Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 129 of 168
Found at i:37547543 original size:14 final size:14
Alignment explanation
Indices: 37547524--37547557 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
37547514 TATAGTTTAG
*
37547524 GGTTTAATATATAT
1 GGTTTAAGATATAT
*
37547538 GGTTTAAGGTATAT
1 GGTTTAAGATATAT
37547552 GGTTTA
1 GGTTTA
37547558 GGGTATAGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (14 bp):
GGTTTAAGATATAT
Found at i:37547562 original size:14 final size:14
Alignment explanation
Indices: 37547533--37547569 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
37547523 GGGTTTAATA
37547533 TATATGGTTTAAGG
1 TATATGGTTTAAGG
*
37547547 TATATGGTTTAGGG
1 TATATGGTTTAAGG
*
37547561 TATAGGGTT
1 TATATGGTT
37547570 AATTTATGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.43
Consensus pattern (14 bp):
TATATGGTTTAAGG
Found at i:37547637 original size:7 final size:7
Alignment explanation
Indices: 37547627--37547657 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
37547617 AGATTATGGA
37547627 ATTAGGG
1 ATTAGGG
*
37547634 ATTATGG
1 ATTAGGG
37547641 ATTAGGG
1 ATTAGGG
37547648 ATTAGGG
1 ATTAGGG
37547655 ATT
1 ATT
37547658 CTGGTTTAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.35
Consensus pattern (7 bp):
ATTAGGG
Found at i:37547646 original size:14 final size:14
Alignment explanation
Indices: 37547618--37547657 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
37547608 AAGGTTTATA
37547618 GATTATGGAATTAGG
1 GATTATGG-ATTAGG
37547633 GATTATGGATTAGG
1 GATTATGGATTAGG
*
37547647 GATTAGGGATT
1 GATTATGGATT
37547658 CTGGTTTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.30, C:0.00, G:0.35, T:0.35
Consensus pattern (14 bp):
GATTATGGATTAGG
Found at i:37552057 original size:54 final size:54
Alignment explanation
Indices: 37551953--37552061 Score: 164
Period size: 54 Copynumber: 2.0 Consensus size: 54
37551943 GTTAAAAACG
* **
37551953 CCGCTAAAGGTCATGGTCTTTAGCGGTGTTTGTGGGAAAAGCGTCACTAAAGGT
1 CCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCACCACTAAAGGT
* * *
37552007 CCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAGAAGCACCGCTAAAGGT
1 CCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCACCACTAAAGGT
37552061 C
1 C
37552062 TTGGTTTTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (54 bp):
CCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCACCACTAAAGGT
Found at i:37552072 original size:43 final size:43
Alignment explanation
Indices: 37552007--37552162 Score: 213
Period size: 43 Copynumber: 3.6 Consensus size: 43
37551997 CACTAAAGGT
* *
37552007 CCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAGAAGCA
1 CCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCG
* * * * *
37552050 CCGCTAAAGGTCTTGGTTTTTAGTGACGTTTGTGAGAAAAGTG
1 CCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCG
**
37552093 CCGCTAAAGGTCTCAGTCTTTAGCGGCGTTTGTGGGAAAAGCG
1 CCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCG
* *
37552136 TCGTTAAAGGTCTTGGTCTTTAGCGGC
1 CCGCTAAAGGTCTTGGTCTTTAGCGGC
37552163 ATTTTTTTCT
Statistics
Matches: 95, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 95 1.00
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.31
Consensus pattern (43 bp):
CCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCG
Found at i:37554063 original size:21 final size:21
Alignment explanation
Indices: 37554038--37554090 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
37554028 AGCTTTCGGC
*
37554038 AGGGTTGTGGTTGCTCCAGTG
1 AGGGTTGTGGTTGCTCCAGCG
*
37554059 AGGGTTGTGGTTGCTCCGGCG
1 AGGGTTGTGGTTGCTCCAGCG
*
37554080 GGGGTTGTGGT
1 AGGGTTGTGGT
37554091 AGTTCTGGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.06, C:0.13, G:0.49, T:0.32
Consensus pattern (21 bp):
AGGGTTGTGGTTGCTCCAGCG
Found at i:37554368 original size:18 final size:18
Alignment explanation
Indices: 37554342--37554385 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
37554332 AACTGGGAAA
* *
37554342 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
37554360 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
37554378 AGGATACA
1 AGGATACA
37554386 CACCTGGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.09, G:0.27, T:0.20
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:37555922 original size:25 final size:24
Alignment explanation
Indices: 37555885--37555936 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
37555875 GCTATTATAA
* *
37555885 AAAATTATAAAATAAAAATTAATT
1 AAAATTAAAAAATAAAAATAAATT
*
37555909 AAAATTAAATAAATGAAAATAAATT
1 AAAATTAAA-AAATAAAAATAAATT
37555934 AAA
1 AAA
37555937 TAATATTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (24 bp):
AAAATTAAAAAATAAAAATAAATT
Found at i:37557014 original size:27 final size:27
Alignment explanation
Indices: 37556976--37557052 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
37556966 CCCTGGGTGG
37556976 AGGGAAGCAGGTTGGCGGCACCAAACA
1 AGGGAAGCAGGTTGGCGGCACCAAACA
** *
37557003 AGGGAAGCAGGTTGGCGGCACCAGTCG
1 AGGGAAGCAGGTTGGCGGCACCAAACA
* *
37557030 AGTGAACCAGGTTGGCGGCACCA
1 AGGGAAGCAGGTTGGCGGCACCA
37557053 GTCCTGCCAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.27, C:0.23, G:0.39, T:0.10
Consensus pattern (27 bp):
AGGGAAGCAGGTTGGCGGCACCAAACA
Found at i:37557064 original size:27 final size:27
Alignment explanation
Indices: 37556983--37557077 Score: 91
Period size: 27 Copynumber: 3.5 Consensus size: 27
37556973 TGGAGGGAAG
** * ** *
37556983 CAGGTTGGCGGCACCAAACAAGGGAAG
1 CAGGTTGGCGGCACCAGTCCAGCCAAC
* **
37557010 CAGGTTGGCGGCACCAGTCGAGTGAAC
1 CAGGTTGGCGGCACCAGTCCAGCCAAC
*
37557037 CAGGTTGGCGGCACCAGTCCTGCCAAC
1 CAGGTTGGCGGCACCAGTCCAGCCAAC
*
37557064 CAGATTGGCGGCAC
1 CAGGTTGGCGGCAC
37557078 TACTCGTGTT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.24, C:0.28, G:0.35, T:0.13
Consensus pattern (27 bp):
CAGGTTGGCGGCACCAGTCCAGCCAAC
Found at i:37557369 original size:3 final size:3
Alignment explanation
Indices: 37557363--37557403 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
37557353 AAAAATTTTA
37557363 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
37557404 AGATGTTACT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:37558215 original size:18 final size:18
Alignment explanation
Indices: 37558187--37558231 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
37558177 TTGATATGGT
* *
37558187 TGGTGGTGAAGAAGAATG
1 TGGTGGCGAAGAAGAAGG
*
37558205 TGGTTGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
37558223 TGGTGGCGA
1 TGGTGGCGA
37558232 TCATTGGGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.04, G:0.47, T:0.20
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:37559518 original size:10 final size:10
Alignment explanation
Indices: 37559505--37559657 Score: 57
Period size: 10 Copynumber: 16.1 Consensus size: 10
37559495 TCCTTCCCTC
37559505 TTCTTCTTCT
1 TTCTTCTTCT
*
37559515 TTCTT-TTTT
1 TTCTTCTTCT
37559524 TCTCTTCTTCT
1 T-TCTTCTTCT
37559535 TTCCTT-TTCT
1 TT-CTTCTTCT
*
37559545 TTC--CTTAT
1 TTCTTCTTCT
37559553 TT-TTCTTTCT
1 TTCTTC-TTCT
* **
37559563 TTCCTCCCCT
1 TTCTTCTTCT
37559573 TTCCTT-TTCT
1 TT-CTTCTTCT
37559583 TTC--CTTCT
1 TTCTTCTTCT
37559591 TT-TTCTTTCT
1 TTCTTC-TTCT
* **
37559601 TTCCTCACCT
1 TTCTTCTTCT
37559611 TTC--CTT-T
1 TTCTTCTTCT
*
37559618 TCCTTCTT-T
1 TTCTTCTTCT
37559627 TTCTTC--CT
1 TTCTTCTTCT
37559635 TTCTTCCTTTCT
1 TTCTT-C-TTCT
37559647 TTCTTCTTCT
1 TTCTTCTTCT
37559657 T
1 T
37559658 CCACTGTCCT
Statistics
Matches: 105, Mismatches: 17, Indels: 42
0.64 0.10 0.26
Matches are distributed among these distances:
7 3 0.03
8 18 0.17
9 18 0.17
10 45 0.43
11 14 0.13
12 7 0.07
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (10 bp):
TTCTTCTTCT
Found at i:37559529 original size:23 final size:24
Alignment explanation
Indices: 37559502--37559657 Score: 73
Period size: 24 Copynumber: 6.6 Consensus size: 24
37559492 CCTTCCTTCC
37559502 CTCTTCTTCTTCTTTCTTTT-TTT
1 CTCTTCTTCTTCTTTCTTTTCTTT
*
37559525 CTCTTCTTC-T-TTCCTTTTCTTT
1 CTCTTCTTCTTCTTTCTTTTCTTT
* *
37559547 C-CTTATTTTTCTTTCTTTCCTCCCCTTT
1 CTCTTCTTCTTCTTTCTTT--T---CTTT
*
37559575 C-CTT-TTCTTTCCTTCTTTTTCTTT
1 CTCTTCTTC-TTCTTTC-TTTTCTTT
* ** *
37559599 CT-TTCCTCACCTTTCCTTTTCCTT
1 CTCTTCTTCTTCTTT-CTTTTCTTT
*
37559623 CT-TT-TTCTTCCTTTC-TTCCTTT
1 CTCTTCTTCTT-CTTTCTTTTCTTT
37559645 CT-TTCTTCTTCTT
1 CTCTTCTTCTTCTT
37559658 CCACTGTCCT
Statistics
Matches: 102, Mismatches: 16, Indels: 31
0.68 0.11 0.21
Matches are distributed among these distances:
21 12 0.12
22 18 0.18
23 23 0.23
24 25 0.25
25 4 0.04
27 3 0.03
28 14 0.14
29 3 0.03
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.66
Consensus pattern (24 bp):
CTCTTCTTCTTCTTTCTTTTCTTT
Found at i:37559531 original size:20 final size:19
Alignment explanation
Indices: 37559507--37559605 Score: 87
Period size: 20 Copynumber: 5.1 Consensus size: 19
37559497 CTTCCCTCTT
