACCCTAC-AGGGATATTTT
1 GGTAATTCTACCCTACAAGGG-TATTTC
*
59244971 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
59244998 GGTAATTTTACCCTATAGGGGTATTCC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
59245025 GGTAATTCTACCCTATAAGGGTATTCC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
59245052 GGTAATTCTACCCTACAAGGATATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
59245079 GGTAATTCTACCATACAGGGGTATTGC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
59245106 GATAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
59245133 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
59245160 GGTATTTCTACCCTAAAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
59245187 GATAATT
1 GGTAATT
59245194 TTATAAATCG
Statistics
Matches: 394, Mismatches: 42, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
26 3 0.01
27 388 0.98
28 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:59245207 original size:27 final size:27
Alignment explanation
Indices: 59245177--59245491 Score: 180
Period size: 27 Copynumber: 11.7 Consensus size: 27
59245167 CTACCCTAAA
* *
59245177 AGGGTATTTCGATAATTTTATAAATCG
1 AGGGTATTTTGATAATTTTACAAATCG
*** * **
59245204 AGGGTAAAATGATAATTCTGTAAATC-
1 AGGGTATTTTGATAATTTTACAAATCG
* ** *
59245230 AGGGGTACTTTGGCAATTTTACAAGTCG
1 A-GGGTATTTTGATAATTTTACAAATCG
** **
59245258 AGGGTATTTCAATAATTTTACAGGTCG
1 AGGGTATTTTGATAATTTTACAAATCG
* * *
59245285 AGGGTA-TTTCAGTAATTTCACAAATCA
1 AGGGTATTTTGA-TAATTTTACAAATCG
* *
59245312 AAGGTATTTTGATAATTTTACAAA-CT
1 AGGGTATTTTGATAATTTTACAAATCG
* *
59245338 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTATTTTGATAATTTTACAAATCG
* * *
59245365 AGGGGTATTTTGGTAATTTTATAAA-CAA
1 A-GGGTATTTTGATAATTTTACAAATC-G
59245393 AGGGTATTTT-AGTAATTTTACAAA-CTG
1 AGGGTATTTTGA-TAATTTTACAAATC-G
* ** * *
59245420 -GGGATATTTTGGTAATTTTGTAAACCA
1 AGGG-TATTTTGATAATTTTACAAATCG
* *
59245447 AGGGTATTTTGGTAATTTTACAAA-CC
1 AGGGTATTTTGATAATTTTACAAATCG
*
59245473 AGGGGTATTTTGGTAATTT
1 A-GGGTATTTTGATAATTT
59245492 GGTAAACTAA
Statistics
Matches: 230, Mismatches: 46, Indels: 24
0.77 0.15 0.08
Matches are distributed among these distances:
26 11 0.05
27 209 0.91
28 10 0.04
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
AGGGTATTTTGATAATTTTACAAATCG
Found at i:59245498 original size:27 final size:27
Alignment explanation
Indices: 59245314--59245491 Score: 223
Period size: 27 Copynumber: 6.6 Consensus size: 27
59245304 ACAAATCAAA
* * *
59245314 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACCAGG
* *
59245341 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACCAGG
* *
59245368 GGTATTTTGGTAATTTTATAAACAAAG
1 GGTATTTTGGTAATTTTATAAACCAGG
* * *
59245395 GGTATTTTAGTAATTTTACAAA-CTGG
1 GGTATTTTGGTAATTTTATAAACCAGG
* *
59245421 GGATATTTTGGTAATTTTGTAAACCAAG
1 GG-TATTTTGGTAATTTTATAAACCAGG
*
59245449 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTATAAACCAGG
59245476 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
59245492 GGTAAACTAA
Statistics
Matches: 132, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.02
27 125 0.95
28 4 0.03
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTATAAACCAGG
Found at i:59245498 original size:54 final size:54
Alignment explanation
Indices: 59245285--59245491 Score: 263
Period size: 54 Copynumber: 3.8 Consensus size: 54
59245275 TTACAGGTCG
* * * ** * * *
59245285 AGGGTATTTCAGTAATTTCACAAATCAAAGGTATTTTGATAATTTTACAAACTA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAA
* * *
59245339 GGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACAA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAA
* * *
59245393 AGGGTATTTTAGTAATTTTACAAA-CTGGGGATATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGG-TATTTTGGTAATTTTATAAACAA
*
59245447 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
59245492 GGTAAACTAA
Statistics
Matches: 132, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 4 0.03
54 123 0.93
55 5 0.04
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (54 bp):
AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAA
Found at i:59245499 original size:81 final size:81
Alignment explanation
Indices: 59245285--59245491 Score: 272
Period size: 81 Copynumber: 2.6 Consensus size: 81
59245275 TTACAGGTCG
** * * * *
59245285 AGGGTATTTCAGTAATTTCACAAATCAAAGGTATTTTGATAATTTTACAAACTAGGGGTATTTTG
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
*
59245350 GTAATTTTACAAACTA
66 GTAATTTTACAAACCA
* * * *
59245366 GGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACT-GGGGATATTTT
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGG-TATTTT
**
59245430 GGTAATTTTGTAAACCA
65 GGTAATTTTACAAACCA
*
59245447 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTT
59245492 GGTAAACTAA
Statistics
Matches: 107, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 4 0.04
81 103 0.96
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (81 bp):
AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
GTAATTTTACAAACCA
Found at i:59247438 original size:6 final size:6
Alignment explanation
Indices: 59247419--59247527 Score: 105
Period size: 6 Copynumber: 17.8 Consensus size: 6
59247409 TATTAGAACT
* * *
59247419 AGAATC AAAATC AGAATC AGAACC AGAATC AGAATC AGAACC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
* *
59247467 AGAATT AGGTAA-C AGAATC AGAATC AGTATC AGGTAA-C AGAATC AGAATC
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
* *
59247517 TGAATC TGAAT
1 AGAATC AGAAT
59247528 GCAAACCTAA
Statistics
Matches: 86, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
5 4 0.05
6 74 0.86
7 5 0.06
8 3 0.03
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:59247488 original size:25 final size:25
Alignment explanation
Indices: 59247430--59247522 Score: 118
Period size: 25 Copynumber: 3.8 Consensus size: 25
59247420 GAATCAAAAT
*
59247430 CAGAATCAGAACCAGAATCA-G-AA
1 CAGAATCAGAATCAGAATCAGGTAA
* *
59247453 TCAGAACCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATCAGAATCAGGTAA
*
59247479 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
59247504 CAGAATCAGAATCTGAATC
1 CAGAATCAGAATCAGAATC
59247523 TGAATGCAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
24 17 0.29
25 40 0.68
26 2 0.03
ACGTcount: A:0.46, C:0.18, G:0.18, T:0.17
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:59247687 original size:27 final size:26
Alignment explanation
Indices: 59247639--59247698 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
59247629 GCGAGGCTGC
*
59247639 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
59247666 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
59247692 CAGATAT
1 CAGATAT
59247699 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:59249267 original size:30 final size:29
Alignment explanation
Indices: 59249173--59249274 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
59249163 TATAGTGAAT
* * *
59249173 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
59249202 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
59249230 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
59249260 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
59249275 CATGACCAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:59257111 original size:30 final size:29
Alignment explanation
Indices: 59257017--59257118 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
59257007 TATAGTGAAT
* * *
59257017 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
59257046 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
59257074 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
59257104 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
59257119 CATGACCAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:59258888 original size:27 final size:27
Alignment explanation
