Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 114 of 153
Found at i:35907851 original size:25 final size:25
Alignment explanation
Indices: 35907823--35907902 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
35907813 AGATTTAGAG
35907823 TAAAAGAAATTCAAATATATTAAAC
1 TAAAAGAAATTCAAATATATTAAAC
* * * * *
35907848 T-AAAGCAAGCTT-TAATAGATTTAGAG
1 TAAAAG-AA-ATTCAAATATA-TTAAAC
35907874 TAAAAGAAATTCAAATATATTAAAC
1 TAAAAGAAATTCAAATATATTAAAC
35907899 TAAA
1 TAAA
35907903 TCTTAAAGTG
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
24 4 0.10
25 18 0.45
26 14 0.35
27 4 0.10
ACGTcount: A:0.55, C:0.07, G:0.09, T:0.29
Consensus pattern (25 bp):
TAAAAGAAATTCAAATATATTAAAC
Found at i:35907856 original size:51 final size:51
Alignment explanation
Indices: 35907800--35907902 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
35907790 AAATTAAATG
35907800 AGCAAGCTTTAATAGATTTAGAGTAAAAGAAATTCAAATATATTAAACTAA
1 AGCAAGCTTTAATAGATTTAGAGTAAAAGAAATTCAAATATATTAAACTAA
35907851 AGCAAGCTTTAATAGATTTAGAGTAAAAGAAATTCAAATATATTAAACTAA
1 AGCAAGCTTTAATAGATTTAGAGTAAAAGAAATTCAAATATATTAAACTAA
35907902 A
1 A
35907903 TCTTAAAGTG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (51 bp):
AGCAAGCTTTAATAGATTTAGAGTAAAAGAAATTCAAATATATTAAACTAA
Found at i:35913014 original size:19 final size:20
Alignment explanation
Indices: 35912990--35913031 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
35912980 TTCAAATAAG
35912990 TTTTCACAACAAACAC-TAT
1 TTTTCACAACAAACACATAT
*
35913009 TTTTCATAACAAACACATAT
1 TTTTCACAACAAACACATAT
35913029 TTT
1 TTT
35913032 CAACTTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.38
Consensus pattern (20 bp):
TTTTCACAACAAACACATAT
Found at i:35917281 original size:27 final size:27
Alignment explanation
Indices: 35917242--35917460 Score: 257
Period size: 27 Copynumber: 8.2 Consensus size: 27
35917232 GCTTGGGCTA
35917242 TAAAATTACCGAAATACCCTCGAAGGG
1 TAAAATTACCGAAATACCCTCGAAGGG
* *
35917269 AAAAATTATCGAAATACCCTCGAAGGG
1 TAAAATTACCGAAATACCCTCGAAGGG
* * *
35917296 TAAAATTATCAAAATACCC-CCACTA-GG
1 TAAAATTACCGAAATACCCTCGA--AGGG
* *
35917323 TAAAATTACAGAAATACCCTC-AAAGG
1 TAAAATTACCGAAATACCCTCGAAGGG
35917349 TAAAATTACCGAAATACCCTCGAAGGG
1 TAAAATTACCGAAATACCCTCGAAGGG
* *
35917376 TAAAATTACTGAAATACCCTCAAAGGG
1 TAAAATTACCGAAATACCCTCGAAGGG
* * *
35917403 TAAAATTACCAAAATACCC-CAAAGGT
1 TAAAATTACCGAAATACCCTCGAAGGG
* * *
35917429 TAAAATTATCGAAATACCCCCGATGGG
1 TAAAATTACCGAAATACCCTCGAAGGG
35917456 TAAAA
1 TAAAA
35917461 CGACTGTAAT
Statistics
Matches: 166, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.01
26 47 0.28
27 116 0.70
28 2 0.01
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.20
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTCGAAGGG
Found at i:35917457 original size:53 final size:54
Alignment explanation
Indices: 35917242--35917460 Score: 250
Period size: 53 Copynumber: 4.1 Consensus size: 54
35917232 GCTTGGGCTA
* * *
35917242 TAAAATTACCGAAATACCCTCGAAGGGAAAAATTATC-GAAATACCCTCGAAGGG
1 TAAAATTACCAAAATACCCTCAAAGGGTAAAATTA-CAGAAATACCCTCGAAGGG
* * * *
35917296 TAAAATTATCAAAATACCCCCACTA-GGTAAAATTACAGAAATACCCTC-AAAGG
1 TAAAATTACCAAAATACCCTCA-AAGGGTAAAATTACAGAAATACCCTCGAAGGG
* * * *
35917349 TAAAATTACCGAAATACCCTCGAAGGGTAAAATTACTGAAATACCCTCAAAGGG
1 TAAAATTACCAAAATACCCTCAAAGGGTAAAATTACAGAAATACCCTCGAAGGG
* * *
35917403 TAAAATTACCAAAATACCC-CAAAGGTTAAAATTATC-GAAATACCCCCGATGGG
1 TAAAATTACCAAAATACCCTCAAAGGGTAAAATTA-CAGAAATACCCTCGAAGGG
35917456 TAAAA
1 TAAAA
35917461 CGACTGTAAT
Statistics
Matches: 140, Mismatches: 20, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
52 1 0.01
53 77 0.55
54 61 0.44
55 1 0.01
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.20
Consensus pattern (54 bp):
TAAAATTACCAAAATACCCTCAAAGGGTAAAATTACAGAAATACCCTCGAAGGG
Found at i:35917472 original size:80 final size:80
Alignment explanation
Indices: 35917242--35917493 Score: 298
Period size: 80 Copynumber: 3.1 Consensus size: 80
35917232 GCTTGGGCTA
* * *
35917242 TAAAATTACCGAAATACCCTCGAAGGGAAAAATTATCGAAATACCCTCGAAGGGTAAAATTA-TC
1 TAAAATTACCAAAATACCCTC-AAAGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACT-
*
35917306 AAAATACCCCCACTA-GG
64 GAAATA-CCCCACTAGGG
*
35917323 TAAAATTA-CAGAAATACCCTCAAAGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTACTG
1 TAAAATTACCA-AAATACCCTCAAAGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACTG
*
35917387 AAATACCCTCA-AAGGG
65 AAATACCC-CACTAGGG
* * **
35917403 TAAAATTACCAAAATACCC-CAAAGGTTAAAATTATCGAAATACCCCCGATGGGTAAAACGACTG
1 TAAAATTACCAAAATACCCTCAAAGG-TAAAATTATCGAAATACCCTCGAAGGGTAAAATTACTG
* *
35917467 TAATACCCCATTAGGG
65 AAATACCCCACTAGGG
*
35917483 TAAAATAACCA
1 TAAAATTACCA
35917494 TGATGCCCCT
Statistics
Matches: 150, Mismatches: 14, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
79 12 0.08
80 117 0.78
81 21 0.14
ACGTcount: A:0.44, C:0.21, G:0.14, T:0.20
Consensus pattern (80 bp):
TAAAATTACCAAAATACCCTCAAAGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACTGA
AATACCCCACTAGGG
Found at i:35923401 original size:24 final size:24
Alignment explanation
Indices: 35923346--35923392 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
35923336 CCCTCAAGGT
* *
35923346 TAAATGATTGATTTGTCTGTGATG
1 TAAATGACTGATTTGTCTATGATG
35923370 TAAATGACTGATTTGTCTATGAT
1 TAAATGACTGATTTGTCTATGAT
35923393 TTGTATGACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (24 bp):
TAAATGACTGATTTGTCTATGATG
Found at i:35923406 original size:24 final size:24
Alignment explanation
Indices: 35923346--35923406 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
35923336 CCCTCAAGGT
** *
35923346 TAAATGATTGATTTGTCTGTGATG
1 TAAATGACCGATTTGTCTATGATG
* *
35923370 TAAATGACTGATTTGTCTATGATT
1 TAAATGACCGATTTGTCTATGATG
**
35923394 TGTATGACCGATT
1 TAAATGACCGATT
35923407 CTGAGCATGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.44
Consensus pattern (24 bp):
TAAATGACCGATTTGTCTATGATG
Found at i:35923551 original size:26 final size:26
Alignment explanation
Indices: 35923522--35923587 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
35923512 TTGGCCACAT
* *
35923522 ATACTATTAATGGCAGCTTTACTGCG
1 ATACTATTGATGGCAGCTTTACTACG
* * *
35923548 ATACTGTTGCTGGCAGCTTTGCTACG
1 ATACTATTGATGGCAGCTTTACTACG
*
35923574 ATGCTATTGATGGC
1 ATACTATTGATGGC
35923588 TTTGTGACGG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (26 bp):
ATACTATTGATGGCAGCTTTACTACG
Found at i:35923636 original size:32 final size:33
Alignment explanation
Indices: 35923581--35923670 Score: 105
Period size: 32 Copynumber: 2.8 Consensus size: 33
35923571 ACGATGCTAT
* ** * *
35923581 TGATGGCTTTGTGACGGTTATATTACCT-TTAC
1 TGATGGCTTTGTGCCAATCATATTACCTACTAC
35923613 TGATGG-TTGTGTGCCAATCATATTA-CTACTAC
1 TGATGGCTT-TGTGCCAATCATATTACCTACTAC
35923645 TGATGGCTTTGTGCCAATCATATTAC
1 TGATGGCTTTGTGCCAATCATATTAC
35923671 TGTACTTATG
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
31 4 0.08
32 43 0.88
33 2 0.04
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (33 bp):
TGATGGCTTTGTGCCAATCATATTACCTACTAC
Found at i:35923671 original size:32 final size:32
Alignment explanation
Indices: 35923610--35923671 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 32
35923600 ATATTACCTT
35923610 TACTGATGGTTGTGTGCCAATCATATTACTAC
1 TACTGATGGTTGTGTGCCAATCATATTACTAC
35923642 TACTGATGGCTT-TGTGCCAATCATATTACT
1 TACTGATGG-TTGTGTGCCAATCATATTACT
35923672 GTACTTATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 27 0.93
33 2 0.07
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (32 bp):
TACTGATGGTTGTGTGCCAATCATATTACTAC
Found at i:35936921 original size:6 final size:6
Alignment explanation
Indices: 35936910--35937002 Score: 62
Period size: 6 Copynumber: 15.3 Consensus size: 6
35936900 CTTTTCATAG
* * * * *
35936910 TTTTAT TTTTAT TTCTAAT TTTTAT CTTTAT CTTTCAT TTTGA- TTTAAT
1 TTTTAT TTTTAT TT-TTAT TTTTAT TTTTAT -TTTTAT TTTTAT TTTTAT
* * * * * *
35936959 TTTAAT TTTAAT CTTTAT TTTTAA TTTTAT TGTTAA TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
35937003 ATTTTATTAA
Statistics
Matches: 68, Mismatches: 16, Indels: 6
0.76 0.18 0.07
Matches are distributed among these distances:
5 4 0.06
6 55 0.81
7 9 0.13
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (6 bp):
TTTTAT
Found at i:35936932 original size:19 final size:18
Alignment explanation
Indices: 35936910--35936986 Score: 75
Period size: 19 Copynumber: 4.2 Consensus size: 18
35936900 CTTTTCATAG
*
35936910 TTTTATTTTTATTTCTAAT
1 TTTTATCTTTATTT-TAAT
*
35936929 TTTTATCTTTATCTTTCAT
1 TTTTATCTTTAT-TTTAAT
* *
35936948 TTTGAT-TTAATTTTAAT
1 TTTTATCTTTATTTTAAT
*
35936965 TTTAATCTTTATTTTTAAT
1 TTTTATCTTTA-TTTTAAT
35936984 TTT
1 TTT
35936987 ATTGTTAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
17 10 0.21
18 7 0.15
19 29 0.60
20 2 0.04
ACGTcount: A:0.22, C:0.06, G:0.01, T:0.70
Consensus pattern (18 bp):
TTTTATCTTTATTTTAAT
Found at i:35936965 original size:36 final size:37
Alignment explanation
Indices: 35936892--35936999 Score: 109
Period size: 36 Copynumber: 3.0 Consensus size: 37
35936882 TTTCTAATTC
* * *
35936892 ATTTTAATCTTT-TC-ATAGTTTTATT-TTTATTTCTA
1 ATTTTAATCTTTATCTTTAATTTTATTGTTAATTT-TA
* *
35936927 ATTTTTATCTTTATCTTTCATTTTGA-T-TTAATTTTA
1 ATTTTAATCTTTATCTTTAATTTT-ATTGTTAATTTTA
*
35936963 ATTTTAATCTTTATTTTTAATTTTATTGTTAATTTTA
1 ATTTTAATCTTTATCTTTAATTTTATTGTTAATTTTA
35937000 TTTATTTTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
35 12 0.20
36 26 0.43
37 21 0.35
38 1 0.02
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (37 bp):
ATTTTAATCTTTATCTTTAATTTTATTGTTAATTTTA
Found at i:35936970 original size:12 final size:12
Alignment explanation
Indices: 35936910--35936999 Score: 62
Period size: 13 Copynumber: 7.4 Consensus size: 12
35936900 CTTTTCATAG
*
35936910 TTTT-ATTTTTA
1 TTTTAATTTTAA
*
35936921 TTTCTAATTTTTA
1 TTT-TAATTTTAA
*
35936934 TCTTT-ATCTTTCA