37559507 CTTCTTCTTTCTTTTTTTC
1 CTTCTTCTTTCTTTTTTTC
37559526 TCTTCTTCTTTCCTTTTCTTTC
1 -CTTCTTCTTT-CTTTT-TTTC
* *
37559548 CTTATT-TTTCTTTCTTTC
1 CTTCTTCTTTCTTTTTTTC
**
37559566 C-TCCCCTTTCCTTTTCTTTC
1 CTTCTTCTTT-CTTTT-TTTC
*
37559586 CTTCTT-TTTCTTTCTTTC
1 CTTCTTCTTTCTTTTTTTC
37559604 CT
1 CT
37559606 CACCTTTCCT
Statistics
Matches: 64, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
17 1 0.02
18 14 0.22
19 12 0.19
20 21 0.33
21 12 0.19
22 4 0.06
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (19 bp):
CTTCTTCTTTCTTTTTTTC
Found at i:37559561 original size:18 final size:18
Alignment explanation
Indices: 37559507--37559651 Score: 93
Period size: 18 Copynumber: 7.9 Consensus size: 18
37559497 CTTCCCTCTT
*
37559507 CTTCTTCTTTCTTTTTTTC
1 CTTCTT-TTTCTTTCTTTC
37559526 TCTTCTTCTTTCCTTTTCTTTC
1 -CTTCTT-TTT-C-TTTCTTTC
*
37559548 CTTATTTTTCTTTCTTTC
1 CTTCTTTTTCTTTCTTTC
* * *
37559566 CTCCCCTTTCCTTTTCTTTC
1 CT-TCTTTTTC-TTTCTTTC
37559586 CTTCTTTTTCTTTCTTTC
1 CTTCTTTTTCTTTCTTTC
** *
37559604 C-TCACCTTTC-CT-TTTC
1 CTTC-TTTTTCTTTCTTTC
*
37559620 CTTCTTTTTCTTCCTTT-
1 CTTCTTTTTCTTTCTTTC
*
37559637 CTTC-CTTTCTTTCTT
1 CTTCTTTTTCTTTCTT
37559652 CTTCTTCCAC
Statistics
Matches: 99, Mismatches: 18, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
16 18 0.18
17 9 0.09
18 26 0.26
19 10 0.10
20 23 0.23
21 6 0.06
22 7 0.07
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.66
Consensus pattern (18 bp):
CTTCTTTTTCTTTCTTTC
Found at i:37559639 original size:38 final size:38
Alignment explanation
Indices: 37559533--37559619 Score: 156
Period size: 38 Copynumber: 2.3 Consensus size: 38
37559523 TTCTCTTCTT
*
37559533 CTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCCC
1 CTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCAC
*
37559571 CTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTCAC
1 CTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCAC
37559609 CTTTCCTTTTC
1 CTTTCCTTTTC
37559620 CTTCTTTTTC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.63
Consensus pattern (38 bp):
CTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCAC
Found at i:37559815 original size:18 final size:18
Alignment explanation
Indices: 37559787--37559831 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
37559777 CGGTTCAGGT
37559787 TTTTTTCTGTTTTTTATTA
1 TTTTTT-TGTTTTTTATTA
* *
37559806 TTTTTTTGTTTTTTTTTG
1 TTTTTTTGTTTTTTATTA
37559824 TTTTTTTG
1 TTTTTTTG
37559832 ATATATTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.04, C:0.02, G:0.09, T:0.84
Consensus pattern (18 bp):
TTTTTTTGTTTTTTATTA
Found at i:37559840 original size:28 final size:28
Alignment explanation
Indices: 37559785--37559841 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
37559775 ATCGGTTCAG
* *
37559785 GTTTTTTTCTGTTTTTTATTATTTTTTT
1 GTTTTTTTCTGTTTTTTATGATTATTTT
*
37559813 GTTTTTTTTTGTTTTTT-TGATATATTTT
1 GTTTTTTTCTGTTTTTTATGAT-TATTTT
37559841 G
1 G
37559842 ATAAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 3 0.12
28 22 0.88
ACGTcount: A:0.09, C:0.02, G:0.11, T:0.79
Consensus pattern (28 bp):
GTTTTTTTCTGTTTTTTATGATTATTTT
Found at i:37559895 original size:28 final size:27
Alignment explanation
Indices: 37559836--37559900 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
37559826 TTTTTGATAT
* *
37559836 ATTTTGATAAATAAAAAAATTATATAT
1 ATTTTGGTAAATAAAAAAATTATATAC
*
37559863 TTTTTGGTAAATAAAAAAAAGTTATA-AC
1 ATTTTGGTAAAT-AAAAAAA-TTATATAC
37559891 ATTTTGGTAA
1 ATTTTGGTAA
37559901 TTTTTTATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 10 0.31
28 17 0.53
29 5 0.16
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (27 bp):
ATTTTGGTAAATAAAAAAATTATATAC
Found at i:37560251 original size:23 final size:23
Alignment explanation
Indices: 37560218--37560263 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
37560208 TAAAATGTAA
*
37560218 ATTTAATTATTAATATTATTAAAT
1 ATTTAATTATTAAAATT-TTAAAT
37560242 ATTT-ATTATTAAAATTTTAAAT
1 ATTTAATTATTAAAATTTTAAAT
37560264 TAAAACAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 6 0.29
23 11 0.52
24 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
ATTTAATTATTAAAATTTTAAAT
Found at i:37563239 original size:22 final size:21
Alignment explanation
Indices: 37563196--37563243 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
37563186 TTAGGGTTTT
37563196 ATAATTTTATAAAAATATTTA
1 ATAATTTTATAAAAATATTTA
* *
37563217 ACTAATTTT-TAGAATTATATTA
1 A-TAATTTTATAAAAATAT-TTA
37563239 ATAAT
1 ATAAT
37563244 AAAATATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
ATAATTTTATAAAAATATTTA
Found at i:37575997 original size:23 final size:25
Alignment explanation
Indices: 37575965--37576010 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
37575955 TGGAATGGAT
37575965 TTTACTTTTTAAAT-TTTTTTACAA
1 TTTACTTTTTAAATATTTTTTACAA
37575989 TTTA-TTTTTAAATATTTTTTAC
1 TTTACTTTTTAAATATTTTTTAC
37576011 TAATAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (25 bp):
TTTACTTTTTAAATATTTTTTACAA
Found at i:37576103 original size:27 final size:28
Alignment explanation
Indices: 37576068--37576125 Score: 66
Period size: 30 Copynumber: 2.0 Consensus size: 28
37576058 TTTATTCTAA
37576068 TTTTGATTC-ATTAT-ATTCATATGGATT
1 TTTTGATTCAATTATAATT-ATATGGATT
*
37576095 TTTTTATTCTAATTATACATTATATGGATT
1 TTTTGATTC-AATTATA-ATTATATGGATT
37576125 T
1 T
37576126 CATTCTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
27 8 0.31
29 5 0.19
30 10 0.38
31 3 0.12
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.57
Consensus pattern (28 bp):
TTTTGATTCAATTATAATTATATGGATT
Found at i:37590463 original size:41 final size:41
Alignment explanation
Indices: 37590379--37590528 Score: 216
Period size: 40 Copynumber: 3.7 Consensus size: 41
37590369 ACCAAAAATT
*
37590379 TATTTTAAAAATTAAAACAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATT-TAA-AAAAATTAAAAAAAGTATTTTAAAAA
37590423 TATTTTAAAATTTAAAAAAATT-AAAAAAGTATTTTAAAAA
1 TATTTTAAAATTTAAAAAAATTAAAAAAAGTATTTTAAAAA
* * *
37590463 AATTTTAAAATTTAAAAAATTTAAAAAAAGTATTTTAAAAG
1 TATTTTAAAATTTAAAAAAATTAAAAAAAGTATTTTAAAAA
37590504 TATTTTAAAA-TTAAAAAAA-TAAAAA
1 TATTTTAAAATTTAAAAAAATTAAAAA
37590529 TATTTAATAT
Statistics
Matches: 99, Mismatches: 6, Indels: 7
0.88 0.05 0.06
Matches are distributed among these distances:
39 6 0.06
40 46 0.46
41 33 0.33
42 2 0.02
43 6 0.06
44 6 0.06
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.35
Consensus pattern (41 bp):
TATTTTAAAATTTAAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:37590480 original size:30 final size:29
Alignment explanation
Indices: 37590439--37590502 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 29
37590429 AAAATTTAAA
*
37590439 AAAATTAAAAAAGTATTTTAAAAAA-ATTTT
1 AAAATTAAAAAA--ATTTAAAAAAAGATTTT
*
37590469 AAAATTTAAAAAATTTAAAAAAAGTATTTT
1 AAAATTAAAAAAATTTAAAAAAAG-ATTTT
37590499 AAAA
1 AAAA
37590503 GTATTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 10 0.33
30 20 0.67
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (29 bp):
AAAATTAAAAAAATTTAAAAAAAGATTTT
Found at i:37591889 original size:139 final size:139
Alignment explanation
Indices: 37591639--37591919 Score: 445
Period size: 139 Copynumber: 2.0 Consensus size: 139
37591629 CCCAAAATTT
* * * * * * *
37591639 CTTCCATCGTTCTGACGTTTATTCACCCCTTTTCTGCCGAATTTTTATTGTTTCCTCCCTTTTTT
1 CTTCCATCATTCTGACGTTTATTCACCCATTGTCTGCCGAATTTTCATCGATTCCTCCCTCTTTT
*
37591704 CTTTTGATTTCTTTTATGCCTCCATCGTGCTCGACGATTGAACTCGCTCAATTCGGTAAGTATTC
66 CTTTTGATTTCTTTTATGCCTCCATCGTGCTCGACGATTGAACTCGCTCAATTCGATAAGTATTC
37591769 GTTTTGCCA
131 GTTTTGCCA
*
37591778 CTTCCATCATTTTGACGTTTATTCACCCATTGTCTGCCGAATTTTCATCGATTCCTCCCTCTTTT
1 CTTCCATCATTCTGACGTTTATTCACCCATTGTCTGCCGAATTTTCATCGATTCCTCCCTCTTTT
* **
37591843 CTTTTGATTTCTTTTATGCCTCCATCGTGGTCGACGATTGAACTCGCTTGATTCGATAAGTATTC
66 CTTTTGATTTCTTTTATGCCTCCATCGTGCTCGACGATTGAACTCGCTCAATTCGATAAGTATTC
*
37591908 GTTTTGTCA
131 GTTTTGCCA
37591917 CTT
1 CTT
37591920 TCTCTCGTTC
Statistics
Matches: 129, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
139 129 1.00
ACGTcount: A:0.15, C:0.26, G:0.14, T:0.45
Consensus pattern (139 bp):
CTTCCATCATTCTGACGTTTATTCACCCATTGTCTGCCGAATTTTCATCGATTCCTCCCTCTTTT
CTTTTGATTTCTTTTATGCCTCCATCGTGCTCGACGATTGAACTCGCTCAATTCGATAAGTATTC
GTTTTGCCA
Found at i:37601981 original size:1 final size:1
Alignment explanation
Indices: 37601975--37602004 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
37601965 TGTCGATTAC
37601975 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
37602005 CAACAACAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:37607249 original size:20 final size:20
Alignment explanation
Indices: 37607226--37607272 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
37607216 CAAAAGAAAA
37607226 AATCGATTCAAAAAATTAGC
1 AATCGATTCAAAAAATTAGC
* *
37607246 AATCGATTCAAAATATTATC
1 AATCGATTCAAAAAATTAGC
37607266 AATCGAT
1 AATCGAT