Indices: 59258858--59259214 Score: 414
Period size: 27 Copynumber: 13.3 Consensus size: 27
59258848 GGGGCAAAAT
* * ** *
59258858 GGTAATTTTACCCCACAACGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
59258885 GGTAATTTTACCCAACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
59258912 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
59258939 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
59258966 GGTAATTTTACACTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
59258993 GGTAATTCTACCCTACAGGGGAATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
59259020 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
59259047 GGTAATTCTACCCTACAAGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
59259073 TGATAATTCTACCCTACAGGGGTACTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
* *
59259101 GGTAATTCTA-CATACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
59259127 GATAATTCTACCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
59259153 TGATATTTTTACCCTACAAGGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
* **
59259181 GGTATTTCTACCCTACAACGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
59259208 GGTAATT
1 GGTAATT
59259215 TTGTAAATCG
Statistics
Matches: 284, Mismatches: 41, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
26 27 0.10
27 251 0.88
28 6 0.02
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:59259230 original size:27 final size:27
Alignment explanation
Indices: 59259200--59259464 Score: 219
Period size: 27 Copynumber: 9.8 Consensus size: 27
59259190 ACCCTACAAC
* ** *
59259200 GGTATTTCGGTAATTTTGTAAATCGAG
1 GGTATTTTGGTAATTTTACAAATCAAG
*** * * *
59259227 GGTAAAGTGATAATTCTATAAATCAAG
1 GGTATTTTGGTAATTTTACAAATCAAG
* * *
59259254 GGTACTTTGGTAATTTTACAAGTCGAG
1 GGTATTTTGGTAATTTTACAAATCAAG
*** ** *
59259281 GGTATTTCAATAATTTTACAGGTCGAG
1 GGTATTTTGGTAATTTTACAAATCAAG
** * *
59259308 GGTATTTCAGTAATTTCACAAATCAGG
1 GGTATTTTGGTAATTTTACAAATCAAG
* *
59259335 GGTATTTTGATAATTTTACAAA-CTAGG
1 GGTATTTTGGTAATTTTACAAATC-AAG
* *
59259362 GGTATTTTGGTAATTTTATAAATAAAG
1 GGTATTTTGGTAATTTTACAAATCAAG
*
59259389 GGTATTTTAGTAATTTTACAAA-CTAAG
1 GGTATTTTGGTAATTTTACAAATC-AAG
** *
59259416 GGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAATCAAG
59259443 GGTATTTTGGTAATTTTACAAA
1 GGTATTTTGGTAATTTTACAAA
59259465 CCTGGGATAT
Statistics
Matches: 191, Mismatches: 43, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
26 1 0.01
27 189 0.99
28 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAATCAAG
Found at i:59259476 original size:54 final size:53
Alignment explanation
Indices: 59259334--59259497 Score: 204
Period size: 54 Copynumber: 3.0 Consensus size: 53
59259324 CACAAATCAG
* * *
59259334 GGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAATAAA
1 GGGTATTTTGGTAATTTTACAAACTA-GGGTATTTTGGTAATTTTGTAAACAAA
* *
59259388 GGGTATTTTAGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACT-AGGGTATTTTGGTAATTTTGTAAACAAA
** *
59259442 GGGTATTTTGGTAATTTTACAAACCT-GGGATATTTCAGTAATTTGGTAAACTAAA
1 GGGTATTTTGGTAATTTTACAAA-CTAGGG-TATTTTGGTAATTTTGTAAAC-AAA
59259497 G
1 G
59259498 TATTCTAAAC
Statistics
Matches: 96, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
53 3 0.03
54 87 0.91
55 6 0.06
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.40
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGTATTTTGGTAATTTTGTAAACAAA
Found at i:59259493 original size:81 final size:81
Alignment explanation
Indices: 59259251--59259495 Score: 215
Period size: 81 Copynumber: 3.0 Consensus size: 81
59259241 TCTATAAATC
* * ** * *** ** **
59259251 AAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTC
1 AAGGGTATTTTGATAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAATAAAGGGTATTTC
*
59259316 AGTAATTTCACAAA-T
66 AGTAATTTGACAAACT
* * * *
59259331 CAGGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAATAAAGGGTATTT
1 -AAGGGTATTTTGATAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAATAAAGGGTATTT
* *
59259396 TAGTAATTTTACAAACT
65 CAGTAATTTGACAAACT
* ** ***
59259413 AAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAA-CCTGGGATATTT
1 AAGGGTATTTTGATAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAATAAAGGG-TATTT
**
59259477 CAGTAATTTGGTAAACT
65 CAGTAATTTGACAAACT
59259494 AA
1 AA
59259496 AGTATTCTAA
Statistics
Matches: 130, Mismatches: 32, Indels: 4
0.78 0.19 0.02
Matches are distributed among these distances:
80 3 0.02
81 126 0.97
82 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.39
Consensus pattern (81 bp):
AAGGGTATTTTGATAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAATAAAGGGTATTTC
AGTAATTTGACAAACT
Found at i:59261454 original size:6 final size:6
Alignment explanation
Indices: 59261436--59261548 Score: 99
Period size: 6 Copynumber: 18.3 Consensus size: 6
59261426 AAGAAACATT
*
59261436 ATCAGA A-CTAGA ATCAGA ATCATA ATCAAGTA AT-AGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATC-AG-A ATCAGA ATCAGA ATCAGA
* * *
59261485 ACCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA ATCAGT ATCAGGTA A-CAGA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
59261535 ATCAGA ATCAGA AT
1 ATCAGA ATCAGA AT
59261549 GTGAATACAA
Statistics
Matches: 88, Mismatches: 8, Indels: 22
0.75 0.07 0.19
Matches are distributed among these distances:
5 8 0.09
6 67 0.76
7 7 0.08
8 6 0.07
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:59261454 original size:24 final size:25
Alignment explanation
Indices: 59261421--59261479 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
59261411 AACCCATTAC
* *
59261421 AGAATAAGAAACATTATC-AG-AACT
1 AGAATCAGAAACATAATCAAGTAA-T
*
59261445 AGAATCAGAATCATAATCAAGTAAT
1 AGAATCAGAAACATAATCAAGTAAT
59261470 AGAATCAGAA
1 AGAATCAGAA
59261480 TCAGAACCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.50
25 13 0.43
26 2 0.07
ACGTcount: A:0.54, C:0.12, G:0.14, T:0.20
Consensus pattern (25 bp):
AGAATCAGAAACATAATCAAGTAAT
Found at i:59261481 original size:31 final size:31
Alignment explanation
Indices: 59261445--59261548 Score: 108
Period size: 31 Copynumber: 3.4 Consensus size: 31
59261435 TATCAGAACT
59261445 AGAATCAGAATCATAATCAAGTAATAGAATC
1 AGAATCAGAATCATAATCAAGTAATAGAATC
* *
59261476 AGAATCAGAACCAGAATC-AG-AATTAGGTAA-C
1 AGAATCAGAATCATAATCAAGTAA-TA-G-AATC
* *
59261507 AGAATCAGAATCAGT-ATCAGGTAACAGAATC
1 AGAATCAGAATCA-TAATCAAGTAATAGAATC
59261538 AGAATCAGAAT
1 AGAATCAGAAT
59261549 GTGAATACAA
Statistics
Matches: 60, Mismatches: 6, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
29 2 0.03
30 6 0.10
31 46 0.77
32 4 0.07
33 2 0.03
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCATAATCAAGTAATAGAATC
Found at i:59261491 original size:37 final size:37
Alignment explanation
Indices: 59261436--59261520 Score: 109
Period size: 37 Copynumber: 2.3 Consensus size: 37
59261426 AAGAAACATT
* * *
59261436 ATCAGAA-CTAGAATCAGAATCATAATCAAGTAATAGA
1 ATCAGAATC-AGAACCAGAATCAGAATCAAGTAACAGA
* *
59261473 ATCAGAATCAGAACCAGAATCAGAATTAGGTAACAGA
1 ATCAGAATCAGAACCAGAATCAGAATCAAGTAACAGA
59261510 ATCAGAATCAG
1 ATCAGAATCAG
59261521 TATCAGGTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
37 41 0.98
38 1 0.02
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.19
Consensus pattern (37 bp):
ATCAGAATCAGAACCAGAATCAGAATCAAGTAACAGA
Found at i:59261510 original size:25 final size:25
Alignment explanation
Indices: 59261481--59261548 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
59261471 GAATCAGAAT
* *
59261481 CAGAACCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
59261506 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
59261531 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
59261549 GTGAATACAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.18
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:59261511 original size:19 final size:18
