Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 22 of 292
Found at i:5722983 original size:20 final size:20
Alignment explanation
Indices: 5722960--5723002 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
5722950 AAATCCAAAT
*
5722960 TAAAATATTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
*
5722980 TAAAATCCTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
5723000 TAA
1 TAA
5723003 GAGTACTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.28
Consensus pattern (20 bp):
TAAAATACTGAAATTCAGGA
Found at i:5723658 original size:2 final size:2
Alignment explanation
Indices: 5723651--5723686 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
5723641 CCCAAAATTC
5723651 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5723687 GGTATAGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:5727120 original size:12 final size:12
Alignment explanation
Indices: 5727103--5727127 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5727093 TTTTAAAATT
5727103 ATGAATAATATA
1 ATGAATAATATA
5727115 ATGAATAATATA
1 ATGAATAATATA
5727127 A
1 A
5727128 AACATAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
ATGAATAATATA
Found at i:5727197 original size:24 final size:24
Alignment explanation
Indices: 5727163--5727257 Score: 95
Period size: 24 Copynumber: 4.0 Consensus size: 24
5727153 TACGATATAC
*
5727163 ATAACATATAATAAAAAATAATAA
1 ATAATATATAATAAAAAATAATAA
*
5727187 GTAATATATAATAAAAATATAATAA
1 ATAATATATAATAAAAA-ATAATAA
** * *
5727212 ATGTTATATAATAAAATATAATAT
1 ATAATATATAATAAAAAATAATAA
*
5727236 A-AATATAT-ATAGGAAAATAATA
1 ATAATATATAATA-AAAAATAATA
5727258 TATGATAAAT
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
22 3 0.05
23 13 0.22
24 22 0.38
25 20 0.34
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (24 bp):
ATAATATATAATAAAAAATAATAA
Found at i:5727199 original size:14 final size:13
Alignment explanation
Indices: 5727163--5727231 Score: 51
Period size: 14 Copynumber: 5.6 Consensus size: 13
5727153 TACGATATAC
*
5727163 ATAACATATAATA
1 ATAATATATAATA
5727176 A-AA-A-ATAATA
1 ATAATATATAATA
5727186 AGTAATATATAATA
1 A-TAATATATAATA
5727200 A-AA-ATATAATAA
1 ATAATATATAAT-A
**
5727212 ATGTTATATAATA
1 ATAATATATAATA
5727225 A-AATATA
1 ATAATATA
5727232 ATATAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 15
0.70 0.06 0.23
Matches are distributed among these distances:
10 7 0.16
11 8 0.18
12 12 0.27
13 4 0.09
14 14 0.31
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (13 bp):
ATAATATATAATA
Found at i:5727207 original size:35 final size:34
Alignment explanation
Indices: 5727168--5727273 Score: 90
Period size: 35 Copynumber: 3.1 Consensus size: 34
5727158 TATACATAAC
*
5727168 ATATAATAAAAAATAATAAGTAATATATAATAAAA
1 ATATAATAAAAAATAATAA-TAAAATATAATAAAA
*** *
5727203 ATATAATAAATGTTATATAATAAAATATAATATAA
1 ATATAATAAAAAATA-ATAATAAAATATAATAAAA
* **
5727238 ATATATATAGGAAAATAAT-ATATGATA-AATAAAA
1 ATATA-ATA-AAAAATAATAATAAAATATAATAAAA
5727272 AT
1 AT
5727274 TTTATATAAA
Statistics
Matches: 56, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
34 8 0.14
35 36 0.64
36 9 0.16
37 3 0.05
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (34 bp):
ATATAATAAAAAATAATAATAAAATATAATAAAA
Found at i:5727244 original size:25 final size:24
Alignment explanation
Indices: 5727157--5727246 Score: 85
Period size: 25 Copynumber: 3.7 Consensus size: 24
5727147 ATAATATACG
* *
5727157 ATATACATAACATATAATAAAAA-
1 ATATAAATAATATATAATAAAAAT
*
5727180 ATAATAAGTAATATATAATAAAAAT
1 AT-ATAAATAATATATAATAAAAAT
**
5727205 ATAATAAATGTTATATAATAAAATAT
1 AT-ATAAATAATATATAATAAAA-AT
5727231 AATATAAAT-ATATATA
1 -ATATAAATAATATATA
5727247 GGAAAATAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
23 2 0.04
24 18 0.32
25 26 0.46
26 8 0.14
27 2 0.04
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (24 bp):
ATATAAATAATATATAATAAAAAT
