Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 155 of 205
Found at i:46516754 original size:59 final size:59
Alignment explanation
Indices: 46516680--46516881 Score: 201
Period size: 59 Copynumber: 3.6 Consensus size: 59
46516670 TATATTTATG
* *
46516680 TATGTAAGTTATGTATTATGTTAGTAATGTAAGTTGTGTATTATGTAAGTTATGTAAGT
1 TATGTAAGTTATGTATTATGTAAGTAATGTAAGTTGTGAATTATGTAAGTTATGTAAGT
* * *
46516739 TATGTAAGTTCTGTATTATGTAAGTTATGTAAGTTGTGAATTATGTAATTTATGT-A--
1 TATGTAAGTTATGTATTATGTAAGTAATGTAAGTTGTGAATTATGTAAGTTATGTAAGT
* * * ** * *
46516795 -AT-T-CG---TGTATTATGGAAGTTATGTAAGTAATGTATTATGTCAGTTATGT-A-T
1 TATGTAAGTTATGTATTATGTAAGTAATGTAAGTTGTGAATTATGTAAGTTATGTAAGT
*
46516846 TATGTAAGTTATGTATTATGTAAGTTTATGTAAGTT
1 TATGTAAGTTATGTATTATGTAAG-TAATGTAAGTT
46516882 ATGTAAATTA
Statistics
Matches: 120, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
50 39 0.32
52 2 0.02
53 2 0.02
54 2 0.02
55 2 0.02
57 12 0.10
58 11 0.09
59 50 0.42
ACGTcount: A:0.30, C:0.01, G:0.21, T:0.48
Consensus pattern (59 bp):
TATGTAAGTTATGTATTATGTAAGTAATGTAAGTTGTGAATTATGTAAGTTATGTAAGT
Found at i:46516854 original size:32 final size:35
Alignment explanation
Indices: 46516706--46516887 Score: 162
Period size: 34 Copynumber: 5.2 Consensus size: 35
46516696 TATGTTAGTA
**
46516706 ATGTAAGTTGTGTATTATGTAAG-TTATGTAAGTT
1 ATGTAAGTAATGTATTATGTAAGTTTATGTAAGTT
**
46516740 ATGTAAGTTCTGTATTATGTAAG-TTATGTAAGTT
1 ATGTAAGTAATGTATTATGTAAGTTTATGTAAGTT
* * *
46516774 GTG-AA-TTATGTAATTTATGTAATTCGTGTATTATGGAAGTT
1 ATGTAAGTAATGT-A-TTATGTAA-----GT-TTATGTAAGTT
*
46516815 ATGTAAGTAATGTATTATGTCAG-TTATGT-A-TT
1 ATGTAAGTAATGTATTATGTAAGTTTATGTAAGTT
*
46516847 ATGTAAGTTATGTATTATGTAAGTTTATGTAAGTT
1 ATGTAAGTAATGTATTATGTAAGTTTATGTAAGTT
46516882 ATGTAA
1 ATGTAA
46516888 ATTATATAAT
Statistics
Matches: 124, Mismatches: 10, Indels: 27
0.77 0.06 0.17
Matches are distributed among these distances:
32 28 0.23
33 10 0.08
34 49 0.40
35 8 0.06
36 1 0.01
39 1 0.01
41 19 0.15
42 3 0.02
43 5 0.04
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.47
Consensus pattern (35 bp):
ATGTAAGTAATGTATTATGTAAGTTTATGTAAGTT
Found at i:46516928 original size:48 final size:48
Alignment explanation
Indices: 46516871--46517098 Score: 363
Period size: 48 Copynumber: 4.8 Consensus size: 48
46516861 TTATGTAAGT
* *
46516871 TTATGTAAGTTATGTAAATTATATAATTTATGAAATTTGATCTTTAAA
1 TTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAA
*
46516919 TTATGTAAGTTATGTAAATTATGTAAGTTAAGAAATTTGATCTTTAAA
1 TTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAA
* *
46516967 TTATGTAAGTCT-TGTAACTTATGTAAGTTATGAAATTTGATTTTTAAA
1 TTATGTAAGT-TATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAA
46517015 TTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAA
1 TTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAA
*
46517063 TTATGTAAGTTATGT--ATTATGTAATTTATGTAAATT
1 TTATGTAAGTTATGTAAATTATGTAAGTTATG-AAATT
46517099 ATGTAAGTTA
Statistics
Matches: 168, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
46 14 0.08
47 6 0.04
48 147 0.88
49 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (48 bp):
TTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAA
Found at i:46517063 original size:30 final size:30
Alignment explanation
Indices: 46517029--46517139 Score: 102
Period size: 30 Copynumber: 3.6 Consensus size: 30
46517019 GTAAGTTATG
46517029 TAAATTATGTAAGTTATGAAATTTGATCTT
1 TAAATTATGTAAGTTATGAAATTTGATCTT
* *
46517059 TAAATTATGTAAGTTATG-TATTATGTAATTTAT
1 TAAATTATGTAAGTTATGAAATT-TG--ATCT-T
*
46517092 GTAAATTATGTAAGTTA--AAATGTTTGATGTT
1 -TAAATTATGTAAGTTATGAAA--TTTGATCTT
*
46517123 TGAATTATGTAAGTTAT
1 TAAATTATGTAAGTTAT
46517140 ATAAATTATG
Statistics
Matches: 67, Mismatches: 5, Indels: 17
0.75 0.06 0.19
Matches are distributed among these distances:
29 3 0.04
30 35 0.52
31 1 0.01
32 6 0.09
33 2 0.03
34 18 0.27
35 2 0.03
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.48
Consensus pattern (30 bp):
TAAATTATGTAAGTTATGAAATTTGATCTT
Found at i:46517092 original size:64 final size:63
Alignment explanation
Indices: 46517014--46517163 Score: 196
Period size: 64 Copynumber: 2.3 Consensus size: 63
46517004 TGATTTTTAA
46517014 ATTATGTAAGTTATGTAAATTATGTAAGTTATGAAA-TTTGATCTTTAAATTATGTAAGTTATGT
1 ATTATGTAAGTTATGTAAATTATGTAAGTTA--AAAGTTTGATCTTTAAATTATGTAAGTTATGT
* * * *
46517078 ATTATGTAATTTATGTAAATTATGTAAGTTAAAATGTTTGATGTTTGAATTATGTAAGTTATAT
1 ATTATGTAAGTTATGTAAATTATGTAAGTTAAAA-GTTTGATCTTTAAATTATGTAAGTTATGT
*
46517142 AAATTATGTATGTTATG-AAATT
1 --ATTATGTAAGTTATGTAAATT
46517164 TTATCTTTAA
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
62 3 0.04
64 55 0.72
65 5 0.07
66 13 0.17
ACGTcount: A:0.37, C:0.01, G:0.15, T:0.47
Consensus pattern (63 bp):
ATTATGTAAGTTATGTAAATTATGTAAGTTAAAAGTTTGATCTTTAAATTATGTAAGTTATGT
Found at i:46517110 original size:48 final size:50
Alignment explanation
Indices: 46516680--46517156 Score: 306
Period size: 48 Copynumber: 9.9 Consensus size: 50
46516670 TATATTTATG
* * * * *
46516680 TATGTAAGTTATGT-ATTATGTTAGTAATGTAAGTTGTGTATTA-TGTAAGT
1 TATGTAAGTTATGTAATTATGTAAGTTATGTAAATTATGTA-TAGT-TAAAT
* * *
46516730 TATGTAAGTTATGTAAGTTCTGT-A-TTATGTAAGTTATGTA-AGTTGTGAAT
1 TATGTAAGTTATGTAA-TTATGTAAGTTATGTAAATTATGTATAG-T-TAAAT
* * * *
46516780 TATGTAATTTATGTAATTCGTGT-A-TTATGGAAGTTATGTA-AG-TAATGTAT
1 TATGTAAGTTATGTAATT-ATGTAAGTTATGTAAATTATGTATAGTTAA---AT
*
46516830 TATGTCAGTTATGT-ATTATGTAAGTTATGT--ATTATGTA-AG-T---T
1 TATGTAAGTTATGTAATTATGTAAGTTATGTAAATTATGTATAGTTAAAT
* * **
46516872 TATGTAAGTTATGTAAATTATATAATTTATG-AAATT-TG-ATCTTTAAAT
1 TATGTAAGTTATGT-AATTATGTAAGTTATGTAAATTATGTATAGTTAAAT
* **
46516920 TATGTAAGTTATGTAAATTATGTAAGTTAAG-AAATT-TG-ATCTTTAAAT
1 TATGTAAGTTATGT-AATTATGTAAGTTATGTAAATTATGTATAGTTAAAT
**
46516968 TATGTAAGTCT-TGTAACTTATGTAAGTTATG-AAATT-TG-ATTTTTAAAT
1 TATGTAAGT-TATGTAA-TTATGTAAGTTATGTAAATTATGTATAGTTAAAT
**
46517016 TATGTAAGTTATGTAAATTATGTAAGTTATG-AAATT-TG-ATCTTTAAAT
1 TATGTAAGTTATGT-AATTATGTAAGTTATGTAAATTATGTATAGTTAAAT
*
46517064 TATGTAAGTTATGT-ATTATGTAATTTATGTAAATTATGTA-AGTTAAAAT
1 TATGTAAGTTATGTAATTATGTAAGTTATGTAAATTATGTATAGTT-AAAT
* * *
46517113 GTTTG-ATGTT-TG-AATTATGTAAGTTATATAAATTATGTAT-GTTA
1 -TATGTAAGTTATGTAATTATGTAAGTTATGTAAATTATGTATAGTTA
46517157 TGAAATTTTA
Statistics
Matches: 365, Mismatches: 32, Indels: 63
0.79 0.07 0.14
Matches are distributed among these distances:
42 14 0.04
43 1 0.00
44 15 0.04
45 4 0.01
46 14 0.04
47 11 0.03
48 190 0.52
49 18 0.05
50 91 0.25
51 2 0.01
52 5 0.01
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (50 bp):
TATGTAAGTTATGTAATTATGTAAGTTATGTAAATTATGTATAGTTAAAT
Found at i:46517118 original size:112 final size:111
Alignment explanation
Indices: 46516966--46517182 Score: 321
Period size: 112 Copynumber: 1.9 Consensus size: 111
46516956 TGATCTTTAA
* * *
46516966 ATTATGTAAGTCTTGTAACTTATGTAAGTTATGAAATTTGATTTTTAAATTATGTAAGTTATGTA
1 ATTATGTAAGTCTTGTAAATTATGTAAGTTA-GAAATTTGATGTTTAAATTATGTAAGTTATATA
46517031 AATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTTATGT
65 AATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTTATGT
* *
46517078 ATTATGTAA-TTTATGTAAATTATGTAAGTTA-AAATGTTTGATGTTTGAATTATGTAAGTTATA
1 ATTATGTAAGTCT-TGTAAATTATGTAAGTTAGAAA--TTTGATGTTTAAATTATGTAAGTTATA
* *
46517141 TAAATTATGTATGTTATGAAATTTTATCTTTAAATTATGTAA
63 TAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAA
46517183 CTTTATTAAG
Statistics
Matches: 95, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
110 3 0.03
111 2 0.02
112 90 0.95
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (111 bp):
ATTATGTAAGTCTTGTAAATTATGTAAGTTAGAAATTTGATGTTTAAATTATGTAAGTTATATAA
ATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTTATGT
Found at i:46517177 original size:48 final size:48
Alignment explanation
Indices: 46517078--46517182 Score: 133
Period size: 48 Copynumber: 2.2 Consensus size: 48
46517068 TAAGTTATGT
* * * *
46517078 ATTATGTAATTTATGTAAATTATGTAAGTTAAAATGTTTGATGTTTGA
1 ATTATGTAAGTTATATAAATTATGTAAGTTAAAATGTTTGATCTTTAA
*
46517126 ATTATGTAAGTTATATAAATTATGTATGTTATGAAAT-TTT-ATCTTTAA
1 ATTATGTAAGTTATATAAATTATGTAAGTTA--AAATGTTTGATCTTTAA
46517174 ATTATGTAA
1 ATTATGTAA
46517183 CTTTATTAAG
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
48 43 0.86
49 3 0.06
50 4 0.08
ACGTcount: A:0.37, C:0.01, G:0.13, T:0.49
Consensus pattern (48 bp):
ATTATGTAAGTTATATAAATTATGTAAGTTAAAATGTTTGATCTTTAA
Found at i:46519643 original size:40 final size:36
Alignment explanation
Indices: 46519583--46519668 Score: 93
Period size: 40 Copynumber: 2.3 Consensus size: 36
46519573 AAACTAGTAT
* * *
46519583 TATTATTATGGTTAGTTATTATTTTTAGTA-AAACCC
1 TATTATTATTGTTAGTTATTATTTTGAGTATAAA-AC
46519619 TAATTATTATTGTTAGTTACTATTATTTTGAGTATAAAAC
1 T-ATTATTATTGTTAG-T--TATTATTTTGAGTATAAAAC
46519659 TATTATTATT
1 TATTATTATT
46519669 TTTATTGTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
36 1 0.02
37 13 0.31
38 1 0.02
39 9 0.21
40 15 0.36
41 3 0.07
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (36 bp):
TATTATTATTGTTAGTTATTATTTTGAGTATAAAAC
Found at i:46524927 original size:16 final size:15
Alignment explanation
Indices: 46524906--46524935 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
46524896 AATGAAAATA
46524906 TATTATTTTCATATTT
1 TATTATTTT-ATATTT
46524922 TATTATTTTATATT
1 TATTATTTTATATT
46524936 ATTTCAGTAC
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:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTATTTTATATTT
Found at i:46524941 original size:160 final size:156
Alignment explanation
Indices: 46524402--46524959 Score: 497
Period size: 160 Copynumber: 3.5 Consensus size: 156
46524392 TCTCTCGGCA
** * * *
46524402 TTTTATTACTTTAAAAAAATATCA-TAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATT
1 TTTTATTACTTCCAAAAAATAT-ATTATTTTCT-ATTTTATAATTTTATATTATTTCAGTACATT
* *** * *
46524466 ATGTTAT-TTCTTTATTAATTTAGTGTATTTTTTAAATTAATTTAGTGTAAAAAAAACCCAACCC
64 TTGTT-TGAAATTTATTAATTTAATGTGTTTTTTAAATTAATTTAGTGT---AAAAA---AACCC
* ** *
46524530 TTATTCCTGCCCTTTGCTCGTATTATTTTTTTGAA
122 TTATTCCTGCCCTTTGCTCGTATTATTTTCTCCAG
*
46524565 TTTTATTACTTCCAAAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATT
1 TTTTATTACTTCC-AAAAAATATATTATTTTC-TATTTTATAATTTTATATTATTTCAGTACATT
** ** * * * * *
46524630 TTGTTTGAAATTTTTCTATTAATTTTTTCCGAATTTTTAAA-AAAGTTA--GT-AAAACACTCTT
64 TTGTTTGAAA---TT-TATTAATTTAATGTG-TTTTTTAAATTAATTTAGTGTAAAAAAAC-CCT
* * * *
46524691 TACTT-CAGCCATTTGTTCGTATTTTTTTCTCC-G
123 TA-TTCCTGCCCTTTGCTCGTATTATTTTCTCCAG
* * *
46524724 CATTTTATTACTT-TAAAAAATATCA-TAATTTCTAATTTTATAATTTTATATTATTTCAGTGCA