Alignment explanation
Indices: 59261450--59261548 Score: 87
Period size: 19 Copynumber: 5.3 Consensus size: 18
59261440 GAACTAGAAT
*
59261450 CAGAATCATAATCAAGTAA
1 CAGAATCAGAATC-AGTAA
*
59261469 TAGAATCAGAATCAG-AA
1 CAGAATCAGAATCAGTAA
*
59261486 CCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATCA-GTAA
*
59261506 CAGAATCAGAATCAGTAT
1 CAGAATCAGAATCAGTAA
59261524 CAGGTAA-CAGAATCAG-AA
1 CA-G-AATCAGAATCAGTAA
59261542 TCAGAAT
1 -CAGAAT
59261549 GTGAATACAA
Statistics
Matches: 66, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
17 4 0.06
18 21 0.32
19 37 0.56
20 4 0.06
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.19
Consensus pattern (18 bp):
CAGAATCAGAATCAGTAA
Found at i:59261715 original size:27 final size:26
Alignment explanation
Indices: 59261667--59261726 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
59261657 GCGAGGTGGC
* *
59261667 CAGATATTGTGACGAAGTCACCGGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
59261694 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
59261720 CAGATAT
1 CAGATAT
59261727 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:59263597 original size:40 final size:40
Alignment explanation
Indices: 59263542--59263751 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
59263532 AACATTGGAA
59263542 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
59263582 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
59263622 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
59263662 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
59263701 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
59263742 CTATATCCGG
1 ATATATCCGG
59263752 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:59271731 original size:40 final size:40
Alignment explanation
Indices: 59271676--59271885 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
59271666 AACATTGGAA
59271676 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
59271716 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
59271756 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
59271796 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
59271835 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
59271876 CTATATCCGG
1 ATATATCCGG
59271886 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:59275009 original size:14 final size:14
Alignment explanation
Indices: 59274992--59275020 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
59274982 ACTCTTGATT
59274992 TAAAACAGAAAAAC
1 TAAAACAGAAAAAC
59275006 TAAAACAGAAAAAC
1 TAAAACAGAAAAAC
59275020 T
1 T
59275021 GTACCTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.69, C:0.14, G:0.07, T:0.10
Consensus pattern (14 bp):
TAAAACAGAAAAAC
Found at i:59275904 original size:30 final size:31
Alignment explanation
Indices: 59275868--59275930 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
59275858 CCTTTTCATA
59275868 TTTCATATTTCATA-TACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
59275898 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
59275929 TT
1 TT
59275931 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 14 0.44
31 18 0.56
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:59276184 original size:24 final size:23
Alignment explanation
Indices: 59276121--59276235 Score: 137
Period size: 24 Copynumber: 5.0 Consensus size: 23
59276111 GCTTTATCAT
*
59276121 ATAACTGGAGGCCT-AGCCTCTTTA
1 ATAACTGG-GGCATAAGCC-CTTTA
*
59276145 ATAACT-GGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTT-A
*
59276168 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTA
*
59276191 ATAACT-GGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCC-TTTA
59276214 ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
59276236 TTCACTTCCT
Statistics
Matches: 81, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
22 19 0.23
23 30 0.37
24 32 0.40
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (23 bp):
ATAACTGGGGCATAAGCCCTTTA
Found at i:59276198 original size:46 final size:46
Alignment explanation
Indices: 59276121--59276236 Score: 162
Period size: 46 Copynumber: 2.5 Consensus size: 46
59276111 GCTTTATCAT
* *
59276121 ATAACTGGAGGCCT-AGCCTCTTTAATAACTGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTATAACTGGGCAAAAGCCCTTTCA
* **
59276168 ATAACTGGGGCATAAGCCCTTTTATAACTGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTATAACTGGGCAAAAGCCCTTTCA
59276214 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
59276237 TCACTTCCTC
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
46 51 0.81
47 12 0.19
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (46 bp):
ATAACTGGGGCATAAGCCCTTTTATAACTGGGCAAAAGCCCTTTCA
Found at i:59276312 original size:20 final size:20
Alignment explanation
Indices: 59276287--59276346 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
59276277 TATGATTACC
59276287 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
59276307 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
59276327 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
59276347 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:59276317 original size:11 final size:11
Alignment explanation
Indices: 59276287--59276341 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
59276277 TATGATTACC
59276287 TCATGTGCATA
1 TCATGTGCATA
*
59276298 TCA--TACATA
1 TCATGTGCATA
59276307 TCATGTGCATA
1 TCATGTGCATA
* *
59276318 TCA--TACATT
1 TCATGTGCATA
59276327 TCATGTGCATA
1 TCATGTGCATA
59276338 TCAT
1 TCAT
59276342 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:59276421 original size:25 final size:25
Alignment explanation
Indices: 59276389--59276436 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
59276379 ATACATAAAC
* * *
59276389 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
59276414 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
59276437 CATATATAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:59281135 original size:19 final size:20
Alignment explanation
Indices: 59281109--59281153 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
59281099 TATGGACCAC
*
59281109 TAGGCCCAATCTCATTCATA
1 TAGGCCCAATCACATTCATA
*
59281129 T-GGCCCATTCACATTCATA
1 TAGGCCCAATCACATTCATA
59281148 TAGGCC
1 TAGGCC
59281154 ATCGACCCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.27, C:0.31, G:0.13, T:0.29
Consensus pattern (20 bp):
TAGGCCCAATCACATTCATA
Found at i:59281193 original size:27 final size:28
Alignment explanation
Indices: 59281132--59281202 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
59281122 ATTCATATGG
* *
59281132 CCCATTCACATTCATATAGGCCATCGAC
1 CCCAATCACATTCATATAGGCCATCGAA
59281160 CCCAATCACATTCATAT-GGCCCATC-AA
1 CCCAATCACATTCATATAGG-CCATCGAA
**
59281187 CTTAATCACATTCATA
1 CCCAATCACATTCATA
59281203 GTCATGCAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 17 0.45
28 21 0.55
ACGTcount: A:0.32, C:0.34, G:0.07, T:0.27
Consensus pattern (28 bp):
CCCAATCACATTCATATAGGCCATCGAA
Found at i:59281946 original size:30 final size:30
Alignment explanation
Indices: 59281912--59282008 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
59281902 TAAACTAAAA
59281912 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
59281942 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
59281972 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
59282002 TGAGCTA
1 TGAGCTA
59282009 GGGTGAGCTC
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:59288895 original size:15 final size:15
Alignment explanation
Indices: 59288875--59288922 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
59288865 TCAAAGATGG
59288875 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
59288890 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
59288904 GTTTATGGATATAAA
1 GTTTATGGATATGAA