Found at i:5727922 original size:8 final size:8
Alignment explanation
Indices: 5727909--5727934 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
5727899 TCGACCTCAG
5727909 GCGCCCAC
1 GCGCCCAC
5727917 GCGCCCAC
1 GCGCCCAC
5727925 GCGCCCAC
1 GCGCCCAC
5727933 GC
1 GC
5727935 CGACTCCTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.62, G:0.27, T:0.00
Consensus pattern (8 bp):
GCGCCCAC
Found at i:5729138 original size:3 final size:3
Alignment explanation
Indices: 5729130--5729169 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
5729120 TCGTGGAGTA
5729130 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
5729170 CAGATATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:5737045 original size:17 final size:17
Alignment explanation
Indices: 5737023--5737056 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
5737013 GCTATACGAA
5737023 CTTACTATGCTTAATTT
1 CTTACTATGCTTAATTT
* *
5737040 CTTACTCTGTTTAATTT
1 CTTACTATGCTTAATTT
5737057 TCTGTGTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.18, G:0.06, T:0.56
Consensus pattern (17 bp):
CTTACTATGCTTAATTT
Found at i:5739735 original size:14 final size:14
Alignment explanation
Indices: 5739712--5739746 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
5739702 ATCCTATAAC
*
5739712 AATCTTTAGGATTT
1 AATCTATAGGATTT
5739726 AATCTATAGGATTT
1 AATCTATAGGATTT
5739740 AATCTAT
1 AATCTAT
5739747 CAATAGTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (14 bp):
AATCTATAGGATTT
Found at i:5744118 original size:58 final size:58
Alignment explanation
Indices: 5744045--5744161 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
5744035 ATACGACGTT
5744045 AAAATAATTATTTTATGATAATTATGAGGTCTAGGATATGAAAATAAGAATGTGTTAA
1 AAAATAATTATTTTATGATAATTATGAGGTCTAGGATATGAAAATAAGAATGTGTTAA
5744103 AAAATAATTATTTTATGATAATTATGAGGTCTAGGATATGAAAATAAGAATGTGTTAA
1 AAAATAATTATTTTATGATAATTATGAGGTCTAGGATATGAAAATAAGAATGTGTTAA
5744161 A
1 A
5744162 GTTTCATGAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.45, C:0.02, G:0.17, T:0.36
Consensus pattern (58 bp):
AAAATAATTATTTTATGATAATTATGAGGTCTAGGATATGAAAATAAGAATGTGTTAA
Found at i:5747580 original size:16 final size:16
Alignment explanation
Indices: 5747559--5747593 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
5747549 GTAAATCTCA
5747559 AAAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAAG
*
5747575 AAAAAAGAAAAAAAAG
1 AAAAAAAAAAAAAAAG
5747591 AAA
1 AAA
5747594 TCACCATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAAAG
Found at i:5747590 original size:9 final size:9
Alignment explanation
Indices: 5747558--5747593 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
5747548 AGTAAATCTC
5747558 AAAAAAAA-
1 AAAAAAAAG
5747566 AAAAAAAAG
1 AAAAAAAAG
5747575 --AAAAAAG
1 AAAAAAAAG
5747582 AAAAAAAAG
1 AAAAAAAAG
5747591 AAA
1 AAA
5747594 TCACCATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
7 7 0.28
8 8 0.32
9 10 0.40
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:5747612 original size:24 final size:24
Alignment explanation
Indices: 5747585--5747637 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
5747575 AAAAAAGAAA
* *
5747585 AAAAAGAAAT-CACCATGAATTTAC
1 AAAAA-AAATCCACCATAAATCTAC
*
5747609 AAAAAAACTCCACCATAAATCTAC
1 AAAAAAAATCCACCATAAATCTAC
5747633 AAAAA
1 AAAAA
5747638 TCAACATTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.58, C:0.21, G:0.04, T:0.17
Consensus pattern (24 bp):
AAAAAAAATCCACCATAAATCTAC
Found at i:5752130 original size:29 final size:29
Alignment explanation
Indices: 5752068--5752170 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
5752058 GTGACGAGAT
* * *
5752068 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
5752097 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
5752126 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
5752155 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
