Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 171 of 228
Found at i:51409315 original size:126 final size:126
Alignment explanation
Indices: 51409087--51409375 Score: 443
Period size: 126 Copynumber: 2.3 Consensus size: 126
51409077 TAATTTAAAA
* * * *
51409087 AAGCTCCCACGTGGACACTTTTTTGCTACAGTAGTTATTGAAAAAATATTTTTGAGAAGACGTTT
1 AAGCTCCCACGTGGACACTCTTTTGCTACAGTAGTTCTTGAAAAAATAATTTCGAGAAGACGTTT
* * **
51409152 CTGAGGAAATAGTGGCAAAAACGCTTTAAGTAAGATGCATTGTCAGCAAAAGTGCTGAAAG
66 CTGAGCAAATAGTGGCAAAAACGCTTTAAGCAAGATGCATTGTCAGCAAAAGCACTGAAAG
*
51409213 AAGCTCCTACGTGGACACTCTTTTGCTACAGTAGTTCTTGAAAAAATAATTTCGAGAAGACGTTT
1 AAGCTCCCACGTGGACACTCTTTTGCTACAGTAGTTCTTGAAAAAATAATTTCGAGAAGACGTTT
* * * * *
51409278 CTGAGCAAATAGTGTCAAAAATGCTTTAAGCAGGATGCTTTGTTAGCAAAAGCACTGAAAG
66 CTGAGCAAATAGTGGCAAAAACGCTTTAAGCAAGATGCATTGTCAGCAAAAGCACTGAAAG
*
51409339 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTC
1 AAGCTCCCACGTGGACACTCTTTTGCTACAGTAGTTC
51409376 CTATTTGGCC
Statistics
Matches: 147, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
126 147 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (126 bp):
AAGCTCCCACGTGGACACTCTTTTGCTACAGTAGTTCTTGAAAAAATAATTTCGAGAAGACGTTT
CTGAGCAAATAGTGGCAAAAACGCTTTAAGCAAGATGCATTGTCAGCAAAAGCACTGAAAG
Found at i:51410123 original size:34 final size:34
Alignment explanation
Indices: 51410039--51410141 Score: 128
Period size: 34 Copynumber: 3.1 Consensus size: 34
51410029 TTGCTTTATT
51410039 TAAAAGAATTTCTATTTTATTA-A--AAAT-ATA
1 TAAAAGAATTTCTATTTTATTACATGAAATAATA
* *
51410069 -AAATTA-AATTTATATATTATTACATGAAATAATA
1 TAAA--AGAATTTCTATTTTATTACATGAAATAATA
51410103 TAAAAGAATTTCTATTTTATTACATGAAATAATA
1 TAAAAGAATTTCTATTTTATTACATGAAATAATA
51410137 TAAAA
1 TAAAA
51410142 ATATTCAAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
29 3 0.05
30 14 0.23
31 2 0.03
33 5 0.08
34 34 0.56
35 3 0.05
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (34 bp):
TAAAAGAATTTCTATTTTATTACATGAAATAATA
Found at i:51410574 original size:18 final size:18
Alignment explanation
Indices: 51410548--51410590 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
51410538 GACTAGAAAA
* * *
51410548 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
51410566 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
51410584 AGGATAC
1 AGGATAC
51410591 GTACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:51412403 original size:11 final size:11
Alignment explanation
Indices: 51412389--51412461 Score: 85
Period size: 11 Copynumber: 6.6 Consensus size: 11
51412379 GAGAGCTTTA
51412389 AGAGAAATTTG
1 AGAGAAATTTG
*
51412400 AGAGGAATTTG
1 AGAGAAATTTG
*
51412411 AGAGAAATATG
1 AGAGAAATTTG
*
51412422 AGAGAATATTAG
1 AGAGAA-ATTTG
*
51412434 AGAGAAATATG
1 AGAGAAATTTG
51412445 AGAG-AATTTG
1 AGAGAAATTTG
*
51412455 AAAGAAA
1 AGAGAAA
51412462 GGATTTAAGT
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
10 8 0.16
11 34 0.67
12 9 0.18
ACGTcount: A:0.51, C:0.00, G:0.27, T:0.22
Consensus pattern (11 bp):
AGAGAAATTTG
Found at i:51412460 original size:21 final size:21
Alignment explanation
Indices: 51412389--51412461 Score: 101
Period size: 23 Copynumber: 3.3 Consensus size: 21
51412379 GAGAGCTTTA
*
51412389 AGAGAAATTTGAGAGGAATTTG
1 AGAGAAATATGAGA-GAATTTG
51412411 AGAGAAATATGAGAGAATATTAG
1 AGAGAAATATGAGAGAAT-TT-G
51412434 AGAGAAATATGAGAGAATTTG
1 AGAGAAATATGAGAGAATTTG
*
51412455 AAAGAAA
1 AGAGAAA
51412462 GGATTTAAGT
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.23
22 17 0.36
23 19 0.40
ACGTcount: A:0.51, C:0.00, G:0.27, T:0.22
Consensus pattern (21 bp):
AGAGAAATATGAGAGAATTTG
Found at i:51415622 original size:41 final size:41
Alignment explanation
Indices: 51415577--51415724 Score: 260
Period size: 41 Copynumber: 3.6 Consensus size: 41
51415567 ACTGGCACTT
* *
51415577 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGACGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
51415618 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
* *
51415659 AGCCTGCTAGATTTAAAGTCTGAAATGTTTCACCGGCGACA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
51415700 AGCCTGCTAGACTTAAAGTCTGAAA
1 AGCCTGCTAGACTTAAAGTCTGAAA
51415725 CATATCACTG
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 102 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
Found at i:51415743 original size:41 final size:41
Alignment explanation
Indices: 51415577--51415750 Score: 242
Period size: 41 Copynumber: 4.2 Consensus size: 41
51415567 ACTGGCACTT
* * *
51415577 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGACGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
*
51415618 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
*
51415659 AGCCTGCTAGATTTAAAGTCTGAAATGTTTCACCGGCGA-CA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGC-ATCA
** * * *
51415700 AGCCTGCTAGACTTAAAGTCTGAAACATATCACTGGTATCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
51415741 AGCCTGCTAG
1 AGCCTGCTAG
51415751 GCACCGAGCC
Statistics
Matches: 121, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
40 1 0.01
41 120 0.99
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
Found at i:51419162 original size:20 final size:18
Alignment explanation
Indices: 51419133--51419175 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
51419123 TTTTCTCGAT
*
51419133 TCTTTTGTTCTCCTTTCTC
1 TCTTTCGTTCTCC-TTCTC
*
51419152 ATCTTTCGTTCTTCTTCTC
1 -TCTTTCGTTCTCCTTCTC
51419171 TCTTT
1 TCTTT
51419176 AGCAAACCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 5 0.24
20 11 0.52
ACGTcount: A:0.02, C:0.30, G:0.05, T:0.63
Consensus pattern (18 bp):
TCTTTCGTTCTCCTTCTC
Found at i:51438862 original size:3 final size:3
Alignment explanation
Indices: 51438854--51438879 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
51438844 ATTTGTCAAC
51438854 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
51438880 GGGGAATGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:51444226 original size:22 final size:22
Alignment explanation
Indices: 51444196--51444238 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
51444186 ACACCAAAAC
*
51444196 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
51444218 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
51444239 AGCGCCACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:51444422 original size:43 final size:42
Alignment explanation
Indices: 51444375--51444555 Score: 143
Period size: 43 Copynumber: 4.3 Consensus size: 42
51444365 CTTTTCCCTA
* * *
51444375 AAACGCTGCAAAAGACCCTGATCTATAGCGGCTCTTCGACCAC
1 AAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTC-ACCAC
* * * * *
51444418 AAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTCCCCAC
1 AAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTCACCAC
* * * * *
51444460 AAACACCGCTAAAGACCATGATCTTTAGGGGCG-TT--CCGC
1 AAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTCACCAC
* * * * * *
51444499 AAATGCCGCGAAAGACCCTTATCTTTAGCGGCGCTTTTACCAA
1 AAACGCCGCTAAAGACCCTGATCTATAGCGGCGC-TTCACCAC
*
51444542 AAACGCCACTAAAG
1 AAACGCCGCTAAAG
51444556 GCCAACACCT
Statistics
Matches: 108, Mismatches: 26, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
39 30 0.28
41 4 0.04
42 31 0.29
43 43 0.40
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (42 bp):
AAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTCACCAC
Found at i:51444472 original size:42 final size:41
Alignment explanation
Indices: 51444353--51444534 Score: 138
Period size: 43 Copynumber: 4.4 Consensus size: 41
51444343 AAGATTAGGG
* * * *
51444353 TCTTTAGCGACGCTTTTCCCTA-AAACGCTGCAAAAGACCCTGA
1 TCTTTAGCGGCGC--TTCCC-ACAAACGCCGCTAAAGAACCTGA
* * * *
51444396 TCTATAGCGGCTCTTCGACCACAAACGCCACTAAAGAACCTAA
1 TCTTTAGCGGCGCTTC--CCACAAACGCCGCTAAAGAACCTGA
*
51444439 TCTTTAGCGGCGCTTCCCCACAAACACCGCTAAAG-ACCATGA
1 TCTTTAGCGGCGCTT-CCCACAAACGCCGCTAAAGAACC-TGA
* * * * * *
51444481 TCTTTAGGGGCG-TT-CCGCAAATGCCGCGAAAGACCCTTA
1 TCTTTAGCGGCGCTTCCCACAAACGCCGCTAAAGAACCTGA
51444520 TCTTTAGCGGCGCTT
1 TCTTTAGCGGCGCTT
51444535 TTACCAAAAA
Statistics
Matches: 111, Mismatches: 21, Indels: 17
0.74 0.14 0.11
Matches are distributed among these distances:
39 27 0.24
40 4 0.04
41 8 0.07
42 30 0.27
43 41 0.37
44 1 0.01
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (41 bp):
TCTTTAGCGGCGCTTCCCACAAACGCCGCTAAAGAACCTGA
Found at i:51444933 original size:21 final size:21
Alignment explanation
Indices: 51444907--51445019 Score: 109
Period size: 21 Copynumber: 5.4 Consensus size: 21
51444897 TTTGACGCTG
51444907 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* **
51444928 CTCTGCTTTCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
51444949 CTCTGCTTCCTTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * * *
51444970 CTGTACTTCTCTCACTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
51444991 CTCTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
51445012 ATCTGCTT
1 CTCTGCTT
51445020 TAAGCTACTG
Statistics
Matches: 74, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 74 1.00
ACGTcount: A:0.05, C:0.42, G:0.17, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:51445080 original size:66 final size:66
Alignment explanation
Indices: 51444990--51445156 Score: 212
Period size: 66 Copynumber: 2.5 Consensus size: 66
51444980 CTCACTGCCG
* * *
51444990 CCTCTGCTTCTCTTGCTGCCGCATCTGCTTTAAGCTACT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAG-TACTAGCTGGAGTTCTTCATATCTTT-GTT
51445053 GAA
64 GAA
** *
51445056 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTACTAGCTGGAGTTCTTCATATCTTTGTTGA
51445121 A
66 A
* * * *
51445122 CCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGT
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGT
51445157 TGTGTAATTT
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
65 2 0.02
66 83 0.93
67 4 0.04
ACGTcount: A:0.14, C:0.28, G:0.18, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTACTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:51450474 original size:9 final size:9
Alignment explanation
Indices: 51450457--51451141 Score: 159
Period size: 9 Copynumber: 77.8 Consensus size: 9
51450447 TAAGTATAAT
*
51450457 TAAGCTATG
1 TAAGTTATG
51450466 TAAGTTATG
1 TAAGTTATG
51450475 T-A-TTATG
1 TAAGTTATG
51450482 TAAGTTAT-
1 TAAGTTATG
*
51450490 TTA-TTATG
1 TAAGTTATG
* *
51450498 AAAATTATG
1 TAAGTTATG
*
51450507 TAAGTTGTG
1 TAAGTTATG
51450516 T-A-TTATG
1 TAAGTTATG
*
51450523 -AA--AAT-
1 TAAGTTATG
* *
51450528 TATGCTATG
1 TAAGTTATG
51450537 TAAGTTATG
1 TAAGTTATG
* *
51450546 TAAGTCATA
1 TAAGTTATG
51450555 TAAGTTATG
1 TAAGTTATG
51450564 T-A-TTATG
1 TAAGTTATG
51450571 TAAGTTATG
1 TAAGTTATG
51450580 TAAGTTAT-
1 TAAGTTATG
*
51450588 TTA-TTATG
1 TAAGTTATG
* * *
51450596 AAAATTAAG
1 TAAGTTATG
51450605 TAAGTTATG
1 TAAGTTATG
*
51450614 TAATTTATG
1 TAAGTTATG
*
51450623 -AA-TAAT-
1 TAAGTTATG
***
51450629 TAAAAAAATG
1 T-AAGTTATG
*
51450639 TAAGTTGTG
1 TAAGTTATG
51450648 TAAG-T-TG
1 TAAGTTATG
51450655 TAAGTTATG
1 TAAGTTATG
51450664 TAAGTTATG
1 TAAGTTATG
*
51450673 TATA-ATAT-
1 TA-AGTTATG
51450681 TAA-TTAAT-
1 TAAGTT-ATG
51450689 TAAGTTATG
1 TAAGTTATG
*
51450698 TAATTTATG
1 TAAGTTATG
*
51450707 TATTGCATTAATG
1 TA-AG--TT-ATG
51450720 TAAGTTATG
1 TAAGTTATG
*
51450729 TAATTTATG
1 TAAGTTATG
*
51450738 -AA-TAAT-
1 TAAGTTATG
*** *
51450744 TAAAAAAAAG
1 T-AAGTTATG
51450754 TAAGTTATG
1 TAAGTTATG
51450763 TAAGTTATG
1 TAAGTTATG
*
51450772 TATA-ATAT-
1 TA-AGTTATG
51450780 TAA-TTAAT-
1 TAAGTT-ATG
51450788 TAAGTTATG
1 TAAGTTATG
*
51450797 TAATTTATG
1 TAAGTTATG
51450806 TATTCCA-TTAATG
1 TA----AGTT-ATG
51450819 TAAGTTATG
1 TAAGTTATG
51450828 TAAGTTATG
1 TAAGTTATG
*
51450837 TATA-ATAT-
1 TA-AGTTATG
51450845 TAA-TTAAT-
1 TAAGTT-ATG
*
51450853 TAAGTCATG
1 TAAGTTATG
*
51450862 TAATTTATG
1 TAAGTTATG
*
51450871 TATAATATTAATG
1 --TAA-GTT-ATG
*
51450884 CAAGTTATG
1 TAAGTTATG
*
51450893 TAATTTATG
1 TAAGTTATG
*
51450902 TATA-ATAT-
1 TA-AGTTATG
51450910 TAA-TTAAT-
1 TAAGTT-ATG
51450918 TAAGTTATG
1 TAAGTTATG
*
51450927 TAATTTATG
1 TAAGTTATG
*
51450936 TATA-ATAT-
1 TA-AGTTATG
51450944 TAA-TTAAT-
1 TAAGTT-ATG
51450952 TAAGTTATG
1 TAAGTTATG
*
51450961 TAATTTATG
1 TAAGTTATG
*
51450970 TATAATATTAATG
1 --TAA-GTT-ATG
51450983 TAAGTTATG
1 TAAGTTATG
**
51450992 TAA-TTCCGG
1 TAAGTT-ATG
51451001 T-A-TT-T-
1 TAAGTTATG
51451006 TAA-TTAAT-
1 TAAGTT-ATG
51451014 TAAGTTATG
1 TAAGTTATG
*
51451023 TAATTTATG
1 TAAGTTATG
*
51451032 TATAATATTAATG
1 --TAA-GTT-ATG
51451045 TAAGTTATG
1 TAAGTTATG
*
51451054 TAATTTATG
1 TAAGTTATG
*
51451063 TTTAATATTAATG
1 --TAA-GTT-ATG
51451076 TAAGTTATG
1 TAAGTTATG
51451085 TAAG-T-TG
1 TAAGTTATG
51451092 TAAGTTATG
1 TAAGTTATG
*
51451101 TAAGTTATA
1 TAAGTTATG
*
51451110 TATA-ATAT-
1 TA-AGTTATG
51451118 TAA-TTAAT-
1 TAAGTT-ATG
51451126 TAAGTTATG
1 TAAGTTATG
51451135 TAAGTTA
1 TAAGTTA
51451142 ACTATTTTAA
Statistics
Matches: 517, Mismatches: 78, Indels: 162
0.68 0.10 0.21
Matches are distributed among these distances:
5 1 0.00
6 6 0.01
7 55 0.11
8 90 0.17
9 286 0.55
10 20 0.04
11 23 0.04
12 13 0.03
13 23 0.04
ACGTcount: A:0.39, C:0.01, G:0.14, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:51450483 original size:16 final size:16
Alignment explanation
Indices: 51450462--51450581 Score: 96
