Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167949.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_21, whole genome shotgun sequence
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: 19848060
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Warning! 113000 characters in sequence are not A, C, G, or T
File 11 of 138
Found at i:3160414 original size:37 final size:37
Alignment explanation
Indices: 3160373--3160453 Score: 85
Period size: 37 Copynumber: 2.2 Consensus size: 37
3160363 GGATTGTTTA
* *
3160373 ATATTTTTATT-TTTATTATTTTTTATTTTT-TATTATT
1 ATATTTTGATTGTTTAATA-TTTTTATTTTTAT-TTATT
**
3160410 ATATTAGGATTGTTTAATATTTTTATTTTTATTTATT
1 ATATTTTGATTGTTTAATATTTTTATTTTTATTTATT
*
3160447 TTATTTT
1 ATATTTT
3160454 CTTTAAATAA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
37 28 0.80
38 7 0.20
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (37 bp):
ATATTTTGATTGTTTAATATTTTTATTTTTATTTATT
Found at i:3160737 original size:58 final size:57
Alignment explanation
Indices: 3160479--3161073 Score: 601
Period size: 58 Copynumber: 10.1 Consensus size: 57
3160469 AAAAAAAAAC
* * * * *
3160479 ATTTTTCCTTAAAAATAAATTTTCAAAAAAAAAAGGTTTTGACGAAAAATTGAAATTATCA
1 ATTTTT-CTTAAAAATAAATTTTC--AAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCA
** * *
3160540 ATTTTTCTCGAAATTAAAAGTTTTCAAAAAATATTTTTG-GAAAAAAGTTGAAAGTATCA
1 ATTTTTCTTAAAAAT-AAA-TTTTCAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCA
* * *
3160599 ATTTTTCTTAAAAATAAATTTTCCAAAAAGGTTTTTTTTTTAGGAAAAGTTGAAAGTATCA
1 ATTTTTCTTAAAAATAAATTTT-CAAAAA---ATATTTTTGAGGAAAAGTTGAAAGTATCA
** *
3160660 A-TTTTCTCGAAATTAAAATTTTCAAAAAATATTTTTGAGGGAAAAGTTGAAAGTATCA
1 ATTTTTCTTAAAAAT-AAATTTTCAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCA
* *
3160718 ATTTTTCTTAAAAATAAATTTTCAAAAAAAAGATTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTTCTTAAAAATAAATTTTCAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCA
** *
3160776 ATTTTTCTCGAAATTAAAGTTTTCAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCA
1 ATTTTTCTTAAAAATAAA-TTTTCAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCA
* * ** *
3160834 ATTTTCCTTAAAGATAAATTTTCAAAGGA-ATTTTTGAGGAAAAGTTAAAAGTATCA
1 ATTTTTCTTAAAAATAAATTTTCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
* *
3160890 ATTTTCCTTAAAAATAAGCTTTCTACAAAAAAAATATTTTT-AGGGAAAAAGTTGAAAGTATCA
1 ATTTTTCTTAAAAATAA-ATTT-T-C--AAAAAATATTTTTGA-GG-AAAAGTTGAAAGTATCA
* *
3160953 ATTTTTCTTAAAAATAAGTTTTCAAAAATAAATTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTTCTTAAAAATAAATTTTCAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCA
* * * *
3161011 ATTTTCCTCAAAATTAAAGTTTT-AAAAGAATATTTTTG-GGAAAAAATTGAAAGTATCA
1 ATTTTTCTTAAAAATAAA-TTTTCAAAA-AATATTTTTGAGG-AAAAGTTGAAAGTATCA
3161069 ATTTT
1 ATTTT
3161074 CCCTGAAAAA
Statistics
Matches: 452, Mismatches: 54, Indels: 59
0.80 0.10 0.10
Matches are distributed among these distances:
56 39 0.09
57 29 0.06
58 183 0.40
59 75 0.17
60 31 0.07
61 46 0.10
62 17 0.04
63 32 0.07
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (57 bp):
ATTTTTCTTAAAAATAAATTTTCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
Found at i:3160830 original size:235 final size:234
Alignment explanation
Indices: 3160479--3161075 Score: 839
Period size: 235 Copynumber: 2.5 Consensus size: 234
3160469 AAAAAAAAAC
* * * *
3160479 ATTTTTCCTTAAAAATAAATTTTCAAAAAAAAAAGGTTTTGACGAAAAATTGAAATTATCAATTT
1 ATTTTT-CTTAAAAATAAATTTTC--AAAAAAAAGATTTTGAGGAAAAGTTGAAAGTATCAATTT
* *
3160544 TTCTCGAAATTAAAAGTTTTCAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTTCTTA
63 TTCTCGAAATT-AAAGTTTTCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTA
** * * * *
3160609 AAAATAAATTTTCCAAAAAGGTTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTT-CTCGAAAT
127 AAAATAAATTTT-C--AAAGG--AATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTCAAAAA
3160673 TAAAATTT-T-C-AAAAAATATTTTTGAGGG-AAAAGTTGAAAGTATCA
187 TAAAATTTCTACAAAAAAATATTTTT-AGGGAAAAAGTTGAAAGTATCA
3160718 ATTTTTCTTAAAAATAAATTTTCAAAAAAAAGATTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
1 ATTTTTCTTAAAAATAAATTTTCAAAAAAAAGATTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
*
3160783 TCGAAATTAAAGTTTTCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAGA
66 TCGAAATTAAAGTTTTCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
* **
3160848 TAAATTTTCAAAGGAATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAGCTTTC
131 TAAATTTTCAAAGGAATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTCAAAAATAAAATTTC
3160913 TACAAAAAAAATATTTTTAGGGAAAAAGTTGAAAGTATCA
196 TAC-AAAAAAATATTTTTAGGGAAAAAGTTGAAAGTATCA
* * *
3160953 ATTTTTCTTAAAAATAAGTTTTCAAAAATAAA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
1 ATTTTTCTTAAAAATAAATTTTCAAAAA-AAAGATTTTGAGGAAAAGTTGAAAGTATCAATTTTT
* *
3161017 CTCAAAATTAAAGTTTT-AAAAGAATATTTTTGGGAAAAAATTGAAAGTATCAATTTTCC
65 CTCGAAATTAAAGTTTTCAAAA-AATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCC
3161076 CTGAAAAAAA
Statistics
Matches: 329, Mismatches: 21, Indels: 20
0.89 0.06 0.05
Matches are distributed among these distances:
230 29 0.09
231 11 0.03
232 6 0.02
233 1 0.00
234 9 0.03
235 201 0.61
236 49 0.15
238 17 0.05
239 6 0.02
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (234 bp):
ATTTTTCTTAAAAATAAATTTTCAAAAAAAAGATTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
TCGAAATTAAAGTTTTCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
TAAATTTTCAAAGGAATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTCAAAAATAAAATTTC
TACAAAAAAATATTTTTAGGGAAAAAGTTGAAAGTATCA
Found at i:3160951 original size:177 final size:174
Alignment explanation
Indices: 3160515--3161075 Score: 649
Period size: 177 Copynumber: 3.2 Consensus size: 174
3160505 AAAAAAAAGG
* * * * ** *
3160515 TTTTGACGAAAAATTGAAATTATCAATTTTTCTCGAAATTAAAAGTTTTC--AAAAAATATTTTT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTCAAAAAAAATATTTTT
* * * *
3160578 -GGAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTTCCAAAAAGGTTTTTTTTTTA
64 AGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTTT-CAAAAA---TATATTTTTG
* *
3160641 GGAAAAGTTGAAAGTATCAATTTT-CTCGAAATTAAAATTTTCAAAAAATAT
125 GGAAAAGTTGAAAGTATCAATTTTCCTC-AAAAT-AAATTTTCAAAGAATAT
* * *
3160692 TTTTGAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAAGATTTTGA
1 TTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAATATTTTTA
** *
3160757 -GG-AAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTCAAAAA-ATATTTTTGGGAAA
65 GGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTTTCAAAAATATATTTTTGGG-AA
* *
3160819 AAGTTGAAAGTATCAATTTTCCTTAAAGATAAATTTTCAAAGGA-AT
129 AAGTTGAAAGTATCAATTTTCCTCAAA-ATAAATTTTCAAAGAATAT
* *
3160865 TTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAGCTTTCTACAAAAAAAATATTTT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAA-ATTT-T-CAAAAAAAATATTTT
*
3160930 TAGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAGTTTTCAAAAATAAATTTTTGAGG
63 TAGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTTTCAAAAATATATTTTTG-GG
*
3160994 AAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAGTTTTAAAAGAATAT
127 AAAAGTTGAAAGTATCAATTTTCCTCAAAA-TAAA-TTTTCAAAGAATAT
*
3161044 TTTTG-GGAAAAAATTGAAAGTATCAATTTTCC
1 TTTTGAGG-AAAAGTTGAAAGTATCAATTTTCC
3161076 CTGAAAAAAA
Statistics
Matches: 332, Mismatches: 33, Indels: 36
0.83 0.08 0.09
Matches are distributed among these distances:
172 34 0.10
173 19 0.06
174 38 0.11
175 18 0.05
176 21 0.06
177 116 0.35
178 57 0.17
179 29 0.09
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.37
Consensus pattern (174 bp):
TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAATATTTTTAG
GGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTTTCAAAAATATATTTTTGGGAAAA
GTTGAAAGTATCAATTTTCCTCAAAATAAATTTTCAAAGAATAT
Found at i:3164987 original size:11 final size:11
Alignment explanation
Indices: 3164947--3165036 Score: 55
Period size: 11 Copynumber: 8.1 Consensus size: 11
3164937 CAATGGATGA
3164947 AAAATGAAAAAT
1 AAAA-GAAAAAT
*
3164959 AAAAGAAGATGAT
1 AAAAGAA-A-AAT
3164972 GAAAAGAAAAAT
1 -AAAAGAAAAAT
* *
3164984 AAAAAAAAAAG
1 AAAAGAAAAAT
3164995 AAAA-AAAAA-
1 AAAAGAAAAAT
3165004 AGAAAGAAAAA-
1 A-AAAGAAAAAT
3165015 AGAAA-AAAAAT
1 A-AAAGAAAAAT
*
3165026 GAAA-AAAAAT
1 AAAAGAAAAAT
3165036 A
1 A
3165037 GTCAAATTGA
Statistics
Matches: 66, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
9 1 0.02
10 22 0.33
11 26 0.39
12 7 0.11
13 3 0.05
14 7 0.11
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (11 bp):
AAAAGAAAAAT
Found at i:3164988 original size:1 final size:1
Alignment explanation
Indices: 3164973--3165034 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
3164963 GAAGATGATG
* * * * * * **
3164973 AAAAGAAAAATAAAAAAAAAAGAAAAAAAAAAGAAAGAAAAAAGAAAAAAAATGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3165035 TAGTCAAATT
Statistics
Matches: 46, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (1 bp):
A
Found at i:3164998 original size:10 final size:10
Alignment explanation
Indices: 3164985--3165034 Score: 73
Period size: 11 Copynumber: 4.8 Consensus size: 10
3164975 AAGAAAAATA
3164985 AAAAAAAAAG
1 AAAAAAAAAG
3164995 AAAAAAAAAAG
1 -AAAAAAAAAG
3165006 AAAGAAAAAAG
1 AAA-AAAAAAG
*
3165017 AAAAAAAATG
1 AAAAAAAAAG
3165027 AAAAAAAA
1 AAAAAAAA
3165035 TAGTCAAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
10 17 0.46
11 20 0.54
ACGTcount: A:0.88, C:0.00, G:0.10, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:3165003 original size:22 final size:22
Alignment explanation
Indices: 3164972--3165034 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
3164962 AGAAGATGAT
* *
3164972 GAAAAGAAAAATAAAAAAAAAA
1 GAAAAAAAAAAGAAAAAAAAAA
*
3164994 GAAAAAAAAAAGAAAGAAAAAA
1 GAAAAAAAAAAGAAAAAAAAAA
*
3165016 G-AAAAAAAATGAAAAAAAA
1 GAAAAAAAAAAGAAAAAAAA
3165035 TAGTCAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 16 0.44
22 20 0.56
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (22 bp):
GAAAAAAAAAAGAAAAAAAAAA
Found at i:3165010 original size:32 final size:32
Alignment explanation
Indices: 3164974--3165034 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
3164964 AAGATGATGA
3164974 AAAGAAAAATA-AAAAAAAAAGAAAAAAAAAAG
1 AAAGAAAAA-AGAAAAAAAAAGAAAAAAAAAAG
*
3165006 AAAGAAAAAAGAAAAAAAATGAAAAAAAA
1 AAAGAAAAAAGAAAAAAAAAGAAAAAAAA
3165035 TAGTCAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 1 0.04
32 26 0.96
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (32 bp):
AAAGAAAAAAGAAAAAAAAAGAAAAAAAAAAG
Found at i:3165031 original size:39 final size:43
Alignment explanation
Indices: 3164943--3165032 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 43
3164933 TCAACAATGG
* * *
3164943 ATGAAAAATGAAAAATAAAAGAAGATGATGAAAAGAAAAATAA
1 ATGAAAAAAGAAAAAAAAAAGAAGATGATAAAAAGAAAAATAA
*
3164986 A-AAAAAAAGAAAAAAAAAAGAA-A-GA-AAAAAGAAAAA-AA
1 ATGAAAAAAGAAAAAAAAAAGAAGATGATAAAAAGAAAAATAA
3165024 ATGAAAAAA
1 ATGAAAAAA
3165033 AATAGTCAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
38 3 0.07
39 16 0.39
40 2 0.05
41 1 0.02
42 18 0.44
43 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (43 bp):
ATGAAAAAAGAAAAAAAAAAGAAGATGATAAAAAGAAAAATAA
Found at i:3165032 original size:17 final size:15
Alignment explanation
Indices: 3164973--3165034 Score: 79
Period size: 15 Copynumber: 3.9 Consensus size: 15
3164963 GAAGATGATG
3164973 AAAAGAAAAATAAAAAA
1 AAAAG-AAAA-AAAAAA
3164990 AAAAGAAAAAAAAAA
1 AAAAGAAAAAAAAAA
*
3165005 GAAAGAAAAAAGAAAA
1 AAAAGAAAAAA-AAAA
3165021 AAAATGAAAAAAAA
1 AAAA-GAAAAAAAA
3165035 TAGTCAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
15 16 0.39
16 13 0.32
17 12 0.29
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (15 bp):