59288919 GTTT
1 GTTT
59288923 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:59288909 original size:14 final size:14
Alignment explanation
Indices: 59288869--59288912 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
59288859 AAGGATTCAA
59288869 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
59288883 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
59288898 AGATGGGTTTATGG
1 AGATGGGTTTATGG
59288912 A
1 A
59288913 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:59288938 original size:29 final size:29
Alignment explanation
Indices: 59288869--59288928 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
59288859 AAGGATTCAA
*
59288869 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
59288898 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
59288927 AG
1 AG
59288929 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:59289949 original size:14 final size:14
Alignment explanation
Indices: 59289907--59289951 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
59289897 TTAAAGAAGC
59289907 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
59289921 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
59289934 AACTCATTTAATTA
1 AACTCATTAAATTA
59289948 AACT
1 AACT
59289952 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:59290924 original size:27 final size:26
Alignment explanation
Indices: 59290882--59290986 Score: 129
Period size: 27 Copynumber: 3.9 Consensus size: 26
59290872 AGGAAGCGTC
*
59290882 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
59290909 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
59290936 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* *
59290964 CTGGTGACTCTGTCACATTATCT
1 CTGGTGGCTCTGCCACATTATCT
59290987 TTTCTGGCAG
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.03
27 49 0.72
28 17 0.25
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:59290986 original size:54 final size:54
Alignment explanation
Indices: 59290882--59290993 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
59290872 AGGAAGCGTC
*
59290882 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
* * ** *
59290936 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTTTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTACCACATATATCTGTT
59290990 CTGG
1 CTGG
59290994 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
Found at i:59291573 original size:30 final size:30
Alignment explanation
Indices: 59291470--59291567 Score: 83
Period size: 30 Copynumber: 3.2 Consensus size: 30
59291460 AGCTCACTCC
*
59291470 TAGCTCATATTCAGC-TCACGAGCTAAACCT
1 TAGCTCA-CTTCAGCTTCACGAGCTAAACCT
* * * *
59291500 TAGCTCAGCTTCAGCTT-AGGAGTTTAATCT
1 TAGCTCA-CTTCAGCTTCACGAGCTAAACCT
* * *
59291530 CAGCTCAACTTTAGCTTCACGAGCTAAAGCT
1 TAGCTC-ACTTCAGCTTCACGAGCTAAACCT
59291561 TAGCTCA
1 TAGCTCA
59291568 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 13, Indels: 6
0.73 0.18 0.08
Matches are distributed among these distances:
30 36 0.69
31 16 0.31
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (30 bp):
TAGCTCACTTCAGCTTCACGAGCTAAACCT
Found at i:59300261 original size:27 final size:26
Alignment explanation
Indices: 59300221--59300332 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
59300211 AGGAAGTGTC
*
59300221 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
59300248 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
59300275 CTGGTGGCTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCAC-ATTATCT-GAT
* * *
59300303 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
59300329 CTGG
1 CTGG
59300333 CAACCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 50 0.68
28 17 0.23
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:59300325 original size:54 final size:54
Alignment explanation
Indices: 59300221--59300332 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
59300211 AGGAAGTGTC
*
59300221 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
59300275 CTGGTGGCTCTGCCACGATTATCTATATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCT-GATCTGGTGACTCTGCCACATATATCTGTT
59300329 CTGG
1 CTGG
59300333 CAACCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:59302940 original size:9 final size:9
Alignment explanation
Indices: 59302926--59302963 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
59302916 AATTTTAAAG
59302926 AGAATGAAA
1 AGAATGAAA
59302935 AGAATGAAA
1 AGAATGAAA
*
59302944 AGAAAGAAA
1 AGAATGAAA
*
59302953 AGAGTGAAA
1 AGAATGAAA
59302962 AG
1 AG
59302964 GTGCGAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.08
Consensus pattern (9 bp):
AGAATGAAA
Found at i:59309522 original size:20 final size:20
Alignment explanation
Indices: 59309497--59309555 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
59309487 TAACTTATTC
59309497 CTAGCTCATCCAGCTCACAA
1 CTAGCTCATCCAGCTCACAA
* * *
59309517 CTAGCTCAGCAAGCTCACAT
1 CTAGCTCATCCAGCTCACAA
59309537 CTAGCTCAATTCCAGCTCA
1 CTAGCTC-A-TCCAGCTCA
59309556 TGAGCTTGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 24 0.75
21 1 0.03
22 7 0.22
ACGTcount: A:0.29, C:0.37, G:0.12, T:0.22
Consensus pattern (20 bp):
CTAGCTCATCCAGCTCACAA
Found at i:59311310 original size:22 final size:20
Alignment explanation
Indices: 59311285--59311324 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
59311275 GCTTGGGAAC
59311285 TTCAAGGAAGCTTCCAAGGACG
1 TTCAA-GAAGCTT-CAAGGACG
*
59311307 TTCAAGAATCTTCAAGGA
1 TTCAAGAAGCTTCAAGGA
59311325 AGGTTCCAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (20 bp):
TTCAAGAAGCTTCAAGGACG
Found at i:59312057 original size:18 final size:17
Alignment explanation
Indices: 59312027--59312062 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
59312017 AAAGTATCAT
*
59312027 TTTGTAGTTAAAAAAAA
1 TTTGAAGTTAAAAAAAA
*
59312044 TTTGAAGTTGAAAAAAA
1 TTTGAAGTTAAAAAAAA
59312061 TT
1 TT
59312063 GAAAAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (17 bp):
TTTGAAGTTAAAAAAAA
Found at i:59314687 original size:14 final size:14
Alignment explanation
Indices: 59314665--59314709 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
59314655 TTAAAGAAGC
59314665 AACTCATTAAATTA
1 AACTCATTAAATTA
*
59314679 AATTCATTAAA-TA
1 AACTCATTAAATTA
*
59314692 AACTCATTTAATTA
1 AACTCATTAAATTA
59314706 AACT
1 AACT
59314710 AAGATGAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:59314753 original size:42 final size:42
Alignment explanation
Indices: 59314692--59314797 Score: 194
Period size: 42 Copynumber: 2.5 Consensus size: 42
59314682 TCATTAAATA
59314692 AACTCATTTAATTAAACTAAGATGAGTTGTATTAATGACCAGC
1 AACTCATTT-ATTAAACTAAGATGAGTTGTATTAATGACCAGC
59314735 AACTCATTTATTAAACTAAGATGAGTTGTATTAATGACCAGC
1 AACTCATTTATTAAACTAAGATGAGTTGTATTAATGACCAGC
*
59314777 AAATCATTTATTAAACTAAGA
1 AACTCATTTATTAAACTAAGA
59314798 GGCTTAAATG
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
42 53 0.85
43 9 0.15
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (42 bp):
AACTCATTTATTAAACTAAGATGAGTTGTATTAATGACCAGC
Found at i:59317550 original size:28 final size:29
Alignment explanation
Indices: 59317499--59317557 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 29
59317489 AAGGATTCAA
* *
59317499 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATAGATATAAAGTTTATGT
*
59317528 AGATGGGTTT-TAGATATAAAGTTTTTGT
1 AGATGGGTTTATAGATATAAAGTTTATGT
59317556 AG
1 AG
59317558 GTTTGGTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 17 0.63
29 10 0.37
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATAGATATAAAGTTTATGT
Found at i:59318570 original size:14 final size:14
Alignment explanation
Indices: 59318528--59318572 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
59318518 TTAAAGAAGC
59318528 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