1 T-TTTAAT-TTTAA
*
35936947 TTTTGA-TTTAA
1 TTTTAATTTTAA
35936958 TTTTAATTTTAA
1 TTTTAATTTTAA
*
35936970 TCTTTATTTTTAA
1 T-TTTAATTTTAA
35936983 TTTT-ATTGTTAA
1 TTTTAATT-TTAA
35936995 TTTTA
1 TTTTA
35937000 TTTATTTTAT
Statistics
Matches: 65, Mismatches: 5, Indels: 16
0.76 0.06 0.19
Matches are distributed among these distances:
11 14 0.22
12 23 0.35
13 26 0.40
14 2 0.03
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTTAATTTTAA
Found at i:35936997 original size:19 final size:19
Alignment explanation
Indices: 35936920--35936998 Score: 63
Period size: 19 Copynumber: 4.3 Consensus size: 19
35936910 TTTTATTTTT
* * *
35936920 ATTTCTAATTTTTATCTTT
1 ATTTTTAATTTTAATCTTA
* * *
35936939 ATCTTTCATTTTGAT-TTA
1 ATTTTTAATTTTAATCTTA
*
35936957 A-TTTTAATTTTAATCTTT
1 ATTTTTAATTTTAATCTTA
* *
35936975 ATTTTTAATTTTATTGTTA
1 ATTTTTAATTTTAATCTTA
35936994 ATTTT
1 ATTTT
35936999 ATTTATTTTA
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
17 10 0.22
18 6 0.13
19 30 0.65
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (19 bp):
ATTTTTAATTTTAATCTTA
Found at i:35937000 original size:12 final size:11
Alignment explanation
Indices: 35936910--35937010 Score: 73
Period size: 12 Copynumber: 8.6 Consensus size: 11
35936900 CTTTTCATAG
*
35936910 TTTTATTTTTA
1 TTTTATTTTAA
*
35936921 TTTCTAATTTTTA
1 TTT-T-ATTTTAA
*
35936934 TCTTTATCTTTCA
1 T-TTTAT-TTTAA
35936947 TTTTGA-TTTAA
1 TTTT-ATTTTAA
35936958 TTTTAATTTTAA
1 TTTT-ATTTTAA
35936970 TCTTTATTTTTAA
1 T-TTTA-TTTTAA
35936983 TTTTATTGTTAA
1 TTTTATT-TTAA
35936995 TTTTA-TTT-A
1 TTTTATTTTAA
35937004 TTTTATT
1 TTTTATT
35937011 AAAAGGGGTC
Statistics
Matches: 77, Mismatches: 3, Indels: 21
0.76 0.03 0.21
Matches are distributed among these distances:
9 6 0.08
10 3 0.04
11 15 0.19
12 26 0.34
13 25 0.32
14 2 0.03
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (11 bp):
TTTTATTTTAA
Found at i:35939001 original size:25 final size:24
Alignment explanation
Indices: 35938961--35939008 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
35938951 TTTCTTTAGT
*
35938961 TTTTATTTCTCTTTAGTTTTTTAA
1 TTTTATTTCTCTTTAGTATTTTAA
35938985 TTTTATTTCT-TAGTTAGTATTTTA
1 TTTTATTTCTCT--TTAGTATTTTA
35939009 CTTTCGCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 1 0.05
24 10 0.48
25 10 0.48
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.69
Consensus pattern (24 bp):
TTTTATTTCTCTTTAGTATTTTAA
Found at i:35954012 original size:42 final size:42
Alignment explanation
Indices: 35953965--35954049 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
35953955 GGGTGTTACA
* **
35953965 TTTAGTGGTATTAGAGCTTGCAGGTTTAGTCGATTCTCAGAC
1 TTTAGTGGTATCAGAGCTTGCAGGTTTAACCGATTCTCAGAC
35954007 TTTAGTGGTATCAGAGCTTGCAGGTTTAACCGATTCTCAGAC
1 TTTAGTGGTATCAGAGCTTGCAGGTTTAACCGATTCTCAGAC
35954049 T
1 T
35954050 AAATCGAGCT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.36
Consensus pattern (42 bp):
TTTAGTGGTATCAGAGCTTGCAGGTTTAACCGATTCTCAGAC
Found at i:35959035 original size:15 final size:16
Alignment explanation
Indices: 35959011--35959054 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
35959001 TAATGTTGTA
*
35959011 TTATATATATAATATT
1 TTATATATATAATATG
35959027 TTA-ATATAT-ATATG
1 TTATATATATAATATG
35959041 TTATATATTATAAT
1 TTATATA-TATAAT
35959055 TAATAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 7 0.29
15 9 0.38
16 6 0.25
17 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
TTATATATATAATATG
Found at i:35970490 original size:13 final size:13
Alignment explanation
Indices: 35970472--35970500 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
35970462 AAATATCCAT
35970472 GTTTTAGAAAATG
1 GTTTTAGAAAATG
35970485 GTTTTAGAAAATG
1 GTTTTAGAAAATG
35970498 GTT
1 GTT
35970501 GCGGCTATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.41
Consensus pattern (13 bp):
GTTTTAGAAAATG
Found at i:35972589 original size:14 final size:16
Alignment explanation
Indices: 35972560--35972591 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
35972550 TTTTCTATCC
35972560 TATTTTGATAATTATT
1 TATTTTGATAATTATT
35972576 TATTTT-AT-ATTATT
1 TATTTTGATAATTATT
35972590 TA
1 TA
35972592 AATAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (16 bp):
TATTTTGATAATTATT
Found at i:35973947 original size:10 final size:10
Alignment explanation
Indices: 35973934--35974002 Score: 51
Period size: 10 Copynumber: 7.3 Consensus size: 10
35973924 AAAATTCTCA
35973934 AAAATTTATT
1 AAAATTTATT
35973944 AAAA--TATT
1 AAAATTTATT
35973952 AAAATATTA-T
1 AAAAT-TTATT
*
35973962 AAAATTT-TG
1 AAAATTTATT
*
35973971 AAAA-TTATAG
1 AAAATTTAT-T
*
35973981 AAAATGTA-T
1 AAAATTTATT
35973990 AAAATTTATT
1 AAAATTTATT
35974000 AAA
1 AAA
35974003 TATAATAATG
Statistics
Matches: 47, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
8 10 0.21
9 14 0.30
10 19 0.40
11 4 0.09
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (10 bp):
AAAATTTATT
Found at i:35973979 original size:17 final size:18
Alignment explanation
Indices: 35973934--35974055 Score: 54
Period size: 19 Copynumber: 6.6 Consensus size: 18
35973924 AAAATTCTCA
35973934 AAAAT-TTATTAAAATATT
1 AAAATATTA-TAAAATATT
*
35973952 AAAATATTATAAAATTTT
1 AAAATATTATAAAATATT
* *
35973970 GAAAAT-TATAGAAAATGTAT
1 -AAAATAT-TATAAAATAT-T
*
35973990 AAAAT-TTATTAAATA-T
1 AAAATATTATAAAATATT
* * *
35974006 AATAATGTTTTAAAAAATT
1 AA-AATATTATAAAATATT
* * *
35974025 ATAAAAACTATTAAATATTAT
1 A-AAATATTATAAAATA-T-T
35974046 AAAATATTAT
1 AAAATATTAT
35974056 TCATTTGTTA
Statistics
Matches: 77, Mismatches: 17, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
16 3 0.04
17 3 0.04
18 27 0.35
19 32 0.42
20 10 0.13
21 2 0.03
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (18 bp):
AAAATATTATAAAATATT
Found at i:35973985 original size:47 final size:47
Alignment explanation
Indices: 35973924--35974055 Score: 112
Period size: 47 Copynumber: 2.8 Consensus size: 47
35973914 AGGATTATAT
* * *
35973924 AAAATTCTCAAAAATTTATTAAAATATTAAAATATTATAAAATTTT-G
1 AAAATTAT-AAAAATCTATTAAAATATTAAAATATTATAAAATTTTAA
* * **
35973971 AAAATTATAGAAAATGTA-TAAAAT-TTATTAAATATAATAATGTTTTAA
1 AAAATTATA-AAAATCTATTAAAATATTA--AAATATTATAAAATTTTAA
35974019 AAAATTATAAAAA-CTATT-AAATATTATAAAATATTAT
1 AAAATTATAAAAATCTATTAAAATA-T-TAAAATATTAT
35974056 TCATTTGTTA
Statistics
Matches: 69, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
45 3 0.04
46 13 0.19
47 41 0.59
48 10 0.14
49 2 0.03
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.39
Consensus pattern (47 bp):
AAAATTATAAAAATCTATTAAAATATTAAAATATTATAAAATTTTAA
Found at i:35974142 original size:30 final size:30
Alignment explanation
Indices: 35974100--35974168 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
35974090 ATATTATAAA
*
35974100 AATTAGAAATGATAGAAAAT-TATATAAAAAT
1 AATTA-AAATGATAAAAAATCTATA-AAAAAT
*
35974131 AATTAAAATGATAAAAAATCTATAAAAATT
1 AATTAAAATGATAAAAAATCTATAAAAAAT
*
35974161 AATAAAAA
1 AATTAAAA
35974169 AAACTTATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 25 0.74
31 9 0.26
ACGTcount: A:0.65, C:0.01, G:0.06, T:0.28
Consensus pattern (30 bp):
AATTAAAATGATAAAAAATCTATAAAAAAT
Found at i:35974498 original size:19 final size:19
Alignment explanation
Indices: 35974474--35974548 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 19
35974464 GTAGTAATAT
35974474 TTATTAAAAAGTT-TAAAAA
1 TTATTAAAAA-TTATAAAAA
*
35974493 TTATTAGAAATTAGTAAAATA
1 TTATTAAAAATTA-TAAAA-A
* * *
35974514 TTATAAAAAAATTATATAAG
1 TTAT-TAAAAATTATAAAAA
35974534 TTATTAAAAAATTAT
1 TTATT-AAAAATTAT
35974549 TAAATGTCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
18 2 0.04
19 9 0.20
20 18 0.40
21 9 0.20
22 7 0.16
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
TTATTAAAAATTATAAAAA
Found at i:35974542 original size:31 final size:32
Alignment explanation
Indices: 35974488--35974548 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
35974478 TAAAAAGTTT
*
35974488 AAAAATTATTAGAAATTAGTAAAATATTATAA
1 AAAAATTATTAGAAATTAGTAAAAAATTATAA
* * *
35974520 AAAAATTA-TATAAGTTATTAAAAAATTAT
1 AAAAATTATTAGAAATTAGTAAAAAATTAT
35974549 TAAATGTCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 17 0.68
32 8 0.32
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (32 bp):
AAAAATTATTAGAAATTAGTAAAAAATTATAA
Found at i:35974548 original size:11 final size:11
Alignment explanation
Indices: 35974488--35974552 Score: 55
Period size: 11 Copynumber: 6.2 Consensus size: 11
35974478 TAAAAAGTTT
35974488 AAAAATTATT-
1 AAAAATTATTA
* *
35974498 AGAAATTAGTA
1 AAAAATTATTA
* *
35974509 AAATATTATAA
1 AAAAATTATTA
35974520 AAAAATTA-T-
1 AAAAATTATTA
* *
35974529 ATAAGTTATTA
1 AAAAATTATTA
35974540 AAAAATTATTA
1 AAAAATTATTA
35974551 AA
1 AA
35974553 TGTCATAAAA
Statistics
Matches: 40, Mismatches: 12, Indels: 5
0.70 0.21 0.09
Matches are distributed among these distances:
9 6 0.15
10 9 0.22
11 25 0.62
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (11 bp):
AAAAATTATTA
Found at i:35974573 original size:20 final size:21
Alignment explanation
Indices: 35974500--35974573 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 21
35974490 AAATTATTAG
* *
35974500 AAATTAGTAAAATATTATAAAA
1 AAATTA-TAAAATGTCATAAAA
* * *
35974522 AAATTATATAA-GTTATTAAA
1 AAATTATAAAATGTCATAAAA
*
35974542 AAATTATTAAATGTCATAAAA
1 AAATTATAAAATGTCATAAAA
35974563 AAATT-TAAAAT
1 AAATTATAAAAT
35974574 TAATGCTCCT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 21 0.49
21 16 0.37
22 6 0.14
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.35
Consensus pattern (21 bp):
AAATTATAAAATGTCATAAAA
Found at i:35976813 original size:14 final size:14
Alignment explanation
Indices: 35976794--35976823 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
35976784 TCAGTATTAC
35976794 AAAATTAAATTATA
1 AAAATTAAATTATA
*
35976808 AAAATTAAATTTTA
1 AAAATTAAATTATA
35976822 AA
1 AA
35976824 TTTCGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAATTAAATTATA
Found at i:35979540 original size:21 final size:19
Alignment explanation
Indices: 35979503--35979577 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
35979493 AATCATATCT
35979503 TCCAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
35979522 TCCAAGATTGCATATATCATA
1 TCCAAGATTGC--ATATCATA
*
35979543 TCTAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
*
35979562 TCTAAGATTGCATATC
1 TCCAAGATTGCATATC
35979578 CTTGAAGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 35 0.66
21 18 0.34
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (19 bp):
TCCAAGATTGCATATCATA
Found at i:35979999 original size:44 final size:42
Alignment explanation
Indices: 35979923--35980303 Score: 300
Period size: 44 Copynumber: 9.0 Consensus size: 42
35979913 AGACTTGTAT
* *
35979923 CTTCGATCTACTTCGCCACCAGTATAGGAAGACAAGATCTGCTAC
1 CTTCGATCTACTTCGCCA--A-TACATGAAGACAAGATCTGCTAC
* * * **
35979968 CTTTGATCTATTTCATGCCGATACATGAAGACAAGATCTGCTTT
1 CTTCGATCTACTTC--GCCAATACATGAAGACAAGATCTGCTAC
35980012 CTTCGATCTACTTCGCCAATACATGAAGACAAGA-C--CTA-
1 CTTCGATCTACTTCGCCAATACATGAAGACAAGATCTGCTAC
* * *** *
35980050 C-T---TC-AC--CACCAGTATGGGAAGACAAGATCTGCTAT
1 CTTCGATCTACTTCGCCAATACATGAAGACAAGATCTGCTAC
*
35980085 CTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTATC
1 CTTCGATCTACTT--CGCCAATACATGAAGACAAGATCTGCTA-C
* **
35980130 ATT-GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
1 CTTCGATCTACTT--CGCCAATACATGAAGACAAGATCTGCTAC
** * *
35980173 CTTCGATCTACTTCGCCACCAGTATGGCAAGACAAGATCTGCTAT
1 CTTCGATCTACTTCGCCAATA-CAT-G-AAGACAAGATCTGCTAC
*
35980218 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTAT
1 CTTCGATCTACTT--CGCCAATACATGAAGACAAGATCTGCTAC
* * *
35980262 CTTTGATCCACTTCACGCCAATACATGAAGACAAGATTTGCT
1 CTTCGATCTACTT--CGCCAATACATGAAGACAAGATCTGCT
35980304 TTCTTTGATA
Statistics
Matches: 276, Mismatches: 38, Indels: 45
0.77 0.11 0.13
Matches are distributed among these distances:
31 16 0.06
32 1 0.00
33 2 0.01
34 5 0.02
35 1 0.00
36 1 0.00
37 1 0.00
38 1 0.00
39 4 0.01
40 2 0.01
41 1 0.00
42 25 0.09
43 4 0.01
44 156 0.57
45 45 0.16
46 2 0.01
47 9 0.03
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (42 bp):
CTTCGATCTACTTCGCCAATACATGAAGACAAGATCTGCTAC
Found at i:35980230 original size:89 final size:86
Alignment explanation
Indices: 35980067--35980322 Score: 325
Period size: 89 Copynumber: 2.9 Consensus size: 86
35980057 ACCAGTATGG
* *
35980067 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTATCAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTT--CGCCAACACATGAAGACAAGATCTGCTATCAT
35980132 TGATCTACTTCACGCCAATACAT
64 TGATCTACTTCACGCCAATACAT
* * *
35980155 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGCAAGACAAGATCTGCTATC-
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCGCCAACA-CAT-G-AAGACAAGATCTGCTATCA
35980219 TTCGATCTACTTCACGCCAATACAT
63 TT-GATCTACTTCACGCCAATACAT
* * * * * *
35980244 GAAGACAAGATCTGCTATCTTTGATCCACTTCACGCCAATACATGAAGACAAGATTTGCTTTCTT
1 GAAGACAAGATCTGCTATCTTCGATCTACTT--CGCCAACACATGAAGACAAGATCTGCTATCAT
*
35980309 TGATATACTTCACG
64 TGATCTACTTCACG
35980323 ACAACTTAGG
Statistics
Matches: 147, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
86 6 0.04
87 2 0.01
88 61 0.41
89 70 0.48
90 2 0.01
91 6 0.04
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (86 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCGCCAACACATGAAGACAAGATCTGCTATCATTG
ATCTACTTCACGCCAATACAT
Found at i:35980285 original size:133 final size:133
Alignment explanation
Indices: 35980047--35980321 Score: 478
Period size: 133 Copynumber: 2.1 Consensus size: 133
35980037 AAGACAAGAC
*
35980047 CTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATG
1 CTACTTCACCACCAGTATGGCAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATG
* *
35980112 AAGATAAGATCTGCTATCATTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTC
66 AAGACAAGATCTGCTATCATTGATCCACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTC
35980177 GAT
131 GAT
*
35980180 CTACTTCGCCACCAGTATGGCAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATG
1 CTACTTCACCACCAGTATGGCAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATG
* * *
35980245 AAGACAAGATCTGCTATCTTTGATCCACTTCACGCCAATACATGAAGACAAGATTTGCTTTCTTT
66 AAGACAAGATCTGCTATCATTGATCCACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTC
35980310 GAT
131 GAT
*
35980313 ATACTTCAC
1 CTACTTCAC
35980322 GACAACTTAG
Statistics
Matches: 133, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
133 133 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (133 bp):
CTACTTCACCACCAGTATGGCAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATG
AAGACAAGATCTGCTATCATTGATCCACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTC
GAT
Found at i:35980309 original size:44 final size:44
Alignment explanation
Indices: 35980067--35980322 Score: 356
Period size: 44 Copynumber: 5.8 Consensus size: 44
35980057 ACCAGTATGG
35980067 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
*
35980111 GAAGATAAGATCTGCTATCATT-GATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATC-TTCGATCTACTTCACGCCAATACAT
* ** *
35980155 GAAGACAAGATCTGCTTTCTTCGATCTACTT--CGCCACCAGTAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATA-CAT
35980198 GGCAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 -G-AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* *
35980244 GAAGACAAGATCTGCTATCTTTGATCCACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * *
35980288 GAAGACAAGATTTGCTTTCTTTGATATACTTCACG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACG
35980323 ACAACTTAGG
Statistics
Matches: 189, Mismatches: 16, Indels: 14
0.86 0.07 0.06
Matches are distributed among these distances:
42 6 0.03
43 4 0.02
44 139 0.74
45 32 0.17
46 2 0.01
47 6 0.03
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
Found at i:35980385 original size:88 final size:88
Alignment explanation
Indices: 35980330--35980638 Score: 503
Period size: 88 Copynumber: 3.5 Consensus size: 88
35980320 ACGACAACTT
* * **
35980330 AGGGAGGCAAGGCTAGTATCTTTGATCTATTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATC
1 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATC
35980395 TTCAACCTACTCCACTACAACCC
66 TTCAACCTACTCCACTACAACCC
35980418 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGT-CTAGGAAGGCAAGATCTGCTAT
1 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTAC-AGGAAGGCAAGATCTGCTAT
* *
35980482 CTTCAACCTGCTCCACTACGACCC
65 CTTCAACCTACTCCACTACAACCC
* * *
35980506 AGGGAGGCAAGGTTGGTATCCTCGATCTGCTTCACTGTCGGTACAGGAAGGTAAGATCTGCTATC
1 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATC
*
35980571 TTCAACCTGCTCCACTACAACCC
66 TTCAACCTACTCCACTACAACCC
*
35980594 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCAGTACA
1 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACA
35980639 AGAACTCCAC
Statistics
Matches: 206, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
87 1 0.00
88 204 0.99
89 1 0.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (88 bp):
AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATC
TTCAACCTACTCCACTACAACCC
Found at i:35980426 original size:44 final size:44
Alignment explanation
Indices: 35980373--35980604 Score: 198
Period size: 44 Copynumber: 5.3 Consensus size: 44
35980363 ACTGTCGGTA
* *
35980373 CAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTACAACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
* * * * * * * **
35980417 CAGGGAGGCAAG-GCTGGTATCTTCGATCTGCTTCACTGTCGGTC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT-ACGACC
*
35980461 TAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
* * * * * * * * ***
35980505 CAGGGAGGCAAGGT-TGGTATCCTCGATCTGCTTCACTGTCGGTA
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT-ACGACC
* *
35980549 CAGGAAGGTAAGATCTGCTATCTTCAACCTGCTCCACTACAACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
*
35980593 CAGGGAGGCAAG
1 CAGGAAGGCAAG
35980605 GCTGGTATCT
Statistics
Matches: 136, Mismatches: 48, Indels: 8
0.71 0.25 0.04
Matches are distributed among these distances:
43 37 0.27
44 61 0.45
45 38 0.28
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
Found at i:35980795 original size:88 final size:88
Alignment explanation
Indices: 35980643--35981286 Score: 948
Period size: 88 Copynumber: 7.3 Consensus size: 88
35980633 AGTACAAGAA
* * *
35980643 CTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGTAGGAAGG
1 CTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATGCAGGAAGG
**
35980708 CAAGATCTATTATCTTCAACCTG
66 CAAGATCTGCTATCTTCAACCTG
* * *
35980731 CTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTTACTATCGATGCAAGAAGG
1 CTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATGCAGGAAGG
* *
35980796 TAAGATCTGCTATCTTCAACCTT
66 CAAGATCTGCTATCTTCAACCTG
* * * * * * *
35980819 CTCCACTAAAACCTAGGGAGGCAAGGTTAGTATCTTCGATCTGCTTCAATGTCGATGTAAGAAGG
1 CTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATGCAGGAAGG
35980884 CAAGATCTGCTATCTTCAACCTG
66 CAAGATCTGCTATCTTCAACCTG
*
35980907 CTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATACAGGAAGG
1 CTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATGCAGGAAGG
35980972 CAAGATCTGCTATCTTCAACCTG
66 CAAGATCTGCTATCTTCAACCTG
*
35980995 CTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATACAGGAAGG
1 CTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATGCAGGAAGG
*
35981060 CAAGATCTGCTATCTTCAACGTG
66 CAAGATCTGCTATCTTCAACCTG
* * * * *
35981083 CTCCACTACAACCAAGGGAGGCAAGGCTAGTATCTTCGATTTGGTTCACTATCGATGCAGGAAGG
1 CTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATGCAGGAAGG
35981148 CAAGATCTGCTATCTTCAACCTG
66 CAAGATCTGCTATCTTCAACCTG
* * * * *
35981171 CTCCACTACAACCCATGGAGGCAAGGCTGGTATCTTAGATCTGCTTCGCCGTC-AGTACAGGAAG
1 CTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGA-TGCAGGAAG
* *
