Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 142 of 344
Found at i:47468756 original size:27 final size:26
Alignment explanation
Indices: 47468708--47468766 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
47468698 AGCATGGCTG
* *
47468708 CCAGAACAAATATCGTGACAGAGTCA
1 CCAGAACAAATATAGTGACAGAGCCA
* *
47468734 CCAGATACAGATATAGTGGCAGAGCCA
1 CCAGA-ACAAATATAGTGACAGAGCCA
47468761 CCAGAA
1 CCAGAA
47468767 TTAGATAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.41, C:0.24, G:0.22, T:0.14
Consensus pattern (26 bp):
CCAGAACAAATATAGTGACAGAGCCA
Found at i:47469171 original size:27 final size:26
Alignment explanation
Indices: 47469092--47469174 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
47469082 TCAATCGGTC
* * *
47469092 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
47469118 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
47469145 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
47469172 AAC
1 AAC
47469175 GCTTCCTTCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:47469405 original size:27 final size:27
Alignment explanation
Indices: 47469375--47469560 Score: 194
Period size: 27 Copynumber: 6.9 Consensus size: 27
47469365 GGCAAAATGG
* * *
47469375 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
* * * *
47469402 TAATTCTACCGTATAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
47469429 TATTTCTACCCTACAATGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
* * *
47469456 TAATTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
47469483 TAATTCTATCCTATAAGGGTATTTC-A
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
47469509 GTAATTCTACCCTATAGGGGTATTTCGA
1 -TAATTCTACCCTACAAGGGTATTTCGA
* *
47469537 AAATTCTACCCTACAGGGGTATTT
1 TAATTCTACCCTACAAGGGTATTT
47469561 TAGTAATTTC
Statistics
Matches: 130, Mismatches: 27, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
27 129 0.99
28 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGA
Found at i:47469517 original size:81 final size:81
Alignment explanation
Indices: 47469375--47469568 Score: 246
Period size: 81 Copynumber: 2.4 Consensus size: 81
47469365 GGCAAAATGG
* * * * * * * * *
47469375 TAATTTTACCCCACAAGGGTATCTCGATAATTCTACCGTATAGGGGTATTTCGGTATTTCTACCC
1 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCGTATAAGGGTATTTCAGTAATTCTACCC
*
47469440 TACAATGGTATTTCGA
66 TACAAGGGTATTTCGA
47469456 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTATCC-TATAAGGGTATTTCAGTAATTCTACC
1 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTA-CCGTATAAGGGTATTTCAGTAATTCTACC
* *
47469520 CTATAGGGGTATTTCGA
65 CTACAAGGGTATTTCGA
* *
47469537 AAATTCTACCCTACAGGGGTATTTTAGTAATT
1 TAATTCTACCCTACAGGGGTATTTTGGTAATT
47469569 TCACAATCGA
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 96 0.98
82 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.37
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCGTATAAGGGTATTTCAGTAATTCTACCC
TACAAGGGTATTTCGA
Found at i:47469566 original size:54 final size:54
Alignment explanation
Indices: 47469373--47469568 Score: 216
Period size: 54 Copynumber: 3.6 Consensus size: 54
47469363 GGGGCAAAAT
* * * * *
47469373 GGTAATTTTACCCCACAAGGGTA-TCTCGATAATTCTACCGTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTTAG-TAATTCTACCCTATAGGGGTATTTC
* * * * *
47469427 GGTATTTCTACCCTACAATGGTA-TTTCGATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTTAG-TAATTCTACCCTATAGGGGTATTTC
* * *
47469481 GGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTC
** *
47469535 GAAAATTCTACCCTACAGGGGTATTTTAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTTAGTAATT
47469569 TCACAATCGA
Statistics
Matches: 119, Mismatches: 22, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
54 116 0.97
55 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTC
Found at i:47469603 original size:27 final size:27
Alignment explanation
Indices: 47469573--47469982 Score: 463
Period size: 27 Copynumber: 15.2 Consensus size: 27
47469563 GTAATTTCAC
*
47469573 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
47469600 AATCGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
47469627 AA-CTGAGGAT-AAACTAGTAATTCTGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* * * **
47469654 AATCAAGTGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
47469681 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
47469708 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
47469735 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
47469762 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
47469789 AA-CTGAGGGTAAAATGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * **
47469816 AATCGAGGGTAAAATGATAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
47469843 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
47469870 AATTGAGGGTAAAACAATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
47469897 AA-CTGAGGGTAAAACAGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
47469924 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
47469951 AA-CTAAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
47469978 AATCG
1 AATCG
47469983 GGAGTACTTT
Statistics
Matches: 326, Mismatches: 45, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
26 7 0.02
27 310 0.95
28 9 0.03
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:47470001 original size:81 final size:81
Alignment explanation
Indices: 47469573--47469982 Score: 522
Period size: 81 Copynumber: 5.1 Consensus size: 81
47469563 GTAATTTCAC
* * * * *
47469573 AATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGATAATTTTGTAAACTGAGGAT-
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
47469637 AAACTAGTAATTCTGTA
66 AAAC-AGTAATTCTGTA
* * * ** *
47469654 AATCAAGTGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAA-TCGAGGGT
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACT-GAGGGT
47469718 AAAACAGTAATTCTGTA
65 AAAACAGTAATTCTGTA
* *
47469735 AA-CTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGT
1 AATC-GAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGT
** *
47469799 AAAATGGTAATTCTATA
65 AAAACAGTAATTCTGTA
* ** * *
47469816 AATCGAGGGTAAAATGATAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATTGAGGGTA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
*
47469881 AAACAATAATTCTGTA
66 AAACAGTAATTCTGTA
** *
47469897 AA-CTGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTAAGGGT
1 AATC-GAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGT
*
47469961 AAAACGGTAATTCTGTA
65 AAAACAGTAATTCTGTA
47469978 AATCG
1 AATCG
47469983 GGAGTACTTT
Statistics
Matches: 279, Mismatches: 43, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
80 3 0.01
81 269 0.96
82 7 0.03
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
AAACAGTAATTCTGTA
Found at i:47479479 original size:108 final size:110
Alignment explanation
Indices: 47479327--47479527 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
47479317 ATTCTTTTGA
* *
47479327 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AACC-AACC-A
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTAACCAA
47479389 ATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATGGT
65 ATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATGGT
* * * * *
47479435 AACTTATCAATGCCATGTCTTGACATGGTCTTACGTGATTTCCTTTCCTTAGAAACCTTACCAAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTAACCAAA
*
47479500 TGTCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
47479528 TATCCTTAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.60
109 3 0.04
110 29 0.35
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTAACCAAA
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATGGT
Found at i:47479485 original size:55 final size:52
Alignment explanation
Indices: 47479281--47479534 Score: 196
Period size: 55 Copynumber: 4.8 Consensus size: 52
47479271 ACGCGGGTAC
* * * * * * *
47479281 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGATTCTTT--TGA--AA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGTATCCTTTCCTTATGAA
* *
47479329 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACAT-GTATCCTTTCCTTATGAA
** * * *
47479382 CCAACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATGGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACAT-GTATCCTTT-CCTTAT-G-AA
* * *
47479437 CTTATCAATGCCATGTCTTGACATGGTCTTACGTGATTTCCTTTCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATG-TATCCTTTCCTTATG-AA
* * *
47479490 CCTTACCAAATGTCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACC-AATGCCATGTCTTGACATGGTCTTACAT-GTATCCTT
47479535 AAACCCTAAT
Statistics
Matches: 164, Mismatches: 29, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
48 31 0.19
49 6 0.04
51 2 0.01
52 4 0.02
53 43 0.26
54 7 0.04
55 65 0.40
56 6 0.04
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.36
Consensus pattern (52 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGTATCCTTTCCTTATGAA
Found at i:47484498 original size:40 final size:41
Alignment explanation
Indices: 47484422--47484501 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 41
47484412 ACAGGGGTTT
*
47484422 TCACACAGCCTGACACTTACCCATGTCCATGGCCCGTGTCCC
1 TCACACAGCCTGACAC-TACCCATGTCCATAGCCCGTGTCCC
* *
47484464 TCACACGGCCATGACAC-ACCCGTGTCC-TAGCCCGTGTC
1 TCACACAGCC-TGACACTACCCATGTCCATAGCCCGTGTC
47484502 TAAAAACCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 10 0.29
41 9 0.26
42 9 0.26
43 6 0.18
ACGTcount: A:0.19, C:0.42, G:0.19, T:0.20
Consensus pattern (41 bp):
TCACACAGCCTGACACTACCCATGTCCATAGCCCGTGTCCC
Found at i:47486524 original size:13 final size:13
Alignment explanation
Indices: 47486506--47486530 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47486496 TAATGGTATA
47486506 TTGAATCCATGAC
1 TTGAATCCATGAC
47486519 TTGAATCCATGA
1 TTGAATCCATGA
47486531 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:47487586 original size:27 final size:27
Alignment explanation
Indices: 47487552--47487729 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
47487542 TAAATTGTAC
47487552 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
47487579 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
47487605 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
47487633 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
47487661 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
47487688 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
47487715 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47487730 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:47487666 original size:82 final size:81
Alignment explanation
Indices: 47487553--47487708 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
47487543 AAATTGTACA
* *
47487553 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
47487617 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
47487634 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