Period size: 16 Copynumber: 7.9 Consensus size: 16
51450452 ATAATTAAGC
51450462 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
51450478 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
51450494 TATG-AA---A---AT
1 TATGTAAGTTATGTAT
*
51450503 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * *
51450519 TATGAAAATTATG--C
1 TATGTAAGTTATGTAT
51450533 TATGTAAGTTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
51450551 CATATAAGTTATGTAT
1 TATGTAAGTTATGTAT
51450567 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
51450582 AGTTATTTAT
Statistics
Matches: 80, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
9 6 0.08
10 2 0.03
12 1 0.01
14 11 0.14
15 2 0.03
16 45 0.56
17 1 0.01
18 12 0.15
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:51450504 original size:25 final size:25
Alignment explanation
Indices: 51450476--51450630 Score: 129
Period size: 25 Copynumber: 6.2 Consensus size: 25
51450466 TAAGTTATGT
51450476 ATTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* *
51450501 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* *
51450526 ATTATGCTATG-TA---AGTTATGTAA
1 ATTATG-TAAGTTATTTA-TTATGAAA
* * * * *
51450549 GTCATATAAGTTATGTATTATGTAA
1 ATTATGTAAGTTATTTATTATGAAA
*
51450574 GTTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* *
51450599 ATTAAGTAAGTTATGTAATTTATGAATA
1 ATTATGTAAGTTAT-TTA-TTATGAA-A
51450627 ATTA
1 ATTA
51450631 AAAAAATGTA
Statistics
Matches: 105, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
22 4 0.04
23 12 0.11
25 71 0.68
26 6 0.06
27 7 0.07
28 5 0.05
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATTTATTATGAAA
Found at i:51450608 original size:34 final size:34
Alignment explanation
Indices: 51450502--51450621 Score: 100
Period size: 34 Copynumber: 3.4 Consensus size: 34
51450492 ATTATGAAAA
* *
51450502 TTATGTAAGTTGTGTATTATGAAAATTATGCTATGTAAG
1 TTATGTAAGTTATTTATTATGAAAATTA----A-GTAAG
* * * *
51450541 TTATGTAAGTCATATAAGTTATG--TATTATGTAAG
1 TTATGTAAGTTAT-TTA-TTATGAAAATTAAGTAAG
51450575 TTATGTAAGTTATTTATTATGAAAATTAAGTAAG
1 TTATGTAAGTTATTTATTATGAAAATTAAGTAAG
*
51450609 TTATGTAATTTAT
1 TTATGTAAGTTAT
51450622 GAATAATTAA
Statistics
Matches: 66, Mismatches: 11, Indels: 13
0.73 0.12 0.14
Matches are distributed among these distances:
32 5 0.08
33 2 0.03
34 38 0.58
39 15 0.23
40 1 0.02
41 5 0.08
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.46
Consensus pattern (34 bp):
TTATGTAAGTTATTTATTATGAAAATTAAGTAAG
Found at i:51450658 original size:16 final size:16
Alignment explanation
Indices: 51450637--51450669 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
51450627 ATTAAAAAAA
*
51450637 TGTAAGTTGTGTAAGT
1 TGTAAGTTATGTAAGT
51450653 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
51450669 T
1 T
51450670 ATGTATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:51450727 original size:31 final size:31
Alignment explanation
Indices: 51450568--51451087 Score: 400
Period size: 34 Copynumber: 16.5 Consensus size: 31
51450558 GTTATGTATT
* *
51450568 ATGTAAGTTATGTAAGTTATTTATTATGAAAATTA
1 ATGTAAGTTATGTAATTTATGTA-T-T--AAATTA
**
51450603 A-GTAAGTTATGTAATTTATGAATAATTAAAAAA
1 ATGTAAGTTATGTAATTTATG--T-ATTAAATTA
* * *
51450636 ATGTAAGTTGTGTAA-GT-TG---TAAGTT-
1 ATGTAAGTTATGTAATTTATGTATTAAATTA
*
51450661 ATGTAAGTTATGT-A--TA-ATATT-AATTA
1 ATGTAAGTTATGTAATTTATGTATTAAATTA
**
51450687 AT-TAAGTTATGTAATTTATGTATTGCATTA
1 ATGTAAGTTATGTAATTTATGTATTAAATTA
**
51450717 ATGTAAGTTATGTAATTTATGAATAATTAAAAAA
1 ATGTAAGTTATGTAATTTATG--T-ATTAAATTA
* *
51450751 AAGTAAGTTATGTAAGTTATGTATAATATTAATTA
1 ATGTAAGTTATGTAATTTATGTAT--TA--AATTA
**
51450786 AT-TAAGTTATGTAATTTATGTATTCCATTA
1 ATGTAAGTTATGTAATTTATGTATTAAATTA
*
51450816 ATGTAAGTTATGTAAGTTATGTATAATATTAATTA
1 ATGTAAGTTATGTAATTTATGTAT--TA--AATTA
*
51450851 AT-TAAGTCATGTAATTTATGTA-TAATATTA
1 ATGTAAGTTATGTAATTTATGTATTAA-ATTA
*
51450881 ATGCAAGTTATGTAATTTATGTATAATATTAATTA
1 ATGTAAGTTATGTAATTTATGTAT--TA--AATTA
51450916 AT-TAAGTTATGTAATTTATGTATAATATTAATTA
1 ATGTAAGTTATGTAATTTATGTAT--TA--AATTA
51450950 AT-TAAGTTATGTAATTTATGTA-TAATATTA
1 ATGTAAGTTATGTAATTTATGTATTAA-ATTA
*** *
51450980 ATGTAAGTTATGTAATTCCGGTATTTTAATTA
1 ATGTAAGTTATGTAATTTATGTA-TTAAATTA
51451012 AT-TAAGTTATGTAATTTATGTA-TAATATTA
1 ATGTAAGTTATGTAATTTATGTATTAA-ATTA
51451042 ATGTAAGTTATGTAATTTATGT-TTAATATTA
1 ATGTAAGTTATGTAATTTATGTATTAA-ATTA
51451073 ATGTAAGTTATGTAA
1 ATGTAAGTTATGTAA
51451088 GTTGTAAGTT
Statistics
Matches: 402, Mismatches: 42, Indels: 86
0.76 0.08 0.16
Matches are distributed among these distances:
23 1 0.00
24 1 0.00
25 25 0.06
26 7 0.02
28 2 0.00
29 8 0.02
30 30 0.07
31 138 0.34
32 10 0.02
33 12 0.03
34 146 0.36
35 18 0.04
36 3 0.01
37 1 0.00
ACGTcount: A:0.40, C:0.01, G:0.13, T:0.46
Consensus pattern (31 bp):
ATGTAAGTTATGTAATTTATGTATTAAATTA
Found at i:51450727 original size:65 final size:68
Alignment explanation
Indices: 51450653--51451074 Score: 449
Period size: 65 Copynumber: 6.5 Consensus size: 68
51450643 TTGTGTAAGT
* **
51450653 TGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATG-T-AT-TGCAT
1 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGATAATATTAAT
51450715 TAA
66 TAA
* * ** * *
51450718 TGTAAGTTATGTAATTTATGAATAAT-TAAAAAAAAGTAAGTTATGTAAGTTATGTATAATATTA
1 TGTAAGTTATGTAATTTATGTATAATAT-TAATTAATTAAGTTATGTAATTTATG-ATAATATTA
51450782 ATTAA
64 ATTAA
** *
51450787 T-TAAGTTATGTAATTTATG--T-AT-TCCATTAATGTAAGTTATGTAAGTTATGTATAATATTA
1 TGTAAGTTATGTAATTTATGTATAATATTAATTAAT-TAAGTTATGTAATTTATG-ATAATATTA
51450847 ATTAA
64 ATTAA
* **
51450852 T-TAAGTCATGTAATTTATGTATAATATTAA-T--GCAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATG-ATAATATTAA
51450913 TTAA
65 TTAA
*
51450917 T-TAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATG-T-ATAAT-AT
1 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGATAATATTAAT
51450978 TAA
66 TAA
*** *
51450981 TGTAAGTTATGTAATTCCGGTAT--T-TTAATTAATTAAGTTATGTAATTTATG-T-ATAAT-AT
1 TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGATAATATTAAT
51451040 TAA
66 TAA
*
51451043 TGTAAGTTATGTAATTTATGTTTAATATTAAT
1 TGTAAGTTATGTAATTTATGTATAATATTAAT
51451075 GTAAGTTATG
Statistics
Matches: 309, Mismatches: 31, Indels: 34
0.83 0.08 0.09
Matches are distributed among these distances:
62 57 0.18
63 1 0.00
64 11 0.04
65 186 0.60
66 3 0.01
67 2 0.01
68 40 0.13
69 9 0.03
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (68 bp):
TGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGATAATATTAAT
TAA
Found at i:51450770 original size:99 final size:96
Alignment explanation
Indices: 51450654--51451087 Score: 513
Period size: 99 Copynumber: 4.5 Consensus size: 96
51450644 TGTGTAAGTT
* * **
51450654 GTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATTGCATTAAT
1 GTAAGTTATGTAATTTATGTATAATATTAATT--GTAAGTTATGTAATTTATGTATTTAATTAAT
* * *
51450719 GTAAGTTATGTAATTTATGAATAAT-TAAAAAAAA
64 -TAAGTTATGTAATTTATGTATAATAT-TAATAAA
* * **
51450753 GTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATTCCATTAAT
1 GTAAGTTATGTAATTTATGTATAATATTAATT--GTAAGTTATGTAATTTATGTATTTAATTAAT
* *
51450818 GTAAGTTATGTAAGTTATGTATAATATTAATTAA
64 -TAAGTTATGTAATTTATGTATAATATTAATAAA
* * *
51450852 TTAAGTCATGTAATTTATGTATAATATTAA-TGCAAGTTATGTAATTTATGTATAATATTAATTA
1 GTAAGTTATGTAATTTATGTATAATATTAATTGTAAGTTATGTAATTTATG--T-AT-TTAATTA
*
51450916 ATTAAGTTATGTAATTTATGTATAATATTAATTAA
62 ATTAAGTTATGTAATTTATGTATAATATTAATAAA
* ***
51450951 TTAAGTTATGTAATTTATGTATAATATTAA-TGTAAGTTATGTAATTCCGGTATTTTAATTAATT
1 GTAAGTTATGTAATTTATGTATAATATTAATTGTAAGTTATGTAATTTATGTA-TTTAATTAATT
51451015 AAGTTATGTAATTTATGTATAATATTAAT---
65 AAGTTATGTAATTTATGTATAATATTAATAAA
*
51451044 GTAAGTTATGTAATTTATGTTTAATATTAA-TGTAAGTTATGTAA
1 GTAAGTTATGTAATTTATGTATAATATTAATTGTAAGTTATGTAA
51451088 GTTGTAAGTT
Statistics
Matches: 308, Mismatches: 21, Indels: 18
0.89 0.06 0.05
Matches are distributed among these distances:
93 42 0.14
96 57 0.19
97 2 0.01
98 2 0.01
99 197 0.64
100 8 0.03
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (96 bp):
GTAAGTTATGTAATTTATGTATAATATTAATTGTAAGTTATGTAATTTATGTATTTAATTAATTA
AGTTATGTAATTTATGTATAATATTAATAAA
Found at i:51450847 original size:164 final size:164
Alignment explanation
Indices: 51450653--51451137 Score: 629
Period size: 164 Copynumber: 2.9 Consensus size: 164
51450643 TTGTGTAAGT
***
51450653 TGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATTGCATTAA
1 TGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
51450718 TGTAAGTTATGTAATTTATGAATAAT-TAAAAAAAAGTAAGTTATGTAAGTTATGTATAATATTA
66 TGTAAGTTATGTAATTTATGAATAATAT-AAAAAAAGTAAGTTATGTAAGTTATGTATAATATTA
**
51450782 ATTAATTAAGTTATGTAATTTATGTATTCCATTAA
130 ATTAATTAAGTTATGTAATTTATGTATAACATTAA
*
51450817 TGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTCATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
* * * ** * *
51450882 TGCAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
66 TGTAAGTTATGTAATTTATGAATAATATAAAAAAAGTAAGTTATGTAAGTTATGTATAATATTAA
*
51450947 TTAATTAAGTTATGTAATTTATGTATAATATTAA
131 TTAATTAAGTTATGTAATTTATGTATAACATTAA
**
51450981 TGTAAGTTATGTAA-TTCCGGTAT--T-TTAATTAATTAAGTTATGTAATTTATGTATAATATTA
1 TGTAAGTTATGTAAGTT-ATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
**
51451042 ATGTAAGTTATGTAATTTATGTTTAATATTAATGTAAGTTATGTAAGTTGTAAGTTATGTAAGTT
65 ATGTAAGTTATGTAATTTATGAATAATA-TAA---AA---A---AA---GTAAGTTATGTAAGTT
*
51451107 ATATATAATATTAATTAATTAAGTTATGTAA
117 ATGTATAATATTAATTAATTAAGTTATGTAA
51451138 GTTAACTATT
Statistics
Matches: 281, Mismatches: 25, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
161 62 0.22
162 3 0.01
163 2 0.01
164 166 0.59
165 2 0.01
171 2 0.01
174 44 0.16
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (164 bp):
TGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
TGTAAGTTATGTAATTTATGAATAATATAAAAAAAGTAAGTTATGTAAGTTATGTATAATATTAA
TTAATTAAGTTATGTAATTTATGTATAACATTAA
Found at i:51451095 original size:16 final size:16
Alignment explanation
Indices: 51451074--51451106 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
51451064 TTAATATTAA
51451074 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
51451090 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
51451106 T
1 T
51451107 ATATATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:51451226 original size:16 final size:16
Alignment explanation
Indices: 51451205--51451237 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
51451195 AACTCAATTA
*
51451205 TATCTTCGAACTTATT
1 TATCTTCAAACTTATT
51451221 TATCTTCAAACTTATT
1 TATCTTCAAACTTATT
51451237 T
1 T
51451238 CTACAAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.18, G:0.03, T:0.52
Consensus pattern (16 bp):
TATCTTCAAACTTATT
Found at i:51451390 original size:38 final size:38
Alignment explanation
Indices: 51451339--51451417 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
51451329 CAACAGAAGA
51451339 ATGAAAATTTACCTTCCACGCCAAAGAATAGACGACTT
1 ATGAAAATTTACCTTCCACGCCAAAGAATAGACGACTT
51451377 ATGAAAATTTACCTTCCACGCCAAAGAATAGACGACTT
1 ATGAAAATTTACCTTCCACGCCAAAGAATAGACGACTT
51451415 ATG
1 ATG
51451418 CAGCGAAAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.24
Consensus pattern (38 bp):
ATGAAAATTTACCTTCCACGCCAAAGAATAGACGACTT
Found at i:51452210 original size:33 final size:33
Alignment explanation
Indices: 51452173--51452235 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
51452163 GAAAAATAAT
**
51452173 AATTAAACTATACAACTAAAATATAACCAAAAA
1 AATTAAACTATACAAAAAAAATATAACCAAAAA
51452206 AATTAAACTATACAAAAAAAATATAACCAA
1 AATTAAACTATACAAAAAAAATATAACCAA
51452236 CTTAAAGATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.65, C:0.14, G:0.00, T:0.21
Consensus pattern (33 bp):
AATTAAACTATACAAAAAAAATATAACCAAAAA
Found at i:51452217 original size:20 final size:19
Alignment explanation
Indices: 51452189--51452227 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
51452179 ACTATACAAC
*
51452189 TAAAATATAACCAAAAAAAT
1 TAAAATAT-ACAAAAAAAAT
*
51452209 TAAACTATACAAAAAAAAT
1 TAAAATATACAAAAAAAAT
51452228 ATAACCAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (19 bp):
TAAAATATACAAAAAAAAT
Found at i:51452632 original size:38 final size:38
Alignment explanation
Indices: 51452588--51452677 Score: 155
Period size: 38 Copynumber: 2.4 Consensus size: 38
51452578 AATTTGTAAT
51452588 GATAAATGATAGGAAGTTGAAATTATTCAAACAAACCG
1 GATAAATGATAGGAAGTTGAAATTATTCAAACAAACCG
51452626 GATAAATGACT-GGAAGTTGAAATTATTCAAACAAACCG
1 GATAAATGA-TAGGAAGTTGAAATTATTCAAACAAACCG
*
51452664 GATAAATGACAGGA
1 GATAAATGATAGGA
51452678 TTATCTAAGT
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
38 48 0.98
39 1 0.02
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.22
Consensus pattern (38 bp):
GATAAATGATAGGAAGTTGAAATTATTCAAACAAACCG
Found at i:51453873 original size:11 final size:11
Alignment explanation
Indices: 51453857--51453887 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
51453847 AATTTTAGTT
51453857 TTTTTATTTCC
1 TTTTTATTTCC
51453868 TTTTTATTTCC
1 TTTTTATTTCC
51453879 TTTTTATTT
1 TTTTTATTT
51453888 TTTCTTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTATTTCC
Found at i:51454549 original size:7 final size:7
Alignment explanation
Indices: 51454539--51454602 Score: 53