35981235 GCAAGATCTGTTATTTTCAACCTG
65 GCAAGATCTGCTATCTTCAACCTG
* * * *
35981259 CTCCGCTGCAAACCAGGAAGGCAAGGCT
1 CTCCACTACAACCCAGGGAGGCAAGGCT
35981287 TTGTGATTTC
Statistics
Matches: 502, Mismatches: 53, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
87 1 0.00
88 501 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (88 bp):
CTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATGCAGGAAGG
CAAGATCTGCTATCTTCAACCTG
Found at i:35981276 original size:44 final size:44
Alignment explanation
Indices: 35980879--35981283 Score: 202
Period size: 44 Copynumber: 9.2 Consensus size: 44
35980869 GTCGATGTAA
* * *
35980879 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAG
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAAACCAG
* * * * * * * *
35980923 GGAGGCAAG-GCTGGTATCTTCGATCTGCTTCACTGTCGATA-CAG
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTG-C-AAACCAG
* * *
35980967 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAG
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAAACCAG
* * * * * * * *
35981011 GGAGGCAAG-GCTGGTATCTTCGATCTGCTTCACTGTCGATA-CAG
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTG-C-AAACCAG
* * *
35981055 GAAGGCAAGATCTGCTATCTTCAACGTGCTCCACTAC-AACCAAG
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAAACC-AG
* * * ** * * * * * **
35981099 GGAGGCAAG-GCTAG-TATCTTCGATTTGGTTCACTATCGATGCAG
1 GAAGGCAAGATCT-GCTATCTTCAACCTGCTCCGCT-GCAAACCAG
* * *
35981143 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCATG
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAAACCA-G
* * * * * *
35981188 G-AGGCAAG-GCTGGTATCTT-AGATCTGCTTCGCCGTCAGTA-CAG
1 GAAGGCAAGATCTGCTATCTTCA-ACCTGCTCCGCTG-CA-AACCAG
* *
35981231 GAAGGCAAGATCTGTTATTTTCAACCTGCTCCGCTGCAAACCAG
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAAACCAG
35981275 GAAGGCAAG
1 GAAGGCAAG
35981284 GCTTTGTGAT
Statistics
Matches: 266, Mismatches: 73, Indels: 44
0.69 0.19 0.11
Matches are distributed among these distances:
42 2 0.01
43 79 0.30
44 104 0.39
45 80 0.30
46 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (44 bp):
GAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAAACCAG
Found at i:35984036 original size:31 final size:31
Alignment explanation
Indices: 35983998--35984059 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
35983988 CATTGAACAA
35983998 GTTTTGATACAGCTCCTTATACGTCATCGGG
1 GTTTTGATACAGCTCCTTATACGTCATCGGG
* *
35984029 GTTTTGATACAGTTTCTTATACGTCATCGGG
1 GTTTTGATACAGCTCCTTATACGTCATCGGG
35984060 ATTGGTGTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (31 bp):
GTTTTGATACAGCTCCTTATACGTCATCGGG
Found at i:35987032 original size:21 final size:19
Alignment explanation
Indices: 35986995--35987068 Score: 112
Period size: 19 Copynumber: 3.8 Consensus size: 19
35986985 ATCATATCTC
35986995 CCAAGATTGCATATCATAT
1 CCAAGATTGCATATCATAT
35987014 CCAAGATTGCATGTATCATAT
1 CCAAGATTGCA--TATCATAT
*
35987035 CTAAGATTGCATATCATAT
1 CCAAGATTGCATATCATAT
*
35987054 CTAAGATTGCATATC
1 CCAAGATTGCATATC
35987069 CTTGAAGGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 34 0.65
21 18 0.35
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (19 bp):
CCAAGATTGCATATCATAT
Found at i:35987884 original size:37 final size:36
Alignment explanation
Indices: 35987825--35987895 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 36
35987815 TACATATTTT
* * *
35987825 ATATATATATATTATTTTATTTTCATAATGTATATGG
1 ATATATATATATCATTTCATTTT-ATAATGCATATGG
35987862 ATATATATATA-CATTTACATTTTATAATGCATAT
1 ATATATATATATCATTT-CATTTTATAATGCATAT
35987896 ACATTTCCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 14 0.47
37 16 0.53
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.51
Consensus pattern (36 bp):
ATATATATATATCATTTCATTTTATAATGCATATGG
Found at i:35987919 original size:24 final size:23
Alignment explanation
Indices: 35987862--35987923 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 23
35987852 ATGTATATGG
*
35987862 ATATATATATACATTTACATTTT
1 ATATATATATACATTTACATATT
*
35987885 ATA-ATGCATATACATTTCCTATATT
1 ATATAT--ATATACATTTAC-ATATT
35987910 ATATATATATACAT
1 ATATATATATACAT
35987924 ATATTTTATC
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
22 2 0.06
23 3 0.09
24 19 0.58
25 7 0.21
26 2 0.06
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (23 bp):
ATATATATATACATTTACATATT
Found at i:35988015 original size:48 final size:49
Alignment explanation
Indices: 35987950--35988058 Score: 175
Period size: 50 Copynumber: 2.2 Consensus size: 49
35987940 TATATATTTA
* *
35987950 TATACATACATATTTTTAC-ATATATATACATACTCTATACAAAACTAT
1 TATAAATATATATTTTTACAATATATATACATACTCTATACAAAACTAT
*
35987998 TATAAATATATATTTTTACATATATATATACATACTCTATTCAAAACTAT
1 TATAAATATATATTTTTACA-ATATATATACATACTCTATACAAAACTAT
35988048 TATAAATATAT
1 TATAAATATAT
35988059 TTTCTGCATT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 17 0.30
50 39 0.70
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (49 bp):
TATAAATATATATTTTTACAATATATATACATACTCTATACAAAACTAT
Found at i:35989784 original size:16 final size:16
Alignment explanation
Indices: 35989763--35989797 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
35989753 TTGTGTTTTG
35989763 TTTTGAATGCATGACA
1 TTTTGAATGCATGACA
* *
35989779 TTTTGACTGCATGGCA
1 TTTTGAATGCATGACA
35989795 TTT
1 TTT
35989798 CATTATAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (16 bp):
TTTTGAATGCATGACA
Found at i:35992258 original size:7 final size:7
Alignment explanation
Indices: 35992246--35992305 Score: 61
Period size: 7 Copynumber: 8.4 Consensus size: 7
35992236 TCAATCCAAA
*
35992246 AAAAAAC
1 AAAAAAG
35992253 AAAAAAG
1 AAAAAAG
35992260 AAAAAAG
1 AAAAAAG
35992267 AAAAGAA-
1 AAAA-AAG
*
35992274 AAGAAAG
1 AAAAAAG
35992281 AGAAAAAG
1 A-AAAAAG
35992289 -AAAAAG
1 AAAAAAG
35992295 AAAAATAG
1 AAAAA-AG
35992303 AAA
1 AAA
35992306 TAAAAAACAA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
6 8 0.18
7 25 0.56
8 12 0.27
ACGTcount: A:0.82, C:0.02, G:0.15, T:0.02
Consensus pattern (7 bp):
AAAAAAG
Found at i:35992263 original size:6 final size:6
Alignment explanation
Indices: 35992254--35992299 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
35992244 AAAAAAAACA
*
35992254 AAAAAG AAAAA- AGAAAAG -AAAAG AAAGAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG A-AAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
35992300 TAGAAATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 6 0.17
6 29 0.83
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:35992263 original size:12 final size:11
Alignment explanation
Indices: 35992243--35992299 Score: 62
Period size: 12 Copynumber: 5.1 Consensus size: 11
35992233 GATTCAATCC
*
35992243 AAAAAA-AAAC
1 AAAAAAGAAAA
35992253 AAAAAAGAAAA
1 AAAAAAGAAAA
35992264 AAGAAAAGAAAA
1 AA-AAAAGAAAA
* *
35992276 GAAAGAGAAAA
1 AAAAAAGAAAA
35992287 AGAAAAAGAAAA
1 A-AAAAAGAAAA
35992299 A
1 A
35992300 TAGAAATAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
10 6 0.15
11 13 0.33
12 20 0.51
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:35992834 original size:15 final size:15
Alignment explanation
Indices: 35992809--35992845 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
35992799 AATATGACGA
*
35992809 AAAAAT-GAAAATG-
1 AAAAATGGAAAAAGT
35992822 AAAAATGGAAAAAGT
1 AAAAATGGAAAAAGT
35992837 AAAAATGGA
1 AAAAATGGA
35992846 GAGGCTAGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.29
14 6 0.29
15 9 0.43
ACGTcount: A:0.68, C:0.00, G:0.19, T:0.14
Consensus pattern (15 bp):
AAAAATGGAAAAAGT
Found at i:35994129 original size:44 final size:44
Alignment explanation
Indices: 35994079--35994305 Score: 138
Period size: 44 Copynumber: 5.2 Consensus size: 44
35994069 AAACTTTAGC
35994079 CTTGTCTCCCTGAGTAGTAGTGGAATAGGTTGAAAACAGCAGAT
1 CTTGTCTCCCTGAGTAGTAGTGGAATAGGTTGAAAACAGCAGAT
* * * * * * * *** *
35994123 CTTGTCTTCCTGTATTGGTAG-CGAAGTAGATCGAAGACCTTAG-C
1 CTTGTCTCCCTG-AGTAGTAGTGGAA-TAGGTTGAAAACAGCAGAT
* *
35994167 CTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAGCAGAT
1 CTTGTCTCCCTGAGTAGTAGTGGAATAGGTTGAAAACAGCAGAT
* * * * ** * * *** *
35994211 CTTGTCTTCCTGTATTGGCAG-CAAAGTAGATTGAAGACCTAAG-C
1 CTTGTCTCCCTG-AGTAGTAGTGGAA-TAGGTTGAAAACAGCAGAT
* * *
35994255 CTTGTCTCCCTGGGTAGTAGTGGAGTAGGTTGAAAATAGCAGAT
1 CTTGTCTCCCTGAGTAGTAGTGGAATAGGTTGAAAACAGCAGAT
35994299 CTTGTCT
1 CTTGTCT
35994306 TCCTAAATTC
Statistics
Matches: 122, Mismatches: 53, Indels: 16
0.64 0.28 0.08
Matches are distributed among these distances:
43 31 0.25
44 58 0.48
45 33 0.27
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (44 bp):
CTTGTCTCCCTGAGTAGTAGTGGAATAGGTTGAAAACAGCAGAT
Found at i:35994435 original size:44 final size:44
Alignment explanation
Indices: 35994387--35994618 Score: 132
Period size: 44 Copynumber: 5.3 Consensus size: 44
35994377 AATAGTAGAT
* *
35994387 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAAACCTCAGC
1 CTTGTCTCCCTGTATTGGCAGCGAAGTAGATCGAAAACCTCAGC
* * * *** *
35994431 CTTGTCTCCCTG-A---GCAGTAGTAGAGTAGGTTGAAAATAGCAGAT
1 CTTGTCTCCCTGTATTGGCAG-CG-A-AGTAGATCGAAAACCTCAG-C
* * * *
35994475 CTTGTCTTCCTGTATTGGCAGCAAAGTAAATCGAATACCTCAGC
1 CTTGTCTCCCTGTATTGGCAGCGAAGTAGATCGAAAACCTCAGC
*** * * * * * *** *
35994519 CTTGTCTCCCTG-AGCAGTAGTGGAGTAGGTTGAAAATAGCAGAT
1 CTTGTCTCCCTGTATTGGCAGCGAAGTAGATCGAAAACCTCAG-C
* * *
35994563 CTTGTCTTCCTGTATTGGCAGCAAAGTAGATCGAAGACCTCAGC
1 CTTGTCTCCCTGTATTGGCAGCGAAGTAGATCGAAAACCTCAGC
35994607 CTTGTCTCCCTG
1 CTTGTCTCCCTG
35994619 AGTAGCAGTG
Statistics
Matches: 126, Mismatches: 52, Indels: 20
0.64 0.26 0.10
Matches are distributed among these distances:
40 4 0.03
41 1 0.01
42 1 0.01
43 30 0.24
44 55 0.44
45 30 0.24
46 1 0.01
48 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.28
Consensus pattern (44 bp):
CTTGTCTCCCTGTATTGGCAGCGAAGTAGATCGAAAACCTCAGC
Found at i:35994682 original size:88 final size:88
Alignment explanation