47487699 TGCGAGTTGA
65 TGCGAATTGA
47487709 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:47487720 original size:82 final size:81
Alignment explanation
Indices: 47487549--47487729 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
47487539 AATTAAATTG
* *
47487549 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
47487614 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
47487630 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
47487694 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
47487712 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
47487730 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:47495033 original size:13 final size:13
Alignment explanation
Indices: 47495015--47495039 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47495005 TAATGGTATA
47495015 TTGAATCCATGAC
1 TTGAATCCATGAC
47495028 TTGAATCCATGA
1 TTGAATCCATGA
47495040 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:47496094 original size:27 final size:27
Alignment explanation
Indices: 47496060--47496237 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
47496050 TAAATTGTAC
47496060 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
47496087 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
47496113 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
47496141 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
47496169 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
47496196 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
47496223 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47496238 GACTCAATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:47496174 original size:82 final size:81
Alignment explanation
Indices: 47496061--47496216 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
47496051 AAATTGTACA
*
47496061 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
47496125 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
47496142 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
47496207 TGCGAGTTGA
65 TGCGAATTGA
47496217 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:47496228 original size:82 final size:81
Alignment explanation
Indices: 47496057--47496237 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
47496047 AATTAAATTG
*
47496057 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
47496122 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
47496138 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
47496202 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
47496220 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
47496238 GACTCAATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:47499040 original size:40 final size:40
Alignment explanation
Indices: 47498985--47499159 Score: 305
Period size: 40 Copynumber: 4.4 Consensus size: 40
47498975 TATGTGCATA
*
47498985 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTTCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
*
47499025 GCATTCGTGTGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
47499065 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
47499105 GCATTCGTGTGGGTTATTATAACCGGGTTAAGTCCTGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
*
47499145 GCATTCGTGCTGGTT
1 GCATTCGTGCGGGTT
47499160 GTTACATCCG
Statistics
Matches: 128, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 128 1.00
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:47499183 original size:80 final size:80
Alignment explanation
Indices: 47498985--47499183 Score: 263
Period size: 80 Copynumber: 2.5 Consensus size: 80
47498975 TATGTGCATA
* * ** *
47498985 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTTCCGAAGGCATTCGTGTGGGTTATTATAACCG
1 GCATTCGTGCGGGTTATTACAACCGAGCCAAATTCCGAAGGCATTCGTGTGGGTTATTATAACCG
47499050 GGTTAAGTCCCGAAG
66 GGTTAAGTCCCGAAG
* * ** * *
47499065 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGTGGGTTATTATAACCG
1 GCATTCGTGCGGGTTATTACAACCGAGCCAAATTCCGAAGGCATTCGTGTGGGTTATTATAACCG
*
47499130 GGTTAAGTCCTGAAG
66 GGTTAAGTCCCGAAG
* * *
47499145 GCATTCGTGCTGGTTGTTACATCCGAGCCAAATTCCGAA
1 GCATTCGTGCGGGTTATTACAACCGAGCCAAATTCCGAA
47499184 AGTATTTATG
Statistics
Matches: 108, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 108 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.30
Consensus pattern (80 bp):
GCATTCGTGCGGGTTATTACAACCGAGCCAAATTCCGAAGGCATTCGTGTGGGTTATTATAACCG
GGTTAAGTCCCGAAG
Found at i:47499923 original size:21 final size:21
Alignment explanation
Indices: 47499867--47499924 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
47499857 ATATTGTTAT
* *
47499867 ACATGATATGAC-ATAATATGC
1 ACATGATATG-CTATGAGATGC
*
47499888 ACATGATACT-TTATGAGATGC
1 ACATGATA-TGCTATGAGATGC
47499909 ACATGATATGCTATGA
1 ACATGATATGCTATGA
47499925 TATACTCATT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 1 0.03
21 28 0.93
22 1 0.03
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (21 bp):
ACATGATATGCTATGAGATGC
Found at i:47500020 original size:24 final size:25
Alignment explanation
Indices: 47499973--47500043 Score: 117
Period size: 24 Copynumber: 2.9 Consensus size: 25
47499963 GGAGGAAGTG
47499973 CGAAAAGGGCATTGCCCCAGTTTAC
1 CGAAAAGGGCATTGCCCCAGTTTAC
47499998 CGAAAAGGGCATTG-CCCAGTTTAC
1 CGAAAAGGGCATTGCCCCAGTTTAC
* *
47500022 CAAAAAGGGCTTTGCCCCAGTT
1 CGAAAAGGGCATTGCCCCAGTT
47500044 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 22 0.51
25 21 0.49
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (25 bp):
CGAAAAGGGCATTGCCCCAGTTTAC
Found at i:47502692 original size:62 final size:62
Alignment explanation
Indices: 47502591--47502715 Score: 205
Period size: 62 Copynumber: 2.0 Consensus size: 62
47502581 CAGGTTCATC
* * *
47502591 TTTTACATGCCTGTTGAACCATTTTGAATAATATTATATACACGGAAAGCTCACACATAGTG
1 TTTTACATGCCCGTTGAACCATTTAGAATAATATCATATACACGGAAAGCTCACACATAGTG
* *
47502653 TTTTACATGCCCGTTGAACCATTTAGAATAATATCATATACACGGGAAGCTCACACCTAGTG
1 TTTTACATGCCCGTTGAACCATTTAGAATAATATCATATACACGGAAAGCTCACACATAGTG
47502715 T
1 T
47502716 GCTAACATAT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (62 bp):
TTTTACATGCCCGTTGAACCATTTAGAATAATATCATATACACGGAAAGCTCACACATAGTG
Found at i:47507271 original size:29 final size:29
Alignment explanation
Indices: 47507239--47507297 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
47507229 TAAAAGCTAC
47507239 ATGAATG-CATG-AAATAGATAAAAATCAAA
1 ATGAATGACATGAAAATAG--AAAAATCAAA
47507268 ATGAATGATCATGAAAATAGAAAAATCAAA
1 ATGAATGA-CATGAAAATAGAAAAATCAAA
47507298 GCTTGTAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 7 0.26
30 10 0.37
31 4 0.15
32 6 0.22
ACGTcount: A:0.59, C:0.07, G:0.14, T:0.20
Consensus pattern (29 bp):
ATGAATGACATGAAAATAGAAAAATCAAA
Found at i:47508206 original size:38 final size:38
Alignment explanation
Indices: 47508164--47508241 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
47508154 TATGTTTGGA
*
47508164 TCATTTCTAATTCTCTCCATTTCCCTTAACTATTTTCT
1 TCATTTCTAATCCTCTCCATTTCCCTTAACTATTTTCT
* *
47508202 TCATTTCTAATCCTCTCCATTTCCTTTAACTCTTTTCT
1 TCATTTCTAATCCTCTCCATTTCCCTTAACTATTTTCT
47508240 TC
1 TC
47508242 TCTGCATTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.17, C:0.31, G:0.00, T:0.53
Consensus pattern (38 bp):
TCATTTCTAATCCTCTCCATTTCCCTTAACTATTTTCT
Found at i:47509512 original size:19 final size:19
Alignment explanation
Indices: 47509467--47509513 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
47509457 TAAATATTAA
*
47509467 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
47509486 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
47509505 AATAAAAAT
1 AATAAAAAT
47509514 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:47510725 original size:28 final size:28
Alignment explanation
Indices: 47510685--47510741 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
47510675 ATTGTTCAAG
47510685 ATTGTTCAAGATTGGAGACAGATGTCTT
1 ATTGTTCAAGATTGGAGACAGATGTCTT
47510713 ATTGTTCAAGATTGGAGACAGATGTCTT
1 ATTGTTCAAGATTGGAGACAGATGTCTT
47510741 A
1 A
47510742 ATTCTGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.35
Consensus pattern (28 bp):
ATTGTTCAAGATTGGAGACAGATGTCTT
Found at i:47514626 original size:11 final size:11
Alignment explanation
Indices: 47514612--47514642 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
47514602 TTTCAAATTT
47514612 TTTTAATTTCA
1 TTTTAATTTCA
*
47514623 TTTTAATTTTA
1 TTTTAATTTCA
47514634 TTTTAATTT
1 TTTTAATTT
47514643 AGCTCCAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTTAATTTCA
Found at i:47514626 original size:22 final size:22
Alignment explanation
Indices: 47514601--47514642 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
47514591 CCCTTTCGTG
47514601 TTTTCAAATTT-TTTTAATTTCA
1 TTTT-AAATTTATTTTAATTTCA
*
47514623 TTTTAATTTTATTTTAATTT
1 TTTTAAATTTATTTTAATTT
47514643 AGCTCCAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTAAATTTATTTTAATTTCA
Found at i:47514923 original size:27 final size:26
Alignment explanation
Indices: 47514893--47514975 Score: 89
Period size: 27 Copynumber: 3.2 Consensus size: 26
47514883 TTTTTATTAG
47514893 TTATTTTATTTATTTATATATATTTCA
1 TTATTTTATTTATTT-TATATATTTCA
* *
47514920 TTATATTATTTATTTT-TATATTTTA
1 TTATTTTATTTATTTTATATATTTCA
**
47514945 TCTA-TAAATTATATTTTATATATTTCA
1 T-TATTTTATT-TATTTTATATATTTCA
47514972 TTAT
1 TTAT
47514976 ATATTTCCTT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
25 12 0.26
26 11 0.24
27 23 0.50
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (26 bp):
TTATTTTATTTATTTTATATATTTCA
Found at i:47514938 original size:64 final size:64
Alignment explanation
Indices: 47514868--47515013 Score: 158
Period size: 64 Copynumber: 2.3 Consensus size: 64
47514858 TTTTAAATAC
** *
47514868 TTTTTATATCATTTATT-TTTATTAGTTATTTTATTTATTT-A-TATATATTTCATTATATTATT
1 TTTTTATATCATTTATTATAAATTA--TATTTTATATATTTCATTATATATTTCATTATATTATT
47514930 T
64 T
*
47514931 ATTTTTATAT--TTTATCTATAAATTATATTTTATATATTTCATTATATATTTCCTTATATTATT
1 -TTTTTATATCATTTAT-TATAAATTATATTTTATATATTTCATTATATATTTCATTATATTATT
47514994 T
64 T
*
47514995 TTGTGTATCATCATTTATT
1 TT-TTTAT-ATCATTTATT
47515014 GAATTTGTAA
Statistics
Matches: 69, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
62 18 0.26
63 4 0.06
64 39 0.57
65 2 0.03
66 1 0.01
67 5 0.07
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.64
Consensus pattern (64 bp):
TTTTTATATCATTTATTATAAATTATATTTTATATATTTCATTATATATTTCATTATATTATTT
Found at i:47514945 original size:36 final size:36
Alignment explanation
Indices: 47514853--47514950 Score: 85
Period size: 36 Copynumber: 2.7 Consensus size: 36
47514843 TATTTTTTAA
* *
47514853 ATTTATTTTAAATACTTTT-TATATCATTTATTTTTATT
1 ATTTATTTT-TATA-TTTTATATAT-ATTTATTTATATT
* *
47514891 AGTTA-TTTTATTTATTTATATATATTTCA-TTATATT
1 ATTTATTTTTATAT-TTTATATATATTT-ATTTATATT
*
47514927 ATTTATTTTTATATTTTATCTATA
1 ATTTATTTTTATATTTTATATATA
47514951 AATTATATTT
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