Period size: 7 Copynumber: 9.4 Consensus size: 7
51454529 ACTAACTCTT
51454539 AACCCTA
1 AACCCTA
51454546 AACCCTA
1 AACCCTA
*
51454553 AACCCCA
1 AACCCTA
*
51454560 AACCCCA
1 AACCCTA
51454567 AACCCCT-
1 AA-CCCTA
*
51454574 ACCCCT-
1 AACCCTA
*
51454580 ACCCCT-
1 AACCCTA
*
51454586 ACCCCTA
1 AACCCTA
51454593 AACCCTA
1 AACCCTA
51454600 AAC
1 AAC
51454603 ATTATTTAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
6 16 0.31
7 32 0.63
8 3 0.06
ACGTcount: A:0.36, C:0.53, G:0.00, T:0.11
Consensus pattern (7 bp):
AACCCTA
Found at i:51454579 original size:6 final size:6
Alignment explanation
Indices: 51454568--51454592 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
51454558 CAAACCCCAA
51454568 ACCCCT ACCCCT ACCCCT ACCCCT A
1 ACCCCT ACCCCT ACCCCT ACCCCT A
51454593 AACCCTAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.64, G:0.00, T:0.16
Consensus pattern (6 bp):
ACCCCT
Found at i:51454682 original size:89 final size:89
Alignment explanation
Indices: 51454589--51454822 Score: 380
Period size: 89 Copynumber: 2.6 Consensus size: 89
51454579 TACCCCTACC
* *
51454589 CCTAAACCCTAAACATTATTTAATATATAAATTTAAAAACATTAATTAATCTAAATCCTAAACCC
1 CCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACATTAATTAATCTAAATCCTAAACCC
* *
51454654 TAACTTGACCCCAAATCACTAATA
66 TAACTCGACCCCAAATCACTAACA
* *
51454678 CCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCTTAAACCC
1 CCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACATTAATTAATCTAAATCCTAAACCC
* *
51454743 TAACTCGACCCCGAATCACTAACC
66 TAACTCGACCCCAAATCACTAACA
51454767 CCTAACCCCTAAACATTATTTAATATATAAATTAAAAAAC-TCTAATTAATCTAAAT
1 CCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACAT-TAATTAATCTAAAT
51454823 TAATCTTAAA
Statistics
Matches: 135, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
89 135 1.00
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.30
Consensus pattern (89 bp):
CCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACATTAATTAATCTAAATCCTAAACCC
TAACTCGACCCCAAATCACTAACA
Found at i:51455211 original size:113 final size:114
Alignment explanation
Indices: 51455033--51455244 Score: 266
Period size: 113 Copynumber: 1.9 Consensus size: 114
51455023 AGCGCCGCAA
* * * *
51455033 AATACCTTAACCAAAACGCAGCGTTTGATTTTGAGGTATATTAGTATTAGTGGCGTTTACAAAAA
1 AATACCTTAACCAAAACGCACCGTTTGATATTGAGGTAGATTAGTATTAGTGGCGCTTACAAAAA
* *
51455098 AACGCCCCTAAAGAATGGTAT-TAGCGGCGTTTTACAAAAAGCGCCACC
66 AACGCCCCAAAAGAATGGGATATAGCGGCGTTTTACAAAAAGCGCCACC
* * * * **
51455146 AATATCTTAACCAAAACGCACCGTTTGGTATTGAGTTGGATTAG-AGTTAGTGGCGCTTATTAAA
1 AATACCTTAACCAAAACGCACCGTTTGATATTGAGGTAGATTAGTA-TTAGTGGCGCTTACAAAA
* * *
51455210 AAACGCCGCAAAATATTGGGATATAGCGGCGTTTT
65 AAACGCCCCAAAAGAATGGGATATAGCGGCGTTTT
51455245 GAGAGAAACG
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
112 1 0.01
113 69 0.84
114 12 0.15
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.28
Consensus pattern (114 bp):
AATACCTTAACCAAAACGCACCGTTTGATATTGAGGTAGATTAGTATTAGTGGCGCTTACAAAAA
AACGCCCCAAAAGAATGGGATATAGCGGCGTTTTACAAAAAGCGCCACC
Found at i:51458676 original size:20 final size:20
Alignment explanation
Indices: 51458617--51458676 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
51458607 GTCTTTCTGC
*
51458617 GATTTCCCCTCATCCTTTCC
1 GATTTCCCCTCATCCTTTCT
51458637 GATTTCCCCTCATCCTTTCT
1 GATTTCCCCTCATCCTTTCT
*
51458657 GATTTCCCTTCATCCTTTCT
1 GATTTCCCCTCATCCTTTCT
51458677 TCATCTCTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.10, C:0.40, G:0.05, T:0.45
Consensus pattern (20 bp):
GATTTCCCCTCATCCTTTCT
Found at i:51459416 original size:31 final size:32
Alignment explanation
Indices: 51459378--51459462 Score: 120
Period size: 31 Copynumber: 2.7 Consensus size: 32
51459368 TGGATTTTAG
*
51459378 TTGGTTTTTGCAGCTAAGATGGTAC-CTTCTA
1 TTGGTTTTTGCTGCTAAGATGGTACACTTCTA
51459409 TTGGTTTTTGCTGCTAAGATGGTACAGCTTCTA
1 TTGGTTTTTGCTGCTAAGATGGTACA-CTTCTA
* *
51459442 TTGATTTCTGCTGCTAA-ATGG
1 TTGGTTTTTGCTGCTAAGATGG
51459463 GAAATAGCTG
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
31 24 0.49
32 4 0.08
33 21 0.43
ACGTcount: A:0.19, C:0.15, G:0.24, T:0.42
Consensus pattern (32 bp):
TTGGTTTTTGCTGCTAAGATGGTACACTTCTA
Found at i:51459454 original size:33 final size:31
Alignment explanation
Indices: 51459390--51459462 Score: 103
Period size: 33 Copynumber: 2.3 Consensus size: 31
51459380 GGTTTTTGCA
* *
51459390 GCTAAGATGGTACCTTCTATTGGTTTTTGCT
1 GCTAAGATGGTACCTTCTATTGATTTCTGCT
51459421 GCTAAGATGGTACAGCTTCTATTGATTTCTGCT
1 GCTAAGATGGTAC--CTTCTATTGATTTCTGCT
51459454 GCTAA-ATGG
1 GCTAAGATGG
51459463 GAAATAGCTG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
31 13 0.34
32 4 0.11
33 21 0.55
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.40
Consensus pattern (31 bp):
GCTAAGATGGTACCTTCTATTGATTTCTGCT
Found at i:51460567 original size:24 final size:22
Alignment explanation
Indices: 51460509--51460590 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 22
51460499 AATAATATTG
51460509 TATTAAATTAT-TATTAAATAT
1 TATTAAATTATATATTAAATAT
* *
51460530 TATTAATAATTATATTAGTAAA-GT
1 TATT-A-AATTATA-TATTAAATAT
*
51460554 TATTAAATTATATATT--ATTT
1 TATTAAATTATATATTAAATAT
*
51460574 TATTAAATTGTA-ATTAA
1 TATTAAATTATATATTAA
51460591 CAATAATTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
19 4 0.08
20 12 0.24
21 7 0.14
22 8 0.16
23 7 0.14
24 5 0.10
25 6 0.12
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (22 bp):
TATTAAATTATATATTAAATAT
Found at i:51460739 original size:9 final size:9
Alignment explanation
Indices: 51460705--51461150 Score: 233
Period size: 9 Copynumber: 50.9 Consensus size: 9
51460695 CACTTGTACA
*
51460705 TTACAAAAC
1 TTACATAAC
51460714 TTACATAAC
1 TTACATAAC
* *
51460723 CTAAATAAC
1 TTACATAAC
51460732 TTACATAAC
1 TTACATAAC
51460741 TTACATAA-
1 TTACATAAC
51460749 TATA-A-AAC
1 T-TACATAAC
*
51460757 TCACATAAC
1 TTACATAAC
* **
51460766 TTAAATCTC
1 TTACATAAC
*
51460775 TTACACAAC
1 TTACATAAC
51460784 TTACATAAC
1 TTACATAAC
*
51460793 CTACATAA-
1 TTACATAAC
51460801 -TACATTTAAC
1 TTACA--TAAC
51460811 TTACATAAC
1 TTACATAAC
51460820 TTACATAATAC
1 TTACAT-A-AC
*
51460831 ATA-ATAAC
1 TTACATAAC
51460839 TTAC--AAC
1 TTACATAAC
51460846 TTACATAA-
1 TTACATAAC
51460854 -TACATTTAAC
1 TTACA--TAAC
51460864 TTAC--AAC
1 TTACATAAC
51460871 TTACATAA-
1 TTACATAAC
51460879 -TACATTATAAC
1 TTAC---ATAAC
51460890 TTAC--AAC
1 TTACATAAC
51460897 TTACATAA-
1 TTACATAAC
51460905 -TACATTTAAC
1 TTACA--TAAC
**
51460915 TTAGGTAAC
1 TTACATAAC
*
51460924 TTAAATAAC
1 TTACATAAC
*
51460933 TTCCATAATAC
1 TTACAT-A-AC
*
51460944 ATA-ATAAC
1 TTACATAAC
51460952 TTAC--AAC
1 TTACATAAC
51460959 TTACATAA-
1 TTACATAAC
51460967 -TACATTTAAC
1 TTACA--TAAC
51460977 TTAC--AAC
1 TTACATAAC
51460984 TTACATAATAC
1 TTACAT-A-AC
*
51460995 ATA-ATAAC
1 TTACATAAC
51461003 TTACATAA-
1 TTACATAAC
51461011 -TACATTCAAC
1 TTACA-T-AAC
51461021 TTACATAAC
1 TTACATAAC
51461030 TTACATAAC
1 TTACATAAC
51461039 TTACATAATAC
1 TTACAT-A-AC
*
51461050 ATA-ATAAC
1 TTACATAAC
51461058 TTAC--AAC
1 TTACATAAC
51461065 TTACATAAC
1 TTACATAAC
* *
51461074 ATACATTAC
1 TTACATAAC
**
51461083 TTTGATAAC
1 TTACATAAC
51461092 TTACATAAC
1 TTACATAAC
*
51461101 TTACTTAA-
1 TTACATAAC
51461109 -TACATAAC
1 TTACATAAC
51461117 TTACATAAC
1 TTACATAAC
51461126 TT--ATACAC
1 TTACATA-AC
*
51461134 GTACATAAC
1 TTACATAAC
51461143 TTACATAA
1 TTACATAA
51461151 TTGACTTAAT
Statistics
Matches: 336, Mismatches: 43, Indels: 116
0.68 0.09 0.23
Matches are distributed among these distances:
7 77 0.23
8 24 0.07
9 181 0.54
10 20 0.06
11 31 0.09
12 3 0.01
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (9 bp):
TTACATAAC
Found at i:51460763 original size:43 final size:43
Alignment explanation
Indices: 51460709--51460791 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
51460699 TGTACATTAC
* *
51460709 AAAACTTACATAACCTAAATAACTTACATAACTTACATAATAT
1 AAAACTCACATAACCTAAATAACTTACACAACTTACATAATAT
* **
51460752 AAAACTCACATAACTTAAATCTCTTACACAACTTACATAA
1 AAAACTCACATAACCTAAATAACTTACACAACTTACATAA
51460792 CCTACATAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (43 bp):
AAAACTCACATAACCTAAATAACTTACACAACTTACATAATAT
Found at i:51460852 original size:62 final size:56
Alignment explanation
Indices: 51460817--51461115 Score: 249
Period size: 51 Copynumber: 5.3 Consensus size: 56
51460807 TAACTTACAT
51460817 AACTTACATAATACATAATAACTTACA-AC-T-TACATAATACATTTAACTTAC--
1 AACTTACATAATACATAATAACTTACATACATATACATAATACATTTAACTTACAT
*
51460868 AACTTACATAATACATTATAACTTACA-AC-T-TACATAATACATTTAACTTAGGTAACTTAAAT
1 AACTTACATAATACATAATAACTTACATACATATACATAATACATTTAAC-T---T-AC----AT
*
51460930 AACTTCCATAATACATAATAACTTACA-AC-T-TACATAATACATTTAACTTAC--
1 AACTTACATAATACATAATAACTTACATACATATACATAATACATTTAACTTACAT
51460981 AACTTACATAATACATAATAACTTACAT--A-ATACATTCAACTTACA--TAACTTACAT
1 AACTTACATAATACATAATAACTTACATACATATACA-T-AA--TACATTTAACTTACAT
*
51461036 AACTTACATAATACATAATAACTTACAACTTACATA-ACATACATTACTTTGATAACTTACAT
1 AACTTACATAATACATAATAACTTAC-A--TACATATACATA-A-TACATT--TAACTTACAT
*
51461098 AACTTACTTAATACATAA
1 AACTTACATAATACATAA
51461116 CTTACATAAC
Statistics
Matches: 211, Mismatches: 6, Indels: 51
0.79 0.02 0.19
Matches are distributed among these distances:
51 76 0.36
52 2 0.01
53 10 0.05
55 31 0.15
56 3 0.01
57 2 0.01
58 7 0.03
59 2 0.01
60 4 0.02
61 2 0.01
62 72 0.34
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (56 bp):
AACTTACATAATACATAATAACTTACATACATATACATAATACATTTAACTTACAT
Found at i:51460924 original size:113 final size:106
Alignment explanation
Indices: 51460807--51461072 Score: 424
Period size: 113 Copynumber: 2.4 Consensus size: 106
51460797 ATAATACATT
51460807 TAACTTACATAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAACT
1 TAACTTACATAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAACT
* **
51460872 TACATAATACATTATAACTTACAACTTACATAATACATTTAACTTAGG
66 TACATAATAC---ATAA--T--AACTTACATAATACATTCAACTTACA
* *
51460920 TAACTTAAATAACTTCCATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAACT
1 TAACTTACATAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAACT
51460985 TACATAATACATAATAACTTACATAATACATTCAACTTACA
66 TACATAATACATAATAACTTACATAATACATTCAACTTACA
51461026 TAACTTACATAACTTACATAATACATAATAACTTACAACTTACATAA
1 TAACTTACATAACTTACATAATACATAATAACTTACAACTTACATAA
51461073 CATACATTAC
Statistics
Matches: 146, Mismatches: 7, Indels: 7
0.91 0.04 0.04
Matches are distributed among these distances:
106 68 0.47
108 1 0.01
110 4 0.03
113 73 0.50
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.33
Consensus pattern (106 bp):
TAACTTACATAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAACT
TACATAATACATAATAACTTACATAATACATTCAACTTACA
Found at i:51461073 original size:44 final size:44
Alignment explanation
Indices: 51460807--51461128 Score: 216
Period size: 44 Copynumber: 7.4 Consensus size: 44
51460797 ATAATACATT
51460807 TAACTTACATAACTTACATAATACATAATAACTTACAACTTACA
1 TAACTTACATAACTTACATAATACATAATAACTTACAACTTACA
* *
51460851 TAATACATTTAACTTACAACTTACATAATACATTATAACTTACAACTTACA
1 T-A-AC--TT-AC--ATAACTTACATAATACATAATAACTTACAACTTACA
** * * *
51460902 TAA--TACATTTAACTTAGGT-A-ACTTAAATAACTTCCATA-ATACATAA
1 TAACTTACA--TAACTTACATAATACAT-AATAACTTACA-ACTTAC---A
*
51460948 TAACTTAC--AACTTACATAATACAT-TTAACTTACAACTTACA
1 TAACTTACATAACTTACATAATACATAATAACTTACAACTTACA
*
51460989 TAA--TACATAA-TAAC-T--TACATAAT-ACATT-CAACTTACA
1 TAACTTACATAACTTACATAATACATAATAAC-TTACAACTTACA
51461026 TAACTTACATAACTTACATAATACATAATAACTTACAACTTACA
1 TAACTTACATAACTTACATAATACATAATAACTTACAACTTACA
* * ** *
51461070 TAACATACATTACTTTGAT-A-ACTTACATAACTTACTTAA--TACA
1 TAACTTACATAACTTACATAATACATA-ATAACTTAC--AACTTACA
51461113 TAACTTACATAACTTA
1 TAACTTACATAACTTA
51461129 TACACGTACA
Statistics
Matches: 218, Mismatches: 26, Indels: 69
0.70 0.08 0.22
Matches are distributed among these distances:
37 19 0.09
38 3 0.01
39 11 0.05
40 6 0.03
41 7 0.03
42 8 0.04
43 51 0.23
44 55 0.25
45 5 0.02
46 9 0.04
48 5 0.02
49 3 0.01
50 1 0.00
51 35 0.16
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (44 bp):
TAACTTACATAACTTACATAATACATAATAACTTACAACTTACA
Found at i:51461150 original size:113 final size:108
Alignment explanation
Indices: 51460807--51461169 Score: 411
Period size: 113 Copynumber: 3.3 Consensus size: 108
51460797 ATAATACATT
51460807 TAACTTACATAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAACT
1 TAACTTACATAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAACT
* **
51460872 TACATAATACATTATAACTTACAACTTACATAATACATT-TA-ACTTAGG
66 TACATAATAC-TTAT-AC--ATAACTTACAT-A-AC-TTATACACTTACA
* *
51460920 TAACTTAAATAACTTCCATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAACT
1 TAACTTACATAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAACT
* *
51460985 TACATAATAC--ATA-ATAACTTACATAA-TACATTCAACTTACA
66 TACATAATACTTATACATAACTTACATAACT-TATAC-ACTTACA
*
51461026 TAACTTACATAACTTACATAATACATAATAACTTACAACTTACATAACATACA-TT-ACTTTGAT
1 TAACTTACATAACTTACATAATACATAATAACTTACAACTTACAT-A-ATACATTTAAC-TT-AC
*
51461089 AACTTACATAACTTACTTAATACATAACTTACATAACTTATACACGTACA
62 AACTTACATAA--TACTT-ATACATAACTTACATAACTTATACACTTACA
*
51461139 TAACTTACATAA-TTGACTTAATACATGAATA
1 TAACTTACATAACTT-ACATAATACAT-AATA
51461170 TATATCATAT
Statistics
Matches: 219, Mismatches: 14, Indels: 33