1 --TTTTATTACTTCCAAAAAATAT-ATTATTTTCT-ATTTTATAATTTTATATTATTTCAGTACA
*
46524787 TTGTGTTTGAAATTTATTAATTTAATGTGTTTTTTAAATTAATTTAGTGTAAAGAAAACCCTTAT
62 TTTTGTTTGAAATTTATTAATTTAATGTGTTTTTTAAATTAATTTAGTGTAAA-AAAACCCTTAT
46524852 TCCTGCCCTTTGCTCGTATTATTTTCTCCAG
126 TCCTGCCCTTTGCTCGTATTATTTTCTCCAG
*
46524883 TTTTATTACTTCCAATGAAAATATATTATTTTCATATTTTATTATTTTATATTATTTCAGTACAT
1 TTTTATTACTTCCAA--AAAATATATTATTTTC-TATTTTATAATTTTATATTATTTCAGTACAT
*
46524948 TTTGTTAGAAAT
63 TTTGTTTGAAAT
46524960 ATTTGTATTA
Statistics
Matches: 316, Mismatches: 52, Indels: 57
0.74 0.12 0.13
Matches are distributed among these distances:
154 8 0.03
155 16 0.05
156 2 0.01
157 15 0.05
158 32 0.10
159 61 0.19
160 76 0.24
161 14 0.04
162 4 0.01
163 13 0.04
164 47 0.15
165 1 0.00
166 2 0.01
167 2 0.01
168 15 0.05
169 8 0.03
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.51
Consensus pattern (156 bp):
TTTTATTACTTCCAAAAAATATATTATTTTCTATTTTATAATTTTATATTATTTCAGTACATTTT
GTTTGAAATTTATTAATTTAATGTGTTTTTTAAATTAATTTAGTGTAAAAAAACCCTTATTCCTG
CCCTTTGCTCGTATTATTTTCTCCAG
Found at i:46525500 original size:18 final size:17
Alignment explanation
Indices: 46525477--46525530 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
46525467 CTCTTCTCCT
46525477 TCTTTTTTTTTTCTCTTC
1 TCTTTTTTTTTTCT-TTC
**
46525495 TCTTTTCCTTTTCTTTC
1 TCTTTTTTTTTTCTTTC
46525512 -CTTCTTTTTCTTTCTTTC
1 TCTT-TTTTT-TTTCTTTC
46525530 T
1 T
46525531 TCTTCTTCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
16 3 0.10
17 6 0.21
18 20 0.69
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (17 bp):
TCTTTTTTTTTTCTTTC
Found at i:46525505 original size:24 final size:24
Alignment explanation
Indices: 46525452--46525550 Score: 68
Period size: 22 Copynumber: 4.2 Consensus size: 24
46525442 AAAAAAATTA
*
46525452 CCTTTTTTTCTTTCCCTCTTCTC-CTT
1 CCTTTTTTT-TTT--CTCTTCTCTTTT
46525478 -CTTTTTTTTTTCTCTTCTCTTTT
1 CCTTTTTTTTTTCTCTTCTCTTTT
*
46525501 CC--TTTTCTTTC-CTTCT-TTTT
1 CCTTTTTTTTTTCTCTTCTCTTTT
* * *
46525521 -CTTTCTTTCTTCTTCTTCTCCTTT
1 CCTTTTTTTTTTC-TCTTCTCTTTT
46525545 CCTTTT
1 CCTTTT
46525551 CTTTCCTTCT
Statistics
Matches: 58, Mismatches: 7, Indels: 17
0.71 0.09 0.21
Matches are distributed among these distances:
19 1 0.02
20 4 0.07
21 11 0.19
22 16 0.28
23 7 0.12
24 7 0.12
25 12 0.21
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (24 bp):
CCTTTTTTTTTTCTCTTCTCTTTT
Found at i:46525513 original size:10 final size:10
Alignment explanation
Indices: 46525498--46525622 Score: 66
Period size: 10 Copynumber: 12.5 Consensus size: 10
46525488 TCTCTTCTCT
46525498 TTTCCTTTTC
1 TTTCCTTTTC
46525508 TTTCCTTCTT-
1 TTTCCTT-TTC
*
46525518 TTTCTTTCTTTC
1 TTTC-CT-TTTC
* *
46525530 TTCTTCTTCTCC
1 TT-TCCTT-TTC
46525542 TTTCCTTTTC
1 TTTCCTTTTC
46525552 TTTCCTTCTT-
1 TTTCCTT-TTC
46525562 TTT-C-TTTC
1 TTTCCTTTTC
* *
46525570 TTTCCTCTCC
1 TTTCCTTTTC
46525580 TTTCCTTTTC
1 TTTCCTTTTC
* *
46525590 TCTCTTTTTC
1 TTTCCTTTTC
*
46525600 CTT-C-TTTC
1 TTTCCTTTTC
46525608 TTT-CTTCTTC
1 TTTCCTT-TTC
46525618 TTTCC
1 TTTCC
46525623 CTCTCATTCT
Statistics
Matches: 86, Mismatches: 16, Indels: 25
0.68 0.13 0.20
Matches are distributed among these distances:
7 2 0.02
8 11 0.13
9 3 0.03
10 48 0.56
11 13 0.15
12 8 0.09
13 1 0.01
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTCCTTTTC
Found at i:46525522 original size:14 final size:14
Alignment explanation
Indices: 46525503--46525569 Score: 89
Period size: 14 Copynumber: 4.6 Consensus size: 14
46525493 TCTCTTTTCC
46525503 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
*
46525517 TTTTCTTTCTTTCT
1 TTTTCTTTCCTTCT
* *
46525531 TCTTCTTCTCCTTTCC
1 TTTTCTT-TCC-TTCT
46525547 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
46525561 TTTTCTTTC
1 TTTTCTTTC
46525570 TTTCCTCTCC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
14 31 0.69
15 5 0.11
16 9 0.20
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTCTTTCCTTCT
Found at i:46525546 original size:44 final size:44
Alignment explanation
Indices: 46525457--46525619 Score: 176
Period size: 44 Copynumber: 3.7 Consensus size: 44
46525447 AATTACCTTT
* * * *
46525457 TTTTCTTTCCCTCTTCTCCTTCTTTTTTTTTTC-TCTTCTCTTTTCC
1 TTTTCTTTCCTTCTT-T--TTCTTTCTTTCTTCTTCTTCTCCTTTCC
46525503 TTTTCTTTCCTTCTTTTTCTTTCTTTCTTCTTCTTCTCCTTTCC
1 TTTTCTTTCCTTCTTTTTCTTTCTTTCTTCTTCTTCTCCTTTCC
* *
46525547 TTTTCTTTCCTTCTTTTTCTTTCTTTCCTCTCCTT-TCCTTTTCTC
1 TTTTCTTTCCTTCTTTTTCTTTCTTTCTTCTTCTTCTCC-TTTC-C
*
46525592 TCTT-TTTCCTTC--TTTCTTTC-TTCTTCTT
1 TTTTCTTTCCTTCTTTTTCTTTCTTTCTTCTT
46525620 TCCCTCTCAT
Statistics
Matches: 105, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
41 6 0.06
42 8 0.08
43 15 0.14
44 57 0.54
45 5 0.05
46 14 0.13
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (44 bp):
TTTTCTTTCCTTCTTTTTCTTTCTTTCTTCTTCTTCTCCTTTCC
Found at i:46525559 original size:24 final size:24
Alignment explanation
Indices: 46525457--46525561 Score: 105
Period size: 23 Copynumber: 4.6 Consensus size: 24
46525447 AATTACCTTT
* *
46525457 TTTTCTTTCCCTCTTCTCC-TTCT
1 TTTTCTTTCCTTCTTCTCCTTTCC
* * *
46525480 TTTTTTTTTC-TCTTCTCTTTTCC
1 TTTTCTTTCCTTCTTCTCCTTTCC
* *
46525503 TTTTCTTTCCTTCTTTTTCTTT-C
1 TTTTCTTTCCTTCTTCTCCTTTCC
46525526 -TTTC-TT-CTTCTTCTCCTTTCC
1 TTTTCTTTCCTTCTTCTCCTTTCC
46525547 TTTTCTTTCCTTCTT
1 TTTTCTTTCCTTCTT
46525562 TTTCTTTCTT
Statistics
Matches: 65, Mismatches: 11, Indels: 11
0.75 0.13 0.13
Matches are distributed among these distances:
20 11 0.17
21 3 0.05
22 15 0.23
23 22 0.34
24 14 0.22
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTTCTTTCCTTCTTCTCCTTTCC
Found at i:46525561 original size:38 final size:39
Alignment explanation
Indices: 46525461--46525622 Score: 140
Period size: 38 Copynumber: 4.2 Consensus size: 39
46525451 ACCTTTTTTT
* *
46525461 CTTTCCCTCTTCTC-CTTCTTT-TTT-TTT-TCTCTTCTC
1 CTTT-CCTTTTCTCTCTTCTTTCTTTCTTTCTTTCTTCTC
* *
46525497 TTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCTTCTTCTTCTC
1 CTTTCCTTTTCTCT-CTTC--TTTCTTTCTTTC-T-TTCTTCTC
* *
46525541 CTTTCCTTTTCTTTCCTTC-TT-TTTCTTTCTTTCCTCTC
1 CTTTCCTTTTCTCT-CTTCTTTCTTTCTTTCTTTCTTCTC
* *
46525579 CTTTCCTTTTCTCTCTT-TTTCCTTCTTTCTTTCTTCTT
1 CTTTCCTTTTCTCTCTTCTTTCTTTCTTTCTTTCTTCTC
46525617 CTTTCC
1 CTTTCC
46525623 CTCTCATTCT
Statistics
Matches: 105, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
35 7 0.07
36 3 0.03
37 9 0.09
38 40 0.38
39 4 0.04
40 11 0.10
41 5 0.05
43 1 0.01
44 25 0.24
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (39 bp):
CTTTCCTTTTCTCTCTTCTTTCTTTCTTTCTTTCTTCTC
Found at i:46525582 original size:14 final size:13
Alignment explanation
Indices: 46525564--46525637 Score: 52
Period size: 11 Copynumber: 5.8 Consensus size: 13
46525554 TCCTTCTTTT
46525564 TCTTTCTTTCCTC
1 TCTTTCTTTCCTC
*
46525577 TCCTTTCCTTTTCTC
1 T-CTTT-CTTTCCTC
46525592 TC-TT-TTTCCT-
1 TCTTTCTTTCCTC
46525602 TCTTTCTTT-CT-
1 TCTTTCTTTCCTC
46525613 TC-TTCTTTCCCTC
1 TCTTTCTTT-CCTC
*
46525626 TCATTCTCTTCC
1 TCTTTCT-TTCC
46525638 CCCCACCTAC
Statistics
Matches: 50, Mismatches: 2, Indels: 17
0.72 0.03 0.25
Matches are distributed among these distances:
10 8 0.16
11 11 0.22
12 5 0.10
13 5 0.10
14 11 0.22
15 10 0.20
ACGTcount: A:0.01, C:0.38, G:0.00, T:0.61
Consensus pattern (13 bp):
TCTTTCTTTCCTC
Found at i:46525595 original size:28 final size:28
Alignment explanation
Indices: 46525541--46525596 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
46525531 TCTTCTTCTC
* * *
46525541 CTTTCCTTTTCTTTCCTTCTTTTTCTTT
1 CTTTCCTCTCCTTTCCTTCTTTCTCTTT
46525569 CTTTCCTCTCCTTTCCTT-TTCTCTCTTT
1 CTTTCCTCTCCTTTCCTTCTT-TCTCTTT
46525597 TTCCTTCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 2 0.08
28 22 0.92
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (28 bp):
CTTTCCTCTCCTTTCCTTCTTTCTCTTT
Found at i:46525611 original size:82 final size:82
Alignment explanation
Indices: 46525468--46525619 Score: 213
Period size: 82 Copynumber: 1.9 Consensus size: 82
46525458 TTTCTTTCCC
* * *
46525468 TCTTCTCCTTCTTTTTTTTTTCTCTTCTCTTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCTTC
1 TCTTCTCCTTCTTTTTTTTTTCTCCTCTCCTTTCCTTTTCTCTCCTTCTTTTTCTTTCTTTCTTC
46525533 TTCTTCTCCTTTCCTTT
66 TTCTTCTCCTTTCCTTT
46525550 TCTT-TCCTTCTTTTTCTTTCTT-TCCTCTCCTTTCCTTTTCTCT-CTT-TTTCCTTCTTTCTTT
1 TCTTCTCCTTCTTTTT-TTT-TTCTCCTCTCCTTTCCTTTTCTCTCCTTCTTT--TTCTTTCTTT
46525611 CTTCTTCTT
62 CTTCTTCTT
46525620 TCCCTCTCAT
Statistics
Matches: 63, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
80 3 0.05
81 14 0.22
82 44 0.70
83 2 0.03
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (82 bp):
TCTTCTCCTTCTTTTTTTTTTCTCCTCTCCTTTCCTTTTCTCTCCTTCTTTTTCTTTCTTTCTTC
TTCTTCTCCTTTCCTTT
Found at i:46526597 original size:8 final size:7
Alignment explanation
Indices: 46526572--46526668 Score: 54
Period size: 7 Copynumber: 13.4 Consensus size: 7
46526562 CCTATACTTT
46526572 AACCCTA
1 AACCCTA
46526579 AACCCTA
1 AACCCTA
46526586 AACCCTTA
1 AACCC-TA
46526594 AACCC-A
1 AACCCTA
*
46526600 TAACCTTA
1 -AACCCTA
*
46526608 AGCCACTA
1 AACC-CTA
*
46526616 ACCCCTA
1 AACCCTA
*
46526623 GACCCT-
1 AACCCTA
*
46526629 AAGCCTA
1 AACCCTA
46526636 TAACCCCTA
1 -AA-CCCTA
*
46526645 AACTCTA
1 AACCCTA
* *
46526652 AGCCCTC
1 AACCCTA
*
46526659 ACCCCTA
1 AACCCTA
46526666 AAC
1 AAC
46526669 ACTTAACATG
Statistics
Matches: 67, Mismatches: 16, Indels: 14
0.69 0.16 0.14
Matches are distributed among these distances:
6 5 0.07
7 41 0.61
8 17 0.25
9 4 0.06
ACGTcount: A:0.36, C:0.42, G:0.04, T:0.18
Consensus pattern (7 bp):
AACCCTA
Found at i:46526632 original size:22 final size:22
Alignment explanation
Indices: 46526574--46526668 Score: 81
Period size: 22 Copynumber: 4.4 Consensus size: 22
46526564 TATACTTTAA
* *
46526574 CCCTAAACCCTAAACC-CTTAAA
1 CCCTAAACCCTAAGCCAC-TAAC
*
46526596 CCC-ATAACCTTAAGCCACTAAC
1 CCCTA-AACCCTAAGCCACTAAC
*
46526618 CCCTAGACCCTAAGCCTA-TAAC
1 CCCTAAACCCTAAGCC-ACTAAC
* *
46526640 CCCTAAACTCTAAGCC-CTCAC
1 CCCTAAACCCTAAGCCACTAAC
46526661 CCCTAAAC
1 CCCTAAAC
46526669 ACTTAACATG
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
21 12 0.20
22 45 0.75
23 3 0.05
ACGTcount: A:0.35, C:0.43, G:0.04, T:0.18
Consensus pattern (22 bp):
CCCTAAACCCTAAGCCACTAAC
Found at i:46526727 original size:13 final size:13
Alignment explanation
Indices: 46526687--46526731 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
46526677 TGTAAATTGA
*
46526687 AAACGTACACCAT
1 AAACCTACACCAT
46526700 AAACACTGA-ACCAT
1 AAAC-CT-ACACCAT
46526714 AAACCTACACCAT
1 AAACCTACACCAT
46526727 AAACC
1 AAACC
46526732 GTAAACACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 1 0.04
