Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 125 of 153
Found at i:39401257 original size:23 final size:23
Alignment explanation
Indices: 39401231--39401307 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 23
39401221 CATTATGGTG
* * *
39401231 TATTCTATGATGTCTTTATGGCA
1 TATTCTATGAAGCCTTTGTGGCA
*
39401254 TATTCTGTGAAGCCTTTGTGGCA
1 TATTCTATGAAGCCTTTGTGGCA
* * *
39401277 TACTCTGTGAAGCCTTTGTGGCG
1 TATTCTATGAAGCCTTTGTGGCA
39401300 TATTCTAT
1 TATTCTAT
39401308 AACGCCCTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (23 bp):
TATTCTATGAAGCCTTTGTGGCA
Found at i:39412342 original size:11 final size:11
Alignment explanation
Indices: 39412313--39412363 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
39412303 ATCCTCTTTC
39412313 AAATTTCCTCTT
1 AAATTTCCTC-T
39412325 AAATTTCCTCT
1 AAATTTCCTCT
*
39412336 CAATTTCCTCT
1 AAATTTCCTCT
*
39412347 AAATTTTCTCT
1 AAATTTCCTCT
*
39412358 CAATTT
1 AAATTT
39412364 TGGTGTTGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
11 25 0.71
12 10 0.29
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.49
Consensus pattern (11 bp):
AAATTTCCTCT
Found at i:39412352 original size:22 final size:23
Alignment explanation
Indices: 39412314--39412363 Score: 84
Period size: 22 Copynumber: 2.2 Consensus size: 23
39412304 TCCTCTTTCA
39412314 AATTTCCTCTTAAATTTCCTCTC
1 AATTTCCTCTTAAATTTCCTCTC
*
39412337 AATTTCCTC-TAAATTTTCTCTC
1 AATTTCCTCTTAAATTTCCTCTC
39412359 AATTT
1 AATTT
39412364 TGGTGTTGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 17 0.65
23 9 0.35
ACGTcount: A:0.24, C:0.26, G:0.00, T:0.50
Consensus pattern (23 bp):
AATTTCCTCTTAAATTTCCTCTC
Found at i:39412467 original size:26 final size:25
Alignment explanation
Indices: 39412438--39412486 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
39412428 ACTAAAGCAT
*
39412438 ATTGACGATAAAGTTAAAAAAAATAA
1 ATTGA-GAGAAAGTTAAAAAAAATAA
* *
39412464 ATTGAGAGAAATTTTAAAAAAAT
1 ATTGAGAGAAAGTTAAAAAAAAT
39412487 TAGAGTCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.59, C:0.02, G:0.12, T:0.27
Consensus pattern (25 bp):
ATTGAGAGAAAGTTAAAAAAAATAA
Found at i:39413029 original size:20 final size:22
Alignment explanation
Indices: 39412993--39413043 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
39412983 GTCTTGGTGC
39412993 TGTTATTTTTCTGCTATT-TTTT
1 TGTTA-TTTTCTGCTATTGTTTT
39413015 TGTTATTTT-TGCTATTGTTTT
1 TGTTATTTTCTGCTATTGTTTT
*
39413036 TGTAATTT
1 TGTTATTT
39413044 GTACTGGCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 7 0.26
21 15 0.56
22 5 0.19
ACGTcount: A:0.12, C:0.06, G:0.12, T:0.71
Consensus pattern (22 bp):
TGTTATTTTCTGCTATTGTTTT
Found at i:39418761 original size:14 final size:14
Alignment explanation
Indices: 39418742--39418768 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
39418732 TCAGAGCATA
39418742 CTCACCTCCAGCCT
1 CTCACCTCCAGCCT
39418756 CTCACCTCCAGCC
1 CTCACCTCCAGCC
39418769 CACATGCATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.59, G:0.07, T:0.19
Consensus pattern (14 bp):
CTCACCTCCAGCCT
Found at i:39420571 original size:10 final size:10
Alignment explanation
Indices: 39420556--39420580 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
39420546 CAGATCTAAC
39420556 ATTATGTAAA
1 ATTATGTAAA
39420566 ATTATGTAAA
1 ATTATGTAAA
39420576 ATTAT
1 ATTAT
39420581 TAAGCCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:39420705 original size:56 final size:57
Alignment explanation
Indices: 39420563--39420706 Score: 152
Period size: 56 Copynumber: 2.5 Consensus size: 57
39420553 AACATTATGT
* * *
39420563 AAAATTATGTAAAATTATTAAGCCAAAACAATTTTCTTAATGGTTAGAAAAATTTATC
1 AAAA-TATGTAAAATTATTAAGCCAAAAAAATTGTCTTAATGGTTAGAAAAATGTATC
* * * ** *
39420621 -AAATAATCTCAAATTATTAAGTCC--AAAAATTGTGTTAATGGTTATTAAAGTGT-TC
1 AAAAT-ATGTAAAATTATTAAG-CCAAAAAAATTGTCTTAATGGTTAGAAAAATGTATC
39420676 AAAATATGTAAAATTATTAAGCCAAAAAAAT
1 AAAATATGTAAAATTATTAAGCCAAAAAAAT
39420707 ATGTAAAATT
Statistics
Matches: 70, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
54 2 0.03
55 16 0.23
56 33 0.47
57 17 0.24
58 2 0.03
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (57 bp):
AAAATATGTAAAATTATTAAGCCAAAAAAATTGTCTTAATGGTTAGAAAAATGTATC
Found at i:39420728 original size:25 final size:26
Alignment explanation
Indices: 39420676--39420730 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
39420666 TAAAGTGTTC
*
39420676 AAAATATGTAAAATTATTAAGCCAAA
1 AAAATATGTAAAATTATCAAGCCAAA
39420702 AAAATATGTAAAATTATCAAGCCAAA
1 AAAATATGTAAAATTATCAAGCCAAA
39420728 AAA
1 AAA
39420731 TTTAGGTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.60, C:0.09, G:0.07, T:0.24
Consensus pattern (26 bp):
AAAATATGTAAAATTATCAAGCCAAA
Found at i:39420761 original size:28 final size:28
Alignment explanation
Indices: 39420729--39421617 Score: 980
Period size: 28 Copynumber: 30.4 Consensus size: 28
39420719 CAAGCCAAAA
*
39420729 AATTTAGGTTA-ATTTTGGGTTTTTAATT
1 AATTTAGGTTAGA-TTAGGGTTTTTAATT
*
39420757 AATTTAGGTTAGGTTTAGGGTTTTTAATT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
39420786 AATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
39420814 AATTTATGTTAGGGTTAGGTTAGGGTTTTTAGTT
1 -A---AT-TTA-GGTTAGATTAGGGTTTTTAATT
**
39420848 AATTTAGGTTAGATTATGTTTTTTTAATT
1 AATTTAGGTTAGATTA-GGGTTTTTAATT
* *
39420877 AATTTAGGTTAGGGTTAGGGTTTTAAATT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
*
39420906 AATTTAGGTTAGATTAGGGTTTTAAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
39420934 AATTTAGGTTAGATTAGGGTTTTAAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
39420962 AATTTAGGTTAGATTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
39420990 AATTTAGGTTAGGTTAGGGTTTTTTAATT
1 AATTTAGGTTAGATTAGGG-TTTTTAATT
* *
39421019 AATTTAAGTTAGATTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
39421047 AATTTA-G---G-TTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
**
39421070 AATTTAGGTTAGATTAGATTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
39421098 AATTTAGGTTAGGGTTAGGGTTTTAAATT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
*
39421127 AATTTAGGTTAGATTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
39421155 AATTTAGGTTAGGTTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
39421183 AATTTAGGTTAGATTAGGGTTTTTAGTTAATT
1 AATTTAGGTTAGATTAGGG--TTT--TTAATT
* * *
39421215 AAGGTTAGGGTTAGGTTAGGGTTTTTAGTT
1 AA-TTTA-GGTTAGATTAGGGTTTTTAATT
* *
39421245 AATTTAGGTCAGATTAGGTTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
39421273 AATTTAGGTTAGGGTTAGGGTTTTAAATT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
*
39421302 AATTTAGGTTAGATTAGGGTTTTAAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
39421330 AATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
39421358 AATTTAGGTTAGATTAGGATTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
39421386 AATTTAGGTTAGGGTTAGATTAGAGTTTTTAGTT
1 AA--T---TTA-GGTTAGATTAGGGTTTTTAATT
*
39421420 AATTTAGGTTAGGGTTAGGTTAGGGTTTTTAGTT
1 AATTTAGGTTA--G--A--TTAGGGTTTTTAATT
39421454 AATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
39421482 AATTTAGGTTAGATTAGGATTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
39421510 AATTTAGGTTAGGGTTAGATTAGAGTTTTTAGTT
1 AA--T---TTA-GGTTAGATTAGGGTTTTTAATT
*
39421544 AATTTAGGTTAGGGTTAGGTTAGGGTTTTTAGTT
1 AATTTAGGTTA--G--A--TTAGGGTTTTTAATT
* *
39421578 AATTTAGGTTATATTAGGTTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
39421606 AATTTAGGTTAG
1 AATTTAGGTTAG
39421618 TGTCAAGTTA
Statistics
Matches: 750, Mismatches: 63, Indels: 96
0.83 0.07 0.11
Matches are distributed among these distances:
23 21 0.03
24 2 0.00
27 2 0.00
28 394 0.53
29 152 0.20
30 22 0.03
32 18 0.02
33 13 0.02
34 126 0.17
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (28 bp):
AATTTAGGTTAGATTAGGGTTTTTAATT
Found at i:39420829 original size:23 final size:26
Alignment explanation
Indices: 39420745--39420819 Score: 96
Period size: 29 Copynumber: 2.7 Consensus size: 26
39420735 GGTTAATTTT
*
39420745 GGGTTTTTAATTAATTTAGGTTAGGTTTA
1 GGGTTTTTAATTAATTTA-G-TA-GATTA
39420774 GGGTTTTTAATTAATTTAGGTTAGATTA
1 GGGTTTTTAATTAATTTA-G-TAGATTA
39420802 GGGTTTTTAATTAATTTA
1 GGGTTTTTAATTAATTTA
39420820 TGTTAGGGTT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
28 22 0.49
29 23 0.51
ACGTcount: A:0.27, C:0.00, G:0.21, T:0.52
Consensus pattern (26 bp):
GGGTTTTTAATTAATTTAGTAGATTA
Found at i:39421053 original size:18 final size:20
Alignment explanation
Indices: 39421032--39421073 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 20
39421022 TTAAGTTAGA
39421032 TTAGGGTTTTTAGTTAATTTAGG
1 TTAGGGTTTTTAGTTAA-TT--G
39421055 TTAGGGTTTTTAGTTAATT
1 TTAGGGTTTTTAGTTAATT
39421074 TAGGTTAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.55
Consensus pattern (20 bp):
TTAGGGTTTTTAGTTAATTG
Found at i:39421279 original size:175 final size:170
Alignment explanation
Indices: 39420729--39421617 Score: 866
Period size: 175 Copynumber: 5.1 Consensus size: 170
39420719 CAAGCCAAAA
* * *
39420729 AATTTAGGTTA-ATTTTGGGTTTTTAATTAATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAG
1 AATTTAGGTTAGA-TTAGGGTTTTTAGTTAATTTAGGTTA-GATTAGGGTTTTTAATTAATTTAG
* *
39420793 GTTA-GATTAGGGTTTTTAATTAATTTATGTTAGGGTTAGGTTAGGGTTTTTAGTTAATTTAGGT
64 GTTAGGATTAGGG-TTTT-A--AATTAAT-TTA-GGTTAGATTAGGGTTTTTAGTTAATTTAGGT
* * * * * *
39420857 TAGATTATGTTTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTAAATT
123 TAGGTTAGGGTTTTTTAATTAATTTAGGTTA-GATTAGGGTTTTTAGTT
* * *
39420906 AATTTAGGTTAGATTAGGGTTTTAAATTAATTTAGGTTAGATTAGGGTTTTAAATTAATTTAGGT
1 AATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGT
* * * * * *
39420971 TA-GATTAGGGTTTTTAGTTAATTTAGGTTAGGTTAGGGTTTTTTAATTAATTTAAGTTAGATTA
66 TAGGATTAGGGTTTTAAATTAATTTAGGTTAGATTAGGG-TTTTTAGTTAATTTAGGTTAGGTTA
*
39421035 GGG-TTTTTAGTTAATTTA-G---G-TTAGGGTTTTTAGTT
130 GGGTTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTT
** * * *
39421070 AATTTAGGTTAGATTAGATTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTAAATTAATTTAGG
1 AATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTA-GATTAGGGTTTTTAATTAATTTAGG
* * * * *
39421135 TTA-GATTAGGGTTTTTAGTTAATTTAGGTTAGGTTAGGGTTTTTAATTAATTTAGGTTAGATTA
65 TTAGGATTAGGGTTTTAAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGTTA
* *
39421199 GGGTTTTTAGTTAATTAAGGTTAGGGTTAGGTTAGGGTTTTTAGTT
130 GGG-TTTT--TTAATTAA-TTTA-GGTTAGATTAGGGTTTTTAGTT
* * * * *
39421245 AATTTAGGTCAGATTAGGTTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTAAATTAATTTAGG
1 AATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTA-GATTAGGGTTTTTAATTAATTTAGG
* *
39421310 TTA-GATTAGGGTTTTAAATTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGATTA
65 TTAGGATTAGGGTTTTAAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGTTA
* ** *
39421374 GGATTTTTAGTTAATTTAGGTTAGGGTTAGATTAGAGTTTTTAGTT
130 GG-GTTTT--TTAA-TTAATTTA-GGTTAGATTAGGGTTTTTAGTT
39421420 AATTTAGGTTAGGGTTAGGTTAGGGTTTTTAGTTAATTTAGGTTAGATTAGGGTTTTTAATTAAT
1 AATTTAGGTTA--G--A--TTAGGGTTTTTAGTTAATTTAGGTTAGATTAGGGTTTTTAATTAAT
* ** *
39421485 TTAGGTTA-GATTAGGATTTTTAGTTAATTTAGGTTAGGGTTAGATTAGAGTTTTTAGTTAATTT
60 TTAGGTTAGGATTAGG-GTTTTA---AA-TTAATTTA-GGTTAGATTAGGGTTTTTAGTTAATTT
* * * * *
39421549 AGGTTAGGGTTAGGTTAGGGTTTTTAGTTAATTTAGGTTATATTAGGTTTTTTAATT
119 AGGTTA-GGTTA-G---GGTTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTT
39421606 AATTTAGGTTAG
1 AATTTAGGTTAG
39421618 TGTCAAGTTA
Statistics
Matches: 629, Mismatches: 50, Indels: 59
0.85 0.07 0.08
Matches are distributed among these distances:
164 76 0.12
165 64 0.10
166 3 0.00
168 7 0.01
169 4 0.01
170 27 0.04
171 28 0.04
172 5 0.01
174 1 0.00
175 190 0.30
176 37 0.06
177 36 0.06
178 1 0.00
179 1 0.00
180 33 0.05
181 29 0.05
184 3 0.00
185 6 0.01
186 60 0.10
187 10 0.02
188 4 0.01
190 3 0.00
191 1 0.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (170 bp):
AATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGT
TAGGATTAGGGTTTTAAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGTTAG
GGTTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTT
Found at i:39421588 original size:62 final size:56
Alignment explanation
Indices: 39420729--39421617 Score: 1043
Period size: 57 Copynumber: 15.2 Consensus size: 56
39420719 CAAGCCAAAA
* *
39420729 AATTTAGGTTA-ATTTTGGGTTTTTAATTAATTTAGGTTAGGTTTAGGGTTTTTAATT
1 AATTTAGGTTAGA-TTAGGGTTTTTAGTTAATTTAGGTTAGG-TTAGGGTTTTTAATT
* *
39420786 AATTTAGGTTAGATTAGGGTTTTTAATTAATTTATGTTAGGGTTAGGTTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAGTT-A---AT-TTA-GGTTAGGTTAGGGTTTTTAATT
** * *
39420848 AATTTAGGTTAGATTATGTTTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTAAATT
1 AATTTAGGTTAGATTA-GGGTTTTTAGTTAATTTAGGTTA-GGTTAGGGTTTTTAATT
* * * *
39420906 AATTTAGGTTAGATTAGGGTTTTAAATTAATTTAGGTTAGATTAGGGTTTTAAATT
1 AATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGTTAGGGTTTTTAATT
39420962 AATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGTTAGGGTTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGTTAGGG-TTTTTAATT
* *
39421019 AATTTAAGTTAGATTAGGGTTTTTAGTTAA--T---TTAGGTTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGTTAGGGTTTTTAATT
** * *
39421070 AATTTAGGTTAGATTAGATTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTAAATT
1 AATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTA-GGTTAGGGTTTTTAATT
39421127 AATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGTTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGTTAGGGTTTTTAATT
*
39421183 AATTTAGGTTAGATTAGGGTTTTTAGTTAATTAAGGTTAGGGTTAGGTTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAGTTAA-T----TTA-GGTTAGGTTAGGGTTTTTAATT
* * * *
39421245 AATTTAGGTCAGATTAGGTTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTAAATT
1 AATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTA-GGTTAGGGTTTTTAATT
* * *
39421302 AATTTAGGTTAGATTAGGGTTTTAAATTAATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGTTAGGGTTTTTAATT
* *
39421358 AATTTAGGTTAGATTAGGATTTTTAGTTAATTTAGGTTAGGGTTAGATTAGAGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTA-GGTTAG----G-GTTTTTAATT
*
39421420 AATTTAGGTTAGGGTTAGGTTAGGGTTTTTAGTTAATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTA--G--A--TTAGGGTTTTTAGTTAATTTAGGTTAGGTTAGGGTTTTTAATT
* *
39421482 AATTTAGGTTAGATTAGGATTTTTAGTTAATTTAGGTTAGGGTTAGATTAGAGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTA-GGTTAG----G-GTTTTTAATT
** *
39421544 AATTTAGGTTAGGGTTAGGTTAGGGTTTTTAGTTAATTTAGGTTATATTAGGTTTTTTAATT
1 AATTTAGGTTA--G--A--TTAGGGTTTTTAGTTAATTTAGGTTAGGTTAGGGTTTTTAATT
39421606 AATTTAGGTTAG
1 AATTTAGGTTAG
39421618 TGTCAAGTTA
Statistics
Matches: 732, Mismatches: 53, Indels: 91
0.84 0.06 0.10
Matches are distributed among these distances:
51 34 0.05
52 11 0.02
53 1 0.00
55 1 0.00
56 190 0.26
57 203 0.28
58 37 0.05
59 2 0.00
60 2 0.00
61 8 0.01
62 161 0.22
63 19 0.03
64 2 0.00
66 2 0.00
67 9 0.01
68 50 0.07
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (56 bp):
AATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGTTAGGGTTTTTAATT
Found at i:39421726 original size:26 final size:25
Alignment explanation
Indices: 39421694--39421743 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
39421684 TCTTAAAAAC
39421694 TTTCTATGCGTATTACATCAAATAAA
1 TTTCTAT-CGTATTACATCAAATAAA
**
39421720 TTTCTATTTTATTACATCAAATAA
1 TTTCTATCGTATTACATCAAATAA
39421744 TAAAATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.38, C:0.14, G:0.04, T:0.44
Consensus pattern (25 bp):
TTTCTATCGTATTACATCAAATAAA
Found at i:39421884 original size:24 final size:24
Alignment explanation
Indices: 39421857--39421908 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
39421847 GGCGGTTGTT
**
39421857 CTTCCTCTTGTGGTGATTGTGGTC
1 CTTCCTCCGGTGGTGATTGTGGTC
* *
39421881 CTTCCTCCGGTGGTGGTTGTGGTT
1 CTTCCTCCGGTGGTGATTGTGGTC
39421905 CTTC
1 CTTC
39421909 TGGTTCCGCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.02, C:0.23, G:0.31, T:0.44
Consensus pattern (24 bp):
CTTCCTCCGGTGGTGATTGTGGTC
Found at i:39422208 original size:18 final size:18
Alignment explanation
Indices: 39422164--39422209 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
39422154 TATTCGGAAA
* *
39422164 AGGATACATGTAAGGGTT
1 AGGATACATATAAGGGCT
*
39422182 AGGGTACATATAAGGGCT
1 AGGATACATATAAGGGCT
*
39422200 AGGAAACATA
1 AGGATACATA
39422210 CCTGGCATCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.22
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:39423957 original size:21 final size:20
Alignment explanation
Indices: 39423931--39423978 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
39423921 GATGAAAATA
39423931 TAAAAAAATTTAAAATTATTT
1 TAAAAAAA-TTAAAATTATTT
*
39423952 TAAAAAAATTATAATTATTT
1 TAAAAAAATTAAAATTATTT
39423972 TAAAAAA
1 TAAAAAA
39423979 TGGATTTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TAAAAAAATTAAAATTATTT
Found at i:39426167 original size:39 final size:40
Alignment explanation
Indices: 39426122--39426293 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
39426112 GCTCCTCGTT
* * *
39426122 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
39426162 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
39426201 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
39426241 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
39426281 CAAATGCCTTCGG
1 CAAATGCCTTCGG
39426294 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:39426222 original size:40 final size:39
Alignment explanation
Indices: 39426124--39426346 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
39426114 TCCTCGTTCA
* * * *
39426124 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
39426163 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
39426202 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
39426242 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
39426282 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
39426323 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
39426347 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:39426306 original size:80 final size:79
Alignment explanation
Indices: 39426122--39426346 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
39426112 GCTCCTCGTT
* * * * *
39426122 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
39426186 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
39426201 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
39426266 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
39426281 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
39426345 GA
63 GA
39426347 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:39426355 original size:41 final size:41
Alignment explanation
Indices: 39426278--39426355 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
39426268 TTTGTATCTC
* * *
39426278 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
39426319 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
39426356 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:39428480 original size:153 final size:150
Alignment explanation
Indices: 39428234--39428869 Score: 961
Period size: 152 Copynumber: 4.2 Consensus size: 150
39428224 AAAACCCCTT
* * *
39428234 AAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTAAAATTTATTTAAAAAACACATTAAATTA
1 AAAAATACGAACAAATGGCCGAAATAA-GGTTTTTTTAAATTTATTTAAAAAACACAGTAAATTA
39428299 ATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTT
65 ATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTT
*
39428364 TTGAAGTAATAAAATTCGGAGA
130 TTAAAGTAATAAAATTCGG-GA
* *
39428386 AAAAATACAAACAAATGGCCGAAATAAGGTTTTTTTTATATTTATTTAAAAAAACACAGTAAATT
1 AAAAATACGAACAAATGGCCGAAATAAGG-TTTTTTTAAATTTATTT-AAAAAACACAGTAAATT
*
39428451 AATATATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTT
64 AATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTT
* *
39428516 TTTAAAGTAATAAACTCTGGGGAA
129 TTTAAAGTAATAAAAT-TCGGG-A
39428540 AAAAATACGAACAAATGGCCGAAATAAGGTTTTTTTAAATTTATTTAAAAAACACAGTAAATTAA
1 AAAAATACGAACAAATGGCCGAAATAAGGTTTTTTTAAATTTATTTAAAAAACACAGTAAATTAA
*
39428605 TACATTTCAAACATGATGTACTAAAATAATGTAAAATAATAAAA-TACGAAAATAATATATTTTT
66 TACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTA-GAAAATAATATA-TTTT
*
39428669 ATTTAAAGTAATAAAATCTAGGG-
129 -TTTAAAGTAATAAAAT-TCGGGA
* * *
39428692 AAAAATACGAACAAATGGCCGAAATAAGGATTTTTTCAATTTATTTAAAAGAACACAATAAATTA
1 AAAAATACGAACAAATGGCCGAAATAAGGTTTTTTTAAATTTATTTAAAA-AACACAGTAAATTA
* * * *
39428757 ATACATTTCAAATATAATGTACTAAAATAATGTAAAATAAAAAAAATTAAAAAATAGTATATTTT
65 ATACATTTCAAACATAATGTACTAAAATAATGTAAAAT-AATAAAATTAGAAAATAATATATTTT
* *
39428822 TTAAAAGTAATAAAATCCGGGA
129 TTTAAAGTAATAAAATTCGGGA
*
39428844 AAAAATACGAACAAATGGCCAAAATA
1 AAAAATACGAACAAATGGCCGAAATA
39428870 CGAATAATTG
Statistics
Matches: 446, Mismatches: 27, Indels: 22
0.90 0.05 0.04
Matches are distributed among these distances:
151 7 0.02
152 201 0.45
153 168 0.38
154 68 0.15
155 2 0.00
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.31
Consensus pattern (150 bp):
AAAAATACGAACAAATGGCCGAAATAAGGTTTTTTTAAATTTATTTAAAAAACACAGTAAATTAA
TACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTT
TAAAGTAATAAAATTCGGGA
Found at i:39428786 original size:305 final size:305
Alignment explanation
Indices: 39428234--39428869 Score: 996
Period size: 305 Copynumber: 2.1 Consensus size: 305
39428224 AAAACCCCTT
* *
39428234 AAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTAAAATTTATTTAAAAAACACATTAAATTA
1 AAAAATACGAACAAATGGCCGAAATAAGGGTTTTTTAAAATTTATTTAAAAAACACAGTAAATTA
39428299 ATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTT
66 ATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTT
* * * *
39428364 TTGAAGTAATAAAATTCGGAGAAAAAATACAAACAAATGGCCGAAATAAGGTTTTTTTTATATTT
131 TTAAAGTAATAAAATTAGGAGAAAAAATACAAACAAATGGCCGAAATAAGGATTTTTTCATATTT
* * *
39428429 ATTTAAAAAAACACAGTAAATTAATATATTTCAAACATAATGTACTAAAATAATGTAAAAT-AAT
196 ATTTAAAAAAACACAATAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAAAA
* * * *
39428493 AAAATTAGAAAATAATATATTTTTTTAAAGTAATAAACTCTGGGGAA
261 AAAATTAAAAAATAATATATTTTTTAAAAGTAATAAAATC-CGGG-A
*
39428540 AAAAATACGAACAAATGGCCGAAATAA-GGTTTTTTTAAATTTATTTAAAAAACACAGTAAATTA
1 AAAAATACGAACAAATGGCCGAAATAAGGGTTTTTTAAAATTTATTTAAAAAACACAGTAAATTA
*
39428604 ATACATTTCAAACATGATGTACTAAAATAATGTAAAATAATAAAA-TACGAAAATAATATATTTT
66 ATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTA-GAAAATAATATA-TTT
*
39428668 TATTTAAAGTAATAAAATCTAGG-G-AAAAATACGAACAAATGGCCGAAATAAGGATTTTTTCA-
129 T-TTTAAAGTAATAAAAT-TAGGAGAAAAAATACAAACAAATGGCCGAAATAAGGATTTTTTCAT
* *
39428730 ATTTATTTAAAAGAACACAATAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAAT
192 ATTTATTTAAAAAAACACAATAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAAT
*
39428795 AAAAAAAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCCGGGA
257 AAAAAAAATTAAAAAATAATATATTTTTTAAAAGTAATAAAATCCGGGA
*
39428844 AAAAATACGAACAAATGGCCAAAATA
1 AAAAATACGAACAAATGGCCGAAATA
39428870 CGAATAATTG
Statistics
Matches: 305, Mismatches: 20, Indels: 12
0.91 0.06 0.04
Matches are distributed among these distances:
304 28 0.09
305 155 0.51
306 103 0.34
307 16 0.05
308 3 0.01
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.31
Consensus pattern (305 bp):
AAAAATACGAACAAATGGCCGAAATAAGGGTTTTTTAAAATTTATTTAAAAAACACAGTAAATTA
ATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTT
TTAAAGTAATAAAATTAGGAGAAAAAATACAAACAAATGGCCGAAATAAGGATTTTTTCATATTT
ATTTAAAAAAACACAATAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAAAA
AAAATTAAAAAATAATATATTTTTTAAAAGTAATAAAATCCGGGA
Found at i:39430439 original size:25 final size:25
Alignment explanation
Indices: 39430401--39430453 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
39430391 GATATTTATA
** *
39430401 ACAATAAATTTTAGAACGAATTCAC
1 ACAATAAACCTTAGAACAAATTCAC
39430426 ACAATAAACCTTAGAACAAATTCAC
1 ACAATAAACCTTAGAACAAATTCAC
39430451 ACA
1 ACA
39430454 TGTTTTTTTT
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:0.51, C:0.21, G:0.06, T:0.23
Consensus pattern (25 bp):
ACAATAAACCTTAGAACAAATTCAC
Found at i:39451171 original size:47 final size:47
Alignment explanation
Indices: 39451073--39451171 Score: 110
Period size: 47 Copynumber: 2.1 Consensus size: 47
39451063 CAAATCAATG
* * **
39451073 GTGGCTTGTCCACAAAGTGTTTCAATGGCAGTATATCTACATATTTG
1 GTGGTTTGTCCACAAAGTGTTTCAATGGCAGTATATCTACATAATAA
* * * *
39451120 GTGGTTTGTCCACAAAGTGTTATCAGTGTCAGTTTATCTGCA-AATAA
1 GTGGTTTGTCCACAAAGTGTT-TCAATGGCAGTATATCTACATAATAA
39451167 GTGGT
1 GTGGT
39451172 GGCTTGTCCA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
47 27 0.63
48 16 0.37
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.36
Consensus pattern (47 bp):
GTGGTTTGTCCACAAAGTGTTTCAATGGCAGTATATCTACATAATAA
Found at i:39454669 original size:23 final size:23
Alignment explanation
Indices: 39454643--39454695 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
39454633 AGTGTTATTG
*
39454643 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCAGCTACAT
*
39454666 ATCAGTGGTAGCTTTAGCTACAT
1 ATCAGTGGTAGCTTCAGCTACAT
39454689 ATCAGTG
1 ATCAGTG
39454696 TGGCACTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCAGCTACAT
Found at i:39459631 original size:26 final size:26
Alignment explanation
Indices: 39459552--39459632 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
39459542 GATGGTCACG
39459552 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
** *
39459578 CATGTA-T-CGGATAGTG-ATGG-TCAC-A
1 TGTGTAGTAC-TAT-GTGCA-GGCT-ACTA
39459603 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
39459629 TGTG
1 TGTG
39459633 AACCAGTATC
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
24 1 0.03
25 17 0.43
26 21 0.52
27 1 0.03