0.82 0.05 0.12
Matches are distributed among these distances:
102 1 0.00
104 2 0.01
105 1 0.00
106 60 0.27
107 5 0.02
108 17 0.08
109 1 0.00
110 5 0.02
112 2 0.01
113 104 0.47
114 20 0.09
115 1 0.00
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.34
Consensus pattern (108 bp):
TAACTTACATAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAACT
TACATAATACTTATACATAACTTACATAACTTATACACTTACA
Found at i:51467093 original size:42 final size:41
Alignment explanation
Indices: 51467042--51467289 Score: 361
Period size: 41 Copynumber: 6.0 Consensus size: 41
51467032 TTTTTGTATA
*
51467042 AAAGCGCCGCTAAAGAACATGGTCTTTAGAGGCATTTTTTTC
1 AAAGCGCCGCTAAAGAACATGGTCTTTAGCGGC-TTTTTTTC
*
51467084 AAAGCGCCGCTAAAGAACATGGTCTTTAGCGACGTTTTTTTTC
1 AAAGCGCCGCTAAAGAACATGGTCTTTAGCG--GCTTTTTTTC
* *
51467127 AAAGCGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTC
1 AAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCTTTTTTTC
* *
51467168 TAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCATTTTTTTC
1 AAAGCGCCGCTAAAGAACATGGTCTTTAGCGGC-TTTTTTTC
* *
51467210 AAAGCGCCGCAAAAGAACATGTTCTTTAGCGGCTTTTTTTC
1 AAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCTTTTTTTC
* * *
51467251 TAAGCGCCGCTAAAGAACATGGTCTTTAGCAGCGTTTTT
1 AAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCTTTTTT
51467290 GTTTGTAAAC
Statistics
Matches: 187, Mismatches: 16, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
41 80 0.43
42 68 0.36
43 38 0.20
44 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (41 bp):
AAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCTTTTTTTC
Found at i:51467227 original size:83 final size:83
Alignment explanation
Indices: 51467042--51467289 Score: 388
Period size: 83 Copynumber: 3.0 Consensus size: 83
51467032 TTTTTGTATA
*
51467042 AAAGCGCCGCTAAAGAACATGGTCTTTAGAGGCATTTTTTTCAAAGCGCCGCTAAAGAACATGGT
1 AAAGCGCCGCTAAAGAACATGGTCTTTAGAGGC-TTTTTTTCTAAGCGCCGCTAAAGAACATGGT
* *
51467107 CTTTAGCGACGTTTTTTTTC
65 CTTTAGCGGC-ATTTTTTTC
* *
51467127 AAAGCGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGTTC
1 AAAGCGCCGCTAAAGAACATGGTCTTTAGAGGCTTTTTTTCTAAGCGCCGCTAAAGAACATGGTC
51467192 TTTAGCGGCATTTTTTTC
66 TTTAGCGGCATTTTTTTC
* * *
51467210 AAAGCGCCGCAAAAGAACATGTTCTTTAGCGGCTTTTTTTCTAAGCGCCGCTAAAGAACATGGTC
1 AAAGCGCCGCTAAAGAACATGGTCTTTAGAGGCTTTTTTTCTAAGCGCCGCTAAAGAACATGGTC
* *
51467275 TTTAGCAGCGTTTTT
66 TTTAGCGGCATTTTT
51467290 GTTTGTAAAC
Statistics
Matches: 151, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
83 81 0.54
84 37 0.25
85 33 0.22
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (83 bp):
AAAGCGCCGCTAAAGAACATGGTCTTTAGAGGCTTTTTTTCTAAGCGCCGCTAAAGAACATGGTC
TTTAGCGGCATTTTTTTC
Found at i:51468042 original size:41 final size:41
Alignment explanation
Indices: 51467997--51468702 Score: 619
Period size: 41 Copynumber: 17.5 Consensus size: 41
51467987 GCGCTTCCTC
51467997 AAAAACGCCGCTAAAGGTA-C-GAACATTAGCGGCGCTTATTA
1 AAAAACGCCGCTAAA-G-ACCTGAACATTAGCGGCGCTTATTA
* *
51468038 AAAAACGCCGCTAAAGAGCTGAGCATTAGCGGCGCTTATTA
1 AAAAACGCCGCTAAAGACCTGAACATTAGCGGCGCTTATTA
* * *
51468079 AAAAACACCGCTAAAGACCTGAGA-ATTAGCAGCACTTATTA
1 AAAAACGCCGCTAAAGACCTGA-ACATTAGCGGCGCTTATTA
* *
51468120 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTC
1 AAAAACGCCGCTAAAGACCTGAACATTAGCGGCGCTTATTA
* * *
51468161 AAAAACTCTGCTAAAGACCTGAACATTAGCAGCGCTTATTA
1 AAAAACGCCGCTAAAGACCTGAACATTAGCGGCGCTTATTA
* * **
51468202 AAAAACGCCGCTAAAGA-CTTAAGAATTAATGGCGCTTATTA
1 AAAAACGCCGCTAAAGACCTGAA-CATTAGCGGCGCTTATTA
** * *
51468243 AAAAACGCCGCTAAAGACCTGAGTATTAGTGGCGCTTATTC
1 AAAAACGCCGCTAAAGACCTGAACATTAGCGGCGCTTATTA
* * * * *
51468284 AAAAACACCGCTAAATACTTGAGCATTAGCGGCGCTTATTC
1 AAAAACGCCGCTAAAGACCTGAACATTAGCGGCGCTTATTA
* *
51468325 AAAAACGCCGCTAAAGACCTGAGCATTAACGGCGCTT-TTCA
1 AAAAACGCCGCTAAAGACCTGAACATTAGCGGCGCTTATT-A
* * ** * *
51468366 GAAAATGCCGCTAAAGACCCCAA-A--A-----ACTCA--A
1 AAAAACGCCGCTAAAGACCTGAACATTAGCGGCGCTTATTA
* * * ** * * * * *
51468397 AAAACAGTGACG-T--TGGGCTTAGGCTTTTTGCGGCGCTT-TCCA
1 AAAA-A-CGCCGCTAAAGACCTGA-AC-ATTAGCGGCGCTTAT-TA
* * *
51468439 AAAAACGCCGCTAAAGACCTGAAAATTACCAGCGCTTATTA
1 AAAAACGCCGCTAAAGACCTGAACATTAGCGGCGCTTATTA
*
51468480 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
1 AAAAACGCCGCTAAAGACCTGAACATTAGCGGCGCTTATTA
*
51468521 AAAAACGCCGCTAAAGACCTGAGA-ATTAG-GGCACTTATTA
1 AAAAACGCCGCTAAAGACCTGA-ACATTAGCGGCGCTTATTA
** *
51468561 AAAAACGCCGCTAAAGACCTGAGTATTAGCGGCGCTTATTC
1 AAAAACGCCGCTAAAGACCTGAACATTAGCGGCGCTTATTA
* * * *
51468602 AAAAATGCCGCTAAATACCTGAGCATTAGCGGCGCTTATTC
1 AAAAACGCCGCTAAAGACCTGAACATTAGCGGCGCTTATTA
* * *
51468643 AAAAACACCGCTAAAGACCTGAGCATTAGCGGCACTT-TTCA
1 AAAAACGCCGCTAAAGACCTGAACATTAGCGGCGCTTATT-A
* * *
51468684 GAAAATGCCACTAAAGACC
1 AAAAACGCCGCTAAAGACC
51468703 CTAAAAACTC
Statistics
Matches: 543, Mismatches: 91, Indels: 62
0.78 0.13 0.09
Matches are distributed among these distances:
30 3 0.01
31 4 0.01
32 2 0.00
33 6 0.01
38 1 0.00
39 1 0.00
40 53 0.10
41 460 0.85
42 9 0.02
43 4 0.01
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGACCTGAACATTAGCGGCGCTTATTA
Found at i:51468121 original size:82 final size:82
Alignment explanation
Indices: 51467997--51468702 Score: 694
Period size: 82 Copynumber: 8.7 Consensus size: 82
51467987 GCGCTTCCTC
* *
51467997 AAAAACGCCGCTAAAGGTA-C-GAACATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGAGCTGA
1 AAAAACGCCGCTAAA-G-ACCTGAGCATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCTGA
51468060 GCATTAGCGGCGCTTATTA
64 GCATTAGCGGCGCTTATTA
* * * *
51468079 AAAAACACCGCTAAAGACCTGAGAATTAGCAGCACTTATTAAAAAACGCCGCTAAAGACCTGAGC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCTGAGC
*
51468144 ATTAGCGGCGCTTATTC
66 ATTAGCGGCGCTTATTA
* * * * * * *
51468161 AAAAACTCTGCTAAAGACCTGAACATTAGCAGCGCTTATTAAAAAACGCCGCTAAAGACTTAAGA
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCTGAGC
**
51468226 ATTAATGGCGCTTATTA
66 ATTAGCGGCGCTTATTA
* * * * * *
51468243 AAAAACGCCGCTAAAGACCTGAGTATTAGTGGCGCTTATTCAAAAACACCGCTAAATACTTGAGC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCTGAGC
*
51468308 ATTAGCGGCGCTTATTC
66 ATTAGCGGCGCTTATTA
* * * *
51468325 AAAAACGCCGCTAAAGACCTGAGCATTAACGGCGCTT-TTCAGAAAATGCCGCTAAAGACC---C
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATT-AAAAAACGCCGCTAAAGACCTGAG
*** *
51468386 CA--A---AAACTCA--A
65 CATTAGCGGCGCTTATTA
* * * ** * * * *
51468397 AAAACAGTGACG-T--TGGGCTTAGGCTTTTTGCGGCGCTT-TCCAAAAAACGCCGCTAAAGACC
1 AAAA-A-CGCCGCTAAAGACCTGA-GC-ATTAGCGGCGCTTAT-TAAAAAACGCCGCTAAAGACC
** * *
51468458 TGAAAATTACCAGCGCTTATTA
61 TGAGCATTAGCGGCGCTTATTA
*
51468480 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCTGAGA
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCTGAGC
*
51468545 ATTAG-GGCACTTATTA
66 ATTAGCGGCGCTTATTA
* * * *
51468561 AAAAACGCCGCTAAAGACCTGAGTATTAGCGGCGCTTATTCAAAAATGCCGCTAAATACCTGAGC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCTGAGC
*
51468626 ATTAGCGGCGCTTATTC
66 ATTAGCGGCGCTTATTA
* * * * *
51468643 AAAAACACCGCTAAAGACCTGAGCATTAGCGGCACTT-TTCAGAAAATGCCACTAAAGACC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATT-AAAAAACGCCGCTAAAGACC
51468703 CTAAAAACTC
Statistics
Matches: 508, Mismatches: 92, Indels: 48
0.78 0.14 0.07
Matches are distributed among these distances:
71 4 0.01
72 6 0.01
73 31 0.06
74 6 0.01
76 1 0.00
77 1 0.00
78 1 0.00
79 2 0.00
80 1 0.00
81 86 0.17
82 357 0.70
83 8 0.02
84 4 0.01
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (82 bp):
AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCTGAGC
ATTAGCGGCGCTTATTA
Found at i:51468158 original size:123 final size:122
Alignment explanation
Indices: 51467997--51468702 Score: 701
Period size: 123 Copynumber: 5.8 Consensus size: 122
51467987 GCGCTTCCTC
* * *
51467997 AAAAACGCCGCTAAAGGTA-C-GAACATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGAGCTGA
1 AAAAACGCCGCTAAA-G-ACCTGAGCATTAGCGGCGCTTATTCAAAAACACCGCTAAAGA-CTGA
* * * *
51468060 GCATTAGCGGCGCTTATTAAAAAACACCGCTAAAGACCTGAGAATTAGCAGCACTTATTA
63 GCATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCTGAGAATTAACGGCGCTTATTA
* * *
51468120 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTCAAAAACTCTGCTAAAGACCTGAAC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTCAAAAACACCGCTAAAGA-CTGAGC
* * * *
51468185 ATTAGCAGCGCTTATTAAAAAACGCCGCTAAAGACTTAAGAATTAATGGCGCTTATTA
65 ATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCTGAGAATTAACGGCGCTTATTA
* * *
51468243 AAAAACGCCGCTAAAGACCTGAGTATTAGTGGCGCTTATTCAAAAACACCGCTAAATACTTGAGC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTCAAAAACACCGCTAAAGAC-TGAGC
* *
51468308 ATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGACCTGAGCATTAACGGCGCTT-TTCA
65 ATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCTGAGAATTAACGGCGCTTATT-A
* * * *** * ** ** * *
51468366 GAAAATGCCGCTAAAGACC---CCA--A---AAACTCA---AAAAACAGTGACGT-TGGGCTTAG
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTCAAAAACACCG-C-TAAAGACTGA-
* * * * * *
51468419 GCTTTTTGCGGCGCTT-TCCAAAAAACGCCGCTAAAGACCTGAAAATTACCAGCGCTTATTA
63 GC-ATTAGCGGCGCTTAT-TAAAAAACGCCGCTAAAGACCTGAGAATTAACGGCGCTTATTA
* * *
51468480 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCTGAGA
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTCAAAAACACCGCTAAAGA-CTGAGC
* * * *
51468545 ATTAG-GGCACTTATTAAAAAACGCCGCTAAAGACCTGAGTATTAGCGGCGCTTATTC
65 ATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCTGAGAATTAACGGCGCTTATTA
* *
51468602 AAAAATGCCGCTAAATACCTGAGCATTAGCGGCGCTTATTCAAAAACACCGCTAAAGACCTGAGC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTCAAAAACACCGCTAAAGA-CTGAGC
* * * *
51468667 ATTAGCGGCACTT-TTCAGAAAATGCCACTAAAGACC
65 ATTAGCGGCGCTTATT-AAAAAACGCCGCTAAAGACC
51468703 CTAAAAACTC
Statistics
Matches: 476, Mismatches: 81, Indels: 52
0.78 0.13 0.09
Matches are distributed among these distances:
112 10 0.02
113 5 0.01
114 63 0.13
115 5 0.01
117 2 0.00
118 1 0.00
119 1 0.00
120 1 0.00
121 1 0.00
122 118 0.25
123 256 0.54
124 3 0.01
125 10 0.02
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (122 bp):
AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTCAAAAACACCGCTAAAGACTGAGCA
TTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCTGAGAATTAACGGCGCTTATTA
Found at i:51468600 original size:122 final size:123
Alignment explanation
Indices: 51468426--51468702 Score: 396
Period size: 122 Copynumber: 2.3 Consensus size: 123
51468416 TAGGCTTTTT
* *
51468426 GCGGCGCTTTCCAAAAAACGCCGCTAAAGACCTGAAAATTACCAGCGCTTATTAAAAAACGCCGC
1 GCGGCACTTTTCAAAAAACGCCGCTAAAGACCTGAAAATTACCAGCGCTTATTAAAAAACGCCGC
*
51468491 TAAAGACCTGAGCATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCTGAGAATTA
66 TAAAGACCTGAGCATTAGCGGCGCTTATTAAAAAACACCGCTAAAGACCTGAGAATTA
** * * * *
51468549 G-GGCACTTATT-AAAAAACGCCGCTAAAGACCTGAGTATTAGCGGCGCTTATTCAAAAATGCCG
1 GCGGCACTT-TTCAAAAAACGCCGCTAAAGACCTGAAAATTACCAGCGCTTATTAAAAAACGCCG
* * *
51468612 CTAAATACCTGAGCATTAGCGGCGCTTATTCAAAAACACCGCTAAAGACCTGAGCATTA
65 CTAAAGACCTGAGCATTAGCGGCGCTTATTAAAAAACACCGCTAAAGACCTGAGAATTA
* * *
51468671 GCGGCACTTTTCAGAAAATGCCACTAAAGACC
1 GCGGCACTTTTCAAAAAACGCCGCTAAAGACC
51468703 CTAAAAACTC
Statistics
Matches: 136, Mismatches: 15, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
122 110 0.81
123 26 0.19
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.20
Consensus pattern (123 bp):
GCGGCACTTTTCAAAAAACGCCGCTAAAGACCTGAAAATTACCAGCGCTTATTAAAAAACGCCGC
TAAAGACCTGAGCATTAGCGGCGCTTATTAAAAAACACCGCTAAAGACCTGAGAATTA
Found at i:51468644 original size:318 final size:319
Alignment explanation
Indices: 51468119--51468770 Score: 1063
Period size: 318 Copynumber: 2.0 Consensus size: 319
51468109 AGCACTTATT
** * * * * *
51468119 AAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTCAAAAACTCTGCTAAAGACCTGAA
1 AAAAAACGCCGCTAAAGACCTGAAAATTACCAGCGCTTATTAAAAAACGCCGCTAAAGACCTGAA
* * *
51468184 CATTAGCAGCGCTTATTAAAAAACGCCGCTAAAGACTTAAGAATTAATGGCGCTTATTAAAAAAC
66 CATTAGCAGCGCTTATTAAAAAACGCCGCTAAAGACCTAAGAATTAAGGGCACTTATTAAAAAAC
* *
51468249 GCCGCTAAAGACCTGAGTATTAGTGGCGCTTATTCAAAAACACCGCTAAATACTTGAGCATTAGC
131 GCCGCTAAAGACCTGAGTATTAGCGGCGCTTATTCAAAAACACCGCTAAATACCTGAGCATTAGC
* * *
51468314 GGCGCTTATTCAAAAACGCCGCTAAAGACCTGAGCATTAACGGCGCTTTTCAGAAAATGCCGCTA
196 GGCGCTTATTCAAAAACACCGCTAAAGACCTGAGCATTAACGGCACTTTTCAGAAAATGCCACTA
* *
51468379 AAGACCCCAAAAACTCAAAAAACAGTGACGTTGGGCTTAGGCTTTTTGCGGCGCTTTCC
261 AAGACCCCAAAAACTCAAAAAACAGTGACATTAGGCTTAGGCTTTTTGCGGCGCTTTCC
*
51468438 AAAAAACGCCGCTAAAGACCTGAAAATTACCAGCGCTTATTAAAAAACGCCGCTAAAGACCTGAG
1 AAAAAACGCCGCTAAAGACCTGAAAATTACCAGCGCTTATTAAAAAACGCCGCTAAAGACCTGAA
* *
51468503 CATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCTGAGAATT-AGGGCACTTATTAAAAAAC
66 CATTAGCAGCGCTTATTAAAAAACGCCGCTAAAGACCTAAGAATTAAGGGCACTTATTAAAAAAC
**
51468567 GCCGCTAAAGACCTGAGTATTAGCGGCGCTTATTCAAAAATGCCGCTAAATACCTGAGCATTAGC
131 GCCGCTAAAGACCTGAGTATTAGCGGCGCTTATTCAAAAACACCGCTAAATACCTGAGCATTAGC
*
51468632 GGCGCTTATTCAAAAACACCGCTAAAGACCTGAGCATTAGCGGCACTTTTCAGAAAATGCCACTA
196 GGCGCTTATTCAAAAACACCGCTAAAGACCTGAGCATTAACGGCACTTTTCAGAAAATGCCACTA
* * *
51468697 AAGACCCTAAAAACTCAAAAAACGGTGCCATTAGGCTTAGGCTTTTTGCGGCGCTTTCC
261 AAGACCCCAAAAACTCAAAAAACAGTGACATTAGGCTTAGGCTTTTTGCGGCGCTTTCC