5752171 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:5760171 original size:29 final size:29
Alignment explanation
Indices: 5760109--5760211 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
5760099 GTGACGAGAT
* * *
5760109 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
5760138 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
5760167 TGGCACTATGTGTGTGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
5760196 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
5760212 TGATTGAGTA
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
28 3 0.05
29 56 0.95
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.30
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:5764627 original size:8 final size:8
Alignment explanation
Indices: 5764613--5764642 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
5764603 ACAAATGCCA
5764613 GCTTTTCG
1 GCTTTTCG
*
5764621 ACTTTTCG
1 GCTTTTCG
5764629 GCTTTTCG
1 GCTTTTCG
5764637 GCTTTT
1 GCTTTT
5764643 GCTGATCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.23, G:0.20, T:0.53
Consensus pattern (8 bp):
GCTTTTCG
Found at i:5776024 original size:23 final size:24
Alignment explanation
Indices: 5775993--5776037 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
5775983 ATATCCCCAC
5775993 ATGGAGTGTAG-GGTTGGATGGAG
1 ATGGAGTGTAGAGGTTGGATGGAG
*
5776016 ATGGTGTGTAGAGGTTGGATGG
1 ATGGAGTGTAGAGGTTGGATGG
5776038 GTAGGATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.20, C:0.00, G:0.51, T:0.29
Consensus pattern (24 bp):
ATGGAGTGTAGAGGTTGGATGGAG
Found at i:5781802 original size:19 final size:20
Alignment explanation
Indices: 5781778--5781815 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
5781768 GGTACCACCA
5781778 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
5781797 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
5781816 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:5782203 original size:46 final size:46
Alignment explanation
Indices: 5782039--5782210 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
5782029 AACCCGCCCC
* *** *
5782039 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
5782085 TAAATGAACT-GGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
5782132 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
5782177 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
5782211 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 23 0.22
46 42 0.41
47 25 0.24
48 1 0.01
49 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:5789351 original size:19 final size:20
Alignment explanation
Indices: 5789327--5789364 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
5789317 GGTACCACCA
5789327 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
5789346 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
5789365 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:5789685 original size:47 final size:49
Alignment explanation
Indices: 5789620--5789755 Score: 167
Period size: 46 Copynumber: 2.9 Consensus size: 49
5789610 CGGGCGTTCG
**
5789620 CATCCATAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA
1 CATCCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTA
* * *
5789670 CAT-C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTTG
1 CATCCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTA
*
5789713 CATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CATCCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
5789756 TCAACCATCC
Statistics
Matches: 74, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
43 6 0.08
44 2 0.03
45 2 0.03
46 29 0.39
47 29 0.39
48 2 0.03
49 1 0.01
50 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (49 bp):
CATCCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTA
Found at i:5789745 original size:46 final size:47
Alignment explanation
Indices: 5789619--5789752 Score: 168