37607273 ACGAACAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.30
Consensus pattern (20 bp):
AATCGATTCAAAAAATTAGC
Found at i:37607381 original size:42 final size:42
Alignment explanation
Indices: 37607322--37607444 Score: 176
Period size: 42 Copynumber: 2.9 Consensus size: 42
37607312 ATTTTTGAAC
* *
37607322 ATTAGCTTGCTCACAAACGTGTAGCAAGGAAACATGAAAAAT
1 ATTAGCTTGCTCACAAACGTGCAGCAAGGAAGCATGAAAAAT
* *
37607364 ATTAGCTTGCTAACAAACGTGCAACAAAGG-AGCATGAAAAAT
1 ATTAGCTTGCTCACAAACGTGCAGC-AAGGAAGCATGAAAAAT
* *
37607406 ATCAGCTTACTCACAAACGTGCAGCAAGGAAGCATGAAA
1 ATTAGCTTGCTCACAAACGTGCAGCAAGGAAGCATGAAA
37607445 CAATCTGCTC
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
41 4 0.06
42 63 0.89
43 4 0.06
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.19
Consensus pattern (42 bp):
ATTAGCTTGCTCACAAACGTGCAGCAAGGAAGCATGAAAAAT
Found at i:37611044 original size:18 final size:19
Alignment explanation
Indices: 37611021--37611058 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
37611011 GGAAGCAGGC
*
37611021 AATGATTGAAGA-AATCAG
1 AATGATTGAAAAGAATCAG
37611039 AATGATTGAAAAGAATCAG
1 AATGATTGAAAAGAATCAG
37611058 A
1 A
37611059 CCTGGAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGATTGAAAAGAATCAG
Found at i:37622048 original size:26 final size:26
Alignment explanation
Indices: 37622019--37622070 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
37622009 AAAAAGAAAG
37622019 TTTTT-TATTAATTAAAGA-AAAATAA
1 TTTTTGTATTAATTAAA-ATAAAATAA
*
37622044 TTTTTGTATTATTTAAAATAAAATAA
1 TTTTTGTATTAATTAAAATAAAATAA
37622070 T
1 T
37622071 GATTATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (26 bp):
TTTTTGTATTAATTAAAATAAAATAA
Found at i:37652468 original size:46 final size:46
Alignment explanation
Indices: 37652403--37652491 Score: 178
Period size: 46 Copynumber: 1.9 Consensus size: 46
37652393 CAAGAGAGGG
37652403 AGAAGAGAAGAATAAAATGTATTATTATTTTTATTGTTATTTTTGA
1 AGAAGAGAAGAATAAAATGTATTATTATTTTTATTGTTATTTTTGA
37652449 AGAAGAGAAGAATAAAATGTATTATTATTTTTATTGTTATTTT
1 AGAAGAGAAGAATAAAATGTATTATTATTTTTATTGTTATTTT
37652492 CGAATATAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.46
Consensus pattern (46 bp):
AGAAGAGAAGAATAAAATGTATTATTATTTTTATTGTTATTTTTGA
Found at i:37654527 original size:43 final size:43
Alignment explanation
Indices: 37654383--37654539 Score: 139
Period size: 43 Copynumber: 3.7 Consensus size: 43
37654373 TGTGATTTTG
*
37654383 TGTAAGACCACGTCTGGGAC-GATGGCATCGATT-TGA-GATTTGCA
1 TGTAAGACCACGTCTGGGACAG-TGGCATC-ATTAT-ATGA-TTACA
* * * *
37654427 TGTAAGACCATGTCTGGGACATTGGCATC-GTATATGGTTA-A
1 TGTAAGACCACGTCTGGGACAGTGGCATCATTATATGATTACA
* *
37654468 GTGTAAGACC-CTGTCTGGGACAGTGACATCATTATTTGATTACA
1 -TGTAAGACCAC-GTCTGGGACAGTGGCATCATTATATGATTACA
37654512 TGTAAGACCACGTCTGGGAC-GTTGGCAT
1 TGTAAGACCACGTCTGGGACAG-TGGCAT
37654540 TGTACGAGCT
Statistics
Matches: 92, Mismatches: 12, Indels: 19
0.75 0.10 0.15
Matches are distributed among these distances:
41 1 0.01
42 30 0.33
43 33 0.36
44 28 0.30
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCATTATATGATTACA
Found at i:37658574 original size:62 final size:62
Alignment explanation
Indices: 37658498--37658622 Score: 205
Period size: 62 Copynumber: 2.0 Consensus size: 62
37658488 CAATGTACCT
*
37658498 AATTTATATTACAAAGGTTGTTCCAATTTTTAATGTTGTAATGTACTTAATTTATATAACAA
1 AATTTATATTACAAAGGTTGTTCCAATTTTTAATATTGTAATGTACTTAATTTATATAACAA
* * * *
37658560 AATTTATATTACAAAGTTTGTTCCAATTTTTAATATTGTAATGTATTTAATTTGTATTACAA
1 AATTTATATTACAAAGGTTGTTCCAATTTTTAATATTGTAATGTACTTAATTTATATAACAA
37658622 A
1 A
37658623 GTTTGTTCCA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.47
Consensus pattern (62 bp):
AATTTATATTACAAAGGTTGTTCCAATTTTTAATATTGTAATGTACTTAATTTATATAACAA
Found at i:37661340 original size:20 final size:22
Alignment explanation
Indices: 37661301--37661342 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
37661291 AATTTCATTT
*
37661301 ATAATATTTATAAGAACATAAA
1 ATAAAATTTATAAGAACATAAA
37661323 ATAAAATTTA-AA-AACATAAA
1 ATAAAATTTATAAGAACATAAA
37661343 CTCTTATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 2 0.11
22 9 0.47
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (22 bp):
ATAAAATTTATAAGAACATAAA
Found at i:37661469 original size:6 final size:7
Alignment explanation
Indices: 37661453--37661480 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
37661443 TACCTACATC
37661453 AAAAATA
1 AAAAATA
37661460 AAAAATA
1 AAAAATA
37661467 AAAAATA
1 AAAAATA
37661474 AAAAATA
1 AAAAATA
37661481 TTAAAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAATA
Found at i:37666800 original size:21 final size:21
Alignment explanation
Indices: 37666718--37666809 Score: 59
Period size: 21 Copynumber: 4.5 Consensus size: 21
37666708 TTTTATAAAA
* *
37666718 TTTAAA-AA-TTTATGAAATC
1 TTTAAATAATTTTATGATATT
* *
37666737 TTTATATAATTTTATGATTTT
1 TTTAAATAATTTTATGATATT
* ***
37666758 TTTGAAA-AATGTTA-GGGGTT
1 TTT-AAATAATTTTATGATATT
37666778 TTTAAATAATTTTATGATA-T
1 TTTAAATAATTTTATGATATT
37666798 TTTAAAGTAATT
1 TTTAAA-TAATT
37666810 ATGAGTTTTC
Statistics
Matches: 54, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
19 8 0.15
20 21 0.39
21 23 0.43
22 2 0.04
ACGTcount: A:0.37, C:0.01, G:0.11, T:0.51
Consensus pattern (21 bp):
TTTAAATAATTTTATGATATT
Found at i:37677323 original size:14 final size:15
Alignment explanation
Indices: 37677304--37677332 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
37677294 GTTTTTCTCG
37677304 ATTTAAATT-TTTTT
1 ATTTAAATTATTTTT
37677318 ATTTAAATTATTTTT
1 ATTTAAATTATTTTT
37677333 TGAAAATCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTAAATTATTTTT
Found at i:37677682 original size:11 final size:11
Alignment explanation
Indices: 37677668--37677702 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
37677658 TTTTGCTGCC
*
37677668 ATATCGTTATT
1 ATATTGTTATT
37677679 ATATTGTTATT
1 ATATTGTTATT
*
37677690 ATTTTGTTATT
1 ATATTGTTATT
37677701 AT
1 AT
37677703 TGTTTGGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.26, C:0.03, G:0.09, T:0.63
Consensus pattern (11 bp):
ATATTGTTATT
Found at i:37677703 original size:11 final size:11
Alignment explanation
Indices: 37677673--37677703 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
37677663 CTGCCATATC
*
37677673 GTTATTATATT
1 GTTATTATTTT
37677684 GTTATTATTTT
1 GTTATTATTTT
37677695 GTTATTATT
1 GTTATTATT
37677704 GTTTGGATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.68
Consensus pattern (11 bp):
GTTATTATTTT
Found at i:37678864 original size:9 final size:9
Alignment explanation
Indices: 37678835--37678878 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 9
37678825 CATTGATTAA
37678835 ATAAAAATT
1 ATAAAAATT
37678844 ATTAAAATATT
1 A-TAAAA-ATT
37678855 ATAAAAATT
1 ATAAAAATT
37678864 ATTAAAAATT
1 A-TAAAAATT
*
37678874 GTAAA
1 ATAAA
37678879 TTGTTAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
9 9 0.29
10 18 0.58
11 4 0.13
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (9 bp):
ATAAAAATT
Found at i:37678871 original size:10 final size:10
Alignment explanation
Indices: 37678836--37678873 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
37678826 ATTGATTAAA
37678836 TAAAAATTAT
1 TAAAAATTAT
37678846 TAAAATATTA-
1 TAAAA-ATTAT
37678856 TAAAAATTAT
1 TAAAAATTAT
37678866 TAAAAATT
1 TAAAAATT
37678874 GTAAATTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 4 0.15
10 18 0.69
11 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:37681282 original size:16 final size:15
Alignment explanation
Indices: 37681259--37681288 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
37681249 ATATATTTAC
37681259 AAAAAAATGATGTTA
1 AAAAAAATGATGTTA
37681274 AAAATAAATGATGTT
1 AAAA-AAATGATGTT
37681289 TTGGTAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.57, C:0.00, G:0.13, T:0.30
Consensus pattern (15 bp):
AAAAAAATGATGTTA
Found at i:37690875 original size:18 final size:17
Alignment explanation
Indices: 37690854--37690888 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37690844 TTATTATTAA
*
37690854 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
37690872 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
37690889 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:37690942 original size:157 final size:157
Alignment explanation
Indices: 37690741--37691057 Score: 580
Period size: 157 Copynumber: 2.0 Consensus size: 157
37690731 TAGAATACCC
* *
37690741 TTAGCATAAATTTGTTTTGATAAATGATTATTGTTATTGTTATTTAAATTTTAATAATATTATTA
1 TTAGCAGAAATTTGTTTTGATAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* *
37690806 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
37690871 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
* *
37690898 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGATAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
37690963 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