Indices: 35994076--35994688 Score: 902
Period size: 88 Copynumber: 7.0 Consensus size: 88
35994066 GTGAAACTTT
* *
35994076 AGCCTTGTCTCCCTGAGTAGTAGTGGAATAGGTTGAAAACAGCAGATCTTGTCTTCCTGTATTGG
1 AGCCTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
* *
35994141 TAGCGAAGTAGATCGAAGACCTT
66 CAGCGAAGTAGATCGAAGACCTC
35994164 AGCCTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
1 AGCCTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
* * *
35994229 CAGCAAAGTAGATTGAAGACCTA
66 CAGCGAAGTAGATCGAAGACCTC
* ** *
35994252 AGCCTTGTCTCCCTGGGTAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTAAATTCG
1 AGCCTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
*
35994317 CAGCGAAGTAGATCGAAAACCTC
66 CAGCGAAGTAGATCGAAGACCTC
* * * * *
35994340 AGCCTTGTCTCCTTGAGCAATAGTAGAGTAGGTTGAAAATAGTAGATCTTGTCTTCCTGTATTGG
1 AGCCTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
* *
35994405 CAGCGAAGTAGATCAAAAACCTC
66 CAGCGAAGTAGATCGAAGACCTC
* *
35994428 AGCCTTGTCTCCCTGAGCAGTAGTAGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
1 AGCCTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
* * *
35994493 CAGCAAAGTAAATCGAATACCTC
66 CAGCGAAGTAGATCGAAGACCTC
*
35994516 AGCCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
1 AGCCTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
*
35994581 CAGCAAAGTAGATCGAAGACCTC
66 CAGCGAAGTAGATCGAAGACCTC
* * * ** * *
35994604 AGCCTTGTCTCCCTGAGTAGCAGTGCAGTAGGTTGAATATAGCAGATCTTACCTTCCTATACTGG
1 AGCCTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
* * *
35994669 CAGTGAAGCAGATCAAAGAC
66 CAGCGAAGTAGATCGAAGAC
35994689 ACCAGTTTTA
Statistics
Matches: 479, Mismatches: 46, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 479 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (88 bp):
AGCCTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
CAGCGAAGTAGATCGAAGACCTC
Found at i:35995273 original size:126 final size:125
Alignment explanation
Indices: 35995042--35995334 Score: 310
Period size: 126 Copynumber: 2.3 Consensus size: 125
35995032 AGATGGCGAA
* * *
35995042 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAATAGTCCTATCTCCCTGAGGTTGCA
1 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTAAAGCCAATAGTCCTATCTCCCTAAGGTTGCA
* **
35995107 GTGGAGCTGATTAAAATTAGATATTATCTCCTTACGGTTGCAGAGAGCAGATCACATCAAG
66 GTGGAGCTGATTAAAATCAGATATTATCT-CTTAAAGTTGCAGAGAGCAGATCACATCAAG
*
35995168 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGACCTAA-A-TCCTATCTCCCTAAGGTTG
1 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTAAAG-CC-AATAGTCCTATCTCCCTAAGGTTG
* ** * *
35995231 CAGTGGAG-TGGATTAAAACATCCAGAT-TTATCT-TTAAAGTTGCAATAGAATAAGTTGA-AGT
64 CAGTGGAGCT-GATT-AAA-AT-CAGATATTATCTCTTAAAGTTGC-AGAG-AGCAGATCACA--
35995292 CTCAAG
121 -TCAAG
* *
35995298 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG
1 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTAAAG
35995335 ATAGCAAATT
Statistics
Matches: 141, Mismatches: 15, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
125 1 0.01
126 72 0.51
127 10 0.07
128 15 0.11
129 4 0.03
130 39 0.28
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (125 bp):
TCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTAAAGCCAATAGTCCTATCTCCCTAAGGTTGCA
GTGGAGCTGATTAAAATCAGATATTATCTCTTAAAGTTGCAGAGAGCAGATCACATCAAG
Found at i:35995758 original size:21 final size:21
Alignment explanation
Indices: 35995720--35995759 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
35995710 CGCAGCAGTC
* *
35995720 CCCCGCACATCTCGCACGTTG
1 CCCCGCACATCGCACACGTTG
*
35995741 CCCCGCACGTCGCACACGT
1 CCCCGCACATCGCACACGT
35995760 CACCCAGCAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.50, G:0.20, T:0.15
Consensus pattern (21 bp):
CCCCGCACATCGCACACGTTG
Found at i:35995908 original size:18 final size:18
Alignment explanation
Indices: 35995876--35995915 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
35995866 TATTGTATTT
*
35995876 AAAAGAATAATGAAATAAA
1 AAAAGAATAAGGAAA-AAA
35995895 AAAAGAA-AAGGAAAAAA
1 AAAAGAATAAGGAAAAAA
35995912 AAAA
1 AAAA
35995916 CAAATTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 6 0.30
19 7 0.35
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.07
Consensus pattern (18 bp):
AAAAGAATAAGGAAAAAA
Found at i:35996608 original size:3 final size:3
Alignment explanation
Indices: 35996591--35996648 Score: 64
Period size: 3 Copynumber: 18.3 Consensus size: 3
35996581 ATTTCAATAG
*
35996591 TAT TA- TAT TATT TAT TATT TAT TATT TAT TATT TAT TAT TAT TGT TAT
1 TAT TAT TAT TA-T TAT TA-T TAT TA-T TAT TA-T TAT TAT TAT TAT TAT
35996639 TAT TAT TAT T
1 TAT TAT TAT T
35996649 TCTATATTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
2 2 0.04
3 34 0.71
4 12 0.25
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:35996608 original size:7 final size:7
Alignment explanation
Indices: 35996591--35996649 Score: 79
Period size: 7 Copynumber: 8.7 Consensus size: 7
35996581 ATTTCAATAG
35996591 TATTATAT
1 TATT-TAT
35996599 TATTTAT
1 TATTTAT
35996606 TATTTAT
1 TATTTAT
35996613 TATTTAT
1 TATTTAT
35996620 TATTTAT
1 TATTTAT
35996627 TA-TTAT
1 TATTTAT
*
35996633 T-GTTAT
1 TATTTAT
35996639 TA-TTAT
1 TATTTAT
35996645 TATTT
1 TATTT
35996650 CTATATTAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
6 16 0.33
7 28 0.58
8 4 0.08
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (7 bp):
TATTTAT
Found at i:36002129 original size:3 final size:3
Alignment explanation
Indices: 36002121--36002150 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
36002111 TGCGCTGTGA
36002121 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
36002151 TCTCTTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:36002646 original size:9 final size:9
Alignment explanation
Indices: 36002632--36002691 Score: 75
Period size: 9 Copynumber: 6.2 Consensus size: 9
36002622 GACTAAAATT
36002632 TTCGGGTAA
1 TTCGGGTAA
36002641 TTCGGGTAA
1 TTCGGGTAA
*
36002650 TTCGAGTAA
1 TTCGGGTAA
36002659 TTAAGTCGGGTAA
1 -T---TCGGGTAA
36002672 TTCGGGTAA
1 TTCGGGTAA
36002681 TTCGGGTAA
1 TTCGGGTAA
36002690 TT
1 TT
36002692 TTTAACCAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
9 36 0.80
10 1 0.02
12 1 0.02
13 7 0.16
ACGTcount: A:0.25, C:0.10, G:0.30, T:0.35
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:36002668 original size:31 final size:31
Alignment explanation
Indices: 36002633--36002691 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
36002623 ACTAAAATTT
36002633 TCGGGTAATTCGGGTAATTCGAGTAATTAAG
1 TCGGGTAATTCGGGTAATTCGAGTAATTAAG
*
36002664 TCGGGTAATTCGGGTAATTCGGGTAATT
1 TCGGGTAATTCGGGTAATTCGAGTAATT
36002692 TTTAACCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.10, G:0.31, T:0.34
Consensus pattern (31 bp):
TCGGGTAATTCGGGTAATTCGAGTAATTAAG
Found at i:36002812 original size:28 final size:28
Alignment explanation
Indices: 36002754--36002812 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
36002744 TTATTAACCG
* * *** *
36002754 AAAAAATTTCGGTTCGGTTAATTTTTTA
1 AAAAAAATTAGGTTCGGTTAACGGTTAA
36002782 AAAAAAATTAGGTTCGGTTAACGGTTAA
1 AAAAAAATTAGGTTCGGTTAACGGTTAA
36002810 AAA
1 AAA
36002813 TTTTGAGAGG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.36
Consensus pattern (28 bp):
AAAAAAATTAGGTTCGGTTAACGGTTAA
Found at i:36005890 original size:28 final size:28
Alignment explanation
Indices: 36005826--36005911 Score: 102
Period size: 28 Copynumber: 3.0 Consensus size: 28
36005816 TTGGAGCGTT
* * *
36005826 TTTCTTCAAAATTATTTCTTCAGAACCTA
1 TTTCGTCAAAATTATTT-TTTAGAACCCA
36005855 TCTT-GTCAAAATTATTTTTTAGAACCCA
1 T-TTCGTCAAAATTATTTTTTAGAACCCA
36005883 TTTCGTCAAAATTATTTTTTTCAGAACCC
1 TTTCGTCAAAATTA-TTTTTT-AGAACCC
36005912 CTAAACCCTA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
27 2 0.04
28 20 0.40
29 19 0.38
30 9 0.18
ACGTcount: A:0.30, C:0.20, G:0.06, T:0.44
Consensus pattern (28 bp):
TTTCGTCAAAATTATTTTTTAGAACCCA
Found at i:36006026 original size:22 final size:20
Alignment explanation
Indices: 36006001--36006067 Score: 53
Period size: 22 Copynumber: 3.0 Consensus size: 20
36005991 AACTTACAAA
36006001 TTAAGAAACCTTAAACCCTAAT
1 TTAA-AAACC-TAAACCCTAAT
* *
36006023 TTAAAATTCCCACAACCCTAAT
1 TTAAAA-ACCTA-AACCCTAAT
*
36006045 TTAATAAACCCTAAGCCCTAAT
1 TTAA-AAA-CCTAAACCCTAAT
36006067 T
1 T
36006068 AGCAATTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
21 3 0.08
22 28 0.78
23 5 0.14
ACGTcount: A:0.42, C:0.27, G:0.03, T:0.28
Consensus pattern (20 bp):
TTAAAAACCTAAACCCTAAT
Found at i:36006805 original size:9 final size:9
Alignment explanation
Indices: 36006791--36006821 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
36006781 CCGCTTTAGC
36006791 TTTTCTTTT
1 TTTTCTTTT
36006800 TTTTCTTTT
1 TTTTCTTTT
*
36006809 GTTTCTTTT
1 TTTTCTTTT
36006818 TTTT
1 TTTT
36006822 TCCTTTTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:36006820 original size:19 final size:19
Alignment explanation
Indices: 36006792--36006828 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
36006782 CGCTTTAGCT
36006792 TTTCTTTTTTTT-CTTTTG
1 TTTCTTTTTTTTCCTTTTG
36006810 TTTCTTTTTTTTTCCTTTT
1 TTTC-TTTTTTTTCCTTTT
36006829 TGGATTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 8 0.47
20 5 0.29
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.84
Consensus pattern (19 bp):
TTTCTTTTTTTTCCTTTTG
Found at i:36012074 original size:19 final size:18
Alignment explanation
Indices: 36012050--36012097 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
36012040 TTTGATATTG
*
36012050 TTAAATTTCTATAATTAGT
1 TTAAATTT-GATAATTAGT
**
36012069 TTAAATTTGATCTTTAGT
1 TTAAATTTGATAATTAGT
36012087 TTAAATTTGAT
1 TTAAATTTGAT
36012098 TTTTAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 18 0.69
19 8 0.31
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.54
Consensus pattern (18 bp):
TTAAATTTGATAATTAGT
Found at i:36012087 original size:18 final size:18