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:39459877 original size:16 final size:16
Alignment explanation
Indices: 39459856--39459887 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
39459846 TGATTGAAAG
*
39459856 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
39459872 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
39459888 GCAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:39463528 original size:20 final size:20
Alignment explanation
Indices: 39463503--39463546 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
39463493 TGGGTAGGAC
39463503 AACAATAATGCATTAAGACT
1 AACAATAATGCATTAAGACT
39463523 AACAATAATGCATTAAGACT
1 AACAATAATGCATTAAGACT
39463543 AACA
1 AACA
39463547 TGTAGTTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.52, C:0.16, G:0.09, T:0.23
Consensus pattern (20 bp):
AACAATAATGCATTAAGACT
Found at i:39469582 original size:29 final size:29
Alignment explanation
Indices: 39469142--39469571 Score: 531
Period size: 29 Copynumber: 14.8 Consensus size: 29
39469132 ATATCTATGC
*
39469142 CCATCGAATATGAAAAGGGATGGTGACAA
1 CCATCGAATATGAAAAGGGATGGTGACGA
* *
39469171 CCATCAAATATTG-AAAGGGATGGTGATGA
1 CCATCGAATA-TGAAAAGGGATGGTGACGA
* **
39469200 CCATCGAATATGAAAAGGGATAGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTGACGA
**
39469229 CCATCGAATATGAAAAGGGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTGACGA
* ***
39469258 CCATCAAATATGAAAAGGGATGGTTTTGA
1 CCATCGAATATGAAAAGGGATGGTGACGA
* *
39469287 CCATCGAATACGAAAAGGGATGGTGACAA
1 CCATCGAATATGAAAAGGGATGGTGACGA
*
39469316 CCATCGAATATGAAAAGGGATGGTGACAA
1 CCATCGAATATGAAAAGGGATGGTGACGA
* * *
39469345 ACACCGAATATGAAAAGGGATGGTGATGA
1 CCATCGAATATGAAAAGGGATGGTGACGA
** *
39469374 CCATCGAATATGAAAAGGGATAATTTA-GA
1 CCATCGAATATGAAAAGGGAT-GGTGACGA
* **
39469403 CCATCGAACATGAAAAGGGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTGACGA
**
39469432 CCATCGAATATGAAAAAAGATGGTGACGA
1 CCATCGAATATGAAAAGGGATGGTGACGA
* *
39469461 CCATCAAATATGGAAAGGGATGGTGACGA
1 CCATCGAATATGAAAAGGGATGGTGACGA
* **
39469490 CCATCGAATATGAGAAGGGATGGTGATAA
1 CCATCGAATATGAAAAGGGATGGTGACGA
* *
39469519 CCATCGAATATGAAAAGGGATAGTGACCA
1 CCATCGAATATGAAAAGGGATGGTGACGA
39469548 CCATCGAATATGAAAAGGGATGGT
1 CCATCGAATATGAAAAGGGATGGT
39469572 TTTGACCATC
Statistics
Matches: 347, Mismatches: 50, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
28 4 0.01
29 339 0.98
30 4 0.01
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (29 bp):
CCATCGAATATGAAAAGGGATGGTGACGA
Found at i:39470186 original size:23 final size:23
Alignment explanation
Indices: 39470142--39470193 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
39470132 TGGTTAGTGA
* *
39470142 TGGTATGTTTTGAATGGCTCTTT
1 TGGTATGTCTTGAATGGATCTTT
39470165 TGGTATG-CTTGAATGTGATC--T
1 TGGTATGTCTTGAATG-GATCTTT
39470186 TGGTATGT
1 TGGTATGT
39470194 GGCCATTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
21 8 0.32
22 7 0.28
23 10 0.40
ACGTcount: A:0.15, C:0.08, G:0.29, T:0.48
Consensus pattern (23 bp):
TGGTATGTCTTGAATGGATCTTT
Found at i:39479725 original size:29 final size:29
Alignment explanation
Indices: 39479683--39479743 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
39479673 GTACCAAAAG
* *
39479683 AGCCGATGGATAGTGTGATTACATATATA
1 AGCCAATGGATAGTGTGATTACATATACA
39479712 AGCCAATGGATAGTGTGATTACATATACA
1 AGCCAATGGATAGTGTGATTACATATACA
39479741 AGC
1 AGC
39479744 ATATCCCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (29 bp):
AGCCAATGGATAGTGTGATTACATATACA
Found at i:39480360 original size:25 final size:25
Alignment explanation
Indices: 39480332--39480402 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
39480322 TGCTTATACA
* *
39480332 AGCTATGAATTGGTATGCTCACTCG
1 AGCTATAAATTGGTATGCTCACACG
*
39480357 AGCTA-AAGATTGGTATGCTCTCACG
1 AGCTATAA-ATTGGTATGCTCACACG
* *
39480382 AGCTATAAATCGGTATACTCA
1 AGCTATAAATTGGTATGCTCA
39480403 TACGGGTTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
24 1 0.03
25 35 0.92
26 2 0.05
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (25 bp):
AGCTATAAATTGGTATGCTCACACG
Found at i:39481874 original size:270 final size:270
Alignment explanation
Indices: 39481388--39482197 Score: 1225
Period size: 270 Copynumber: 3.0 Consensus size: 270
39481378 ATTAATTTAC
* * *
39481388 TTTTATAACCTTTTAAAATATTACAAATTTCAATATTATCAAG-CATCATATTTCACTATCAACA
1 TTTTATAACCTTTTAAAATATTACAAATTTCAATATTACCAAGCCATCATATTCCACTATCACCA
* * * * *
39481452 TTAGCGATCTTATTACCATATAAGGACTATTACTTTAAGGTTCTATAGTTATTTAATACCTTGAG
66 TTAGTGATCTAATTACCACATAAGGACTCTTACTTTAAGGTTCTATAGTTATTTAATACCTTTAG
* * * *
39481517 CTACTACAACTCTACTTTTGCACTTTACGTGATTTAGTCCTTTGTACCAAATTGAGCATGTAAAC
131 CTACTAGAACTCAACTTTTGCACTTTACGTGATTTAGTCCTTTTTATCAAATTGAGCATGTAAAC
* * *
39481582 GGTAAAATTTCTTTAGGAAAATTTAATACGGTATTACTATCATGTTGTAGGCAATAAAATAATAA
196 GGTAAAATTTCTTAACGAAAATTTTATACGGTATTACTATCATGTTGTAGGCAATAAAATAATAA
39481647 TAAAATAAAT
261 TAAAATAAAT
*
39481657 TTTTATAACCTTTTAAAATATTACAAATTTCAATATTACCAAGCCGTCATATTCCACTATCACCA
1 TTTTATAACCTTTTAAAATATTACAAATTTCAATATTACCAAGCCATCATATTCCACTATCACCA
* * * * *
39481722 TTAGTGTTCTAATTACCACAGAAGGACTCTTACTTTAAGGATCTATAATTATTTAATATCTTTAG
66 TTAGTGATCTAATTACCACATAAGGACTCTTACTTTAAGGTTCTATAGTTATTTAATACCTTTAG
* *
39481787 CTACTAGAACTCAACTTTTGCACTTTACGTGATATAGTCTTTTTTATCAAATTGAGCATGTAAAC
131 CTACTAGAACTCAACTTTTGCACTTTACGTGATTTAGTCCTTTTTATCAAATTGAGCATGTAAAC
* * *
39481852 GGTAAAATTTCTTAACGAAAATTTTATACGATATTACTATCATGTTGTAGGTAATAAAATAACAA
196 GGTAAAATTTCTTAACGAAAATTTTATACGGTATTACTATCATGTTGTAGGCAATAAAATAATAA
*
39481917 TAAAATAATT
261 TAAAATAAAT
* *
39481927 TTTTATAACCTTTTAAAATATT-CAATTTTCAATATTACCAAGCCATCATATTCCACTATCACAA
1 TTTTATAACCTTTTAAAATATTACAAATTTCAATATTACCAAGCCATCATATTCCACTATCACCA
*
39481991 TTAGTGGTCTAATTACCACATAAGGACTCTTACTTTAAGGTTCTATAGTTATTTAATACCTTTAG
66 TTAGTGATCTAATTACCACATAAGGACTCTTACTTTAAGGTTCTATAGTTATTTAATACCTTTAG
*
39482056 CTACTAGAACTCAACTTTTGCAC-TTACGTGATTTAGTCCTTTTTAGT-AAATTGAACATGTAAA
131 CTACTAGAACTCAACTTTTGCACTTTACGTGATTTAGTCCTTTTTA-TCAAATTGAGCATGTAAA
* * * * ** * *
39482119 CGGTAAAATTT-TTAACAAAAATTTTATATGGTATGACTATCATGTTGTTGGCAATAACGTAGTG
195 CGGTAAAATTTCTTAACGAAAATTTTATACGGTATTACTATCATGTTGTAGGCAATAAAATAATA
39482183 ATAAAATAAAT
260 ATAAAATAAAT
39482194 TTTT
1 TTTT
39482198 TGACCTTAGA
Statistics
Matches: 489, Mismatches: 50, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
267 56 0.11
268 46 0.09
269 165 0.34
270 222 0.45
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (270 bp):
TTTTATAACCTTTTAAAATATTACAAATTTCAATATTACCAAGCCATCATATTCCACTATCACCA
TTAGTGATCTAATTACCACATAAGGACTCTTACTTTAAGGTTCTATAGTTATTTAATACCTTTAG
CTACTAGAACTCAACTTTTGCACTTTACGTGATTTAGTCCTTTTTATCAAATTGAGCATGTAAAC
GGTAAAATTTCTTAACGAAAATTTTATACGGTATTACTATCATGTTGTAGGCAATAAAATAATAA
TAAAATAAAT
Found at i:39491703 original size:28 final size:28
Alignment explanation
Indices: 39491671--39491726 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
39491661 ACTGGTGACA
39491671 GATATCAGATAAATCAAATCTCAATCTT
1 GATATCAGATAAATCAAATCTCAATCTT
*
39491699 GATATCAGATAAATCAGATCTCAATCTT
1 GATATCAGATAAATCAAATCTCAATCTT
39491727 TCACAGCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (28 bp):
GATATCAGATAAATCAAATCTCAATCTT
Found at i:39498037 original size:20 final size:21
Alignment explanation
Indices: 39498012--39498050 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
39498002 TTAGCTTTAA
39498012 TTTTGC-TGACCATTCAGCAT
1 TTTTGCTTGACCATTCAGCAT
*
39498032 TTTTGCTTGTCCATTCAGC
1 TTTTGCTTGACCATTCAGC
39498051 TAGTCAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.26, G:0.15, T:0.44
Consensus pattern (21 bp):
TTTTGCTTGACCATTCAGCAT
Found at i:39502860 original size:20 final size:20
Alignment explanation
Indices: 39502837--39502932 Score: 84
Period size: 20 Copynumber: 4.8 Consensus size: 20
39502827 TCTTCAATTT
*
39502837 TGGTGGCTTGTCCATAATAC
1 TGGTGGCTTGTCCACAATAC
* * *
39502857 TGGTAGCTTGTCTACATTAC
1 TGGTGGCTTGTCCACAATAC
* * *
39502877 TGGTGGCCTGTCCACATTAT
1 TGGTGGCTTGTCCACAATAC
* * * *
39502897 TGTTAGCTCGTCTACAATAC
1 TGGTGGCTTGTCCACAATAC
*
39502917 TAGTGGCTTGTCCACA
1 TGGTGGCTTGTCCACA
39502933 TTTCTGGAAA
Statistics
Matches: 56, Mismatches: 20, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (20 bp):
TGGTGGCTTGTCCACAATAC
Found at i:39502933 original size:40 final size:40
Alignment explanation
Indices: 39502839--39502939 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 40
39502829 TTCAATTTTG
* * * * *
39502839 GTGGCTTGTCCATAATACTGGTAGCTTGTCTACATTACTG
1 GTGGCTTGTCCACATTACTGGTAGCTCGTCTACAATACTA
* * *
39502879 GTGGCCTGTCCACATTATTGTTAGCTCGTCTACAATACTA
1 GTGGCTTGTCCACATTACTGGTAGCTCGTCTACAATACTA
*
39502919 GTGGCTTGTCCACATTTCTGG
1 GTGGCTTGTCCACATTACTGG
39502940 AAATTTATCT
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.37
Consensus pattern (40 bp):
GTGGCTTGTCCACATTACTGGTAGCTCGTCTACAATACTA
Found at i:39506200 original size:36 final size:36
Alignment explanation
Indices: 39506154--39506224 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
39506144 ATAAACACTT
* *
39506154 TCACAAGGCATGAATAACATACCCACATATTTACTA
1 TCACAAGGCATGAACAACACACCCACATATTTACTA
* *
39506190 TCACATGGCATGAACAACACACCCTCATATTTACT
1 TCACAAGGCATGAACAACACACCCACATATTTACT
39506225 TTCAAATCAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.38, C:0.28, G:0.08, T:0.25
Consensus pattern (36 bp):
TCACAAGGCATGAACAACACACCCACATATTTACTA
Found at i:39506748 original size:335 final size:335
Alignment explanation
Indices: 39506135--39508137 Score: 3533
Period size: 335 Copynumber: 6.0 Consensus size: 335
39506125 TTCACCTCAT
39506135 TAGCACATTATAAACACTTTCACAAGGCATGAATAACATACCCACATATTTACTATCACATGGCA
1 TAGCACATTATAAACACTTTCACAAGGCATGAATAACATACCCACATATTTACTATCACATGGCA
* * *
39506200 TGAACAACACACCCTCATATTTACTTTCAAATCAGTCATCATAAGATTATAACATATGTCATAGC
66 TGGACAACACACCCTCATATTCACTTTCAAATCAGTCATCATAAGCTTATAACATATGTCATAGC
* * *
39506265 ATCTCATATATGTTAATAATTTCACAACTTCATAATTTCATAAGCATACATATATCACATTTAAT
131 ATCTCATATATGTTCATAATTTCACAATTTCATAATTTCACAAGCATACATATATCACATTTAAT
* * *
39506330 CATAGGCGTGACAACACTTACTCTCAAAATTTAGAGTAGGATTTTAAGCTACCGCTAAAAATTCC
196 CATAGGCGTGACAACACTTACTCTCAAAATTTAGAGTAGGAGTTTAAGCTGCCTCTAAAAATTCC
* *
39506395 CAATACACAATAAATCATCTACAAGTAGTGATTCCAAAACACTCACTAGAAATACACTTTCGCCA
261 CAATACACAATGAATCATCTACAAGTAGTGATTCCAAAACACTCACCAGAAATACACTTTCGCCA
*
39506460 AAATTTAAAG
326 AAATTTAGAG
*
39506470 TAGCACATTATAAACACTTTCACAAGGCATAAATAACATACCCACATATTTACTATCACATGGCA
1 TAGCACATTATAAACACTTTCACAAGGCATGAATAACATACCCACATATTTACTATCACATGGCA
*
39506535 TGGACAACACACCCTCATATTCACTTTCAAATCAGTCATCATTAGCTTATAACATATGTCATAGC
66 TGGACAACACACCCTCATATTCACTTTCAAATCAGTCATCATAAGCTTATAACATATGTCATAGC
* *
39506600 ATCTCATATATGTTCACAATTTCATAATTTCATAATTTCACAAGCATACATATATCACATTTAAT
131 ATCTCATATATGTTCATAATTTCACAATTTCATAATTTCACAAGCATACATATATCACATTTAAT
*
39506665 CATAGGCGTGACAACACTTACTCTCGAAATTTAGAGTAGGAGTTTAAGCTGCCTCTAAAAATTCC
196 CATAGGCGTGACAACACTTACTCTCAAAATTTAGAGTAGGAGTTTAAGCTGCCTCTAAAAATTCC
*
39506730 CAATACACAATGAATCATCTACAAGTAGTGATTCCAAAACACTCACCAAAAATACACTTTCGCCA
261 CAATACACAATGAATCATCTACAAGTAGTGATTCCAAAACACTCACCAGAAATACACTTTCGCCA
39506795 AAATTTAGAG
326 AAATTTAGAG
*
39506805 TAGCACATTATAAACACTTTCACAAGGCATGAATAACATACCAACATATTTACTATCACATGGCA
1 TAGCACATTATAAACACTTTCACAAGGCATGAATAACATACCCACATATTTACTATCACATGGCA
* *
39506870 TGGACAACACACCCTCATATTCACTTTCAAATCAGTCATCATAAGGTTATAAAATATGTCATAGC
66 TGGACAACACACCCTCATATTCACTTTCAAATCAGTCATCATAAGCTTATAACATATGTCATAGC
39506935 ATCTCATATATGTTCATAATTTCACAATTTCATAATTTCACAAGCATACATATATCACATTTAAT
131 ATCTCATATATGTTCATAATTTCACAATTTCATAATTTCACAAGCATACATATATCACATTTAAT
* *
39507000 CATAGGGGTGACAACACTTACTCTCAAAATTTAGAGTAGGAGTTTAAGCTTCCTCTAAAAATTCC
196 CATAGGCGTGACAACACTTACTCTCAAAATTTAGAGTAGGAGTTTAAGCTGCCTCTAAAAATTCC
* * *
39507065 CAATACACAATGAATCATGTACAAGTAATGATTCCAAAACACTCACCAGAAATACACTTTCGCCT
261 CAATACACAATGAATCATCTACAAGTAGTGATTCCAAAACACTCACCAGAAATACACTTTCGCCA
39507130 AAATTTAGAG
326 AAATTTAGAG
*
39507140 TAGCACATTATAAACACTTCCACAAGGCATGAATAACATACCCACATATTTACTATCACATGGCA
1 TAGCACATTATAAACACTTTCACAAGGCATGAATAACATACCCACATATTTACTATCACATGGCA
* * *
39507205 TGGGA-AACACTCCCTCATATTCACTTTCAAACCAGTCATTATAAGCTTATAACATATGTCATAG
66 T-GGACAACACACCCTCATATTCACTTTCAAATCAGTCATCATAAGCTTATAACATATGTCATAG
*
39507269 CATCTCATATATGTTCATAATTTCACAATTTCATAATTTCACAAGCATACATATATCACACTTAA
130 CATCTCATATATGTTCATAATTTCACAATTTCATAATTTCACAAGCATACATATATCACATTTAA
*
39507334 TCATAGGCGTGACAACACTTACTCTCAAAATTTAGAGTAGGAGTTTAAGCTACCTCTAAAAATTC
195 TCATAGGCGTGACAACACTTACTCTCAAAATTTAGAGTAGGAGTTTAAGCTGCCTCTAAAAATTC
*
39507399 CCAATACACAATGAATCATCTACAAGTAGTGATTCCAAAACACTCACCAGAAATACAGTTTCGCC
260 CCAATACACAATGAATCATCTACAAGTAGTGATTCCAAAACACTCACCAGAAATACACTTTCGCC
*
39507464 TAAATTTAGAG
325 AAAATTTAGAG
39507475 TAGCACATTATAAACACTTTCACAAGGCATGAATAACATACCCACATATTTACTATCACATGGCA