35 1 0.02
36 28 0.57
37 16 0.33
38 4 0.08
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (36 bp):
ATTTATTTTTATATTTTATATATATTTATTTATATT
Found at i:47514968 original size:9 final size:9
Alignment explanation
Indices: 47514894--47514969 Score: 50
Period size: 9 Copynumber: 8.6 Consensus size: 9
47514884 TTTTATTAGT
*
47514894 TATTTTATT
1 TATTTTATA
47514903 TATTTATATA
1 TATTT-TATA
*
47514913 TATTTCAT-
1 TATTTTATA
* *
47514921 TATATTATT
1 TATTTTATA
47514930 TATTTT-TA
1 TATTTTATA
*
47514938 TATTTTATC
1 TATTTTATA
**
47514947 TA-TAAATTA
1 TATTTTA-TA
47514956 TATTTTATA
1 TATTTTATA
47514965 TATTT
1 TATTT
47514970 CATTATATAT
Statistics
Matches: 50, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
8 15 0.30
9 25 0.50
10 10 0.20
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (9 bp):
TATTTTATA
Found at i:47514977 original size:12 final size:12
Alignment explanation
Indices: 47514909--47514994 Score: 59
Period size: 12 Copynumber: 6.8 Consensus size: 12
47514899 TATTTATTTA
47514909 TATATATTTCAT
1 TATATATTTCAT
47514921 TATATTATTT-ATT
1 TATA-TATTTCA-T
* *
47514934 TTTATATTTTAT
1 TATATATTTCAT
*
47514946 CTATAAATTAT-ATTT
1 -TATATATT-TCA--T
47514961 TATATATTTCAT
1 TATATATTTCAT
*
47514973 TATATATTTCCT
1 TATATATTTCAT
47514985 TATATTATTT
1 TATA-TATTT
47514995 TTGTGTATCA
Statistics
Matches: 60, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
12 27 0.45
13 23 0.38
14 9 0.15
15 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (12 bp):
TATATATTTCAT
Found at i:47515291 original size:19 final size:20
Alignment explanation
Indices: 47515227--47515292 Score: 64
Period size: 22 Copynumber: 3.2 Consensus size: 20
47515217 ATAATAAAAT
*
47515227 TTATATTATTA-TATATTACA
1 TTATTTTATTATTA-ATTACA
*
47515247 TCTATTTTATTATAAAATATACA
1 T-TATTTTATTAT-TAAT-TACA
47515270 TTATTTTATTATTAATTA-A
1 TTATTTTATTATTAATTACA
47515289 TTAT
1 TTAT
47515293 GTACATTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
19 5 0.13
20 3 0.08
21 12 0.31
22 13 0.33
23 6 0.15
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATTTTATTATTAATTACA
Found at i:47518365 original size:46 final size:46
Alignment explanation
Indices: 47518206--47518378 Score: 158
Period size: 46 Copynumber: 3.7 Consensus size: 46
47518196 AACCCGCCCA
* * *
47518206 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCG
* *
47518252 TAAGTGAACTCAGACTCAACTCAACGAGCTC-G-CA-T-GCCT-AG
1 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCG
* * *
47518293 TTATATCTCACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCG
1 -TA-A-GT---GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCG
* * *
47518345 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGA
47518379 TACCCAAATA
Statistics
Matches: 105, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
42 5 0.05
43 2 0.02
44 2 0.02
45 1 0.01
46 59 0.56
47 24 0.23
48 1 0.01
49 3 0.03
50 2 0.02
51 5 0.05
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCG
Found at i:47520206 original size:30 final size:30
Alignment explanation
Indices: 47520161--47520249 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
47520151 CAAAGATAAC
*
47520161 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
47520190 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
47520220 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
47520250 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:47520209 original size:15 final size:14
Alignment explanation
Indices: 47520161--47520243 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
47520151 CAAAGATAAC
*
47520161 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
47520175 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
47520190 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
47520205 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
47520220 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
47520235 AAGAAACCC
1 AAGAAACCC
47520244 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:47520249 original size:15 final size:15
Alignment explanation
Indices: 47520172--47520249 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
47520162 AGAAAACCGA
47520172 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
47520187 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
47520201 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
47520216 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
47520232 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
47520247 ATA
1 ATA
47520250 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:47523230 original size:46 final size:46
Alignment explanation
Indices: 47523163--47523338 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
47523153 TGAAACCCGC
*
47523163 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
47523209 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGCATGCCTAGTT-ACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCG---GAC--GTTCGCAT
* * * * *
47523259 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
47523302 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGA
47523339 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 2 0.02
46 64 0.58
47 25 0.23
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:47523284 original size:93 final size:93
Alignment explanation
Indices: 47523171--47523342 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
47523161 GCCCATAAGT
* *
47523171 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
47523236 CGAGCTCGCATGCCTAGTTACATCTCAC
66 CGAGCTCGCATGCCTAGTTACATCTCAC
* * *
47523264 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
* *
47523329 CGAGTTCGGATGCC
66 CGAGCTCGCATGCC
47523343 CAAATATCCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGCATGCCTAGTTACATCTCAC
Found at i:47526662 original size:8 final size:8
Alignment explanation
Indices: 47526649--47526678 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
47526639 ATTCATTTCA
47526649 AAAAAAAT
1 AAAAAAAT
47526657 AAAAAAAT
1 AAAAAAAT
47526665 AAAAAAAT
1 AAAAAAAT
47526673 AAAAAA
1 AAAAAA
47526679 GAAGAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:47528164 original size:8 final size:7
Alignment explanation
Indices: 47528151--47528235 Score: 61
Period size: 7 Copynumber: 12.0 Consensus size: 7
47528141 CTATTTCAAA
47528151 AAAAAAGG
1 AAAAAA-G
47528159 AAAAAAG
1 AAAAAAG
47528166 --AAAAG
1 AAAAAAG
*
47528171 AAAAAGG
1 AAAAAAG
*
47528178 GAAAAAG
1 AAAAAAG
47528185 AAATGAAA-
1 AAA--AAAG
*
47528193 AAGAAA-
1 AAAAAAG
47528199 AAAAAAG
1 AAAAAAG
47528206 AAAAAGAG
1 AAAAA-AG
47528214 AAAAAGAG
1 AAAAA-AG
47528222 AAAAAAG
1 AAAAAAG
*
47528229 ATAAAAG
1 AAAAAAG
47528236 GAAACTGGAG
Statistics
Matches: 64, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
5 5 0.08
6 8 0.12
7 25 0.39
8 23 0.36
9 3 0.05
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (7 bp):
AAAAAAG
Found at i:47528169 original size:6 final size:6
Alignment explanation
Indices: 47528160--47528217 Score: 52
Period size: 5 Copynumber: 9.8 Consensus size: 6
47528150 AAAAAAAGGA
*
47528160 AAAAAG -AAAAG AAAAAGGG AAAAAG -AAATG AAAAAG -AAAA- AAAAAG
1 AAAAAG AAAAAG AAAAA--G AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
47528206 AAAAAG AGAAAA
1 AAAAAG A-AAAA
47528218 AGAGAAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
5 17 0.40
6 16 0.37
7 4 0.09
8 6 0.14
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:47528234 original size:16 final size:16
Alignment explanation
Indices: 47528169--47528239 Score: 65
Period size: 16 Copynumber: 4.3 Consensus size: 16
47528159 AAAAAAGAAA
*
47528169 AGAAAAAGGGAAAAAG
1 AGAAAAAGAGAAAAAG
* *
47528185 AAATGAAAAAGAAAAAAAA
1 --A-GAAAAAGAGAAAAAG
47528204 AGAAAAAGAGAAAAAG
1 AGAAAAAGAGAAAAAG
47528220 AGAAAAA-AGATAAAAG
1 AGAAAAAGAGA-AAAAG
47528236 -GAAA
1 AGAAA
47528240 CTGGAGAGGC
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
15 7 0.15
16 25 0.54
17 1 0.02
18 1 0.02
19 12 0.26
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (16 bp):
AGAAAAAGAGAAAAAG
Found at i:47529303 original size:44 final size:44
Alignment explanation
Indices: 47529114--47529759 Score: 342
Period size: 44 Copynumber: 14.7 Consensus size: 44
47529104 GGGACAATGT
*
47529114 AGATCAAAGA-AACAAGATTTGGCATCCCTGTGTTTATAGGGAAC
1 AGATCAAAGATAGC-AGATTTGGCATCCCTGTGTTTATAGGGAAC
* * * ** * * * *
47529158 AGATCGAAGATAGCAGATCTGACA-CTTTTGTGCTTACAGCGAAGT
1 AGATCAAAGATAGCAGATTTGGCATC-CCTGTGTTTATAGGGAA-C
**
47529203 AGATCAAAGATTTCAGCA--TGGCATCCCTGTGTTTATAGGGAAC
1 AGATCAAAGATAGCAG-ATTTGGCATCCCTGTGTTTATAGGGAAC
* *
47529246 A-AGTC-GAGAATAGCAGATTTGGCATCCCTGTTTTTATAGGGAAC
1 AGA-TCAAAG-ATAGCAGATTTGGCATCCCTGTGTTTATAGGGAAC
* * * * * * *
47529290 AGATCAAAGATAGCAGATCTGACATTCCTATGCTTACAGTGAAGC
1 AGATCAAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAA-C
* *** *
47529335 AGATCGAAGATTTTAGCA--TGGCATCCCTATGTTTATAGGGAAC
1 AGATCAAAGATAGCAG-ATTTGGCATCCCTGTGTTTATAGGGAAC
** * * * * * **
47529378 AGATCAAAGATAGCAGATCAGACA-CTCATGAGCTTACAGCAAAGC
1 AGATCAAAGATAGCAGATTTGGCATC-CCTGTGTTTATAGGGAA-C
* ** * *
47529423 AGATCGAAGATTTCAGCA--TGGCATCCTTGAGTTTATAGGGAAC
1 AGATCAAAGATAGCAG-ATTTGGCATCCCTGTGTTTATAGGGAAC
**
47529466 A-AGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAAC
1 AGA-TCAAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAAC
* * * * *
47529510 AGATCAAA-ATAGCAGATTTGACATTCCTGTGCTTACAGCGAAGC
1 AGATCAAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAA-C
* **
47529554 AGATTAAAGATTTCAGCA--TGGCATCCCTGTGTTTATAGGGAAC
1 AGATCAAAGATAGCAG-ATTTGGCATCCCTGTGTTTATAGGGAAC
** *
47529597 A-AGTTGAAGATAGCAGATTTGGCATCCCTATGTTTATAGGGAAC
1 AGA-TCAAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAAC
** * * * * * * **
47529641 AGATTGAAGATAACAGATCTGACA-CTCTTGTGCTTACAATGAAGC
1 AGATCAAAGATAGCAGATTTGGCATC-CCTGTGTTTATAGGGAA-C
* * **
47529686 AGATCGAGGATTTCAGCA--TGGCATCCCTGTGTTTATAGGGAAC
1 AGATCAAAGATAGCAG-ATTTGGCATCCCTGTGTTTATAGGGAAC
** * *
47529729 A-AGTTGAAGATAGTAGATTTGGCATCTCTGT
1 AGA-TCAAAGATAGCAGATTTGGCATCCCTGT
47529760 ATTGTCAGAG
Statistics
Matches: 451, Mismatches: 114, Indels: 74
0.71 0.18 0.12
Matches are distributed among these distances:
42 11 0.02
43 87 0.19
44 280 0.62
45 68 0.15
46 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (44 bp):
AGATCAAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAAC
Found at i:47529368 original size:132 final size:132
Alignment explanation
Indices: 47529128--47529378 Score: 405
Period size: 132 Copynumber: 1.9 Consensus size: 132
47529118 CAAAGAAACA
* * *
47529128 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTTTTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACACTTCTATGCTT
* *
47529193 ACAGCGAAGTAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTCGAGAATA
66 ACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAAGTCGAGAATA
47529258 GC
131 GC
*