Alignment explanation
Indices: 36012064--36012102 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
36012054 ATTTCTATAA
36012064 TTAGTTTAAATTTGATCT
1 TTAGTTTAAATTTGATCT
*
36012082 TTAGTTTAAATTTGATTT
1 TTAGTTTAAATTTGATCT
36012100 TTA
1 TTA
36012103 AATTTTGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.59
Consensus pattern (18 bp):
TTAGTTTAAATTTGATCT
Found at i:36013591 original size:19 final size:18
Alignment explanation
Indices: 36013567--36013614 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
36013557 TCGTGACTGC
36013567 AAAATAAATTAAGCGAAAT
1 AAAATAAATTAAG-GAAAT
*
36013586 AAAATAAATT-AGTAAAT
1 AAAATAAATTAAGGAAAT
*
36013603 AAAATATATTAA
1 AAAATAAATTAA
36013615 AGCTTAGTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 13 0.50
18 3 0.12
19 10 0.38
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (18 bp):
AAAATAAATTAAGGAAAT
Found at i:36016168 original size:50 final size:50
Alignment explanation
Indices: 36016078--36016256 Score: 168
Period size: 50 Copynumber: 3.6 Consensus size: 50
36016068 GGTAAAGATG
* * **
36016078 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
* * *
36016128 TCCTC-TGTAAGACCATGTCTGGGACATGGTATGGGTACCGATATGAGAAC
1 TCC-CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
* ** * * * *
36016178 TCCCATGTAAGACCATATCTTAGATATGGCATTGGCA--GTACAAGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCG-AGATGAGAAC
*
36016226 ATCCCATGTAAGACCATGTATGGGACATGGC
1 -TCCCATGTAAGACCATGTCTGGGACATGGC
36016257 TTTGGCATGT
Statistics
Matches: 104, Mismatches: 21, Indels: 9
0.78 0.16 0.07
Matches are distributed among these distances:
48 4 0.04
49 30 0.29
50 69 0.66
51 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
Found at i:36018902 original size:15 final size:16
Alignment explanation
Indices: 36018882--36018911 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36018872 TTTAATCTGG
36018882 AAAAGG-TTTTATATA
1 AAAAGGATTTTATATA
36018897 AAAAGGATTTTATAT
1 AAAAGGATTTTATAT
36018912 GACAATAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (16 bp):
AAAAGGATTTTATATA
Found at i:36019114 original size:28 final size:29
Alignment explanation
Indices: 36019074--36019140 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 29
36019064 TACCAAAAAA
*
36019074 GCCATTTTTTTTA-AATTTACCGAAATGG
1 GCCAATTTTTTTATAATTTACCGAAATGG
* *
36019102 GCCAATTTTTTTATTATTTACCGGAATGG
1 GCCAATTTTTTTATAATTTACCGAAATGG
*
36019131 TCC-ATTTTTT
1 GCCAATTTTTT
36019141 GAGAAATCGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 19 0.56
29 15 0.44
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.48
Consensus pattern (29 bp):
GCCAATTTTTTTATAATTTACCGAAATGG
Found at i:36019576 original size:123 final size:125
Alignment explanation
Indices: 36019357--36019634 Score: 508
Period size: 123 Copynumber: 2.2 Consensus size: 125
36019347 TTATTTCGAG
36019357 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
36019421 GAAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAAT-A-TTTTTT
65 GAAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTTT
*
36019480 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTTTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
36019545 AAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTTT
66 AAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTTT
*
36019605 TTGATGTTTCTGAGCAAATAGTATAAAATC
1 TTGACGTTTCTGAGCAAATAGTATAAAATC
36019635 ACACCCTCGT
Statistics
Matches: 150, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
123 113 0.75
124 2 0.01
125 35 0.23
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTTT
Found at i:36019894 original size:16 final size:16
Alignment explanation
Indices: 36019873--36019909 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
36019863 TCATTTAACT
36019873 AGAACATAGATTTGAC
1 AGAACATAGATTTGAC
36019889 AGAACATAGATTTGAC
1 AGAACATAGATTTGAC
36019905 AGAAC
1 AGAAC
36019910 TTCGTAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.22
Consensus pattern (16 bp):
AGAACATAGATTTGAC
Found at i:36022855 original size:29 final size:29
Alignment explanation
Indices: 36022790--36022960 Score: 308
Period size: 29 Copynumber: 5.9 Consensus size: 29
36022780 TTTTGTTAAT
36022790 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
36022819 GATTTAGGGTTTTTAATTAAATTAGGTTAG
1 G-GTTAGGGTTTTTAATTAAATTAGGTTAG
36022849 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
36022878 GGTTTAGGGTTTTTAATTAAATTAGGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAGGTTAG
36022908 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
36022937 GGTTA-GGTTTTTAATTAAATTAGG
1 GGTTAGGGTTTTTAATTAAATTAGG
36022961 ATTTTTATTA
Statistics
Matches: 138, Mismatches: 2, Indels: 5
0.95 0.01 0.03
Matches are distributed among these distances:
28 19 0.14
29 62 0.45
30 57 0.41
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (29 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAG
Found at i:36022884 original size:59 final size:59
Alignment explanation
Indices: 36022790--36022960 Score: 319
Period size: 59 Copynumber: 2.9 Consensus size: 59
36022780 TTTTGTTAAT
*
36022790 GGTTAGGGTTTTTAATTAAATTAGGTTAGGATTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAG
36022849 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAG
36022908 GGTTAGGGTTTTTAATTAAATTAGGTTAGGG-TTA-GGTTTTTAATTAAATTAGG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGG
36022961 ATTTTTATTA
Statistics
Matches: 111, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
57 19 0.17
58 3 0.03
59 89 0.80
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (59 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAG
Found at i:36025312 original size:20 final size:20
Alignment explanation
Indices: 36025272--36025315 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
36025262 ATGAAAATAT
36025272 AAAAAATTAAAATTATTTTTA
1 AAAAAATTAAAATTA-TTTTA
36025293 AAAAAATATAAAATTA-TTTA
1 AAAAAAT-TAAAATTATTTTA
36025313 AAA
1 AAA
36025316 TTATTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.32
21 7 0.32
22 8 0.36
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAAATTAAAATTATTTTA
Found at i:36025319 original size:32 final size:30
Alignment explanation
Indices: 36025265--36025329 Score: 103
Period size: 32 Copynumber: 2.1 Consensus size: 30
36025255 ACCATTGATG
36025265 AAAATATAAAAAATTAAAATTATTTTTAAA
1 AAAATATAAAAAATTAAAATTATTTTTAAA
*
36025295 AAAATATAAAATTATTTAAAATTATTTTTAAA
1 AAAATATAAAA--AATTAAAATTATTTTTAAA
36025327 AAA
1 AAA
36025330 TGAAATTGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 11 0.34
32 21 0.66
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (30 bp):
AAAATATAAAAAATTAAAATTATTTTTAAA
Found at i:36025389 original size:22 final size:22
Alignment explanation
Indices: 36025364--36025435 Score: 119
Period size: 22 Copynumber: 3.3 Consensus size: 22
36025354 TAATATGGAT
36025364 TTGAGA-GATTTTTGGAAGGAAA
1 TTGAGAGGA-TTTTGGAAGGAAA
*
36025386 TTGACAGGATTTTGGAAGGAAA
1 TTGAGAGGATTTTGGAAGGAAA
36025408 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGAGGATTTTGGAAGGAAA
36025430 TTGAGA
1 TTGAGA
36025436 TAGGATTTGT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
22 45 0.96
23 2 0.04
ACGTcount: A:0.36, C:0.01, G:0.33, T:0.29
Consensus pattern (22 bp):
TTGAGAGGATTTTGGAAGGAAA
Found at i:36029241 original size:25 final size:24
Alignment explanation
Indices: 36029213--36029280 Score: 57
Period size: 25 Copynumber: 2.8 Consensus size: 24
36029203 TTTTAAAACT
*
36029213 TATATGTAAAATATATTTATATGAA
1 TATAT-TAAAATATATTTACATGAA
* * *
36029238 TATAATTTAGATATATTTACATGTA
1 TAT-ATTAAAATATATTTACATGAA
*
36029263 TATA-TAATATATAATTTA
1 TATATTAAAATAT-ATTTA
36029281 TTTTTACCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
23 6 0.17
24 6 0.17
25 21 0.60
26 2 0.06
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.47
Consensus pattern (24 bp):
TATATTAAAATATATTTACATGAA
Found at i:36032034 original size:64 final size:64
Alignment explanation
Indices: 36031913--36032035 Score: 140
Period size: 64 Copynumber: 1.9 Consensus size: 64
36031903 TCCCGATCAG
* * ** * * ****
36031913 TATTGATCGTGCATGTGTTGCGGACATACCGCAGCTCTTTGTGAATGTCTTGTTATATGATTGA
1 TATTGATCCTGCATATGTTGCAAACATACCGCAGCTCTTTATGAACGTCCCAATATATGATTGA
36031977 TATTGATCCTGCATATGTTGCAAACATACCGCAGCTCTTTAT-AAGCGTCCCAATATATG
1 TATTGATCCTGCATATGTTGCAAACATACCGCAGCTCTTTATGAA-CGTCCCAATATATG
36032036 GCTCTTCATG
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
63 2 0.04
64 46 0.96
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (64 bp):
TATTGATCCTGCATATGTTGCAAACATACCGCAGCTCTTTATGAACGTCCCAATATATGATTGA
Found at i:36033787 original size:23 final size:23
Alignment explanation
Indices: 36033758--36033801 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
36033748 TTGGTAAACT
*
36033758 TTAGTTACAAATATGCATATAAG
1 TTAGTTACAAATATGAATATAAG
* *
36033781 TTAGTTATACATATGAATATA
1 TTAGTTACAAATATGAATATA
36033802 TTAAAAATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (23 bp):
TTAGTTACAAATATGAATATAAG
Found at i:36037839 original size:28 final size:28
Alignment explanation
Indices: 36037796--36037852 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
36037786 CCTTTCTCTG
* *
36037796 GTTAGCACTTACTGATCTGTTAGTATTT
1 GTTAACACTTAATGATCTGTTAGTATTT
36037824 GTTAACACTTAATGATCTGTTAGTATTT
1 GTTAACACTTAATGATCTGTTAGTATTT
36037852 G
1 G
36037853 ATGCTAGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.12, G:0.18, T:0.46
Consensus pattern (28 bp):
GTTAACACTTAATGATCTGTTAGTATTT
Found at i:36040143 original size:35 final size:36
Alignment explanation
Indices: 36040099--36040167 Score: 113
Period size: 35 Copynumber: 1.9 Consensus size: 36
36040089 ATTTGTTAGA
36040099 TATTGATTATGTTTTAACCTTGTTGGAGATTGAATT
1 TATTGATTATGTTTTAACCTTGTTGGAGATTGAATT
* *
36040135 TATT-ATTATGTTTTAAGCTTGTTGGATATTGAA