AAAAGAAAAAAAAAA
Found at i:3165035 original size:10 final size:10
Alignment explanation
Indices: 3164973--3165034 Score: 74
Period size: 10 Copynumber: 6.3 Consensus size: 10
3164963 GAAGATGATG
3164973 AAAAGAAAAA
1 AAAAGAAAAA
*
3164983 TAAA-AAAAA
1 AAAAGAAAAA
*
3164992 AAGA-AAAAA
1 AAAAGAAAAA
3165001 AAAAGAAAGAA
1 AAAAGAAA-AA
3165012 AAAAGAAAAA
1 AAAAGAAAAA
*
3165022 AAATGAAAAA
1 AAAAGAAAAA
3165032 AAA
1 AAA
3165035 TAGTCAAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
9 15 0.33
10 20 0.44
11 10 0.22
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:3165801 original size:63 final size:63
Alignment explanation
Indices: 3165723--3165847 Score: 207
Period size: 63 Copynumber: 2.0 Consensus size: 63
3165713 ACTGGTGCTG
* *
3165723 AGAAGCTTATGAACGATGACCAAGTGACAG-ATGATGAAATTTGTTTTGAAATGGCTAGTATTA
1 AGAAGCTTATAAACGATGACCAAGTGACAGAAT-ATGAAATTTATTTTGAAATGGCTAGTATTA
*
3165786 AGAAGCTTATAAACGATGACCAAGTGACAGAATATGAAATTTATTTTGAAATGGTTAGTATT
1 AGAAGCTTATAAACGATGACCAAGTGACAGAATATGAAATTTATTTTGAAATGGCTAGTATT
3165848 GATAAGCCTG
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
63 56 0.97
64 2 0.03
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (63 bp):
AGAAGCTTATAAACGATGACCAAGTGACAGAATATGAAATTTATTTTGAAATGGCTAGTATTA
Found at i:3166544 original size:43 final size:42
Alignment explanation
Indices: 3166496--3166601 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 42
3166486 GCCTTTGAAC
*
3166496 TCAAATGAGAAGCTTTGAATTTTTAGATGTGAATCTCCAAAAT
1 TCAAATGAGAAGCTTTGAATTTTTAGATATGAAT-TCCAAAAT
* * **
3166539 TCAAATGAAAAGCTTT-AGATTTTTGGATATGAATTCCAAGTT
1 TCAAATGAGAAGCTTTGA-ATTTTTAGATATGAATTCCAAAAT
*
3166581 TGCCAAATGAGAACCTTTGAA
1 T--CAAATGAGAAGCTTTGAA
3166602 AAGCCTTGAA
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
42 8 0.15
43 29 0.56
44 14 0.27
45 1 0.02
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (42 bp):
TCAAATGAGAAGCTTTGAATTTTTAGATATGAATTCCAAAAT
Found at i:3166931 original size:41 final size:41
Alignment explanation
Indices: 3166870--3167247 Score: 480
Period size: 41 Copynumber: 9.2 Consensus size: 41
3166860 TATTGTCAAT
* *
3166870 GAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAG
* * *
3166911 GAGCAATTTACTTTTTAAAGTCGTGGTGCTTCTATTTAGAA
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAG
* *
3166952 GAGCAATTTAC-TTTCTAAAGTCGCGGTGCCTCTATTTAAAG
1 GAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTATTTAGAG
* *
3166993 GAGCAATTTACTTTTCAAAGTCATGGTGCCTTTATTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAG
* * *
3167034 GAACAATTTACTTTTCAAAGTTGTGGTACCTCTATTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAG
* * * *
3167075 GAGTAATTTA-TTTTCCAAAGTTTCAT--TACCTCTGTTTAGAG
1 GAGCAATTTACTTTT-CAAAG--TCGTGGTGCCTCTATTTAGAG
*
3167116 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTTTATTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAG
*
3167157 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAG
* *
3167198 GAGCAATTTATTTTTCAAAGTTTCGT--TGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAG--TCGTGGTGCCTCTATTTAGAG
3167239 GAGCAATTT
1 GAGCAATTT
3167248 TCGTTACCTC
Statistics
Matches: 295, Mismatches: 32, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
39 3 0.01
40 7 0.02
41 271 0.92
42 8 0.03
43 6 0.02
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.39
Consensus pattern (41 bp):
GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAG
Found at i:3167095 original size:123 final size:123
Alignment explanation
Indices: 3166870--3167416 Score: 638
Period size: 123 Copynumber: 4.6 Consensus size: 123
3166860 TATTGTCAAT
* *
3166870 GAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTAAAGTCGT
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT
* * * *
3166935 GGTGCTTCTATTTAGAAGAGCAATTTACTTTCTAAAGTCGCGGTGCCTCTATTTAAAG
66 GGTGCCTCTATTTAGAAGAGCAATTTATTTTCCAAAGTCGCGGTGCCTCTATTTAGAG
* * * * *
3166993 GAGCAATTTACTTTTCAAAGTCATGGTGCCTTTATTTAGAGGAACAATTTACTTTTCAAAGTTGT
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT
* * * ** ** * *
3167058 GGTACCTCTATTTAGAGGAGTAATTTATTTTCCAAAGTTTCATTACCTCTGTTTAGAG
66 GGTGCCTCTATTTAGAAGAGCAATTTATTTTCCAAAGTCGCGGTGCCTCTATTTAGAG
* *
3167116 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTTTATTTAGAGGAGCAATTTACTTTTCAAAGTCGT
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT
* * * ** * *
3167181 GGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTTCGTTGCCTCTGTTTAGAG
66 GGTGCCTCTATTTAGAAGAGCAATTTATTTTCCAAAGTCGCGGTGCCTCTATTTAGAG
* *
3167239 GAGC-A---A--TTT-----TCGT--TACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCAT
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT
* *
3167291 GGTGCCTCTATTTAGAAGAGCAATTTATTTTTCAAAGTCGTGGTTGCCTCTATTTAGAG
66 GGTGCCTCTATTTAGAAGAGCAATTTATTTTCCAAAGTCGCGG-TGCCTCTATTTAGAG
* * * * *
3167350 AAGCAATTTACTTTTTAAAGTTGTGGTGCCTCTGTTTAGAGGAGC-ATTTA-TTTTTAAAGTCAT
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT
3167413 GGTG
66 GGTG
3167417 TTTCTGCTTA
Statistics
Matches: 366, Mismatches: 44, Indels: 29
0.83 0.10 0.07
Matches are distributed among these distances:
110 72 0.20
111 17 0.05
112 5 0.01
115 1 0.00
117 6 0.02
119 1 0.00
122 20 0.05
123 226 0.62
124 18 0.05
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (123 bp):
GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT
GGTGCCTCTATTTAGAAGAGCAATTTATTTTCCAAAGTCGCGGTGCCTCTATTTAGAG
Found at i:3167282 original size:33 final size:28
Alignment explanation
Indices: 3167218--3167275 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
3167208 TTTTTCAAAG
*
3167218 TTTCGTTGCCTCTGTTTAGAGGAGCAAT
1 TTTCGTTACCTCTGTTTAGAGGAGCAAT
3167246 TTTCGTTACCTCTGTTTAGAGGAGCAAT
1 TTTCGTTACCTCTGTTTAGAGGAGCAAT
3167274 TT
1 TT
3167276 ACTTTTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.41
Consensus pattern (28 bp):
TTTCGTTACCTCTGTTTAGAGGAGCAAT
Found at i:3167297 original size:69 final size:69
Alignment explanation
Indices: 3167185--3167316 Score: 203
Period size: 69 Copynumber: 1.9 Consensus size: 69
3167175 AGTCGTGGTG
* * * * *
3167185 CCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTTCGTTGCCTCTGTTTAGAGGAGCAATTTTC
1 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTATCGGTGCCTCTATTTAGAAGAGCAATTTTC
3167250 GTTA
66 GTTA
3167254 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCAT-GGTGCCTCTATTTAGAAGAGCAATTT
1 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT-ATCGGTGCCTCTATTTAGAAGAGCAATTT
3167317 ATTTTTCAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
69 56 0.98
70 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (69 bp):
CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTATCGGTGCCTCTATTTAGAAGAGCAATTTTC
GTTA
Found at i:3167312 original size:41 final size:41
Alignment explanation
Indices: 3167254--3167416 Score: 197
Period size: 41 Copynumber: 4.0 Consensus size: 41
3167244 ATTTTCGTTA
* *
3167254 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCATGGTG
1 CCTCTATTTAGAAGAGCAATTTACTTTTCAAAGTCATGGTG
* *
3167295 CCTCTATTTAGAAGAGCAATTTATTTTTCAAAGTCGTGGTTG
1 CCTCTATTTAGAAGAGCAATTTACTTTTCAAAGTCATGG-TG
* **
3167337 CCTCTATTTAG-AGAAGCAATTTACTTTTTAAAGTTGTGGTG
1 CCTCTATTTAGAAG-AGCAATTTACTTTTCAAAGTCATGGTG
* * *
3167378 CCTCTGTTTAGAGGAGC-ATTTA-TTTTTAAAGTCATGGTG
1 CCTCTATTTAGAAGAGCAATTTACTTTTCAAAGTCATGGTG
3167417 TTTCTGCTTA
Statistics
Matches: 108, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
39 15 0.14
40 5 0.05
41 52 0.48
42 36 0.33
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (41 bp):
CCTCTATTTAGAAGAGCAATTTACTTTTCAAAGTCATGGTG
Found at i:3167395 original size:83 final size:81
Alignment explanation
Indices: 3167254--3167415 Score: 234
Period size: 83 Copynumber: 2.0 Consensus size: 81
3167244 ATTTTCGTTA
* *
3167254 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCATGGTGCCTCTATTTAGAAGAGCAATTTAT
1 CCTCTATTTAGAGAAGCAATTTACTTTTCAAAGTCATGGTGCCTCTATTTAGAAGAGC-ATTTAT
*
3167319 TTTTCAAAGTCGTGGTTG
65 TTTT-AAAGTCATGGTTG
* ** * *
3167337 CCTCTATTTAGAGAAGCAATTTACTTTTTAAAGTTGTGGTGCCTCTGTTTAGAGGAGCATTTATT
1 CCTCTATTTAGAGAAGCAATTTACTTTTCAAAGTCATGGTGCCTCTATTTAGAAGAGCATTTATT
3167402 TTTAAAGTCATGGT
66 TTTAAAGTCATGGT
3167416 GTTTCTGCTT
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 10 0.14
82 10 0.14
83 51 0.72
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.40
Consensus pattern (81 bp):
CCTCTATTTAGAGAAGCAATTTACTTTTCAAAGTCATGGTGCCTCTATTTAGAAGAGCATTTATT
TTTAAAGTCATGGTTG
Found at i:3167509 original size:11 final size:11
Alignment explanation
Indices: 3167486--3167520 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
3167476 TTGATCATTT
3167486 AAAA-AAAAA-
1 AAAACAAAAAC
3167495 AAAACAAAAAC
1 AAAACAAAAAC
3167506 AAAACAAAAAC
1 AAAACAAAAAC
3167517 AAAA
1 AAAA
3167521 AAATTTTACC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 4 0.17
10 5 0.21
11 15 0.62
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAACAAAAAC
Found at i:3167576 original size:42 final size:42
Alignment explanation
Indices: 3167529--3167670 Score: 169
Period size: 42 Copynumber: 3.3 Consensus size: 42
3167519 AAAAATTTTA
3167529 CCTCTGATTAGAGGAGCCTTTTATTTTTCAAAAGTCATTGAG
1 CCTCTGATTAGAGGAGCCTTTTATTTTTCAAAAGTCATTGAG
* * * *
3167571 CCTCTGATTAGAGGAGCCATTTATTTTTCAAAAAATCGTTCAG
1 CCTCTGATTAGAGGAGCCTTTTATTTTTC-AAAAGTCATTGAG
* ** *
3167614 CCTTTGATTAGAGGAGTTTTGTTTATTTTTTAAAAGT-ATTTGAG
1 CCTCTGATTAGAGGAG-CCT-TTTATTTTTCAAAAGTCA-TTGAG
3167658 CCTCTGATTAGAG
1 CCTCTGATTAGAG
3167671 AAGTTTTGTT
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
42 28 0.34
43 25 0.30
44 21 0.25
45 9 0.11
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (42 bp):
CCTCTGATTAGAGGAGCCTTTTATTTTTCAAAAGTCATTGAG
Found at i:3167668 original size:44 final size:43
Alignment explanation
Indices: 3167529--3167694 Score: 151
Period size: 42 Copynumber: 3.8 Consensus size: 43
3167519 AAAAATTTTA
*
3167529 CCTCTGATTAGAGGAGCCT-TTTATTTTTCAAAAGTCA-TTGAG
1 CCTCTGATTAGAGGAGTCTGTTTATTTTTCAAAAGT-ATTTGAG
** * *
3167571 CCTCTGATTAGAGGAG-CCATTTATTTTTCAAAA-AATCGTTCAG
1 CCTCTGATTAGAGGAGTCTGTTTATTTTTCAAAAGTAT--TTGAG
* * *
3167614 CCTTTGATTAGAGGAGTTTTGTTTATTTTTTAAAAGTATTTGAG
1 CCTCTGATTAGAGGAG-TCTGTTTATTTTTCAAAAGTATTTGAG
* *
3167658 CCTCTGATTAGAGAAGTTTTGTTTATATTCTTCAAAA
1 CCTCTGATTAGAGGAG-TCTGTTTAT-TT-TTCAAAA
3167695 TCGTTAAGCA
Statistics
Matches: 102, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 30 0.29
43 19 0.19
44 28 0.27
45 15 0.15
46 8 0.08
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (43 bp):
CCTCTGATTAGAGGAGTCTGTTTATTTTTCAAAAGTATTTGAG
Found at i:3167723 original size:45 final size:43
Alignment explanation
Indices: 3167548--3167723 Score: 133
Period size: 45 Copynumber: 4.0 Consensus size: 43
3167538 AGAGGAGCCT
* * * ***
3167548 TTTATTTTTCAAAAGTCATTGAGCCTCTGATTAGAGGAG--CCA
1 TTTATTTTTCAAAA-TCGTTAAGCCTCTGATTAGAAGAGTTTTG
* * *
3167590 TTTATTTTTCAAAAAATCGTTCAGCCTTTGATTAGAGGAGTTTTG
1 TTTATTTTTC--AAAATCGTTAAGCCTCTGATTAGAAGAGTTTTG
* ** *
3167635 TTTATTTTTTAAAAGTATTTGAGCCTCTGATTAG-AGAAGTTTTG
1 TTTATTTTTCAAAA-TCGTTAAGCCTCTGATTAGAAG-AGTTTTG
* *
3167679 TTTATATTCTTCAAAATCGTTAAGCATCTGCTTAGAAGAGTTTTG
1 TTTAT-TT-TTCAAAATCGTTAAGCCTCTGATTAGAAGAGTTTTG
3167724 ATTAAATTTT
Statistics
Matches: 107, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
42 10 0.09
43 26 0.24
44 31 0.29
45 32 0.30
46 8 0.07
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.43
Consensus pattern (43 bp):
TTTATTTTTCAAAATCGTTAAGCCTCTGATTAGAAGAGTTTTG
Found at i:3167936 original size:40 final size:44
Alignment explanation
Indices: 3167867--3168026 Score: 120
Period size: 43 Copynumber: 3.6 Consensus size: 44
3167857 CTTAGTTACT