1 TAGCACATTATAAACACTTTCACAAGGCATGAATAACATACCCACATATTTACTATCACATGGCA
* *
39507540 TGGGA-AACACACCCTCATATTCACTTTCAAACCAGTCATTATAAGCTTATAACATATGTCATAG
66 T-GGACAACACACCCTCATATTCACTTTCAAATCAGTCATCATAAGCTTATAACATATGTCATAG
* *
39507604 CATCTCATATATGTTCATAATTTCACTATTTCATAATTTCACAAGCATACATATATCACACTTAA
130 CATCTCATATATGTTCATAATTTCACAATTTCATAATTTCACAAGCATACATATATCACATTTAA
39507669 TCATAGGCGTGACAACACTTACTCTCAAAATTTAGAGTAGGAGTTTAAGCTGCCTCTAAAAATTC
195 TCATAGGCGTGACAACACTTACTCTCAAAATTTAGAGTAGGAGTTTAAGCTGCCTCTAAAAATTC
* * *
39507734 CCAATACACAATGAATCATCTACATGTAGTGATTCCAAAACACGCACTAGAAATACACTTTCGCC
260 CCAATACACAATGAATCATCTACAAGTAGTGATTCCAAAACACTCACCAGAAATACACTTTCGCC
39507799 AAAATTTAGAG
325 AAAATTTAGAG
39507810 TAGCACATTATAAACACTTTCACAAGGCATGAATAACATACCCACATATTTACTATCACATGGCA
1 TAGCACATTATAAACACTTTCACAAGGCATGAATAACATACCCACATATTTACTATCACATGGCA
*
39507875 TGGACAACACACCCTCATATTCACTTTCAAATCAGTCATCATCAGCTTATAACATATGTCATAGC
66 TGGACAACACACCCTCATATTCACTTTCAAATCAGTCATCATAAGCTTATAACATATGTCATAGC
* * * *
39507940 ATCTCATATATGTTCACAATTTCATAATTTCATAATTTCGCAAGCATACATATATTACATTTAAT
131 ATCTCATATATGTTCATAATTTCACAATTTCATAATTTCACAAGCATACATATATCACATTTAAT
**
39508005 CATAGGCGTGACAACACTTACTCTTGAAATTTAGAGTAGGAGTTTAAGCTGCCTCTAAAAATTCC
196 CATAGGCGTGACAACACTTACTCTCAAAATTTAGAGTAGGAGTTTAAGCTGCCTCTAAAAATTCC
*
39508070 CAATACACAATGAATCATCTACAAGTAGTGATTCCAAAACACTCACCAGAAATACACTTTTGCCA
261 CAATACACAATGAATCATCTACAAGTAGTGATTCCAAAACACTCACCAGAAATACACTTTCGCCA
39508135 AAA
326 AAA
39508138 ATCTGAAAGC
Statistics
Matches: 1597, Mismatches: 69, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
334 3 0.00
335 1591 1.00
336 3 0.00
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.29
Consensus pattern (335 bp):
TAGCACATTATAAACACTTTCACAAGGCATGAATAACATACCCACATATTTACTATCACATGGCA
TGGACAACACACCCTCATATTCACTTTCAAATCAGTCATCATAAGCTTATAACATATGTCATAGC
ATCTCATATATGTTCATAATTTCACAATTTCATAATTTCACAAGCATACATATATCACATTTAAT
CATAGGCGTGACAACACTTACTCTCAAAATTTAGAGTAGGAGTTTAAGCTGCCTCTAAAAATTCC
CAATACACAATGAATCATCTACAAGTAGTGATTCCAAAACACTCACCAGAAATACACTTTCGCCA
AAATTTAGAG
Found at i:39506968 original size:16 final size:16
Alignment explanation
Indices: 39506947--39506977 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
39506937 CTCATATATG
39506947 TTCATAATTTCACAAT
1 TTCATAATTTCACAAT
39506963 TTCATAATTTCACAA
1 TTCATAATTTCACAA
39506978 GCATACATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (16 bp):
TTCATAATTTCACAAT
Found at i:39507303 original size:16 final size:16
Alignment explanation
Indices: 39507282--39507312 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
39507272 CTCATATATG
39507282 TTCATAATTTCACAAT
1 TTCATAATTTCACAAT
39507298 TTCATAATTTCACAA
1 TTCATAATTTCACAA
39507313 GCATACATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (16 bp):
TTCATAATTTCACAAT
Found at i:39509567 original size:27 final size:25
Alignment explanation
Indices: 39509518--39509573 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 25
39509508 AAATTTATAT
*
39509518 TTAATAAATAATTTTTAATAATTCA
1 TTAATAAATAATTTTTAATAATTAA
*
39509543 TTAATAAATTAGTTTTTAATTAATTAA
1 TTAATAAA-TAATTTTTAA-TAATTAA
39509570 TTAA
1 TTAA
39509574 ATTGATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 8 0.30
26 9 0.33
27 10 0.37
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (25 bp):
TTAATAAATAATTTTTAATAATTAA
Found at i:39510015 original size:19 final size:19
Alignment explanation
Indices: 39509993--39510030 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
39509983 TCAATCATCC
39509993 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
39510012 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
39510031 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:39526491 original size:19 final size:19
Alignment explanation
Indices: 39526469--39526506 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
39526459 TCAATCATCC
39526469 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
39526488 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
39526507 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:39528335 original size:15 final size:16
Alignment explanation
Indices: 39528294--39528338 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
39528284 ATTATCTTAA
39528294 ATTATGAATATGTGTGT
1 ATTATG-ATATGTGTGT
* *
39528311 ATTGTGATATGTGTTT
1 ATTATGATATGTGTGT
39528327 A-TATGATATGTG
1 ATTATGATATGTG
39528339 ACAATATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 10 0.40
16 10 0.40
17 5 0.20
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (16 bp):
ATTATGATATGTGTGT
Found at i:39528427 original size:39 final size:39
Alignment explanation
Indices: 39528373--39528529 Score: 172
Period size: 39 Copynumber: 3.9 Consensus size: 39
39528363 AACATGTTTT
*
39528373 TTAGTATTGTGATATATGCTTGAATGCTAAGTGATTATA
1 TTAGTATTGTGATATATGCTTGAATGTTAAGTGATTATA
* * *
39528412 TTAGTATTATGATATATGTTTGAATGTTACGTGATTATA
1 TTAGTATTGTGATATATGCTTGAATGTTAAGTGATTATA
* * * *
39528451 TAAGAATTGTGATATATGCTTAAATGTTATGTGATTATA
1 TTAGTATTGTGATATATGCTTGAATGTTAAGTGATTATA
* * *
39528490 TGT-GTAATGTGATATATATGCTTAAAAGTTAATGTGATTA
1 T-TAGTATTGTG--ATATATGCTTGAATGTTAA-GTGATTA
39528530 CCATGTAAAT
Statistics
Matches: 99, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
39 75 0.76
41 17 0.17
42 7 0.07
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (39 bp):
TTAGTATTGTGATATATGCTTGAATGTTAAGTGATTATA
Found at i:39531403 original size:22 final size:24
Alignment explanation
Indices: 39531373--39531419 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
39531363 GAAAACAAAA
*
39531373 TAATTTTATTTA-TTAC-TTCGTT
1 TAATGTTATTTATTTACTTTCGTT
39531395 TAATGTTATTTATTTACTTTCGTT
1 TAATGTTATTTATTTACTTTCGTT
39531419 T
1 T
39531420 TTTTTCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.50
23 4 0.18
24 7 0.32
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.64
Consensus pattern (24 bp):
TAATGTTATTTATTTACTTTCGTT
Found at i:39534044 original size:50 final size:50
Alignment explanation
Indices: 39533990--39534125 Score: 141
Period size: 50 Copynumber: 2.7 Consensus size: 50
39533980 GCAGTGGAAC
*
39533990 AGATTGAAGCTACGATGGCGAATCTCGCTTCCCCGACA-T-TGAAGTCAAAT
1 AGATTGAAGCTACGACGGCGAATCTCGCTTCCCCGACAGTAT-AA-TCAAAT
* * ** * * **
39534040 AGATTGAAGCTACAACAGCGAATCTCATTTCCCTGGCAGTATAATGGAAT
1 AGATTGAAGCTACGACGGCGAATCTCGCTTCCCCGACAGTATAATCAAAT
* *
39534090 AGATTGAAGCTACGACGGTGAATCTTGCTTCCCCGA
1 AGATTGAAGCTACGACGGCGAATCTCGCTTCCCCGA
39534126 TAATGCAATT
Statistics
Matches: 67, Mismatches: 17, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
50 63 0.94
51 3 0.04
52 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCTACGACGGCGAATCTCGCTTCCCCGACAGTATAATCAAAT
Found at i:39534188 original size:100 final size:102
Alignment explanation
Indices: 39533979--39534235 Score: 292
Period size: 100 Copynumber: 2.6 Consensus size: 102
39533969 TCCCTAGTGG
* * *
39533979 TGCAGTGGAACAGATTGAAGCTACGATGGCGAATCTCGCTTCCCCGACATTG-AAGTCAAATAGA
1 TGCAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGCAA-TCAAATAGA
* * *
39534043 TTGAAGCTACAACAGCGAATCTCATTTCCCTGGCAGTA
65 TTGAAGCCACAACAGCGAATCTCACTTCCCAGGCAGTA
* * * * *
39534081 T--AATGGAATAGATTGAAGCTACGACGGTGAATCTTGCTTCCCCGATAATGCAATTAAA-AGAT
1 TGCAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGCAATCAAATAGAT
* * * *
39534143 TGAGGCCACAACGGCGAATCTTACCTTCTCAGGC-G-A
66 TGAAGCCACAACAGCGAATCTCA-CTTCCCAGGCAGTA
* * *
39534179 TGCAGTGGAATAGATTGAAGCTACAACGGCAAATCTTCCTTCCCCGACATTGCAATC
1 TGCAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGCAATC
39534236 TCATTTCCCT
Statistics
Matches: 128, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
98 2 0.02
99 24 0.19
100 99 0.77
101 2 0.02
102 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (102 bp):
TGCAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGCAATCAAATAGAT
TGAAGCCACAACAGCGAATCTCACTTCCCAGGCAGTA
Found at i:39534268 original size:172 final size:172
Alignment explanation
Indices: 39534060--39534406 Score: 398
Period size: 172 Copynumber: 2.0 Consensus size: 172
39534050 TACAACAGCG
* * * * *
39534060 AATCTCATTTCCCTGGCAGTATAATGGAATAGATTGAAGCTACGACGGTGAATCTTGCTTCCCCG
1 AATCTCATTTCCCTAGCAGTACAATGGAACAGATTGAAGCTACGACGGCGAATCTCGCTTCCCCG
* * * * * *
39534125 ATAATGCAA-TTAAA-AGATTGAGGCCACAACGGCGAATCTTACCTTCTC-AGGC-G-ATGCAGT
66 ACAATG-AAGTCAAATAGATTGAAGCCACAACAGCGAATCTCA-CTTCCCTA-GCAGTAT--AGT
39534185 GGAATAGATTGAAGCTACAACGGCAAATCTTCCTTCCCCGACATTGC
126 GGAATAGATTGAAGCTACAACGGCAAATCTTCCTTCCCCGACATTGC
* * * *
39534232 AATCTCATTTCCCTAGTAGTGCAGTGGAACAGATTGAAGCTACGATGGCGAATCTCGCTTCCCCG
1 AATCTCATTTCCCTAGCAGTACAATGGAACAGATTGAAGCTACGACGGCGAATCTCGCTTCCCCG
* * * *
39534297 ACATTGAAGTCAAATAGATTGAAGCTACAATAGCGAATCTCATTTCCCTAGCAGTATAGTGGAAT
66 ACAATGAAGTCAAATAGATTGAAGCCACAACAGCGAATCTCACTTCCCTAGCAGTATAGTGGAAT
* ** **
39534362 AGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTGC
131 AGATTGAAGCTACAACGGCAAATCTTCCTTCCCCGACATTGC
39534404 AAT
1 AAT
39534407 TAAAAGATTG
Statistics
Matches: 146, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
171 2 0.01
172 118 0.81
173 24 0.16
174 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (172 bp):
AATCTCATTTCCCTAGCAGTACAATGGAACAGATTGAAGCTACGACGGCGAATCTCGCTTCCCCG
ACAATGAAGTCAAATAGATTGAAGCCACAACAGCGAATCTCACTTCCCTAGCAGTATAGTGGAAT
AGATTGAAGCTACAACGGCAAATCTTCCTTCCCCGACATTGC
Found at i:39534316 original size:50 final size:50
Alignment explanation
Indices: 39534262--39534502 Score: 161
Period size: 50 Copynumber: 4.8 Consensus size: 50
39534252 GCAGTGGAAC
* *
39534262 AGATTGAAGCTACGATGGCGAATCTCGCTTCCCCGACATTGAAGTCAAAT
1 AGATTGAAGCTACGACGGCGAATCTCGCTTCCCCGACATTGAAGTGAAAT
* ** * * * * *
39534312 AGATTGAAGCTACAATAGCGAATCTC-ATTTCCCTAGCAGT-ATAGTGGAAT
1 AGATTGAAGCTACGACGGCGAATCTCGCTTCCCCGA-CATTGA-AGTGAAAT
* * * *
39534362 AGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTGCAA-TTAAA-
1 AGATTGAAGCTACGACGGCGAATCTCGCTTCCCCGACATTG-AAGTGAAAT
* * * * * * * *
39534411 AGATTGAGGCCACAACGGCGAATCTTAC-CTTCTCAGGCGA-TGCAGTGGAAT
1 AGATTGAAGCTACGACGGCGAATC-T-CGCTTCCCCGAC-ATTGAAGTGAAAT
* * *
39534462 AGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTG
1 AGATTGAAGCTACGACGGCGAATCTCGCTTCCCCGACATTG
39534503 CAATCTCATT
Statistics
Matches: 139, Mismatches: 40, Indels: 24
0.68 0.20 0.12
Matches are distributed among these distances:
49 29 0.21
50 81 0.58
51 28 0.20
52 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCTACGACGGCGAATCTCGCTTCCCCGACATTGAAGTGAAAT
Found at i:39534343 original size:272 final size:272
Alignment explanation
Indices: 39533856--39534879 Score: 1780
Period size: 272 Copynumber: 3.8 Consensus size: 272
39533846 AAACCATAGT
*
39533856 TTGCAATTAAAAGATTGAGGCCACAACGGCAAATCTTACCTTCTCAGGCGATGCAGTGGAATAGA
1 TTGCAATTAAAAGATTGAGGCCACAACGGCGAATCTTACCTTCTCAGGCGATGCAGTGGAATAGA
* *
39533921 TTGAAGCTACAACGGCAAATCTTCCTTCCCTGACATTCCAATCTCATTTCCCTAGTGGTGCAGTG
66 TTGAAGCTACAACGGCAAATCTTCCTTCCCCGACATTGCAATCTCATTTCCCTAGTGGTGCAGTG
39533986 GAACAGATTGAAGCTACGATGGCGAATCTCGCTTCCCCGACATTGAAGTCAAATAGATTGAAGCT
131 GAACAGATTGAAGCTACGATGGCGAATCTCGCTTCCCCGACATTGAAGTCAAATAGATTGAAGCT
*
39534051 ACAACAGCGAATCTCATTTCCCTGGCAGTATAATGGAATAGATTGAAGCTACGACGGTGAATCTT
196 ACAACAGCGAATCTCATTTCCCTGGCAGTATAGTGGAATAGATTGAAGCTACGACGGTGAATCTT
*
39534116 GCTTCCCCGATA
261 GCTTCCCCGACA
*
39534128 ATGCAATTAAAAGATTGAGGCCACAACGGCGAATCTTACCTTCTCAGGCGATGCAGTGGAATAGA
1 TTGCAATTAAAAGATTGAGGCCACAACGGCGAATCTTACCTTCTCAGGCGATGCAGTGGAATAGA
*
39534193 TTGAAGCTACAACGGCAAATCTTCCTTCCCCGACATTGCAATCTCATTTCCCTAGTAGTGCAGTG
66 TTGAAGCTACAACGGCAAATCTTCCTTCCCCGACATTGCAATCTCATTTCCCTAGTGGTGCAGTG
39534258 GAACAGATTGAAGCTACGATGGCGAATCTCGCTTCCCCGACATTGAAGTCAAATAGATTGAAGCT
131 GAACAGATTGAAGCTACGATGGCGAATCTCGCTTCCCCGACATTGAAGTCAAATAGATTGAAGCT
* *
39534323 ACAATAGCGAATCTCATTTCCCTAGCAGTATAGTGGAATAGATTGAAGCTACGACGGTGAATCTT
196 ACAACAGCGAATCTCATTTCCCTGGCAGTATAGTGGAATAGATTGAAGCTACGACGGTGAATCTT
*
39534388 GTTTCCCCGACA
261 GCTTCCCCGACA
39534400 TTGCAATTAAAAGATTGAGGCCACAACGGCGAATCTTACCTTCTCAGGCGATGCAGTGGAATAGA
1 TTGCAATTAAAAGATTGAGGCCACAACGGCGAATCTTACCTTCTCAGGCGATGCAGTGGAATAGA
* ** ** *
39534465 TTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTGCAATCTCATTTCCCTAGCGGTGCAGTG
66 TTGAAGCTACAACGGCAAATCTTCCTTCCCCGACATTGCAATCTCATTTCCCTAGTGGTGCAGTG
39534530 GAACAGATTGAAGCTACGATGGCGAATCTCGCTTCCCCGACATTGAAGTCAAATAGATTGAAGCT
131 GAACAGATTGAAGCTACGATGGCGAATCTCGCTTCCCCGACATTGAAGTCAAATAGATTGAAGCT
* * *
39534595 ACAACAACGAATCTCATTTCCCTGGCAGTACAGTGGAACAGATTGAAGCTACGACGGTGAATCTT
196 ACAACAGCGAATCTCATTTCCCTGGCAGTATAGTGGAATAGATTGAAGCTACGACGGTGAATCTT
39534660 GCTTCCCCGACA
261 GCTTCCCCGACA
* *
39534672 TTGCAATTAAAAGATTAAGGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGTGGAATAGA
1 TTGCAATTAAAAGATTGAGGCCACAACGGCGAATCTTACCTTCTCAGGCGATGCAGTGGAATAGA