59318542 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
59318555 AACTCATTTAATTA
1 AACTCATTAAATTA
59318569 AACT
1 AACT
59318573 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:59321073 original size:18 final size:18
Alignment explanation
Indices: 59321052--59321101 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
59321042 AAACTCTTTT
59321052 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
59321070 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
59321088 TCAATCTCTTTTTC
1 TCATTCTCTTTTTC
59321102 TTTTTCTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.58
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:59321107 original size:24 final size:24
Alignment explanation
Indices: 59321027--59321104 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
59321017 CTTGTTCACA
*
59321027 TTCTTTCTCTCTCTCAAACTCTTT
1 TTCTTTCTCTCTCTCAATCTCTTT
* * * *
59321051 TTCATTCTCTTTTTCAATCTCATT
1 TTCTTTCTCTCTCTCAATCTCTTT
* *
59321075 TTCTTTTTCACTCTCAATCTCTTT
1 TTCTTTCTCTCTCTCAATCTCTTT
59321099 TTCTTT
1 TTCTTT
59321105 TTCTTTCATT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.13, C:0.28, G:0.00, T:0.59
Consensus pattern (24 bp):
TTCTTTCTCTCTCTCAATCTCTTT
Found at i:59322176 original size:11 final size:11
Alignment explanation
Indices: 59322160--59322204 Score: 72
Period size: 11 Copynumber: 4.0 Consensus size: 11
59322150 CAGATTTTGT
59322160 TTTTTTTTGAA
1 TTTTTTTTGAA
59322171 TTTTTTTTGAA
1 TTTTTTTTGAA
*
59322182 TTTTTTTTCGAT
1 TTTTTTTT-GAA
59322194 TTTTTTTTGAA
1 TTTTTTTTGAA
59322205 ACTTACTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
11 21 0.68
12 10 0.32
ACGTcount: A:0.16, C:0.02, G:0.09, T:0.73
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:59322189 original size:23 final size:23
Alignment explanation
Indices: 59322159--59322204 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
59322149 TCAGATTTTG
*
59322159 TTTTTTTTTGAATTTTTTTTGAA
1 TTTTTTTTCGAATTTTTTTTGAA
*
59322182 TTTTTTTTCGATTTTTTTTTGAA
1 TTTTTTTTCGAATTTTTTTTGAA
59322205 ACTTACTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.15, C:0.02, G:0.09, T:0.74
Consensus pattern (23 bp):
TTTTTTTTCGAATTTTTTTTGAA
Found at i:59322442 original size:15 final size:15
Alignment explanation
Indices: 59322422--59322469 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
59322412 TCAAAGATGG
59322422 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
59322437 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
59322451 GTTTATGGATATAAA
1 GTTTATGGATATGAA
59322466 GTTT
1 GTTT
59322470 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:59322456 original size:14 final size:14
Alignment explanation
Indices: 59322416--59322459 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
59322406 AAGGATTCAA
59322416 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
59322430 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
59322445 AGATGGGTTTATGG
1 AGATGGGTTTATGG
59322459 A
1 A
59322460 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:59322485 original size:29 final size:29
Alignment explanation
Indices: 59322416--59322475 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
59322406 AAGGATTCAA
*
59322416 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
59322445 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
59322474 AG
1 AG
59322476 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:59323490 original size:14 final size:14
Alignment explanation
Indices: 59323448--59323492 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
59323438 TTAAAGAAGC
59323448 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
59323462 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
59323475 AACTCATTTAATTA
1 AACTCATTAAATTA
59323489 AACT
1 AACT
59323493 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:59326568 original size:12 final size:12
Alignment explanation
Indices: 59326551--59326582 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
59326541 TCAGATTTTG
59326551 TTTTTTTTT-AA
1 TTTTTTTTTCAA
59326562 TTTTTTTTTCAA
1 TTTTTTTTTCAA
59326574 TTTTTTTTT
1 TTTTTTTTT
59326583 GAAACTTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTTTTCAA
Found at i:59327770 original size:14 final size:14
Alignment explanation
Indices: 59327748--59327792 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
59327738 TTAAAGAAGC
59327748 AACTCATTAAATTA
1 AACTCATTAAATTA
*
59327762 AATTCATTAAA-TA
1 AACTCATTAAATTA
*
59327775 AACTCATTTAATTA
1 AACTCATTAAATTA
59327789 AACT
1 AACT
59327793 AAGATGAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:59327830 original size:22 final size:22
Alignment explanation
Indices: 59327804--59327873 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
59327794 AGATGAGTTG
59327804 TATTAATGACCAGCAACTCATT
1 TATTAATGACCAGCAACTCATT
* *
59327826 TATTAA--A-C-G-AAGATGAGTT
1 TATTAATGACCAGCAA-CTCA-TT
59327845 GTATTAATGACCAGCAACTCATT
1 -TATTAATGACCAGCAACTCATT
59327868 TATTAA
1 TATTAA
59327874 ACTAAGAGGC
Statistics
Matches: 36, Mismatches: 4, Indels: 16
0.64 0.07 0.29
Matches are distributed among these distances:
17 2 0.06
18 3 0.08
19 3 0.08
20 7 0.19
22 13 0.36
23 3 0.08
24 3 0.08
25 2 0.06
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.33
Consensus pattern (22 bp):
TATTAATGACCAGCAACTCATT
Found at i:59327839 original size:42 final size:42
Alignment explanation
Indices: 59327775--59327880 Score: 194
Period size: 42 Copynumber: 2.5 Consensus size: 42
59327765 TCATTAAATA
59327775 AACTCATTTAATTAAACTAAGATGAGTTGTATTAATGACCAGC
1 AACTCATTT-ATTAAACTAAGATGAGTTGTATTAATGACCAGC
*
59327818 AACTCATTTATTAAACGAAGATGAGTTGTATTAATGACCAGC
1 AACTCATTTATTAAACTAAGATGAGTTGTATTAATGACCAGC
59327860 AACTCATTTATTAAACTAAGA
1 AACTCATTTATTAAACTAAGA
59327881 GGCTTAAATG
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
42 52 0.85
43 9 0.15
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (42 bp):
AACTCATTTATTAAACTAAGATGAGTTGTATTAATGACCAGC
Found at i:59328674 original size:14 final size:14
Alignment explanation
Indices: 59328655--59328703 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
59328645 CAATCCATTG
59328655 AAAGAGAAAAAGAA
1 AAAGAGAAAAAGAA
* *
59328669 AAAGAGCAAAATAA
1 AAAGAGAAAAAGAA
59328683 AAAGA-ATGAAAAGAA
1 AAAGAGA--AAAAGAA
59328698 AAAGAG
1 AAAGAG
59328704 TGGAAAAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.04
Consensus pattern (14 bp):
AAAGAGAAAAAGAA
Found at i:59331035 original size:14 final size:14
Alignment explanation
Indices: 59331016--59331051 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
59331006 TATAGAAGTC
59331016 AAAAAAAATTC-AA
1 AAAAAAAATTCGAA
59331029 AAAAAAAATTCGAA
1 AAAAAAAATTCGAA
59331043 AAGAAAAAA
1 AA-AAAAAA
59331052 AACTGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 11 0.52
14 4 0.19
15 6 0.29
ACGTcount: A:0.78, C:0.06, G:0.06, T:0.11
Consensus pattern (14 bp):
AAAAAAAATTCGAA
Found at i:59331059 original size:16 final size:16
Alignment explanation
Indices: 59331027--59331064 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
59331017 AAAAAAATTC
*
59331027 AAAAAAAAAATTCGAA
1 AAAAAAAAAACTCGAA
59331043 AAGAAAAAAAACT-GAA
1 AA-AAAAAAAACTCGAA
59331059 AAAAAA
1 AAAAAA
59331065 GTGTTTAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 4 0.20
16 7 0.35
17 9 0.45
ACGTcount: A:0.79, C:0.05, G:0.08, T:0.08
Consensus pattern (16 bp):
AAAAAAAAAACTCGAA
Found at i:59332006 original size:21 final size:19
Alignment explanation
Indices: 59331972--59332035 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
59331962 ACATTCTTGT
59331972 AAAGAGAAAACAAAGAAAAGA
1 AAAGA-AAAACAAA-AAAAGA
*
59331993 AAAGAAAAAGCAAAAGAAGA
1 AAAGAAAAA-CAAAAAAAGA
*
59332013 AAATG-AAAATAAAAAAA-A
1 AAA-GAAAAACAAAAAAAGA
59332031 AAAGA
1 AAAGA
59332036 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