*
3167867 TATTATTTATTATTACTATCTATTAATATATATATT-TTATTT-TC
1 TATT-TTTATTATTA-TATCTATTAATATACATATTATTATTTATC
* *
3167911 -ATTTTTATTATT-TATCTGTTGATATACATATTATTATTTATC
1 TATTTTTATTATTATATCTATTAATATACATATTATTATTTATC
* *
3167953 TATTATTATTATTATTATTTATCT-AT-TA-ATAGTT-TTATTTATC
1 TATTTTTATTATTA-TATCTAT-TAATATACATA-TTATTATTTATC
* * *
3167996 TAATTATTTTTTTTTGTTATCTATTAATATA
1 T-ATT-TTTATTATT-ATATCTATTAATATA
3168027 TTTATCTTTT
Statistics
Matches: 93, Mismatches: 11, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
40 17 0.18
41 6 0.06
42 11 0.12
43 27 0.29
44 8 0.09
45 21 0.23
46 3 0.03
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.62
Consensus pattern (44 bp):
TATTTTTATTATTATATCTATTAATATACATATTATTATTTATC
Found at i:3167947 original size:26 final size:23
Alignment explanation
Indices: 3167915--3168003 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 23
3167905 ATTTTCATTT
*
3167915 TTATTATTTATCTGTTGATATACATA
1 TTATTATTTATCTATT-AT-TA-ATA
*
3167941 TTATTATTTATCTATTATTATTA
1 TTATTATTTATCTATTATTAATA
3167964 TTATTATTTATC---TATTAATA
1 TTATTATTTATCTATTATTAATA
3167984 GTT-TTATTTATCTAATTATT
1 -TTATTATTTATCT-ATTATT
3168004 TTTTTTTGTT
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
20 16 0.29
21 2 0.04
23 14 0.25
24 6 0.11
25 2 0.04
26 15 0.27
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (23 bp):
TTATTATTTATCTATTATTAATA
Found at i:3167964 original size:20 final size:20
Alignment explanation
Indices: 3167939--3168021 Score: 73
Period size: 20 Copynumber: 4.1 Consensus size: 20
3167929 TTGATATACA
*
3167939 TATTATTATTTATCTAT-TAT
1 TATTATTA-TTATTTATCTAT
3167959 TATTATTATTATTTATCTAT
1 TATTATTATTATTTATCTAT
*
3167979 TAATAGTT-TTATTTATCTAAT
1 TATTA-TTATTATTTATCT-AT
* *
3168000 TATT-TTTTTTTGTTATCTAT
1 TATTATTATTAT-TTATCTAT
3168020 TA
1 TA
3168022 ATATATTTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
19 9 0.17
20 32 0.59
21 13 0.24
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (20 bp):
TATTATTATTATTTATCTAT
Found at i:3167965 original size:23 final size:23
Alignment explanation
Indices: 3167866--3168003 Score: 90
Period size: 23 Copynumber: 5.8 Consensus size: 23
3167856 TCTTAGTTAC
*
3167866 TTATTATTTAT-TATTACTATCTA
1 TTATTATTTATCTATTATTAT-TA
* * *
3167889 TTAATATATATATTTTATT-TTCATTT
1 TT-AT-TATTTA-TCTATTATT-ATTA
* *
3167915 TTATTATTTATCTGTTGATATACATA
1 TTATTATTTATCTATT-AT-TA-TTA
3167941 TTATTATTTATCTATTATTATTA
1 TTATTATTTATCTATTATTATTA
3167964 TTATTATTTATCTATTA--A-TA
1 TTATTATTTATCTATTATTATTA
3167984 GTT-TTATTTATCTAATTATT
1 -TTATTATTTATCT-ATTATT
3168004 TTTTTTTGTT
Statistics
Matches: 92, Mismatches: 10, Indels: 26
0.72 0.08 0.20
Matches are distributed among these distances:
20 12 0.13
21 7 0.08
23 25 0.27
24 9 0.10
25 11 0.12
26 22 0.24
27 6 0.07
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (23 bp):
TTATTATTTATCTATTATTATTA
Found at i:3167966 original size:46 final size:44
Alignment explanation
Indices: 3167867--3168026 Score: 115
Period size: 40 Copynumber: 3.7 Consensus size: 44
3167857 CTTAGTTACT
* *
3167867 TATTATTTATTATTA-CTATCTATTAATATATATATTTTATTTTC
1 TATTA-TTATTATTATTTATCTATTAATATACATATTTTATTTTC
* *
3167911 -A-T-TT-TTATTATTTATCTGTTGATATACATATTATTATTTATC
1 TATTATTATTATTATTTATCTATTAATATACATATT-TTATTT-TC
*
3167953 TATTATTATTATTA-TTATTTATCT-AT-TA-ATAGTTTTATTTATC
1 TATTATTATTATTATTTATCTAT-TAATATACATA-TTTTATTT-TC
* *
3167996 TAATTATT-TTTTTTTGTTATCTATTAATATA
1 T-ATTATTATTATTAT-TTATCTATTAATATA
3168027 TTTATCTTTT
Statistics
Matches: 93, Mismatches: 9, Indels: 26
0.73 0.07 0.20
Matches are distributed among these distances:
39 6 0.06
40 19 0.20
41 6 0.06
42 3 0.03
43 19 0.20
44 12 0.13
45 19 0.20
46 9 0.10
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.62
Consensus pattern (44 bp):
TATTATTATTATTATTTATCTATTAATATACATATTTTATTTTC
Found at i:3168031 original size:41 final size:43
Alignment explanation
Indices: 3167944--3168024 Score: 116
Period size: 41 Copynumber: 1.9 Consensus size: 43
3167934 ATACATATTA
3167944 TTATTTATCTATTATTATTATTATTATTTATCTATTAATAGTT
1 TTATTTATCTATTATTATTATTATTATTTATCTATTAATAGTT
3167987 TTATTTATCTAATTATT-TT-TT-TT-TGTTATCTATTAATA
1 TTATTTATCT-ATTATTATTATTATTAT-TTATCTATTAATA
3168025 TATTTATCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
40 1 0.03
41 15 0.42
42 2 0.06
43 12 0.33
44 6 0.17
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.64
Consensus pattern (43 bp):
TTATTTATCTATTATTATTATTATTATTTATCTATTAATAGTT
Found at i:3168627 original size:119 final size:117
Alignment explanation
Indices: 3168444--3168982 Score: 665
Period size: 119 Copynumber: 4.6 Consensus size: 117
3168434 AAAAAAAAAT
3168444 ATTTTTCCTTAAAAATAAATTTTCAAAAAAAAAGTTTTTGAGAAAAAGTTGAAAGTATCAATTTT
1 ATTTTT-CTTAAAAATAAATTTTCAAAAAAAAA-TTTTTGAGAAAAAGTTGAAAGTATCAATTTT
*
3168509 TCTCGAAATTAAAAGTTTCCAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCA
64 TCTCGAAATTAAAAGTTTCCAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCA
***
3168563 ATTTTTCTTAAAAATAAATTTTCAAAAAAGGTTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTT
1 ATTTTTCTTAAAAATAAATTTTCAAAAAA--AAATTTTTGAGAAAAAGTTGAAAGTATCAATTTT
* * * **
3168628 CCTCAAAATTAAAAGTTTTCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCA
64 TCTCGAAATTAAAAGTTTCCAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCA
* *
3168682 A-TTTTCTTTAAAAATAAATTTTCAAAAAAAAAGATTTTGAGGAAAAGTTGAAAGTATCAA-TTT
1 ATTTTTC-TTAAAAATAAATTTTCAAAAAAAAA-TTTTTGAGAAAAAGTTGAAAGTATCAATTTT
*
3168745 TCTTCGAAATT-AAAGTTTTCAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCA
64 TC-TCGAAATTAAAAGTTTCCAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCA
* * ** * *
3168799 ATTTTCCTTAAAGATAAATTTTC--AAAGGAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
1 ATTTTTCTTAAAAATAAATTTTCAAAAAAAAATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTC
* * ***
3168862 TTGAAAATAAGCTTTTCACAAAAAAAATATTTTTTGGAAAAAAGTTGAAAGTATCA
66 TCGAAATTAAAAGTTTC-C--AAAAAATA-TTTTTGGAAAAAAGTTGAAAGTATCA
* ** * * * * *
3168918 ATTTTCCTCGAAATTAAAGTTTCAAAAGAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTC
1 ATTTTTCTTAAAAATAAATTTTCAAAAAAAAATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTC
3168983 CTGCACAAAA
Statistics
Matches: 366, Mismatches: 40, Indels: 26
0.85 0.09 0.06
Matches are distributed among these distances:
114 32 0.09
115 13 0.04
116 1 0.00
117 61 0.17
118 72 0.20
119 154 0.42
121 33 0.09
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (117 bp):
ATTTTTCTTAAAAATAAATTTTCAAAAAAAAATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTC
TCGAAATTAAAAGTTTCCAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCA
Found at i:3168898 original size:236 final size:234
Alignment explanation
Indices: 3168446--3168982 Score: 739
Period size: 236 Copynumber: 2.3 Consensus size: 234
3168436 AAAAAAATAT
*
3168446 TTTTCCTTAAAAATAAATTTTCAAAAAAAAAGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTC
1 TTTTCCTTAAAAATAAATTTTCAAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
* *
3168511 TCGAAATTAAAAGTTTCCAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAA
66 TCGAAATTAAAAGTTTCCAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTCCTTAAAA
**
3168576 ATAAATTTTCAAAAAAGGTTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAA
131 ATAAATTTTC--AAAAGGTAATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCAAAATT-AA
**
3168641 AGTTTTCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAA
193 AGTTTTCAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAA
* *
3168683 TTTTCTTTAAAAATAAATTTTCAAAAAAAAAGATTTTGAGGAAAAGTTGAAAGTATCAA-TTTTC
1 TTTTCCTTAAAAATAAATTTTCAAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
*
3168747 TTCGAAATT-AAAGTTTTCAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTCCTTAAA
66 -TCGAAATTAAAAGTTTCCAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTCCTTAAA
* * *
3168811 GATAAATTTTC-AAAGG-AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAA-T-AA
130 AATAAATTTTCAAAAGGTAATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCC-TCAAAATTAAA
3168872 GCTTTTCACAAAAAAAATATTTTTTGGAAAAAAGTTGAAAGTATCAA
194 G-TTTT--C--AAAAAATA-TTTTTGGAAAAAAGTTGAAAGTATCAA
** * * * *
3168919 TTTTCCTCGAAATTAAAGTTTCAAAAGAATA-TTTTTG-GGAAAAAGTTGAAAGTATCAATTTTT
1 TTTTCCTTAAAAATAAATTTTCAAAAAAAAAGTTTTTGAGG-AAAAGTTGAAAGTATCAATTTTT
3168982 C
65 C
3168983 CTGCACAAAA
Statistics
Matches: 269, Mismatches: 21, Indels: 21
0.86 0.07 0.07
Matches are distributed among these distances:
230 3 0.01
231 4 0.01
232 33 0.12
233 11 0.04
234 2 0.01
235 31 0.12
236 121 0.45
237 64 0.24
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (234 bp):
TTTTCCTTAAAAATAAATTTTCAAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
TCGAAATTAAAAGTTTCCAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTCCTTAAAA
ATAAATTTTCAAAAGGTAATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAGT
TTTCAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAA
Found at i:3168984 original size:59 final size:57
Alignment explanation
Indices: 3168446--3168980 Score: 531
Period size: 59 Copynumber: 9.1 Consensus size: 57
3168436 AAAAAAATAT
* * * *
3168446 TTTTCCTTAAAAATAAATTTTCAAAAAAAAAGTTTTTGAGAAAAAGTTGAAAGTATCAA
1 TTTTCCTCAAAAATAAAGTTTC-AAAAAATA-TTTTTGGGAAAAAGTTGAAAGTATCAA
* * *
3168505 TTTTTCTCGAAATTAAAAGTTTCCAAAAAATATTTTT-GGAGAAAAGTTGAAAGTATCAA
1 TTTTCCTCAAAAAT-AAAGTTT-CAAAAAATATTTTTGGGA-AAAAGTTGAAAGTATCAA
* * * * *
3168564 TTTTTCTTAAAAATAAATTTTCAAAAAAGGTTTTTTTTGAGAAAAAGTTGAAAGTATCAA
1 TTTTCCTCAAAAATAAAGTTTCAAAAAA---TATTTTTGGGAAAAAGTTGAAAGTATCAA
* *
3168624 TTTTCCTCAAAATTAAAAGTTTTCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAA
1 TTTTCCTCAAAAAT-AAAG-TTTCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAA
* * * * *
3168683 TTTTCTTTAAAAATAAATTTTCAAAAAAAAAGATTTTGAGG-AAAAGTTGAAAGTATCAA
1 TTTTCCTCAAAAATAAAGTTTC-AAAAAATA-TTTTTG-GGAAAAAGTTGAAAGTATCAA
* * * *
3168742 TTTTCTTCGAAATTAAAGTTTTCAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAA
1 TTTTCCTCAAAAATAAAG-TTTCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAA
* * * **
3168800 TTTTCCTTAAAGATAAATTTTCAAAGGA-ATTTTTGAGG-AAAAGTTGAAAGTATCAA
1 TTTTCCTCAAAAATAAAGTTTCAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAA
** *
3168856 TTTTCCTTGAAAAT-AAGCTTTTCACAAAAAAAATATTTTTTGGAAAAAAGTTGAAAGTATCAA
1 TTTTCCTCAAAAATAAAG--TTT--C--AAAAAATA-TTTTTGGGAAAAAGTTGAAAGTATCAA
* *
3168919 TTTTCCTCGAAATTAAAGTTTCAAAAGAATATTTTTGGGAAAAAGTTGAAAGTATCAA
1 TTTTCCTCAAAAATAAAGTTTCAAAA-AATATTTTTGGGAAAAAGTTGAAAGTATCAA
3168977 TTTT
1 TTTT
3168981 TCCTGCACAA
Statistics
Matches: 399, Mismatches: 51, Indels: 53
0.79 0.10 0.11
Matches are distributed among these distances:
55 2 0.01
56 37 0.09
57 24 0.06
58 87 0.22
59 130 0.33
60 55 0.14
61 10 0.03
62 15 0.04
63 36 0.09
64 3 0.01
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (57 bp):
TTTTCCTCAAAAATAAAGTTTCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAA
Found at i:3171039 original size:202 final size:200
Alignment explanation
Indices: 3170558--3171039 Score: 503
Period size: 202 Copynumber: 2.4 Consensus size: 200
3170548 TGAATCTACA
* * * *
3170558 GTGACAATAAAATAAAACATCACCCTATGCCTTTTTTTTGTGACGTTAGTTTTCGTCAGCTATTT
1 GTGACAATAAAATCAAACGTCACCTTATGCTTTTTTTTTGTGACGTTAGTTTTCGTCAGCTATTT
* * * *
3170623 ATGAAAAAAAA-GTCATCGAAGGCTATATTCGTCACAAAAATGAGAAAATATCATATATATTAGT
66 AT-AAAAAAAACGTAATCAAAGGCTATAATCATCACAAAAATGAGAAAATATCATATATATTAGT
* * ** * * * *
3170687 GATGAAAAATAAATCGTTGCAGTATTAGTGACAAAATTATCATCATCAATGATTATAAGATAATG
130 GATCAAAAATAAATCATCACAATATTAGTAACAAAATTATCATCATCAATAATTATAAGATAATA
*
3170752 TCTACT
195 TCAACT
* * *
3170758 GTGACAATAAAATCAAACGTCACTTTATG-TGTTAATTTTTGTGACATTAGTTTTCGTCAGCTAT