37691028 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
37691055 TTA
1 TTA
37691058 ATATTCTTAT
Statistics
Matches: 154, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 154 1.00
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGATAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:37691028 original size:16 final size:16
Alignment explanation
Indices: 37690991--37691032 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
37690981 TTAATCATAT
*
37690991 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
37691007 TT-AAATATATTATAA
1 TTAAAATATATTATAA
37691022 TTAAAATATAT
1 TTAAAATATAT
37691033 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:37691039 original size:14 final size:15
Alignment explanation
Indices: 37691000--37691161 Score: 58
Period size: 15 Copynumber: 10.9 Consensus size: 15
37690990 TTTAAACATA
*
37691000 ATTATTATTAAATAT
1 ATTATAATTAAATAT
37691015 ATTATAATTAAAATAT
1 ATTATAATT-AAATAT
* *
37691031 ATAATTTAATAAAAT-T
1 AT--TATAATTAAATAT
*
37691047 CTTAATAATT-AATATT
1 ATT-ATAATTAAATA-T
* * *
37691063 CTTAT-A-TGAATTT
1 ATTATAATTAAATAT
*
37691076 ACTTA-AATCATAATAT
1 A-TTATAATTA-AATAT
* *
37691092 ATGATACTGTAAA-AT
1 ATTATAAT-TAAATAT
37691107 A-TA-AATTAACATA-
1 ATTATAATTAA-ATAT
*
37691120 ATTATTATTAAATAT
1 ATTATAATTAAATAT
37691135 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
37691149 A-TATAATTTAATA
1 ATTATAATTAAATA
37691162 AAATTATTAA
Statistics
Matches: 109, Mismatches: 19, Indels: 39
0.65 0.11 0.23
Matches are distributed among these distances:
12 3 0.03
13 15 0.14
14 23 0.21
15 35 0.32
16 23 0.21
17 5 0.05
18 5 0.05
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:37691129 original size:120 final size:121
Alignment explanation
Indices: 37690989--37691286 Score: 485
Period size: 120 Copynumber: 2.5 Consensus size: 121
37690979 ATTTAATCAT
* *
37690989 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATA
* * * *
37691054 ATTAATATTCTTATATGAATTTACTTAAATCATAATATATGATACTGTAAAATATAA
66 ATTAATATTCTTATATAAATTTACTCAAATCAAAATATATGATACTATAAAATA-AA
37691111 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATA
37691174 ATTAATATTCTTATATAAATTTACTCAAATCAAAATATATGATACTATAAAATAAA
66 ATTAATATTCTTATATAAATTTACTCAAATCAAAATATATGATACTATAAAATAAA
* * *
37691230 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
37691287 TAAAATAATT
Statistics
Matches: 166, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
119 3 0.02
120 158 0.95
121 4 0.02
122 1 0.01
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATA
ATTAATATTCTTATATAAATTTACTCAAATCAAAATATATGATACTATAAAATAAA
Found at i:37691152 original size:18 final size:18
Alignment explanation
Indices: 37691131--37691178 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
37691121 TTATTATTAA
37691131 ATATATTATAATTAAAAT
1 ATATATTATAATTAAAAT
37691149 ATATAATT-TAA-TAAAAT
1 ATAT-ATTATAATTAAAAT
*
37691166 -TAT-TAATAATTAA
1 ATATATTATAATTAA
37691179 TATTCTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 3 0.12
16 6 0.23
17 6 0.23
18 7 0.27
19 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATTATAATTAAAAT
Found at i:37691164 original size:59 final size:58
Alignment explanation
Indices: 37690997--37691290 Score: 210
Period size: 59 Copynumber: 4.9 Consensus size: 58
37690987 ATATTTAAAC
* *
37690997 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATT-A
1 ATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAA-T-AT-A-AATTAA
* * * * * * *
37691058 AT-ATTCTTATATGAATTTACTTA-AATCATAATATATGATACT-GTAAAATATAAATTAA
1 ATAATTATTAT-TAAATATA-TTATAATTAAAATATATGAT-TTAATAAAATATAAATTAA
*
37691116 CATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATT-A
1 -ATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAA-TA-T-A-AATTAA
* * * * *
37691178 AT-ATTCTTATATAAATTTACTCA-AATCAAAATATATGATACT-ATAAAATA-AAATTTGAA
1 ATAATTATTAT-TAAATATA-TTATAATTAAAATATATGAT-TTAATAAAATATAAA-TT-AA
* * *
37691237 ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTTAAA
1 ATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATATAAA
37691291 ATAATTATAA
Statistics
Matches: 180, Mismatches: 31, Indels: 45
0.70 0.12 0.18
Matches are distributed among these distances:
56 2 0.01
57 7 0.04
58 8 0.04
59 59 0.33
60 35 0.19
61 56 0.31
62 9 0.05
63 4 0.02
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (58 bp):
ATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATATAAATTAA
Found at i:37691167 original size:44 final size:43
Alignment explanation
Indices: 37691087--37691170 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
37691077 CTTAAATCAT
* *
37691087 AATATATGATACTGTAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATGTAAAATATAAATTAACAAAATTATTATTA
* *
37691130 AATATATTATAAT-TAAAATATATAATTTAATAAAATTATTA
1 AATATATGATAATGTAAAATATA-AA-TTAACAAAATTATTA
37691171 ATAATTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 9 0.26
43 13 0.37
44 13 0.37
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (43 bp):
AATATATGATAATGTAAAATATAAATTAACAAAATTATTATTA
Found at i:37691224 original size:61 final size:61
Alignment explanation
Indices: 37691039--37691226 Score: 192
Period size: 61 Copynumber: 3.1 Consensus size: 61
37691029 ATATAATTTA
* * *
37691039 ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTTAAATCATAATATATGATACT
1 ATAAAATTATTAATAATTAATATTCTTATATAAATTTACTTAAATCAAAATATATGATACT
* * * * * *
37691100 GTAAAA-TA-T-A-AATTAACATAATTATTAT-TAAATATA-TTATAATTAAAATATATAAT-TT
1 ATAAAATTATTAATAATT-A-AT-ATTCTTATATAAATTTACTTA-AATCAAAATATATGATACT
*
37691158 AATAAAATTATTAATAATTAATATTCTTATATAAATTTACTCAAATCAAAATATATGATACT
1 -ATAAAATTATTAATAATTAATATTCTTATATAAATTTACTTAAATCAAAATATATGATACT
37691220 ATAAAAT
1 ATAAAAT
37691227 AAAATTTGAA
Statistics
Matches: 99, Mismatches: 16, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
57 4 0.04
58 6 0.06
59 27 0.27
60 17 0.17
61 36 0.36
62 5 0.05
63 4 0.04
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (61 bp):
ATAAAATTATTAATAATTAATATTCTTATATAAATTTACTTAAATCAAAATATATGATACT
Found at i:37691299 original size:28 final size:27
Alignment explanation
Indices: 37691205--37691299 Score: 70
Period size: 28 Copynumber: 3.4 Consensus size: 27
37691195 TACTCAAATC
* *
37691205 AAAATATATGATACTATAAAATAAAATTT
1 AAAATA-ATTATA-TATTAAATAAAATTT
* * *
37691234 GAAATAATTA-ATATTAAATATATTTT
1 AAAATAATTATATATTAAATAAAATTT
*
37691260 AATTAA-AA-TATATGATTTAATAAAATTT
1 AA--AATAATTATAT-ATTAAATAAAATTT
37691288 AAAATAATTATA
1 AAAATAATTATA
37691300 ACTAATAAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 13
0.70 0.12 0.18
Matches are distributed among these distances:
26 17 0.33
27 7 0.14
28 22 0.43
29 5 0.10
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (27 bp):
AAAATAATTATATATTAAATAAAATTT
Found at i:37695405 original size:68 final size:68
Alignment explanation
Indices: 37695291--37695424 Score: 259
Period size: 68 Copynumber: 2.0 Consensus size: 68
37695281 TTGCAGCATG
*
37695291 AAGGTTTGAAGTTCTTCAAACCTTTCTTGGTAGTCCTCAATTGTTCCCTTCTGTGCTTCTTTATT
1 AAGGCTTGAAGTTCTTCAAACCTTTCTTGGTAGTCCTCAATTGTTCCCTTCTGTGCTTCTTTATT
37695356 GCA
66 GCA
37695359 AAGGCTTGAAGTTCTTCAAACCTTTCTTGGTAGTCCTCAATTGTTCCCTTCTGTGCTTCTTTATT
1 AAGGCTTGAAGTTCTTCAAACCTTTCTTGGTAGTCCTCAATTGTTCCCTTCTGTGCTTCTTTATT
37695424 G
66 G
37695425 AATTCTTCCA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.44
Consensus pattern (68 bp):
AAGGCTTGAAGTTCTTCAAACCTTTCTTGGTAGTCCTCAATTGTTCCCTTCTGTGCTTCTTTATT
GCA
Found at i:37696510 original size:12 final size:12
Alignment explanation
Indices: 37696493--37696527 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
37696483 AGTTGTGTTT
*
37696493 GGCCCAACATCA
1 GGCCCATCATCA
37696505 GGCCCATCATCA
1 GGCCCATCATCA
37696517 GGCCCATCATC
1 GGCCCATCATC
37696528 CTTTAGTCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.26, C:0.43, G:0.17, T:0.14
Consensus pattern (12 bp):
GGCCCATCATCA
Found at i:37702781 original size:16 final size:17
Alignment explanation
Indices: 37702745--37702781 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
37702735 AATTTTATTT
37702745 TAATAATAAATTTTAAA
1 TAATAATAAATTTTAAA
37702762 -AATAATAAA-TTTAAA
1 TAATAATAAATTTTAAA
37702777 TAATA
1 TAATA
37702782 TTCTTCATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATAATAAATTTTAAA
Found at i:37702806 original size:7 final size:7
Alignment explanation
Indices: 37702794--37702820 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
37702784 CTTCATTGAA
37702794 AATATTC
1 AATATTC
37702801 AATATTC
1 AATATTC
37702808 AATATTC
1 AATATTC
37702815 AATATT
1 AATATT
37702821 TTAATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (7 bp):
AATATTC
Found at i:37703733 original size:21 final size:21
Alignment explanation
Indices: 37703707--37703754 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
37703697 ATATGTGAAG
37703707 TTTCTAGACCAGAAGTCCAAA