47529260 AGATTTGGCATCCCTGTTTTTATAGGGAACAGATCAAAGATAGCAGATCTGACA-TTCCTATGCT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACACTT-CTATGCT
* * *
47529324 TACAGTGAAGCAGATCGAAGATTTTAGCATGGCATCCCTATGTTTATAGGGAACA
65 TACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTATGTTTATAGGGAACA
47529379 GATCAAAGAT
Statistics
Matches: 109, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
131 2 0.02
132 107 0.98
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACACTTCTATGCTT
ACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAAGTCGAGAATA
GC
Found at i:47529391 original size:132 final size:132
Alignment explanation
Indices: 47529114--47529395 Score: 401
Period size: 132 Copynumber: 2.1 Consensus size: 132
47529104 GGGACAATGT
* *
47529114 AGATCAAAGA-AACAAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCT
1 AGATCAAAGATAGC-AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCT
* * * *
47529178 GACACTTTTGTGCTTACAGCGAAGTAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGG
65 GACACTTCTATGCTTACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTATGTTTATAGGG
47529243 AAC
130 AAC
* *
47529246 A-AGTC-GAGAATAGCAGATTTGGCATCCCTGTTTTTATAGGGAACAGATCAAAGATAGCAGATC
1 AGA-TCAAAG-ATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATC
* * *
47529309 TGACA-TTCCTATGCTTACAGTGAAGCAGATCGAAGATTTTAGCATGGCATCCCTATGTTTATAG
64 TGACACTT-CTATGCTTACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTATGTTTATAG
47529373 GGAAC
128 GGAAC
47529378 AGATCAAAGATAGCAGAT
1 AGATCAAAGATAGCAGAT
47529396 CAGACACTCA
Statistics
Matches: 132, Mismatches: 12, Indels: 12
0.85 0.08 0.08
Matches are distributed among these distances:
131 5 0.04
132 122 0.92
133 5 0.04
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (132 bp):
AGATCAAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTG
ACACTTCTATGCTTACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTATGTTTATAGGGA
AC
Found at i:47529489 original size:132 final size:132
Alignment explanation
Indices: 47529353--47529754 Score: 626
Period size: 132 Copynumber: 3.1 Consensus size: 132
47529343 GATTTTAGCA
* *
47529353 TGGCATCCCTATGTTTATAGGGAACAGATCAAAGATAGCAGATCAGACACTCATGAGCTTACAGC
1 TGGCATCCCTATGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACACTCATGTGCTTACAGC
* * *
47529418 AAAGCAGATCGAAGATTTCAGCATGGCATCCTTGAGTTTATAGGGAACAAGTTGAAGATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
47529483 TT
131 TT
* * * *
47529485 TGGCATCCCTGTGTTTATAGGGAACAGATCAAA-ATAGCAGATTTGACATTCCTGTGCTTACAGC
1 TGGCATCCCTATGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACACTCATGTGCTTACAGC
**
47529549 GAAGCAGATTAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
47529614 TT
131 TT
** * * **
47529616 TGGCATCCCTATGTTTATAGGGAACAGATTGAAGATAACAGATCTGACACTCTTGTGCTTACAAT
1 TGGCATCCCTATGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACACTCATGTGCTTACAGC
* *
47529681 GAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGTAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
47529746 TT
131 TT
47529748 TGGCATC
1 TGGCATC
47529755 TCTGTATTGT
Statistics
Matches: 245, Mismatches: 24, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
131 118 0.48
132 127 0.52
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (132 bp):
TGGCATCCCTATGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACACTCATGTGCTTACAGC
GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
TT
Found at i:47529515 original size:220 final size:219
Alignment explanation
Indices: 47529133--47529614 Score: 743
Period size: 220 Copynumber: 2.2 Consensus size: 219
47529123 AAACAAGATT
* ** *
47529133 TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTTTTGTGCTTACAGC
1 TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCAGACACTCATGAGCTTACAGC
* * *
47529198 GAAGTAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTCGAGAATAGCAGA
66 AAAGCAGATCAAAGATTTCAGCATGGCATCCCTGAGTTTATAGGGAACAAGTCGAGAATAGCAGA
*
47529263 TTTGGCATCCCTGTTTTTATAGGGAACAGATCAAAGATAGCAGATCTGACATTCCTATGCTTACA
131 TTTGGCATCCCTGTGTTTATAGGGAACAGATCAAA-ATAGCAGATCTGACATTCCTATGCTTACA
* * *
47529328 GTGAAGCAGATCGAAGATTTTAGCA
195 GCGAAGCAGATCAAAGATTTCAGCA
* *
47529353 TGGCATCCCTATGTTTATAGGGAACAGATCAAAGATAGCAGATCAGACACTCATGAGCTTACAGC
1 TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCAGACACTCATGAGCTTACAGC
* * *
47529418 AAAGCAGATCGAAGATTTCAGCATGGCATCCTTGAGTTTATAGGGAACAAGTTGA-AGATAGCAG
66 AAAGCAGATCAAAGATTTCAGCATGGCATCCCTGAGTTTATAGGGAACAAGTCGAGA-ATAGCAG
* *
47529482 ATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAATAGCAGATTTGACATTCCTGTGCTTACA
130 ATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAATAGCAGATCTGACATTCCTATGCTTACA
*
47529547 GCGAAGCAGATTAAAGATTTCAGCA
195 GCGAAGCAGATCAAAGATTTCAGCA
*
47529572 TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGAT
1 TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGCAGAT
47529615 TTGGCATCCC
Statistics
Matches: 238, Mismatches: 22, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
218 1 0.00
219 87 0.37
220 150 0.63
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (219 bp):
TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCAGACACTCATGAGCTTACAGC
AAAGCAGATCAAAGATTTCAGCATGGCATCCCTGAGTTTATAGGGAACAAGTCGAGAATAGCAGA
TTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAATAGCAGATCTGACATTCCTATGCTTACAG
CGAAGCAGATCAAAGATTTCAGCA
Found at i:47529782 original size:44 final size:44
Alignment explanation
Indices: 47529734--47529826 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
47529724 GGAACAAGTT
** * *
47529734 GAAGATAGTAGATTTGGCATCTCTGTATT-GTCAGAGAGCAGATC
1 GAAGATACCAGATTTGACATCTATGTATTGGT-AGAGAGCAGATC
*
47529778 GAAGATACCAGATTTGACATCTATGTATTGGTGGAGAGCAGATC
1 GAAGATACCAGATTTGACATCTATGTATTGGTAGAGAGCAGATC
47529822 GAAGA
1 GAAGA
47529827 CATAGCTGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 41 0.95
45 2 0.05
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (44 bp):
GAAGATACCAGATTTGACATCTATGTATTGGTAGAGAGCAGATC
Found at i:47529888 original size:131 final size:130
Alignment explanation
Indices: 47529744--47530053 Score: 467
Period size: 131 Copynumber: 2.4 Consensus size: 130
47529734 GAAGATAGTA
47529744 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATACCAGATTTGACATCTATGTATTGG
1 GATTTGGCATCTCTGTATTG-CAGAGAGCAGATCGAAGATACCAGATTTGACATCTATGTATTGG
* *
47529809 TGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTAAAACAAATCTAAGA
65 CGCAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTAAAACAAATCTAAGA
47529874 T
130 T
* * * * * *
47529875 GATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAACATATTTGGCATCTTTGTATTGG
1 GATTTGGCATCTCTGTATT-GCAGAGAGCAGATCGAAGATACCAGATTTGACATCTATGTATTGG
* * *
47529940 CGCAGAGCAGATCGAAGCCATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAACAAATCTAAGA
65 CGCAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTAAAACAAATCTAAGA
47530005 T
130 T
* * *
47530006 GATTTGGCATCTCTGTATTAGCAGAGAGCAGATCAAAAATACTAGATT
1 GATTTGGCATCTCTGTATT-GCAGAGAGCAGATCGAAGATACCAGATT
47530054 AGTGTTCCTA
Statistics
Matches: 159, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
131 158 0.99
132 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (130 bp):
GATTTGGCATCTCTGTATTGCAGAGAGCAGATCGAAGATACCAGATTTGACATCTATGTATTGGC
GCAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTAAAACAAATCTAAGAT
Found at i:47531582 original size:12 final size:12
Alignment explanation
Indices: 47531514--47531599 Score: 59
Period size: 12 Copynumber: 6.8 Consensus size: 12
47531504 TTTTTGTTTA
47531514 TATATATTTCAT
1 TATATATTTCAT
47531526 TATATTATTT-ATT
1 TATA-TATTTCA-T
* *
47531539 TGTATATTTTAT
1 TATATATTTCAT
*
47531551 CTATAAATTAT-ATTT
1 -TATATATT-TCA--T
47531566 TATATATTTCAT
1 TATATATTTCAT
*
47531578 TATATATTTCCT
1 TATATATTTCAT
47531590 TATATTATTT
1 TATA-TATTT
47531600 TTGTGTATCA
Statistics
Matches: 60, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
12 27 0.45
13 23 0.38
14 9 0.15
15 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (12 bp):
TATATATTTCAT
Found at i:47531840 original size:21 final size:21
Alignment explanation
Indices: 47531821--47531878 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 21
47531811 ATACTTTATC
*
47531821 TATAATACAATTTATATTATTA
1 TATATTAC-ATTTATATTATTA
*
47531843 TATATTACATTTATA-AATT-
1 TATATTACATTTATATTATTA
47531862 T-TATTACATATTATATT
1 TATATTACAT-TTATATT
47531879 TTACCATGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 8 0.26
19 6 0.19
20 3 0.10
21 7 0.23
22 7 0.23
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.53
Consensus pattern (21 bp):
TATATTACATTTATATTATTA
Found at i:47535934 original size:3 final size:3
Alignment explanation
Indices: 47535921--47535990 Score: 61
Period size: 3 Copynumber: 23.0 Consensus size: 3
47535911 CATAATCCTT
* * * *
47535921 TTC TCTC TTC TTC TTC CTC CTC CTC CTC TTC TTC TTC TTC TTC TTC
1 TTC T-TC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* *
47535967 TTC TTC CTC GTTC TCC TTC -TC TTC
1 TTC TTC TTC -TTC TTC TTC TTC TTC
47535991 AACTTCCATT
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.03
3 51 0.88
4 5 0.09
ACGTcount: A:0.00, C:0.43, G:0.01, T:0.56
Consensus pattern (3 bp):
TTC
Found at i:47536932 original size:7 final size:7
Alignment explanation
Indices: 47536922--47536955 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
47536912 ATCTAACACT
47536922 TAACCCC
1 TAACCCC
47536929 TAACCCC
1 TAACCCC
*
47536936 TAACCCT
1 TAACCCC
*
47536943 TAAACCC
1 TAACCCC
47536950 TAACCC
1 TAACCC
47536956 TTAAATCGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.32, C:0.50, G:0.00, T:0.18
Consensus pattern (7 bp):
TAACCCC
Found at i:47536938 original size:21 final size:21
Alignment explanation
Indices: 47536914--47536955 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
47536904 CCCTAAAAAT
*
47536914 CTAACACTTAACCCCTAACCC
1 CTAACACTTAAACCCTAACCC
*
47536935 CTAACCCTTAAACCCTAACCC
1 CTAACACTTAAACCCTAACCC
47536956 TTAAATCGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.48, G:0.00, T:0.19
Consensus pattern (21 bp):
CTAACACTTAAACCCTAACCC
Found at i:47536939 original size:14 final size:14
Alignment explanation
Indices: 47536922--47536960 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
47536912 ATCTAACACT
*
47536922 TAACCCCTAACCCC
1 TAACCCCTAAACCC
*
47536936 TAACCCTTAAACCC
1 TAACCCCTAAACCC
*
47536950 TAACCCTTAAA
1 TAACCCCTAAA
47536961 TCGTAATCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.36, C:0.44, G:0.00, T:0.21
Consensus pattern (14 bp):
TAACCCCTAAACCC
Found at i:47536988 original size:15 final size:15
Alignment explanation
Indices: 47536968--47536998 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
47536958 AAATCGTAAT
*
47536968 CCATAATCCCTAAAC
1 CCATAATCCATAAAC
47536983 CCATAATCCATAAAC
1 CCATAATCCATAAAC
47536998 C
1 C
47536999 TTAAAATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.39, G:0.00, T:0.19
Consensus pattern (15 bp):