1 GTGACAATAAAATCAAACGTCACCTTATGCT-TT-TTTTTTGTGACGTTAGTTTTCGTCAGCTAT
* * * *
3170822 TTATAAACTAAAACGTAATTAAAGGCTATAATCATCACTAAATAAATGA-TAAA-ATCTTATATA
64 TTATAAA-AAAAACGTAATCAAAGGCTATAATCATCAC--AA-AAATGAGAAAATATCATATATA
** ** *
3170885 TTAGTGA-CAAAGGTAAATCATCACAATATT-GATAACACTATTATCGTCA-CAAATAATTATAA
125 TTAGTGATCAAAAATAAATCATCACAATATTAG-TAACAAAATTATCATCATC-AATAATTATAA
3170947 GATAATATCAAAC-
188 GATAATATC-AACT
* * * *
3170960 GTGACAATAAAATCAAATGTCACCTTATGCTTTTTTTTATATGACGTTAATTTTCGTCAACTATT
1 GTGACAATAAAATCAAACGTCACCTTATGCTTTTTTTT-TGTGACGTTAGTTTTCGTCAGCTATT
3171025 TATAAAGAAAAACGT
65 TATAAA-AAAAACGT
3171040 CAGTGAAAGT
Statistics
Matches: 232, Mismatches: 38, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
200 30 0.13
201 42 0.18
202 130 0.56
203 19 0.08
204 5 0.02
205 6 0.03
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (200 bp):
GTGACAATAAAATCAAACGTCACCTTATGCTTTTTTTTTGTGACGTTAGTTTTCGTCAGCTATTT
ATAAAAAAAACGTAATCAAAGGCTATAATCATCACAAAAATGAGAAAATATCATATATATTAGTG
ATCAAAAATAAATCATCACAATATTAGTAACAAAATTATCATCATCAATAATTATAAGATAATAT
CAACT
Found at i:3175637 original size:36 final size:36
Alignment explanation
Indices: 3175590--3175676 Score: 129
Period size: 36 Copynumber: 2.4 Consensus size: 36
3175580 ATTTGGTAAG
* **
3175590 CCAAACAGAATAGAACATAATAGAACAACCAAGAGA
1 CCAAACAGAATAGAACAAAATAGAACAAAAAAGAGA
3175626 CCAAACAGAATAGAACAAAATAGAACAAAAAAGAGA
1 CCAAACAGAATAGAACAAAATAGAACAAAAAAGAGA
* *
3175662 CCAAATAAAATAGAA
1 CCAAACAGAATAGAA
3175677 TAGAATAAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.63, C:0.16, G:0.13, T:0.08
Consensus pattern (36 bp):
CCAAACAGAATAGAACAAAATAGAACAAAAAAGAGA
Found at i:3175924 original size:36 final size:37
Alignment explanation
Indices: 3175835--3175933 Score: 94
Period size: 36 Copynumber: 2.6 Consensus size: 37
3175825 CAGGATTACA
*
3175835 ACCAAATAGAATAGAACAAAATAGAGAACAGAAAAGAG
1 ACCAAA-AGAATAGAACAAAATAGAGAACAGAAAAAAG
* **
3175873 ACCAAAAGGACTAGAACAAAATA-A-AATGGAAAAAAG
1 ACCAAAA-GAATAGAACAAAATAGAGAACAGAAAAAAG
* * *
3175909 ACCAAACATAATAGAATAGAATAGA
1 ACCAAA-AGAATAGAACAAAATAGA
3175934 TGAGGACAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
36 26 0.52
37 4 0.08
38 20 0.40
ACGTcount: A:0.63, C:0.11, G:0.16, T:0.10
Consensus pattern (37 bp):
ACCAAAAGAATAGAACAAAATAGAGAACAGAAAAAAG
Found at i:3176063 original size:248 final size:248
Alignment explanation
Indices: 3175590--3176242 Score: 775
Period size: 248 Copynumber: 2.6 Consensus size: 248
3175580 ATTTGGTAAG
* * *
3175590 CCAAACAGAATAGAACATAAT--AGAACA-ACCAAGAGACCAAACA-GAATAGAACAAAATAGAA
1 CCAAAAAGAATAGAACAAAATAGAGAACAGA-AAAGAGACCAAA-AGGAATAGAACAAAATAGAA
* * *
3175651 CA-AAAAAGAGACCAAATAAAATAGAATAGAATA-AGTGAAGACAAACTTGGGCGTGCTTCTAGT
64 -AGAAAAA-AGACCAAACAAAATAGAATAGAATAGAGTGAAGACAAACCTGGGCGCGCTTCTAGT
* * *
3175714 CGATCAACAATGGCTGAATTTGCTACCGGTCGACAGTGGGGAAAGCAGAGGAGAGTGGCCTGTCA
127 CAATCAACAATGGCTGAATTTGCTACCGATCGACAGTGGGAAAAGCAGAGGAGAGTGGCCTGTCA
* * *
3175779 AGGGTTAGTCATAATTAGATAATGGGTTAGCCAGCCCTGCTATAGA-CAGGATTACAA
192 AGGGTTAGGCATAATTAGATAATGGCTTAACCAGCCCTGCTATAGACCA-GATTACAA
* *
3175836 CCAAATAGAATAGAACAAAATAGAGAACAGAAAAGAGACCAAAAGGACTAGAACAAAATA-AAAT
1 CCAAAAAGAATAGAACAAAATAGAGAACAGAAAAGAGACCAAAAGGAATAGAACAAAATAGAAA-
* * *
3175900 GGAAAAAAGACCAAACATAATAGAATAGAATAGA-TGAGGACAAACCTGGGCGCGTTTCTAGTCA
65 -GAAAAAAGACCAAACAAAATAGAATAGAATAGAGTGAAGACAAACCTGGGCGCGCTTCTAGTCA
*** * * *
3175964 ATCAGTGATGGTTGAATTTGCTACTGATCGACAGTGGGAAAAGTAGAGGAGAGTGGCCTGTCAAG
129 ATCAACAATGGCTGAATTTGCTACCGATCGACAGTGGGAAAAGCAGAGGAGAGTGGCCTGTCAAG
* **
3176029 GGTTAGGCATAATTAGATAATGGCTTAACCAGCCCTGCTATAGACCATATTACGG
194 GGTTAGGCATAATTAGATAATGGCTTAACCAGCCCTGCTATAGACCAGATTACAA
* * * *
3176084 CAAAAAATAATAGAACAGAATAGAGAACAGAAAAGAGACCAAATGGAATAGAACAAAATAGAACA
1 CCAAAAAGAATAGAACAAAATAGAGAACAGAAAAGAGACCAAAAGGAATAGAACAAAATAGAA-A
* * ** * *
3176149 GAAAATAGACCAAACAGAATAGAATAGAATAGAATAGATGAAGACAAACCTGGATGCACTTTTAG
65 GAAAAAAGACCAAACAAAATAGAATAGAATAG---AG-TGAAGACAAACCTGGGCGCGCTTCTAG
* * * *
3176214 TCGACCAGCGATGGCTGAATTTGCTACCG
126 TCAATCAACAATGGCTGAATTTGCTACCG
3176243 GTTGACAATG
Statistics
Matches: 347, Mismatches: 44, Indels: 25
0.83 0.11 0.06
Matches are distributed among these distances:
246 20 0.06
247 3 0.01
248 266 0.77
249 11 0.03
250 1 0.00
251 1 0.00
253 45 0.13
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.18
Consensus pattern (248 bp):
CCAAAAAGAATAGAACAAAATAGAGAACAGAAAAGAGACCAAAAGGAATAGAACAAAATAGAAAG
AAAAAAGACCAAACAAAATAGAATAGAATAGAGTGAAGACAAACCTGGGCGCGCTTCTAGTCAAT
CAACAATGGCTGAATTTGCTACCGATCGACAGTGGGAAAAGCAGAGGAGAGTGGCCTGTCAAGGG
TTAGGCATAATTAGATAATGGCTTAACCAGCCCTGCTATAGACCAGATTACAA
Found at i:3176159 original size:36 final size:36
Alignment explanation
Indices: 3176092--3176182 Score: 110
Period size: 36 Copynumber: 2.5 Consensus size: 36
3176082 GGCAAAAAAT
* **
3176092 AATAGAACAGAATAGAGAACAGAAAAGAGACCAAATGG
1 AATAGAACA-AA-ATAGAACAGAAAAGAGACCAAACAG
*
3176130 AATAGAACAAAATAGAACAGAAAATAGACCAAACAG
1 AATAGAACAAAATAGAACAGAAAAGAGACCAAACAG
* *
3176166 AATAGAATAGAATAGAA
1 AATAGAACAAAATAGAA
3176183 TAGATGAAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
36 36 0.77
37 2 0.04
38 9 0.19
ACGTcount: A:0.62, C:0.10, G:0.19, T:0.10
Consensus pattern (36 bp):
AATAGAACAAAATAGAACAGAAAAGAGACCAAACAG
Found at i:3177718 original size:236 final size:234
Alignment explanation
Indices: 3177076--3177946 Score: 977
Period size: 236 Copynumber: 3.7 Consensus size: 234
3177066 TTGATGTGAT
* ** * * *
3177076 GAAATTGTAATGTCATTAATAATTAATTAAAATATTCAATCTGTGACAAAAATTAATAACATCAC
1 GAAATTGTAATGTCATTAATAATTAACTAAAATGCTCAATTTATGATAAAAATTAATAACATCAC
* * * * * * *
3177141 TTAAAATTTATC-AAAAAATATTGTCACAGATAAAATTTTAAACTAGTGATACATTTAGAAAGTC
66 CTAAAATCTATCAAAAAAAT-TTGTCACAGATAAAATTTTAAATTAGTGACAAAATTA-AATGTC
* * * * * * ** * *
3177205 ACTTAAAATAAAAAAATGTCACAAAAAAATTTTTCGCCAAATAAAATTGATAGTAAAAGTTTGTA
129 ACCTAAAAT-AAAAAATGTCACAAAAATATTTTCCACCAATTAAATTTGACGGTAAAAATTTGTG
** ** * * *
3177270 ACATTTACGTTATCGTCATATAATACCATAAAAT-ACAGATGAT
193 ACATTTATATTATCGTCATATACCACCATACATTGAC--ATGAC
* * * * *
3177313 GAAATTGCAATGTCATTAATAGTTAACTAAAATG-TTACATTTATGATAAAATTTGATAACATCA
1 GAAATTGTAATGTCATTAATAATTAACTAAAATGCTCA-ATTTATGATAAAAATTAATAACATCA
* * * * **
3177377 CCTAAAATTTATTAGAAAAATTTATCACAGAT-AAATTTTCAAATTAGTGACAAAATTTAAACAT
65 CCTAAAATCTATCAAAAAAATTTGTCACAGATAAAATTTT-AAATTAGTGACAAAA-TTAAATGT
*
3177441 CACCTAAAATAAAAAAATGTCACAAAAA-AATTTCTCACCAATTAAATTTGACGGTAAAAATTTG
128 CACCTAAAAT-AAAAAATGTCACAAAAATATTTTC-CACCAATTAAATTTGACGGTAAAAATTTG
*
3177505 TGACATTTATATTATCGTCATATACCACCATACATTGACATAAC
191 TGACATTTATATTATCGTCATATACCACCATACATTGACATGAC
* * *
3177549 GAAATTGTAATGTCGTTAATAATTAACTAAAGTGCTCAATTTATGATAAAAATTAATAACGTCAC
1 GAAATTGTAATGTCATTAATAATTAACTAAAATGCTCAATTTATGATAAAAATTAATAACATCAC
*
3177614 CTAAAATCTATCAAAAAAATTTCGTCATAGATAAAATTTTAAATT-GATGACAAAATTACAATGT
66 CTAAAATCTATCAAAAAAATTT-GTCACAGATAAAATTTTAAATTAG-TGACAAAATTA-AATGT
*
3177678 CACCTAAAAT-AAAAATCGTTACAAAAATATTTTCCACCAATTAAATTTGACAGG-AAAAATTTG
128 CACCTAAAATAAAAAAT-GTCACAAAAATATTTTCCACCAATTAAATTTGAC-GGTAAAAATTTG
*
3177741 TGACATTTATATTATCATCATATACCACCATACATTGACATGAC
191 TGACATTTATATTATCGTCATATACCACCATACATTGACATGAC
* * * * * **
3177785 GAAATTATAATGTCATTAATAGTTAATTAAAGTGCTCAATTTATGA-CAAAATTAATAATGTCAC
1 GAAATTGTAATGTCATTAATAATTAACTAAAATGCTCAATTTATGATAAAAATTAATAACATCAC
* * * *
3177849 CTAAAATCTATCAGAAAAATCTCGTCATAGATAAAATTTTAAATTGGTGACAAAATTATAATGTC
66 CTAAAATCTATCAAAAAAAT-TTGTCACAGATAAAATTTTAAATTAGTGACAAAATTA-AATGTC
*
3177914 ACCTAAAATAAAAAACGTCACAAAAATATTTTC
129 ACCTAAAATAAAAAATGTCACAAAAATATTTTC
3177947 TCGGCGACAA
Statistics
Matches: 549, Mismatches: 68, Indels: 36
0.84 0.10 0.06
Matches are distributed among these distances:
235 105 0.19
236 219 0.40
237 207 0.38
238 18 0.03
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.32
Consensus pattern (234 bp):
GAAATTGTAATGTCATTAATAATTAACTAAAATGCTCAATTTATGATAAAAATTAATAACATCAC
CTAAAATCTATCAAAAAAATTTGTCACAGATAAAATTTTAAATTAGTGACAAAATTAAATGTCAC
CTAAAATAAAAAATGTCACAAAAATATTTTCCACCAATTAAATTTGACGGTAAAAATTTGTGACA
TTTATATTATCGTCATATACCACCATACATTGACATGAC
Found at i:3177888 original size:473 final size:469
Alignment explanation
Indices: 3177076--3177944 Score: 1068
Period size: 473 Copynumber: 1.8 Consensus size: 469
3177066 TTGATGTGAT
* * *
3177076 GAAATTGTAATGTCATTAATAATTAATTAAAATATTCAATCTGTGACAAAAATTAATAACATCAC
1 GAAATTGTAATGTCATTAATAATTAACTAAAATACTCAATCTATGACAAAAATTAATAACATCAC
* * * * * *
3177141 TTAAAATTTATCAAAAAATATTGTCACAGATAAAATTTTAAACTAGTGATACATTTAGAAAGTCA
66 CTAAAATCTATCAAAAAATATTGTCACAGATAAAATTTTAAACTAGTGACAAAATTACAAAGTCA
* * * * * *
3177206 CTTAAAATAAAAAAATGTCACAAAAAAATTTTTCGCCAAATAAAATTGATAGTAAAAGTTTGTAA
131 CCTAAAAT-AAAAAATGTCACAAAAAAATTTTCCACCAAATAAAATTGACAGGAAAAATTTGTAA
* * * * *
3177271 CATTTACGTTATCGTCATATAATACCATAAAATACAGATGATGAAATTGCAATGTCATTAATAGT
195 CATTTACATTATCATCATATAACACCATAAAATACA-ATGACGAAATTACAATGTCATTAATAGT
* * * * * *
3177336 TAACTAAAATGTTACATTTATGATAAAATTTGATAACATCACCTAAAATTTATTAGAAAAATTTA
259 TAACTAAAATGTCACATTTATGACAAAATTTAATAACATCACCTAAAATCTATCAGAAAAATTCA
*
3177401 TCACAGATAAATTTTCAAATTAGTGACAAAATT-TAAACATCACCTAAAATAAAAAAATGTCACA
324 TCACAGATAAATTTT-AAATTAGTGACAAAATTAT-AACATCACCTAAAAT-AAAAAACGTCACA
3177465 AAAAAATTTCTCACCAATTAAATTTGACGGTAAAAATTTGTGACATTTATATTATCGTCATATAC
386 AAAAAATTTCTCACCAATTAAATTTGACGGTAAAAATTTGTGACATTTATATTATCGTCATATAC
3177530 CACCATACATTGACATAAC
451 CACCATACATTGACATAAC
* * * * * *
3177549 GAAATTGTAATGTCGTTAATAATTAACTAAAGTGCTCAATTTATGATAAAAATTAATAACGTCAC
1 GAAATTGTAATGTCATTAATAATTAACTAAAATACTCAATCTATGACAAAAATTAATAACATCAC
* * *
3177614 CTAAAATCTATCAAAAAA-ATTTCGTCATAGATAAAATTTTAAA-TTGATGACAAAATTACAATG
66 CTAAAATCTATCAAAAAATA-TT-GTCACAGATAAAATTTTAAACTAG-TGACAAAATTACAAAG
* * * *
3177677 TCACCTAAAAT-AAAAATCGTTACAAAAATATTTTCCACCAATTAAATTTGACAGGAAAAATTTG
128 TCACCTAAAATAAAAAAT-GTCACAAAAAAATTTTCCACCAAATAAAATTGACAGGAAAAATTTG
* * * * * *
3177741 TGACATTTATATTATCATCATATACCACCATACATTGAC-ATGACGAAATTATAATGTCATTAAT
192 TAACATTTACATTATCATCATATAACACCATAAAAT-ACAATGACGAAATTACAATGTCATTAAT
* * **
3177805 AGTTAATTAAAGTGCTCA-ATTTATGACAAAA-TTAATAATGTCACCTAAAATCTATCAGAAAAA
256 AGTTAACTAAAATG-TCACATTTATGACAAAATTTAATAACATCACCTAAAATCTATCAGAAAAA
* * * **
3177868 TCTCGTCATAGATAAAATTTTAAATTGGTGACAAAATTATAATGTCACCTAAAATAAAAAACGTC
320 T-TCATCACAGAT-AAATTTTAAATTAGTGACAAAATTATAACATCACCTAAAATAAAAAACGTC
*
3177933 ACAAAAATATTT
383 ACAAAAAAATTT
3177945 TCTCGGCGAC
Statistics
Matches: 331, Mismatches: 56, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
471 48 0.15
472 90 0.27
473 151 0.46
474 42 0.13
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.32
Consensus pattern (469 bp):
GAAATTGTAATGTCATTAATAATTAACTAAAATACTCAATCTATGACAAAAATTAATAACATCAC
CTAAAATCTATCAAAAAATATTGTCACAGATAAAATTTTAAACTAGTGACAAAATTACAAAGTCA
CCTAAAATAAAAAATGTCACAAAAAAATTTTCCACCAAATAAAATTGACAGGAAAAATTTGTAAC
ATTTACATTATCATCATATAACACCATAAAATACAATGACGAAATTACAATGTCATTAATAGTTA
ACTAAAATGTCACATTTATGACAAAATTTAATAACATCACCTAAAATCTATCAGAAAAATTCATC
ACAGATAAATTTTAAATTAGTGACAAAATTATAACATCACCTAAAATAAAAAACGTCACAAAAAA
ATTTCTCACCAATTAAATTTGACGGTAAAAATTTGTGACATTTATATTATCGTCATATACCACCA
TACATTGACATAAC
Found at i:3180164 original size:18 final size:20
Alignment explanation
Indices: 3180138--3180179 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
3180128 TTTAATTATC
3180138 ATATAAATAATTT-TT-TAA
1 ATATAAATAATTTATTATAA
* *
3180156 ATATGAATATTTTATTATAA
1 ATATAAATAATTTATTATAA
3180176 ATAT
1 ATAT
3180180 TTTTTCTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 11 0.55
19 2 0.10
20 7 0.35
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