1 TTTCTAGACCAGAAGTCCAAA
** *
37703728 TTTCTAGATTAGAAGTCCGAA
1 TTTCTAGACCAGAAGTCCAAA
37703749 TTTCTA
1 TTTCTA
37703755 AATGTATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (21 bp):
TTTCTAGACCAGAAGTCCAAA
Found at i:37704817 original size:37 final size:37
Alignment explanation
Indices: 37704752--37704897 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
37704742 TACGTATGAT
* *
37704752 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
37704787 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
37704824 CACTTATCACTTTGTTTCTTGATCAAATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
37704861 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
37704898 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 10 0.10
36 3 0.03
37 91 0.88
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:37704914 original size:46 final size:46
Alignment explanation
Indices: 37704861--37705273 Score: 529
Period size: 46 Copynumber: 8.6 Consensus size: 46
37704851 TAAGTGTAGC
* * **
37704861 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
37704907 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
37704953 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
37705005 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
37705057 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
37705103 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGATAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
37705149 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* * * ** *
37705195 TACTTATCACTTTCCACTTGTCACTTGATTAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
37705247 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
37705274 AGTACTCAAA
Statistics
Matches: 336, Mismatches: 18, Indels: 26
0.88 0.05 0.07
Matches are distributed among these distances:
46 200 0.60
48 1 0.00
49 1 0.00
50 2 0.01
51 3 0.01
52 129 0.38
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:37704980 original size:52 final size:52
Alignment explanation
Indices: 37704904--37705267 Score: 458
Period size: 52 Copynumber: 7.3 Consensus size: 52
37704894 TAGCTAAAGC
* *
37704904 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
37704957 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
37705009 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
37705061 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
37705107 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGATATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
37705153 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * * ** *
37705199 TATCACTTTCCACTTGTCACTTGATTAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
37705251 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
37705268 ATCAGAAGTA
Statistics
Matches: 285, Mismatches: 19, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
46 132 0.46
52 135 0.47
53 18 0.06
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:37712887 original size:2 final size:2
Alignment explanation
Indices: 37712882--37712912 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
37712872 GAGAACTTCC
37712882 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
37712913 GCGTGGTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:37714446 original size:50 final size:50
Alignment explanation
Indices: 37714382--37714479 Score: 187
Period size: 50 Copynumber: 2.0 Consensus size: 50
37714372 TAGTAGATTA
37714382 GTTGAATATATATTCTACTTTATTTTTTTAGTAGATTAGTTGGATCTTCT
1 GTTGAATATATATTCTACTTTATTTTTTTAGTAGATTAGTTGGATCTTCT
*
37714432 GTTGCATATATATTCTACTTTATTTTTTTAGTAGATTAGTTGGATCTT
1 GTTGAATATATATTCTACTTTATTTTTTTAGTAGATTAGTTGGATCTT
37714480 TCATATTGAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.23, C:0.08, G:0.14, T:0.54
Consensus pattern (50 bp):
GTTGAATATATATTCTACTTTATTTTTTTAGTAGATTAGTTGGATCTTCT
Found at i:37717279 original size:15 final size:15
Alignment explanation
Indices: 37717261--37717312 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
37717251 ATTTAATATT
*
37717261 AATATATTGATAATA
1 AATATATTAATAATA
*
37717276 AATATCTATTACAATTATA
1 AATA--TATT--AATAATA
37717295 AATATATTAATAATA
1 AATATATTAATAATA
37717310 AAT
1 AAT
37717313 GTTATAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 13 0.43
17 8 0.27
19 9 0.30
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (15 bp):
AATATATTAATAATA
Found at i:37717709 original size:26 final size:25
Alignment explanation
Indices: 37717672--37717733 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 25
37717662 TATAAGGACT
*
37717672 TATGAAATATTTTAACTTAGTATAAAA
1 TATGAAATATTTGAA-TTA-TATAAAA
37717699 TATG-AATATTTGAATTATAT-AAA
1 TATGAAATATTTGAATTATATAAAA
*
37717722 TAT-ACATATTTG
1 TATGAAATATTTG
37717734 TTTAAGTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 13 0.41
24 3 0.09
25 3 0.09
26 9 0.28
27 4 0.12
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (25 bp):
TATGAAATATTTGAATTATATAAAA
Found at i:37718925 original size:27 final size:27
Alignment explanation
Indices: 37718895--37718948 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
37718885 GTGTTTCTAC
37718895 TGATTTAGGTTAGGCATTTTTTTTTTT
1 TGATTTAGGTTAGGCATTTTTTTTTTT
37718922 TGATTTAGGTTAGGCATTTTTTTTTTT
1 TGATTTAGGTTAGGCATTTTTTTTTTT
37718949 ACGGGAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.15, C:0.04, G:0.19, T:0.63
Consensus pattern (27 bp):
TGATTTAGGTTAGGCATTTTTTTTTTT
Found at i:37738971 original size:2 final size:2
Alignment explanation
Indices: 37738964--37739005 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
37738954 TTAAAAGATA
* **
37738964 AT AT AT AT AT AA AT AT AT AT AT AT AT GC AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37739006 TTATCTCAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:37738983 original size:16 final size:16
Alignment explanation
Indices: 37738964--37739005 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
37738954 TTAAAAGATA
37738964 ATATATATATAAATAT
1 ATATATATATAAATAT
**
37738980 ATATATATATGCATAT
1 ATATATATATAAATAT
37738996 ATATATATAT
1 ATATATATAT
37739006 TTATCTCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (16 bp):
ATATATATATAAATAT
Found at i:37741084 original size:22 final size:23
Alignment explanation
Indices: 37741041--37741091 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
37741031 AAATCCATAG
*
37741041 AATTAAAAAATAAAAAACGAATC
1 AATTCAAAAATAAAAAACGAATC
*
37741064 AATTCAAAAATAATAAA-GAATC
1 AATTCAAAAATAAAAAACGAATC
37741086 AATTCA
1 AATTCA
37741092 TTCTCAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.65, C:0.10, G:0.04, T:0.22
Consensus pattern (23 bp):
AATTCAAAAATAAAAAACGAATC
Found at i:37745572 original size:30 final size:29
Alignment explanation
Indices: 37745523--37745588 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 29
37745513 ACAGTTGGAT
* *
37745523 CTAAATTTTGAAATCTGAAAAGTA-AAGGGA
1 CTAAATTTTGAAATATG-AAACTACAA-GGA
37745553 CTAAATTTCTGAAA-ATGAAACTACAAGGA
1 CTAAATTT-TGAAATATGAAACTACAAGGA
37745582 CTAAATT
1 CTAAATT
37745589 CCAAATTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 15 0.47
30 12 0.38
31 5 0.16
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.27
Consensus pattern (29 bp):
CTAAATTTTGAAATATGAAACTACAAGGA
Found at i:37749086 original size:46 final size:46
Alignment explanation
Indices: 37749034--37749310 Score: 509
Period size: 46 Copynumber: 6.0 Consensus size: 46
37749024 ACATTGCTAT
* *
37749034 AACTCAGTATGGTTTTCTTCCTTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
37749080 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
*
37749126 AACTCAGTATGGTTTTCTTCCTTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
37749172 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
37749218 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
**
37749264 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
37749310 A
1 A
37749311 CTTTGCCATG
Statistics
Matches: 225, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 225 1.00
ACGTcount: A:0.28, C:0.27, G:0.09, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
Found at i:37756916 original size:15 final size:16
Alignment explanation
Indices: 37756896--37756956 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
37756886 GGCAGCTTTG
37756896 GGTTTGG-TTTTTTTA
1 GGTTTGGATTTTTTTA
*
37756911 GGTTTGGAATTTTTTA
1 GGTTTGGATTTTTTTA
* *
37756927 AGTTTAGG-TCTTTTT-
1 GGTTT-GGATTTTTTTA
37756942 GAGTTTGGATTTTTT
1 G-GTTTGGATTTTTT
37756957 GAAATTTGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
15 9 0.25
16 25 0.69
17 2 0.06
ACGTcount: A:0.13, C:0.02, G:0.25, T:0.61
Consensus pattern (16 bp):
GGTTTGGATTTTTTTA
Found at i:37756957 original size:15 final size:14
Alignment explanation
Indices: 37756892--37756958 Score: 53
Period size: 15 Copynumber: 4.4 Consensus size: 14
37756882 TCGAGGCAGC
*
37756892 TTTGGGTTTGGTTT