Period size: 47 Copynumber: 2.9 Consensus size: 47
5789609 TCGGGCGTTC
5789619 GCATCCATAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT
1 GCATCCAT-AATGAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTT
* * * *
5789669 ACAT-C-TCACGAACTCGGACTCAACTCAACGAGTTCGGA-C-ATTT
1 GCATCCATAATGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTT
5789712 GCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 GCATCCATAA-TGAACTCGGACTCAACTCAACGAGTTCGGA
5789753 TGCTCAACCA
Statistics
Matches: 74, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
43 6 0.08
44 2 0.03
45 2 0.03
46 29 0.39
47 30 0.41
48 1 0.01
49 1 0.01
50 3 0.04
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (47 bp):
GCATCCATAATGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTT
Found at i:5789771 original size:46 final size:45
Alignment explanation
Indices: 5789630--5789771 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 45
5789620 CATCCATAAA
5789630 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * *
5789677 CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
5789723 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
5789769 TGA
1 TGA
5789772 CATGTCACTT
Statistics
Matches: 78, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 33 0.42
47 31 0.40
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:5798685 original size:19 final size:18
Alignment explanation
Indices: 5798651--5798686 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
5798641 CAAATAAATA
5798651 AAAGAAAGAAAAAGAAAC
1 AAAGAAAGAAAAAGAAAC
*
5798669 AAAGAATAGAGAAAGAAA
1 AAAGAA-AGAAAAAGAAA
5798687 TGAAATAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.75, C:0.03, G:0.19, T:0.03
Consensus pattern (18 bp):
AAAGAAAGAAAAAGAAAC
Found at i:5799067 original size:21 final size:23
Alignment explanation
Indices: 5799030--5799071 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
5799020 GGGAATAGAA
5799030 TGAAAATACATAATTAGTTTTAT
1 TGAAAATACATAATTAGTTTTAT
5799053 TGAAAATA-A-AATTAGTTTT
1 TGAAAATACATAATTAGTTTT
5799072 GTTTAGGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.53
22 1 0.05
23 8 0.42
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (23 bp):
TGAAAATACATAATTAGTTTTAT
Found at i:5799356 original size:5 final size:5
Alignment explanation
Indices: 5799346--5799371 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
5799336 GCATTGCAGT
5799346 ATTGA ATTGA ATTGA ATTGA ATTGA A
1 ATTGA ATTGA ATTGA ATTGA ATTGA A
5799372 ATAAATTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTGA
Found at i:5800306 original size:17 final size:18
Alignment explanation
Indices: 5800273--5800306 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
5800263 TCAAATTTGG
5800273 GTTGATATTGGTATGAAA
1 GTTGATATTGGTATGAAA
*
5800291 GTTGAT-TTGGTTTGAA
1 GTTGATATTGGTATGAA
5800307 TGAAGTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.44
Consensus pattern (18 bp):
GTTGATATTGGTATGAAA
Found at i:5803726 original size:14 final size:16
Alignment explanation
Indices: 5803709--5803740 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5803699 AGAAATCTTC
5803709 ATTTT-ATGA-TACAT
1 ATTTTAATGATTACAT
5803723 ATTTTAATGATTACAT
1 ATTTTAATGATTACAT
5803739 AT
1 AT
5803741 ATATCTCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 4 0.25
16 7 0.44
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (16 bp):
ATTTTAATGATTACAT
Found at i:5808272 original size:41 final size:41
Alignment explanation
Indices: 5808225--5808305 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
5808215 TTAAATTGTG
*
5808225 TAAACTTACTAAGTAATTCATATACTTAGTTTGTTATTATC
1 TAAACTTACTAAGTAATTCATATACTTACTTTGTTATTATC
5808266 TAAACTTACTAAGTAATTCATATACTTACTTTGTTATTAT
1 TAAACTTACTAAGTAATTCATATACTTACTTTGTTATTAT
5808306 TTTCTATAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (41 bp):