ATATAAATAATTTATTATAA
Found at i:3180949 original size:53 final size:52
Alignment explanation
Indices: 3180842--3180960 Score: 134
Period size: 53 Copynumber: 2.2 Consensus size: 52
3180832 TATATTGATA
* * * *
3180842 TTTTTATTATAAAATATCATATTAATCAATGATATTGGATAGTCATTAATAT
1 TTTTTATTATAAAATATAATATTAATCAATGATATTAGATAGCCATTAACAT
* *
3180894 TTTTTATTATAAAATATAATTTTTATTCAATG-TCATTAGAT-GCCAATTAACAT
1 TTTTTATTATAAAATATAA-TATTAATCAATGAT-ATTAGATAGCC-ATTAACAT
3180947 TTTCTTATTATAAA
1 TTT-TTATTATAAA
3180961 CTGATTTTAT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
52 21 0.37
53 26 0.46
54 10 0.18
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.48
Consensus pattern (52 bp):
TTTTTATTATAAAATATAATATTAATCAATGATATTAGATAGCCATTAACAT
Found at i:3185758 original size:20 final size:20
Alignment explanation
Indices: 3185733--3185773 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
3185723 AATAGGCCTT
3185733 GTTCTTTAGCTACGTTAATG
1 GTTCTTTAGCTACGTTAATG
3185753 GTTCTTTAGCTACGTTAATG
1 GTTCTTTAGCTACGTTAATG
3185773 G
1 G
3185774 GCTACTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.15, G:0.22, T:0.44
Consensus pattern (20 bp):
GTTCTTTAGCTACGTTAATG
Found at i:3196205 original size:12 final size:12
Alignment explanation
Indices: 3196188--3196233 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
3196178 ATTCGATCTT
3196188 ATATTTATATAA
1 ATATTTATATAA
3196200 ATATTTATATAA
1 ATATTTATATAA
* * *
3196212 TTATATATTTAA
1 ATATTTATATAA
3196224 ATATTTATAT
1 ATATTTATAT
3196234 TTAAAAAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
ATATTTATATAA
Found at i:3196215 original size:8 final size:8
Alignment explanation
Indices: 3196200--3196233 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
3196190 ATTTATATAA
3196200 ATATTTAT
1 ATATTTAT
*
3196208 ATAATTAT
1 ATATTTAT
*
3196216 ATATTTAA
1 ATATTTAT
3196224 ATATTTAT
1 ATATTTAT
3196232 AT
1 AT
3196234 TTAAAAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
ATATTTAT
Found at i:3196221 original size:16 final size:16
Alignment explanation
Indices: 3196200--3196251 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
3196190 ATTTATATAA
*
3196200 ATATTTATATAATTAT
1 ATATTTAAATAATTAT
3196216 ATATTTAAAT-ATT-T
1 ATATTTAAATAATTAT
* *
3196230 ATATTTAAAAAATAAT
1 ATATTTAAATAATTAT
3196246 AT-TTTA
1 ATATTTA
3196252 TTAATTTCAG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 10 0.32
15 9 0.29
16 12 0.39
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATTTAAATAATTAT
Found at i:3200200 original size:2 final size:2
Alignment explanation
Indices: 3200195--3200220 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3200185 ATTCTTTTTG
3200195 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
3200221 ATTACCTAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3220997 original size:2 final size:2
Alignment explanation
Indices: 3220990--3221018 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3220980 TGTGAGATAG
3220990 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3221019 GAGAGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3221023 original size:2 final size:2
Alignment explanation
Indices: 3221018--3221047 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3221008 ATATATATAT
3221018 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3221048 CCAACAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3222559 original size:4 final size:4
Alignment explanation
Indices: 3222552--3222577 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
3222542 TCATATTTTT
3222552 TTTC TTTC TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TT
3222578 CCCTCATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:3228771 original size:26 final size:26
Alignment explanation
Indices: 3228717--3228771 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
3228707 ACAAACTTAA
* * *
3228717 AATTTAAATGTTTAATTAAAATTTTT
1 AATTTAAATATTTAATTAAAATATAT
3228743 AATTTAAATA-TTATATTAAAATATAT
1 AATTTAAATATTTA-ATTAAAATATAT
3228769 AAT
1 AAT
3228772 AATTTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 3 0.12
26 22 0.88
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (26 bp):
AATTTAAATATTTAATTAAAATATAT
Found at i:3234472 original size:26 final size:26
Alignment explanation
Indices: 3234443--3234494 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
3234433 AAAAAAATGC
*
3234443 TTCATTTGGATGCTTAAAGACAGATT
1 TTCATTTGGAGGCTTAAAGACAGATT
3234469 TTCATTTGGAGGCTTAAAGACAGATT
1 TTCATTTGGAGGCTTAAAGACAGATT
3234495 GCAGTGTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.37
Consensus pattern (26 bp):
TTCATTTGGAGGCTTAAAGACAGATT
Found at i:3244874 original size:15 final size:16
Alignment explanation
Indices: 3244854--3244892 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
3244844 ATAGTTACGT
*
3244854 TTATATTTATGAT-TA
1 TTATATTAATGATGTA
3244869 TTATATTAATGATGTA
1 TTATATTAATGATGTA
3244885 -TATATTAA
1 TTATATTAA
3244893 AATTTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 20 0.91
16 2 0.09
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (16 bp):
TTATATTAATGATGTA
Found at i:3246652 original size:25 final size:25
Alignment explanation
Indices: 3246601--3246652 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
3246591 AAAATTTAAA
* *
3246601 TATATTTTATAATTCATGTTTTATT
1 TATATTTTATAATTCATATCTTATT
*
3246626 TATATTTTAATAATTTATATCTT-TT
1 TATATTTT-ATAATTCATATCTTATT
3246651 TA
1 TA
3246653 CGTATCAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (25 bp):
TATATTTTATAATTCATATCTTATT
Found at i:3250956 original size:11 final size:11
Alignment explanation
Indices: 3250940--3251012 Score: 50
Period size: 11 Copynumber: 7.0 Consensus size: 11
3250930 ATTAAATTTA
3250940 TATATTATTAT
1 TATATTATTAT
*
3250951 TATATT-TAAAT
1 TATATTAT-TAT
* *
3250962 CATATTATTTT
1 TATATTATTAT
3250973 TATATT-TT-T
1 TATATTATTAT
3250982 TAT-TTA-TAT
1 TATATTATTAT
*
3250991 CATATT-TATAT
1 TATATTAT-TAT
3251002 TATATTATTAT
1 TATATTATTAT
3251013 ATTATAATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 16
0.67 0.10 0.23
Matches are distributed among these distances:
8 3 0.06
9 7 0.15
10 5 0.11
11 30 0.64
12 2 0.04
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (11 bp):
TATATTATTAT
Found at i:3250983 original size:25 final size:25
Alignment explanation
Indices: 3250907--3250997 Score: 71
Period size: 25 Copynumber: 3.6 Consensus size: 25
3250897 TAATATAAAA
*
3250907 TAAAAATATATATTTTTA-ATTTTAT
1 TAAATATATATATTTTTATATTTT-T
* * *
3250932 TAAATTTATATATTATTAT-TATATT
1 TAAATATATATATTTTTATAT-TTTT
3250957 TAAATCATAT-TATTTTTATATTTTT
1 TAAAT-ATATATATTTTTATATTTTT
**
3250982 TATTTATATCATATTT
1 TAAATATAT-ATATTT
3250998 ATATTATATT
Statistics
Matches: 51, Mismatches: 9, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
24 4 0.08
25 36 0.71
26 11 0.22
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (25 bp):
TAAATATATATATTTTTATATTTTT
Found at i:3251018 original size:29 final size:30
Alignment explanation
Indices: 3250935--3251015 Score: 96
Period size: 29 Copynumber: 2.7 Consensus size: 30
3250925 ATTTTATTAA
*
3250935 ATTTATA-TATTATTATTATATTTAAATCAT
1 ATTTATATTA-TATTATTATATTTATATCAT
* *
3250965 A-TTATTTTTATATT-TTTTATTTATATCAT
1 ATTTA-TATTATATTATTATATTTATATCAT
3250994 ATTTATATTATATTATTATATT
1 ATTTATATTATATTATTATATT
3251016 ATAATTTAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
29 25 0.60
30 15 0.36
31 2 0.05
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (30 bp):
ATTTATATTATATTATTATATTTATATCAT
Found at i:3256311 original size:12 final size:12
Alignment explanation
Indices: 3256294--3256319 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3256284 CTGCCCCTAT
3256294 GGATTCATGATG
1 GGATTCATGATG
3256306 GGATTCATGATG
1 GGATTCATGATG
3256318 GG
1 GG
3256320 GAAAGGACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.38, T:0.31
Consensus pattern (12 bp):
GGATTCATGATG
Found at i:3257623 original size:88 final size:87
Alignment explanation
Indices: 3257452--3257627 Score: 325
Period size: 88 Copynumber: 2.0 Consensus size: 87
3257442 TGCACACAGA
3257452 TAAGCATGCATACTAGCATCAACCGTTTAGATGCAACCAGATTCCACTCCTAAAATTTGATGGAA
1 TAAGCATGCATACTAGCATCAACCGTTTAGATGCAACCAGATTCCACTCCTAAAATTTGATGGAA
*
3257517 GATTATTTATTAATGTATCACT
66 GATTATTCATTAATGTATCACT
*
3257539 TAAGCATGCATACTAGCATCAACCGTTTAGATGCAACCAGACTTCCACTCCTACAATTTGATGGA
1 TAAGCATGCATACTAGCATCAACCGTTTAGATGCAACCAGA-TTCCACTCCTAAAATTTGATGGA
3257604 AGATTATTCATTAATGTATCACT
65 AGATTATTCATTAATGTATCACT
3257627 T
1 T
3257628 CTTGGTTTAG
Statistics
Matches: 86, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
87 41 0.48
88 45 0.52
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.32
Consensus pattern (87 bp):
TAAGCATGCATACTAGCATCAACCGTTTAGATGCAACCAGATTCCACTCCTAAAATTTGATGGAA
GATTATTCATTAATGTATCACT
Found at i:3264793 original size:2 final size:2
Alignment explanation
Indices: 3264786--3264812 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3264776 AAGAGTAGGG
3264786 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
3264813 TATGTGTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:3265566 original size:2 final size:2
Alignment explanation
Indices: 3265559--3265587 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3265549 ATTATTCTTT
3265559 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3265588 CTTTTTCTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3267534 original size:3 final size:3
Alignment explanation
Indices: 3267526--3267558 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
3267516 TTAATTTACT
3267526 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
3267559 GAACTCAGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:3268721 original size:26 final size:26
Alignment explanation
Indices: 3268669--3268726 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
3268659 TTATATATTA
* * *
3268669 TTAATAAATAAAATAATATCATCTCT
1 TTAATAAATAAAATAAAATAATATCT
3268695 TTAATAAA-ATAAATAAAATAATATCT
1 TTAATAAATA-AAATAAAATAATATCT
3268721 TCTAAT
1 T-TAAT
3268727 TAATGAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 1 0.04
26 22 0.81
27 4 0.15
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (26 bp):
TTAATAAATAAAATAAAATAATATCT
Found at i:3268730 original size:31 final size:31
Alignment explanation
Indices: 3268671--3268730 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
3268661 ATATATTATT
**
3268671 AATAAATAAAATAATATCATCTCTTTAATAA
1 AATAAATAAAATAATATCATCTAATTAATAA
*
3268702 AATAAATAAAATAATATCTTCTAATTAAT
1 AATAAATAAAATAATATCATCTAATTAAT
3268731 GAATAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (31 bp):
AATAAATAAAATAATATCATCTAATTAATAA
Found at i:3268735 original size:26 final size:29
Alignment explanation
Indices: 3268668--3268736 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 29
3268658 TTTATATATT
3268668 ATTAATAAATAAAATAATATCATCTCTTTA
1 ATTAATAAATAAAATAATATCATCTC-TTA
*
3268698 ATAAAATAAATAAAATAATATC-T-TC-TA
1 AT-TAATAAATAAAATAATATCATCTCTTA
*
3268725 ATTAATGAATAA
1 ATTAATAAATAA
3268737 TTTTTTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
26 8 0.23
27 4 0.11
29 2 0.06
30 3 0.09
31 18 0.51
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (29 bp):
ATTAATAAATAAAATAATATCATCTCTTA
Found at i:3271458 original size:2 final size:2
Alignment explanation
Indices: 3271451--3271482 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3271441 GTCATGAAAC
3271451 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3271483 CCCATAACTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3276341 original size:14 final size:15
Alignment explanation