51468756 AAAAAACGCCGCTAA
1 AAAAAACGCCGCTAA
51468771 TGCTTATTTT
Statistics
Matches: 307, Mismatches: 26, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
318 208 0.68
319 99 0.32
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (319 bp):
AAAAAACGCCGCTAAAGACCTGAAAATTACCAGCGCTTATTAAAAAACGCCGCTAAAGACCTGAA
CATTAGCAGCGCTTATTAAAAAACGCCGCTAAAGACCTAAGAATTAAGGGCACTTATTAAAAAAC
GCCGCTAAAGACCTGAGTATTAGCGGCGCTTATTCAAAAACACCGCTAAATACCTGAGCATTAGC
GGCGCTTATTCAAAAACACCGCTAAAGACCTGAGCATTAACGGCACTTTTCAGAAAATGCCACTA
AAGACCCCAAAAACTCAAAAAACAGTGACATTAGGCTTAGGCTTTTTGCGGCGCTTTCC
Found at i:51468863 original size:40 final size:40
Alignment explanation
Indices: 51468739--51468873 Score: 116
Period size: 40 Copynumber: 3.4 Consensus size: 40
51468729 AGGCTTAGGC
*
51468739 TTTTT-GCGGCG-CTTTCCAAAAAACGCCGCTAATGCTT-A
1 TTTTTAGCGGCGTTTTTCC-AAAAACGCCGCTAATGCTTGA
* ** * *
51468777 TTTTTAGCGGCGTTTTT-TAAAAATTACCGCTAATGATCGA
1 TTTTTAGCGGCGTTTTTCCAAAAA-CGCCGCTAATGCTTGA
** * * *
51468817 CCTTTAGCGGCATTTTTCCAAAAGCGCCGCTACTGCTTGA
1 TTTTTAGCGGCGTTTTTCCAAAAACGCCGCTAATGCTTGA
*
51468857 TTTTTAGTGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
51468874 TGTCCAAACG
Statistics
Matches: 72, Mismatches: 20, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
38 10 0.14
39 16 0.22
40 42 0.58
41 4 0.06
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.38
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTCCAAAAACGCCGCTAATGCTTGA
Found at i:51470023 original size:43 final size:43
Alignment explanation
Indices: 51469975--51470142 Score: 134
Period size: 43 Copynumber: 4.0 Consensus size: 43
51469965 CCGCTAAAGG
* *
51469975 TCATGACTTTTAACGGTGCTTATTCCACAAACGCCACTATAGA
1 TCATGACTTTTAGCGGCGCTTATTCCACAAACGCCACTATAGA
* * *
51470018 TCATGAATTTTAGCGGCGCTTGA----A-AAGCGCCACTATAGG
1 TCATGACTTTTAGCGGCGCTT-ATTCCACAAACGCCACTATAGA
* * * *
51470057 TCATAACTTTTAGCGGCGCTT-TTCCCACAAATGCCGCTATAAA
1 TCATGACTTTTAGCGGCGCTTATT-CCACAAACGCCACTATAGA
* * * **
51470100 TCATCACTTTTAGTGACGCTT-TTCCCACAAACATCACTATAGA
1 TCATGACTTTTAGCGGCGCTTATT-CCACAAACGCCACTATAGA
51470143 ATAGATCTTT
Statistics
Matches: 98, Mismatches: 20, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
39 32 0.33
40 1 0.01
42 1 0.01
43 63 0.64
44 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (43 bp):
TCATGACTTTTAGCGGCGCTTATTCCACAAACGCCACTATAGA
Found at i:51473168 original size:24 final size:23
Alignment explanation
Indices: 51473115--51473161 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 23
51473105 ATTAAGTTTT
*
51473115 AACATGTTAGTCATATTCTATAC
1 AACATGTTAGTCATATTATATAC
51473138 AAGCATGTTAGTCTTATATTATAT
1 AA-CATGTTAGTC--ATATTATAT
51473162 GCACATGCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 10 0.50
26 8 0.40
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.43
Consensus pattern (23 bp):
AACATGTTAGTCATATTATATAC
Found at i:51474667 original size:28 final size:28
Alignment explanation
Indices: 51474635--51474692 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
51474625 CCGACCCCAG
* *
51474635 AATCCTTAAACCCTAAATCC-TAACTCTT
1 AATCCCTAAACCCTAAA-CCTTAAATCTT
*
51474663 AATCCCTAACCCCTAAACCTTAAATCTT
1 AATCCCTAAACCCTAAACCTTAAATCTT
51474691 AA
1 AA
51474693 CCCCCAAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 2 0.08
28 24 0.92
ACGTcount: A:0.38, C:0.33, G:0.00, T:0.29
Consensus pattern (28 bp):
AATCCCTAAACCCTAAACCTTAAATCTT
Found at i:51474677 original size:21 final size:21
Alignment explanation
Indices: 51474639--51474686 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
51474629 CCCCAGAATC
*
51474639 CTTAAACCCTAAATCCTAACT
1 CTTAAACCCTAAACCCTAACT
* *
51474660 CTTAATCCCTAACCCCTAAAC-
1 CTTAAACCCTAAACCCT-AACT
51474681 CTTAAA
1 CTTAAA
51474687 TCTTAACCCC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.27
Consensus pattern (21 bp):
CTTAAACCCTAAACCCTAACT
Found at i:51476487 original size:41 final size:41
Alignment explanation
Indices: 51476438--51476541 Score: 140
Period size: 41 Copynumber: 2.5 Consensus size: 41
51476428 TGAAGTGCTT
*
51476438 TCAAAAACGCCGCTAAAACCCCA-AGCATTAGCGGTGCTTAA
1 TCAAAAACGCCGCTAAAACCCCACAGCATTAGCGGCGC-TAA
*
51476479 TCAAAAACGCCGCTAAAA-CCCACAGCATTAGCGGCGCTAC
1 TCAAAAACGCCGCTAAAACCCCACAGCATTAGCGGCGCTAA
* *
51476519 TCCAAAAACGCCACTAAAGCCCC
1 T-CAAAAACGCCGCTAAAACCCC
51476542 TGATAGGTCA
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
40 7 0.12
41 46 0.82
42 3 0.05
ACGTcount: A:0.37, C:0.35, G:0.15, T:0.13
Consensus pattern (41 bp):
TCAAAAACGCCGCTAAAACCCCACAGCATTAGCGGCGCTAA
Found at i:51476636 original size:37 final size:37
Alignment explanation
Indices: 51476575--51476649 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 37
51476565 TTGGGTTCGG
*
51476575 TTTTTTGCGGCGTTTTCCCAAAAAATGCCACTAATGC
1 TTTTTTGCGGCGTTTTCCCAAAAAACGCCACTAATGC
** *
51476612 TTTTTTAGCGGCGTTTT-CTTAAAAACGCCGCTAATGC
1 TTTTTT-GCGGCGTTTTCCCAAAAAACGCCACTAATGC
51476649 T
1 T
51476650 CAGTCTTTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 23 0.70
38 10 0.30
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (37 bp):
TTTTTTGCGGCGTTTTCCCAAAAAACGCCACTAATGC
Found at i:51476670 original size:40 final size:40
Alignment explanation
Indices: 51476615--51476691 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
51476605 CTAATGCTTT
** *
51476615 TTTAGCGGCGTTTTCT-TAAAAACGCCGCTAATGCTCAGTC
1 TTTAGCGGCAATTTCTAT-AAAACGCCACTAATGCTCAGTC
*
51476655 TTTAGCGGCAATTTCTATAAAGCGCCACTAATGCTCA
1 TTTAGCGGCAATTTCTATAAAACGCCACTAATGCTCA
51476692 ATTTTTACTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 31 0.97
41 1 0.03
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (40 bp):
TTTAGCGGCAATTTCTATAAAACGCCACTAATGCTCAGTC
Found at i:51483010 original size:16 final size:16
Alignment explanation
Indices: 51482973--51483003 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51482963 AGACATAAAG
*
51482973 GAAAAAACCCAACAAC
1 GAAACAACCCAACAAC
51482989 GAAACAACCCAACAA
1 GAAACAACCCAACAA
51483004 GCTAACAGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.32, G:0.06, T:0.00
Consensus pattern (16 bp):
GAAACAACCCAACAAC
Found at i:51483908 original size:21 final size:21
Alignment explanation
Indices: 51483879--51483921 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
51483869 CATCCATTTC
*
51483879 AAATTTATTGATT-TTTCAAAT
1 AAATATATT-ATTCTTTCAAAT
*
51483900 AAATATATTATTCTTTTAAAT
1 AAATATATTATTCTTTCAAAT
51483921 A
1 A
51483922 TTCAATTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (21 bp):
AAATATATTATTCTTTCAAAT
Found at i:51487481 original size:128 final size:127
Alignment explanation
Indices: 51487305--51487534 Score: 365
Period size: 128 Copynumber: 1.8 Consensus size: 127
51487295 CATCCCGTTC
* *
51487305 AAAAGAAAAAAAATAAAATAAATGCATCAAATCCTACCCTATCTAGTCAAATCAAGAATAGCTGG
1 AAAAGAAAAAAAATAAAATAAATGCAACAAATCCTACCCTATCCAGTCAAATCAAGAATAGCTGG
*
51487370 ATACCATCT-ATTTCTTCTTTTCAATTCCAATGCCCAGCCATATCCATCCCGTTCAATAGAAT
66 ATACCAT-TAAATTCTTCTTTTCAATTCCAATGCCCAGCCATATCCATCCCGTTCAATAGAAT
* *
51487432 AAAA-AAATAAAAATAAAAATAAATGCAACTAATCTTACCCTATCCAGTCAAATCAAGAATAGCT
1 AAAAGAAA-AAAAAT-AAAATAAATGCAACAAATCCTACCCTATCCAGTCAAATCAAGAATAGCT
*
51487496 GGATACCATTAAATTCTTCTTTTCATTTCCAATGCCCAG
64 GGATACCATTAAATTCTTCTTTTCAATTCCAATGCCCAG
51487535 TATAATGAAT
Statistics
Matches: 94, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
126 3 0.03
127 11 0.12
128 80 0.85
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (127 bp):
AAAAGAAAAAAAATAAAATAAATGCAACAAATCCTACCCTATCCAGTCAAATCAAGAATAGCTGG
ATACCATTAAATTCTTCTTTTCAATTCCAATGCCCAGCCATATCCATCCCGTTCAATAGAAT
Found at i:51494563 original size:24 final size:24
Alignment explanation
Indices: 51494518--51494563 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
51494508 TATAGCAACA
**
51494518 ATAATAAATAATATTTTTTACTGG
1 ATAATAAATAATATTTACTACTGG
*
51494542 ATAATAAATTATATTTACTACT
1 ATAATAAATAATATTTACTACT
51494564 TAACTTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (24 bp):
ATAATAAATAATATTTACTACTGG
Found at i:51500552 original size:17 final size:16
Alignment explanation
Indices: 51500522--51500573 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
51500512 TCTTTTTTTT
* *
51500522 AAACACGAATTTTTTA
1 AAACACAAATTTTTAA
* * *
51500538 AAATACAAGAATTTTAG
1 AAACACAA-ATTTTTAA
51500555 AAACACAAATTTTTAA
1 AAACACAAATTTTTAA
51500571 AAA
1 AAA
51500574 AACACGAAAA
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
16 15 0.56
17 12 0.44
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.31
Consensus pattern (16 bp):
AAACACAAATTTTTAA
Found at i:51500627 original size:17 final size:17
Alignment explanation
Indices: 51500573--51500923 Score: 201
Period size: 17 Copynumber: 19.9 Consensus size: 17
51500563 ATTTTTAAAA
51500573 AAACACGAAAA-TTTTG
1 AAACACGAAAATTTTTG
* *
51500589 AAACACGAGATTTCTTTG
1 AAACACGAAAATT-TTTG
*
51500607 AAACACGAAAATTTATG
1 AAACACGAAAATTTTTG
* *
51500624 AAACACGATCAATTTCTTA
1 AAACACGA-AAATTT-TTG
* *
51500643 AAACGCGAAAGTTTTTG
1 AAACACGAAAATTTTTG
* *
51500660 AAAAACGAGAATTTTTTTTTG
1 AAACACGA-AA---ATTTTTG
* *
51500681 AAGCACGAAAAATTTTG
1 AAACACGAAAATTTTTG
*
51500698 AAACACTG-GAA-TTTTG
1 AAACAC-GAAAATTTTTG
* ** *
51500714 AAAACACCAGGATTTTTT
1 -AAACACGAAAATTTTTG
* *
51500732 AAATACGAAAA-ATTTG
1 AAACACGAAAATTTTTG
*
51500748 AAAACAAGAAAATTTTTG
1 -AAACACGAAAATTTTTG
* *
51500766 AAATACGAAAATTTTAG
1 AAACACGAAAATTTTTG
51500783 AAACACGAAAATTTTTG
1 AAACACGAAAATTTTTG
*
51500800 AAACAC-AGAAGTTTTTAG
1 AAACACGA-AAATTTTT-G
*
51500818 AAAACACGAAAAATTTTG
1 -AAACACGAAAATTTTTG
* ** *
51500836 AAA-ATTGGAATTTTTTTA
1 AAACA--CGAAAATTTTTG
*
51500854 AAACACGAGAATTTTTG
1 AAACACGAAAATTTTTG
*
51500871 AAAAACATGAAAATTTTTG
1 --AAACACGAAAATTTTTG
* **
51500890 CAACACGGGAATTTTTG
1 AAACACGAAAATTTTTG
51500907 AAAACACGAAAAATTTT
1 -AAACACG-AAAATTTT
51500924 CTGATTTTTT
Statistics
Matches: 250, Mismatches: 60, Indels: 47
0.70 0.17 0.13
Matches are distributed among these distances:
16 19 0.08
17 121 0.48
18 53 0.21
19 42 0.17
20 3 0.01
21 12 0.05
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (17 bp):
AAACACGAAAATTTTTG
Found at i:51500696 original size:21 final size:21
Alignment explanation
Indices: 51500654--51500696 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
51500644 AACGCGAAAG
* *
51500654 TTTTTGAAAAACGAGAATTTT
1 TTTTTGAAAAACGAAAAATTT
**
51500675 TTTTTGAAGCACGAAAAATTT
1 TTTTTGAAAAACGAAAAATTT
51500696 T
1 T
51500697 GAAACACTGG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (21 bp):
TTTTTGAAAAACGAAAAATTT
Found at i:51500851 original size:36 final size:35
Alignment explanation
Indices: 51500747--51500874 Score: 127
Period size: 35 Copynumber: 3.7 Consensus size: 35
51500737 CGAAAAATTT
* **
51500747 GAAAACAAGAAAATTTTTGAAATAC-GAAAATTTTA
1 GAAAACACGAAAATTTTTGAAA-ACAGAAGTTTTTA
51500782 G-AAACACGAAAATTTTTGAAACACAGAAGTTTTTA
1 GAAAACACGAAAATTTTTGAAA-ACAGAAGTTTTTA
* ** *
51500817 GAAAACACGAAAAATTTTGAAAATTGGAA-TTTTTT
1 GAAAACACGAAAATTTTTGAAAA-CAGAAGTTTTTA
* *
51500852 TAAAACACGAGAATTTTTGAAAA
1 GAAAACACGAAAATTTTTGAAAA
51500875 ACATGAAAAT
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
34 21 0.27
35 36 0.46
36 22 0.28
ACGTcount: A:0.49, C:0.08, G:0.13, T:0.30
Consensus pattern (35 bp):
GAAAACACGAAAATTTTTGAAAACAGAAGTTTTTA
Found at i:51500867 original size:19 final size:19
Alignment explanation
Indices: 51500783--51500915 Score: 79
Period size: 19 Copynumber: 7.4 Consensus size: 19
51500773 AAAATTTTAG
*
51500783 AAACACGAAAATTTTTG--
1 AAACACGAGAATTTTTGAA
51500800 AAACAC-AGAAGTTTTT-AGA
1 AAACACGAGAA-TTTTTGA-A
* *
51500819 AAACACGAAAAATTTTG-A
1 AAACACGAGAATTTTTGAA
** **
51500837 AAA-TTG-GAATTTTTTTA
1 AAACACGAGAATTTTTGAA
51500854 AAACACGAGAATTTTTGAA
1 AAACACGAGAATTTTTGAA
* *
51500873 AAACATGAAAATTTTTG--
1 AAACACGAGAATTTTTGAA
* *
51500890 CAACACGGGAATTTTTG-A
1 AAACACGAGAATTTTTGAA
51500908 AAACACGA
1 AAACACGA
51500916 AAAATTTTCT
Statistics
Matches: 86, Mismatches: 20, Indels: 19
0.69 0.16 0.15
Matches are distributed among these distances:
16 9 0.10
17 29 0.34
18 11 0.13
19 34 0.40
20 3 0.03
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (19 bp):
AAACACGAGAATTTTTGAA
Found at i:51500895 original size:36 final size:35
Alignment explanation
Indices: 51500855--51500923 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
51500845 ATTTTTTTAA
* *
51500855 AACACGAGAATTTTTGAAAAACATGAAAATTTTTGC
1 AACACGAGAATTTTTG-AAAACACGAAAAATTTTGC
*
51500891 AACACGGGAATTTTTGAAAACACGAAAAATTTT
1 AACACGAGAATTTTTGAAAACACGAAAAATTTT
51500924 CTGATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 15 0.50
36 15 0.50
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (35 bp):
AACACGAGAATTTTTGAAAACACGAAAAATTTTGC
Found at i:51501063 original size:22 final size:22
Alignment explanation
Indices: 51501028--51501071 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
51501018 TGTTACCTTA
51501028 TTTTTGAAAAACACGAGAAATTT
1 TTTTTGAAAAACACGA-AAATTT
*
51501051 TTTTTG-AAGACACGAAAATTT
1 TTTTTGAAAAACACGAAAATTT
51501072 CGAAACCCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 8 0.40
23 6 0.30
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (22 bp):
TTTTTGAAAAACACGAAAATTT
Found at i:51501245 original size:5 final size:5
Alignment explanation