13 16 0.57
14 10 0.36
15 1 0.04
ACGTcount: A:0.49, C:0.33, G:0.04, T:0.13
Consensus pattern (13 bp):
AAACCTACACCAT
Found at i:46526842 original size:22 final size:24
Alignment explanation
Indices: 46526817--46526862 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
46526807 TATCTATAAC
46526817 CCTAACC-CTTAAACCAT-AATAG
1 CCTAACCTCTTAAACCATGAATAG
*
46526839 CCTAACCTGTTAAACCATGAATAG
1 CCTAACCTCTTAAACCATGAATAG
46526863 TAATTAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.33
23 9 0.43
24 5 0.24
ACGTcount: A:0.39, C:0.28, G:0.09, T:0.24
Consensus pattern (24 bp):
CCTAACCTCTTAAACCATGAATAG
Found at i:46527624 original size:125 final size:125
Alignment explanation
Indices: 46527180--46527626 Score: 752
Period size: 125 Copynumber: 3.6 Consensus size: 125
46527170 ATTAGTGGCA
* * *
46527180 TTTCTAGATAAACGCCACTAGTGCCACTACAGGTCAAAGTTAAACGACGGTGTTCTGCTTAATTA
1 TTTCCAGATAAACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGCGTTCTGCTTAATTA
* * *
46527245 TTTGCTGAGCATTAGTGGCGTTTTTT-AGTAAGCGCCGCAAATGTTAGATCTTTACCGACG
66 TTTGCGGAGCATTAGTGGCGTTTTTTGA-TAAGCGCCGCAAATGCTAGATCTTTACCGGCG
*
46527305 TTTCCAGATAAACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGACGTTCTGCTTAATTA
1 TTTCCAGATAAACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGCGTTCTGCTTAATTA
* *
46527370 TTTGTGGAGCATTAGTGGCGTTTTTTGATAAGAGCCGCAAATGCTAGATCTTTACCGGCG
66 TTTGCGGAGCATTAGTGGCGTTTTTTGATAAGCGCCGCAAATGCTAGATCTTTACCGGCG
* *
46527430 TTTCCAGATAAACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGAGTTCTGTTTAATTA
1 TTTCCAGATAAACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGCGTTCTGCTTAATTA
* *
46527495 TTTGCGGAGCATTAGTGGCATTTTTTGATAAGCGCCGCAAATGCTAGATCTTTACTGGCG
66 TTTGCGGAGCATTAGTGGCGTTTTTTGATAAGCGCCGCAAATGCTAGATCTTTACCGGCG
*
46527555 TTTCCAGATAAACGTCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGCGTTCTGCTTAATTA
1 TTTCCAGATAAACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGCGTTCTGCTTAATTA
46527620 TTTGCGG
66 TTTGCGG
46527627 CGCTTTCAAT
Statistics
Matches: 302, Mismatches: 19, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
125 301 1.00
126 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (125 bp):
TTTCCAGATAAACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGCGTTCTGCTTAATTA
TTTGCGGAGCATTAGTGGCGTTTTTTGATAAGCGCCGCAAATGCTAGATCTTTACCGGCG
Found at i:46529756 original size:29 final size:29
Alignment explanation
Indices: 46529697--46529757 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
46529687 ATATTCCCCT
* *
46529697 TAATTTTTAAGGCTAAACTAGGATCTTTC
1 TAATTTTTAAGGCTAAACTAGAATCTCTC
* *
46529726 TAATTTTTATGGCTCAACTAGTAATC-CTC
1 TAATTTTTAAGGCTAAACTAG-AATCTCTC
46529755 TAA
1 TAA
46529758 CCCCTTAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 24 0.89
30 3 0.11
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.41
Consensus pattern (29 bp):
TAATTTTTAAGGCTAAACTAGAATCTCTC
Found at i:46536425 original size:12 final size:13
Alignment explanation
Indices: 46536408--46536436 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
46536398 ATGGTAAAGC
46536408 AAAATAAAAA-TA
1 AAAATAAAAATTA
46536420 AAAATAAAAATTA
1 AAAATAAAAATTA
46536433 AAAA
1 AAAA
46536437 AATCTTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAATAAAAATTA
Found at i:46548953 original size:19 final size:19
Alignment explanation
Indices: 46548929--46548967 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
46548919 GCAAATACTT
46548929 TAAAA-TTAGAAAAGAAATA
1 TAAAATTTAGAAAA-AAATA
*
46548948 TAAAATTTATAAAAAAATA
1 TAAAATTTAGAAAAAAATA
46548967 T
1 T
46548968 TATTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (19 bp):
TAAAATTTAGAAAAAAATA
Found at i:46552426 original size:44 final size:44
Alignment explanation
Indices: 46552371--46552489 Score: 168
Period size: 44 Copynumber: 2.7 Consensus size: 44
46552361 ACCGATATGG
*
46552371 GAAGACAAGATCTGCTTTCCTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * * * *
46552415 GAAGACAAGATCTGGTATCTTTGATCTACTTCATGCCAGTACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
*
46552459 GAAGATAAGATCTGCTTT-TTCGATCTACTTC
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTC
46552490 GCCACCAGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
43 12 0.18
44 53 0.82
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (44 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
Found at i:46552498 original size:44 final size:43
Alignment explanation
Indices: 46552371--46552516 Score: 150
Period size: 44 Copynumber: 3.3 Consensus size: 43
46552361 ACCGATATGG
* * *
46552371 GAAGACAAGATCTGCTTTCCTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTT-TTCGATCTACTTCACACCAGTACAT
* **
46552415 GAAGACAAGATCTGGTATCTTT-GATCTACTTCATGCCAGTACAT
1 GAAGACAAGATCTGCT-T-TTTCGATCTACTTCACACCAGTACAT
* * ***
46552459 GAAGATAAGATCTGCTTTTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTTTCGATCTACTTC-ACACCAGTACAT
46552503 GAAGACAAGATCTG
1 GAAGACAAGATCTG
46552517 GTATCTTTGA
Statistics
Matches: 85, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
42 3 0.04
43 11 0.13
44 68 0.80
45 2 0.02
46 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (43 bp):
GAAGACAAGATCTGCTTTTTCGATCTACTTCACACCAGTACAT
Found at i:46552705 original size:132 final size:132
Alignment explanation
Indices: 46552505--46552872 Score: 531
Period size: 132 Copynumber: 2.8 Consensus size: 132
46552495 CAGTATGGGA
** ** *
46552505 AGACAAGATCTGGTATCTTTGATCTATTCCACTGCTGCCCA-GGAAAGTAGAATTACAGGCTTCA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAA-TAGAATTACTGGCTTCA
** * * *
46552569 ATGTACTCCACTGTAACCAGAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTA
65 ATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGCCTA
46552634 GGG
130 GGG
* *
46552637 AGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAGGGAAATAGAGTTACTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTGGCTTCAA
* * *
46552702 TGTACTCCACTGTAACCTCAGGGAGGTAAAATCTTCCATCTTCGATTTACTCTACTACTGCCTAG
66 TGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGCCTAG
46552767 GG
131 GG
* * * * *
46552769 AGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTAGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTGGCTTCAA
*
46552834 TGTACTCTACTGTAACCTCAGGGAGGTAAAATCTGCCAT
66 TGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCAT
46552873 AAACCTGCTC
Statistics
Matches: 211, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
132 206 0.98
133 5 0.02
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (132 bp):
AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTGGCTTCAA
TGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGCCTAG
GG
Found at i:46552813 original size:44 final size:44
Alignment explanation
Indices: 46552614--46552817 Score: 121
Period size: 44 Copynumber: 4.6 Consensus size: 44
46552604 GCCATCTTTG
* * ** * *
46552614 ATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCA
1 ATCTACTCCACTGCTGCCCAGGGAGATAAGATCTGTAATCTTCA
* * * * *
46552658 ATCTATTCCGCTGCTGCCCAGGGAAATAGAGTTACTG---GCTTCA
1 ATCTACTCCACTGCTGCCCAGGGAGATA-AGAT-CTGTAATCTTCA
* * * * * *
46552701 ATGTACTCCACTG-TAACCTCAGGGAGGTAAAATCT-TCCATCTTCG
1 ATCTACTCCACTGCT-GCC-CAGGGAGATAAGATCTGT-AATCTTCA
* * * *
46552746 ATTTACTCTACTACTGCCTAGGGAGATAAGATCTGTAATCTTCA
1 ATCTACTCCACTGCTGCCCAGGGAGATAAGATCTGTAATCTTCA
* *
46552790 ATCTATTCCACTGTTGCCCAGGGAGATA
1 ATCTACTCCACTGCTGCCCAGGGAGATA
46552818 GAATTACTAG
Statistics
Matches: 115, Mismatches: 35, Indels: 20
0.68 0.21 0.12
Matches are distributed among these distances:
42 3 0.03
43 19 0.17
44 69 0.60
45 20 0.17
46 4 0.03
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (44 bp):
ATCTACTCCACTGCTGCCCAGGGAGATAAGATCTGTAATCTTCA
Found at i:46552856 original size:44 final size:45
Alignment explanation
Indices: 46552676--46552867 Score: 110
Period size: 44 Copynumber: 4.4 Consensus size: 45
46552666 CGCTGCTGCC
* * *
46552676 CAGGGAAATAGAGT-TACTGGCTTCAATGTACTCCACTGTAACCT
1 CAGGGAGATAGAATCTACTAGCTTCAATGTACTCCACTGTAACCT
* * * * * * * * * *
46552720 CAGGGAGGTAAAATCTTCCATCTTCGATTTACTCTACTACT-GCCT
1 CAGGGAGATAGAATCTACTAGCTTCAATGTACTCCACT-GTAACCT
* * * * **
46552765 -AGGGAGATA-AGATCT-GTAATCTTCAATCTATTCCACTGTTGCC-
1 CAGGGAGATAGA-ATCTACT-AGCTTCAATGTACTCCACTGTAACCT
*
46552808 CAGGGAGATAGAAT-TACTAGCTTCAATGTACTCTACTGTAACCT
1 CAGGGAGATAGAATCTACTAGCTTCAATGTACTCCACTGTAACCT
* *
46552852 CAGGGAGGTAAAATCT
1 CAGGGAGATAGAATCT
46552868 GCCATAAACC
Statistics
Matches: 108, Mismatches: 30, Indels: 19
0.69 0.19 0.12
Matches are distributed among these distances:
43 22 0.20
44 64 0.59
45 21 0.19
46 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (45 bp):
CAGGGAGATAGAATCTACTAGCTTCAATGTACTCCACTGTAACCT
Found at i:46552987 original size:88 final size:85
Alignment explanation
Indices: 46552878--46553042 Score: 204
Period size: 85 Copynumber: 1.9 Consensus size: 85
46552868 GCCATAAACC
* *
46552878 TGCTCCACTGCAACCGAGGGAGGTAAGGCTAGTATCTTCAATCTGCTTCACTGTCAATGTAAGAA
1 TGCTCCACTGCAACCGAGGGAGGCAAGG---GTATCTTCAATCTGCTTCACTGTCAATGCAAGAA
*
46552943 GGCAAGATTTGCTATCTTTAACT
63 GGCAAGATCTGCTATCTTTAACT
* * * * * * * *
46552966 TGCTTCACTGCAACTGAGGGAGGCAAGGGTTTTTTCGATCTGCTTCGCTGTCGATGCAGGAAGGC
1 TGCTCCACTGCAACCGAGGGAGGCAAGGGTATCTTCAATCTGCTTCACTGTCAATGCAAGAAGGC
46553031 AAGATCTGCTAT
66 AAGATCTGCTAT
46553043 TTTCACTGAT
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
85 41 0.62
88 25 0.38
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (85 bp):
TGCTCCACTGCAACCGAGGGAGGCAAGGGTATCTTCAATCTGCTTCACTGTCAATGCAAGAAGGC
AAGATCTGCTATCTTTAACT
Found at i:46554276 original size:7 final size:7
Alignment explanation
Indices: 46554264--46554314 Score: 68
Period size: 7 Copynumber: 7.1 Consensus size: 7
46554254 GCCTCTCCAT
46554264 TTTTTCA
1 TTTTTCA
46554271 TTTTTCA
1 TTTTTCA
46554278 CTTTTTCA
1 -TTTTTCA
46554286 TTTTTC-
1 TTTTTCA
*
46554292 GTTTTCA
1 TTTTTCA
46554299 CTTTTTCA
1 -TTTTTCA
46554307 TTTTTCA
1 TTTTTCA
46554314 T
1 T
46554315 CTCGTCAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
6 5 0.13
7 21 0.54
8 13 0.33
ACGTcount: A:0.12, C:0.18, G:0.02, T:0.69
Consensus pattern (7 bp):
TTTTTCA
Found at i:46554284 original size:15 final size:15
Alignment explanation
Indices: 46554264--46554314 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
46554254 GCCTCTCCAT
46554264 TTTTTCATTTTTCAC
1 TTTTTCATTTTTCAC
46554279 TTTTTCATTTTT--C
1 TTTTTCATTTTTCAC
*
46554292 GTTTTCACTTTTTCA-
1 TTTTTCA-TTTTTCAC
46554307 TTTTTCAT
1 TTTTTCAT
46554315 CTCGTCAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