CCATAATCCATAAAC
Found at i:47537194 original size:22 final size:21
Alignment explanation
Indices: 47537152--47537199 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
47537142 ACTAATTAAT
* *
47537152 CTAAACCTTAAACTCTTAATCC
1 CTAAACCGTAAACTCTAAAT-C
47537174 CTAAACCGTAAAC-CATAAATC
1 CTAAACCGTAAACTC-TAAATC
47537195 CTAAA
1 CTAAA
47537200 ACATAAATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.44, C:0.29, G:0.02, T:0.25
Consensus pattern (21 bp):
CTAAACCGTAAACTCTAAATC
Found at i:47537199 original size:14 final size:14
Alignment explanation
Indices: 47537182--47537217 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
47537172 CCCTAAACCG
47537182 TAAACCATAAATCC
1 TAAACCATAAATCC
*
47537196 TAAAACATAAATCC
1 TAAACCATAAATCC
*
47537210 TGAACCAT
1 TAAACCAT
47537218 GAACCACTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.50, C:0.25, G:0.03, T:0.22
Consensus pattern (14 bp):
TAAACCATAAATCC
Found at i:47537288 original size:25 final size:26
Alignment explanation
Indices: 47537234--47537293 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 26
47537224 CTAACCCTTA
*
47537234 ACCCTT-AACCCCTAACACCTAAACG
1 ACCCTTAAACCCCTAACACCTAAACC
47537259 A-CCTTAAACCCC-AAC-CCTTAAACC
1 ACCCTTAAACCCCTAACACC-TAAACC
47537283 ACCCTTAAACC
1 ACCCTTAAACC
47537294 ATAATCCATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
23 2 0.06
24 13 0.42
25 16 0.52
ACGTcount: A:0.37, C:0.45, G:0.02, T:0.17
Consensus pattern (26 bp):
ACCCTTAAACCCCTAACACCTAAACC
Found at i:47537738 original size:80 final size:80
Alignment explanation
Indices: 47537634--47537784 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
47537624 TTAATTTTTT
* * *
47537634 GCGGCGTTTTTTAAAAGGCGCCGCTAATACTTGATCTTTAGTGGTGCTTTTCA-AAAAACGCCGC
1 GCGGCATTTTTTAAAAGGCGCCGCTAATACTCGATCTTTAGCGGTGCTTTTCATAAAAA-GCCGC
47537698 TAAAAATGAACCTATA
65 TAAAAATGAACCTATA
* * * *
47537714 GCGGCATTTTTTGAAAA-GCGCCGCTAGTGCTCGATCTTTAGCGGTGTTTTTCATTCAAAAGCCG
1 GCGGCATTTTTT-AAAAGGCGCCGCTAATACTCGATCTTTAGCGGTGCTTTTCA-TAAAAAGCCG
47537778 CTAAAAA
64 CTAAAAA
47537785 CCTGTTTTGC
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
80 42 0.69
81 15 0.25
82 4 0.07
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (80 bp):
GCGGCATTTTTTAAAAGGCGCCGCTAATACTCGATCTTTAGCGGTGCTTTTCATAAAAAGCCGCT
AAAAATGAACCTATA
Found at i:47539712 original size:41 final size:40
Alignment explanation
Indices: 47539648--47539727 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 40
47539638 GGGGGAAGAA
*
47539648 ATTGAGGACACAAGGTTGATTGACGACCGTGGATCCACCG
1 ATTGAGGACACAAGGTTGATTGACAACCGTGGATCCACCG
* * *
47539688 ATTGAGGATCGCATGGTTGGTTGACAACCGTGGATCCACC
1 ATTGAGGA-CACAAGGTTGATTGACAACCGTGGATCCACC
47539728 AATGGCTGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
40 8 0.23
41 27 0.77
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (40 bp):
ATTGAGGACACAAGGTTGATTGACAACCGTGGATCCACCG
Found at i:47539875 original size:22 final size:22
Alignment explanation
Indices: 47539813--47539877 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
47539803 GCCAATTATT
* *
47539813 CTGATTATGGTTTTGCGCCAAC
1 CTGATTATGGTTCTGTGCCAAC
* * *
47539835 CT-ACATATGGCTCTATGCCAAC
1 CTGA-TTATGGTTCTGTGCCAAC
*
47539857 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGTTCTGTGCCAA
47539878 ACGTATTTGC
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
21 1 0.03
22 30 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (22 bp):
CTGATTATGGTTCTGTGCCAAC
Found at i:47543936 original size:40 final size:40
Alignment explanation
Indices: 47543881--47544107 Score: 418
Period size: 40 Copynumber: 5.7 Consensus size: 40
47543871 AGCATTGGAT
47543881 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
47543921 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
47543961 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
47544001 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
47544041 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
47544081 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
47544108 ATGTGTTTGC
Statistics
Matches: 181, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 181 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:47560009 original size:40 final size:40
Alignment explanation
Indices: 47559953--47560156 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
47559943 CGGAATTTAA
** *
47559953 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
47559993 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
47560033 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
47560072 TC-GAAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
*
47560112 CCGGATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
47560152 CCGGA
1 CCGGA
47560157 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 4 0.03
39 29 0.21
40 92 0.66
41 14 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:47560091 original size:79 final size:80
Alignment explanation
Indices: 47560000--47560151 Score: 220
Period size: 79 Copynumber: 1.9 Consensus size: 80
47559990 AGCCCGGTTA
* * *
47560000 TAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACAAATGCCTTC
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAGTAACTTAGCACAAA-GCCTTC
47560063 GGG-CTTAGCTCGAAAT
64 GGGACTTAGCTCGAAAT
* *
47560079 TAGTATCTCGCACAAATGCCTTCGGATCTTAGCCCGGATATAGTAACTTAGCACAAAGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
47560144 GACTTAGC
66 GACTTAGC
47560152 CCGGACATCA
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
78 3 0.05
79 48 0.74
80 14 0.22
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
GACTTAGCTCGAAAT
Found at i:47566496 original size:44 final size:44
Alignment explanation
Indices: 47566433--47566521 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
47566423 GACCGTCTAA
*
47566433 GTCAACCAACAACTACTTTATGTTTAAATTTTGTTTCTGATTTT
1 GTCAACCAACAACTACTTTATGTTTAAATTCTGTTTCTGATTTT
47566477 GTCAACCAACAACTACTTTATGTTTAAATTCTGTTTCTGATTTT
1 GTCAACCAACAACTACTTTATGTTTAAATTCTGTTTCTGATTTT
47566521 G
1 G
47566522 ATAAGGTTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.46
Consensus pattern (44 bp):
GTCAACCAACAACTACTTTATGTTTAAATTCTGTTTCTGATTTT
Found at i:47569421 original size:47 final size:47
Alignment explanation
Indices: 47569370--47569592 Score: 331
Period size: 47 Copynumber: 4.7 Consensus size: 47
47569360 TTAGGATTCT
* * *
47569370 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
47569417 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
47569464 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
47569511 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
47569558 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
47569593 TCCCGAAGGG
Statistics
Matches: 162, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.01
47 161 0.99
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:47569445 original size:25 final size:25
Alignment explanation
Indices: 47569417--47569495 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
47569407 CTAATGGCCG
47569417 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
47569442 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
47569464 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
47569489 ATGTGAT
1 ATGTGAT
47569496 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:47569767 original size:37 final size:37
Alignment explanation
Indices: 47569711--47569789 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
47569701 CCGAGCTCTA
* * *
47569711 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
47569748 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
47569785 AAGAC
1 AAGAC
47569790 TTCGTAATAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:47573284 original size:19 final size:19
Alignment explanation
Indices: 47573238--47573285 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
47573228 GTATATATTT
47573238 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
47573256 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
47573275 TAAATTTTATT
1 TAAATTTTATT
47573286 CATATTTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:47573365 original size:41 final size:41
Alignment explanation
Indices: 47573309--47573387 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
47573299 TATTTTTATT
47573309 TTATCTTTTAGTAGTTTATTAGAATAAGGGAACTATTTCCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGGGAACTATTTCCC
*
47573350 TTATGTTTTAGTAGTTTATTAGAATAAGGGAACTATTT
1 TTATCTTTTAGTAGTTTATTAGAATAAGGGAACTATTT
47573388 TCCCAATTAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.46
Consensus pattern (41 bp):
TTATCTTTTAGTAGTTTATTAGAATAAGGGAACTATTTCCC
Found at i:47581063 original size:35 final size:35
Alignment explanation
Indices: 47581024--47581193 Score: 184
Period size: 35 Copynumber: 4.9 Consensus size: 35
47581014 AAAGGTGACT
*
47581024 TTAAAAAGGTTGGGATAGATTCGTCTAAGGCAACC
1 TTAAAAAGGTTGGGATAGACTCGTCTAAGGCAACC
* * *
47581059 TTAAAAACGTTGAGATAGACCCGTCTAAGGCAACC
1 TTAAAAAGGTTGGGATAGACTCGTCTAAGGCAACC
* * * *
47581094 TTTAAAAGGCTGAGG-TAGACACGTCTATGGCAACC
1 TTAAAAAGGTTG-GGATAGACTCGTCTAAGGCAACC
*
47581129 TTAAAAAGGTTGGGATAGACAT-ATCTAAGGCAACC
1 TTAAAAAGGTTGGGATAGAC-TCGTCTAAGGCAACC
* * *
47581164 TTAAAAAAGTTGAGATAAACAT-GTCTAAGG
1 TTAAAAAGGTTGGGATAGAC-TCGTCTAAGG
47581194 TAATTTTTTT
Statistics
Matches: 113, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
34 2 0.02
35 110 0.97
36 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.24
Consensus pattern (35 bp):
TTAAAAAGGTTGGGATAGACTCGTCTAAGGCAACC
Found at i:47581796 original size:19 final size:19
Alignment explanation
Indices: 47581772--47581865 Score: 83
Period size: 19 Copynumber: 5.2 Consensus size: 19
47581762 AATCTTTAAG
* *
47581772 GATATGCAATCTCAGGTAT
1 GATATGCAATCTTAGATAT
*
47581791 GATATGCAATCTTATATAT
1 GATATGCAATCTTAGATAT
47581810 GATAT--AATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
47581827 GATATG--AT-AT-GATAT
1 GATATGCAATCTTAGATAT
*
47581842 GATATACAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
47581863 GAT
1 GAT
47581866 TTTATAATCT
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
15 10 0.16
16 1 0.02
17 20 0.33
18 1 0.02
19 21 0.34
21 8 0.13
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:47581830 original size:5 final size:5
Alignment explanation
Indices: 47581822--47581846 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
47581812 TATAATCTTA
47581822 GATAT GATAT GATAT GATAT GATAT
1 GATAT GATAT GATAT GATAT GATAT
47581847 ACAATCTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
GATAT
Found at i:47589714 original size:44 final size:44
Alignment explanation
Indices: 47589550--47590013 Score: 240
Period size: 44 Copynumber: 10.6 Consensus size: 44
47589540 ATGTAGATCA
*
47589550 AAGA-AACAAGATTTGGCATCCCTGTGTTTATAGGGAAC-AGATCG
1 AAGATAAC-AGATTTGGCATCCCTGTGTTTATAGGGAACAAG-TTG
* * * * * * * *