Indices: 51501235--51501290 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
51501225 TAAAATTATT
* * * *
51501235 TAAAA TAAAA TAAAA TAAAA TAAAAA TTAAA TTAAA TTAAA -AATA TAAATA
1 TAAAA TAAAA TAAAA TAAAA T-AAAA TAAAA TAAAA TAAAA TAAAA TAAA-A
51501286 TAAAA
1 TAAAA
51501291 ATGCATAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
4 2 0.05
5 32 0.73
6 10 0.23
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (5 bp):
TAAAA
Found at i:51501449 original size:11 final size:11
Alignment explanation
Indices: 51501435--51501475 Score: 66
Period size: 11 Copynumber: 3.7 Consensus size: 11
51501425 CTTTTTCTTT
51501435 TTCTTTTTTCC
1 TTCTTTTTTCC
51501446 TTCTTTTTTCC
1 TTCTTTTTTCC
51501457 TTCTCTTTTT-C
1 TTCT-TTTTTCC
51501468 TTCTTTTT
1 TTCTTTTT
51501476 CTTTTCTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 4 0.14
11 20 0.69
12 5 0.17
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
TTCTTTTTTCC
Found at i:51501482 original size:11 final size:11
Alignment explanation
Indices: 51501424--51501492 Score: 56
Period size: 11 Copynumber: 6.3 Consensus size: 11
51501414 GAATTGAACC
51501424 TCTTTTTCTTTT
1 TCTTTTTC-TTT
51501436 TCTTTTTTCCTTCT
1 TC-TTTTT-CTT-T
* *
51501450 T-TTTTCCTTC
1 TCTTTTTCTTT
51501460 TCTTTTTC--T
1 TCTTTTTCTTT
51501469 TCTTTTTCTTT
1 TCTTTTTCTTT
51501480 TCTTTTT-TTT
1 TCTTTTTCTTT
51501490 TCT
1 TCT
51501493 GCTGGGCCAA
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
9 8 0.17
10 7 0.15
11 16 0.34
12 6 0.13
13 7 0.15
14 3 0.06
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (11 bp):
TCTTTTTCTTT
Found at i:51501489 original size:36 final size:36
Alignment explanation
Indices: 51501423--51501491 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
51501413 CGAATTGAAC
51501423 CTCTTTTTCTTTTTCTTTTTTCCTTCTTTTTTCCTT
1 CTCTTTTTCTTTTTCTTTTTTCCTTCTTTTTTCCTT
*
51501459 CTCTTTTTCTTCTTT-TTCTTTT-CTTTTTTTTTC
1 CTCTTTTTCTT-TTTCTT-TTTTCCTTCTTTTTTC
51501492 TGCTGGGCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 23 0.77
37 7 0.23
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (36 bp):
CTCTTTTTCTTTTTCTTTTTTCCTTCTTTTTTCCTT
Found at i:51501643 original size:15 final size:15
Alignment explanation
Indices: 51501625--51501662 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
51501615 TTTTTTGGGC
*
51501625 TTGTTTCTT-TTTTTT
1 TTGTTT-TTGTTTTTG
51501640 TTGTTTTTGTTTTTG
1 TTGTTTTTGTTTTTG
51501655 TTGTTTTT
1 TTGTTTTT
51501663 TCTTGGGCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 2 0.10
15 19 0.90
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.84
Consensus pattern (15 bp):
TTGTTTTTGTTTTTG
Found at i:51501758 original size:17 final size:18
Alignment explanation
Indices: 51501738--51501808 Score: 60
Period size: 17 Copynumber: 4.0 Consensus size: 18
51501728 ATTTTTATTA
51501738 TTTCTTTTCTTT-TTCTT
1 TTTCTTTTCTTTCTTCTT
51501755 TTTC-TTTCTTTCTTCTT
1 TTTCTTTTCTTTCTTCTT
**
51501772 CCTCTTTTC-TTCTTCCTT
1 TTTCTTTTCTTTCTT-CTT
*
51501790 CTTCTTCCTTC-TTCTTCTT
1 TTTCTT--TTCTTTCTTCTT
51501809 CAAAGTCTAG
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
16 7 0.15
17 16 0.35
18 12 0.26
19 3 0.07
20 8 0.17
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTCTTTTCTTTCTTCTT
Found at i:51501772 original size:3 final size:3
Alignment explanation
Indices: 51501739--51501809 Score: 65
Period size: 3 Copynumber: 23.0 Consensus size: 3
51501729 TTTTTATTAT
* * *
51501739 TTC TT- TTC TTT TTC TTT TTC TTTC TTTC TTC TTC CTC TT- TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC -TTC -TTC TTC TTC TTC TTC TTC TTC
51501784 TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TT-C TTC TTC TT-C TTC TTC TTC TTC
51501810 AAAGTCTAGC
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
2 4 0.07
3 40 0.70
4 13 0.23
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:51501779 original size:28 final size:28
Alignment explanation
Indices: 51501748--51501805 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
51501738 TTTCTTTTCT
* *
51501748 TTTTCTTTTTCTTTCTTTCTT-CTTCCTC
1 TTTTCTTCTTCCTTC-TTCTTCCTTCCTC
*
51501776 TTTTCTTCTTCCTTCTTCTTCCTTCTTC
1 TTTTCTTCTTCCTTCTTCTTCCTTCCTC
51501804 TT
1 TT
51501806 CTTCAAAGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (28 bp):
TTTTCTTCTTCCTTCTTCTTCCTTCCTC
Found at i:51501793 original size:10 final size:10
Alignment explanation
Indices: 51501778--51501806 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
51501768 TCTTCCTCTT
51501778 TTCTTCTTCC
1 TTCTTCTTCC
51501788 TTCTTCTTCC
1 TTCTTCTTCC
51501798 TTCTTCTTC
1 TTCTTCTTC
51501807 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:51501802 original size:34 final size:34
Alignment explanation
Indices: 51501740--51501806 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
51501730 TTTTATTATT
* * *
51501740 TCTTTTCTTTTTCTTTTTCTTTCTTTCTTCTTCC
1 TCTTTTCTTTTCCTTCTTCTTTCCTTCTTCTTCC
51501774 TCTTTTCTTCTTCCTTCTTC-TTCCTTCTTCTTC
1 TCTTTTCTT-TTCCTTCTTCTTTCCTTCTTCTTC
51501807 TTCAAAGTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 21 0.72
35 8 0.28
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (34 bp):
TCTTTTCTTTTCCTTCTTCTTTCCTTCTTCTTCC
Found at i:51502211 original size:29 final size:28
Alignment explanation
Indices: 51502178--51502294 Score: 101
Period size: 30 Copynumber: 4.0 Consensus size: 28
51502168 TGTAATTTTT
*
51502178 AGAAAATTTAGGATTAAAATGAAATTTA
1 AGAAAATTTAGGGTTAAAATGAAATTTA
* *
51502206 ATGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 A-GAAAATTTA-GGGT-TAAAATGAAATTT-A
* *
51502237 AGAAAGTTTAAGGGTCAAAATGAAATTTA
1 AGAAAATTT-AGGGTTAAAATGAAATTTA
* *
51502266 AGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
51502295 TTATTTTTAA
Statistics
Matches: 74, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
28 1 0.01
29 15 0.20
30 54 0.73
31 4 0.05
ACGTcount: A:0.45, C:0.03, G:0.21, T:0.30
Consensus pattern (28 bp):
AGAAAATTTAGGGTTAAAATGAAATTTA
Found at i:51502233 original size:30 final size:29
Alignment explanation
Indices: 51502193--51502294 Score: 141
Period size: 30 Copynumber: 3.4 Consensus size: 29
51502183 ATTTAGGATT
51502193 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAA-GAAAGTTTAGGGGTC
* * *
51502223 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTT-AAGAAAGTTTAGGGGTC
51502253 AAAATGAAATTTAAGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAG-AAAGTTTAGGGGTC
*
51502283 AAAATGCAATTT
1 AAAATGAAATTT
51502295 TTATTTTTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
29 3 0.05
30 58 0.92
31 2 0.03
ACGTcount: A:0.45, C:0.04, G:0.22, T:0.29
Consensus pattern (29 bp):
AAAATGAAATTTAAGAAAGTTTAGGGGTC
Found at i:51502751 original size:54 final size:55
Alignment explanation
Indices: 51502565--51502782 Score: 324
Period size: 54 Copynumber: 4.1 Consensus size: 55
51502555 CACGTGAGCC
* *
51502565 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG-AA
*
51502620 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAG--A---AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAA
* *
51502671 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATT-AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
51502725 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
51502780 AAG
1 AAG
51502783 TAGAAATTGA
Statistics
Matches: 150, Mismatches: 6, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
50 14 0.09
51 34 0.23
52 1 0.01
54 52 0.35
55 37 0.25
56 6 0.04
57 6 0.04
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (55 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
Found at i:51502780 original size:14 final size:14
Alignment explanation
Indices: 51502761--51502795 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
51502751 GAGTTGATTT
51502761 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
**
51502775 TTGAAAAGTAGAAA
1 TTGAAAAACAGAAA
51502789 TTGAAAA
1 TTGAAAA
51502796 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:51502947 original size:106 final size:105
Alignment explanation
Indices: 51502764--51502953 Score: 292
Period size: 106 Copynumber: 1.8 Consensus size: 105
51502754 TTGATTTTTG
* ** * *
51502764 AAAAACAGAAATTGAAAAGTAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTC
1 AAAAACAAAAATTGAAAAACAGAAATTGAAAAGACCTCAGCGTGCCCTGAGACTCAACTCACCTC
51502829 TTGCAATATGAGTTGATTTTTTTTGAAACACAGAAATTAA
66 TTGCAATATGAGTTGATTTTTTTTGAAACACAGAAATTAA
* *
51502869 AAAAACAAAAATT-AAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACC
1 AAAAACAAAAATTGAAAAACAGAAATTGAAAAGACCTCAGC--GTGCCCTGAGACTCAACTCACC
51502933 TCTTGCAATATGAGTTGATTT
64 TCTTGCAATATGAGTTGATTT
51502954 GAAAAGTAGA
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
104 23 0.30
105 12 0.16
106 41 0.54
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (105 bp):
AAAAACAAAAATTGAAAAACAGAAATTGAAAAGACCTCAGCGTGCCCTGAGACTCAACTCACCTC
TTGCAATATGAGTTGATTTTTTTTGAAACACAGAAATTAA
Found at i:51503046 original size:87 final size:89
Alignment explanation
Indices: 51502882--51503137 Score: 310
Period size: 92 Copynumber: 2.9 Consensus size: 89
51502872 AACAAAAATT
* * *
51502882 AAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
51502947 TTGA--TTTGAAAAG-TAGAATT-AG
65 TTGATTTTTGAAAAGATAG-ATTAAA
* * * *
51502969 TAAAGCAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGAG
51503032 TTGATTTTTGAAAAGCATAGATTGAAA
65 TTGATTTTTGAAAAG-ATAGATT-AAA
*
51503059 AAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATGA
*
51503123 GTTGATTTCTGAAAA
64 GTTGATTTTTGAAAA
51503138 ACAAAAATTA
Statistics
Matches: 144, Mismatches: 14, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
84 3 0.02
85 33 0.23
87 32 0.22
88 3 0.02
89 3 0.02
90 25 0.17
92 42 0.29
94 3 0.02
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (89 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTTTGAAAAGATAGATTAAA
Found at i:51503076 original size:16 final size:17
Alignment explanation
Indices: 51503042--51503076 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
51503032 TTGATTTTTG
* *
51503042 AAAAGCATAGATTGAAA
1 AAAAACATAAATTGAAA
51503059 AAAAACATAAATTGAAA
1 AAAAACATAAATTGAAA
51503076 A
1 A
51503077 TACCTCAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.06, G:0.11, T:0.17
Consensus pattern (17 bp):
AAAAACATAAATTGAAA
Found at i:51503509 original size:190 final size:191
Alignment explanation
Indices: 51503095--51503697 Score: 1102
Period size: 190 Copynumber: 3.2 Consensus size: 191
51503085 CATGTGAGCC
** *
51503095 GAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTCTGAAAAACAAAAATTAAAAGGCTTAACT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT-TGAAAAACAAAAATTAAAAGGCTTAACT
51503160 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
65 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
* *
51503225 AACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAATTTAAAAATACCTCAACGTGTCTT
130 AACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
51503287 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
*
51503352 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCTGCGTG-CCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
51503416 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTT-AAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTT-AAAAATTTAAAAATACCTCAACGTGTCTT
*
51503477 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAATAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
*
51503542 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACATCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
51503607 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
51503668 GAGGCTCAACTCATTTCTCGCAATATGAGT
1 GAGGCTCAACTCATTTCTCGCAATATGAGT
51503698 CAATTTAAAA
Statistics
Matches: 399, Mismatches: 9, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
190 185 0.46
191 181 0.45
192 33 0.08
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (191 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:51503555 original size:122 final size:122
Alignment explanation
Indices: 51503409--51503772 Score: 347
Period size: 122 Copynumber: 2.9 Consensus size: 122
51503399 TGCGTGCCCG
* * * ** * * *
51503409 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAA-A-AAATTTAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAG-TCA-ATTTAAAACATAAACTAAAAATACATCAACGT
* ** *
51503472 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAATAAAAATTAAA
64 GCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAATAAAAATTAAA
* **
51503531 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACATCGGCGTGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACATCAACGTGC
*
51503596 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAATTTAAAAATACCTCAAC
66 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA--TTTTGAAAAA--TAAAAAT---T-AA-
*
51503661 GTGTCTTG
122 -------A
** * **
51503669 AGGCTCAACTCATTTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTG-
1 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACATCAACGTGC
51503733 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
66 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
51503773 TTTAAAAAAT
Statistics
Matches: 203, Mismatches: 21, Indels: 23
0.82 0.09 0.09
Matches are distributed among these distances:
120 5 0.02
121 3 0.01
122 76 0.37
124 9 0.04
126 7 0.03
129 1 0.00
130 2 0.01
135 4 0.02
137 36 0.18
138 60 0.30
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (122 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACATCAACGTGC
CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAATAAAAATTAAA
Found at i:51503620 original size:69 final size:68
Alignment explanation
Indices: 51503531--51503835 Score: 319
Period size: 69 Copynumber: 4.4 Consensus size: 68
51503521 AAAAATTAAA
* * * **
51503531 AGGCTTAACTCACCTCTCGCAATATGAGTCA-ATTTAAAACATAAACTAAAAATACATCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTCATATTTAAAA-A-AAACTAAAAATACCTCAACGTG
51503595 CCCCG
64 CCCCG
* * ** ** *
51503600 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAATTTAAAAATACCTCAACGTGT
1 AGGCTCAACTCACTTCTCGCAATATGAG-TCATATTTAAAAAAAACTAAAAATACCTCAACGTGC
**
51503665 CTTG
65 CCCG
* **
51503669 AGGCTCAACTCATTTCTCGCAATATGAGTCA-ATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTCATATTTAAAA-A-AAACTAAAAATACCTCAACGTG
51503733 -CCCG
64 CCCCG
* * * **
51503737 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTG
1 AGGCTCAACTCACTTCTCGCAATATGAG-TCA-TATTTAAAAAAAACTAAAAATACCTCAACGTG
51503802 CCCCG
64 CCCCG
*
51503807 AGGCTCAACTCATTTCTCGCAATATGAGT
1 AGGCTCAACTCACTTCTCGCAATATGAGT
51503836 TGATTTTGAA
Statistics
Matches: 194, Mismatches: 34, Indels: 16
0.80 0.14 0.07
Matches are distributed among these distances:
67 5 0.03
68 32 0.16
69 111 0.57
70 35 0.18
71 11 0.06
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.29
Consensus pattern (68 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTCATATTTAAAAAAAACTAAAAATACCTCAACGTGCC
CCG
Found at i:51503781 original size:138 final size:138
Alignment explanation
Indices: 51503531--51503835 Score: 531
Period size: 138 Copynumber: 2.2 Consensus size: 138
51503521 AAAAATTAAA
* **
51503531 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACATCGGCGTGC
1 AGGCTCAACTCATTTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACATCGGCGTGC
51503596 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAATTTAAAAATACCTCAAC
66 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAATTTAAAAATACCTCAAC
* **
51503661 GTGTCTTG
131 GTGCCCCG
*
51503669 AGGCTCAACTCATTTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTG-
1 AGGCTCAACTCATTTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACATCGGCGTGC
51503733 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAA
66 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTT-AAAAATTTAAAAATACCTCAA
51503798 CGTGCCCCG
130 CGTGCCCCG
51503807 AGGCTCAACTCATTTCTCGCAATATGAGT
1 AGGCTCAACTCATTTCTCGCAATATGAGT
51503836 TGATTTTGAA
Statistics
Matches: 159, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
137 43 0.27
138 116 0.73
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.29
Consensus pattern (138 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACATCGGCGTGC
CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAATTTAAAAATACCTCAAC
GTGCCCCG
Found at i:51503952 original size:329 final size:329
Alignment explanation
Indices: 51503341--51504027 Score: 1277
Period size: 329 Copynumber: 2.1 Consensus size: 329
51503331 AAAAATTAAA
* ** *
51503341 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCTGCGTGC
1 AGGCTCAACTCATTTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
51503406 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAATACCTCAACG
66 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAATACCTCAACG
* ** *
51503471 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAATAAAAATTAAAAGGCT
131 TGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCT
51503536 TAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACATCGGCGTGCCCCGA
196 TAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACATCGGCGTGCCCCGA
51503601 GGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTT-AAAAATTTAAAAATACCTCAACGTGT
261 GGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGT
51503665 CTTG
326 CTTG
51503669 AGGCTCAACTCATTTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
1 AGGCTCAACTCATTTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
51503734 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAAC
66 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTT-AAAATACCTCAAC
51503799 GTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGC
130 GTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGC
*
51503864 TTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCG
195 TTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACATCGGCGTGCCCCG
51503929 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTG
260 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTG
51503994 TCTTG
325 TCTTG
51503999 AGGCTCAACTCATTTCTCGCAATATGAGT
1 AGGCTCAACTCATTTCTCGCAATATGAGT
51504028 TGATTTTGAA
Statistics
Matches: 348, Mismatches: 9, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
328 112 0.32
329 177 0.51
330 59 0.17
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.30
Consensus pattern (329 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAATACCTCAACG
TGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCT
TAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACATCGGCGTGCCCCGA
GGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGT
CTTG
Found at i:51504245 original size:72 final size:70
Alignment explanation
Indices: 51504052--51504246 Score: 205
Period size: 72 Copynumber: 2.7 Consensus size: 70
51504042 AAAAATTAAA
* * * * * * **
51504052 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAATTAAAAATACCTCAACGTG
51504116 CCCCG
66 CCCCG
* *
51504121 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAA-AAAATTTAAAAATACCTCAAC
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGA---TTTTAAAACAAAAATTAAAAATACCTCAAC
* **
51504185 GTGTCTTG
63 GTGCCCCG
*
51504193 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT--AAAACAAAAATTAAAA
51504247 GGCTTAACTC
Statistics
Matches: 103, Mismatches: 16, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
69 30 0.29
70 2 0.02
71 3 0.03
72 62 0.60
73 6 0.06
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAATTAAAAATACCTCAACGTG
CCCCG
Found at i:51504297 original size:194 final size:192
Alignment explanation
Indices: 51503669--51504612 Score: 1734
Period size: 192 Copynumber: 4.9 Consensus size: 192
51503659 ACGTGTCTTG
* **
51503669 AGGCTCAACTCATTTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTG-
1 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
51503733 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAA
66 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAA
* **
51503798 CGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
131 CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
51503860 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
1 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
51503925 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAA
66 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAA
51503990 CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
131 CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
51504052 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
1 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
51504117 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAAAATTTAAAAATACCTC
66 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTTT-AAAAAATTTAAAAATACCTC
51504182 AACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
129 AACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
*
51504246 AGGCTTAACTCACCTCTCGCAATATGAGTTAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
1 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
*
51504311 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTT-AAAAATTTAAAAATACATCAA
66 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAA
51504375 CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTT-AAAAACAAAAATTAAA
131 CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
51504435 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
1 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
51504500 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAAAAATTTAAAAATACCT
66 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTTT--AAAAAATTTAAAAATACCT
*
51504565 CAACGTGTCTTAAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
128 CAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
51504613 CCTTGGAAAA
Statistics
Matches: 734, Mismatches: 11, Indels: 13
0.97 0.01 0.02
Matches are distributed among these distances:
189 116 0.16
190 10 0.01
191 122 0.17
192 225 0.31
193 74 0.10
194 187 0.25
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (192 bp):
AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAA
CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
Found at i:51504494 original size:383 final size:386
Alignment explanation
Indices: 51503669--51504612 Score: 1756
Period size: 386 Copynumber: 2.5 Consensus size: 386
51503659 ACGTGTCTTG
* **
51503669 AGGCTCAACTCATTTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTG-
1 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
51503733 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTTT-AAAAAATTTAAAAATACCTC
66 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAAAATTTAAAAATACCTC
* **
51503796 AACGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
131 AACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
51503861 GGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCC
196 GGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCC
*
51503926 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAAC
261 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACATCAAC
51503991 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
326 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
51504052 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
1 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
51504117 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAAAATTTAAAAATACCTC
66 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAAAATTTAAAAATACCTC
51504182 AACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
131 AACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
*
51504247 GGCTTAACTCACCTCTCGCAATATGAGTTAATTTAAAACATAAACTAAAAATACCTCGGCGTGCC
196 GGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCC
51504312 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTT-AAAAATTTAAAAATACATCAAC
261 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACATCAAC
51504376 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTT-AAAAACAAAAATTAAA
326 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
51504435 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
1 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
51504500 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAAAAATTTAAAAATACCT
66 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTT-AAAAAAATTTAAAAATACCT
*
51504565 CAACGTGTCTTAAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
130 CAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
51504613 CCTTGGAAAA
Statistics
Matches: 548, Mismatches: 9, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
383 186 0.34
384 106 0.19
385 68 0.12
386 188 0.34
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (386 bp):
AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAAAATTTAAAAATACCTC
AACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
GGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCC
CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACATCAAC
GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
Found at i:51512708 original size:16 final size:16
Alignment explanation
Indices: 51512687--51512787 Score: 62
Period size: 18 Copynumber: 6.0 Consensus size: 16
51512677 ACTTTTCCTT
51512687 TTTTTTAAAACACGAA
1 TTTTTTAAAACACGAA
*
51512703 TTTTTTAAAATACAAGAA
1 TTTTTT-AAA-ACACGAA
*
51512721 --TTTTAGAAACACAAA
1 TTTTTTA-AAACACGAA
*
51512736 TTTTTAAAAAAACACGAA
1 TTTTT--TAAAACACGAA
** *
51512754 AATTTTGAAACACGAGA
1 TTTTTTAAAACACGA-A
*
51512771 TTTCTTTGAAACACGAA
1 TTT-TTTAAAACACGAA
51512788 AATTTATGAA
Statistics
Matches: 65, Mismatches: 11, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
15 6 0.09
16 20 0.31
17 9 0.14
18 29 0.45
19 1 0.02
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.32
Consensus pattern (16 bp):
TTTTTTAAAACACGAA
Found at i:51512731 original size:33 final size:34
Alignment explanation
Indices: 51512689--51512773 Score: 95
Period size: 33 Copynumber: 2.5 Consensus size: 34
51512679 TTTTCCTTTT
* * *
51512689 TTTTA-AAACACGAATTTTTTAAAATACA-AGAA
1 TTTTAGAAACACGAATTTTTAAAAAAACACAAAA
*
51512721 TTTTAGAAACACAAATTTTTAAAAAAACACGAAAA
1 TTTTAGAAACACGAATTTTTAAAAAAACAC-AAAA
51512756 TTTT-GAAACACGAGATTT
1 TTTTAGAAACACGA-ATTT
51512774 CTTTGAAACA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
32 5 0.11
33 20 0.45
34 8 0.18
35 11 0.25
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (34 bp):
TTTTAGAAACACGAATTTTTAAAAAAACACAAAA
Found at i:51512799 original size:17 final size:17