13 7 0.23
14 6 0.19
15 18 0.58
ACGTcount: A:0.12, C:0.18, G:0.02, T:0.69
Consensus pattern (15 bp):
TTTTTCATTTTTCAC
Found at i:46554296 original size:21 final size:21
Alignment explanation
Indices: 46554272--46554312 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
46554262 ATTTTTTCAT
46554272 TTTTCACTTTTTCATTTTTCG
1 TTTTCACTTTTTCATTTTTCG
46554293 TTTTCACTTTTTCATTTTTC
1 TTTTCACTTTTTCATTTTTC
46554313 ATCTCGTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.10, C:0.20, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTTCACTTTTTCATTTTTCG
Found at i:46555238 original size:19 final size:19
Alignment explanation
Indices: 46555214--46555254 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
46555204 ATAATTTGGC
46555214 AAAAAAATC-TGAAAGAATG
1 AAAAAAATCGT-AAAGAATG
46555233 AAAAAAATCGTAAAGAATG
1 AAAAAAATCGTAAAGAATG
46555252 AAA
1 AAA
46555255 GAACATTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.66, C:0.05, G:0.15, T:0.15
Consensus pattern (19 bp):
AAAAAAATCGTAAAGAATG
Found at i:46559913 original size:22 final size:23
Alignment explanation
Indices: 46559879--46559937 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 23
46559869 TATATTTGGT
*
46559879 TAAAAATTAAAAATGATTTGAAAA
1 TAAAAATT-AAAATGATGTGAAAA
* *
46559903 TGAAAA-TAAAAT-ATGTGAAAT
1 TAAAAATTAAAATGATGTGAAAA
46559924 TAAAAATTAAAATG
1 TAAAAATTAAAATG
46559938 TTTTCTAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
21 12 0.41
22 11 0.38
23 1 0.03
24 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (23 bp):
TAAAAATTAAAATGATGTGAAAA
Found at i:46560517 original size:22 final size:21
Alignment explanation
Indices: 46560473--46560513 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
46560463 TAAAAAATTC
*
46560473 AAAAATAAAATTGATTTTCTA
1 AAAAATAAAAATGATTTTCTA
46560494 AAAAATTAAAAAT-ATTTTCT
1 AAAAA-TAAAAATGATTTTCT
46560514 TAAATCAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (21 bp):
AAAAATAAAAATGATTTTCTA
Found at i:46568478 original size:25 final size:25
Alignment explanation
Indices: 46568450--46568502 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
46568440 AAGCTCTTTT
46568450 GAGTTAAATAACGGGAAGATCATGC
1 GAGTTAAATAACGGGAAGATCATGC
** *
46568475 GAGTTGTATAACGGGAAGCTCATGC
1 GAGTTAAATAACGGGAAGATCATGC
46568500 GAG
1 GAG
46568503 CTGTGGTGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (25 bp):
GAGTTAAATAACGGGAAGATCATGC
Found at i:46571541 original size:23 final size:24
Alignment explanation
Indices: 46571515--46571567 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
46571505 CTTTTTTTAA
46571515 TAAATTTAATAATTTT-TAATTTT
1 TAAATTTAATAATTTTATAATTTT
* *
46571538 TAAA--TAATAGTTTTGATATTTTT
1 TAAATTTAATAATTTT-ATAATTTT
46571561 TAAATTT
1 TAAATTT
46571568 TTAAAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
21 9 0.38
23 14 0.58
25 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (24 bp):
TAAATTTAATAATTTTATAATTTT
Found at i:46571546 original size:30 final size:31
Alignment explanation
Indices: 46571512--46571580 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
46571502 ATACTTTTTT
46571512 TAATAAATTTAATAATTTTT-AATTTTTAAA
1 TAATAAATTTAATAATTTTTAAATTTTTAAA
** * *
46571542 TAATAGTTTTGATATTTTTTAAATTTTTAAA
1 TAATAAATTTAATAATTTTTAAATTTTTAAA
*
46571573 -AATTAATT
1 TAATAAATT
46571581 AAAAGATGAC
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
30 21 0.68
31 10 0.32
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (31 bp):
TAATAAATTTAATAATTTTTAAATTTTTAAA
Found at i:46573723 original size:47 final size:48
Alignment explanation
Indices: 46573617--46573732 Score: 153
Period size: 48 Copynumber: 2.4 Consensus size: 48
46573607 TTGGGGGGAG
* *
46573617 GGGGGAGAGCATTGAAAAAAAGATAGTGGAGGATTAAATGAGGGTAGGA
1 GGGGGAGAGCATTG-AAAAAAGATACTGAAGGATTAAATGAGGGTAGGA
* * * *
46573666 GGGGGTGAGCATTGAAAAAGGATACTGAAGGATTAAATGAGGG-GGGC
1 GGGGGAGAGCATTGAAAAAAGATACTGAAGGATTAAATGAGGGTAGGA
*
46573713 GGGGGAGAGCATTGGAAAAA
1 GGGGGAGAGCATTGAAAAAA
46573733 TTATCTATTA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
47 19 0.33
48 26 0.45
49 13 0.22
ACGTcount: A:0.38, C:0.04, G:0.42, T:0.16
Consensus pattern (48 bp):
GGGGGAGAGCATTGAAAAAAGATACTGAAGGATTAAATGAGGGTAGGA
Found at i:46573774 original size:8 final size:8
Alignment explanation
Indices: 46573763--46573816 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
46573753 TATTGAATTA
46573763 TTAATATT
1 TTAATATT
46573771 TTAATATAT
1 TTAATAT-T
*
46573780 TAAATATT
1 TTAATATT
46573788 TTAATA--
1 TTAATATT
46573794 -TAATATAT
1 TTAATAT-T
*
46573802 TAAATATT
1 TTAATATT
46573810 TTAATAT
1 TTAATAT
46573817 AAAAATTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
5 5 0.14
8 20 0.54
9 12 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
TTAATATT
Found at i:46573800 original size:22 final size:22
Alignment explanation
Indices: 46573772--46573826 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
46573762 ATTAATATTT
46573772 TAATATATTAAATATTTTAATA
1 TAATATATTAAATATTTTAATA
46573794 TAATATATTAAATATTTTAATA
1 TAATATATTAAATATTTTAATA
*
46573816 TAA-AAATTAAA
1 TAATATATTAAA
46573827 AAATATTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 7 0.22
22 25 0.78
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATATATTAAATATTTTAATA
Found at i:46573817 original size:17 final size:16
Alignment explanation
Indices: 46573761--46573816 Score: 62
Period size: 17 Copynumber: 3.6 Consensus size: 16
46573751 AGTATTGAAT
46573761 TATTAATATTTTAATA
1 TATTAATATTTTAATA
46573777 TATTAAATATTTTAATA
1 TATT-AATATTTTAATA
* *
46573794 TAAT-ATA-TTAAATA
1 TATTAATATTTTAATA
*
46573808 TTTTAATAT
1 TATTAATAT
46573817 AAAAATTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
14 8 0.24
15 6 0.18
16 4 0.12
17 15 0.45
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TATTAATATTTTAATA
Found at i:46573902 original size:26 final size:26
Alignment explanation
Indices: 46573872--46573959 Score: 104
Period size: 26 Copynumber: 3.3 Consensus size: 26
46573862 ATTAAGAATG
46573872 TTATTAAATTATATTTAATAATAATT
1 TTATTAAATTATATTTAATAATAATT
* * * * **
46573898 ATATTAAAATATGATTAAACTATTTTTT
1 TTATTAAATTAT-ATTTAA-TAATAATT
46573926 TTATTAAATTATATTTAATAATAATT
1 TTATTAAATTATATTTAATAATAATT
46573952 TTATTAAA
1 TTATTAAA
46573960 ATTTAATAAC
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
26 23 0.48
27 10 0.21
28 15 0.31
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (26 bp):
TTATTAAATTATATTTAATAATAATT
Found at i:46574135 original size:16 final size:16
Alignment explanation
Indices: 46574114--46574159 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
46574104 TGAATTACTG
*
46574114 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTAT
*
46574130 ATTACAGCTTTATTAT
1 ATTACAGCTCTATTAT
* *
46574146 ATTATAGTTCTATT
1 ATTACAGCTCTATT
46574160 TCATTACAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.28, C:0.15, G:0.07, T:0.50
Consensus pattern (16 bp):
ATTACAGCTCTATTAT
Found at i:46576861 original size:17 final size:15
Alignment explanation
Indices: 46576839--46576885 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 15
46576829 TTTTTGAGAA
46576839 ACACGGGCGTGTGCC
1 ACACGGGCGTGTGCC
*
46576854 GTACACGGGTG-GT-CC
1 --ACACGGGCGTGTGCC
46576869 ACACGGGCGTGTGCC
1 ACACGGGCGTGTGCC
46576884 AC
1 AC
46576886 TTAAGAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 8 0.31
14 2 0.08
15 6 0.23
16 2 0.08
17 8 0.31
ACGTcount: A:0.15, C:0.32, G:0.38, T:0.15
Consensus pattern (15 bp):
ACACGGGCGTGTGCC
Found at i:46577146 original size:21 final size:21
Alignment explanation
Indices: 46577122--46577173 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
46577112 CGTGTCTCTC
* *
46577122 AGCCACACGGCCCTGTATCTT
1 AGCCACACGGACCTGTACCTT
* * *
46577143 AGCCACACAGACTTGTCCCTT
1 AGCCACACGGACCTGTACCTT
46577164 AGCCACACGG
1 AGCCACACGG
46577174 TAATGTATCC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.23, C:0.38, G:0.19, T:0.19
Consensus pattern (21 bp):
AGCCACACGGACCTGTACCTT
Found at i:46581531 original size:35 final size:33
Alignment explanation
Indices: 46581484--46581579 Score: 102
Period size: 35 Copynumber: 2.8 Consensus size: 33
46581474 TTTGAATTTA
* *
46581484 TTATATATATTTTATATTTTATAATATTTATAAGT
1 TTATATA-ATTTTATATTTT-TAATATTAATAACT
*
46581519 TTATATCAATTTTAATAATTTTAATAATTAATAACT
1 TTATAT-AATTTT-ATATTTTTAAT-ATTAATAACT
* *
46581555 TTTTATAATTTTTTATTTTTAATAT
1 TTATATAATTTTATATTTTTAATAT
46581580 ATTTTTGAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
33 2 0.04
34 9 0.17
35 21 0.40
36 20 0.38
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.59
Consensus pattern (33 bp):
TTATATAATTTTATATTTTTAATATTAATAACT
Found at i:46581551 original size:16 final size:17
Alignment explanation
Indices: 46581530--46581564 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
46581520 TATATCAATT
46581530 TTAATAA-TTTTAATAA
1 TTAATAACTTTTAATAA
*
46581546 TTAATAACTTTTTATAA
1 TTAATAACTTTTAATAA
46581563 TT
1 TT
46581565 TTTTATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
TTAATAACTTTTAATAA
Found at i:46583620 original size:14 final size:15
Alignment explanation
Indices: 46583598--46583674 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
46583588 CAATCAAACA
46583598 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
46583612 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
46583627 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
46583647 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
46583661 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
46583675 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:46583639 original size:20 final size:20
Alignment explanation
Indices: 46583614--46583653 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
46583604 AATATTTTCC
*
46583614 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
46583634 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
46583654 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:46583659 original size:34 final size:35
Alignment explanation
Indices: 46583602--46583668 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
46583592 CAAACACCAG
*
46583602 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
46583637 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
46583669 TATTTTACTG
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):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:46584704 original size:16 final size:16
Alignment explanation
Indices: 46584683--46584716 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