1 TTTGAGTTTGGTTT
*
37756906 TTTTAGGTTTGGAATTT
1 TTTGA-GTTTGG--TTT
*
37756923 TTTAAGTTTAGGTCTT
1 TTTGAGTTT-GGT-TT
37756939 TTTGAGTTTGGATTT
1 TTTGAGTTTGG-TTT
37756954 TTTGA
1 TTTGA
37756959 AATTTGAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
14 3 0.07
15 16 0.37
16 15 0.35
17 9 0.21
ACGTcount: A:0.13, C:0.01, G:0.25, T:0.60
Consensus pattern (14 bp):
TTTGAGTTTGGTTT
Found at i:37757693 original size:25 final size:25
Alignment explanation
Indices: 37757641--37757694 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
37757631 AAATATTTTC
** *
37757641 TAAAATTAAATATTTTAATTAATGA
1 TAAAATTAAATATAATAATTAATAA
*
37757666 TAAAATTAAATATAATAATTACTAA
1 TAAAATTAAATATAATAATTAATAA
37757691 TAAA
1 TAAA
37757695 TGTAATAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (25 bp):
TAAAATTAAATATAATAATTAATAA
Found at i:37760183 original size:20 final size:20
Alignment explanation
Indices: 37760158--37760198 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
37760148 ACTTGTCTCT
37760158 TTGTCTTAATATATATGTAA
1 TTGTCTTAATATATATGTAA
37760178 TTGTCTTAATATATATGTAA
1 TTGTCTTAATATATATGTAA
37760198 T
1 T
37760199 AGAAAGGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (20 bp):
TTGTCTTAATATATATGTAA
Found at i:37770142 original size:83 final size:82
Alignment explanation
Indices: 37770003--37770178 Score: 239
Period size: 83 Copynumber: 2.1 Consensus size: 82
37769993 CCTTGGCCCT
* * *
37770003 AAAAATGAAAAATTGCTATTTCAATCCCCTAATCAATAATAAAATTATAAATTAATATATGGTGA
1 AAAAATAAAAAATTACTATTTCAATCCCCTAATAAATAATAAAATTATAAATTAATATATGGTGA
*
37770068 AATTTCACTTTGACCACC
66 AATTGCACTTTGACC-CC
* * * *
37770086 AAAAATAAAAAATTACTATTTTAGA-CCCCTCATAAATAATGAAATTGTAAATTAATATATGGTG
1 AAAAATAAAAAATTACTATTTCA-ATCCCCTAATAAATAATAAAATTATAAATTAATATATGGTG
*
37770150 AAATTGCACTTTGACCTC
65 AAATTGCACTTTGACCCC
37770168 -AAAATAAAAAA
1 AAAAATAAAAAA
37770179 AATATTTTTA
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
81 11 0.13
82 1 0.01
83 70 0.84
84 1 0.01
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.31
Consensus pattern (82 bp):
AAAAATAAAAAATTACTATTTCAATCCCCTAATAAATAATAAAATTATAAATTAATATATGGTGA
AATTGCACTTTGACCCC
Found at i:37773867 original size:31 final size:29
Alignment explanation
Indices: 37773825--37773890 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
37773815 TACACTACTA
37773825 GTCACCCAATTATCAGTAAATT-TCTTTTTTG
1 GTCACCCAATTAT---TAAATTGTCTTTTTTG
* *
37773856 GTCACCTAATTATTCAATTGTCTTTTTTG
1 GTCACCCAATTATTAAATTGTCTTTTTTG
37773885 GTCACC
1 GTCACC
37773891 AGAGGGCTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 5 0.16
29 15 0.47
31 12 0.38
ACGTcount: A:0.23, C:0.21, G:0.11, T:0.45
Consensus pattern (29 bp):
GTCACCCAATTATTAAATTGTCTTTTTTG
Found at i:37774045 original size:14 final size:14
Alignment explanation
Indices: 37774022--37774059 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
37774012 GTAATTTGGT
37774022 CTCTCTCTCTCCCC
1 CTCTCTCTCTCCCC
* *
37774036 CTCTCCCTCTCCCT
1 CTCTCTCTCTCCCC
37774050 CTCTCTCTCT
1 CTCTCTCTCT
37774060 GTTTGGATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (14 bp):
CTCTCTCTCTCCCC
Found at i:37774049 original size:12 final size:12
Alignment explanation
Indices: 37774024--37774058 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
37774014 AATTTGGTCT
*
37774024 CTCTCTCTCCCC
1 CTCTCTCTCTCC
*
37774036 CTCTCCCTCTCC
1 CTCTCTCTCTCC
37774048 CTCTCTCTCTC
1 CTCTCTCTCTC
37774059 TGTTTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (12 bp):
CTCTCTCTCTCC
Found at i:37787211 original size:202 final size:202
Alignment explanation
Indices: 37786865--37787257 Score: 642
Period size: 202 Copynumber: 1.9 Consensus size: 202
37786855 TAAACAAAGA
* *
37786865 ACAAAATTCTGTAACATCCCAAATCTAGCCTAGACGTCATAGCCAGATGCTGAAGGTTACATTGG
1 ACAAAATTCTGTAACACCCCAAACCTAGCCTAGACGTCATAGCCAGATGCTGAAGGTTACATTGG
* * * *
37786930 TTACCGAAATGGCAAAGTGAAATATTCAGATTCTTTTAAAACTCCTATTCTAAATAATATTAGAA
66 TCACCGAAATGGCAAAGTGAAACATCCAAATTCTTTTAAAACTCCTATTCTAAATAATATTAGAA
*
37786995 AAACTTGTGCATTTTACTTAGTTTAAATAAAACATCTTATCAAGCCGGCCAAGGATTATTAGACG
131 AAACTTGTGCATTTTACTTAGTTTAAATAAAACATCTTATCAAGCCGGCCAAGAATTATTAGACG
37787060 ACAAAAT
196 ACAAAAT
* * *
37787067 ACAAAATTCTTTAACACCCCAAACCTGGCCTAGACGTTATAGCCAGATGCTGAAGGTTACATTGG
1 ACAAAATTCTGTAACACCCCAAACCTAGCCTAGACGTCATAGCCAGATGCTGAAGGTTACATTGG
* * * *
37787132 TCACTGAAATGGCAAAGTGAAACGTCCAAATTCTTTTAAAACTCCTATTCTAACTAATTTTAGAA
66 TCACCGAAATGGCAAAGTGAAACATCCAAATTCTTTTAAAACTCCTATTCTAAATAATATTAGAA
* *
37787197 AAACTTGTGCATTTTCCTTAGTTTAAATAAAACATCTTATCAAGTCGGCCAAGAATTATTA
131 AAACTTGTGCATTTTACTTAGTTTAAATAAAACATCTTATCAAGCCGGCCAAGAATTATTA
37787258 CGCAACGTGA
Statistics
Matches: 175, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
202 175 1.00
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (202 bp):
ACAAAATTCTGTAACACCCCAAACCTAGCCTAGACGTCATAGCCAGATGCTGAAGGTTACATTGG
TCACCGAAATGGCAAAGTGAAACATCCAAATTCTTTTAAAACTCCTATTCTAAATAATATTAGAA
AAACTTGTGCATTTTACTTAGTTTAAATAAAACATCTTATCAAGCCGGCCAAGAATTATTAGACG
ACAAAAT
Found at i:37794247 original size:13 final size:14
Alignment explanation
Indices: 37794216--37794248 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
37794206 AGACTTAAAG
*
37794216 GAAAAAGTTGCGAT
1 GAAAAAGTTACGAT
37794230 GAAAAAGTTACGAT
1 GAAAAAGTTACGAT
37794244 -AAAAA
1 GAAAAA
37794249 CAGTGAAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.55, C:0.06, G:0.21, T:0.18
Consensus pattern (14 bp):
GAAAAAGTTACGAT
Found at i:37816109 original size:11 final size:11
Alignment explanation
Indices: 37816093--37816122 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
37816083 TGTAGCCCAT
37816093 TTTTTGTTTTA
1 TTTTTGTTTTA
37816104 TTTTTGTTTTA
1 TTTTTGTTTTA
*
37816115 TGTTTGTT
1 TTTTTGTT
37816123 GACAGTAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.07, C:0.00, G:0.13, T:0.80
Consensus pattern (11 bp):
TTTTTGTTTTA
Found at i:37818492 original size:31 final size:31
Alignment explanation
Indices: 37818457--37818515 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
37818447 ATTAAAATTA
* * *
37818457 AGAAAAATTGTTAATTTTTAGGATTAATATG
1 AGAAAAATTGTTAAGTTTAAAGATTAATATG
*
37818488 AGAAAAGTTGTTAAGTTTAAAGATTAAT
1 AGAAAAATTGTTAAGTTTAAAGATTAAT
37818516 GTAGATTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.39
Consensus pattern (31 bp):
AGAAAAATTGTTAAGTTTAAAGATTAATATG
Found at i:37840889 original size:20 final size:20
Alignment explanation
Indices: 37840864--37840904 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
37840854 TTTCCGTTTA
*
37840864 CTCCATCTAATGTTTAACCT
1 CTCCATCTAATATTTAACCT
37840884 CTCCATCTAATATTTAACCT
1 CTCCATCTAATATTTAACCT
37840904 C
1 C
37840905 AATGAGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.32, G:0.02, T:0.39
Consensus pattern (20 bp):
CTCCATCTAATATTTAACCT
Found at i:37845155 original size:24 final size:23
Alignment explanation
Indices: 37845127--37845181 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
37845117 TGATTTATAA
*
37845127 ATTTATTTCAACCTCATATATATTT
1 ATTTATTTCAACATCATA-AT-TTT
*
37845152 -TTTATCATCAACATCATAATTTT
1 ATTTAT-TTCAACATCATAATTTT
37845175 ATTTATT
1 ATTTATT
37845182 AATATATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
23 3 0.12
24 12 0.48
25 10 0.40
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTTATTTCAACATCATAATTTT
Found at i:37849290 original size:87 final size:89
Alignment explanation
Indices: 37849199--37849401 Score: 268
Period size: 87 Copynumber: 2.3 Consensus size: 89
37849189 AATTTTTTTT
* * * *
37849199 AAAAAGTAATTAAGCCCATGCTTTTTTTTTTGCACTCATTTGAGCACTTGAACTTTTAAAATTCA
1 AAAAAGCAATTAAGCCCATGCTTTTTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATGCA
*
37849264 TCAAAAAGT-CCCTCAAACTTAAAA
66 TCAAAAA-TACCCTCAAACTTTAAA
* * * *
37849288 AAAAAGCAATTAAGCCCCTAC--TTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCA
1 AAAAAGCAATTAAGCCCATGCTTTTTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATGCA
*
37849351 TCAAAAATACCCTCAAACTTTTTCAA
66 TCAAAAATACCCTCAAAC--TTTAAA
37849377 AAAAAGCAATTAAGCCCATGCTTTT
1 AAAAAGCAATTAAGCCCATGCTTTT
37849402 ATTAAAAATT
Statistics
Matches: 97, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
86 1 0.01
87 53 0.55
89 41 0.42
91 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (89 bp):
AAAAAGCAATTAAGCCCATGCTTTTTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATGCA
TCAAAAATACCCTCAAACTTTAAA
Found at i:37849532 original size:18 final size:19
Alignment explanation
Indices: 37849508--37849559 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
37849498 TAAAGATTAG
37849508 AAAAAAATATAAAAATCGT
1 AAAAAAATATAAAAATCGT
*
37849527 -AAAAAATATAAAAAATTGT
1 AAAAAAATAT-AAAAATCGT
37849546 AAAAAAATATAAAA
1 AAAAAAATATAAAA
37849560 TATATAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 9 0.30
19 12 0.40
20 9 0.30
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (19 bp):