* * * * *
39534737 TTGAAGCTACAACGGCGAATCTTCGTTCCCCGACATTACAATCTCATTTCCCTAGCGATGCAGTG
66 TTGAAGCTACAACGGCAAATCTTCCTTCCCCGACATTGCAATCTCATTTCCCTAGTGGTGCAGTG
** *
39534802 GAACAGATTGAAGCTACGATGGCGAATCTCGCTTCCCCGACATTGCGGT-TAATAGATTGAAGCT
131 GAACAGATTGAAGCTACGATGGCGAATCTCGCTTCCCCGACATTGAAGTCAAATAGATTGAAGCT
39534866 ACAACAGCGAATCT
196 ACAACAGCGAATCT
39534880 TACTTCCCCG
Statistics
Matches: 716, Mismatches: 36, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
271 27 0.04
272 689 0.96
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.25
Consensus pattern (272 bp):
TTGCAATTAAAAGATTGAGGCCACAACGGCGAATCTTACCTTCTCAGGCGATGCAGTGGAATAGA
TTGAAGCTACAACGGCAAATCTTCCTTCCCCGACATTGCAATCTCATTTCCCTAGTGGTGCAGTG
GAACAGATTGAAGCTACGATGGCGAATCTCGCTTCCCCGACATTGAAGTCAAATAGATTGAAGCT
ACAACAGCGAATCTCATTTCCCTGGCAGTATAGTGGAATAGATTGAAGCTACGACGGTGAATCTT
GCTTCCCCGACA
Found at i:39534458 original size:100 final size:102
Alignment explanation
Indices: 39534232--39534507 Score: 327
Period size: 100 Copynumber: 2.8 Consensus size: 102
39534222 CCGACATTGC
* * * * * * *
39534232 AATCTCATTTCCCTAGTAG--TGCAGTGGAACAGATTGAAGCTACGATGGCGAATCTCGCTTCCC
1 AATCTCACTTCCCTAGCAGTATGCAGTGGAATAGATTGAAGCTACGACGGTGAATCTTGTTTCCC
* *
39534295 CGACATTG-AAGTCAAATAGATTGAAGCTACAATAGCG
66 CGACATTGCAA-TCAAATAGATTGAAGCCACAACAGCG
*
39534332 AATCTCATTTCCCTAGCAGTAT--AGTGGAATAGATTGAAGCTACGACGGTGAATCTTGTTTCCC
1 AATCTCACTTCCCTAGCAGTATGCAGTGGAATAGATTGAAGCTACGACGGTGAATCTTGTTTCCC
* * *
39534395 CGACATTGCAATTAAA-AGATTGAGGCCACAACGGCG
66 CGACATTGCAATCAAATAGATTGAAGCCACAACAGCG
* *
39534431 AATCTTACCTTCTC-AGGC-G-ATGCAGTGGAATAGATTGAAGCTACGACGGTGAATCTTGTTTC
1 AATCTCA-CTTCCCTA-GCAGTATGCAGTGGAATAGATTGAAGCTACGACGGTGAATCTTGTTTC
39534493 CCCGACATTGCAATC
64 CCCGACATTGCAATC
39534508 TCATTTCCCT
Statistics
Matches: 154, Mismatches: 15, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
98 2 0.01
99 24 0.16
100 125 0.81
101 2 0.01
102 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (102 bp):
AATCTCACTTCCCTAGCAGTATGCAGTGGAATAGATTGAAGCTACGACGGTGAATCTTGTTTCCC
CGACATTGCAATCAAATAGATTGAAGCCACAACAGCG
Found at i:39534510 original size:172 final size:172
Alignment explanation
Indices: 39534332--39534678 Score: 466
Period size: 172 Copynumber: 2.0 Consensus size: 172
39534322 TACAATAGCG
* * * * *
39534332 AATCTCATTTCCCTAGCAGTATAGTGGAATAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCG
1 AATCTCATTTCCCTAGCAGTACAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGCTTCCCCG
* * ** * * *
39534397 ACATTGCAA-TTAAA-AGATTGAGGCCACAACGGCGAATCTTACCTTCTCAGGC-GATGCAGTGG
66 ACATTG-AAGTCAAATAGATTGAAGCCACAACAACGAATCTCA-CTTCCCAGGCAG-TACAGTGG
* *
39534459 AATAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTGC
128 AACAGATTGAAGCTACGACGGTGAATCTTGCTTCCCCGACATTGC
* * *
39534504 AATCTCATTTCCCTAGCGGTGCAGTGGAACAGATTGAAGCTACGATGGCGAATCTCGCTTCCCCG
1 AATCTCATTTCCCTAGCAGTACAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGCTTCCCCG
* * *
39534569 ACATTGAAGTCAAATAGATTGAAGCTACAACAACGAATCTCATTTCCCTGGCAGTACAGTGGAAC
66 ACATTGAAGTCAAATAGATTGAAGCCACAACAACGAATCTCACTTCCCAGGCAGTACAGTGGAAC
39534634 AGATTGAAGCTACGACGGTGAATCTTGCTTCCCCGACATTGC
131 AGATTGAAGCTACGACGGTGAATCTTGCTTCCCCGACATTGC
39534676 AAT
1 AAT
39534679 TAAAAGATTA
Statistics
Matches: 152, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
171 2 0.01
172 127 0.84
173 23 0.15
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (172 bp):
AATCTCATTTCCCTAGCAGTACAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGCTTCCCCG
ACATTGAAGTCAAATAGATTGAAGCCACAACAACGAATCTCACTTCCCAGGCAGTACAGTGGAAC
AGATTGAAGCTACGACGGTGAATCTTGCTTCCCCGACATTGC
Found at i:39534588 original size:50 final size:50
Alignment explanation
Indices: 39534534--39534773 Score: 179
Period size: 50 Copynumber: 4.8 Consensus size: 50
39534524 GCAGTGGAAC
* * *
39534534 AGATTGAAGCTACGATGGCGAATCTCGCTTCCCCGACATTGAAGTCAAAT
1 AGATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACATTGAAGTGAAAT
** ** * * * * *
39534584 AGATTGAAGCTACAACAACGAATCTCATTTCCCTGGCAGT-ACAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACATTGA-AGTGAAAT
* * * *
39534634 AGATTGAAGCTACGACGGTGAATCTTGCTTCCCCGACATTGCAA-TTAAA-
1 AGATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACATTG-AAGTGAAAT
* * * * *
39534683 AGATT-AAGGCCACAACGGCGAATCTTAC-CTTCCCAGGCGA-TGCAGTGGAAT
1 AGATTGAA-GCTACAACGGCGAATC-T-CGCTTCCCCGAC-ATTGAAGTGAAAT
39534734 AGATTGAAGCTACAACGGCGAATCTTCG-TTCCCCGACATT
1 AGATTGAAGCTACAACGGCGAATC-TCGCTTCCCCGACATT
39534774 ACAATCTCAT
Statistics
Matches: 142, Mismatches: 36, Indels: 24
0.70 0.18 0.12
Matches are distributed among these distances:
48 2 0.01
49 21 0.15
50 92 0.65
51 24 0.17
52 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACATTGAAGTGAAAT
Found at i:39534716 original size:100 final size:100
Alignment explanation
Indices: 39534525--39534779 Score: 304
Period size: 100 Copynumber: 2.5 Consensus size: 100
39534515 CCTAGCGGTG
* *
39534525 CAGTGGAACAGATTGAAGCTACGATGGCGAATCTCGCTTCCCCGACATTG-AAGTCAAATAGATT
1 CAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGCAA-TCAAATAGATT
* * *
39534589 GAAGCTACAACAACGAATCTCATTTCCCTGGC-AGTA
65 GAAGCCACAACAACGAATCTCACTTCCCAGGCGA-TA
* *
39534625 CAGTGGAACAGATTGAAGCTACGACGGTGAATCTTGCTTCCCCGACATTGCAATTAAA-AGATT-
1 CAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGCAATCAAATAGATTG
** * *
39534688 AAGGCCACAACGGCGAATCTTACCTTCCCAGGCGATG
66 AA-GCCACAACAACGAATCTCA-CTTCCCAGGCGATA
* * *
39534725 CAGTGGAATAGATTGAAGCTACAACGGCGAATCTT-CGTTCCCCGACATTACAATC
1 CAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGC-TTCCCCGACATTGCAATC
39534780 TCATTTCCCT
Statistics
Matches: 134, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
98 2 0.01
99 21 0.16
100 108 0.81
101 3 0.02
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.23
Consensus pattern (100 bp):
CAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGCAATCAAATAGATTG
AAGCCACAACAACGAATCTCACTTCCCAGGCGATA
Found at i:39534865 original size:49 final size:50
Alignment explanation
Indices: 39534795--39534910 Score: 153
Period size: 49 Copynumber: 2.3 Consensus size: 50
39534785 TCCCTAGCGA
* * ** *
39534795 TGCAGTGGAACAGATTGAAGCTACGATGGCGAATCTCGCTTCCCCGACAT
1 TGCAGTTGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACAT
* * *
39534845 TGCGGTT-AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACAT
1 TGCAGTTGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACAT
39534894 TGCAGTTGAACAGATTG
1 TGCAGTTGAACAGATTG
39534911 GAGATGGCAG
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
49 42 0.76
50 13 0.24
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.25
Consensus pattern (50 bp):
TGCAGTTGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACAT
Found at i:39548872 original size:17 final size:17
Alignment explanation
Indices: 39548850--39548882 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
39548840 TTTAAAGATT
*
39548850 ACAATGGGGGCAATCCA
1 ACAATGGGGGAAATCCA
39548867 ACAATGGGGGAAATCC
1 ACAATGGGGGAAATCC
39548883 GACCAAGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.21, G:0.30, T:0.12
Consensus pattern (17 bp):
ACAATGGGGGAAATCCA
Found at i:39549496 original size:50 final size:50
Alignment explanation
Indices: 39549343--39549497 Score: 134
Period size: 50 Copynumber: 3.1 Consensus size: 50
39549333 CCGACATTAC
* * * * *
39549343 AATCTCATTTCCCTAGCGGTGCAGTAGAACAGATTGAAGCTATGATGGCG
1 AATCTCATTTCCCTGGCAGTACAGTAGAACAGATTGAAGCTACGACGGCG
** * * * * * * *
39549393 AATCTCGCTTCCCCGACATTGA-ATTCA-AATAGATTGAAGCTACAACAGCG
1 AATCTCATTTCCCTGGCAGT-ACAGT-AGAACAGATTGAAGCTACGACGGCG
* *
39549443 AATCTCATTTCCCTGGCAGTACAGTGGAACAGATTGAAGCTACGACGGTG
1 AATCTCATTTCCCTGGCAGTACAGTAGAACAGATTGAAGCTACGACGGCG
39549493 AATCT
1 AATCT
39549498 TGCTTCCCCG
Statistics
Matches: 76, Mismatches: 25, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
49 1 0.01
50 74 0.97
51 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (50 bp):
AATCTCATTTCCCTGGCAGTACAGTAGAACAGATTGAAGCTACGACGGCG
Found at i:39549571 original size:100 final size:101
Alignment explanation
Indices: 39549369--39549617 Score: 272
Period size: 100 Copynumber: 2.5 Consensus size: 101
39549359 CGGTGCAGTA
* * *
39549369 GAACAGATTGAAGCTATGATGGCGAATCTCGCTTCCCCGACATTG-AATTCAAATAGATTGAAGC
1 GAACAGATTGAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGCAATTCAAATAGATTGAAGC
* * *** *
39549433 TACAACAGCGAATCTCATTTCCCTGGCAGTACAGTG
66 CACAACAGCGAATCTCACTTCCAAAGCAGTACAATG
* * *
39549469 GAACAGATTGAAGCTACGACGGTGAATCTTGCTTCCCCGACACTGCAATT-AAA-AGATTGAGGC
1 GAACAGATTGAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGCAATTCAAATAGATTGAAGC
** * *
39549532 CACAATGGCGAATCTTACCTTCCAAAGC-GATGCAATG
66 CACAACAGCGAATCTCA-CTTCCAAAGCAG-TACAATG
* * * *
39549569 GAATAGATTGAAGCTACAACGGCGAATCTTCCTTCCCTGACATTGCAAT
1 GAACAGATTGAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGCAAT
39549618 CTCATTTCCC
Statistics
Matches: 124, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
99 23 0.19
100 97 0.78
101 4 0.03
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (101 bp):
GAACAGATTGAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGCAATTCAAATAGATTGAAGC
CACAACAGCGAATCTCACTTCCAAAGCAGTACAATG
Found at i:39549616 original size:50 final size:50
Alignment explanation
Indices: 39549373--39549617 Score: 169
Period size: 50 Copynumber: 4.9 Consensus size: 50
39549363 GCAGTAGAAC
** * **
39549373 AGATTGAAGCTATGATGGCGAATC-TCGCTTCCCCGACATTG-AATTCAAAT
1 AGATTGAAGCTACAACGGCGAATCTTC-CTTCCCCGACATTGCAA-TGGAAT
* * * * * * * *
39549423 AGATTGAAGCTACAACAGCGAATC-TCATTTCCCTGGCAGTACAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTC-CTTCCCCGACATTGCAATGGAAT
* * * * * *
39549473 AGATTGAAGCTACGACGGTGAATCTTGCTTCCCCGACACTGCAAT-TAAA
1 AGATTGAAGCTACAACGGCGAATCTTCCTTCCCCGACATTGCAATGGAAT
* * * **
39549522 AGATTGAGGCCACAATGGCGAATCTTACCTT-CCAAAGCGA-TGCAATGGAAT
1 AGATTGAAGCTACAACGGCGAATCTT-CCTTCCCCGA-C-ATTGCAATGGAAT
*
39549573 AGATTGAAGCTACAACGGCGAATCTTCCTTCCCTGACATTGCAAT
1 AGATTGAAGCTACAACGGCGAATCTTCCTTCCCCGACATTGCAAT
39549618 CTCATTTCCC
Statistics
Matches: 146, Mismatches: 41, Indels: 16
0.72 0.20 0.08
Matches are distributed among these distances:
49 27 0.18
50 88 0.60
51 31 0.21
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGAATCTTCCTTCCCCGACATTGCAATGGAAT
Found at i:39549704 original size:49 final size:49
Alignment explanation
Indices: 39549634--39549749 Score: 137
Period size: 49 Copynumber: 2.3 Consensus size: 49
39549624 TCCCTAGCGA
* *
39549634 TGCAGTGGAACAGATTGAAGCTAC-GATGGCGAATCTCGCTTCCCCGACAT
1 TGCAGTTGAACAGATTGAAGCTACAGA--GCGAATCTCACTTCCCCGACAT
* * * *
39549684 TGCGGTT-AATAGATTGAAGCTACAGCAGCGAATCTTACTTCCCCGACCT
1 TGCAGTTGAACAGATTGAAGCTACAG-AGCGAATCTCACTTCCCCGACAT
39549733 TGCAGTTGAACAGATTG
1 TGCAGTTGAACAGATTG
39549750 GAGATGGCAG
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
49 40 0.73
50 14 0.25
51 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (49 bp):
TGCAGTTGAACAGATTGAAGCTACAGAGCGAATCTCACTTCCCCGACAT
Found at i:39551324 original size:22 final size:24
Alignment explanation
Indices: 39551294--39551340 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
39551284 GAAAACAAAA
*
39551294 TAATTTTATTTA-TTAC-TTCGTT
1 TAATGTTATTTATTTACTTTCGTT
39551316 TAATGTTATTTATTTACTTTCGTT
1 TAATGTTATTTATTTACTTTCGTT
39551340 T
1 T
39551341 TTTTTCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.50
23 4 0.18
24 7 0.32
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.64
Consensus pattern (24 bp):
TAATGTTATTTATTTACTTTCGTT
Found at i:39552962 original size:92 final size:92
Alignment explanation
Indices: 39552805--39552987 Score: 348
Period size: 92 Copynumber: 2.0 Consensus size: 92
39552795 CACACTATAA
39552805 AAGAAATTGAGATTGAAATAAGCATTCTAAAAGCATTCAATAGCCAACAATAACATTTAATCACA
1 AAGAAATTGAGATTGAAATAAGCATTCTAAAAGCATTCAATAGCCAACAATAACATTTAATCACA
**
39552870 AAAAATTTTCATTTAATTAATTTATCC
66 AAAAAAATTCATTTAATTAATTTATCC
39552897 AAGAAATTGAGATTGAAATAAGCATTCTAAAAGCATTCAATAGCCAACAATAACATTTAATCACA
1 AAGAAATTGAGATTGAAATAAGCATTCTAAAAGCATTCAATAGCCAACAATAACATTTAATCACA
39552962 AAAAAAATTCATTTAATTAATTTATC
66 AAAAAAATTCATTTAATTAATTTATC
39552988 TAAATAACAC
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.48, C:0.14, G:0.08, T:0.31
Consensus pattern (92 bp):
AAGAAATTGAGATTGAAATAAGCATTCTAAAAGCATTCAATAGCCAACAATAACATTTAATCACA
AAAAAAATTCATTTAATTAATTTATCC
Found at i:39562077 original size:17 final size:18
Alignment explanation
Indices: 39562046--39562085 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
39562036 CATATACATG
39562046 CATACATTTTATAATACA
1 CATACATTTTATAATACA
39562064 CATACATTTT-TAATACA
1 CATACATTTTATAATACA
39562081 CATAC
1 CATAC
39562086 TTATACATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (18 bp):