46584673 AAATTCAAAA
46584683 AGGATAACTCATTACT
1 AGGATAACTCATTACT
46584699 AGGATAACTCATTACT
1 AGGATAACTCATTACT
46584715 AG
1 AG
46584717 TTAACTGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (16 bp):
AGGATAACTCATTACT
Found at i:46585266 original size:43 final size:43
Alignment explanation
Indices: 46585218--46585306 Score: 133
Period size: 43 Copynumber: 2.1 Consensus size: 43
46585208 ATATGAAGTT
** * *
46585218 TTTCGCTAAGCCTTAACGTTAATTGTGAAAAGATATAATATTC
1 TTTCGCTAAGCCCCAACATTAATTATGAAAAGATATAATATTC
*
46585261 TTTCGCTAAGCCCCAACATTAATTATGAAAAGATATACTATTC
1 TTTCGCTAAGCCCCAACATTAATTATGAAAAGATATAATATTC
46585304 TTT
1 TTT
46585307 TGTGGTGAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (43 bp):
TTTCGCTAAGCCCCAACATTAATTATGAAAAGATATAATATTC
Found at i:46591011 original size:213 final size:213
Alignment explanation
Indices: 46590644--46591077 Score: 787
Period size: 213 Copynumber: 2.0 Consensus size: 213
46590634 TAGAAGTGTG
* **
46590644 TTGCCCACCACACTGAAAGAACTTGAGATACGGGAGTGTCCAAAGTTAGAGTCCATATCCCAAGA
1 TTGCCCACCACACTGAAAGAACTTGAGATACAGGAGTGTCCAAAACTAGAGTCCATATCCCAAGA
* ** *
46590709 AATTCAAGATAACTCTTCTCTTGAATCTATTGAAATCTTTAGTTGTGATATGCTTAAGGGTTTAC
66 AATTCAAGATAACTCTTCTCTTGAATCTATTGAAATCTGTAAATGTCATATGCTTAAGGGTTTAC
46590774 CTCAAGGATTGAACAAGCTCAAGCATTGCAAGAGATTAGTCATAAAGGATTGTTCAAATTTGATT
131 CTCAAGGATTGAACAAGCTCAAGCATTGCAAGAGATTAGTCATAAAGGATTGTTCAAATTTGATT
46590839 TCCTTAGGAGAGAGTGGT
196 TCCTTAGGAGAGAGTGGT
*
46590857 TTGCCCACCACACTGAAAGTACTTGAGATACAGGAGTGTCCAAAACTAGAGTCCATATCCCAAGA
1 TTGCCCACCACACTGAAAGAACTTGAGATACAGGAGTGTCCAAAACTAGAGTCCATATCCCAAGA
46590922 AATTCAAGATAACTCTTCTCTTGAATCTATTGAAATCTGTAAATGTCATATGCTTAAGGGTTTAC
66 AATTCAAGATAACTCTTCTCTTGAATCTATTGAAATCTGTAAATGTCATATGCTTAAGGGTTTAC
*
46590987 CTCAAGGATTGAACAAGCTCAAGCATTGCAAGAGATTAGTCATAGAGGATTGTTCAAATTTGATT
131 CTCAAGGATTGAACAAGCTCAAGCATTGCAAGAGATTAGTCATAAAGGATTGTTCAAATTTGATT
46591052 TCCTTAGGAGAGAGTGGT
196 TCCTTAGGAGAGAGTGGT
46591070 TTGCCCAC
1 TTGCCCAC
46591078 TACAAACCTT
Statistics
Matches: 212, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
213 212 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (213 bp):
TTGCCCACCACACTGAAAGAACTTGAGATACAGGAGTGTCCAAAACTAGAGTCCATATCCCAAGA
AATTCAAGATAACTCTTCTCTTGAATCTATTGAAATCTGTAAATGTCATATGCTTAAGGGTTTAC
CTCAAGGATTGAACAAGCTCAAGCATTGCAAGAGATTAGTCATAAAGGATTGTTCAAATTTGATT
TCCTTAGGAGAGAGTGGT
Found at i:46592986 original size:3 final size:3
Alignment explanation
Indices: 46592978--46593021 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
46592968 ATTACATCCA
46592978 AAT AAT AAT AAT CAA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
46593022 AACATGTGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 35 0.90
4 2 0.05
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:46597360 original size:3 final size:3
Alignment explanation
Indices: 46597352--46597416 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
46597342 ATTACATCCA
46597352 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
46597400 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
46597417 AACATGTGAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:46599819 original size:15 final size:17
Alignment explanation
Indices: 46599799--46599836 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
46599789 TTTCATATAT
*
46599799 TTTTTAAT-T-TAGTAA
1 TTTTTAATATCTAATAA
46599814 TTTTTAATATCTAATAA
1 TTTTTAATATCTAATAA
46599831 TTTTTA
1 TTTTTA
46599837 TAATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 1 0.05
17 11 0.55
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (17 bp):
TTTTTAATATCTAATAA
Found at i:46602678 original size:30 final size:27
Alignment explanation
Indices: 46602606--46602686 Score: 76
Period size: 30 Copynumber: 2.9 Consensus size: 27
46602596 ATACTTTTGA
46602606 ATTTTTTATT--TTTATAAAATTTTAAT
1 ATTTTTTATTACTTT-TAAAATTTTAAT
*
46602632 ATGTTTTTATACACTTTTAAAATATTTAAAAT
1 AT-TTTTTAT-TACTTTTAAAAT-TTT--AAT
*
46602664 ATTTTTTATTACTTTTATAATTT
1 ATTTTTTATTACTTTTAAAATTT
46602687 ATTAGATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
26 2 0.04
27 7 0.16
29 8 0.18
30 16 0.36
31 7 0.16
32 5 0.11
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (27 bp):
ATTTTTTATTACTTTTAAAATTTTAAT
Found at i:46602768 original size:26 final size:24
Alignment explanation
Indices: 46602732--46602801 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 24
46602722 ACTTTATATC
*
46602732 AATTTTCATATATTTTTTAATTTAAT
1 AATTTTAATATATTTTTT-ATTT-AT
* *
46602758 ATTTTTAATATCTAATTTTT-TTTAT
1 AATTTTAATA--TATTTTTTATTTAT
46602783 AATTTTAATA-ATTTTTTAT
1 AATTTTAATATATTTTTTAT
46602802 GAAAAATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
22 6 0.17
23 1 0.03
25 11 0.31
26 11 0.31
28 7 0.19
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (24 bp):
AATTTTAATATATTTTTTATTTAT
Found at i:46603244 original size:19 final size:19
Alignment explanation
Indices: 46603217--46603253 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46603207 GATTGGTTTC
46603217 TGTAGTATATAATATATAT
1 TGTAGTATATAATATATAT
* *
46603236 TGTATTATATATTATATA
1 TGTAGTATATAATATATA
46603254 AAGTATTTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (19 bp):
TGTAGTATATAATATATAT
Found at i:46603259 original size:19 final size:19
Alignment explanation
Indices: 46603222--46603260 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
46603212 GTTTCTGTAG
**
46603222 TATATAATATATATTGTAT
1 TATATAATATATAAAGTAT
*
46603241 TATATATTATATAAAGTAT
1 TATATAATATATAAAGTAT
46603260 T
1 T
46603261 TCCAAATAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
TATATAATATATAAAGTAT
Found at i:46604460 original size:6 final size:6
Alignment explanation
Indices: 46604442--46604483 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
46604432 CTAAGTCCTT
* * *
46604442 TACAGA TATAGA TAAAGA TACAGA TACAGA TACAGT TACAGA
1 TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA
46604484 GACAAATATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.21
Consensus pattern (6 bp):
TACAGA
Found at i:46605923 original size:43 final size:43
Alignment explanation
Indices: 46605845--46605927 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
46605835 TTTTTTATAA
* *
46605845 GTGTTTTTGTGTAAGACCACGTCTGGGACGTTGGCATCGACTT
1 GTGTTTTTGTGTAAGAACACGTCTAGGACGTTGGCATCGACTT
**
46605888 GTGTTTTTGTGTAAGAACTTGTCTAGGACAG-TGGCATCGA
1 GTGTTTTTGTGTAAGAACACGTCTAGGAC-GTTGGCATCGA
46605928 TCAGTGATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 34 0.97
44 1 0.03
ACGTcount: A:0.19, C:0.16, G:0.30, T:0.35
Consensus pattern (43 bp):
GTGTTTTTGTGTAAGAACACGTCTAGGACGTTGGCATCGACTT
Found at i:46606041 original size:50 final size:50
Alignment explanation
Indices: 46605966--46606137 Score: 254
Period size: 50 Copynumber: 3.4 Consensus size: 50
46605956 ATGATTACAC
46605966 GTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAAGACCAT
1 GTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAAGACCAT
* **
46606016 GTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCAT
1 GTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAAGACCAT
* * **
46606066 GTCTGGGACATGGCATGGGCACCGATATGAGAACATCCCATGTAAGACCAT
1 GTCTGGGACATGGCATTGGCACCGAGATGAG-AGGTCCCATGTAAGACCAT
* *
46606117 GTCTGGGACAAGGCTTTGGCA
1 GTCTGGGACATGGCATTGGCA
46606138 TGTTATGATC
Statistics
Matches: 108, Mismatches: 13, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
50 75 0.69
51 33 0.31
ACGTcount: A:0.25, C:0.23, G:0.32, T:0.20
Consensus pattern (50 bp):
GTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAAGACCAT
Found at i:46608226 original size:20 final size:20
Alignment explanation
Indices: 46608203--46608249 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
46608193 GGGTTAAGAT
*
46608203 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
46608223 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
46608243 TGAGCTG
1 TGAGCTG
46608250 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:46608995 original size:300 final size:300
Alignment explanation
Indices: 46608453--46609053 Score: 1139
Period size: 300 Copynumber: 2.0 Consensus size: 300
46608443 ACAATTGACT
* *
46608453 CGGATCAAAAGAAGCTCATTCGCATGCCCTCCCTCTTTAGGAGGGTACCACTTCACATTGTCACC
1 CGGATCAAAAGAAGCTCATTCGCATGCCCTCCCTCTTTAGGAGGGTACCACCTCACATCGTCACC
* * *
46608518 TTTAAAAGAATAAAACGAATTAGTGACACGATGAAGATTAAACACAAAGGAACTTTTTGAGATTT
66 TATAAAAGAATAAAACGAATTAGTGACACGATGAAGATAAAACACAAAGGAACTTTTCGAGATTT
*
46608583 GATTCACAGTTTGAACAAATAATCCAATACCGGGGTCGAAAATAGAAATCGTTCTTACCTTTTTC
131 GATTCACAGTTTGAACAAATAATCCAATACCGGGGTCAAAAATAGAAATCGTTCTTACCTTTTTC
46608648 TTCGATGGAAACAAACATAAATCACAAGGCATTTGATAGCTATGGTTTTGGAAGTCAACTTTCCA
196 TTCGATGGAAACAAACATAAATCACAAGGCATTTGATAGCTATGGTTTTGGAAGTCAACTTTCCA
46608713 TGGTTCGATTACCTTAGGCAATGATATAGAATGGTGTTCA
261 TGGTTCGATTACCTTAGGCAATGATATAGAATGGTGTTCA
*
46608753 CGGATCAAAAGAAGCTCATTCGCATGCCCTCCCTCTTTAGGAGGGTACCACCTCATATCGTCACC
1 CGGATCAAAAGAAGCTCATTCGCATGCCCTCCCTCTTTAGGAGGGTACCACCTCACATCGTCACC
46608818 TATAAAAGAATAAAACGAATTAGTGACACGATGAAGATAAAACACAAAGGAACTTTTCGAGATTT
66 TATAAAAGAATAAAACGAATTAGTGACACGATGAAGATAAAACACAAAGGAACTTTTCGAGATTT
46608883 GATTCACAGTTTGAACAAATAATCCAATACCGGGGTCAAAAATAGAAATCGTTCTTACCTTTTTC
131 GATTCACAGTTTGAACAAATAATCCAATACCGGGGTCAAAAATAGAAATCGTTCTTACCTTTTTC
46608948 TTCGATGGAAACAAACATAAATCACAAGGCATTTGATAGCTATGGTTTTGGAAGTCAACTTTCCA
196 TTCGATGGAAACAAACATAAATCACAAGGCATTTGATAGCTATGGTTTTGGAAGTCAACTTTCCA
46609013 TGGTTCGATTACCTTAGGCAATGATATAGAATGGTGTTCA
261 TGGTTCGATTACCTTAGGCAATGATATAGAATGGTGTTCA
46609053 C
1 C
46609054 CGGGGTCAAA
Statistics
Matches: 294, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
300 294 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (300 bp):
CGGATCAAAAGAAGCTCATTCGCATGCCCTCCCTCTTTAGGAGGGTACCACCTCACATCGTCACC
TATAAAAGAATAAAACGAATTAGTGACACGATGAAGATAAAACACAAAGGAACTTTTCGAGATTT
GATTCACAGTTTGAACAAATAATCCAATACCGGGGTCAAAAATAGAAATCGTTCTTACCTTTTTC
TTCGATGGAAACAAACATAAATCACAAGGCATTTGATAGCTATGGTTTTGGAAGTCAACTTTCCA
TGGTTCGATTACCTTAGGCAATGATATAGAATGGTGTTCA
Found at i:46616150 original size:29 final size:30
Alignment explanation
Indices: 46616091--46616148 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
46616081 TCCGAGCCTT
*
46616091 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
46616121 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
46616149 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:46616380 original size:13 final size:13
Alignment explanation