AAAAAAATATAAAAATCGT
Found at i:37849538 original size:9 final size:9
Alignment explanation
Indices: 37849509--37849589 Score: 65
Period size: 9 Copynumber: 8.7 Consensus size: 9
37849499 AAAGATTAGA
37849509 AAAAAATAT
1 AAAAAATAT
*
37849518 -AAAAATCGT
1 AAAAAAT-AT
37849527 AAAAAATAT
1 AAAAAATAT
*
37849536 AAAAAATTGT
1 AAAAAA-TAT
37849546 AAAAAAATAT
1 -AAAAAATAT
*
37849556 AAAATATAT
1 AAAAAATAT
*
37849565 AAAATATAT
1 AAAAAATAT
* *
37849574 AGAAATATTT
1 A-AAAAATAT
37849584 AAAAAA
1 AAAAAA
37849590 ATATTTTTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
8 6 0.10
9 30 0.50
10 18 0.30
11 6 0.10
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.26
Consensus pattern (9 bp):
AAAAAATAT
Found at i:37849550 original size:38 final size:38
Alignment explanation
Indices: 37849508--37849593 Score: 113
Period size: 38 Copynumber: 2.3 Consensus size: 38
37849498 TAAAGATTAG
*
37849508 AAAAAAATATAAAA-ATCGTAAAAAATATA-AAAAATTGT
1 AAAAAAATATAAAATAT-ATAAAAAATATAGAAAAATT-T
* *
37849546 AAAAAAATATAAAATATATAAAATATATAGAAATATTT
1 AAAAAAATATAAAATATATAAAAAATATAGAAAAATTT
37849584 AAAAAAATAT
1 AAAAAAATAT
37849594 TTTTTATAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
38 35 0.81
39 8 0.19
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (38 bp):
AAAAAAATATAAAATATATAAAAAATATAGAAAAATTT
Found at i:37849560 original size:18 final size:18
Alignment explanation
Indices: 37849508--37849593 Score: 75
Period size: 19 Copynumber: 4.6 Consensus size: 18
37849498 TAAAGATTAG
*
37849508 AAAAAAATATAAAAATCGT
1 AAAAAAATAT-AAAATTGT
*
37849527 AAAAAATATAAAAAATTGT
1 AAAAAA-ATATAAAATTGT
*
37849546 AAAAAAATATAAAA-TAT
1 AAAAAAATATAAAATTGT
* *
37849563 ATAAAATATATAGAAATATTT
1 A-AAAAAATATA-AAAT-TGT
37849584 AAAAAAATAT
1 AAAAAAATAT
37849594 TTTTTATAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
17 3 0.05
18 16 0.29
19 22 0.40
20 11 0.20
21 3 0.05
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (18 bp):
AAAAAAATATAAAATTGT
Found at i:37849593 original size:20 final size:19
Alignment explanation
Indices: 37849508--37849593 Score: 88
Period size: 20 Copynumber: 4.5 Consensus size: 19
37849498 TAAAGATTAG
*
37849508 AAAAAAATATAAAA-ATCGT
1 AAAAAAATATAAAATAT-TT
*
37849527 -AAAAAATATAAAAAATTGT
1 AAAAAAATATAAAATATT-T
*
37849546 AAAAAAATATAAAATATAT
1 AAAAAAATATAAAATATTT
*
37849565 -AAAATATATAGAAATATTT
1 AAAAAAATATA-AAATATTT
37849584 AAAAAAATAT
1 AAAAAAATAT
37849594 TTTTTATAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
18 22 0.39
19 11 0.20
20 23 0.41
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (19 bp):
AAAAAAATATAAAATATTT
Found at i:37849952 original size:26 final size:26
Alignment explanation
Indices: 37849914--37849973 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 26
37849904 TTTTTATAAA
*
37849914 AAAATTGTAATTTTTAA-TAAATTTT
1 AAAATTTTAATTTTTAATTAAATTTT
37849939 AAAATTTTATATTTTTAATTAAATTTT
1 AAAATTTTA-ATTTTTAATTAAATTTT
*
37849966 AATATTTT
1 AAAATTTT
37849974 TTCTAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 8 0.26
26 8 0.26
27 15 0.48
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (26 bp):
AAAATTTTAATTTTTAATTAAATTTT
Found at i:37849964 original size:38 final size:37
Alignment explanation
Indices: 37849921--37850008 Score: 106
Period size: 39 Copynumber: 2.4 Consensus size: 37
37849911 AAAAAAATTG
*
37849921 TAATTTTTAATAAATTT-TAAAATTTTATATTTTTAA
1 TAATTTTTAATAAATTTCTAAAATTTAATATTTTTAA
* ** *
37849957 TTAAATTTTAATATTTTTTCTAAAATTTAATATTTTTTA
1 -TAATTTTTAATA-AATTTCTAAAATTTAATATTTTTAA
37849996 TAATTTTTAATAA
1 TAATTTTTAATAA
37850009 GAGCAGGGGT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
37 11 0.26
38 14 0.33
39 17 0.40
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (37 bp):
TAATTTTTAATAAATTTCTAAAATTTAATATTTTTAA
Found at i:37850004 original size:19 final size:19
Alignment explanation
Indices: 37849925--37850007 Score: 89
Period size: 19 Copynumber: 4.4 Consensus size: 19
37849915 AAATTGTAAT
**
37849925 TTTTAATAAATTTTA-AAA
1 TTTTAATATTTTTTATAAA
*
37849943 TTTT-ATATTTTTAATTAAA
1 TTTTAATATTTTTTA-TAAA
*
37849962 TTTTAATATTTTTTCTAAA
1 TTTTAATATTTTTTATAAA
* *
37849981 ATTTAATATTTTTTATAAT
1 TTTTAATATTTTTTATAAA
37850000 TTTTAATA
1 TTTTAATA
37850008 AGAGCAGGGG
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
17 7 0.13
18 4 0.08
19 34 0.64
20 8 0.15
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTAATATTTTTTATAAA
Found at i:37851418 original size:21 final size:21
Alignment explanation
Indices: 37851393--37851432 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
37851383 TCCTTCCATC
37851393 GTTCTTGCTAGTTTCTCCCTT
1 GTTCTTGCTAGTTTCTCCCTT
*
37851414 GTTCTTGCTGGTTTCTCCC
1 GTTCTTGCTAGTTTCTCCC
37851433 CTCATTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.03, C:0.30, G:0.17, T:0.50
Consensus pattern (21 bp):
GTTCTTGCTAGTTTCTCCCTT
Found at i:37853469 original size:62 final size:63
Alignment explanation
Indices: 37853371--37853503 Score: 234
Period size: 62 Copynumber: 2.1 Consensus size: 63
37853361 TGGTGGAAGA
37853371 GGGGAAATGGGAGGAGCGCACGGCGTTTGGGACTTTGATCGGTGGAAG-AGGCGAAATGGGAAT
1 GGGGAAATGGGAGGAGCGCACGGCGTTTGGGACTTTGATCGGTGGAAGAAGG-GAAATGGGAAT
*
37853434 -GGGAAATGGGAGGAGCGCACGGGGTTTGGGACTTTGATCGGTGGAAGAAGGGAAATGGGAAT
1 GGGGAAATGGGAGGAGCGCACGGCGTTTGGGACTTTGATCGGTGGAAGAAGGGAAATGGGAAT
37853496 GGGGAAAT
1 GGGGAAAT
37853504 TGCACTGTAT
Statistics
Matches: 67, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
62 57 0.85
63 10 0.15
ACGTcount: A:0.27, C:0.09, G:0.47, T:0.17
Consensus pattern (63 bp):
GGGGAAATGGGAGGAGCGCACGGCGTTTGGGACTTTGATCGGTGGAAGAAGGGAAATGGGAAT
Found at i:37853588 original size:29 final size:30
Alignment explanation
Indices: 37853514--37853719 Score: 355
Period size: 30 Copynumber: 6.9 Consensus size: 30
37853504 TGCACTGTAT
37853514 TAGTGTATTTTAAAAATAAAAAAATATATG
1 TAGTGTATTTTAAAAATAAAAAAATATATG
37853544 TAGTGTATTTTAAAAATAAAAAAATATATG
1 TAGTGTATTTTAAAAATAAAAAAATATATG
*
37853574 TATTGTATTTTAAAAAT-AAAAAATATATG
1 TAGTGTATTTTAAAAATAAAAAAATATATG
*
37853603 TAATGTATTTTAAAAAT-AAAAAATATATG
1 TAGTGTATTTTAAAAATAAAAAAATATATG
*
37853632 TAGTGTATTTTAAAAATAAAAAAATATAGG
1 TAGTGTATTTTAAAAATAAAAAAATATATG
37853662 TAGTGTATTTTAAAAATAAAAAATATATATG
1 TAGTGTATTTTAAAAATAAAAAA-ATATATG
37853693 TAGTGTATTTTAAAAAT-AAAAAATATA
1 TAGTGTATTTTAAAAATAAAAAAATATA
37853720 GTTTATATTC
Statistics
Matches: 169, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
29 61 0.36
30 85 0.50
31 23 0.14
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.37
Consensus pattern (30 bp):
TAGTGTATTTTAAAAATAAAAAAATATATG
Found at i:37853669 original size:88 final size:90
Alignment explanation
Indices: 37853517--37853719 Score: 356
Period size: 88 Copynumber: 2.3 Consensus size: 90
37853507 ACTGTATTAG
* *
37853517 TGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTATTGTAT
1 TGTATTTTAAAAAT-AAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATAGGTAGTGTAT
37853582 TTTAAAAAT-AAAAA-ATATATGTAA
65 TTTAAAAATAAAAAATATATATGTAA
37853606 TGTATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATAGGTAGTGTATT
1 TGTATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATAGGTAGTGTATT
*
37853671 TTAAAAATAAAAAATATATATGTAG
66 TTAAAAATAAAAAATATATATGTAA
37853696 TGTATTTTAAAAATAAAAAATATA
1 TGTATTTTAAAAATAAAAAATATA
37853720 GTTTATATTC
Statistics
Matches: 109, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
88 57 0.52
89 19 0.17
90 33 0.30
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (90 bp):
TGTATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATAGGTAGTGTATT
TTAAAAATAAAAAATATATATGTAA
Found at i:37854085 original size:39 final size:39
Alignment explanation
Indices: 37854042--37854122 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
37854032 ACTAAAGTGA
37854042 AAAGAAAACAATAGTTCAAGTAAAGCTTTAAAGATGAAC
1 AAAGAAAACAATAGTTCAAGTAAAGCTTTAAAGATGAAC
*
37854081 AAAGAAAACAATAGTTTAAGTAAAGCTTTAAAGATGAAC
1 AAAGAAAACAATAGTTCAAGTAAAGCTTTAAAGATGAAC
37854120 AAA
1 AAA
37854123 TCGATTGCAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.56, C:0.09, G:0.15, T:0.21
Consensus pattern (39 bp):
AAAGAAAACAATAGTTCAAGTAAAGCTTTAAAGATGAAC
Found at i:37855305 original size:3 final size:3
Alignment explanation
Indices: 37855299--37855398 Score: 146
Period size: 3 Copynumber: 33.3 Consensus size: 3
37855289 ATTACTTAAC
37855299 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
37855347 TAT TAT TAT TAT TAT TAT TAT TAA TGT TAC TAT AAC TAT TAG TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
37855395 TAT T
1 TAT T
37855399 TATATTAGTT
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 85 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:37860413 original size:13 final size:14
Alignment explanation
Indices: 37860397--37860425 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
37860387 CCAATTTTTT