47589594 AAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAGC-AGATCG
1 AAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAA-CAAG-TTG
** * *
47589639 AAGATTTCAGCA--TGGCATCCCTATGTTTATAGGGAACAAGTTA
1 AAGATAACAG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTTG
**
47589682 AAGGCAACAGATTTGGCATCCCTGTGTTTATAGGGAAC-AGATTG
1 AAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAACAAG-TTG
* * * * * * * *
47589726 AAGATAATAGATCTGACACCCCTGTGCTTACAGCGAAGC-AGATCG
1 AAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAA-CAAG-TTG
* **
47589771 AGGATTTCAGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTG
1 AAGATAACAG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTTG
* * *
47589814 AAGATAGCAGATTTGGCATCCCTATGTTTATAGGGAAC-AGATCG
1 AAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAACAAG-TTG
* * * * * * * * *
47589858 AAGATAACAGATCTGACA-CTCATGTGCTTACAGCGAAGTAAATCG
1 AAGATAACAGATTTGGCATC-CCTGTGTTTATAGGGAA-CAAGTTG
* **
47589903 AGGATTTCAGCA--TGGCATCCCTGTGTTTATAGGGAA-AAGTTG
1 AAGATAACAG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTTG
* * * * * *
47589945 AAGATAGCAGATTTGGCATCTCTGT-ATTATCAGAGAGC-AGATCG
1 AAGATAACAGATTTGGCATCCCTGTGTTTAT-AGGGAACAAG-TTG
* *
47589989 AAGATACCAGATTTGGCATCTCTGT
1 AAGATAACAGATTTGGCATCCCTGT
47590014 ATTGACAGAG
Statistics
Matches: 320, Mismatches: 77, Indels: 46
0.72 0.17 0.10
Matches are distributed among these distances:
41 1 0.00
42 17 0.05
43 40 0.12
44 218 0.68
45 40 0.12
46 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (44 bp):
AAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAACAAGTTG
Found at i:47589798 original size:132 final size:132
Alignment explanation
Indices: 47589558--47590000 Score: 683
Period size: 132 Copynumber: 3.4 Consensus size: 132
47589548 CAAAGAAACA
* *
47589558 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
* * * **
47589623 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAAGTTAAAGGCA
66 ACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
*
47589688 AC
131 GC
* * *
47589690 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATTGAAGATAATAGATCTGACACCCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
47589755 ACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
47589820 GC
131 GC
* *
47589822 AGATTTGGCATCCCTATGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCATGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
* *
47589887 ACAGCGAAGTAAATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAA-AAGTTGAAGATA
66 ACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
47589951 GC
131 GC
* * * * *
47589953 AGATTTGGCATCTCTGT-ATTATCAGAGAGCAGATCGAAGATACCAGAT
1 AGATTTGGCATCCCTGTGTTTAT-AGGGAACAGATCGAAGATAACAGAT
47590001 TTGGCATCTC
Statistics
Matches: 286, Mismatches: 24, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
130 4 0.01
131 51 0.18
132 231 0.81
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
ACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:47590014 original size:44 final size:44
Alignment explanation
Indices: 47589944--47590036 Score: 152
Period size: 44 Copynumber: 2.1 Consensus size: 44
47589934 GGGAAAAGTT
* *
47589944 GAAGATAGCAGATTTGGCATCTCTGTATT-ATCAGAGAGCAGATC
1 GAAGATACCAGATTTGGCATCTCTGTATTGA-CAGAGAGCAAATC
47589988 GAAGATACCAGATTTGGCATCTCTGTATTGACAGAGAGCAAATC
1 GAAGATACCAGATTTGGCATCTCTGTATTGACAGAGAGCAAATC
47590032 GAAGA
1 GAAGA
47590037 CATAGCTGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 45 0.98
45 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (44 bp):
GAAGATACCAGATTTGGCATCTCTGTATTGACAGAGAGCAAATC
Found at i:47590356 original size:205 final size:205
Alignment explanation
Indices: 47590023--47590737 Score: 1173
Period size: 205 Copynumber: 3.5 Consensus size: 205
47590013 TATTGACAGA
* *
47590023 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAACAAATCTAAGATGAT
* *
47590088 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGAAGGAGGGCAGA
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGAAGGGCAGA
* * *
47590153 CACATAGCAAATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTAG
131 CACATAGCAGATCCAAACTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
47590218 TGCTTACAAG
196 TGCTTACAAG
47590228 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAACAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAACAAATCTAAGATGAT
* * *
47590293 TTGGCATTTCTATATTGTCAGAGAACAAATCGAAGTCTGGTATCTCCACTTCGACGAAGGGCAGA
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGAAGGGCAGA
* *
47590358 CACATAGCAGATCCAAACTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGACATTCTTG
131 CACATAGCAGATCCAAACTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
47590423 TGCTTACAAG
196 TGCTTACAAG
* * * * *
47590433 GAGCAAATCGAAGACATAGCTGGTTTGGTTTTCATGTGCTTAAGTTGAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAACAAATCTAAGATGAT
47590498 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGAC-AGAGGGCAG
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGA-AGGGCAG
* * ** *
47590562 ACACATAGCAGATCTAAACTTCAGATCTTTATACTGAAACAGGTCCAAGATGGTTTGGCATCCTT
130 ACACATAGCAGATCCAAACTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTT
47590627 GTGCTTACAAG
195 GTGCTTACAAG
*
47590638 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCTCGTGCTTACGTT-AAAGCAAATCTAAGATGA
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAA-CAAATCTAAGATGA
* *
47590702 TTTGGCATCTCTGTATTGTTAGGGAACAAATCGAAG
65 TTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
47590738 AAGCAAATTT
Statistics
Matches: 473, Mismatches: 35, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
204 3 0.01
205 470 0.99
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (205 bp):
GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAACAAATCTAAGATGAT
TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGAAGGGCAGA
CACATAGCAGATCCAAACTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
TGCTTACAAG
Found at i:47590902 original size:45 final size:45
Alignment explanation
Indices: 47590831--47590916 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
47590821 GAAGAAGAAA
47590831 ATTTAGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAACAG
1 ATTTAGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAACAG
* *
47590876 ATTTGGCGTCTCTGTATTAGATGGGGAGCAGATCAAAGATA
1 ATTTAGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATA
47590917 GCATATATCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (45 bp):
ATTTAGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAACAG
Found at i:47591302 original size:19 final size:19
Alignment explanation
Indices: 47591278--47591354 Score: 99
Period size: 19 Copynumber: 4.2 Consensus size: 19
47591268 AATCTTTAAG
47591278 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
47591297 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
47591316 GATATG--AT-AT-GATAT
1 GATATGCAATCTTAGATAT
47591331 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
47591352 GAT
1 GAT
47591355 TTTGTAATCT
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
15 11 0.22
16 1 0.02
17 4 0.08
18 1 0.02
19 25 0.50
21 8 0.16
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:47591319 original size:5 final size:5
Alignment explanation
Indices: 47591311--47591336 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
47591301 TGCAATCTTA
47591311 GATAT GATAT GATAT GATAT GATAT G
1 GATAT GATAT GATAT GATAT GATAT G
47591337 CAATCTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (5 bp):
GATAT
Found at i:47592335 original size:25 final size:25
Alignment explanation
Indices: 47592302--47592351 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
47592292 CAATTATTTC
47592302 GAGATTTCAAAACATAGTGTCCTAA
1 GAGATTTCAAAACATAGTGTCCTAA
47592327 GAGATTTCAAAACATAGTGTCCTAA
1 GAGATTTCAAAACATAGTGTCCTAA
47592352 CTTACTGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (25 bp):
GAGATTTCAAAACATAGTGTCCTAA
Found at i:47594859 original size:21 final size:23
Alignment explanation
Indices: 47594835--47594889 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 23
47594825 TAATAAAATT
47594835 TATAAATAAAATG-T--ATAATAA
1 TATAAATAAAATGATAAATAAT-A
*
47594856 TATAAATAATATGATAAATAATA
1 TATAAATAAAATGATAAATAATA
47594879 TATAAATAAAA
1 TATAAATAAAA
47594890 ATAATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 12 0.41
22 1 0.03
23 11 0.38
24 5 0.17
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.33
Consensus pattern (23 bp):
TATAAATAAAATGATAAATAATA
Found at i:47594864 original size:12 final size:11
Alignment explanation
Indices: 47594849--47594887 Score: 60
Period size: 12 Copynumber: 3.4 Consensus size: 11
47594839 AATAAAATGT
47594849 ATAATAATATAA
1 ATAAT-ATATAA
47594861 ATAATATGATAA
1 ATAATAT-ATAA
47594873 ATAATATATAA
1 ATAATATATAA
47594884 ATAA
1 ATAA
47594888 AAATAATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 10 0.38
12 16 0.62
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (11 bp):
ATAATATATAA
Found at i:47594872 original size:17 final size:16
Alignment explanation
Indices: 47594852--47594899 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
47594842 AAAATGTATA
47594852 ATAATATAAATAATAT
1 ATAATATAAATAATAT
47594868 GATAA-AT-AAT-ATAT
1 -ATAATATAAATAATAT
*
47594882 A-AATAAAAATAATAT
1 ATAATATAAATAATAT
47594897 ATA
1 ATA
47594900 TACTATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 9
0.72 0.03 0.25
Matches are distributed among these distances:
12 2 0.08
13 2 0.08
14 7 0.27
15 8 0.31
16 3 0.12
17 4 0.15
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (16 bp):
ATAATATAAATAATAT
Found at i:47594893 original size:21 final size:20
Alignment explanation
Indices: 47594826--47594901 Score: 59
Period size: 23 Copynumber: 3.7 Consensus size: 20
47594816 TACAACATAT
*
47594826 AATAA-AATTTATAAAT-AA
1 AATAATAATATATAAATAAA
*
47594844 AATGTATAATAATATAAATAATA
1 AAT-AATAAT-ATATAAATAA-A
*
47594867 TGATAAATAATATATAAATAAA
1 -AAT-AATAATATATAAATAAA
47594889 AATAAT-ATATATA
1 AATAATAATATATA
47594902 CTATTTTTAC
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
18 3 0.07
19 8 0.17
20 6 0.13
21 9 0.20
22 2 0.04
23 11 0.24
24 7 0.15
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (20 bp):
AATAATAATATATAAATAAA
Found at i:47594972 original size:25 final size:24
Alignment explanation
Indices: 47594926--47594981 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
47594916 AACTAATGTT
47594926 TATA-AAAATAAATAATACATATA
1 TATATAAAATAAATAATACATATA
* *
47594949 GTATTTAAAATAAATTAA-ATATATA
1 -TATATAAAATAAA-TAATACATATA
47594974 TATATAAA
1 TATATAAA
47594982 TGGATTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 10 0.37
25 14 0.52
26 3 0.11
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (24 bp):
TATATAAAATAAATAATACATATA
Found at i:47599870 original size:30 final size:29
Alignment explanation
Indices: 47599828--47600018 Score: 168