Indices: 3276317--3276347 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
3276307 AATCGAATCA
3276317 AATTATATATATATT
1 AATTATATATATATT
3276332 AATT-TATATATATT
1 AATTATATATATATT
3276346 AA
1 AA
3276348 ATTTTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
AATTATATATATATT
Found at i:3276422 original size:19 final size:17
Alignment explanation
Indices: 3276398--3276433 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
3276388 ATTAAAATAT
3276398 ATTAAAATAATATATAAAA
1 ATTAAAA-AATA-ATAAAA
3276417 ATTAAAAAATAATAAAA
1 ATTAAAAAATAATAAAA
3276434 TTCACTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 4 0.24
19 7 0.41
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
ATTAAAAAATAATAAAA
Found at i:3279583 original size:24 final size:23
Alignment explanation
Indices: 3279556--3279601 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
3279546 TTAATTAGAA
3279556 TTATTTTAGTACTTTACTTTATAT
1 TTATTTTAGTACTTTA-TTTATAT
* *
3279580 TTATTTTATTATTTTATTTATA
1 TTATTTTAGTACTTTATTTATA
3279602 ATTCAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (23 bp):
TTATTTTAGTACTTTATTTATAT
Found at i:3280393 original size:20 final size:21
Alignment explanation
Indices: 3280368--3280419 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
3280358 TCTTAGTATT
*
3280368 TTATTTTAGAATTTATTTT-A
1 TTATTTTAGAATTAATTTTGA
*
3280388 TTA-TTTATAA-TAATTTTGGA
1 TTATTTTAGAATTAATTTT-GA
3280408 TTATTTTAGAAT
1 TTATTTTAGAAT
3280420 ATTTAGTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
18 6 0.24
19 6 0.24
20 7 0.28
21 6 0.24
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.60
Consensus pattern (21 bp):
TTATTTTAGAATTAATTTTGA
Found at i:3280705 original size:28 final size:26
Alignment explanation
Indices: 3280654--3280728 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 26
3280644 AAGCAAAATA
* *
3280654 TTAAAAAATTTTGA-ATTATTTTATTT
1 TTAAAAAATTTT-ATATTTTTTTATAT
3280680 TTAATAAAATTTTATATTTTTATTATAT
1 TTAA-AAAATTTTATATTTTT-TTATAT
3280708 TTAAATAAATCTTTATATTTT
1 TTAAA-AAAT-TTTATATTTT
3280729 AATATGTATC
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 5 0.12
27 14 0.33
28 13 0.31
29 10 0.24
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (26 bp):
TTAAAAAATTTTATATTTTTTTATAT
Found at i:3280714 original size:29 final size:27
Alignment explanation
Indices: 3280658--3280728 Score: 74
Period size: 29 Copynumber: 2.6 Consensus size: 27
3280648 AAAATATTAA
* *
3280658 AAAATTTTGA-ATTATTTTATTTTTAAT
1 AAAATTTT-ATATTTTTTTATTTTAAAT
3280685 AAAATTTTATATTTTTATTATATTTAAAT
1 AAAATTTTATATTTTT-TTAT-TTTAAAT
3280714 -AAATCTTTATATTTT
1 AAAAT-TTTATATTTT
3280729 AATATGTATC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 1 0.03
27 13 0.34
28 8 0.21
29 16 0.42
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (27 bp):
AAAATTTTATATTTTTTTATTTTAAAT
Found at i:3280801 original size:23 final size:23
Alignment explanation
Indices: 3280775--3280858 Score: 60
Period size: 23 Copynumber: 3.4 Consensus size: 23
3280765 AATTATTTAT
3280775 ATTAAAAATTTATTTACATGTAA
1 ATTAAAAATTTATTTACATGTAA
** *
3280798 ATTAAAGATTAATTTTATTTGGATATAA
1 ATT-AA-A--AA-TTTATTTACATGTAA
* ** *
3280826 TTTAAAGGTTTATTTATATGTAA
1 ATTAAAAATTTATTTACATGTAA
3280849 ATTAAAAATT
1 ATTAAAAATT
3280859 AACAGTTATT
Statistics
Matches: 44, Mismatches: 12, Indels: 10
0.67 0.18 0.15
Matches are distributed among these distances:
23 22 0.50
24 2 0.05
25 1 0.02
26 1 0.02
27 4 0.09
28 14 0.32
ACGTcount: A:0.44, C:0.01, G:0.08, T:0.46
Consensus pattern (23 bp):
ATTAAAAATTTATTTACATGTAA
Found at i:3280935 original size:29 final size:32
Alignment explanation
Indices: 3280852--3280935 Score: 79
Period size: 29 Copynumber: 2.8 Consensus size: 32
3280842 TATGTAAATT
* *
3280852 AAAAATT-AACAGTTATTTAAATATAAATTAA
1 AAAAATTAAAAAGTTATCTAAATATAAATTAA
* *
3280883 AAAAATTAAAAATTTA-CTTGAATAT-AA-TAA
1 AAAAATTAAAAAGTTATC-TAAATATAAATTAA
*
3280913 AAATA-TAAAAAGTTATCTAAATA
1 AAAAATTAAAAAGTTATCTAAATA
3280936 AATTAGTATA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
29 14 0.33
30 8 0.19
31 9 0.21
32 12 0.28
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (32 bp):
AAAAATTAAAAAGTTATCTAAATATAAATTAA
Found at i:3283347 original size:18 final size:17
Alignment explanation
Indices: 3283320--3283353 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
3283310 TGGGTATGAG
*
3283320 ATTTAATTCTGCATTTA
1 ATTTAATTCTCCATTTA
3283337 ATTTAAATTCTCCATTT
1 ATTT-AATTCTCCATTT
3283354 TTGTAAGTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.29, C:0.15, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTTAATTCTCCATTTA
Found at i:3289060 original size:36 final size:35
Alignment explanation
Indices: 3288999--3289127 Score: 167
Period size: 36 Copynumber: 3.7 Consensus size: 35
3288989 TTAAGTTTGA
*
3288999 TTCACTAAAAGCTCCTTCACCGAAAGCACCTTCAG
1 TTCACTAAAAGCTCCTTCACTGAAAGCACCTTCAG
*
3289034 TTCACTAAATAGATCCTTCACTGAAAGCACCTTCA-
1 TTCACTAAA-AGCTCCTTCACTGAAAGCACCTTCAG
* * *
3289069 TTGA--AAAA-CTGCTTCACTGAAAGCACCTCCAG
1 TTCACTAAAAGCTCCTTCACTGAAAGCACCTTCAG
3289101 TTCACTAAATAGCTCCTTCACTGAAAG
1 TTCACTAAA-AGCTCCTTCACTGAAAG
3289128 TTCCCTCATT
Statistics
Matches: 80, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
31 20 0.25
32 4 0.05
33 3 0.04
34 3 0.04
35 13 0.16
36 37 0.46
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (35 bp):
TTCACTAAAAGCTCCTTCACTGAAAGCACCTTCAG
Found at i:3289068 original size:15 final size:15
Alignment explanation
Indices: 3289048--3289096 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
3289038 CTAAATAGAT
3289048 CCTTCACTGAAAGCA
1 CCTTCACTGAAAGCA
* *
3289063 CCTTCATTGAAA-AA
1 CCTTCACTGAAAGCA
3289077 CTGCTTCACTGAAAGCA
1 C--CTTCACTGAAAGCA
3289094 CCT
1 CCT
3289097 CCAGTTCACT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
14 2 0.07
15 13 0.48
16 10 0.37
17 2 0.07
ACGTcount: A:0.33, C:0.31, G:0.12, T:0.24
Consensus pattern (15 bp):
CCTTCACTGAAAGCA
Found at i:3289092 original size:67 final size:67
Alignment explanation
Indices: 3289013--3289141 Score: 204
Period size: 67 Copynumber: 1.9 Consensus size: 67
3289003 CTAAAAGCTC
* *
3289013 CTTCACCGAAAGCACCTTCAGTTCACTAAATAGATCCTTCACTGAAAGCACCTTCATTGAAAAAC
1 CTTCACCGAAAGCACCTCCAGTTCACTAAATAGATCCTTCACTGAAAGCACCCTCATTGAAAAAC
3289078 TG
66 TG
* * **
3289080 CTTCACTGAAAGCACCTCCAGTTCACTAAATAGCTCCTTCACTGAAAGTTCCCTCATTGAAA
1 CTTCACCGAAAGCACCTCCAGTTCACTAAATAGATCCTTCACTGAAAGCACCCTCATTGAAA
3289142 GTTCCCTCAC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 56 1.00
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (67 bp):
CTTCACCGAAAGCACCTCCAGTTCACTAAATAGATCCTTCACTGAAAGCACCCTCATTGAAAAAC
TG
Found at i:3289142 original size:15 final size:15
Alignment explanation
Indices: 3289122--3289150 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3289112 GCTCCTTCAC
3289122 TGAAAGTTCCCTCAT
1 TGAAAGTTCCCTCAT
3289137 TGAAAGTTCCCTCA
1 TGAAAGTTCCCTCA
3289151 CTTAAGGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (15 bp):
TGAAAGTTCCCTCAT
Found at i:3289544 original size:2 final size:2
Alignment explanation
Indices: 3289537--3289577 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
3289527 CTCTTTCTAC
3289537 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
3289578 ACAGTTCCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:3292617 original size:2 final size:2
Alignment explanation
Indices: 3292612--3292651 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
3292602 TGTGTGTCAC
3292612 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3292652 TTATTATACC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3292753 original size:99 final size:100
Alignment explanation
Indices: 3292622--3292819 Score: 301
Period size: 100 Copynumber: 2.0 Consensus size: 100
3292612 AGAGAGAGAG
* * *
3292622 AGAGAGAGAGAGAGAGAGAGAGAGAGAGAGTTATTATACCACCAACT-AAAAACTTCAAAATGGC
1 AGAGAGAGAGAGAGAGAGAGAGAGACAGAGTTATTACACCACCAACTAAAAAACTTCAAAATGAC
*
3292686 AGAACAAAACAAAAGGAAGAAAAATGCAAAAATTA
66 AAAACAAAACAAAAGGAAGAAAAATGCAAAAATTA
**
3292721 AGAGAGAGAGAGAGAGAGAGAGACTTCA-AGTTATTACACCACCAACTAAAAAACTTCAAAATGA
1 AGAGAGAGAGAGAGAGAGAGAGA-GACAGAGTTATTACACCACCAACTAAAAAACTTCAAAATGA
* *
3292785 CAAAACAAAACAGAAGGAAGAGAAATGCAAAAATT
65 CAAAACAAAACAAAAGGAAGAAAAATGCAAAAATT
3292820 CAAAGCAGAA
Statistics
Matches: 89, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
99 41 0.46
100 48 0.54
ACGTcount: A:0.54, C:0.13, G:0.21, T:0.13
Consensus pattern (100 bp):
AGAGAGAGAGAGAGAGAGAGAGAGACAGAGTTATTACACCACCAACTAAAAAACTTCAAAATGAC
AAAACAAAACAAAAGGAAGAAAAATGCAAAAATTA
Found at i:3304941 original size:25 final size:26
Alignment explanation
Indices: 3304897--3304950 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
3304887 ATCTTGAAAC
*
3304897 TTTTAAAAGCTTTTAGA-TTTATAAA
1 TTTTAAAAGCTTTTAAATTTTATAAA
*
3304922 TTTTAAAA-CTTTTAAAATTTTCTAAA
1 TTTTAAAAGCTTTT-AAATTTTATAAA
3304948 TTT
1 TTT
3304951 ACAATTTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 10 0.40
26 10 0.40
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.52
Consensus pattern (26 bp):
TTTTAAAAGCTTTTAAATTTTATAAA
Found at i:3311028 original size:187 final size:192
Alignment explanation
Indices: 3310695--3311077 Score: 542
Period size: 187 Copynumber: 2.0 Consensus size: 192
3310685 TGAAGTTTAA
*
3310695 TGGTGCAGCATGCTTCATTCTTATTTAACTCAATTAAGAGGTGGTGTGCATGTACATGGAATGAG
1 TGGTGCAGCATGCTTCATACTTATTTAACTCAATTAAGAGGTGGTGTG-A-GTACATGGAATGAG
* * *
3310760 AAATGGATGTTGAAGGATCTAATTGCTCAACCTTTTGAATTAACTGGAATTCAGCAATAATCTAA
64 AAATGGAAGTTCAAGGATCTAATTGCTCAACCTTTTGAATTAACTAGAATTCAGCAATAATCTAA
* * * *
3310825 GGATAATTGGTGTCATAACCCTTCTGGTTTTTGCACTTATTTGTATTGTTTCTGCTGGAATTGT
129 GGATAATTGATGTCATAACCCTTCTGGTTTTTGCACTTATTCGGATTGTTTCTACTGGAATTGT
* * *
3310889 TGGTGCTGCATGCTTCATACTTCTTTAACTCAATTAAGAGGT-G-G-G-GTACATGTAATGAGAA
1 TGGTGCAGCATGCTTCATACTTATTTAACTCAATTAAGAGGTGGTGTGAGTACATGGAATGAGAA
* * * * * *
3310950 AT-GAAGTTCAGGGGTCTGATTGCTCAACCTTTTGAATTAACTAGAATTCGGCCATAGTCTAAGG
66 ATGGAAGTTCAAGGATCTAATTGCTCAACCTTTTGAATTAACTAGAATTCAGCAATAATCTAAGG
* *
3311014 ATAATTGATGTCATAATCCTTTTGGTTTTTGCACTTATTCGGATTGTTTCTACTGGAATTGT
131 ATAATTGATGTCATAACCCTTCTGGTTTTTGCACTTATTCGGATTGTTTCTACTGGAATTGT
3311076 TG
1 TG
3311078 CTCAAAAGTT
Statistics
Matches: 170, Mismatches: 19, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
187 111 0.65
188 17 0.10
191 1 0.01
192 1 0.01
193 1 0.01
194 39 0.23
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (192 bp):
TGGTGCAGCATGCTTCATACTTATTTAACTCAATTAAGAGGTGGTGTGAGTACATGGAATGAGAA
ATGGAAGTTCAAGGATCTAATTGCTCAACCTTTTGAATTAACTAGAATTCAGCAATAATCTAAGG
ATAATTGATGTCATAACCCTTCTGGTTTTTGCACTTATTCGGATTGTTTCTACTGGAATTGT
Found at i:3319223 original size:56 final size:57
Alignment explanation
Indices: 3319136--3319251 Score: 162
Period size: 56 Copynumber: 2.1 Consensus size: 57
3319126 AAAGGCCATG
* * * *
3319136 AAAAAACAAAACAAACGTACTTCCAACAATAATAAGTAACAATAATGTTCCTAAAGC
1 AAAAAAAAAAACAAACGTACTTCAAACAATAACAAGTAACAATAATGTTCCAAAAGC
* **
3319193 AAAAAAAAAAAC-AATGTACTTCAAACAATAACAAGTAATGATAATGTTCCAAAAGC
1 AAAAAAAAAAACAAACGTACTTCAAACAATAACAAGTAACAATAATGTTCCAAAAGC
3319249 AAA
1 AAA
3319252 GCAAACGTGG
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
56 41 0.79
57 11 0.21
ACGTcount: A:0.57, C:0.16, G:0.08, T:0.19
Consensus pattern (57 bp):
AAAAAAAAAAACAAACGTACTTCAAACAATAACAAGTAACAATAATGTTCCAAAAGC
Found at i:3326073 original size:2 final size:2
Alignment explanation
Indices: 3326066--3326096 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3326056 CAAGTCAAGG
3326066 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3326097 GACAAAAGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3326141 original size:3 final size:3