TAAACTTACTAAGTAATTCATATACTTACTTTGTTATTATC
Found at i:5808294 original size:20 final size:20
Alignment explanation
Indices: 5808228--5808295 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
5808218 AATTGTGTAA
5808228 ACTTACTAAGTAATTCATAT
1 ACTTACTAAGTAATTCATAT
* ** * *
5808248 ACTTAGTTTGTTATT-ATCTAA
1 ACTTACTAAGTAATTCA--TAT
5808269 ACTTACTAAGTAATTCATAT
1 ACTTACTAAGTAATTCATAT
5808289 ACTTACT
1 ACTTACT
5808296 TTGTTATTAT
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
19 1 0.03
20 20 0.57
21 13 0.37
22 1 0.03
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (20 bp):
ACTTACTAAGTAATTCATAT
Found at i:5809987 original size:40 final size:40
Alignment explanation
Indices: 5809927--5810018 Score: 134
Period size: 40 Copynumber: 2.3 Consensus size: 40
5809917 CTCAGTATCA
*
5809927 CACACTTAGTGCCTCATGTAGCCGAAGCTA-TTCCAACTCG
1 CACACTTAGTGCCTCATGTAGCCGAAGCTATTTCAAAC-CG
*
5809967 CACACTTAGTGCCAT-TTGTAGCCGAAGCTATTTCAAACCG
1 CACACTTAGTGCC-TCATGTAGCCGAAGCTATTTCAAACCG
5810007 CACACTTAGTGC
1 CACACTTAGTGC
5810019 TGAAATTAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
40 41 0.85
41 7 0.15
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (40 bp):
CACACTTAGTGCCTCATGTAGCCGAAGCTATTTCAAACCG
Found at i:5816169 original size:23 final size:23
Alignment explanation
Indices: 5816139--5816257 Score: 175
Period size: 23 Copynumber: 5.1 Consensus size: 23
5816129 CCTTGCCTCT
*
5816139 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
5816162 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* * *
5816185 TTTCGATCACTGGGGTATAAGCCC
1 TTT-AATAACTGGGGCATAAGCCC
5816209 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
5816232 TTTAATAACTGGGGTATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
5816255 TTT
1 TTT
5816258 TGCACTTCCT
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
23 66 0.78
24 19 0.22
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:5816207 original size:47 final size:46
Alignment explanation
Indices: 5816139--5816257 Score: 184
Period size: 47 Copynumber: 2.6 Consensus size: 46
5816129 CCTTGCCTCT
* * *
5816139 TTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGTATAAGCCCTTTAATAACTGGGGCATAAGCCC
* *
5816185 TTTCGATCACTGGGGTATAAGCCCTTTAATAACTGGGGCATAAGCCC
1 TTT-AATAACTGGGGTATAAGCCCTTTAATAACTGGGGCATAAGCCC
5816232 TTTAATAACTGGGGTATAAGCCCTTT
1 TTTAATAACTGGGGTATAAGCCCTTT
5816258 TGCACTTCCT
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
46 24 0.37
47 41 0.63
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (46 bp):
TTTAATAACTGGGGTATAAGCCCTTTAATAACTGGGGCATAAGCCC
Found at i:5816330 original size:9 final size:9
Alignment explanation
Indices: 5816316--5816372 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
5816306 ATCTCATGTG
5816316 CATATCATA
1 CATATCATA
*
5816325 CATATCATGTG
1 CATATCA--TA
5816336 CATATCATA
1 CATATCATA
* *
5816345 CATGTCATGTG
1 CATATCA--TA
5816356 CATATCATA
1 CATATCATA
5816365 CATATCAT
1 CATATCAT
5816373 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:5816332 original size:20 final size:20
Alignment explanation
Indices: 5816304--5816374 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
5816294 GCATTTATGA
*
5816304 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
5816324 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
5816344 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
5816364 ACATATCATGT
1 ACATATCATGT
5816375 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:5816339 original size:11 final size:11
Alignment explanation
Indices: 5816309--5816363 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
5816299 TATGAACATC
5816309 TCATGTGCATA
1 TCATGTGCATA
*
5816320 TCA--TACATA
1 TCATGTGCATA
5816329 TCATGTGCATA
1 TCATGTGCATA
* *
5816340 TCA--TACATG
1 TCATGTGCATA
5816349 TCATGTGCATA
1 TCATGTGCATA
5816360 TCAT
1 TCAT