CATACATTTTATAATACA
Found at i:39562901 original size:105 final size:107
Alignment explanation
Indices: 39562615--39562924 Score: 396
Period size: 108 Copynumber: 2.9 Consensus size: 107
39562605 AAAAGAAATT
* * * *
39562615 TTTCTAAATAAGGCAATGTTTTGCGTTTGGAAAATCGAGA-AAACGTACCCTAACGTGCTGGGTT
1 TTTCAAAATAAGACAAT-ATTTGCGTTTGGAAAATCGAGAGAAACGTGCCCTAACGTGCTGGGTT
* * *
39562679 TTAATTTCTCGTTTGACCGAAATAGACAAATATCCTTTTTAAAC
65 TCAATTTCTCGTTTGACC-AAATAGCCAAATATCCTTTTTAAAA
* * *
39562723 TTTTAAAATAAGGCAATATTTCGCGTTTGGAAAATCGAG-GAAACGTGCCCTAACGTGTTGGGTT
1 TTTCAAAATAAGACAATATTT-GCGTTTGGAAAATCGAGAGAAACGTGCCCTAACGTGCTGGGTT
* *
39562787 TCGACTTCTCGTTTGACCAAATAGCCAAATATCC-TTTTAAAA
65 TCAATTTCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAAA
* * * * *
39562829 TTTCAAAGTGAGACAATATTTGCGTTT-GAAAATTTGAGAGAAA-GTGCCCTAACGTGCTAGGTC
1 TTTCAAAATAAGACAATATTTGCGTTTGGAAAA-TCGAGAGAAACGTGCCCTAACGTGCTGGGTT
39562892 TCAATTTCTCGTTTGACCAAATAGCCAAATATC
65 TCAATTTCTCGTTTGACCAAATAGCCAAATATC
39562925 TTCTTAACTT
Statistics
Matches: 178, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
104 5 0.03
105 58 0.33
106 28 0.16
107 18 0.10
108 69 0.39
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (107 bp):
TTTCAAAATAAGACAATATTTGCGTTTGGAAAATCGAGAGAAACGTGCCCTAACGTGCTGGGTTT
CAATTTCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAAA
Found at i:39578740 original size:38 final size:37
Alignment explanation
Indices: 39578685--39578775 Score: 119
Period size: 38 Copynumber: 2.4 Consensus size: 37
39578675 TCACATTGGG
* *
39578685 CATGTTGAACATGCAAATCGAATAATATCATGTAGGG
1 CATGTTTAACATGCAAATCGAATAATATCATGTAGGC
* * * *
39578722 CATGTTTTAGCATGCAAATCGGATTATGTCATGTAGGC
1 CATG-TTTAACATGCAAATCGAATAATATCATGTAGGC
39578760 CATGTTTAACATGCAA
1 CATGTTTAACATGCAA
39578776 TCAAATCTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
37 15 0.33
38 31 0.67
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (37 bp):
CATGTTTAACATGCAAATCGAATAATATCATGTAGGC
Found at i:39584735 original size:19 final size:18
Alignment explanation
Indices: 39584714--39584760 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
39584704 TTCAACATAA
39584714 AAAAATAAAATTAACATT
1 AAAAATAAAATTAACATT
39584732 AAAAATAGAAATTAA-AGTT
1 AAAAATA-AAATTAACA-TT
39584751 AAAAATAAAA
1 AAAAATAAAA
39584761 ATTTTAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.23
Consensus pattern (18 bp):
AAAAATAAAATTAACATT
Found at i:39596591 original size:26 final size:26
Alignment explanation
Indices: 39596515--39596585 Score: 124
Period size: 26 Copynumber: 2.7 Consensus size: 26
39596505 TCTAATATTT
*
39596515 TTGGGCAGCATCTACTTATGCCAAAA
1 TTGGGCAGCATCTACTTGTGCCAAAA
*
39596541 TTGGGCAACATCTACTTGTGCCAAAA
1 TTGGGCAGCATCTACTTGTGCCAAAA
39596567 TTGGGCAGCATCTACTTGT
1 TTGGGCAGCATCTACTTGT
39596586 TTCAAAGACC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (26 bp):
TTGGGCAGCATCTACTTGTGCCAAAA
Found at i:39601075 original size:610 final size:610
Alignment explanation
Indices: 39599904--39601123 Score: 2064
Period size: 610 Copynumber: 2.0 Consensus size: 610
39599894 TTTAAAATAT
39599904 TCAGTCGGAGAAGGTCCCAAAACAAGACCTACAACATCCATTAATGCTCTTTGTGCAATGGCATG
1 TCAGTCGGAGAAGGTCCCAAAACAAGACCTACAACATCCATTAATGCTCTTTGTGCAATGGCATG
*
39599969 ATAATGTTTCAAGTCAATTTTGTTGGAAAAAATCTGGTTCGAAAATGATTTTCTTGCACAGCGAA
66 ATAATGTTTCAAGTCAATTTTGTTGGAAAAAATCTGGTTCAAAAATGATTTTCTTGCACAGCGAA
* *
39600034 AAATTAAAATTTTGAAAACTGAGTTGGTTTGTGATATTTATAGCAATAAACTTTTCTCAAAATTG
131 AAATTAAAATTTTGAAAACTAAGTTGGTTTGTGATATTTATAGCAATAAACATTTCTCAAAATTG
* * *
39600099 CAAATAAGTTTTCAACTAGACGAATCCTTGTCATTCTTGGCTTTTAACTAAACTGTCTTCTCCAC
196 CAAATAAGTTTTCAACTAAACGAATCCTTGTCATTCTTGGCTTTTAACCAAACGGTCTTCTCCAC
*
39600164 TACTCTCCTACCATGAACCTCTTCGAGTGTGGGATCGAACGAATTCAAATCAAATACAGAAGCAT
261 TACTCTCCTACCATGAACCTCTTCGAGTGTGGGATCGAACGAATTCAAATCAAATACAGAAGCAG
* * * *
39600229 AAATTATTTACTTTACTTTTAGTAGGAAAAATAAACTCTTTTTAATAGAAACCAATAGAATTGTT
326 AAATAATTTACTTTACTTTCAATAGGAAAAATAAACTCTCTTTAATAGAAACCAATAGAATTGTT
* * *
39600294 ATTCCGGAAATCTTAATTTATACTTAGAAAATAAATTCTCACTATTTTCGGGCAGAATAACAATA
391 ATTACGGAAATCATAATTTATACTTAGAAAATAAATTCTCACTATTTTCGAGCAGAATAACAATA
* *
39600359 TCTCAAAATTGTGTATTTAGTTTTACCGGTGTCATCTATTTATAGGGAGAATAAGTAAAACCCTA
456 TCTCAAAATTGTGTATTTAGTTCTACCGGTGTCATCTATTTATAGGGAGAAGAAGTAAAACCCTA
39600424 GTTGAGTTAGTAGAAACCTATTTAAATAGAAAAACAAAATCCTAGTTTAACTAGGAGAGAGAGGG
521 GTTGAGTTAGTAGAAACCTATTTAAATAGAAAAACAAAATCCTAGTTTAACTAGGAGAGAGAGGG
*
39600489 ACGACAACCTTAGTTAAATATACTA
586 ACAACAACCTTAGTTAAATATACTA
*
39600514 TCAGTGGGAGAAGGTCCCAAAACAAGACCTACAACATCCATTAATGCTCTTTGTGCAATGGCATG
1 TCAGTCGGAGAAGGTCCCAAAACAAGACCTACAACATCCATTAATGCTCTTTGTGCAATGGCATG
* * *
39600579 ATAATGTTTCAAGTCTATTTTGTTGGAAAAAATCTGGTTCAAAAATGATTTTCTTGCACAGTGGA
66 ATAATGTTTCAAGTCAATTTTGTTGGAAAAAATCTGGTTCAAAAATGATTTTCTTGCACAGCGAA
* *
39600644 AAATTAAAATTTTGAAAACTAAGTTGGTTTGTGATATTTATAGCAGTAAACATTTCTCGAAATTG
131 AAATTAAAATTTTGAAAACTAAGTTGGTTTGTGATATTTATAGCAATAAACATTTCTCAAAATTG
* ** * *
39600709 CAAATGAGTTTTTGACTAAACGGATCCTTGTCATTCTTGGCTTTTAACCAAACGGT-TTGCTCCG
196 CAAATAAGTTTTCAACTAAACGAATCCTTGTCATTCTTGGCTTTTAACCAAACGGTCTT-CTCCA
* * * *
39600773 TTATTCTCCTACCATGAACCTCTTCGAGTGTGGGATCGAACGAATTCGAATCAAATACAGAGGCA
260 CTACTCTCCTACCATGAACCTCTTCGAGTGTGGGATCGAACGAATTCAAATCAAATACAGAAGCA
*
39600838 GAAATAATTTACTTTACTTTCAATAGGAAAAATAAATTCTCTTTAATAGAAACCAATAGAATTGT
325 GAAATAATTTACTTTACTTTCAATAGGAAAAATAAACTCTCTTTAATAGAAACCAATAGAATTGT
39600903 TATTACGGAAATCATAATTTATACTTAGAAAATAAATTCTCACTATTTTCGAGCAGAATAACAAT
390 TATTACGGAAATCATAATTTATACTTAGAAAATAAATTCTCACTATTTTCGAGCAGAATAACAAT
* * *
39600968 ATCTTAAAATTGTGTATTTAGTTCTACCGGTGTCATCTATTTATAGGGAGAAGAAGTGAAACCTT
455 ATCTCAAAATTGTGTATTTAGTTCTACCGGTGTCATCTATTTATAGGGAGAAGAAGTAAAACCCT
* * *
39601033 TGTTGAGTTAGTAGAAATCTATTTAAATAGAAAAATAAAATCCTAGTTTAACTAGGAGAGAGAGG
520 AGTTGAGTTAGTAGAAACCTATTTAAATAGAAAAACAAAATCCTAGTTTAACTAGGAGAGAGAGG
*
39601098 GACAACAACCTTATTTAAATATACTA
585 GACAACAACCTTAGTTAAATATACTA
39601124 GAGTTTGCCA
Statistics
Matches: 569, Mismatches: 40, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
609 2 0.00
610 567 1.00
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (610 bp):
TCAGTCGGAGAAGGTCCCAAAACAAGACCTACAACATCCATTAATGCTCTTTGTGCAATGGCATG
ATAATGTTTCAAGTCAATTTTGTTGGAAAAAATCTGGTTCAAAAATGATTTTCTTGCACAGCGAA
AAATTAAAATTTTGAAAACTAAGTTGGTTTGTGATATTTATAGCAATAAACATTTCTCAAAATTG
CAAATAAGTTTTCAACTAAACGAATCCTTGTCATTCTTGGCTTTTAACCAAACGGTCTTCTCCAC
TACTCTCCTACCATGAACCTCTTCGAGTGTGGGATCGAACGAATTCAAATCAAATACAGAAGCAG
AAATAATTTACTTTACTTTCAATAGGAAAAATAAACTCTCTTTAATAGAAACCAATAGAATTGTT
ATTACGGAAATCATAATTTATACTTAGAAAATAAATTCTCACTATTTTCGAGCAGAATAACAATA
TCTCAAAATTGTGTATTTAGTTCTACCGGTGTCATCTATTTATAGGGAGAAGAAGTAAAACCCTA
GTTGAGTTAGTAGAAACCTATTTAAATAGAAAAACAAAATCCTAGTTTAACTAGGAGAGAGAGGG
ACAACAACCTTAGTTAAATATACTA
Found at i:39601824 original size:15 final size:15
Alignment explanation
Indices: 39601804--39601855 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
39601794 ACTACAAAAC
39601804 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
39601819 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
39601838 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
39601853 ATT
1 ATT
39601856 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:39601984 original size:16 final size:16
Alignment explanation
Indices: 39601943--39601977 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
39601933 TGAAATATTA
*
39601943 AATAACTTATTAAAAT
1 AATAAATTATTAAAAT
*
39601959 AATAAATTATTAATAT
1 AATAAATTATTAAAAT
39601975 AAT
1 AAT
39601978 TTATTATATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
AATAAATTATTAAAAT
Found at i:39604558 original size:289 final size:289
Alignment explanation
Indices: 39604190--39604724 Score: 910
Period size: 289 Copynumber: 1.9 Consensus size: 289
39604180 TCTCTTACTG
*
39604190 TTTCAATCAATTTTGAACTCCAAATCCTAATTCCTTTTGATTTCTATCATCTCTTAAGTTATAAA
1 TTTCAATCAATTTTAAACTCCAAATCCTAATTCCTTTTGATTTCTATCATCTCTTAAGTTATAAA
* *
39604255 CCTTTATAAAAACCAAGAAAATCACCCAAAAACTTCATCATCTACATCATCTTCTCCAAACGTGA
66 CCTCTATAAAAACCAAGAAAATCAACCAAAAACTTCATCATCTACATCATCTTCTCCAAACGTG-
* * * * *
39604320 G-TTTTTTTGGATTTGCATCAAAGCTTATTTTTCTTCCATTGAAGGTAACCATTCAAATTTCTAT
130 GCTTTTTCTAGATTTGCATCAAAGCTCATTTTTCTTCCATCGAAGGTAACCATTCAAATTACTAT
* * * *
39604384 GAGTTTTAAATGATGTCTAGTCTCTTAAACTAAATTTGTAGCCATTGAAACAAATCTTTAAATTA
195 GAGTTTTAAATGATATCTAGTCCCTTAAAATAAATTTGTAACCATTGAAACAAATCTTTAAATTA
39604449 AAATCTAAAAATTGGGTCGTTTAATTGCTA
260 AAATCTAAAAATTGGGTCGTTTAATTGCTA
39604479 TTTCAATCAATTTTAAACTCCAAATCCTAATTCCTTTTGATTTCTATCATCTCTTAAGTTATAAA
1 TTTCAATCAATTTTAAACTCCAAATCCTAATTCCTTTTGATTTCTATCATCTCTTAAGTTATAAA
*
39604544 CCTCTATAAAAACCAAGAAAATCAACTAAAAACTTCATCATCTACATCATCTTCTCCAAACGTGG
66 CCTCTATAAAAACCAAGAAAATCAACCAAAAACTTCATCATCTACATCATCTTCTCCAAACGTGG
* *
39604609 CTTTTTCTAGATTTGCATCAAAGCTCATTTTTCTTCCATCGAAGGTAACCATTCGACTTACTATG
131 CTTTTTCTAGATTTGCATCAAAGCTCATTTTTCTTCCATCGAAGGTAACCATTCAAATTACTATG
*
39604674 AGTTTTAAATGATATCTAGTCCCTTAAAATTAATTTGTAACCATTGAAACA
196 AGTTTTAAATGATATCTAGTCCCTTAAAATAAATTTGTAACCATTGAAACA
39604725 CGCGTTTTAA
Statistics
Matches: 229, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
288 1 0.00
289 228 1.00
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.38
Consensus pattern (289 bp):
TTTCAATCAATTTTAAACTCCAAATCCTAATTCCTTTTGATTTCTATCATCTCTTAAGTTATAAA
CCTCTATAAAAACCAAGAAAATCAACCAAAAACTTCATCATCTACATCATCTTCTCCAAACGTGG
CTTTTTCTAGATTTGCATCAAAGCTCATTTTTCTTCCATCGAAGGTAACCATTCAAATTACTATG
AGTTTTAAATGATATCTAGTCCCTTAAAATAAATTTGTAACCATTGAAACAAATCTTTAAATTAA
AATCTAAAAATTGGGTCGTTTAATTGCTA
Found at i:39614699 original size:47 final size:47
Alignment explanation
Indices: 39614621--39614820 Score: 301
Period size: 47 Copynumber: 4.2 Consensus size: 47
39614611 CCCTTCGGGA
* * * * * *
39614621 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
39614668 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39614715 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39614764 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39614811 CTTATCACAT
1 CTTATCACAT
39614821 CCGATAGCTG
Statistics
Matches: 139, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
47 93 0.67
49 46 0.33
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:39614783 original size:96 final size:94
Alignment explanation
Indices: 39614621--39614820 Score: 310
Period size: 96 Copynumber: 2.1 Consensus size: 94
39614611 CCCTTCGGGA
* * * *
39614621 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
39614686 TTTCACATTCATCACATCGGCCATTAAGC
66 TTTCACATTCATCACATCGGCCATTAAGC
* * *
39614715 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACAT-T-TATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATAC
*
39614780 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAAGC
39614811 CTTATCACAT
1 CTTATCACAT
39614821 CCGATAGCTG
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
94 10 0.10
95 1 0.01
96 85 0.89
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAAGC
Found at i:39615455 original size:119 final size:120
Alignment explanation
Indices: 39615206--39615463 Score: 337
Period size: 119 Copynumber: 2.2 Consensus size: 120
39615196 GCTACTCGTT
* * * *
39615206 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAACTCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
* * *
39615270 GTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
65 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
*
39615326 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* * * *
39615390 A-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
66 ATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
39615446 CAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
39615464 GCCCGGACAT
Statistics
Matches: 122, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
118 4 0.03
119 62 0.51
120 54 0.44
121 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
ATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:39615470 original size:40 final size:40
Alignment explanation
Indices: 39615187--39615470 Score: 353
Period size: 40 Copynumber: 7.1 Consensus size: 40
39615177 CGGAATTTAA
** * *
39615187 CCGGATATAGCT-ACTCGTTCAAATGCCTTTGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
39615227 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
39615267 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
39615307 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
39615347 TCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
39615386 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
39615426 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
39615466 CCGGA
1 CCGGA
39615471 CATCATTCGA
Statistics
Matches: 216, Mismatches: 21, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.14