37860397 TTAT-TTTTTAATA
1 TTATGTTTTTAATA
37860410 TTATGTTTTTAATA
1 TTATGTTTTTAATA
37860424 TT
1 TT
37860426 GAGAATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (14 bp):
TTATGTTTTTAATA
Found at i:37870722 original size:3 final size:3
Alignment explanation
Indices: 37870714--37870745 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
37870704 CCAGGTAGAT
37870714 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
37870746 TACTTTCCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:37870978 original size:17 final size:16
Alignment explanation
Indices: 37870956--37870987 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
37870946 GCTTCAACTG
37870956 TTTCTTTTTCTTTTTTT
1 TTTCTTTTT-TTTTTTT
37870973 TTTCTTTTTTTTTTT
1 TTTCTTTTTTTTTTT
37870988 GTGGAATCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (16 bp):
TTTCTTTTTTTTTTTT
Found at i:37870987 original size:12 final size:11
Alignment explanation
Indices: 37870960--37870986 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
37870950 CAACTGTTTC
37870960 TTTTTCTTTTT
1 TTTTTCTTTTT
37870971 TTTTTCTTTTT
1 TTTTTCTTTTT
37870982 TTTTT
1 TTTTT
37870987 TGTGGAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:37872363 original size:6 final size:6
Alignment explanation
Indices: 37872352--37872378 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
37872342 TTTTAGGTGC
37872352 TTGGGG TTGGGG TTGGGG TTGGGG TTG
1 TTGGGG TTGGGG TTGGGG TTGGGG TTG
37872379 TTAATAGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.63, T:0.37
Consensus pattern (6 bp):
TTGGGG
Found at i:37875357 original size:16 final size:15
Alignment explanation
Indices: 37875331--37875360 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
37875321 TACGTATGTG
37875331 TATATGTATATAAAT
1 TATATGTATATAAAT
37875346 TATATAGTATATAAA
1 TATAT-GTATATAAA
37875361 AATGTAAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (15 bp):
TATATGTATATAAAT
Found at i:37875447 original size:19 final size:19
Alignment explanation
Indices: 37875423--37875459 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
37875413 TAAATGAACA
37875423 AATAATAACAATAATAATT
1 AATAATAACAATAATAATT
*
37875442 AATAATAACAGTAATAAT
1 AATAATAACAATAATAAT
37875460 ATCAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (19 bp):
AATAATAACAATAATAATT
Found at i:37878211 original size:46 final size:46
Alignment explanation
Indices: 37878144--37878270 Score: 227
Period size: 46 Copynumber: 2.8 Consensus size: 46
37878134 NNNNNNNNNA
37878144 ATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTG
1 ATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTG
*
37878190 ATAGCTTCGGCTATACTTATCTGATCAAGTGACTAAGTGATAAGTG
1 ATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTG
* *
37878236 ATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
1 ATAGCTTCGGCTATACTTATCTGATCAAGTGACAA
37878271 GTGGAAAGTG
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (46 bp):
ATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTG
Found at i:37878346 original size:59 final size:59
Alignment explanation
Indices: 37878216--37878346 Score: 219
Period size: 59 Copynumber: 2.2 Consensus size: 59
37878206 TTATCTGATC
*
37878216 AAGTGACTAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGGA
1 AAGTGA-TAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAA
*
37878276 AAGTGGA-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAA
1 AAGT-GATAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAA
37878335 AAGTGATAAGTG
1 AAGTGATAAGTG
37878347 GCTACACTTA
Statistics
Matches: 67, Mismatches: 2, Indels: 5
0.91 0.03 0.07
Matches are distributed among these distances:
58 2 0.03
59 59 0.88
60 4 0.06
61 2 0.03
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (59 bp):
AAGTGATAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAA
Found at i:37878364 original size:43 final size:41
Alignment explanation
Indices: 37878303--37878419 Score: 145
Period size: 36 Copynumber: 2.9 Consensus size: 41
37878293 TGATAGCTTC
37878303 GGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGT
1 GGCTACACTTATCTGATC-AG-GACAAGTGAAAAGTGATAAGT
* *
37878346 GGCTACACTTATCTGATCA-GA-AA---CAAAGTGATAGGT
1 GGCTACACTTATCTGATCAGGACAAGTGAAAAGTGATAAGT
*
37878382 GGCTACACTTATCTGATCAGGGACAAGTGATAAGTGAT
1 GGCTACACTTATCTGATCA-GGACAAGTGAAAAGTGAT
37878420 CATACGTAAG
Statistics
Matches: 64, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
36 30 0.47
38 2 0.03
39 4 0.06
40 2 0.03
42 8 0.12
43 18 0.28
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (41 bp):
GGCTACACTTATCTGATCAGGACAAGTGAAAAGTGATAAGT
Found at i:37880169 original size:59 final size:60
Alignment explanation
Indices: 37880055--37880171 Score: 137
Period size: 59 Copynumber: 2.0 Consensus size: 60
37880045 CATAATTTTT
* * * * * *
37880055 AATTTTTATATTTTTTTATCAAAATAGAACAAATAACTTTTAAGTTATGTCATATTTTAA
1 AATTTTTATATATTTTAAACAAAATACAACAAATAACTTTTAAATTATATCATATTTTAA
** * *
37880115 AATTTTT-TATATTTTAAACAAAATACAACAAATATTTTTTAAATTTTATTATATTTT
1 AATTTTTATATATTTTAAACAAAATACAACAAATAACTTTTAAATTATATCATATTTT
37880172 TAATGATATC
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
59 40 0.85
60 7 0.15
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (60 bp):
AATTTTTATATATTTTAAACAAAATACAACAAATAACTTTTAAATTATATCATATTTTAA
Found at i:37882490 original size:29 final size:28
Alignment explanation
Indices: 37882441--37882513 Score: 71
Period size: 29 Copynumber: 2.7 Consensus size: 28
37882431 TATTAAAATT
*
37882441 ATACAT-AAATTTAA--TGTGCAATGTA
1 ATACATGAAATTTAATTTATGCAATGTA
* * * *
37882466 ATTCATGAATTTTAACTTTATGCAATTTT
1 ATACATGAAATTTAA-TTTATGCAATGTA
37882495 ATACATGAAATTTAATTTA
1 ATACATGAAATTTAATTTA
37882514 ATTTAATTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
25 5 0.14
26 7 0.19
28 4 0.11
29 21 0.57
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (28 bp):
ATACATGAAATTTAATTTATGCAATGTA
Found at i:37888599 original size:22 final size:20
Alignment explanation
Indices: 37888571--37888610 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
37888561 TTTACTCATT
37888571 ATTTATTTATATATATATTTAA
1 ATTTA-TTAT-TATATATTTAA
37888593 ATTTATTATTATATATTT
1 ATTTATTATTATATATTT
37888611 TGGAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 4 0.22
22 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTATTATTATATATTTAA
Found at i:37888623 original size:22 final size:20
Alignment explanation
Indices: 37888574--37888633 Score: 50
Period size: 23 Copynumber: 2.8 Consensus size: 20
37888564 ACTCATTATT
37888574 TATTTA-TATATATATTTAAA
1 TATTTATTATATAT-TTTAAA
*
37888594 TTTATTATTATATATTTTGGAAA
1 TAT-TTATTATATATTTT--AAA
*
37888617 TATTTATGTATTTATTT
1 TATTTAT-TATATATTT
37888634 AATTTTTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 2 0.06
21 6 0.19
22 11 0.34
23 13 0.41
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TATTTATTATATATTTTAAA
Found at i:37889165 original size:2 final size:2
Alignment explanation
Indices: 37889160--37889185 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
37889150 CCTAAAAAAG
37889160 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
37889186 NNNNNNNNNN
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:37893249 original size:37 final size:39
Alignment explanation
Indices: 37893175--37893258 Score: 109
Period size: 37 Copynumber: 2.2 Consensus size: 39
37893165 TTACATCCTT
*
37893175 TTGTTGAAACCTTAGTCTAAGAAAACTTATCAACCTTCA
1 TTGTTGAAACCTTAGTCTAAGAAAACCTATCAACCTTCA
* **
37893214 TTGTTGAAACCTTAG-CTCA-AAAACCTATCTTCCTTCA
1 TTGTTGAAACCTTAGTCTAAGAAAACCTATCAACCTTCA
*
37893251 TTGCTGAA
1 TTGTTGAA
37893259 TATCACCTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 22 0.55
38 3 0.08
39 15 0.38
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.35
Consensus pattern (39 bp):
TTGTTGAAACCTTAGTCTAAGAAAACCTATCAACCTTCA
Found at i:37893728 original size:18 final size:18
Alignment explanation
Indices: 37893701--37893751 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
37893691 AATTGTTCCA
*
37893701 GATTTGTAGGGATAGACT
1 GATTTCTAGGGATAGACT
*
37893719 GATTTCTAGGGATAAACT
1 GATTTCTAGGGATAGACT
* *
37893737 GATTTTTTGGGATAG
1 GATTTCTAGGGATAG
37893752 GATCCTGATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.06, G:0.29, T:0.37
Consensus pattern (18 bp):
GATTTCTAGGGATAGACT
Found at i:37898634 original size:16 final size:16
Alignment explanation
Indices: 37898583--37898634 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
37898573 TGTGTATTAA
*
37898583 TAATGTATAAACTAAT
1 TAATTTATAAACTAAT
* *
37898599 TACTTCTATCAAA-GAAT
1 TAATT-TAT-AAACTAAT
37898616 TAATTTATAAACTAAT
1 TAATTTATAAACTAAT
37898632 TAA
1 TAA
37898635 GTCTACTGTG
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
15 3 0.11
16 12 0.43
17 10 0.36
18 3 0.11
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (16 bp):
TAATTTATAAACTAAT
Done.