Indices: 46616362--46616391 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
46616352 TCCAGCAACT
46616362 ATGAATTTATTTC
1 ATGAATTTATTTC
*
46616375 ATGAATTTATTTG
1 ATGAATTTATTTC
46616388 ATGA
1 ATGA
46616392 TTATCCAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (13 bp):
ATGAATTTATTTC
Found at i:46616561 original size:50 final size:50
Alignment explanation
Indices: 46616486--46616678 Score: 305
Period size: 50 Copynumber: 3.8 Consensus size: 50
46616476 ATTTGGGTAA
46616486 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
46616536 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
46616586 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
46616636 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
46616679 TGTTATGATC
Statistics
Matches: 130, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 96 0.74
51 34 0.26
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:46618806 original size:13 final size:13
Alignment explanation
Indices: 46618790--46618825 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
46618780 CAGTATCCTT
46618790 AAACCCTAAACCC
1 AAACCCTAAACCC
*
46618803 AAACCTTAAACCC
1 AAACCCTAAACCC
46618816 AAACCC-AAAC
1 AAACCCTAAAC
46618826 TCTAACACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.50, C:0.42, G:0.00, T:0.08
Consensus pattern (13 bp):
AAACCCTAAACCC
Found at i:46619232 original size:40 final size:40
Alignment explanation
Indices: 46619141--46619235 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 40
46619131 GTGTTTTCCT
* * *
46619141 AAAAGCGCCGCAAATACTCGATCTATAGCGGCATTTTCTA
1 AAAAGCGCCGCTAATACTCGATATATAGCGGCATTTTATA
* *
46619181 AAAAGCGCCGCTAATACTTGATATATAGCGGCATTTTATT
1 AAAAGCGCCGCTAATACTCGATATATAGCGGCATTTTATA
*
46619221 AATAGCGCCGCTAAT
1 AAAAGCGCCGCTAAT
46619236 GCGACTAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (40 bp):
AAAAGCGCCGCTAATACTCGATATATAGCGGCATTTTATA
Found at i:46623330 original size:12 final size:12
Alignment explanation
Indices: 46623309--46623344 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
46623299 TCTTTTAAAG
46623309 TTACAAATATAA
1 TTACAAATATAA
*
46623321 TTACAGATATAA
1 TTACAAATATAA
*
46623333 TTACAATTATAA
1 TTACAAATATAA
46623345 CTATAGATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.36
Consensus pattern (12 bp):
TTACAAATATAA
Found at i:46624156 original size:21 final size:21
Alignment explanation
Indices: 46624126--46624165 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
46624116 TAACAGGACC
46624126 GCTGACGTGGCAAGTTAACCA
1 GCTGACGTGGCAAGTTAACCA
*
46624147 GCTGATGTGGCAAGTTAAC
1 GCTGACGTGGCAAGTTAAC
46624166 TTGCCACATT
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:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (21 bp):
GCTGACGTGGCAAGTTAACCA
Found at i:46624665 original size:6 final size:6
Alignment explanation
Indices: 46624656--46625414 Score: 1518
Period size: 6 Copynumber: 126.5 Consensus size: 6
46624646 ATTTCAATTC
46624656 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
46624704 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
46624752 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
46624800 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
46624848 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
46624896 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
46624944 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
46624992 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
46625040 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
46625088 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
46625136 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
46625184 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
46625232 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
46625280 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
46625328 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
46625376 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGA
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGA
46625415 AACACTCACT
Statistics
Matches: 753, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 753 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.67
Consensus pattern (6 bp):
TGATTT
Found at i:46625447 original size:12 final size:12
Alignment explanation
Indices: 46625430--46625499 Score: 68
Period size: 12 Copynumber: 5.8 Consensus size: 12
46625420 TCACTAATTC
*
46625430 TGATTTTGATTT
1 TGATTTCGATTT
*
46625442 TGATTTCAATTT
1 TGATTTCGATTT
* *
46625454 CGATCTCGATTT
1 TGATTTCGATTT
* *
46625466 AGATTTAGATTT
1 TGATTTCGATTT
*
46625478 TGATTTCAATTT
1 TGATTTCGATTT
*
46625490 GGATTTCGAT
1 TGATTTCGAT
46625500 GAGGTTATTA
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 45 1.00
ACGTcount: A:0.23, C:0.09, G:0.16, T:0.53
Consensus pattern (12 bp):
TGATTTCGATTT
Found at i:46625464 original size:18 final size:18
Alignment explanation
Indices: 46625432--46625499 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
46625422 ACTAATTCTG
* *
46625432 ATTTTGATTTTGATTTCA
1 ATTTAGATTTCGATTTCA
* *
46625450 ATTTCGATCTCGATTT-A
1 ATTTAGATTTCGATTTCA
*
46625467 GATTTAGATTTTGATTTCA
1 -ATTTAGATTTCGATTTCA
*
46625486 ATTTGGATTTCGAT
1 ATTTAGATTTCGAT
46625500 GAGGTTATTA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
17 1 0.03
18 38 0.95
19 1 0.03
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.53
Consensus pattern (18 bp):
ATTTAGATTTCGATTTCA
Found at i:46625484 original size:36 final size:36
Alignment explanation
Indices: 46625431--46625499 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
46625421 CACTAATTCT
*
46625431 GATTTTGATTTTGATTTCAATTTCGATCTCGATTTA
1 GATTTAGATTTTGATTTCAATTTCGATCTCGATTTA
* *
46625467 GATTTAGATTTTGATTTCAATTTGGATTTCGAT
1 GATTTAGATTTTGATTTCAATTTCGATCTCGAT
46625500 GAGGTTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.23, C:0.09, G:0.16, T:0.52
Consensus pattern (36 bp):
GATTTAGATTTTGATTTCAATTTCGATCTCGATTTA
Found at i:46627383 original size:40 final size:40
Alignment explanation
Indices: 46627353--46627562 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
46627343 GGACTAAGAT
* * * *
46627353 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
46627393 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
46627433 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
46627473 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
46627513 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
46627552 CCGAAGGCATT
1 CCGAAGGCATT
46627563 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 34 0.21
40 125 0.79
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:46627437 original size:80 final size:80
Alignment explanation
Indices: 46627300--46627562 Score: 316
Period size: 80 Copynumber: 3.3 Consensus size: 80
46627290 TTGAATGCTG
* * * * * **
46627300 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCCT
*
46627363 TTGTGCGAGATACTAAA
64 TTGTGCGAGTTACTAAA
* * *
46627380 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
46627445 GTGCGAGTTATTAAA
66 GTGCGAGTTACTAAA
* * * *
46627460 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
46627524 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
46627539 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
46627563 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
79 36 0.23
80 117 0.74
81 6 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:46627514 original size:120 final size:120
Alignment explanation
Indices: 46627300--46627562 Score: 325
Period size: 120 Copynumber: 2.2 Consensus size: 120
46627290 TTGAATGCTG
* * *
46627300 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
46627364 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * * **
46627420 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * *
46627483 TCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
46627539 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
46627563 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
119 35 0.29
120 81 0.66
121 6 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:46627582 original size:79 final size:80
Alignment explanation
Indices: 46627353--46627597 Score: 253
Period size: 80 Copynumber: 3.1 Consensus size: 80
46627343 GGACTAAGAT
* * * * * ** * *
46627353 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
46627417 AAATCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
* * * ** ** *
46627433 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
46627498 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
46627513 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
46627577 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
46627591 CCGAAGG
1 CCGAAGG
46627598 TACGTGATTT
Statistics
Matches: 144, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
78 14 0.10
79 47 0.33
80 83 0.58
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:46635333 original size:40 final size:40
Alignment explanation
Indices: 46635250--46635552 Score: 405
Period size: 40 Copynumber: 7.6 Consensus size: 40
46635240 TTGAATGCTG
* * * * * *
46635250 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
46635290 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
46635330 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
46635370 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
46635410 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
46635450 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
46635490 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
46635529 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
46635553 TGAACGAGGA
Statistics
Matches: 241, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 35 0.15
40 198 0.82
41 8 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:46637144 original size:15 final size:15
Alignment explanation
Indices: 46637124--46637153 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46637114 GAAATGTTTG
46637124 GTAGTGATGTGTCTA
1 GTAGTGATGTGTCTA
*
46637139 GTAGTGATTTGTCTA
1 GTAGTGATGTGTCTA
46637154 ATAGCATAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.07, G:0.30, T:0.43
Consensus pattern (15 bp):
GTAGTGATGTGTCTA
Found at i:46640683 original size:28 final size:29
Alignment explanation
Indices: 46640652--46640716 Score: 66
Period size: 28 Copynumber: 2.3 Consensus size: 29
46640642 ACATATACGT
46640652 ATATACATAT-ATAAG-CAAATATATAATA
1 ATATACATATAATAAGACAAATATATAA-A
* *
46640680 ATATTA-ATATAATAAGACACATATTTAAA
1 ATA-TACATATAATAAGACAAATATATAAA
46640709 AT-TACATA