Alignment explanation
Indices: 51512745--51513094 Score: 192
Period size: 17 Copynumber: 19.9 Consensus size: 17
51512735 ATTTTTAAAA
51512745 AAACACGAAAA-TTTTG
1 AAACACGAAAATTTTTG
* *
51512761 AAACACGAGATTTCTTTG
1 AAACACGAAAATT-TTTG
*
51512779 AAACACGAAAATTTATG
1 AAACACGAAAATTTTTG
** *
51512796 AAACACGGTCAATTTCTTA
1 AAACAC-GAAAATTT-TTG
*
51512815 AAACACGAAAGTTTTTG
1 AAACACGAAAATTTTTG
* **
51512832 AAAAACGGGAATTTTTTTTTG
1 AAACAC--GAA--AATTTTTG
*
51512853 AAACACGAAAAATTTTG
1 AAACACGAAAATTTTTG
*
51512870 AAACACCG-GAA-TTTTG
1 AAACA-CGAAAATTTTTG
** *
51512886 AAAACACGAGGATTTTTT
1 -AAACACGAAAATTTTTG
* **
51512904 AAATACGAAAA-ACTTG
1 AAACACGAAAATTTTTG
*
51512920 AAAACAAGAAAATTTTTG
1 -AAACACGAAAATTTTTG
* *
51512938 AAATACGAAAATTTTAG
1 AAACACGAAAATTTTTG
51512955 AAACACGAAAATTTTTG
1 AAACACGAAAATTTTTG
*
51512972 AAACAC-AGAAGTTTTTAG
1 AAACACGA-AAATTTTT-G
*
51512990 AAAACACGAAAAATTTTG
1 -AAACACGAAAATTTTTG
* ** *
51513008 AAA-ATTGGAATTTTTTTA
1 AAACA--CGAAAATTTTTG
*
51513026 AAACACGAGAATTTTTG
1 AAACACGAAAATTTTTG
*
51513043 AAAAACATGAAAA-TTTTG
1 --AAACACGAAAATTTTTG
* **
51513061 CAACACGGGAATTTTTG
1 AAACACGAAAATTTTTG
51513078 AAAACACGAAAAATTTT
1 -AAACACG-AAAATTTT
51513095 CTGATTTTTT
Statistics
Matches: 248, Mismatches: 60, Indels: 49
0.69 0.17 0.14
Matches are distributed among these distances:
16 27 0.11
17 110 0.44
18 58 0.23
19 41 0.17
20 1 0.00
21 11 0.04
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.29
Consensus pattern (17 bp):
AAACACGAAAATTTTTG
Found at i:51512868 original size:21 final size:21
Alignment explanation
Indices: 51512826--51512868 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
51512816 AACACGAAAG
** *
51512826 TTTTTGAAAAACGGGAATTTT
1 TTTTTGAAAAACGAAAAATTT
*
51512847 TTTTTGAAACACGAAAAATTT
1 TTTTTGAAAAACGAAAAATTT
51512868 T
1 T
51512869 GAAACACCGG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (21 bp):
TTTTTGAAAAACGAAAAATTT
Found at i:51513022 original size:35 final size:35
Alignment explanation
Indices: 51512919--51513046 Score: 127
Period size: 35 Copynumber: 3.7 Consensus size: 35
51512909 CGAAAAACTT
* **
51512919 GAAAACAAGAAAATTTTTGAAATAC-GAAAATTTTA
1 GAAAACACGAAAATTTTTGAAA-ACAGAAGTTTTTA
51512954 G-AAACACGAAAATTTTTGAAACACAGAAGTTTTTA
1 GAAAACACGAAAATTTTTGAAA-ACAGAAGTTTTTA
* ** *
51512989 GAAAACACGAAAAATTTTGAAAATTGGAA-TTTTTT
1 GAAAACACGAAAATTTTTGAAAA-CAGAAGTTTTTA
* *
51513024 TAAAACACGAGAATTTTTGAAAA
1 GAAAACACGAAAATTTTTGAAAA
51513047 ACATGAAAAT
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
34 21 0.27
35 36 0.46
36 22 0.28
ACGTcount: A:0.49, C:0.08, G:0.13, T:0.30
Consensus pattern (35 bp):
GAAAACACGAAAATTTTTGAAAACAGAAGTTTTTA
Found at i:51513066 original size:35 final size:35
Alignment explanation
Indices: 51513027--51513094 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
51513017 ATTTTTTTAA
*
51513027 AACACGAGAATTTTTGAAAAACATG-AAAATTTTGC
1 AACACGAGAATTTTTG-AAAACACGAAAAATTTTGC
*
51513062 AACACGGGAATTTTTGAAAACACGAAAAATTTT
1 AACACGAGAATTTTTGAAAACACGAAAAATTTT
51513095 CTGATTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 7 0.23
35 23 0.77
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.28
Consensus pattern (35 bp):
AACACGAGAATTTTTGAAAACACGAAAAATTTTGC
Found at i:51513235 original size:22 final size:22
Alignment explanation
Indices: 51513200--51513243 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
51513190 TGTTACCTTA
51513200 TTTTTGAAAAACACGAGAAATTT
1 TTTTTGAAAAACACGA-AAATTT
*
51513223 TTTTTG-AAGACACGAAAATTT
1 TTTTTGAAAAACACGAAAATTT
51513244 CAAAACCCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 8 0.40
23 6 0.30
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (22 bp):
TTTTTGAAAAACACGAAAATTT
Found at i:51513434 original size:17 final size:17
Alignment explanation
Indices: 51513408--51513456 Score: 73
Period size: 17 Copynumber: 2.8 Consensus size: 17
51513398 AAAATTATTT
51513408 AAAA-TAAATTAAATTA
1 AAAATTAAATTAAATTA
51513424 AAAATTAAATTAAATTA
1 AAAATTAAATTAAATTA
51513441 AAAATATAAATATAAA
1 AAAAT-TAAAT-TAAA
51513457 AATGCATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
16 4 0.13
17 17 0.57
18 5 0.17
19 4 0.13
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATTAAATTAAATTA
Found at i:51513459 original size:14 final size:12
Alignment explanation
Indices: 51513413--51513437 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51513403 TATTTAAAAT
51513413 AAATTAAATTAA
1 AAATTAAATTAA
51513425 AAATTAAATTAA
1 AAATTAAATTAA
51513437 A
1 A
51513438 TTAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATTAAATTAA
Found at i:51513645 original size:22 final size:22
Alignment explanation
Indices: 51513593--51513651 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
51513583 ATTGAACCTC
51513593 TTTTTTCTTTTTTTCCTTCTTT
1 TTTTTTCTTTTTTTCCTTCTTT
* *
51513615 TTTCCTTCTCTTTTT-CTTCTTT
1 TTT-TTTCTTTTTTTCCTTCTTT
51513637 TTCTTTTCTTTTTTT
1 TT-TTTTCTTTTTTT
51513652 TTTTCTGCTG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 21 0.68
23 10 0.32
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTTTCTTTTTTTCCTTCTTT
Found at i:51513654 original size:11 final size:11
Alignment explanation
Indices: 51513593--51513651 Score: 68
Period size: 11 Copynumber: 5.4 Consensus size: 11
51513583 ATTGAACCTC
51513593 TTTT-TTCTTT
1 TTTTCTTCTTT
51513603 TTTTCCTTCTTT
1 TTTT-CTTCTTT
* *
51513615 TTTCCTTCTCT
1 TTTTCTTCTTT
51513626 TTTTCTTCTTT
1 TTTTCTTCTTT
51513637 TTCTT-TTCTTT
1 TT-TTCTTCTTT
51513648 TTTT
1 TTTT
51513652 TTTTCTGCTG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
10 6 0.14
11 25 0.60
12 11 0.26
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTCTTCTTT
Found at i:51513944 original size:17 final size:19
Alignment explanation
Indices: 51513909--51513947 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
51513899 TGTTATAATA
*
51513909 TTTTTTATTATTTCTTTTC
1 TTTTTCATTATTTCTTTTC
51513928 TTTTTCATT-TTTC-TTTC
1 TTTTTCATTATTTCTTTTC
51513945 TTT
1 TTT
51513948 CTTCTTCCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 4 0.21
19 8 0.42
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTCATTATTTCTTTTC
Found at i:51513945 original size:22 final size:22
Alignment explanation
Indices: 51513919--51513978 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 22
51513909 TTTTTTATTA
*
51513919 TTTCTTTTCTTTTTCAT-TTTTC
1 TTTC-TTTCTTCTTCATCTTTTC
*
51513941 TTTCTTTCTTCTTCCTCTTTTC
1 TTTCTTTCTTCTTCATCTTTTC
*
51513963 TTATTCCTTCTTCTTC
1 -T-TTCTTTCTTCTTC
51513979 CTTCCTTCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 10 0.31
22 9 0.28
23 1 0.03
24 12 0.38
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTCTTTCTTCTTCATCTTTTC
Found at i:51513964 original size:14 final size:13
Alignment explanation
Indices: 51513919--51513992 Score: 53
Period size: 14 Copynumber: 5.5 Consensus size: 13
51513909 TTTTTTATTA
51513919 TTTCTT-TT-CTT
1 TTTCTTCTTCCTT
* *
51513930 TTTCATTTTTCTTT
1 TTTC-TTCTTCCTT
51513944 CTTTCTTCTTCCTCT
1 -TTTCTTCTTCCT-T
*
51513959 TTTCTTATTCCTT
1 TTTCTTCTTCCTT
*
51513972 CTTCTTCCTTCCTT
1 TTTCTT-CTTCCTT
*
51513986 CTTCTTC
1 TTTCTTC
51513993 AAAGTCTAGC
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
11 4 0.08
12 2 0.04
13 9 0.18
14 31 0.61
15 5 0.10
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTCTTCTTCCTT
Found at i:51513977 original size:35 final size:35
Alignment explanation
Indices: 51513921--51513989 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
51513911 TTTTATTATT
* * * *
51513921 TCTTTTCTTTTTCATTTTTCTTTCTTTCTTCTTCC
1 TCTTTTCTTATTCATTCTTCTTCCTTCCTTCTTCC
*
51513956 TCTTTTCTTATTCCTTCTTCTTCCTTCCTTCTTC
1 TCTTTTCTTATTCATTCTTCTTCCTTCCTTCTTC
51513990 TTCAAAGTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.67
Consensus pattern (35 bp):
TCTTTTCTTATTCATTCTTCTTCCTTCCTTCTTCC
Found at i:51514399 original size:29 final size:28
Alignment explanation
Indices: 51514366--51514475 Score: 105
Period size: 29 Copynumber: 3.8 Consensus size: 28
51514356 TGTAATTTTT
*
51514366 AGAAAATTTAGGATTAAAATGAAATTTA
1 AGAAAATTTAGGGTTAAAATGAAATTTA
* *
51514394 ATGAAAGTTTAGGGTCT-AAGTGAAATTTAA
1 A-GAAAATTTAGGGT-TAAAATGAAATTT-A
* *
51514424 AGAAAGTTTAAGGGTCAAAATGAAATTTA
1 AGAAAATTT-AGGGTTAAAATGAAATTTA
*
51514453 AGAAAAGTTTAGGGGTCAAAATG
1 AGAAAA-TTTA-GGGTTAAAATG
51514476 CAGTTTTTAT
Statistics
Matches: 69, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
28 1 0.01
29 36 0.52
30 32 0.46
ACGTcount: A:0.46, C:0.03, G:0.22, T:0.29
Consensus pattern (28 bp):
AGAAAATTTAGGGTTAAAATGAAATTTA
Found at i:51514448 original size:30 final size:30
Alignment explanation
Indices: 51514381--51514475 Score: 131
Period size: 30 Copynumber: 3.2 Consensus size: 30
51514371 ATTTAGGATT
*
51514381 AAAATGAAATTTAATGAAAGTTT-AGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAAGGGTC
* *
51514410 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAAGGGTC
*
51514440 AAAATGAAATTT-AAGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAAGGGTC
51514470 AAAATG
1 AAAATG
51514476 CAGTTTTTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
29 23 0.40
30 35 0.60
ACGTcount: A:0.46, C:0.03, G:0.22, T:0.28
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAAGGGTC
Found at i:51514783 original size:33 final size:33
Alignment explanation
Indices: 51514704--51514786 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 33
51514694 AGATAGTCCG
* * * *
51514704 CTAGGACAGTAAACACATAATAAAAATAGTCTT
1 CTAGGACAGTAAACACAAAACAAAAATAATCTA
* * *
51514737 CT-GAGACAATAAACACAAAACAGAGATAATCTA
1 CTAG-GACAGTAAACACAAAACAAAAATAATCTA
51514770 CTAGGACAGTAAACACA
1 CTAGGACAGTAAACACA
51514787 GAATAAAGAT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
32 1 0.03
33 38 0.95
34 1 0.03
ACGTcount: A:0.51, C:0.18, G:0.13, T:0.18
Consensus pattern (33 bp):
CTAGGACAGTAAACACAAAACAAAAATAATCTA
Found at i:51520766 original size:19 final size:20
Alignment explanation
Indices: 51520738--51520782 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
51520728 ACATTTATAA
* *
51520738 AAAAACTATTTTAATAATT-
1 AAAAATTATTTAAATAATTC
*
51520757 AAAAATTATTTAAATTATTC
1 AAAAATTATTTAAATAATTC
51520777 AAAAAT
1 AAAAAT
51520783 ATAAAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAATTATTTAAATAATTC
Found at i:51523804 original size:18 final size:20
Alignment explanation
Indices: 51523781--51523826 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
51523771 TAATAATAAC
51523781 AAATAAAGAAAGAA-AAA-G
1 AAATAAAGAAAGAACAAATG
51523799 AAAT-AA-AAAGAACAAATG
1 AAATAAAGAAAGAACAAATG
51523817 AAA-AAAGAAA
1 AAATAAAGAAA
51523827 ATCAGAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
16 6 0.25
17 5 0.21
18 10 0.42
19 3 0.12
ACGTcount: A:0.78, C:0.02, G:0.13, T:0.07
Consensus pattern (20 bp):
AAATAAAGAAAGAACAAATG
Found at i:51523859 original size:21 final size:22
Alignment explanation
Indices: 51523819--51523864 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
51523809 AACAAATGAA
*
51523819 AAAAGAAAATCAGAAAGGAAAG
1 AAAAGAAAAACAGAAAGGAAAG
*
51523841 AAAAGAAAAAC-GGAAGGAAAG
1 AAAAGAAAAACAGAAAGGAAAG
51523862 AAA
1 AAA
51523865 GAAGAAAGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.70, C:0.04, G:0.24, T:0.02
Consensus pattern (22 bp):
AAAAGAAAAACAGAAAGGAAAG
Found at i:51535763 original size:3 final size:3
Alignment explanation
Indices: 51535755--51535779 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
51535745 GCCCTCTTGA
51535755 CTG CTG CTG CTG CTG CTG CTG CTG C
1 CTG CTG CTG CTG CTG CTG CTG CTG C
51535780 CCCATCTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.32, T:0.32
Consensus pattern (3 bp):
CTG
Found at i:51537938 original size:2 final size:2
Alignment explanation
Indices: 51537933--51537991 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
51537923 ATATATATAT
51537933 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
51537975 AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG A
51537992 CAATCTTTTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:51540313 original size:20 final size:20
Alignment explanation
Indices: 51540267--51540315 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
51540257 ATGAAAATAG
**
51540267 ACATATAAGAAATTTAGAAAA
1 ACATATAA-AAAGCTAGAAAA
*
51540288 A-TTATAAAAAGCTAGAAAA
1 ACATATAAAAAGCTAGAAAA
51540307 ACATATAAA
1 ACATATAAA
51540316 TTATTAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 11 0.48
20 11 0.48
21 1 0.04
ACGTcount: A:0.63, C:0.06, G:0.08, T:0.22
Consensus pattern (20 bp):
ACATATAAAAAGCTAGAAAA
Found at i:51540516 original size:11 final size:10
Alignment explanation
Indices: 51540486--51540575 Score: 60
Period size: 10 Copynumber: 8.6 Consensus size: 10
51540476 TTACTTGAAA
51540486 TTTAAATATT
1 TTTAAATATT
***
51540496 TTTTTTTATT
1 TTTAAATATT
51540506 TTTATAATATT
1 TTTA-AATATT
51540517 TTTAAAT-TT
1 TTTAAATATT
51540526 TTTAAAT-TT
1 TTTAAATATT
*
51540535 ATAATTATATATT
1 -T--TTAAATATT
51540548 TTTAAAT-TT
1 TTTAAATATT
51540557 TATTAAAAATATT
1 T-TT--AAATATT
51540570 TTTAAA
1 TTTAAA
51540576 ATTATATATT
Statistics
Matches: 63, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
9 14 0.22
10 24 0.38
11 8 0.13
12 12 0.19
13 5 0.08
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTAAATATT
Done.