Period size: 30 Copynumber: 6.3 Consensus size: 29
47599818 GTGTTTTCAC
*
47599828 CATCCCTTTTCATAATTTGATATCCGAAA
1 CATCCCTTTTCATAATTTGATAGCCGAAA
* * *
47599857 CTATCCCTCTTCATAATTCGATAGCCAGAGA
1 C-ATCCCTTTTCATAATTTGATAGCC-GAAA
47599888 CATCCCTTTTCATAATTTGATAGCC-AAA
1 CATCCCTTTTCATAATTTGATAGCCGAAA
** * * * *
47599916 GCCATCCCTTTTCATAATTCAATGGTCGTCAC
1 --CATCCCTTTTCATAATTTGATAGCCG-AAA
* *
47599948 CATCCCTTTTTCATAATTCGATAGCCGAAG
1 CATCCC-TTTTCATAATTTGATAGCCGAAA
* * *
47599978 CTATCCCTTTCCATATTTTGATAGCCGAAGC
1 C-ATCCCTTTTCATAATTTGATAGCCGAA-A
47600009 CATCCCTTTT
1 CATCCCTTTT
47600019 TATTGGTCGA
Statistics
Matches: 130, Mismatches: 23, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
28 2 0.02
29 1 0.01
30 99 0.76
31 27 0.21
32 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.10, T:0.35
Consensus pattern (29 bp):
CATCCCTTTTCATAATTTGATAGCCGAAA
Found at i:47599923 original size:60 final size:58
Alignment explanation
Indices: 47599828--47600018 Score: 195
Period size: 60 Copynumber: 3.2 Consensus size: 58
47599818 GTGTTTTCAC
*
47599828 CATCCCTTTTCATAATTTGATATCCGAAA-CTATCCCTCTTCATAATTCGATAGCCAGAGA
1 CATCCCTTTTCATAATTTGATAGCC-AAAGCTATCCCT-TTCATAATTCGATAGCC-GAGA
* * * * **
47599888 CATCCCTTTTCATAATTTGATAGCCAAAGCCATCCCTTTTCATAATTCAATGGTCGTCA
1 CATCCCTTTTCATAATTTGATAGCCAAAGCTATCCC-TTTCATAATTCGATAGCCGAGA
* * * * *
47599947 CCATCCCTTTTTCATAATTCGATAGCCGAAGCTATCCCTTTCCATATTTTGATAGCCGAAGC
1 -CATCCC-TTTTCATAATTTGATAGCCAAAGCTATCCCTTT-CATAATTCGATAGCCG-AGA
47600009 CATCCCTTTT
1 CATCCCTTTT
47600019 TATTGGTCGA
Statistics
Matches: 107, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
59 5 0.05
60 57 0.53
61 45 0.42
ACGTcount: A:0.26, C:0.28, G:0.10, T:0.35
Consensus pattern (58 bp):
CATCCCTTTTCATAATTTGATAGCCAAAGCTATCCCTTTCATAATTCGATAGCCGAGA
Found at i:47599984 original size:61 final size:61
Alignment explanation
Indices: 47599824--47599992 Score: 207
Period size: 60 Copynumber: 2.8 Consensus size: 61
47599814 CATTGTGTTT
* * * *
47599824 TCACCATCCCTTTTCATAATTTGATATCCGAAACTATCCCTCTTCATAATTCGATAGCCAG
1 TCACCATCCCTTTTCATAATTTGATAGCCGAAGCTATCCCTTTTCATAATTCAATAGCCAG
** * * * *
47599885 AGA-CATCCCTTTTCATAATTTGATAGCCAAAGCCATCCCTTTTCATAATTCAATGGTC-G
1 TCACCATCCCTTTTCATAATTTGATAGCCGAAGCTATCCCTTTTCATAATTCAATAGCCAG
* *
47599944 TCACCATCCCTTTTTCATAATTCGATAGCCGAAGCTATCCCTTTCCATA
1 TCACCATCCC-TTTTCATAATTTGATAGCCGAAGCTATCCCTTTTCATA
47599993 TTTTGATAGC
Statistics
Matches: 90, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
59 2 0.02
60 53 0.59
61 35 0.39
ACGTcount: A:0.27, C:0.29, G:0.09, T:0.34
Consensus pattern (61 bp):
TCACCATCCCTTTTCATAATTTGATAGCCGAAGCTATCCCTTTTCATAATTCAATAGCCAG
Found at i:47600012 original size:61 final size:61
Alignment explanation
Indices: 47599719--47600019 Score: 194
Period size: 61 Copynumber: 5.1 Consensus size: 61
47599709 TTACCACCCC
* * * * *
47599719 TTTTCATAGTTCGATAGCCAAAGCTATCCCTTTCTATATTTTGATAACCGTAGCCATCCCT
1 TTTTCATAATTCGATAGCCGAAGCTATCCCTTTCCATATTTTGATAGCCGAAGCCATCCCT
* * * ** * * * ***
47599780 ATTTCATAATTCAATGGTTGTCA-CCATCCCTTTCC--ATTGTG-TTTTC--A-CCATCCC-
1 TTTTCATAATTCGATAGCCG-AAGCTATCCCTTTCCATATTTTGATAGCCGAAGCCATCCCT
* * * * * *
47599834 TTTTCATAATTTGATATCCGAAACTATCCCTCTT-CATAATTCGATAGCC-AGAGACATCCC-
1 TTTTCATAATTCGATAGCCGAAGCTATCCCT-TTCCATATTTTGATAGCCGA-AGCCATCCCT
* * * * * ** * * *
47599894 TTTTCATAATTTGATAGCCAAAGCCATCCCTTTTCATAATTCAATGGTCGTCA-CCATCCCT
1 TTTTCATAATTCGATAGCCGAAGCTATCCCTTTCCATATTTTGATAGCCG-AAGCCATCCCT
47599955 TTTTCATAATTCGATAGCCGAAGCTATCCCTTTCCATATTTTGATAGCCGAAGCCATCCCT
1 TTTTCATAATTCGATAGCCGAAGCTATCCCTTTCCATATTTTGATAGCCGAAGCCATCCCT
47600016 TTTT
1 TTTT
47600020 ATTGGTCGAT
Statistics
Matches: 177, Mismatches: 49, Indels: 28
0.70 0.19 0.11
Matches are distributed among these distances:
53 1 0.01
54 21 0.12
55 9 0.05
56 4 0.02
57 2 0.01
58 2 0.01
59 8 0.05
60 52 0.29
61 77 0.44
62 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.11, T:0.37
Consensus pattern (61 bp):
TTTTCATAATTCGATAGCCGAAGCTATCCCTTTCCATATTTTGATAGCCGAAGCCATCCCT
Found at i:47600405 original size:31 final size:31
Alignment explanation
Indices: 47600370--47600433 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
47600360 CATGCAATTT
47600370 CACCCCTACCCAAGCCTAGCCGAATTTTATA
1 CACCCCTACCCAAGCCTAGCCGAATTTTATA
47600401 CACCCCTACCCAAGCCTAGCCGAATTTTATA
1 CACCCCTACCCAAGCCTAGCCGAATTTTATA
47600432 CA
1 CA
47600434 AACTCATAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.30, C:0.39, G:0.09, T:0.22
Consensus pattern (31 bp):
CACCCCTACCCAAGCCTAGCCGAATTTTATA
Found at i:47605424 original size:85 final size:84
Alignment explanation
Indices: 47605145--47605447 Score: 398
Period size: 83 Copynumber: 3.6 Consensus size: 84
47605135 ACCAATATCG
* *
47605145 AATAAAATCTAGTTAAACGGCGAGAATAAATCCCAAAACAGATTTAATTTAATTTAATTCTAATT
1 AATAAAATCTTGTTAAACGGCG-GAATAAATCCCAAAACAGATTTTATTTAATTTAATTCTAATT
* * *
47605210 T--AGAAATAAATATAATCA
65 TGGAAAAAAAAATAAAATCA
* * ** * *
47605228 AACAAAATCTTGTTAAACGACGGGAATAAAT-CTTAAATATATTTTATTTAATTTAATTCTAATT
1 AATAAAATCTTGTTAAACGGC-GGAATAAATCCCAAAACAGATTTTATTTAATTTAATTCTAATT
* *
47605292 TGG-AAACAACATAAAATCA
65 TGGAAAAAAAAATAAAATCA
*
47605311 AATAAAATCTTGTTAAACGGCGGAAATAAATCTCAAAACAGATTTTATTTAATTTAATTCTAATT
1 AATAAAATCTTGTTAAACGGCGG-AATAAATCCCAAAACAGATTTTATTTAATTTAATTCTAATT
47605376 TGGAAAAAAAAATAAAATCA
65 TGGAAAAAAAAATAAAATCA
* *
47605396 AATAAAATCTTGTTAAATGGCAGGAATAAATCCCAAAACAAATTTTATTTAA
1 AATAAAATCTTGTTAAACGGC-GGAATAAATCCCAAAACAGATTTTATTTAA
47605448 CTTTGATTTC
Statistics
Matches: 188, Mismatches: 25, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
82 31 0.16
83 63 0.34
84 32 0.17
85 60 0.32
86 2 0.01
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (84 bp):
AATAAAATCTTGTTAAACGGCGGAATAAATCCCAAAACAGATTTTATTTAATTTAATTCTAATTT
GGAAAAAAAAATAAAATCA
Found at i:47605522 original size:87 final size:87
Alignment explanation
Indices: 47605419--47605648 Score: 232
Period size: 88 Copynumber: 2.6 Consensus size: 87
47605409 TAAATGGCAG
* * * * *
47605419 GAATAAATCCCAAAACAAATTTTATTTAACTTTGATTTCTCTTTTTTGGCAACAAA-ATCAAAA-
1 GAATAAATCCCGAAACAAATTTTATTTAA-TTTGAGTACT-TGTTTTGG-AAAAAACATCAAAAT
* * *
47605482 TGTAAT-AAATTCGTTGATCAACGA
63 TGGAATAAAATCCGTTGAACAACGA
* * *
47605506 GAATAAATCCCGAAACAGATTTTAATTTAATTTTAGTAGTTGTTTTGGAAAAAACATCAAAATTG
1 GAATAAATCCCGAAACAAATTTT-ATTTAATTTGAGTACTTGTTTTGGAAAAAACATCAAAATTG
** *
47605571 GAATAAAATCCGTTGAACGGCGG
65 GAATAAAATCCGTTGAACAACGA
* * *
47605594 GAATAAATCCCGAAATAAATTTTATTTTAATTTTAATACTTGTTTTGGAATAAAA
1 GAATAAATCCCGAAACAAATTTTA-TTTAATTTGAGTACTTGTTTTGGAA-AAAA
47605649 TCATTGAATA
Statistics
Matches: 119, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
85 5 0.04
86 14 0.12
87 33 0.28
88 63 0.53
89 4 0.03
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (87 bp):
GAATAAATCCCGAAACAAATTTTATTTAATTTGAGTACTTGTTTTGGAAAAAACATCAAAATTGG
AATAAAATCCGTTGAACAACGA
Found at i:47605838 original size:87 final size:87
Alignment explanation
Indices: 47605701--47605866 Score: 237
Period size: 87 Copynumber: 1.9 Consensus size: 87
47605691 CTCATTTTTG
* * * *
47605701 GAAATAAAATAAAAAAATTGAATAAAATCGTTGAACGGCAGGAATCAATCCTGAAACAGATTTTA
1 GAAATAAAATAAAAAAATGGAATAAAATCGTTAAACGGCAGGAATAAATCCCGAAACAGATTTTA
47605766 TTTACCTTTAATTTTCCATTTA
66 TTTACCTTTAATTTTCCATTTA
* *
47605788 GAAAT-AAATAAAAATAATGGAATAAAATCTGTTAAACGG-GGGAATAAATCCCGAAACGGATTT
1 GAAATAAAATAAAAA-AATGGAATAAAATC-GTTAAACGGCAGGAATAAATCCCGAAACAGATTT
*
47605851 TATTTACTTTTAATTT
64 TATTTACCTTTAATTT
47605867 GGAAACAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
86 9 0.13
87 53 0.76
88 8 0.11
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (87 bp):
GAAATAAAATAAAAAAATGGAATAAAATCGTTAAACGGCAGGAATAAATCCCGAAACAGATTTTA
TTTACCTTTAATTTTCCATTTA
Found at i:47608716 original size:30 final size:30
Alignment explanation
Indices: 47608682--47608742 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
47608672 TCCGCCTCAC
47608682 CTCTTCTCTTACTCATACACCCACCACCAT
1 CTCTTCTCTTACTCATACACCCACCACCAT
* *
47608712 CTCTTCTCTTACTCTTACACCCACCGCCAT
1 CTCTTCTCTTACTCATACACCCACCACCAT
47608742 C
1 C
47608743 CAATCTCCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.20, C:0.48, G:0.02, T:0.31
Consensus pattern (30 bp):
CTCTTCTCTTACTCATACACCCACCACCAT
Found at i:47610117 original size:31 final size:31
Alignment explanation
Indices: 47610082--47610177 Score: 147
Period size: 31 Copynumber: 3.1 Consensus size: 31
47610072 TTATTCATAA
47610082 AACTCAAATCAACAATCATAATCAATTAAAC
1 AACTCAAATCAACAATCATAATCAATTAAAC
47610113 AACTCAAATCAACAATCATAATCAATTAAAC
1 AACTCAAATCAACAATCATAATCAATTAAAC
* * ** *
47610144 AACTCAAATCGACAATTATCTTCGATTAAAC
1 AACTCAAATCAACAATCATAATCAATTAAAC
47610175 AAC
1 AAC
47610178 ATAGAAACTA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 60 1.00
ACGTcount: A:0.51, C:0.23, G:0.02, T:0.24
Consensus pattern (31 bp):
AACTCAAATCAACAATCATAATCAATTAAAC
Found at i:47610153 original size:18 final size:18
Alignment explanation
Indices: 47610092--47610145 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
47610082 AACTCAAATC
47610092 AACAATCATAATCAATTA
1 AACAATCATAATCAATTA
47610110 AACAACTCA-AATC-----
1 AACAA-TCATAATCAATTA
47610123 AACAATCATAATCAATTA
1 AACAATCATAATCAATTA
47610141 AACAA
1 AACAA
47610146 CTCAAATCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 14
0.67 0.00 0.33
Matches are distributed among these distances:
12 3 0.10
13 9 0.31
18 14 0.48
19 3 0.10
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.22
Consensus pattern (18 bp):
AACAATCATAATCAATTA
Found at i:47619482 original size:26 final size:27
Alignment explanation
Indices: 47619430--47619482 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
47619420 TTTCTATTTG
*
47619430 ATTTAAATTTTATTATATATGACTTTTT
1 ATTTAAATTTTA-TATATATGAATTTTT
47619458 ATTTAAATTTTA-ATATATGAATTTT
1 ATTTAAATTTTATATATATGAATTTT
47619483 GTTAAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 12 0.50
28 12 0.50
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (27 bp):
ATTTAAATTTTATATATATGAATTTTT
Found at i:47619487 original size:24 final size:27
Alignment explanation
Indices: 47619432--47619488 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 27
47619422 TCTATTTGAT
* *
47619432 TTAAATTTTATTATATATGACTTTTTAT
1 TTAAATTTTA-TATATATGACATTTTAG
47619460 TTAAATTTTA-ATATATGA-ATTTT-G
1 TTAAATTTTATATATATGACATTTTAG
47619484 TTAAA
1 TTAAA
47619489 AATAATTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 5 0.19
25 4 0.15
26 8 0.30
28 10 0.37
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (27 bp):
TTAAATTTTATATATATGACATTTTAG
Found at i:47627271 original size:50 final size:50
Alignment explanation
Indices: 47627148--47627331 Score: 217
Period size: 50 Copynumber: 3.7 Consensus size: 50
47627138 CTGGTATGCA
* * * *
47627148 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCAGGTACACG
** * *
47627197 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCAGGTACACG
* * * *
47627247 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-TTATCAGGTACACG
* * *
47627298 TAGTAGGCTGCACTTAATACTACACAAGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
47627332 CACAATAAAT
Statistics
Matches: 113, Mismatches: 20, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
49 31 0.27
50 45 0.40
51 37 0.33
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCAGGTACACG
Found at i:47627320 original size:101 final size:99
Alignment explanation
Indices: 47627148--47627331 Score: 260
Period size: 101 Copynumber: 1.8 Consensus size: 99
47627138 CTGGTATGCA
* * **
47627148 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
* *
47627213 GTACTACACACGTGACCTAACCATCTGATACACG
66 ATACTACACAAGTGACCTAACCATCTGATACACG
* * * *
47627247 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGGCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACT
47627312 TAATACTACACAAGTGACCT
64 TAATACTACACAAGTGACCT
47627332 CACAATAAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 29 0.40
100 3 0.04
101 41 0.56
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
ATACTACACAAGTGACCTAACCATCTGATACACG
Found at i:47627607 original size:27 final size:27
Alignment explanation
Indices: 47627577--47627630 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
47627567 TCATACAACC
*
47627577 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAATAATAATTTAACATTCAATT
**
47627604 CATGTAATAATAATTTGCCATTCAATT
1 CATGTAATAATAATTTAACATTCAATT
47627631 TCACATGACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (27 bp):
CATGTAATAATAATTTAACATTCAATT
Found at i:47630249 original size:26 final size:26
Alignment explanation
Indices: 47630211--47630314 Score: 190
Period size: 26 Copynumber: 4.0 Consensus size: 26
47630201 TGATACAAAT
*
47630211 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
47630237 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
47630263 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
47630289 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
47630315 CGATGGGAAT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:47633135 original size:13 final size:13
Alignment explanation
Indices: 47633117--47633141 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47633107 TTGAATTATT
47633117 ATTTAATTAAATA
1 ATTTAATTAAATA
47633130 ATTTAATTAAAT
1 ATTTAATTAAAT
47633142 TGATTAGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTAATTAAATA
Found at i:47634038 original size:20 final size:21
Alignment explanation
Indices: 47634013--47634055 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
47634003 TCCAACATAG
*
47634013 GGGGAT-TCGTACTGATACTT
1 GGGGATCTCGTACCGATACTT
*
47634033 GGGGATCTTGTACCGATACTT
1 GGGGATCTCGTACCGATACTT
47634054 GG
1 GG
47634056 ACCTTAACAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.19, C:0.16, G:0.33, T:0.33
Consensus pattern (21 bp):
GGGGATCTCGTACCGATACTT
Found at i:47635582 original size:13 final size:13
Alignment explanation
Indices: 47635566--47635599 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
47635556 ATAATTTCAT
47635566 GAAAATTTCGGTC
1 GAAAATTTCGGTC
* *
47635579 GAAAATTTCGTTT
1 GAAAATTTCGGTC
47635592 GAAAATTT
1 GAAAATTT
47635600 TGATGTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (13 bp):
GAAAATTTCGGTC
Found at i:47636826 original size:43 final size:42
Alignment explanation
Indices: 47636687--47636848 Score: 166
Period size: 42 Copynumber: 3.8 Consensus size: 42
47636677 AGGGTTACTT
* * * *
47636687 AGATTACGTGTAAGATCATATTTGGGATATGGAATCGATATG
1 AGATTACGTGTAAGACCATAGTTGGGATATGGCATCGATAAG
* *
47636729 AGATTTCGTGTAAGACCAT-GTTTGGGATATGGCATCAATAAG
1 AGATTACGTGTAAGACCATAG-TTGGGATATGGCATCGATAAG
* * * * *
47636771 AGATTTCCTGTAAGACCATAGCTGGGCTATTGGCATCGATACG
1 AGATTACGTGTAAGACCATAGTTGGGATA-TGGCATCGATAAG
* *
47636814 AGATTACATGTAAGACCATA-TCTAGGATATGGCAT
1 AGATTACGTGTAAGACCATAGT-TGGGATATGGCAT
47636849 TGGTATTGTA
Statistics
Matches: 100, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
42 65 0.65
43 35 0.35
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (42 bp):
AGATTACGTGTAAGACCATAGTTGGGATATGGCATCGATAAG
Found at i:47643699 original size:18 final size:19
Alignment explanation
Indices: 47643664--47643701 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
47643654 AAACTATTCA
47643664 AATAACCTATGGCAAATCC
1 AATAACCTATGGCAAATCC
*
47643683 AATAACCTAT-TCAAATCC
1 AATAACCTATGGCAAATCC
47643701 A
1 A
47643702 TACCAAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.45, C:0.26, G:0.05, T:0.24
Consensus pattern (19 bp):
AATAACCTATGGCAAATCC
Found at i:47651440 original size:64 final size:66
Alignment explanation
Indices: 47651359--47651510 Score: 175
Period size: 67 Copynumber: 2.3 Consensus size: 66
47651349 AGACATTATG
* * *
47651359 ATGTAGCTAGGTCGCATGGGTGATAC-GATG-TGTACACCATGTAGACAAGAGAGCTACGGGATA
1 ATGTAGCTAGGTCGCATGGGTGATACAGATGAAGGACACCATGTAGACAAGAGAGCTACGAGATA
*
47651422 T
66 A
* * * * *
47651423 ATGTAGCTAGGTCGCATGCGTGGCTCCAGGTGAAGGACACCGTGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACAGATGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
47651488 AA
65 AA
* *
47651490 AT-TGGCTAGGTCACATGGGTG
1 ATGTAGCTAGGTCGCATGGGTG
47651511 GTACTGAGTG
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
64 20 0.27
65 4 0.05
66 18 0.25
67 31 0.42
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.22
Consensus pattern (66 bp):
ATGTAGCTAGGTCGCATGGGTGATACAGATGAAGGACACCATGTAGACAAGAGAGCTACGAGATA
A
Found at i:47655838 original size:42 final size:44
Alignment explanation
Indices: 47655755--47655894 Score: 142
Period size: 42 Copynumber: 3.2 Consensus size: 44
47655745 TCTCAGACGT
* * * * *
47655755 GGTCTTACATGTAATTCAG-TATCGATACCACTGTCCCAGACAG
1 GGTCTTACACGTAAATCAGATATCGATGCCAATGTCCCAGACAC
*
47655798 GGTCTTACACG-AAATCAGATA-CGATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAAATCAGATATCGATGCCAATGTCCCAGACAC
* * * * ** *
47655840 GGTCTTACATGTAAATCTGAAATCGAGGCCCGTGTCCTAGACAC
1 GGTCTTACACGTAAATCAGATATCGATGCCAATGTCCCAGACAC
47655884 GGTCTTACACG
1 GGTCTTACACG
47655895 ATATTTCAGA
Statistics
Matches: 80, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
42 34 0.43
43 20 0.25
44 26 0.32
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.25
Consensus pattern (44 bp):
GGTCTTACACGTAAATCAGATATCGATGCCAATGTCCCAGACAC
Found at i:47661831 original size:47 final size:47
Alignment explanation
Indices: 47661673--47662242 Score: 928
Period size: 47 Copynumber: 12.1 Consensus size: 47
47661663 GAAATGATAG
47661673 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
47661722 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
47661767 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
47661814 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47661861 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
47661910 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
47661957 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
47662004 TAAGGCCTAATCGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
47662051 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47662098 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47662145 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * *
47662192 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47662239 TAAG
1 TAAG
47662243 TCCCGAAGGT
Statistics
Matches: 493, Mismatches: 24, Indels: 10
0.94 0.05 0.02
Matches are distributed among these distances:
45 44 0.09
47 366 0.74
49 83 0.17
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:47662417 original size:37 final size:37
Alignment explanation
Indices: 47662361--47662439 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
47662351 CCGAGCTCTA
* *
47662361 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
47662398 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
47662435 AAGAC
1 AAGAC
47662440 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:47678337 original size:43 final size:43
Alignment explanation
Indices: 47678276--47678361 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
47678266 CACAAGAATG
*
47678276 GTTGTACACATTTCAGCTAACGGAGCTTTTCTTTCAAATTCAT
1 GTTGTACACATTTCAGCTAACGAAGCTTTTCTTTCAAATTCAT
47678319 GTTGTACACATTTCAGCTAACGAAGCTTTTCTTTCAAATTCAT
1 GTTGTACACATTTCAGCTAACGAAGCTTTTCTTTCAAATTCAT
47678362 ACAATGAGGC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.40
Consensus pattern (43 bp):
GTTGTACACATTTCAGCTAACGAAGCTTTTCTTTCAAATTCAT
Found at i:47686427 original size:40 final size:40
Alignment explanation
Indices: 47686383--47686550 Score: 241
Period size: 40 Copynumber: 4.2 Consensus size: 40
47686373 AGTGGCTAAT
* *
47686383 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
47686423 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
47686463 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * * **
47686502 ACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
47686542 TCC-GGCTAA
1 TCCGGGCTAA
47686551 ACTCCGAAGG
Statistics
Matches: 117, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 43 0.37
40 74 0.63
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:47686560 original size:39 final size:40
Alignment explanation
Indices: 47686344--47686550 Score: 226
Period size: 40 Copynumber: 5.2 Consensus size: 40
47686334 CGGATGATAA
* * * * *
47686344 CCGGGCTAAGTCCTG-AGAGTATTTGAGCTAGTGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGTGACTATA-T
*
47686384 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCT-ACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACTATAT
* *
47686424 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
* * *
47686463 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
* * *
47686503 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
47686543 CC-GGCTAA
1 CCGGGCTAA
47686551 ACTCCGAAGG
Statistics
Matches: 147, Mismatches: 15, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
39 44 0.30
40 99 0.67
41 4 0.03
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
Found at i:47686560 original size:79 final size:80
Alignment explanation
Indices: 47686340--47686550 Score: 277
Period size: 79 Copynumber: 2.7 Consensus size: 80
47686330 TGTTCGGATG
* *
47686340 ATAACCGGGCTAAGTCCTG-AGAGTATTTGAGCTAGTGGCTA-ATTCCGGGCTAAGTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGAGCTAGTGGCTATA-TCCGGGCTAAGTCCCGAAGG
*
47686403 CATTCGTGCGAGCTACT
64 CATTCGTGCAAGCTACT
* * * ***
47686420 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGGCTAAGTCCCGAAGGCA
* *
47686484 TTTGTGCAAGTTACT
66 TTCGTGCAAGCTACT
47686499 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGGCTAA
47686551 ACTCCGAAGG
Statistics
Matches: 111, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
79 76 0.68
80 32 0.29
81 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGGCTAAGTCCCGAAGGCA
TTCGTGCAAGCTACT
Done.