1 ATATACATA
46640717 AGTAAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
27 2 0.06
28 10 0.32
29 10 0.32
30 9 0.29
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (29 bp):
ATATACATATAATAAGACAAATATATAAA
Found at i:46640768 original size:3 final size:3
Alignment explanation
Indices: 46640746--46640813 Score: 91
Period size: 3 Copynumber: 22.3 Consensus size: 3
46640736 ATATAGTGAG
* *
46640746 AAT AAC AAT GAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
46640792 ACT AAT ACT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
46640814 TAAAAATTGT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
3 53 0.95
4 3 0.05
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:46642010 original size:17 final size:17
Alignment explanation
Indices: 46641988--46642023 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
46641978 ATTAGTTTTC
46641988 GGCTT-GTTGGGTATTTG
1 GGCTTGGTT-GGTATTTG
46642005 GGCTTGGTTGGTATTTG
1 GGCTTGGTTGGTATTTG
46642022 GG
1 GG
46642024 TTATGCTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.06, C:0.06, G:0.44, T:0.44
Consensus pattern (17 bp):
GGCTTGGTTGGTATTTG
Found at i:46642552 original size:46 final size:46
Alignment explanation
Indices: 46642484--46643420 Score: 1392
Period size: 46 Copynumber: 20.4 Consensus size: 46
46642474 CCATTGTATT
* * * * *
46642484 AGGAAGATAAGAT-TCACCATCTTTGATCTACTCCACTGCCAAATAC
1 AGGAAGATAAGATCT-GCTATCTTCGATCTCCTCCGCTGCCAAATAC
* *
46642530 AGGAAGACAAGACCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
46642576 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* *
46642622 AGGAATATAAGATTTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* *
46642668 AGGAAGATAAGATCTACTATCTTCGATCTCCTCCACTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* *
46642714 AGGAAGACAAGATCTGCTATCTTCGATCTCCTCCACTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* *
46642760 AGGAAGACAAGATATGCTATCTTCGATCTCCTCCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* **
46642806 AGGAAGATAAGATCTGCTATCTTCGATCTCTTCTACTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* * *
46642852 AGGAAGACAAGATCGGCTATCTTCGATCTCCTTCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* **
46642898 AGGAAGATTAGATCTGCTATCTTCGATCTCCTCTACTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* * *
46642944 AGGAAGACAAGATCGGCTATCTTCGATCTCCTTCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
*
46642990 AGGAAGATTAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* * *
46643036 AGGAAGATAAGATATGTTATCTTCGATCT-CTCCCGCTGCCAAATAT
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCT-CCGCTGCCAAATAC
*
46643082 AGGAAGATAAGATCTGTTATCTTCGATCTCCTCCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* * * * *
46643128 AGGAAGATAAGATATACCATTTTTGATCTCCTCCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* * * * *
46643174 AGGAATACAAGATCTACTATCTTCGATCTCCTCCACTGCCAAATAT
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* *
46643220 AGGAATATAAGATCTGCTATCTTTGATCTCCTCCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* *
46643266 AGGAAGATAAGATCTACTATCTTCGATCTCCTCCACTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* * * *
46643312 AGGAAGATAAGATCTGCTATCTTTGATCTCCTCCACTGTCAAATAT
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
46643358 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
46643404 AGGAAGATAAGATCTGC
1 AGGAAGATAAGATCTGC
46643421 AACTTCATTG
Statistics
Matches: 805, Mismatches: 83, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
45 2 0.00
46 800 0.99
47 3 0.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (46 bp):
AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
Found at i:46644524 original size:21 final size:20
Alignment explanation
Indices: 46644500--46644545 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
46644490 TGTATATCAA
46644500 GATCACCACATGCCCCAATCT
1 GATCA-CACATGCCCCAATCT
** *
46644521 GATCACTTATGCCCCATTCT
1 GATCACACATGCCCCAATCT
46644541 GATCA
1 GATCA
46644546 ATATTTGAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.26, C:0.37, G:0.11, T:0.26
Consensus pattern (20 bp):
GATCACACATGCCCCAATCT
Found at i:46644650 original size:8 final size:8
Alignment explanation
Indices: 46644639--46644670 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
46644629 CCATTTTTAC
46644639 TTTTTCAT
1 TTTTTCAT
46644647 TTTTTCAT
1 TTTTTCAT
46644655 TTTTTCA-
1 TTTTTCAT
46644662 TTTTTCAT
1 TTTTTCAT
46644670 T
1 T
46644671 CATTTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTCAT
Found at i:46644657 original size:15 final size:15
Alignment explanation
Indices: 46644630--46644670 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
46644620 TTAGCCTCTC
*
46644630 CATTTTT-ACTTTTT
1 CATTTTTCATTTTTT
46644644 CATTTTTTCATTTTTT
1 CA-TTTTTCATTTTTT
46644660 CATTTTTCATT
1 CATTTTTCATT
46644671 CATTTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 2 0.08
15 14 0.58
16 8 0.33
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (15 bp):
CATTTTTCATTTTTT
Found at i:46645440 original size:12 final size:13
Alignment explanation
Indices: 46645423--46645453 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
46645413 TTGACCTCTC
46645423 CTTTTTC-TTTTT
1 CTTTTTCTTTTTT
46645435 CTTTTTCTTTTTT
1 CTTTTTCTTTTTT
46645448 CTTTTT
1 CTTTTT
46645454 TTCCTTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
CTTTTTCTTTTTT
Found at i:46645462 original size:6 final size:6
Alignment explanation
Indices: 46645423--46645453 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
46645413 TTGACCTCTC
46645423 CTTTTT CTTTTT CTTTTT CTTTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT C-TTTTT CTTTTT
46645454 TTCCTTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
CTTTTT
Found at i:46646560 original size:23 final size:23
Alignment explanation
Indices: 46646532--46646575 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
46646522 TTTTTTTACT
*
46646532 GTAGTAATTTTCGGGGTATTATA
1 GTAGTAATTTTCGGGATATTATA
46646555 GTAGTAATTTTCGGGATATTA
1 GTAGTAATTTTCGGGATATTA
46646576 CATACATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.27, C:0.05, G:0.25, T:0.43
Consensus pattern (23 bp):
GTAGTAATTTTCGGGATATTATA
Found at i:46649765 original size:45 final size:45
Alignment explanation
Indices: 46649696--46649874 Score: 243
Period size: 45 Copynumber: 4.0 Consensus size: 45
46649686 TAACGGTAGA
* * ** *
46649696 AGTAACAATAACAGTATTCAACACACAAAGTGTTGAATCTGTAAC
1 AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAAC
* *
46649741 AGTAACAGTAATAGTATTCGACACACAAAGTGCCGAATCGGTAAC
1 AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAAC
46649786 AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAATC
1 AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAA-C
* * * *
46649832 AGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTAATCAGTAA
1 AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAA
46649875 GTCGGCAAAT
Statistics
Matches: 121, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 97 0.80
46 24 0.20
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (45 bp):
AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAAC
Found at i:46655255 original size:28 final size:28
Alignment explanation
Indices: 46655223--46655286 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
46655213 CCTCTTTCCC
* ** *
46655223 CTCCACTGGGTCTTGTTTCTTTGATCCA
1 CTCCACTGGATCTTGTCGCTTCGATCCA
*
46655251 CTCCACTGTATCTTGTCGCTTCGATCCA
1 CTCCACTGGATCTTGTCGCTTCGATCCA
*
46655279 CTTCACTG
1 CTCCACTG
46655287 CAACTTCTGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.12, C:0.33, G:0.16, T:0.39
Consensus pattern (28 bp):
CTCCACTGGATCTTGTCGCTTCGATCCA
Found at i:46655819 original size:100 final size:100
Alignment explanation
Indices: 46655663--46655851 Score: 238
Period size: 100 Copynumber: 1.9 Consensus size: 100
46655653 CCGTTACGGT
* * * * *
46655663 TTCAATCTTTTAATTGCAATGTCGGGAAAGCAAGATTCGCCATTGTGACTTTAATCTATTCCATT
1 TTCAATCTTTTAACTACAATATCGGGAAAGCAAGATTCGCCATTGTGACTTCAATCTATTCCACT
* *
46655728 GCATCGCCAGGGAA-GTGAGATTCGCTGTTGTAGC
66 GCACCGCCAGGGAAGGTAAGATTCGCTGTTGTAGC
* * * *
46655762 TTCAATCTATTTAACTACAATATCGGGGAAGCGAGATTCGTCATTGT-AGCTTCAATCTGTTCCA
1 TTCAATCT-TTTAACTACAATATCGGGAAAGCAAGATTCGCCATTGTGA-CTTCAATCTATTCCA
*
46655826 CTGCACCGCCTGGGAAGGTAAGATTC
64 CTGCACCGCCAGGGAAGGTAAGATTC
46655852 ATCGTCTTCG
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
99 9 0.12
100 58 0.77
101 8 0.11
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (100 bp):
TTCAATCTTTTAACTACAATATCGGGAAAGCAAGATTCGCCATTGTGACTTCAATCTATTCCACT
GCACCGCCAGGGAAGGTAAGATTCGCTGTTGTAGC
Found at i:46655841 original size:50 final size:49
Alignment explanation
Indices: 46655690--46655842 Score: 119
Period size: 50 Copynumber: 3.1 Consensus size: 49
46655680 AATGTCGGGA
* * * *
46655690 AAGCAAGATTCGCCATTGT-GACTTTAATCTATTCCATTGCATCGCCAGGG
1 AAGCGAGATTCG-CATTGTAG-CTTCAATCTATTCCACTGCAACGCCAGGG
* * ** * *** *
46655740 AAGTGAGATTCGCTGTTGTAGCTTCAATCTATTTAACTACAATATCGGGG
1 AAGCGAGATTCGC-ATTGTAGCTTCAATCTATTCCACTGCAACGCCAGGG
* * *
46655790 AAGCGAGATTCGTCATTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGG
1 AAGCGAGATTCG-CATTGTAGCTTCAATCTATTCCACTGCAACGCCAGGG
46655840 AAG
1 AAG
46655843 GTAAGATTCA
Statistics
Matches: 76, Mismatches: 24, Indels: 6
0.72 0.23 0.06
Matches are distributed among these distances:
49 1 0.01
50 73 0.96
51 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (49 bp):
AAGCGAGATTCGCATTGTAGCTTCAATCTATTCCACTGCAACGCCAGGG
Found at i:46655904 original size:44 final size:44
Alignment explanation
Indices: 46655856--46656577 Score: 280
Period size: 44 Copynumber: 16.4 Consensus size: 44
46655846 AGATTCATCG
* *
46655856 TCTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGATCTGTAA
1 TCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAA
* * * * *
46655900 TCTTCAATCTATTCTACTACTGCCCAGGGAGAT-AGA-AT-TAT
1 TCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAA
* * * * **
46655941 TGGCTTCAATGTACTCCACTGTAAC--CACAGGGAGGTAAAATCTGCCA
1 T--CTTCAATCTACTCCAC--T-ACTGCTCAGGGAGATAAGATCTGTAA
* * *
46655988 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA
1 TCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAA
* * * * **
46656032 TCTTCAATCTATTCCACTACTGCCCAGGGAGATAGGAT-TATCG
1 TCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAA
* * * * * * **
46656075 GCTTCAATGTACTCCACT-GTAGCCACAGGGAGGTAAAATCCATAA
1 TCTTCAATCTACTCCACTACT-G-CTCAGGGAGATAAGATCTGTAA
* * *
46656120 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA
1 TCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAA
* ** * **
46656164 TCTTCAATCTATTCCACTACCAAC-CAGGGAGAT-AGAAT-TATCG
1 TCTTCAATCTACTCCACTA-CTGCTCAGGGAGATAAG-ATCTGTAA
* * * * * **
46656207 GCTTCAATGTACTCCACTA-TAGTCACAGGGAGGTAAAATCTGCCA
1 TCTTCAATCTACTCCACTACT-G-CTCAGGGAGATAAGATCTGTAA
** * *
46656252 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA
1 TCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAA
* * ** * *
46656296 TCTTCAATCTATTCTAC-AGCCAAC-CAGGGAGAT-AGA-AT-TACCG
1 TCTTCAATCTACTCCACTA--CTGCTCAGGGAGATAAGATCTGTA--A
* * * * * * **
46656339 GCTTCAATGTACTCCACTA-TAGCCACAGGGAGGTAAAATCCGCCA
1 TCTTCAATCTACTCCACTACT-G-CTCAGGGAGATAAGATCTGTAA
* ** * *
46656384 TTTTTTATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA
1 TCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAA
* * * ** * **
46656428 TCTTCAATCTATTCTACTGTCAAC-CAGGGAGAT-AGAAT-TATCG
1 TCTTCAATCTACTCCACT-ACTGCTCAGGGAGATAAG-ATCTGTAA
* * * * * * **
46656471 GCTTCAATGTACTCCACT-GTAGCCACAGGGAGGTAAAATCTGCCA
1 TCTTCAATCTACTCCACTACT-G-CTCAGGGAGATAAGATCTGTAA
* * ** *
46656516 TCTTCGATCTGCTCCACTACTGCTTGGGGAGATAAGATTTGTAA
1 TCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAA
* *
46656560 TCTTCAATTTATTCCACT
1 TCTTCAATCTACTCCACT
46656578 GCCAACCAGG
Statistics
Matches: 471, Mismatches: 165, Indels: 84
0.65 0.23 0.12
Matches are distributed among these distances:
41 5 0.01
42 5 0.01
43 93 0.20
44 269 0.57
45 91 0.19
46 7 0.01
47 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
TCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAA
Found at i:46656003 original size:132 final size:132
Alignment explanation
Indices: 46655856--46656661 Score: 1272
Period size: 132 Copynumber: 6.1 Consensus size: 132
46655846 AGATTCATCG
* * *
46655856 TCTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCAATCTATTCTACTACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACC
** * *
46655921 GCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGC
66 AACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCTGC
46655986 CA
131 CA
*
46655988 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACC
** * ***
46656053 GCCCAGGGAGATAGGATTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCCAT
66 AACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCTGC
*
46656118 AA
131 CA
46656120 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACC
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACC
* *
46656185 AACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTATAGTCACAGGGAGGTAAAATCTGC
66 AACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCTGC
46656250 CA
131 CA
* *
46656252 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCTAC-AGC
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTA-C
* * *
46656316 CAACCAGGGAGATAGAATTACCGGCTTCAATGTACTCCACTATAGCCACAGGGAGGTAAAATCCG
65 CAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCTG
46656381 CCA
130 CCA
* ** * **
46656384 TTTTTTATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCTACTGTC
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACC
46656449 AACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCTGC
66 AACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCTGC
46656514 CA
131 CA
* * * *
46656516 TCTTCGATCTGCTCCACTACTGCTTGGGGAGATAAGATTTGTAATCTTCAATTTATTCCACTGCC
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACC
* * *
46656581 AACCAGGGAGATAGAATTATCGGCTTTAATGTACTCCACTGTAGTCATAGGGAGGTAAAATCTGC
66 AACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCTGC
46656646 CA
131 CA
*
46656648 TCTTCGATTTGCTC
1 TCTTCGATCTGCTC
46656662 TGCTGTCGAT
Statistics
Matches: 629, Mismatches: 43, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
131 1 0.00
132 628 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACC
AACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCTGC
CA
Found at i:46657969 original size:42 final size:42
Alignment explanation
Indices: 46657910--46658021 Score: 179
Period size: 42 Copynumber: 2.6 Consensus size: 42
46657900 AAGATCACCA
*
46657910 TATGCCCCGATCTGATCAAAATTTGAGCTGCTCCGATCGCCT
1 TATGCCCCAATCTGATCAAAATTTGAGCTGCTCCGATCGCCT
* *
46657952 TATGCCCCAATCTGATCAAAATTTGAGCTGCTCTGATTGCCT
1 TATGCCCCAATCTGATCAAAATTTGAGCTGCTCCGATCGCCT
*
46657994 TATGCCCCAATTTGATCCAAAATTTGAG
1 TATGCCCCAATCTGAT-CAAAATTTGAG
46658022 TCTCCCTTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
42 54 0.83
43 11 0.17
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (42 bp):
TATGCCCCAATCTGATCAAAATTTGAGCTGCTCCGATCGCCT
Found at i:46658119 original size:11 final size:11
Alignment explanation
Indices: 46658105--46658136 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
46658095 CTCCTTCCTT
46658105 TTTTTCTTTTC
1 TTTTTCTTTTC
*
46658116 TTTTTTTTTTC
1 TTTTTCTTTTC
46658127 TTTTTCTTTT
1 TTTTTCTTTT
46658137 TTTCCCTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:46658120 original size:6 final size:6
Alignment explanation
Indices: 46658105--46658137 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
46658095 CTCCTTCCTT
46658105 TTTTTC -TTTTC TTTTT- TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
46658138 TTCCCTCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTTTC
Found at i:46658125 original size:17 final size:17
Alignment explanation
Indices: 46658103--46658139 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
46658093 CTCTCCTTCC
46658103 TTTTTTTC-TTTTCTTT
1 TTTTTTTCTTTTTCTTT
46658119 TTTTTTTCTTTTTCTTT
1 TTTTTTTCTTTTTCTTT
46658136 TTTT
1 TTTT
46658140 CCCTCTTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (17 bp):
TTTTTTTCTTTTTCTTT
Found at i:46663059 original size:15 final size:15
Alignment explanation
Indices: 46663033--46663068 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
46663023 AATATAAAGA
46663033 ACATAT-AAATATGT
1 ACATATAAAATATGT
*
46663047 ATATATAAAATATGT
1 ACATATAAAATATGT
46663062 ACATATA
1 ACATATA
46663069 TACGTAGGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.36
Consensus pattern (15 bp):
ACATATAAAATATGT
Found at i:46663372 original size:3 final size:3
Alignment explanation
Indices: 46663352--46663387 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
46663342 AAAATAAAAC
*
46663352 TAA TAAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
46663388 TCAAATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:46664203 original size:15 final size:15
Alignment explanation
Indices: 46664183--46664213 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
46664173 CAAATTGGTT
46664183 TTGGGCCTGAGGTAG
1 TTGGGCCTGAGGTAG
*
46664198 TTGGGCTTGAGGTAG
1 TTGGGCCTGAGGTAG
46664213 T
1 T
46664214 AATTGGGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.10, G:0.45, T:0.32
Consensus pattern (15 bp):
TTGGGCCTGAGGTAG
Found at i:46667284 original size:20 final size:20
Alignment explanation
Indices: 46667259--46667306 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
46667249 CAATTATGGG
* *
46667259 TAATTTTTATTAATCTATTT
1 TAATTTTTATAAATCAATTT
46667279 TAATTTTTATAAATCAATTT
1 TAATTTTTATAAATCAATTT
46667299 TAATTTTT
1 TAATTTTT
46667307 TGTTTACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (20 bp):
TAATTTTTATAAATCAATTT
Found at i:46668514 original size:3 final size:3
Alignment explanation
Indices: 46668506--46668539 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
46668496 TTAAATTTAA
46668506 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
46668540 GTAAGATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:46669520 original size:24 final size:25
Alignment explanation
Indices: 46669475--46669522 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
46669465 ACTTCCATCT
46669475 ACCTTTGCTCAACTCTCTTTTCTTA
1 ACCTTTGCTCAACTCTCTTTTCTTA
*
46669500 ACCTTT-CTCTACTCT-TATTTCTT
1 ACCTTTGCTCAACTCTCT-TTTCTT
46669523 GCAAGATGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 1 0.05
24 14 0.67
25 6 0.29
ACGTcount: A:0.15, C:0.31, G:0.02, T:0.52
Consensus pattern (25 bp):
ACCTTTGCTCAACTCTCTTTTCTTA
Found at i:46673595 original size:66 final size:66
Alignment explanation
Indices: 46673489--46673624 Score: 220
Period size: 66 Copynumber: 2.1 Consensus size: 66
46673479 GGAACCTCAA
*
46673489 TTCTCTCCAGGACTTGACTATCAAAAATTGCCCAAACCTCAAGACTCTTCCGGGAAATAATATGC
1 TTCTCTCCAGGACTTGACTATCAAAAATTGCCCAAACCTCAAGACTCTTCCGGGAAACAATATGC
46673554 T
66 T
* * *
46673555 TTCTCTCCAGTG-CTTGATTATCGAAAATTGCCCAAGCCTCAAGACTCTTCCGGGAAACAATATG
1 TTCTCTCCAG-GACTTGACTATCAAAAATTGCCCAAACCTCAAGACTCTTCCGGGAAACAATATG
46673619 CT
65 CT
46673621 TTCT
1 TTCT
46673625 TCGCTTTTGG
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
66 64 0.98
67 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (66 bp):
TTCTCTCCAGGACTTGACTATCAAAAATTGCCCAAACCTCAAGACTCTTCCGGGAAACAATATGC
T
Found at i:46683437 original size:30 final size:30
Alignment explanation
Indices: 46683375--46683438 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
46683365 TAACTTAGTC
* * *
46683375 TTTTGTCATTTCAGTCCCTATTCTTTTAAA
1 TTTTGTCATTACAGTCCCTATTCGTTCAAA
* *
46683405 TTTTGTCATTACAGTCCCTGTTCGTTCCAA
1 TTTTGTCATTACAGTCCCTATTCGTTCAAA
46683435 TTTT
1 TTTT
46683439 TGAAAGTTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.17, C:0.22, G:0.09, T:0.52
Consensus pattern (30 bp):
TTTTGTCATTACAGTCCCTATTCGTTCAAA
Found at i:46687106 original size:22 final size:22
Alignment explanation
Indices: 46687058--46687099 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
46687048 AAAATTATTA
* *
46687058 AATATTAAAACAATATAATATG
1 AATATTAAAAAAATATAAAATG
*
46687080 AATATTAAAAAAATTTAAAA
1 AATATTAAAAAAATATAAAA
46687100 ATAATATAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
AATATTAAAAAAATATAAAATG
Found at i:46688235 original size:18 final size:18
Alignment explanation
Indices: 46688212--46688247 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
46688202 AGTTGTCAAT
46688212 TTAGTTTTCATATGTTAA
1 TTAGTTTTCATATGTTAA
* *
46688230 TTAGTTTTTATATTTTAA
1 TTAGTTTTCATATGTTAA
46688248 CGCGTAATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.61
Consensus pattern (18 bp):
TTAGTTTTCATATGTTAA
Found at i:46696640 original size:25 final size:25
Alignment explanation
Indices: 46696606--46696656 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
46696596 GCTTGGTTTC
46696606 TGTAGTATATAATATATATAG-ATTT
1 TGTAGTATATAATATATA-AGTATTT
* *
46696631 TGTATTATATATTATATAAGTATTT
1 TGTAGTATATAATATATAAGTATTT
46696656 T
1 T
46696657 CAAACAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (25 bp):
TGTAGTATATAATATATAAGTATTT
Done.