17 1 0.03
18 4 0.11
19 6 0.16
20 16 0.43
21 10 0.27
ACGTcount: A:0.78, C:0.03, G:0.16, T:0.03
Consensus pattern (19 bp):
AAAGAAAAACAAAAAAAGA
Found at i:59332032 original size:25 final size:25
Alignment explanation
Indices: 59331976--59332035 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
59331966 TCTTGTAAAG
59331976 AGAAAACA-AAGAAAAGAAAAGAAAA
1 AGAAAA-AGAAGAAAAGAAAAGAAAA
* *
59332001 AGCAAAAGAAGAAAATGAAAATAAAA
1 AGAAAAAGAAGAAAA-GAAAAGAAAA
*
59332027 AAAAAAAGA
1 AGAAAAAGA
59332036 GAGGCAAGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 1 0.03
25 12 0.41
26 16 0.55
ACGTcount: A:0.78, C:0.03, G:0.15, T:0.03
Consensus pattern (25 bp):
AGAAAAAGAAGAAAAGAAAAGAAAA
Found at i:59332116 original size:11 final size:12
Alignment explanation
Indices: 59332085--59332114 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
59332075 GAGAGAACAC
59332085 TGAAAAAGCCTT
1 TGAAAAAGCCTT
59332097 TGAAAAAGCCTT
1 TGAAAAAGCCTT
59332109 TGAAAA
1 TGAAAA
59332115 GCAAAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (12 bp):
TGAAAAAGCCTT
Found at i:59332125 original size:12 final size:12
Alignment explanation
Indices: 59332117--59332141 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59332107 TTTGAAAAGC
59332117 AAAAAGAAAATG
1 AAAAAGAAAATG
59332129 AAAAAGAAAATG
1 AAAAAGAAAATG
59332141 A
1 A
59332142 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:59332138 original size:18 final size:18
Alignment explanation
Indices: 59332111--59332166 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
59332101 AAAGCCTTTG
59332111 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
59332130 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
* *
59332148 AAAAGAGAACGAAAA-GA
1 AAAAGAAAAAGAAAATGA
59332165 AA
1 AA
59332167 TTTGAGAGTG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.70, C:0.04, G:0.20, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:59332151 original size:30 final size:31
Alignment explanation
Indices: 59332117--59332198 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
59332107 TTTGAAAAGC
*
59332117 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
59332147 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
59332177 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
59332199 TGAAACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 8 0.19
30 26 0.60
31 9 0.21
ACGTcount: A:0.65, C:0.01, G:0.22, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:59333133 original size:10 final size:10
Alignment explanation
Indices: 59333118--59333144 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
59333108 TACTCCTTCA
59333118 AGCTCAAATC
1 AGCTCAAATC
59333128 AGCTCAAATC
1 AGCTCAAATC
59333138 AGCTCAA
1 AGCTCAA
59333145 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:59335749 original size:30 final size:30
Alignment explanation
Indices: 59335678--59335760 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
59335668 CTTTTGTTTC
* *
59335678 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
59335709 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
59335738 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
59335761 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:59335760 original size:18 final size:18
Alignment explanation
Indices: 59335711--59335766 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
59335701 CACTCTCAAA
* *
59335711 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
59335728 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
59335746 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
59335765 TT
1 TT
59335767 CAAAGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:59335767 original size:12 final size:12
Alignment explanation
Indices: 59335736--59335760 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59335726 TTTTTCAATC
59335736 TCATTTTCTTTT
1 TCATTTTCTTTT
59335748 TCATTTTCTTTT
1 TCATTTTCTTTT
59335760 T
1 T
59335761 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:59335775 original size:11 final size:11
Alignment explanation
Indices: 59335761--59335792 Score: 55
Period size: 12 Copynumber: 2.8 Consensus size: 11
59335751 TTTTCTTTTT
59335761 GCTTTTCAAAG
1 GCTTTTCAAAG
59335772 GCTTTTTCAAAG
1 GC-TTTTCAAAG
59335784 GCTTTTCAA
1 GCTTTTCAA
59335793 GTTCTCTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.41
Consensus pattern (11 bp):
GCTTTTCAAAG
Found at i:59338360 original size:10 final size:10
Alignment explanation
Indices: 59338345--59338371 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
59338335 TACTCCTTCA
59338345 AGCTCAAATC
1 AGCTCAAATC
59338355 AGCTCAAATC
1 AGCTCAAATC
59338365 AGCTCAA
1 AGCTCAA
59338372 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:59340013 original size:12 final size:11
Alignment explanation
Indices: 59339996--59340026 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
59339986 ACAAGTTTGA
59339996 AAAAAAAATTCG
1 AAAAAAAA-TCG
59340008 AAAAAAAATCG
1 AAAAAAAATCG
59340019 AAAAAAAA
1 AAAAAAAA
59340027 AGTGATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.10
Consensus pattern (11 bp):
AAAAAAAATCG
Found at i:59340027 original size:12 final size:13
Alignment explanation
Indices: 59339994--59340027 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
59339984 ATACAAGTTT
59339994 GAAAAAAAAATTC
1 GAAAAAAAAATTC
59340007 G-AAAAAAAA-TC
1 GAAAAAAAAATTC
59340018 GAAAAAAAAA
1 GAAAAAAAAA
59340028 GTGATTTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 3 0.15
12 16 0.80
13 1 0.05
ACGTcount: A:0.76, C:0.06, G:0.09, T:0.09
Consensus pattern (13 bp):
GAAAAAAAAATTC
Found at i:59341895 original size:25 final size:25
Alignment explanation
Indices: 59341866--59341913 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
59341856 TTATAATATG
* * *
59341866 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
59341891 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
59341914 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:59341982 original size:20 final size:20
Alignment explanation
Indices: 59341957--59342015 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
59341947 TAAATATGGT
59341957 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
59341977 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
59341997 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
59342016 GTAATCATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:59341997 original size:11 final size:11
Alignment explanation
Indices: 59341961--59342015 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
59341951 TATGGTATGT
59341961 ATGATATGCAC
1 ATGATATGCAC
* *
59341972 ATGAAATG--T
1 ATGATATGCAC
59341981 ATGATATGCAC
1 ATGATATGCAC
*
59341992 ATGATATG--T
1 ATGATATGCAC
59342001 ATGATATGCAC
1 ATGATATGCAC
59342012 ATGA
1 ATGA
59342016 GTAATCATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:59342119 original size:23 final size:23
Alignment explanation
Indices: 59342065--59342181 Score: 150
Period size: 24 Copynumber: 5.0 Consensus size: 23
59342055 GAGGAAGTGA
59342065 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
59342088 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
59342112 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
* *
59342136 GAAAGGGCTTTTGCCCCAG-T-T
1 AAAAGGGCTTATGCCCCAGTTAT
*
59342157 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
59342181 A
1 A
59342182 TGATAAAGCA
Statistics
Matches: 83, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
21 9 0.11
22 7 0.08
23 24 0.29
24 43 0.52
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:59342134 original size:47 final size:47
Alignment explanation
Indices: 59342065--59342157 Score: 159
Period size: 47 Copynumber: 2.0 Consensus size: 47
59342055 GAGGAAGTGA