Alignment explanation
Indices: 3326133--3326157 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
3326123 TTCAAAGGAC
3326133 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
3326158 GATAACTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:3338655 original size:23 final size:24
Alignment explanation
Indices: 3338609--3338655 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
3338599 ATGATAATAA
*
3338609 TTTAATAATAAATAAACATTAATT
1 TTTAATAATAAATAAACATAAATT
* *
3338633 TTTAA-AATAAATATATATAAATT
1 TTTAATAATAAATAAACATAAATT
3338656 AAAAGTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TTTAATAATAAATAAACATAAATT
Found at i:3338695 original size:26 final size:28
Alignment explanation
Indices: 3338666--3338741 Score: 68
Period size: 28 Copynumber: 2.7 Consensus size: 28
3338656 AAAAGTTTTT
*
3338666 ATTTATTAATAAAATATTAT-T-ATTTA
1 ATTTATTAATAAAATATTATATCATCTA
*
3338692 ATTTAATTTATTAATAA-ATTATCATCATCTA
1 ATTT-A-TTAATAA-AATATTAT-ATCATCTA
*
3338723 ATTTATTAATAATATATTA
1 ATTTATTAATAAAATATTA
3338742 AATATAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
26 4 0.10
27 1 0.03
28 12 0.31
29 12 0.31
30 2 0.05
31 8 0.21
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (28 bp):
ATTTATTAATAAAATATTATATCATCTA
Found at i:3338702 original size:31 final size:31
Alignment explanation
Indices: 3338666--3338727 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
3338656 AAAAGTTTTT
* * *
3338666 ATTTATTAATAAAATATTATTATTTAATTTA
1 ATTTATTAATAAAATATCATCATCTAATTTA
*
3338697 ATTTATTAATAAATTATCATCATCTAATTTA
1 ATTTATTAATAAAATATCATCATCTAATTTA
3338728 TTAATAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.52
Consensus pattern (31 bp):
ATTTATTAATAAAATATCATCATCTAATTTA
Found at i:3338800 original size:12 final size:13
Alignment explanation
Indices: 3338773--3338802 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
3338763 ATGCAGTTGA
3338773 TATTTATAATTTT
1 TATTTATAATTTT
3338786 TATTTATAA-TTT
1 TATTTATAATTTT
3338798 TATTT
1 TATTT
3338803 TTATATGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TATTTATAATTTT
Found at i:3339313 original size:30 final size:30
Alignment explanation
Indices: 3339258--3339314 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
3339248 TGTATATTAA
*
3339258 TTAATAAAATTATAATTATAATTAATATTT
1 TTAATAAAATTATAATAATAATTAATATTT
3339288 TTAATATAAATTA-AA-AATAATTTAATA
1 TTAATA-AAATTATAATAATAA-TTAATA
3339315 AATCAAATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 4 0.17
30 14 0.58
31 6 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (30 bp):
TTAATAAAATTATAATAATAATTAATATTT
Found at i:3340940 original size:13 final size:14
Alignment explanation
Indices: 3340914--3340946 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
3340904 AAAAATAAAT
*
3340914 AATAGAATTGAAAA
1 AATAGAATTCAAAA
3340928 AATA-AATTCAAAA
1 AATAGAATTCAAAA
3340941 AATAGA
1 AATAGA
3340947 CTCAAATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.67, C:0.03, G:0.09, T:0.21
Consensus pattern (14 bp):
AATAGAATTCAAAA
Found at i:3351674 original size:14 final size:13
Alignment explanation
Indices: 3351655--3351694 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
3351645 AAATGATTAG
3351655 TTAAAAATTAAAA
1 TTAAAAATTAAAA
* *
3351668 TTGAAAATCAAAA
1 TTAAAAATTAAAA
3351681 TTAATAAATTAAAA
1 TTAA-AAATTAAAA
3351695 GATCTTATCA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 14 0.64
14 8 0.36
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (13 bp):
TTAAAAATTAAAA
Found at i:3359563 original size:110 final size:110
Alignment explanation
Indices: 3359412--3359632 Score: 388
Period size: 110 Copynumber: 2.0 Consensus size: 110
3359402 TTAAAGTGCA
* *
3359412 AGATATGGCTCTATCTATAGGTTAGGCATTTTTAAGGTTCATTGTATGTGGTTTAAAGATTAAAA
1 AGATATGACTCTATCTATAGGTTAGGCATTTTTAAGGTTCATTATATGTGGTTTAAAGATTAAAA
* *
3359477 TTCTAAAAGTTCTCAAATTACTCCTTACATCATTATCCATCATAG
66 ATCTAAAAGTTCTCAAATTACTCATTACATCATTATCCATCATAG
*
3359522 AGATATGACTCTATCTATAGGTTAGGCATTTTTAAGGTTCATTATATGTGGTTTAAAGGTTAAAA
1 AGATATGACTCTATCTATAGGTTAGGCATTTTTAAGGTTCATTATATGTGGTTTAAAGATTAAAA
*
3359587 ATCTAAAGGTTCTCAAATTACTCATTACATCATTATCCATCATAG
66 ATCTAAAAGTTCTCAAATTACTCATTACATCATTATCCATCATAG
3359632 A
1 A
3359633 CTAGTAAGAC
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
110 105 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (110 bp):
AGATATGACTCTATCTATAGGTTAGGCATTTTTAAGGTTCATTATATGTGGTTTAAAGATTAAAA
ATCTAAAAGTTCTCAAATTACTCATTACATCATTATCCATCATAG
Found at i:3360674 original size:58 final size:58
Alignment explanation
Indices: 3360475--3361229 Score: 584
Period size: 58 Copynumber: 13.2 Consensus size: 58
3360465 CACACCTTTA
* * * * *
3360475 TTCAAGAAAAATTAATACTTTCAACCTTTCCTTAAAGCATTTTTTTTTTAAAAATTTT-TAT
1 TTCAAGAAAAATTGATACTTTCAACTTTTTCTTAAA--ATATTTTTTTT-GAAATTTTAT-T
* * * ** *
3360536 TTCTAAGAAAAATTGATACTCTCAAC-TTCTCATCAAAA-ATATTTTTTAAAAATTTTA-C
1 TTC-AAGAAAAATTGATACTTTCAACTTTTTC-TTAAAATAT-TTTTTTTGAAATTTTATT
* *
3360594 TT-AAGGAAAATTGATACGTTCAACTTTTTCTTAAAATATTTTTTTTGAAATTTTATT
1 TTCAAGAAAAATTGATACTTTCAACTTTTTCTTAAAATATTTTTTTTGAAATTTTATT
* * * * * *
3360651 TTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAATGTTTCTTTTAAAATATTACT
1 TTCAAGAAAAATTGATACTTTCAACTTTTTCTTAAAATATTTTTTTTGAAATTTTATT
* * * ** *
3360709 TTGAAGGAAAATTGATACTTTTAACTTTTTCTTAAAGCA--TTTTTTGAAATTTTATC
1 TTCAAGAAAAATTGATACTTTCAACTTTTTCTTAAAATATTTTTTTTGAAATTTTATT
* * * * * * ** *
3360765 TTAAAAAAAAATTGATATTTTTAACTTTTCCTTCAAGCA--TTTTTTGAAAATTTATT
1 TTCAAGAAAAATTGATACTTTCAACTTTTTCTTAAAATATTTTTTTTGAAATTTTATT
* *
3360821 TTCAAGAAAAATTGATACTTTCAATTTTTTCTT-AAATCA---TTTTTGAAATTTCATT
1 TTCAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAT-ATTTTTTTTGAAATTTTATT
* * * * * *
3360876 TTTAGGAGAAATTGATACTTTTAACTTTTCCTTAAAATA-TTTTTATGAAATTTTATT
1 TTCAAGAAAAATTGATACTTTCAACTTTTTCTTAAAATATTTTTTTTGAAATTTTATT
* * * * * *
3360933 TTTAAGAAAAATTGATACTTTCAA-TGTTTTCTTAAAATATTTTCTCTAAAATATTACT
1 TTCAAGAAAAATTGATACTTTCAACT-TTTTCTTAAAATATTTTTTTTGAAATTTTATT
* * * *
3360991 TTCAAGGAAGATTGATACTTTTAACTTTTTCTTAAAGTA--TTTTTT-AAATTTTTTATT
1 TTCAAGAAAAATTGATACTTTCAACTTTTTCTTAAAATATTTTTTTTGAAA--TTTTATT
* ** * * *
3361048 TTCAAGAAAAATTAATACTTTCAACTTTTTCTTAAGGTATATTTTTTGAAATTTGATC
1 TTCAAGAAAAATTGATACTTTCAACTTTTTCTTAAAATATTTTTTTTGAAATTTTATT
* * * ** ** *
3361106 TTCAAGAAAAATTGATACTTTTAA-TTTTTTTTAAAGTATTTTTTTAAAAAAAATTCAATC
1 TTCAAGAAAAATTGATACTTTCAACTTTTTCTTAAAATATTTTTTT---TGAAATTTTATT
* * * * *
3361166 TT-AAAAAAAATTGATACTTTTAACTTTTTCATAAAGTA-TTTTTTT-AATTTTTATT
1 TTCAAGAAAAATTGATACTTTCAACTTTTTCTTAAAATATTTTTTTTGAAATTTTATT
3361221 TT-AAGAAAA
1 TTCAAGAAAA
3361230 TCATTGAAAA
Statistics
Matches: 565, Mismatches: 105, Indels: 54
0.78 0.15 0.07
Matches are distributed among these distances:
55 61 0.11
56 135 0.24
57 112 0.20
58 153 0.27
59 42 0.07
60 32 0.06
61 6 0.01
62 24 0.04
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.48
Consensus pattern (58 bp):
TTCAAGAAAAATTGATACTTTCAACTTTTTCTTAAAATATTTTTTTTGAAATTTTATT
Found at i:3360977 original size:13 final size:14
Alignment explanation
Indices: 3360959--3360987 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3360949 ACTTTCAATG
3360959 TTTTCT-TAAAATA
1 TTTTCTCTAAAATA
3360972 TTTTCTCTAAAATA
1 TTTTCTCTAAAATA
3360986 TT
1 TT
3360988 ACTTTCAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTTCTCTAAAATA
Found at i:3361007 original size:282 final size:282
Alignment explanation
Indices: 3360597--3361148 Score: 769
Period size: 282 Copynumber: 2.0 Consensus size: 282
3360587 ATTTTACTTA
* *
3360597 AGGAAAATTGATACGTTCAACTTTTTCTTAAAATATTTTTTTTGAAATTTTATTTTCAAGAAAAA
1 AGGAAAATTGATACGTTCAACTTTTCCTTAAAATATTTTTTATGAAATTTTATTTTCAAGAAAAA
* *
3360662 TTGATACTTTCAACTTTTCCTTAAAATGTTTCTTTTAAAATATTACTTTGAAGGAAAATTGATAC
66 TTGATACTTTCAACTTTTCCTTAAAATGTTTCTTCTAAAATATTACTTTCAAGGAAAATTGATAC
* * *
3360727 TTTTAACTTTTTCTTAAAGCATTTTTTGAAA-TTTTATCTTAAAAAAAAATTGATATTTTTAACT
131 TTTTAACTTTTTCTTAAAGCATTTTTT-AAATTTTTATCTTAAAAAAAAATTAATACTTTCAACT
*
3360791 TTTCCTTCAA-G-CATTTTTTGAAAATTT-ATTTTCAAGAAAAATTGATACTTTCAATTTTTTCT
195 TTTCCTT-AAGGACATTTTTTG-AAATTTGATCTTCAAGAAAAATTGATACTTTCAATTTTTT-T
3360853 TAAA-TCATTTTTGAAATTTCATTTTT
257 TAAAGT-ATTTTTGAAATTTCATTTTT
* * *
3360879 AGGAGAAATTGATACTTTTAACTTTTCCTTAAAATA-TTTTTATGAAATTTTATTTTTAAGAAAA
1 AGGA-AAATTGATACGTTCAACTTTTCCTTAAAATATTTTTTATGAAATTTTATTTTCAAGAAAA
* * *
3360943 ATTGATACTTTCAA-TGTTTTCTTAAAATATTT-TCTCTAAAATATTACTTTCAAGGAAGATTGA
65 ATTGATACTTTCAACT-TTTCCTTAAAATGTTTCT-TCTAAAATATTACTTTCAAGGAAAATTGA
* * * *
3361006 TACTTTTAACTTTTTCTTAAAGTATTTTTTAAATTTTTTATTTTCAAGAAAAATTAATACTTTCA
128 TACTTTTAACTTTTTCTTAAAGCATTTTTTAAA-TTTTTATCTTAAAAAAAAATTAATACTTTCA
* * *
3361071 ACTTTTTCTTAAGGTATATTTTTTGAAATTTGATCTTCAAGAAAAATTGATACTTTTAATTTTTT
192 ACTTTTCCTTAAGG-ACATTTTTTGAAATTTGATCTTCAAGAAAAATTGATACTTTCAATTTTTT
3361136 TTAAAGTATTTTT
256 TTAAAGTATTTTT
3361149 TTAAAAAAAA
Statistics
Matches: 239, Mismatches: 21, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
281 5 0.02
282 115 0.48
283 62 0.26
284 17 0.07
285 40 0.17
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.49
Consensus pattern (282 bp):
AGGAAAATTGATACGTTCAACTTTTCCTTAAAATATTTTTTATGAAATTTTATTTTCAAGAAAAA
TTGATACTTTCAACTTTTCCTTAAAATGTTTCTTCTAAAATATTACTTTCAAGGAAAATTGATAC
TTTTAACTTTTTCTTAAAGCATTTTTTAAATTTTTATCTTAAAAAAAAATTAATACTTTCAACTT
TTCCTTAAGGACATTTTTTGAAATTTGATCTTCAAGAAAAATTGATACTTTCAATTTTTTTTAAA
GTATTTTTGAAATTTCATTTTT
Found at i:3361173 original size:115 final size:116
Alignment explanation
Indices: 3360478--3361229 Score: 600
Period size: 114 Copynumber: 6.6 Consensus size: 116
3360468 ACCTTTATTC
* * * * * *
3360478 AAGAAAAATTAATACTTTCAACCTTTCCTTAAAGCATTTTTTTTTTAAAAATTTTTAT-TTCTAA
1 AAGAAAAATTGATACTTTCAACTTTTTCTTAAAG--TATATTTTTT-GAAA-TTTTATCTTC-AA
* * * * * * *
3360542 GAAAAATTGATACTCTCAACTTCTCATCAAA-AATATTTTTTAAAAAT-TTTA-CTT
61 GAAAAATTGATACTTTTAACTTTTCCTTAAAGTAT-TTTTTTAAAAATATTAATCTT
* * * * *
3360596 AAGGAAAATTGATACGTTCAACTTTTTCTTAAAATATTTTTTTTGAAATTTTATTTTCAAGAAAA
1 AAGAAAAATTGATACTTTCAACTTTTTCTTAAAGTATATTTTTTGAAATTTTATCTTCAAGAAAA
* * * *
3360661 ATTGATACTTTCAACTTTTCCTTAAAATGTTTCTTTT-AAAATATTACT-TT
66 ATTGATACTTTTAACTTTTCCTTAAAGTATTT-TTTTAAAAATATTAATCTT
* * * * *
3360711 GAAGGAAAATTGATACTTTTAACTTTTTCTTAAAG--CATTTTTTGAAATTTTATCTTAAAAAAA
1 -AAGAAAAATTGATACTTTCAACTTTTTCTTAAAGTATATTTTTTGAAATTTTATCTTCAAGAAA
* * * * *
3360774 AATTGATATTTTTAACTTTTCCTTCAAGCA-TTTTTTGAAAAT-TT-ATTTT
65 AATTGATACTTTTAACTTTTCCTTAAAGTATTTTTTTAAAAATATTAATCTT
* * * * * * *
3360823 CAAGAAAAATTGATACTTTCAATTTTTTCTTAAA-T-CA-TTTTTGAAATTTCATTTTTAGGAGA
1 -AAGAAAAATTGATACTTTCAACTTTTTCTTAAAGTATATTTTTTGAAATTTTATCTTCAAGAAA
* * * * * *
3360885 AATTGATACTTTTAACTTTTCCTTAAAATATTTTTAT-GAAATTTTATTTTT
65 AATTGATACTTTTAACTTTTCCTTAAAGTATTTTTTTAAAAATATTAATCTT
* *
3360936 AAGAAAAATTGATACTTTCAA-TGTTTTCTTAAA--ATATTTTCTCTAAAATATTA-CTTTCAAG
1 AAGAAAAATTGATACTTTCAACT-TTTTCTTAAAGTATATTTT-T-TGAAATTTTATC-TTCAAG
* * * * * * *
3360997 GAAGATTGATACTTTTAACTTTTTCTTAAAGTA-TTTTTT-AAATTTTTTATTTT
62 AAAAATTGATACTTTTAACTTTTCCTTAAAGTATTTTTTTAAAAATATTAATCTT
* * *
3361050 CAAGAAAAATTAATACTTTCAACTTTTTCTTAAGGTATATTTTTTGAAATTTGATCTTCAAGAAA
1 -AAGAAAAATTGATACTTTCAACTTTTTCTTAAAGTATATTTTTTGAAATTTTATCTTCAAGAAA
** *
3361115 AATTGATACTTTTAA-TTTTTTTTAAAGTATTTTTTTAAAAAAAATTCAATCTT
65 AATTGATACTTTTAACTTTTCCTTAAAGTATTTTTTT-AAAAATATT-AATCTT
* * * * *
3361168 AAAAAAAATTGATACTTTTAACTTTTTCATAAAGTAT-TTTTTT-AATTTTTAT-TTTAAGAAAA
1 AAGAAAAATTGATACTTTCAACTTTTTCTTAAAGTATATTTTTTGAAATTTTATCTTCAAGAAAA
3361230 TCATTGAAAA
Statistics
Matches: 521, Mismatches: 86, Indels: 58
0.78 0.13 0.09
Matches are distributed among these distances:
111 51 0.10
112 79 0.15
113 14 0.03
114 127 0.24
115 125 0.24
116 49 0.09
117 44 0.08
118 32 0.06
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.48
Consensus pattern (116 bp):
AAGAAAAATTGATACTTTCAACTTTTTCTTAAAGTATATTTTTTGAAATTTTATCTTCAAGAAAA
ATTGATACTTTTAACTTTTCCTTAAAGTATTTTTTTAAAAATATTAATCTT
Found at i:3367610 original size:16 final size:15
Alignment explanation
Indices: 3367589--3367618 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
3367579 TTCATGTTTT
3367589 TCTAAAATTATATACG
1 TCTAAAATTA-ATACG
3367605 TCTAAAATTAATAC
1 TCTAAAATTAATAC
3367619 AAAATTCAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.37
Consensus pattern (15 bp):
TCTAAAATTAATACG
Found at i:3368044 original size:11 final size:11
Alignment explanation
Indices: 3368001--3368052 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
3367991 TAATAGTTTA
*
3368001 AAATATAATAC
1 AAATATAATAT
3368012 AAATTATAATAT
1 AAA-TATAATAT
*
3368024 GATGATATAATAT
1 -A-AATATAATAT
3368037 AAATATAATAT
1 AAATATAATAT
3368048 AAATA
1 AAATA
3368053 AAAATTATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
11 17 0.49
12 8 0.23
13 9 0.26
14 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (11 bp):
AAATATAATAT
Found at i:3375380 original size:15 final size:14
Alignment explanation
Indices: 3375347--3375373 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3375337 CTGGAACTTA
3375347 AAAAAATAATTTTC
1 AAAAAATAATTTTC
3375361 AAAAAATAATTTT
1 AAAAAATAATTTT
3375374 TGAAAAAGAT
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:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAAAATAATTTTC
Found at i:3375542 original size:26 final size:25
Alignment explanation
Indices: 3375499--3375564 Score: 87
Period size: 26 Copynumber: 2.6 Consensus size: 25
3375489 TTAATATAAC
3375499 TATTAAAATATTAAAAATAATTTAT
1 TATTAAAATATTAAAAATAATTTAT
** *
3375524 TATTAAAATATATTGAAATTATTTAT
1 TATTAAAATAT-TAAAAATAATTTAT
3375550 TATTAAAAGTATTAA
1 TATTAAAA-TATTAA
3375565 TATTAAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 11 0.32
26 20 0.59
27 3 0.09
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (25 bp):
TATTAAAATATTAAAAATAATTTAT
Found at i:3375620 original size:19 final size:18
Alignment explanation
Indices: 3375561--3375630 Score: 70
Period size: 19 Copynumber: 3.8 Consensus size: 18
3375551 ATTAAAAGTA
*
3375561 TTAATATTAAAA-AATAA
1 TTAATATTAAAATAATAT
*
3375578 TTATATTTTAATAATAATAT
1 TTA-ATATTAA-AATAATAT
*
3375598 TTAATATTAAAATATTAT
1 TTAATATTAAAATAATAT
*
3375616 GTTAATATAAAAATA
1 -TTAATATTAAAATA
3375631 CTTAAAATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
17 3 0.07
18 13 0.30
19 21 0.48
20 7 0.16
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (18 bp):
TTAATATTAAAATAATAT
Found at i:3375687 original size:13 final size:13
Alignment explanation
Indices: 3375659--3375709 Score: 65
Period size: 12 Copynumber: 4.2 Consensus size: 13
3375649 ATTATTCTTT
3375659 ATATATT-TATTA
1 ATATATTATATTA
*
3375671 ATATATTATAAT-
1 ATATATTATATTA
3375683 A-ATATT-TATTA
1 ATATATTATATTA
3375694 ATATATTATATTA
1 ATATATTATATTA
3375707 ATA
1 ATA
3375710 GTATATTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
10 3 0.09
11 6 0.18
12 13 0.39
13 11 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
ATATATTATATTA
Found at i:3375687 original size:23 final size:23
Alignment explanation
Indices: 3375661--3375745 Score: 89
Period size: 23 Copynumber: 3.6 Consensus size: 23
3375651 TATTCTTTAT
3375661 ATATTTATTAATATATTATAATA
1 ATATTTATTAATATATTATAATA
*
3375684 ATATTTATTAATATATTATATTA
1 ATATTTATTAATATATTATAATA
* * *
3375707 ATAGTATATTATTTATTTATATAATA
1 ATA-TTTATTA-ATATAT-TATAATA
* *
3375733 TTATTTATAAATA
1 ATATTTATTAATA
3375746 AAATTATACT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
23 25 0.50
24 8 0.16
25 9 0.18
26 8 0.16
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (23 bp):
ATATTTATTAATATATTATAATA
Found at i:3375737 original size:18 final size:18
Alignment explanation
Indices: 3375662--3375745 Score: 66
Period size: 18 Copynumber: 4.7 Consensus size: 18
3375652 ATTCTTTATA
*
3375662 TATTTATTAATATATTAT
1 TATTTATTAATATAATAT
* * *
3375680 AATAATATTTAT-TAATA-
1 TAT-TTATTAATATAATAT
3375697 TATTATATTAATAGT-ATAT
1 TATT-TATTAATA-TAATAT
*
3375716 TATTTATTTATATAATAT
1 TATTTATTAATATAATAT
*
3375734 TATTTATAAATA
1 TATTTATTAATA
3375746 AAATTATACT
Statistics
Matches: 50, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
17 9 0.18
18 30 0.60
19 11 0.22
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (18 bp):
TATTTATTAATATAATAT
Found at i:3376906 original size:27 final size:26
Alignment explanation
Indices: 3376876--3376929 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
3376866 AATTATTATT
*
3376876 AAATTCATAAAA-TAATACTAAATTTTA
1 AAATT-ATAAAACAAATA-TAAATTTTA
*
3376903 AAATTTTAAAACAAATATAAATTTTA
1 AAATTATAAAACAAATATAAATTTTA
3376929 A
1 A
3376930 CATCCATCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (26 bp):
AAATTATAAAACAAATATAAATTTTA
Found at i:3377311 original size:21 final size:20
Alignment explanation
Indices: 3377285--3377338 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
3377275 ATTGTAATAT
3377285 ATAAAAAAATTATCAATAAAA
1 ATAAAAAAATTAT-AATAAAA
** *
3377306 ATAAAATTATTATTATAAAA
1 ATAAAAAAATTATAATAAAA
*
3377326 TTAAAAAAGATTA
1 ATAAAAAA-ATTA
3377339 CGAATTATTG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (20 bp):
ATAAAAAAATTATAATAAAA
Found at i:3384573 original size:13 final size:13
Alignment explanation
Indices: 3384555--3384581 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3384545 ATAAAAGTTT
3384555 TTCAAGTAATTTA
1 TTCAAGTAATTTA
3384568 TTCAAGTAATTTA
1 TTCAAGTAATTTA
3384581 T
1 T
3384582 ATAACACAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (13 bp):
TTCAAGTAATTTA
Found at i:3385623 original size:25 final size:24
Alignment explanation
Indices: 3385571--3385617 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
3385561 TAGTAATCTC
* *
3385571 AAAACGATATGATAATACAATACA
1 AAAACGATATGATAAAAAAATACA
3385595 AAAACGATATGAATAAAAAAATA
1 AAAACGATATG-ATAAAAAAATA
3385618 TGAAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.64, C:0.09, G:0.09, T:0.19
Consensus pattern (24 bp):
AAAACGATATGATAAAAAAATACA
Found at i:3394398 original size:11 final size:11
Alignment explanation
Indices: 3394382--3394409 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
3394372 ATTTACTAAA
3394382 TTATTTAAATT
1 TTATTTAAATT
3394393 TTATTTAAATT
1 TTATTTAAATT
3394404 TTATTT
1 TTATTT
3394410 TTGAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTATTTAAATT
Found at i:3395112 original size:30 final size:30
Alignment explanation
Indices: 3395073--3395140 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
3395063 TTTTTTAAAT
* * *
3395073 TAAT-TTTTTAATTATATATATTTATATAA
1 TAATATTTTTAAATATATATATTTAAAAAA
* *
3395102 TGATATTTTTAAATATTTATATTTAAAAAA
1 TAATATTTTTAAATATATATATTTAAAAAA
3395132 TAATATTTT
1 TAATATTTT
3395141 ATTAATTTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 3 0.09
30 29 0.91
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (30 bp):
TAATATTTTTAAATATATATATTTAAAAAA
Found at i:3395560 original size:15 final size:16
Alignment explanation
Indices: 3395528--3395565 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
3395518 AATTAAATAA
3395528 TAAATATTTTTAAAATT
1 TAAA-ATTTTTAAAATT
*
3395545 TAAAATTTTT-ATATT
1 TAAAATTTTTAAAATT
3395560 TAAAAT
1 TAAAAT
3395566 AAATTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 10 0.50
16 6 0.30
17 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TAAAATTTTTAAAATT
Found at i:3395673 original size:16 final size:15
Alignment explanation
Indices: 3395647--3395693 Score: 55
Period size: 13 Copynumber: 3.3 Consensus size: 15
3395637 GAATAAAATA
3395647 ATTTA-TTTTATGTAT
1 ATTTAGTTTTAT-TAT
3395662 ATTTAGTTTTA-TAT
1 ATTTAGTTTTATTAT
*
3395676 -TTAAGTTTTATTAT
1 ATTTAGTTTTATTAT
3395690 ATTT
1 ATTT
3395694 TTATTAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
13 9 0.33
14 6 0.22
15 7 0.26
16 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (15 bp):
ATTTAGTTTTATTAT
Found at i:3395698 original size:22 final size:23
Alignment explanation
Indices: 3395668--3395715 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
3395658 GTATATTTAG
* *
3395668 TTTTATATTTAAGTTTT-ATTATA
1 TTTTATATTAAAATTTTAATTA-A
3395691 TTTT-TATTAAAATTTTAATTAA
1 TTTTATATTAAAATTTTAATTAA
3395713 TTT
1 TTT
3395716 AATTTTTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTATATTAAAATTTTAATTAA
Found at i:3398594 original size:59 final size:59
Alignment explanation
Indices: 3398531--3398933 Score: 537
Period size: 59 Copynumber: 6.7 Consensus size: 59
3398521 TTTTTTAGGG
3398531 AAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTCGATTTTC-AAGGA
1 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTT--ATTTTCTAAGGA
* *** *
3398590 AAATTGATACTTTCAACTTTTCCTCAAAAACCCCTTTTTTGAAAATTTA-TTTCTAAGGA
1 AAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTTGGAAATTTATTTTCTAAGGA
3398649 AAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTTTGGAAATTTATTTTTCTTTTAAGG
1 AAATTGATACTTTCAACTTTTCCCCAAAAATA---TTTTTTTGGAAATTTA-TTTTC---TAAGG
3398714 A
59 A
*
3398715 AAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTTTTCTTTTAAGGA
1 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTA-TTTTC---TAAGGA
* * *
3398778 AAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTT-TTTTCTGAGGA
1 AAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAAATTTATTTTCTAAGGA
*
3398837 AAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTGGAAATTTA-TTTCTAAGGA
1 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTTCTAAGGA
*
3398895 AAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT
1 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
3398934 AGAATTTTTT
Statistics
Matches: 313, Mismatches: 18, Indels: 27
0.87 0.05 0.08
Matches are distributed among these distances:
58 63 0.20
59 100 0.32
61 27 0.09
62 5 0.02
63 67 0.21
64 14 0.04
66 37 0.12
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.45
Consensus pattern (59 bp):
AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTTCTAAGGA
Found at i:3399033 original size:8 final size:8
Alignment explanation
Indices: 3399013--3399051 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
3399003 CTAATCTAAT
3399013 AAATAAA-
1 AAATAAAC
3399020 AAATAAAC
1 AAATAAAC
3399028 AAAT--A-
1 AAATAAAC
3399033 AAATAAAC
1 AAATAAAC
3399041 AAATAAAC
1 AAATAAAC
3399049 AAA
1 AAA
3399052 GAAATAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
5 4 0.14
6 1 0.04
7 8 0.29
8 15 0.54
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (8 bp):
AAATAAAC
Found at i:3399037 original size:13 final size:13
Alignment explanation
Indices: 3399019--3399060 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
3399009 TAATAAATAA
3399019 AAAATAAACAAAT
1 AAAATAAACAAAT
3399032 AAAATAAACAAAT
1 AAAATAAACAAAT
* *
3399045 -AAACAAAGAAAT
1 AAAATAAACAAAT
3399057 AAAA
1 AAAA
3399061 AAAAATTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.79, C:0.07, G:0.02, T:0.12
Consensus pattern (13 bp):
AAAATAAACAAAT
Found at i:3399072 original size:12 final size:12
Alignment explanation
Indices: 3399057--3399099 Score: 79
Period size: 12 Copynumber: 3.7 Consensus size: 12
3399047 ACAAAGAAAT
3399057 AAAAAAAAATTC
1 AAAAAAAAATTC
3399069 AAAAAAAAATTC
1 AAAAAAAAATTC
3399081 -AAAAAAAATTC
1 AAAAAAAAATTC
3399092 AAAAAAAA
1 AAAAAAAA
3399100 CCTGGAGCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.37
12 19 0.63
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAAAAAAATTC
Done.