40 171 0.79
41 12 0.06
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:39618146 original size:18 final size:18
Alignment explanation
Indices: 39618113--39618147 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
39618103 TTTAATTGGA
*
39618113 AAATTAATTAATTAAATT
1 AAATTAATTAAGTAAATT
*
39618131 AAATTAATTTAGTAAAT
1 AAATTAATTAAGTAAAT
39618148 AGTATTTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
AAATTAATTAAGTAAATT
Found at i:39620053 original size:16 final size:15
Alignment explanation
Indices: 39620009--39620044 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
39619999 GTCATTCGAC
39620009 TATTAGAAACTTTTT
1 TATTAGAAACTTTTT
39620024 TATTAGAAACTTTTT
1 TATTAGAAACTTTTT
*
39620039 TGTTAG
1 TATTAG
39620045 GTAACTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.53
Consensus pattern (15 bp):
TATTAGAAACTTTTT
Found at i:39621323 original size:8 final size:8
Alignment explanation
Indices: 39621307--39621346 Score: 71
Period size: 8 Copynumber: 5.0 Consensus size: 8
39621297 GACAGGGCCT
*
39621307 AAATAAAA
1 AAATTAAA
39621315 AAATTAAA
1 AAATTAAA
39621323 AAATTAAA
1 AAATTAAA
39621331 AAATTAAA
1 AAATTAAA
39621339 AAATTAAA
1 AAATTAAA
39621347 TCCATGTCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAATTAAA
Found at i:39632039 original size:19 final size:19
Alignment explanation
Indices: 39632015--39632067 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
39632005 ACTAGCATGT
39632015 AAAGTGCATACTGGCACAC
1 AAAGTGCATACTGGCACAC
39632034 AAAGTGCATACTGGCACAC
1 AAAGTGCATACTGGCACAC
*
39632053 AAAGTGCATCCTGGC
1 AAAGTGCATACTGGC
39632068 GCGTTAGCGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.34, C:0.26, G:0.23, T:0.17
Consensus pattern (19 bp):
AAAGTGCATACTGGCACAC
Found at i:39636317 original size:30 final size:30
Alignment explanation
Indices: 39636251--39636317 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
39636241 GTCTAGCCGC
*
39636251 GTGTCTCACACCACCAAGTCACACACCTGT
1 GTGTCTGACACCACCAAGTCACACACCTGT
* **
39636281 GTGTCTGACACTACCAAGTCACATGCCTGT
1 GTGTCTGACACCACCAAGTCACACACCTGT
39636311 GTGTCTG
1 GTGTCTG
39636318 GCTGTGTAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.25
Consensus pattern (30 bp):
GTGTCTGACACCACCAAGTCACACACCTGT
Found at i:39637101 original size:143 final size:143
Alignment explanation
Indices: 39636816--39637080 Score: 379
Period size: 143 Copynumber: 1.9 Consensus size: 143
39636806 TGTTGGATGT
* * * **
39636816 TGAATCGGCGATCAAAAGAGAAGTACTTAACCTACGCACGGAAAACAAAATTGTACGCTAAGTAA
1 TGAACCGGCGATCAAAAGAGAAGTACCTAACCTACGCACGAAAAACAAAACCGTACGCTAAGTAA
**
39636881 AACTCATTGATATTTCTATAATCCAAACATTTAAAGACATAATAAAACATGAATGCTAAAACTGA
66 AACTCAGGGATATTTCTATAATCCAAACATTTAAAGACATAATAAAACATGAATGCTAAAACTGA
*
39636946 ATTATTTAATCAC
131 ATTATATAATCAC
* * *
39636959 TGAACCGGTGATCAAAAGAGAAGTACCTAACCTGCGCACGAAAAACAAAACCGTACGCTGAGTAA
1 TGAACCGGCGATCAAAAGAGAAGTACCTAACCTACGCACGAAAAACAAAACCGTACGCTAAGTAA
* * * *
39637024 AACTTAGGGATGTTTCTATAATCCGAACATTTAAAGACATAA-AGATACATGAATGCT
66 AACTCAGGGATATTTCTATAATCCAAACATTTAAAGACATAATA-AAACATGAATGCT
39637081 CAGTTTGAAT
Statistics
Matches: 107, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
142 1 0.01
143 106 0.99
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (143 bp):
TGAACCGGCGATCAAAAGAGAAGTACCTAACCTACGCACGAAAAACAAAACCGTACGCTAAGTAA
AACTCAGGGATATTTCTATAATCCAAACATTTAAAGACATAATAAAACATGAATGCTAAAACTGA
ATTATATAATCAC
Found at i:39642121 original size:20 final size:20
Alignment explanation
Indices: 39642096--39642138 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
39642086 TGCTAAAAAG
*
39642096 GAAAAAAGAAAGAAAAAGAA
1 GAAAAAAGAAACAAAAAGAA
* *
39642116 GAAAAAATAAACAAAAGGAA
1 GAAAAAAGAAACAAAAAGAA
39642136 GAA
1 GAA
39642139 GGAGGGAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (20 bp):
GAAAAAAGAAACAAAAAGAA
Found at i:39649320 original size:17 final size:17
Alignment explanation
Indices: 39649298--39649330 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
39649288 GATCGCTAAT
39649298 CATATTACATGCATACC
1 CATATTACATGCATACC
39649315 CATATTACATGCATAC
1 CATATTACATGCATAC
39649331 ACAATTCCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.30
Consensus pattern (17 bp):
CATATTACATGCATACC
Found at i:39650465 original size:17 final size:18
Alignment explanation
Indices: 39650440--39650474 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
39650430 TTGTTAGAAA
*
39650440 ATAGCATAAATT-TATTT
1 ATAGAATAAATTATATTT
39650457 ATAGAATAAATTATATTT
1 ATAGAATAAATTATATTT
39650475 TTGGGGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (18 bp):
ATAGAATAAATTATATTT
Found at i:39653467 original size:43 final size:42
Alignment explanation
Indices: 39653420--39653548 Score: 161
Period size: 43 Copynumber: 3.0 Consensus size: 42
39653410 TTTTATCCTA
*
39653420 GAAAAGAGAATTTAAAAAGAGGAGAATATAATATTGGGTTGTT
1 GAAAA-AGAATTTAAAAAGAGGAGAAGATAATATTGGGTTGTT
* * *
39653463 GAAAAAAAATTTAAAAAGAGGAGAAGATAATCTTTGGTTGTT
1 GAAAAAGAATTTAAAAAGAGGAGAAGATAATATTGGGTTGTT
* * *
39653505 GAAAAAAGAATTTAAAACGAGGAAAAGATCAACA-TGGGTTGTT
1 G-AAAAAGAATTTAAAAAGAGGAGAAGAT-AATATTGGGTTGTT
39653548 G
1 G
39653549 GATTTACCCT
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 34 0.46
43 38 0.51
44 2 0.03
ACGTcount: A:0.47, C:0.03, G:0.24, T:0.26
Consensus pattern (42 bp):
GAAAAAGAATTTAAAAAGAGGAGAAGATAATATTGGGTTGTT
Found at i:39653480 original size:42 final size:43
Alignment explanation
Indices: 39653420--39653548 Score: 172
Period size: 42 Copynumber: 3.0 Consensus size: 43
39653410 TTTTATCCTA
* *
39653420 GAAAAGAGAATTTAAAAAGAGGAGAATATAATATTGGGTTGTT
1 GAAAAAAGAATTTAAAAAGAGGAGAAGATAATATTGGGTTGTT
* *
39653463 GAAAAAA-AATTTAAAAAGAGGAGAAGATAATCTTTGGTTGTT
1 GAAAAAAGAATTTAAAAAGAGGAGAAGATAATATTGGGTTGTT
* * *
39653505 GAAAAAAGAATTTAAAACGAGGAAAAGATCAACA-TGGGTTGTT
1 GAAAAAAGAATTTAAAAAGAGGAGAAGAT-AATATTGGGTTGTT
39653548 G
1 G
39653549 GATTTACCCT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
42 39 0.52
43 34 0.45
44 2 0.03
ACGTcount: A:0.47, C:0.03, G:0.24, T:0.26
Consensus pattern (43 bp):
GAAAAAAGAATTTAAAAAGAGGAGAAGATAATATTGGGTTGTT
Found at i:39656042 original size:17 final size:18
Alignment explanation
Indices: 39656020--39656068 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
39656010 AAATTCACAA
*
39656020 TTCAAATTCACTTT-CAT
1 TTCAAATTCACTTTAAAT
39656037 TTCAAATTCACTTTAAAT
1 TTCAAATTCACTTTAAAT
*
39656055 ATCAAATTCACTTT
1 TTCAAATTCACTTT
39656069 TCCATTCACT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 14 0.48
18 15 0.52
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.45
Consensus pattern (18 bp):
TTCAAATTCACTTTAAAT
Found at i:39661125 original size:43 final size:42
Alignment explanation
Indices: 39661077--39661206 Score: 163
Period size: 43 Copynumber: 3.0 Consensus size: 42
39661067 TTTTATCCTA
39661077 GAAAAAGCAATTTAAAAAGAGGAGAAGATAATCTTAGGTTGTT
1 GAAAAAG-AATTTAAAAAGAGGAGAAGATAATCTTAGGTTGTT
* *
39661120 GAAAAAAGAATTTAAAAAGAGGAGAAGATAATTTTTGGTTGTT
1 G-AAAAAGAATTTAAAAAGAGGAGAAGATAATCTTAGGTTGTT
* * * *
39661163 AAAAAAAGAATTTAAAACGAGGA-AGAGATAAACATAGGTTGTT
1 -GAAAAAGAATTTAAAAAGAGGAGA-AGATAATCTTAGGTTGTT
39661206 G
1 G
39661207 GATTTACCCT
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
42 1 0.01
43 68 0.91
44 6 0.08
ACGTcount: A:0.48, C:0.03, G:0.23, T:0.25
Consensus pattern (42 bp):
GAAAAAGAATTTAAAAAGAGGAGAAGATAATCTTAGGTTGTT
Found at i:39664450 original size:28 final size:28
Alignment explanation
Indices: 39664419--39664479 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
39664409 AGTTTATTAC
*
39664419 TTTTAAAATTTGA-ATATATAA-CTTATAT
1 TTTTAAAATTT-ATAT-TATAATATTATAT
*
39664447 TTTTAATATTTATATTATAATATTATAT
1 TTTTAAAATTTATATTATAATATTATAT
39664475 TTTTA
1 TTTTA
39664480 TTTTTATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 6 0.21
28 23 0.79
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (28 bp):
TTTTAAAATTTATATTATAATATTATAT
Found at i:39664465 original size:27 final size:27
Alignment explanation
Indices: 39664441--39664500 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
39664431 AATATATAAC
39664441 TTATATTTTTAATATTTATATTATAATA
1 TTATATTTTT-ATATTTATATTATAATA
* **
39664469 TTATATTTTTATTTTTATAAAATAA-A
1 TTATATTTTTATATTTATATTATAATA
39664495 TTATAT
1 TTATAT
39664501 AAATGTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 7 0.24
27 12 0.41
28 10 0.34
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
TTATATTTTTATATTTATATTATAATA
Found at i:39671833 original size:17 final size:17
Alignment explanation
Indices: 39671813--39671845 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
39671803 TAGAATTGGG
*
39671813 TTGAGAAGTTAATTTAA
1 TTGAGAAATTAATTTAA
39671830 TTGAGAAATTAATTTA
1 TTGAGAAATTAATTTA
39671846 GTTAAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (17 bp):
TTGAGAAATTAATTTAA
Found at i:39674083 original size:35 final size:35
Alignment explanation
Indices: 39674027--39674153 Score: 139
Period size: 35 Copynumber: 3.6 Consensus size: 35
39674017 AAGCTCGACT
* * *
39674027 TTTAGAAAATGTTGGGGTAGACCCGTCTAAGGAAAT
1 TTTA-AAAAGGTTGGGATAGACCCGTCTAAGGAAAC
* *
39674063 TTTAAAAAGGCTGGGATAGACCCGTCTAAGGTAACC
1 TTTAAAAAGGTTGGGATAGACCCGTCTAAGG-AAAC
* ** *
39674099 TTT-AAAAGGTTCGGATAGACCCAACTAAGGCAAC
1 TTTAAAAAGGTTGGGATAGACCCGTCTAAGGAAAC
*
39674133 CTTAAAAAGGTTGGGATAGAC
1 TTTAAAAAGGTTGGGATAGAC
39674154 ATGTCCAAGG
Statistics
Matches: 76, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
34 4 0.05
35 63 0.83
36 9 0.12
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (35 bp):
TTTAAAAAGGTTGGGATAGACCCGTCTAAGGAAAC
Found at i:39677669 original size:46 final size:45
Alignment explanation
Indices: 39677588--39677687 Score: 137
Period size: 46 Copynumber: 2.2 Consensus size: 45
39677578 GGAAAATGAT
* * * *
39677588 TAAGACCATAGTTGAAAGACATTATGGCACTATACCAGAGAAGAAA
1 TAAGACCATAGTTGAAAGACACTATGACACCATACCAGA-AACAAA
* *
39677634 TAAGACCATAGTTGAAATACACTATGACACCATACCAGAAACAAG
1 TAAGACCATAGTTGAAAGACACTATGACACCATACCAGAAACAAA
39677679 TAAGACCAT
1 TAAGACCAT
39677688 GACTGAAAGA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 13 0.27
46 35 0.73
ACGTcount: A:0.46, C:0.19, G:0.16, T:0.19
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACTATGACACCATACCAGAAACAAA
Found at i:39677726 original size:45 final size:45
Alignment explanation
Indices: 39677677--39677800 Score: 205
Period size: 45 Copynumber: 2.8 Consensus size: 45
39677667 ACCAGAAACA
*
39677677 AGTAAGACCATGACTGAAAGATGTTATGGCATCATGATTCTATCG
1 AGTAAGACCATGACTGAAAGACGTTATGGCATCATGATTCTATCG
*
39677722 AGTAAGACCATGACTGAAAGACGTTATGGAATCATGATTCTATCG
1 AGTAAGACCATGACTGAAAGACGTTATGGCATCATGATTCTATCG
*
39677767 AGTAAGACCAT-AGCTGAAAGACGCTATGGCATCA
1 AGTAAGACCATGA-CTGAAAGACGTTATGGCATCA
39677801 CGAATCAAAG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
44 1 0.01
45 73 0.99
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (45 bp):
AGTAAGACCATGACTGAAAGACGTTATGGCATCATGATTCTATCG
Found at i:39677818 original size:45 final size:45
Alignment explanation
Indices: 39677769--39677930 Score: 186
Period size: 45 Copynumber: 3.6 Consensus size: 45
39677759 TTCTATCGAG
* * * *
39677769 TAAGACCATAGCTGAAAGACGCTATGGCATCACGAATC-AAAGAAA
1 TAAGACCATGGTTGAAAGACACTATGGCATCACGAA-CAAAAAAAA
*
39677814 TAAGACCATGGTTGAAAGACACTATGGCAACAC-AACAAAAAATATA
1 TAAGACCATGGTTGAAAGACACTATGGCATCACGAACAAAAAA-A-A
* * * *
39677860 TAAGACCATGGTTGAAAGACATTATGGCATCAAG-ACGAGAATAAA
1 TAAGACCATGGTTGAAAGACACTATGGCATCACGAAC-AAAAAAAA
39677905 TAAGACCATGGTTGAAAGACACTATG
1 TAAGACCATGGTTGAAAGACACTATG
39677931 CCACACTTCG
Statistics
Matches: 101, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
43 1 0.01
44 6 0.06
45 56 0.55
46 34 0.34
47 4 0.04
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.19
Consensus pattern (45 bp):
TAAGACCATGGTTGAAAGACACTATGGCATCACGAACAAAAAAAA
Found at i:39679559 original size:13 final size:13
Alignment explanation
Indices: 39679541--39679572 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
39679531 GAGACACTAG
39679541 CGTGTGTCTCAGC
1 CGTGTGTCTCAGC
39679554 CGTGTGTCTCAGC
1 CGTGTGTCTCAGC
39679567 CGTGTG
1 CGTGTG
39679573 ACCTTTGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.06, C:0.28, G:0.34, T:0.31
Consensus pattern (13 bp):
CGTGTGTCTCAGC
Found at i:39683219 original size:103 final size:103
Alignment explanation
Indices: 39683040--39683245 Score: 385
Period size: 103 Copynumber: 2.0 Consensus size: 103
39683030 AATTCATTTG
*
39683040 AACCATGTACAAATGCACTAACTTGTGGATTTGATGATGTTGTATAGGAATTATGCGAAGCTTAT
1 AACCATGTACAAATGCACTAACTTGTAGATTTGATGATGTTGTATAGGAATTATGCGAAGCTTAT
39683105 GGTTTTAGTTGGTGTTATAATTATGCAATTTACATTAT
66 GGTTTTAGTTGGTGTTATAATTATGCAATTTACATTAT
* *
39683143 AACCATGTACAAATGCACTAACTTGTAGATTTGATGATGTTGTATAGGCATTGTGCGAAGCTTAT