59342065 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
** *
59342112 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTA
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA
59342158 AAAGAGGCTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
Found at i:59342407 original size:31 final size:31
Alignment explanation
Indices: 59342372--59342435 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
59342362 CGTTTACAGT
59342372 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
59342403 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
59342434 AA
1 AA
59342436 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:59349974 original size:25 final size:25
Alignment explanation
Indices: 59349945--59349992 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
59349935 TTATAATATG
* * *
59349945 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
59349970 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
59349993 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:59350061 original size:20 final size:20
Alignment explanation
Indices: 59350036--59350094 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
59350026 TAAATATGGT
59350036 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
59350056 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
59350076 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
59350095 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:59350076 original size:11 final size:11
Alignment explanation
Indices: 59350040--59350094 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
59350030 TATGGTATGT
59350040 ATGATATGCAC
1 ATGATATGCAC
* *
59350051 ATGAAATG--T
1 ATGATATGCAC
59350060 ATGATATGCAC
1 ATGATATGCAC
*
59350071 ATGATATG--T
1 ATGATATGCAC
59350080 ATGATATGCAC
1 ATGATATGCAC
59350091 ATGA
1 ATGA
59350095 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:59350258 original size:25 final size:24
Alignment explanation
Indices: 59350145--59350262 Score: 161
Period size: 23 Copynumber: 5.0 Consensus size: 24
59350135 GAGGAAGTGA
59350145 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
*
59350168 CAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
59350191 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
59350215 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
59350239 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
59350263 ATGATAAAGC
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
23 43 0.51
24 31 0.36
25 11 0.13
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:59350489 original size:31 final size:31
Alignment explanation
Indices: 59350454--59350517 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
59350444 CGTTTACAGT
59350454 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
59350485 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
59350516 AA
1 AA
59350518 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:59353114 original size:28 final size:27
Alignment explanation
Indices: 59353051--59353120 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
59353041 ATAGTGAGTC
59353051 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
59353078 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
59353106 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59353121 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:59355511 original size:28 final size:28
Alignment explanation
Indices: 59355470--59355592 Score: 115
Period size: 28 Copynumber: 4.4 Consensus size: 28
59355460 ATTGCATGAC
* * *
59355470 TATGAATGTGATTGGGGTCAATAGGCCA
1 TATGAATGTAATTGGGGCCAATGGGCCA
* *
59355498 TATGAATGTAATTGGGGCCGATGGGCGA
1 TATGAATGTAATTGGGGCCAATGGGCCA
* * *
59355526 TATGAATATGATTTGGGCCTAATGGGCCA
1 TATGAATGTAATTGGGGCC-AATGGGCCA
*
59355555 TATGAAT-TAGATT-GGGCCTATTGGGCCA
1 TATGAATGTA-ATTGGGGCC-AATGGGCCA
*
59355583 TATGCATGTA
1 TATGAATGTA
59355593 TGTAGACTTG
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
28 60 0.76
29 19 0.24
ACGTcount: A:0.27, C:0.12, G:0.31, T:0.30
Consensus pattern (28 bp):
TATGAATGTAATTGGGGCCAATGGGCCA
Found at i:59355580 original size:57 final size:56
Alignment explanation
Indices: 59355470--59355586 Score: 139
Period size: 57 Copynumber: 2.1 Consensus size: 56
59355460 ATTGCATGAC
* * *
59355470 TATGAATGTGATTGGGGTCAATAGGCCATATGAATGTAATTGGGGCCGATGGGCGA
1 TATGAATATGATTGGGGCCAATAGGCCATATGAATGTAATTGGGGCCGATGGGCCA
* * *
59355526 TATGAATATGATTTGGGCCTAATGGGCCATATGAAT-TAGATT-GGGCCTATTGGGCCA
1 TATGAATATGATTGGGGCC-AATAGGCCATATGAATGTA-ATTGGGGCCGA-TGGGCCA
59355583 TATG
1 TATG
59355587 CATGTATGTA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
56 24 0.46
57 28 0.54
ACGTcount: A:0.26, C:0.12, G:0.32, T:0.30
Consensus pattern (56 bp):
TATGAATATGATTGGGGCCAATAGGCCATATGAATGTAATTGGGGCCGATGGGCCA
Found at i:59360746 original size:30 final size:30
Alignment explanation
Indices: 59360659--59360755 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 30
59360649 TAAACTAAAA
* * *
59360659 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGC
* * * * *
59360689 TGAGCTGAGATTAAACTCCTAAGCTGAAGC
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGC
* * **
59360719 TGAGTTAAGGTTTAGCTCGTGAGCTGAATA
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGC
59360749 TGAGCTA
1 TGAGCTA
59360756 GGAGTGAGCT
Statistics
Matches: 49, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGC
Found at i:59365287 original size:16 final size:18
Alignment explanation
Indices: 59365266--59365298 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
59365256 ACATTGTATT
59365266 CATCAAA-CAAT-AAAAG
1 CATCAAATCAATCAAAAG
59365282 CATCAAATCAATCAAAA
1 CATCAAATCAATCAAAA
59365299 AATAGTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.61, C:0.21, G:0.03, T:0.15
Consensus pattern (18 bp):
CATCAAATCAATCAAAAG
Found at i:59368750 original size:32 final size:32
Alignment explanation
Indices: 59368709--59368772 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
59368699 AGGTTATACA
59368709 CATATGAAATGATAGGGTAAAATGAAGAAAAT
1 CATATGAAATGATAGGGTAAAATGAAGAAAAT
59368741 CATATGAAATGATAGGGTAAAATGAAGAAAAT
1 CATATGAAATGATAGGGTAAAATGAAGAAAAT
59368773 GTAACCTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.53, C:0.03, G:0.22, T:0.22
Consensus pattern (32 bp):
CATATGAAATGATAGGGTAAAATGAAGAAAAT
Found at i:59369345 original size:14 final size:14
Alignment explanation
Indices: 59369298--59369345 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
59369288 GTACGAATGG
*
59369298 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
59369312 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
59369326 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
59369340 ATTGGT
1 AATGGT
59369346 CGGTTTAGAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:59370622 original size:19 final size:19
Alignment explanation
Indices: 59370585--59370624 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
59370575 CGTGAGCTGA
*
59370585 TAATGAGCTGGTTTCGAGC
1 TAATGAGCTGGTGTCGAGC
*
59370604 TAATGAGCTGGTGTGGAGC
1 TAATGAGCTGGTGTCGAGC
59370623 TA
1 TA
59370625 CATGGGAGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.12, G:0.35, T:0.30
Consensus pattern (19 bp):
TAATGAGCTGGTGTCGAGC
Found at i:59375850 original size:10 final size:10
Alignment explanation
Indices: 59375837--59375885 Score: 71
Period size: 11 Copynumber: 4.7 Consensus size: 10
59375827 TCACTTTTTC
59375837 TTTTTTTTGA
1 TTTTTTTTGA
59375847 TTTTTTTTCGA
1 TTTTTTTT-GA
*
59375858 TTTTTTTCGA
1 TTTTTTTTGA
59375868 TTTTTTTTTGA
1 -TTTTTTTTGA
59375879 TTTTTTT
1 TTTTTTT
59375886 AACTTGTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 17 0.49
11 18 0.51
ACGTcount: A:0.08, C:0.04, G:0.08, T:0.80
Consensus pattern (10 bp):
TTTTTTTTGA
Found at i:59375853 original size:11 final size:11