1 TATTGATTATGTTTTAACCTTGTTGGAGATTGAA
36040168 ATGATTGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 27 0.87
36 4 0.13
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (36 bp):
TATTGATTATGTTTTAACCTTGTTGGAGATTGAATT
Found at i:36045798 original size:34 final size:35
Alignment explanation
Indices: 36045740--36045806 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
36045730 CAAACACCAG
36045740 AAAATACTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATACTTTCCAGTAAATCATTTTACAGAAAAGT
* *
36045775 AAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATACTTTCCAGTAAATCATTTTACAGAAAA
36045807 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAATACTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:36047133 original size:3 final size:3
Alignment explanation
Indices: 36047125--36047165 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
36047115 TAGTATTGTT
*
36047125 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
36047166 GGCAAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:36051701 original size:27 final size:27
Alignment explanation
Indices: 36051677--36051730 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
36051667 ACATTTTTGT
36051677 TCAATCTCAATCTCGTTTTTCTTTTTC
1 TCAATCTCAATCTCGTTTTTCTTTTTC
* * *
36051704 TCACTCTCACTCTC-TTTTT-TTCTTC
1 TCAATCTCAATCTCGTTTTTCTTTTTC
36051729 TC
1 TC
36051731 TCGAGTTCGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.29
26 5 0.21
27 12 0.50
ACGTcount: A:0.11, C:0.31, G:0.02, T:0.56
Consensus pattern (27 bp):
TCAATCTCAATCTCGTTTTTCTTTTTC
Found at i:36065107 original size:13 final size:14
Alignment explanation
Indices: 36065089--36065127 Score: 71
Period size: 13 Copynumber: 2.9 Consensus size: 14
36065079 TAGCTTCTTC
36065089 TTTTTTTCACAATT
1 TTTTTTTCACAATT
36065103 TTTTTTTCACAA-T
1 TTTTTTTCACAATT
36065116 TTTTTTTCACAA
1 TTTTTTTCACAA
36065128 CTTGATATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTTTTCACAATT
Found at i:36065185 original size:13 final size:12
Alignment explanation
Indices: 36065166--36065209 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
36065156 GGAAACTAAT
36065166 TTTTTTTTCGAA
1 TTTTTTTTCGAA
*
36065178 TTTCTTTTTCAAA
1 TTT-TTTTTCGAA
* *
36065191 TGTTTTTTCGAG
1 TTTTTTTTCGAA
36065203 TTTTTTT
1 TTTTTTT
36065210 CGAGAAACTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.14, C:0.09, G:0.09, T:0.68
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:36065418 original size:16 final size:16
Alignment explanation
Indices: 36065394--36065427 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
36065384 AATGGCTTCA
*
36065394 AAAAAAGATAATAAAC
1 AAAAAAGATAAGAAAC
*
36065410 AAAATAGATAAGAAAC
1 AAAAAAGATAAGAAAC
36065426 AA
1 AA
36065428 TAACAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.74, C:0.06, G:0.09, T:0.12
Consensus pattern (16 bp):
AAAAAAGATAAGAAAC
Found at i:36071274 original size:34 final size:35
Alignment explanation
Indices: 36071230--36071296 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
36071220 CAGTAAAATA
*
36071230 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
36071264 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
36071297 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:36073859 original size:22 final size:24
Alignment explanation
Indices: 36073812--36073860 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
36073802 TAAAATAATT
36073812 GGTCACACTGTATGAAAATTAATAG
1 GGTCACACTGTATG-AAATTAATAG
36073837 GGTCACACTGTATG-AA-TAATAG
1 GGTCACACTGTATGAAATTAATAG
36073859 GG
1 GG
36073861 AGAATTCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 8 0.33
23 2 0.08
25 14 0.58
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (24 bp):
GGTCACACTGTATGAAATTAATAG
Found at i:36074539 original size:30 final size:30
Alignment explanation
Indices: 36074503--36074564 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
36074493 ACTTATTTTA
36074503 TTGTTAATTTTGCTATTATTTTAAAGACAT
1 TTGTTAATTTTGCTATTATTTTAAAGACAT
* * *
36074533 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGCTATTATTTTAAAGACAT
36074563 TT
1 TT
36074565 ACTTATTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGCTATTATTTTAAAGACAT
Found at i:36085195 original size:20 final size:20
Alignment explanation
Indices: 36085170--36085218 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
36085160 TGAGTTTAGA
*
36085170 AAAAAATCTAGATAATT-ATT
1 AAAAAATATAGA-AATTAATT
*
36085190 AAAAAATATTGAAATTAATT
1 AAAAAATATAGAAATTAATT
36085210 AAAAAATAT
1 AAAAAATAT
36085219 TAAAAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (20 bp):
AAAAAATATAGAAATTAATT
Found at i:36086505 original size:63 final size:62
Alignment explanation
Indices: 36086438--36086606 Score: 196
Period size: 63 Copynumber: 2.7 Consensus size: 62
36086428 ACACACCCAA
* *
36086438 GTCTCTGGCCTGTGTGACTCTAATTCCAAAACAGTGAGTTACACGACTTGGACACACTCTTGT
1 GTCTCTGGCCTGTGTGACTCTAATT-CAAAACAGTGAGTTACACGACCTGGACACACACTTGT
* * * * *
36086501 GTCTCTGGCCCGTGTGACCCTAATTTACAAATAGTGAGTTACACGGCCTGGACACACACTTGT
1 GTCTCTGGCCTGTGTGACTCTAATTCA-AAACAGTGAGTTACACGACCTGGACACACACTTGT
* * * *
36086564 GCCTCTAGCCTATGTGACTCT-ATCTGCAAAACAATGAGTTACA
1 GTCTCTGGCCTGTGTGACTCTAAT-T-CAAAACAGTGAGTTACA
36086607 TGGTCTACCA
Statistics
Matches: 88, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
62 3 0.03
63 84 0.95
64 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.28
Consensus pattern (62 bp):
GTCTCTGGCCTGTGTGACTCTAATTCAAAACAGTGAGTTACACGACCTGGACACACACTTGT
Found at i:36087613 original size:10 final size:9
Alignment explanation
Indices: 36087595--36087652 Score: 71
Period size: 10 Copynumber: 6.1 Consensus size: 9
36087585 GAAAGTTGTT
36087595 TAAAAATTA
1 TAAAAATTA
36087604 TAATAAATTA
1 TAA-AAATTA
36087614 TAAATAATTA
1 TAAA-AATTA
* *
36087624 TTAAAATTT
1 TAAAAATTA
36087633 TAAAAATTAA
1 TAAAAATT-A
36087643 TAAAAATTA
1 TAAAAATTA
36087652 T
1 T
36087653 TATAAAAGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
9 17 0.40
10 25 0.60
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
TAAAAATTA
Found at i:36087640 original size:18 final size:18
Alignment explanation
Indices: 36087593--36087647 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
36087583 TAGAAAGTTG
*
36087593 TTTAAAAATTATAATAAAT
1 TTTAAAAATTATTA-AAAT
*
36087612 TATAAATAATTATTAAAAT
1 TTTAAA-AATTATTAAAAT
*
36087631 TTTAAAAATTAATAAAA
1 TTTAAAAATTATTAAAA
36087648 ATTATTATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 10 0.32
19 14 0.45
20 7 0.23
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTTAAAAATTATTAAAAT
Found at i:36087650 original size:28 final size:29
Alignment explanation
Indices: 36087597--36087654 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
36087587 AAGTTGTTTA
36087597 AAAATTATAATAAATTATAAATAATTATT
1 AAAATTATAATAAATTATAAATAATTATT
*
36087626 AAAATTTTAA-AAATTAATAAA-AATTATT
1 AAAATTATAATAAATT-ATAAATAATTATT
36087654 A
1 A
36087655 TAAAAGGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 13 0.48
29 14 0.52
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (29 bp):
AAAATTATAATAAATTATAAATAATTATT
Found at i:36089399 original size:21 final size:20
Alignment explanation
Indices: 36089375--36089413 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
36089365 AATAAATAAA
36089375 TAATAATATAATTTAAAATCT
1 TAAT-ATATAATTTAAAATCT
**
36089396 TAATATATGGTTTAAAAT
1 TAATATATAATTTAAAAT
36089414 TTGTTCAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.44
Consensus pattern (20 bp):
TAATATATAATTTAAAATCT
Found at i:36093377 original size:13 final size:13
Alignment explanation
Indices: 36093359--36093384 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36093349 CGTGTTTCTA
36093359 AAAACCATTTGTT
1 AAAACCATTTGTT
36093372 AAAACCATTTGTT
1 AAAACCATTTGTT
36093385 TACGTAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
AAAACCATTTGTT
Found at i:36102038 original size:13 final size:13
Alignment explanation
Indices: 36102020--36102045 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36102010 CGTGTTTTCA
36102020 AAAACCATTTGTT
1 AAAACCATTTGTT
36102033 AAAACCATTTGTT
1 AAAACCATTTGTT
36102046 TGCGTAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
AAAACCATTTGTT
Found at i:36103808 original size:16 final size:16
Alignment explanation
Indices: 36103787--36103824 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
36103777 CCTTTTTTCT
**
36103787 TTTCCATTTTCCACCA
1 TTTCCATTTTAAACCA
36103803 TTTCCA-TTTAAACCA
1 TTTCCATTTTAAACCA
36103818 TTTCCAT
1 TTTCCAT
36103825 ACACCAACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTCCATTTTAAACCA
Found at i:36105242 original size:16 final size:16
Alignment explanation
Indices: 36105223--36105253 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36105213 ATAAAAAATA
*
36105223 AAAAAAATTATAATTC
1 AAAAAAATTAAAATTC
36105239 AAAAAAATTAAAATT
1 AAAAAAATTAAAATT
36105254 ATTTCAATTA
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:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAAAATTAAAATTC
Found at i:36106577 original size:18 final size:18
Alignment explanation
Indices: 36106556--36106590 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36106546 TAGAAAATTA
*
36106556 TTAAAATTTAATAAAAAT
1 TTAAAAATTAATAAAAAT
*
36106574 TTAAAAATTATTAAAAA
1 TTAAAAATTAATAAAAA
36106591 GTATATTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TTAAAAATTAATAAAAAT
Found at i:36106587 original size:10 final size:10
Alignment explanation
Indices: 36106540--36106590 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
36106530 AATAAATAAT
36106540 AAATT-TTAGA
1 AAATTATTA-A
36106550 AAATTATTAA
1 AAATTATTAA
* *
36106560 AATTTAATAA
1 AAATTATTAA
36106570 AAA-T-TTAA
1 AAATTATTAA
36106578 AAATTATTAA
1 AAATTATTAA
36106588 AAA
1 AAA
36106591 GTATATTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 6 0.18
9 2 0.06
10 23 0.68