1 AACCATGTACAAATGCACTAACTTGTAGATTTGATGATGTTGTATAGGAATTATGCGAAGCTTAT
39683208 GGTTTTAGTTGGTGTTATAATTATGCAATTTACATTAT
66 GGTTTTAGTTGGTGTTATAATTATGCAATTTACATTAT
39683246 GCAAATGAAA
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 100 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (103 bp):
AACCATGTACAAATGCACTAACTTGTAGATTTGATGATGTTGTATAGGAATTATGCGAAGCTTAT
GGTTTTAGTTGGTGTTATAATTATGCAATTTACATTAT
Found at i:39683871 original size:18 final size:18
Alignment explanation
Indices: 39683850--39683897 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
39683840 TCTTGTCGAA
39683850 AAAATAATTAATTTTTAC
1 AAAATAATTAATTTTTAC
39683868 AAAATAATTAATTTTTAC
1 AAAATAATTAATTTTTAC
39683886 AAAATAATTAAT
1 AAAATAATTAAT
39683898 GTGCACTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAATAATTAATTTTTAC
Found at i:39684549 original size:18 final size:19
Alignment explanation
Indices: 39684521--39684557 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
39684511 GCATTCACAT
39684521 CTTTCCTCTCTTCTCTCCA
1 CTTTCCTCTCTTCTCTCCA
*
39684540 CTTT-CTCTCTTCTTTCCA
1 CTTTCCTCTCTTCTCTCCA
39684558 TTCCGAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.05, C:0.43, G:0.00, T:0.51
Consensus pattern (19 bp):
CTTTCCTCTCTTCTCTCCA
Found at i:39688119 original size:20 final size:20
Alignment explanation
Indices: 39688084--39688132 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
39688074 ATCATGGCCA
*
39688084 TTGCTTA-TTCTTTACTTAC
1 TTGCTTACTTGTTTACTTAC
39688103 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
39688123 TTGCTTACTT
1 TTGCTTACTT
39688133 AAATAACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.14, C:0.22, G:0.06, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:39688418 original size:18 final size:19
Alignment explanation
Indices: 39688390--39688426 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
39688380 GAAACAAAAT
39688390 TGAAAATTTTGGGAAAACA
1 TGAAAATTTTGGGAAAACA
39688409 TGAAAA-TTTGGGAAAACA
1 TGAAAATTTTGGGAAAACA
39688427 GGGGTTACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.49, C:0.05, G:0.22, T:0.24
Consensus pattern (19 bp):
TGAAAATTTTGGGAAAACA
Found at i:39689703 original size:41 final size:41
Alignment explanation
Indices: 39689634--39689764 Score: 172
Period size: 41 Copynumber: 3.2 Consensus size: 41
39689624 AGATACATCA
* *
39689634 TTTTCATTTGTTATCCTTTTCGGGTAACATCTTTTTCAACC
1 TTTTCATTTGATATCCTTTTCGGATAACATCTTTTTCAACC
* * **
39689675 TTTTCATTTGATATCATTTTTGGATAACATCTTTTTCAATA
1 TTTTCATTTGATATCCTTTTCGGATAACATCTTTTTCAACC
* ** *
39689716 TTTTCATTTGAGATCCTTTTCAAATAACATCCTTTTCAACC
1 TTTTCATTTGATATCCTTTTCGGATAACATCTTTTTCAACC
39689757 TTTTCATT
1 TTTTCATT
39689765 GATTCAAAAA
Statistics
Matches: 76, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 76 1.00
ACGTcount: A:0.23, C:0.19, G:0.07, T:0.51
Consensus pattern (41 bp):
TTTTCATTTGATATCCTTTTCGGATAACATCTTTTTCAACC
Found at i:39692341 original size:20 final size:20
Alignment explanation
Indices: 39692306--39692354 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
39692296 ATCATGGCCA
*
39692306 TTGCTTA-TTCTTTACTTAC
1 TTGCTTACTTGTTTACTTAC
39692325 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
39692345 TTGCTTACTT
1 TTGCTTACTT
39692355 AAATAACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.14, C:0.22, G:0.06, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:39692680 original size:50 final size:50
Alignment explanation
Indices: 39692556--39692750 Score: 205
Period size: 50 Copynumber: 3.9 Consensus size: 50
39692546 GATAATAACA
* * ** * * *
39692556 TGCCAAAGCCATGTACCAGACATGGTCTTACATGGGATGTTTCCTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * * **
39692605 TGCCAATTCCATATCCCAGATATGGTATTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * ** *
39692655 TGCCCATGTCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
39692705 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
39692751 ACCTCAATAA
Statistics
Matches: 117, Mismatches: 27, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
48 1 0.01
49 36 0.31
50 80 0.68
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:39700361 original size:50 final size:49
Alignment explanation
Indices: 39700296--39700438 Score: 178
Period size: 50 Copynumber: 2.9 Consensus size: 49
39700286 TCCTGTACTA
* *
39700296 CCAATGCCATATCCCAAATATGGTCTTACATGAGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAAACATGGTCTTACATGAGAG-TCTCATATCGGTG
** * * *
39700346 CCAATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAAACATGGTCTTACATGAGA-GTCTCATATCGGTG
* *
39700396 CCAACGCCATGTCCCAGACATGGTCTTACATGAGACGTCTCAT
1 CCAATGCCATGTCCCAAACATGGTCTTACATGAGA-GTCTCAT
39700439 TACCTCAATA
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
50 79 1.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.26
Consensus pattern (49 bp):
CCAATGCCATGTCCCAAACATGGTCTTACATGAGAGTCTCATATCGGTG
Found at i:39706214 original size:19 final size:19
Alignment explanation
Indices: 39706190--39706229 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
39706180 ATGAGTATGT
39706190 TTCTTGGATTATTATGTAA
1 TTCTTGGATTATTATGTAA
39706209 TTCTTGGATTATTATGTAA
1 TTCTTGGATTATTATGTAA
39706228 TT
1 TT
39706230 GTCACGACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.05, G:0.15, T:0.55
Consensus pattern (19 bp):
TTCTTGGATTATTATGTAA
Found at i:39713088 original size:51 final size:51
Alignment explanation
Indices: 39712972--39713100 Score: 159
Period size: 51 Copynumber: 2.5 Consensus size: 51
39712962 CTACCATCAA
* * *
39712972 ATCTCTAAGAATATAATATCATATCTTCTAAGATTCCATATCTTAGATAAG
1 ATCTCTAAGATTATAATATCATATCTTATAAGATTCCATATCATAGATAAG
* * ** * * **
39713023 ATATGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGATTATAATATCATATCTTATAAGATTCCATATCATAGATAAG
39713074 ATCTCTAAGATTATAATATCATATCTT
1 ATCTCTAAGATTATAATATCATATCTT
39713101 GGCTCTCTAT
Statistics
Matches: 61, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (51 bp):
ATCTCTAAGATTATAATATCATATCTTATAAGATTCCATATCATAGATAAG
Found at i:39716265 original size:51 final size:51
Alignment explanation
Indices: 39716149--39716275 Score: 155
Period size: 51 Copynumber: 2.5 Consensus size: 51
39716139 CTACCATCAA
* * *
39716149 ATCTCTAAGAATATAATATCATATCTTCTAAGATTCCATATCTTAGATAAG
1 ATCTCTAAGATTATAATATCATATCTTATAAGATTCCATATCATAGATAAG
* * ** * * **
39716200 ATATATAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGATTATAATATCATATCTTATAAGATTCCATATCATAGATAAG
39716251 ATCTCTAAGATTATAATATCATATC
1 ATCTCTAAGATTATAATATCATATC
39716276 CTCCATATTT
Statistics
Matches: 59, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.39
Consensus pattern (51 bp):
ATCTCTAAGATTATAATATCATATCTTATAAGATTCCATATCATAGATAAG
Found at i:39716909 original size:36 final size:36
Alignment explanation
Indices: 39716862--39716935 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
39716852 CCATTATGAG
39716862 TATGTTTCTTGGATTATTATGTAATTGTCACGACAT
1 TATGTTTCTTGGATTATTATGTAATTGTCACGACAT
39716898 TATGTTTCTTGGATTATTATGTAATTGTCACGACAT
1 TATGTTTCTTGGATTATTATGTAATTGTCACGACAT
39716934 TA
1 TA
39716936 CTAATAGTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (36 bp):
TATGTTTCTTGGATTATTATGTAATTGTCACGACAT
Found at i:39717496 original size:56 final size:56
Alignment explanation
Indices: 39717410--39717641 Score: 446
Period size: 56 Copynumber: 4.1 Consensus size: 56
39717400 ACAAGGGATG
39717410 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
39717466 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
39717522 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
* *
39717578 ATGGGCAAAACATGTCATCAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
39717634 ATGGGCAA
1 ATGGGCAA
39717642 TAAACTAATA
Statistics
Matches: 174, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 174 1.00
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:39728204 original size:24 final size:24
Alignment explanation
Indices: 39728152--39728229 Score: 68
Period size: 25 Copynumber: 3.2 Consensus size: 24
39728142 GTACATGTAT
* * *
39728152 GCTCATACGAGCTCTGAATCGGTAT
1 GCTCATACGAGCTGT-AAACGGTAA
*
39728177 GCTCTTACGAGCTGTAAACGGTAA
1 GCTCATACGAGCTGTAAACGGTAA
* *
39728201 GCTCATGCAAGCTG-AATATCGGTAA
1 GCTCATACGAGCTGTAA-A-CGGTAA
39728226 GCTC
1 GCTC
39728230 TCTTGAGCTG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
23 2 0.05
24 19 0.43
25 23 0.52
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (24 bp):
GCTCATACGAGCTGTAAACGGTAA
Found at i:39744046 original size:23 final size:23
Alignment explanation
Indices: 39744020--39744065 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
39744010 AATCAAATAA
39744020 AATTGAAATTTAGGAGAAAAATT
1 AATTGAAATTTAGGAGAAAAATT
39744043 AATTGAAATTTAGGAGAAAAATT
1 AATTGAAATTTAGGAGAAAAATT
39744066 TTCTTACCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.30
Consensus pattern (23 bp):
AATTGAAATTTAGGAGAAAAATT
Found at i:39744930 original size:31 final size:30
Alignment explanation
Indices: 39744870--39744930 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
39744860 TTCCTTTAAA
**
39744870 AATATTTACAAAAAGAGACAATTAATTTTT
1 AATATTTACAAAAAGAGACAACCAATTTTT
39744900 AATATTTACAAAAA-AGAACAACCAACTTTTT
1 AATATTTACAAAAAGAG-ACAACCAA-TTTTT
39744931 CAAATAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 2 0.07
30 20 0.74
31 5 0.19
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACAACCAATTTTT
Found at i:39746974 original size:56 final size:53
Alignment explanation
Indices: 39746888--39747177 Score: 232
Period size: 50 Copynumber: 5.7 Consensus size: 53
39746878 ATTTGGGTAA
* * *
39746888 AGAGATCCCATGTAAGACCATGTCAGGGACATGGCATTTGCATCCTTGAGATCATG
1 AGAGATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCA-CC-TGAGA-CATG
*
39746944 AGAGATCCCATGTAAGACCATGCCTGGGACATGTCATTGGCACC-GAGAC--G
1 AGAGATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCACCTGAGACATG
* * * *
39746994 AGAGGTCCCATGTAAGACCAT-CTCTAGGACATGTCGTTGGCA-CTGAG--ATG
1 AGAGATCCCATGTAAGACCATGC-CTGGGACATGGCATTGGCACCTGAGACATG
* ** * * *
39747044 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACC--A-ATATG
1 AGAGATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCACCTGAGACATG
** * * *
39747094 AGA-ACTCCCATGTAAGACCATATCTAGGATATGGCATTGGCA---G-TACATG
1 AGAGA-TCCCATGTAAGACCATGCCTGGGACATGGCATTGGCACCTGAGACATG
* * *
39747143 AAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AGAGATCCCATGTAAGACCATGCCTGGGACATGGC
39747178 TTTGTCATGT
Statistics
Matches: 196, Mismatches: 26, Indels: 31
0.77 0.10 0.12
Matches are distributed among these distances:
49 36 0.18
50 114 0.58
51 1 0.01
52 1 0.01
53 4 0.02
55 2 0.01
56 38 0.19
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (53 bp):
AGAGATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCACCTGAGACATG
Found at i:39747086 original size:100 final size:99
Alignment explanation
Indices: 39746940--39747177 Score: 296
Period size: 100 Copynumber: 2.4 Consensus size: 99
39746930 TCCTTGAGAT
* * * * **
39746940 CATGAGAGATCCCATGTAAGACCATGCCTGGGACATGTCATTGGCACCGAGACGAGAGGTCCCAT
1 CATGAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACGAGAACTCCCAT
* * *
39747005 GTAAGACCATCTCTAGGACATGTCGTTGGCACTGA
66 GTAAGACCATATCTAGGACATGGCATTGGCACT-A
* * ** * *
39747040 GATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCAATATGAGAACTCCCAT
1 CATGAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACGAGAACTCCCAT
* *
39747105 GTAAGACCATATCTAGGATATGGCATTGGCAGTA
66 GTAAGACCATATCTAGGACATGGCATTGGCACTA
* *
39747139 CATGAAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 CATGAGAGATCCCATGTAAGACCATGTCTGGGACATGGC
39747178 TTTGTCATGT
Statistics
Matches: 115, Mismatches: 23, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
99 34 0.30
100 81 0.70
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (99 bp):
CATGAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACGAGAACTCCCAT
GTAAGACCATATCTAGGACATGGCATTGGCACTA
Found at i:39758768 original size:43 final size:42
Alignment explanation
Indices: 39758731--39758893 Score: 177
Period size: 43 Copynumber: 3.8 Consensus size: 42
39758721 TGCCATGTCT
*
39758731 CAGACATGGTCTTACATGGAAATCTCATATCGATGCCAATAGCC
1 CAGACATGGTCTTACAT-GAAATCTCAAATCGATGCC-ATAGCC
** *
39758775 CAGTTATGGTCTTATATGAAATCTCAAATCGATGCCAATAGCC
1 CAGACATGGTCTTACATGAAATCTCAAATCGATGCC-ATAGCC
* ** *
39758818 CAG-CTATTGTCTTACACAAAATCTCAAATCGATGCTAATAGCC
1 CAGAC-ATGGTCTTACATGAAATCTCAAATCGATGC-CATAGCC
*
39758861 CA-ACTATGGTCTTACACGAAATCTCAAATCGAT
1 CAGAC-ATGGTCTTACATGAAATCTCAAATCGAT
39758894 ATTGAAACAT
Statistics
Matches: 104, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
43 90 0.87
44 14 0.13
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.28
Consensus pattern (42 bp):
CAGACATGGTCTTACATGAAATCTCAAATCGATGCCATAGCC
Done.