Alignment explanation
Indices: 59375837--59375885 Score: 75
Period size: 10 Copynumber: 4.6 Consensus size: 11
59375827 TCACTTTTTC
59375837 TTTTTTTT-GA
1 TTTTTTTTCGA
59375847 TTTTTTTTCGA
1 TTTTTTTTCGA
59375858 -TTTTTTTCGA
1 TTTTTTTTCGA
*
59375868 TTTTTTTTTGA
1 TTTTTTTTCGA
59375879 TTTTTTT
1 TTTTTTT
59375886 AACTTGTATA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
10 18 0.50
11 18 0.50
ACGTcount: A:0.08, C:0.04, G:0.08, T:0.80
Consensus pattern (11 bp):
TTTTTTTTCGA
Found at i:59375863 original size:21 final size:21
Alignment explanation
Indices: 59375837--59375885 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
59375827 TCACTTTTTC
*
59375837 TTTTTTTTGATTTTTTTTCGA
1 TTTTTTTCGATTTTTTTTCGA
*
59375858 TTTTTTTCGATTTTTTTTTGA
1 TTTTTTTCGATTTTTTTTCGA
59375879 TTTTTTT
1 TTTTTTT
59375886 AACTTGTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.08, C:0.04, G:0.08, T:0.80
Consensus pattern (21 bp):
TTTTTTTCGATTTTTTTTCGA
Found at i:59376299 original size:14 final size:14
Alignment explanation
Indices: 59376252--59376299 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
59376242 GTACGAATGG
*
59376252 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
59376266 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
59376280 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
59376294 ATTGGT
1 AATGGT
59376300 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:59383483 original size:30 final size:30
Alignment explanation
Indices: 59383397--59383494 Score: 97
Period size: 30 Copynumber: 3.3 Consensus size: 30
59383387 TTAAACTAAA
* *
59383397 ATGAGCTAAGCTTTAGCTCGTGAGCTAAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * * * * *
59383427 TTGAGCTGAGATTAAACTCCTAAGCTGAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * *
59383457 CTGAGCTAAGGTTTAGCTCGTGAGCTGAAT
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
59383487 ATGAGCTA
1 ATGAGCTA
59383495 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
Found at i:59386850 original size:50 final size:48
Alignment explanation
Indices: 59386768--59386960 Score: 199
Period size: 50 Copynumber: 3.9 Consensus size: 48
59386758 TCTATTGTGA
* * *
59386768 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAAA-TT
* * * * **
59386817 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA-AATT
* * *
59386867 AGGTCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA-AATT
* *
59386917 GGT-AGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGA
1 GGTCA-CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
59386961 TAACCTTGTC
Statistics
Matches: 119, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
48 1 0.01
49 37 0.31
50 81 0.68
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (48 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAAATT
Found at i:59389979 original size:15 final size:15
Alignment explanation
Indices: 59389959--59390003 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
59389949 GTATCATATC
59389959 TTGGGTTTCTTTATT
1 TTGGGTTTCTTTATT
*
59389974 TTGGGTTT-TTCTATC
1 TTGGGTTTCTT-TATT
*
59389989 TTGGATTTCTTTATT
1 TTGGGTTTCTTTATT
59390004 CGGTTTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 21 0.84
16 2 0.08
ACGTcount: A:0.09, C:0.09, G:0.18, T:0.64
Consensus pattern (15 bp):
TTGGGTTTCTTTATT
Found at i:59392260 original size:27 final size:26
Alignment explanation
Indices: 59392212--59392271 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
59392202 GCGAGGCTGC
*
59392212 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
59392239 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
59392265 CAGATAT
1 CAGATAT
59392272 ATACATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:59395631 original size:17 final size:17
Alignment explanation
Indices: 59395609--59395641 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
59395599 ACTTCCCTTC
59395609 TCATCTTTTCTTTTCTT
1 TCATCTTTTCTTTTCTT
59395626 TCATCTTTTCTTTTCT
1 TCATCTTTTCTTTTCT
59395642 CCATAGCCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.70
Consensus pattern (17 bp):
TCATCTTTTCTTTTCTT
Found at i:59396759 original size:28 final size:28
Alignment explanation
Indices: 59396716--59396821 Score: 158
Period size: 28 Copynumber: 3.8 Consensus size: 28
59396706 GGAGGAAGCA
59396716 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
*
59396744 TTTTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * *
59396772 TTCTAGTGGCCCTGCCACAATTATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* *
59396800 ATCTGGTGGCTCTGTCACAAAT
1 TTCTGGTGGCTCTGCCACAAAT
59396822 CTGTTCTGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 68 1.00
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.36
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:59409515 original size:46 final size:46
Alignment explanation
Indices: 59409448--59409618 Score: 173
Period size: 46 Copynumber: 3.7 Consensus size: 46
59409438 AACCCGCCCC
* * * **
59409448 TAAATGAACTTGGACTTAACTCAACGAGCTCGGCCGTTCGTATCCA
1 TAAATGAACTCGGACTCAACTCAACGAGTTCGAACGTTCGTATCCA
** * * *
59409494 TAAATGAACTCGGACTCAACTCAACGAGTTCAGATGGCTAGT-TACA
1 TAAATGAACTCGGACTCAACTCAACGAGTTC-GAACGTTCGTATCCA
** * * *
59409540 TCTCATGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCG
1 T-AAATGAACTCGGACTCAACTCAACGAGTTCGAACGTTCGTATCCA
*
59409587 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 TAAATGAACTCGGACTCAACTCAACGAGTTCG
59409619 GATGCTCAAC
Statistics
Matches: 100, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
46 64 0.64
47 36 0.36
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.24
Consensus pattern (46 bp):
TAAATGAACTCGGACTCAACTCAACGAGTTCGAACGTTCGTATCCA
Found at i:59409563 original size:93 final size:93
Alignment explanation
Indices: 59409451--59409622 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
59409441 CCGCCCCTAA
* * ** * *
59409451 ATGAACTTGGACTTAACTCAACGAGCTCGGCCGTTCGTATCCATAAATGAACTCGGACTCAACTC
1 ATGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTC
59409516 AACGAGTTCAGATGGCTAGTTACATCTC
66 AACGAGTTCAGATGGCTAGTTACATCTC
* * *
59409544 ATGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGTGAACTCGGACTCAACTC
1 ATGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTC
*
59409609 AACGAGTTCGGATG
66 AACGAGTTCAGATG
59409623 CTCAACCATC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (93 bp):
ATGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTC
AACGAGTTCAGATGGCTAGTTACATCTC
Found at i:59409639 original size:46 final size:46
Alignment explanation
Indices: 59409489--59409639 Score: 132
Period size: 46 Copynumber: 3.2 Consensus size: 46
59409479 GGCCGTTCGT
* *
59409489 ATCCATAAATGAACTCGGACTCAACTCAACGAGTTCAGATGGCT-AGTTAC
1 ATCC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT-GCTCA---AC
* * *** *
59409539 AT-CTCA-TGAACTCGGACTCAACTCAACGAGTTCGAACATTC-GC
1 ATCCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAAC
59409582 ATCCGTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACC
1 ATCC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA-C
59409630 ATCCT-AGTGA
1 ATCCTAAGTGA
59409640 CATGTCACTT
Statistics
Matches: 82, Mismatches: 13, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 2 0.02
46 37 0.45
47 29 0.35
48 7 0.09
49 1 0.01
50 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
ATCCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAAC
Found at i:59413854 original size:17 final size:17
Alignment explanation
Indices: 59413832--59413864 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
59413822 ACTTCCCTTC
59413832 TCATCTTTTCTTTTCTT
1 TCATCTTTTCTTTTCTT
59413849 TCATCTTTTCTTTTCT
1 TCATCTTTTCTTTTCT
59413865 CCATAGCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.70
Consensus pattern (17 bp):
TCATCTTTTCTTTTCTT
Done.