11 3 0.09
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (10 bp):
AAATTATTAA
Found at i:36106895 original size:9 final size:9
Alignment explanation
Indices: 36106857--36106918 Score: 54
Period size: 9 Copynumber: 6.6 Consensus size: 9
36106847 ACTTGATAAA
36106857 ATTTTATAAT
1 ATTTTAT-AT
* *
36106867 TTTTTTTAT
1 ATTTTATAT
36106876 ATTTCTATAT
1 ATTT-TATAT
36106886 ATTTTATAT
1 ATTTTATAT
*
36106895 ATTTT-TACG
1 ATTTTATA-T
36106904 ATTTTTATAT
1 A-TTTTATAT
36106914 ATTTT
1 ATTTT
36106919 TCTAATTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
8 2 0.05
9 20 0.48
10 18 0.43
11 2 0.05
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (9 bp):
ATTTTATAT
Found at i:36106926 original size:9 final size:10
Alignment explanation
Indices: 36106858--36106946 Score: 71
Period size: 10 Copynumber: 9.2 Consensus size: 10
36106848 CTTGATAAAA
36106858 TTTTATA-ATT
1 TTTTATATA-T
*
36106868 TTTTTTATAT
1 TTTTATATAT
*
36106878 TTCTATATA-
1 TTTTATATAT
36106887 TTTTATATAT
1 TTTTATATAT
**
36106897 TTTTA-CGAT
1 TTTTATATAT
36106906 TTTTATATAT
1 TTTTATATAT
*
36106916 TTTTCTA-AT
1 TTTTATATAT
*
36106925 TTTTAATAAAT
1 TTTT-ATATAT
36106936 TTTTA-ATAT
1 TTTTATATAT
36106945 TT
1 TT
36106947 GAATTTTTAA
Statistics
Matches: 63, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
9 26 0.41
10 30 0.48
11 7 0.11
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (10 bp):
TTTTATATAT
Found at i:36106926 original size:19 final size:19
Alignment explanation
Indices: 36106858--36106939 Score: 69
Period size: 19 Copynumber: 4.2 Consensus size: 19
36106848 CTTGATAAAA
* *
36106858 TTTTATAATTTTT-TTTAT
1 TTTTCTAATTTTTATATAT
*
36106876 ATTTCTATATATTTTATATAT
1 TTTTCTA-AT-TTTTATATAT
*
36106897 TTTTAC-GATTTTTATATAT
1 TTTT-CTAATTTTTATATAT
*
36106916 TTTTCTAATTTTTAATAAAT
1 TTTTCTAATTTTT-ATATAT
36106936 TTTT
1 TTTT
36106940 AATATTTGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
18 6 0.12
19 22 0.43
20 15 0.29
21 7 0.14
22 1 0.02
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (19 bp):
TTTTCTAATTTTTATATAT
Found at i:36107112 original size:89 final size:89
Alignment explanation
Indices: 36107014--36107221 Score: 237
Period size: 93 Copynumber: 2.3 Consensus size: 89
36107004 AATTTTTAAT
* * *
36107014 AAAAGTAGGGGCTTAATGGCTTTTTTTTAAAAAATTTTGAGGG-TCTTTTTGATGCATTTTGAAA
1 AAAAGTAGGGGCTTAATTGCTTTTTTTTAAAAAAGTTTGAGGGCTCTTTTTGATACATTTTGAAA
* *
36107078 GTTCAAGTACCCAATTCAGTGCAAA
66 GTTCAAGTACCCAACTCAGTAC-AA
** * **
36107103 AAAAGTAGGGGCTTAATTG-TTTTTTAAGAAAAAAAAGTTTGAGGGCTTTTTTTTTTTACATTTT
1 AAAAGTAGGGGCTTAATTGCTTTTTT---TTAAAAAAGTTTGAGGGC-TCTTTTTGATACATTTT
*
36107167 GAAAGTTCAAGTACCCAACTGAGTACAA
62 GAAAGTTCAAGTACCCAACTCAGTACAA
36107195 AAAA--A-GGGCTTAATTGCTTTTTTTTAA
1 AAAAGTAGGGGCTTAATTGCTTTTTTTTAA
36107222 GAGATTGAGG
Statistics
Matches: 100, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
87 2 0.02
88 6 0.06
89 29 0.29
90 7 0.07
91 14 0.14
92 6 0.06
93 36 0.36
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (89 bp):
AAAAGTAGGGGCTTAATTGCTTTTTTTTAAAAAAGTTTGAGGGCTCTTTTTGATACATTTTGAAA
GTTCAAGTACCCAACTCAGTACAA
Found at i:36107330 original size:10 final size:10
Alignment explanation
Indices: 36107310--36107370 Score: 54
Period size: 10 Copynumber: 6.2 Consensus size: 10
36107300 ATTGCTTTAA
*
36107310 TTTCGTATAT
1 TTTCATATAT
*
36107320 TTTCATTTAT
1 TTTCATATAT
*
36107330 TTCCATATAT
1 TTTCATATAT
36107340 TTGT--TATAT
1 TT-TCATATAT
*
36107349 TTTCATTTAT
1 TTTCATATAT
*
36107359 TTCCATATAT
1 TTTCATATAT
36107369 TT
1 TT
36107371 GTTTTTCTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
8 1 0.03
9 7 0.17
10 32 0.80
ACGTcount: A:0.23, C:0.11, G:0.03, T:0.62
Consensus pattern (10 bp):
TTTCATATAT
Found at i:36107349 original size:29 final size:29
Alignment explanation
Indices: 36107315--36107373 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
36107305 TTTAATTTCG
36107315 TATATTTTCATTTATTTCCATATATTTGT
1 TATATTTTCATTTATTTCCATATATTTGT
36107344 TATATTTTCATTTATTTCCATATATTTGT
1 TATATTTTCATTTATTTCCATATATTTGT
36107373 T
1 T
36107374 TTTCTAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.10, G:0.03, T:0.63
Consensus pattern (29 bp):
TATATTTTCATTTATTTCCATATATTTGT
Found at i:36115857 original size:44 final size:41
Alignment explanation
Indices: 36115746--36115858 Score: 95
Period size: 44 Copynumber: 2.7 Consensus size: 41
36115736 AATTCTTCGG
* * *
36115746 TCCATTCCACTGTAATCTCAAGGAGATAAGACCTGATGCGA
1 TCCACTCCGCTGTAATCTCAAGGAGATAAGACCTGATGCAA
* * * **
36115787 TCTACTCTGCTGTAA-CTTC-AGAGAGATAAGATCCTTTATTTTAA
1 TCCACTCCGCTGTAATC-TCAAG-GAGATAAGA-CC-TGA-TGCAA
36115831 TCCACTCCGCTGTAATCTCAAGGAGATA
1 TCCACTCCGCTGTAATCTCAAGGAGATA
36115859 GGATTACTAG
Statistics
Matches: 55, Mismatches: 10, Indels: 11
0.72 0.13 0.14
Matches are distributed among these distances:
40 3 0.05
41 22 0.40
42 2 0.04
43 2 0.04
44 23 0.42
45 3 0.05
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (41 bp):
TCCACTCCGCTGTAATCTCAAGGAGATAAGACCTGATGCAA
Found at i:36115888 original size:44 final size:44
Alignment explanation
Indices: 36115835--36116093 Score: 218
Period size: 44 Copynumber: 5.7 Consensus size: 44
36115825 TTTTAATCCA
* * *
36115835 CTCCGCTGTAATCTCAAGGAGATAGGATTACTAGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTG
* * *
36115879 CTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATTTGATG
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAA--T-CTG
* * * * * * *
36115926 CGATCTACTCTGCTATAACTTCAGAGAGATAAGATCCT-TTA-TTTTAATCCG
1 C--TC--CACTG-TA-ATC-TCAGGGAGATAAGAT--TACTAGCTTCAATCTG
* *
36115977 CTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTG
** *
36116021 CTCTGCTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTG
36116065 CTCCACTGTAA-CATCAGGGAGATAAGATT
1 CTCCACTGTAATC-TCAGGGAGATAAGATT
36116094 CACCATTTTT
Statistics
Matches: 169, Mismatches: 31, Indels: 30
0.73 0.13 0.13
Matches are distributed among these distances:
42 1 0.01
43 3 0.02
44 119 0.70
45 2 0.01
46 3 0.02
47 6 0.04
49 4 0.02
51 6 0.04
52 3 0.02
53 2 0.01
54 18 0.11
55 1 0.01
56 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
CTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTG
Found at i:36116035 original size:142 final size:142
Alignment explanation
Indices: 36115779--36116061 Score: 494
Period size: 142 Copynumber: 2.0 Consensus size: 142
36115769 AGATAAGACC
* * *
36115779 TGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCGCTGT
1 TGATGCGATCTACTCTGCTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTAT
36115844 AATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTT
66 AATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTT
*
36115909 CTGGCTTCAATT
131 CTAGCTTCAATT
*
36115921 TGATGCGATCTACTCTGCTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTAT
1 TGATGCGATCTACTCTGCTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTAT
* **
36115986 AATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTGCTGTAATCTCAGGGAGATAAGATTT
66 AATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTT
36116051 CTAGCTTCAAT
131 CTAGCTTCAAT
36116062 CTGCTCCACT
Statistics
Matches: 133, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
142 133 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (142 bp):
TGATGCGATCTACTCTGCTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTAT
AATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTT
CTAGCTTCAATT
Found at i:36134385 original size:7 final size:7
Alignment explanation
Indices: 36134373--36134402 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
36134363 GGTCTTTTTT
36134373 TTATTTA
1 TTATTTA
36134380 TTATTTA
1 TTATTTA
36134387 TTATTTA
1 TTATTTA
36134394 TT-TTTA
1 TTATTTA
36134400 TTA
1 TTA
36134403 AATTTGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTATTTA
Found at i:36134462 original size:30 final size:31
Alignment explanation
Indices: 36134427--36134485 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
36134417 GTTATTAAGT
36134427 TATTATTATTAC-T-ATATATATACATACGCA
1 TATTATT-TTACATAATATATATACATACGCA
36134457 TATTATTTTACAATAATATATATACATAC
1 TATTATTTTAC-ATAATATATATACATAC
36134486 ATTTGTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 4 0.15
30 7 0.27
31 1 0.04
32 14 0.54
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (31 bp):
TATTATTTTACATAATATATATACATACGCA
Found at i:36134596 original size:17 final size:17
Alignment explanation
Indices: 36134574--36134608 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
36134564 TTTATATACA
* *
36134574 TATATATATTTACATTT
1 TATATACATATACATTT
36134591 TATATACATATACATTT
1 TATATACATATACATTT
36134608 T
1 T
36134609 TTATTTCCTA
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:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (17 bp):
TATATACATATACATTT
Found at i:36135797 original size:13 final size:13
Alignment explanation
Indices: 36135779--36135804 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36135769 ACTAAGGATA
36135779 GTATTTATTAACT
1 GTATTTATTAACT
36135792 GTATTTATTAACT
1 GTATTTATTAACT
36135805 CTCGACATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (13 bp):
GTATTTATTAACT
Found at i:36136608 original size:8 final size:8
Alignment explanation
Indices: 36136595--36136619 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
36136585 GTTTTTTTAA
36136595 ATTAAAAT
1 ATTAAAAT
36136603 ATTAAAAT
1 ATTAAAAT
36136611 ATTAAAAT
1 ATTAAAAT
36136619 A
1 A
36136620 ATTTTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
ATTAAAAT
Found at i:36138722 original size:9 final size:9
Alignment explanation
Indices: 36138708--36138733 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
36138698 GGATTAAATT
36138708 GTAAAAGTA
1 GTAAAAGTA
36138717 GTAAAAGTA
1 GTAAAAGTA
36138726 GTAAAAGT
1 GTAAAAGT
36138734 TAATCACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (9 bp):
GTAAAAGTA
Done.