5816364 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:5816439 original size:25 final size:25
Alignment explanation
Indices: 5816411--5816458 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
5816401 ATATATAAAC
* * *
5816411 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
5816436 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
5816459 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:5824446 original size:23 final size:23
Alignment explanation
Indices: 5824415--5824534 Score: 186
Period size: 23 Copynumber: 5.2 Consensus size: 23
5824405 GGCCTTGCCT
* *
5824415 CTTTTATAACTGGGGCAAAAGCC
1 CTTTAATAACTGGGGCATAAGCC
*
5824438 CTTTAATAACTGGGGCGTAAGCC
1 CTTTAATAACTGGGGCATAAGCC
* *
5824461 CTTTTGATCACTGGGGCATAAGCC
1 C-TTTAATAACTGGGGCATAAGCC
5824485 CTTTAATAACTGGGGCATAAGCC
1 CTTTAATAACTGGGGCATAAGCC
5824508 CTTTAATAACTGGGGCATAAGCC
1 CTTTAATAACTGGGGCATAAGCC
5824531 CTTT
1 CTTT
5824535 TGCACTTCCT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
23 68 0.77
24 20 0.23
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (23 bp):
CTTTAATAACTGGGGCATAAGCC
Found at i:5824474 original size:47 final size:46
Alignment explanation
Indices: 5824415--5824534 Score: 195
Period size: 47 Copynumber: 2.6 Consensus size: 46
5824405 GGCCTTGCCT
* *
5824415 CTTTTATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCGTAAGCC
1 CTTTTATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
*
5824461 CTTTTGATCACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTT-ATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
*
5824508 CTTTAATAACTGGGGCATAAGCCCTTT
1 CTTTTATAACTGGGGCATAAGCCCTTT
5824535 TGCACTTCCT
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
46 26 0.38
47 42 0.62
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (46 bp):
CTTTTATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
Found at i:5824607 original size:9 final size:9
Alignment explanation
Indices: 5824593--5824649 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
5824583 ATCTCATGTG
5824593 CATATCATA
1 CATATCATA
*
5824602 CATATCATGTG
1 CATATCA--TA
5824613 CATATCATA
1 CATATCATA
* *
5824622 CATGTCATGTG
1 CATATCA--TA
5824633 CATATCATA
1 CATATCATA
5824642 CATATCAT
1 CATATCAT
5824650 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:5824609 original size:20 final size:20
Alignment explanation
Indices: 5824581--5824651 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
5824571 GCATTTATGA
*
5824581 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
5824601 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
5824621 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
5824641 ACATATCATGT
1 ACATATCATGT
5824652 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:5824616 original size:11 final size:11
Alignment explanation
Indices: 5824586--5824640 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
5824576 TATGAACATC
5824586 TCATGTGCATA
1 TCATGTGCATA
*
5824597 TCA--TACATA
1 TCATGTGCATA
5824606 TCATGTGCATA
1 TCATGTGCATA
* *
5824617 TCA--TACATG
1 TCATGTGCATA
5824626 TCATGTGCATA
1 TCATGTGCATA
5824637 TCAT
1 TCAT
5824641 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:5824716 original size:25 final size:25
Alignment explanation
Indices: 5824688--5824735 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
5824678 ATATATAAAC
* * *
5824688 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
5824713 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
5824736 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:5831581 original size:43 final size:42
Alignment explanation
Indices: 5831533--5831680 Score: 172
Period size: 43 Copynumber: 3.5 Consensus size: 42
5831523 CCTAGATATG
* *
5831533 GTCTTACATGTTATCACATATCGATGCCAATGTCTCAGACAT
1 GTCTTACATGTAATCACATATCGATGCCAATGTCCCAGACAT
* * * * *
5831575 AGTCTTACACGAAATCATATAACGATGCCAATGTCCCAGAAAT
1 -GTCTTACATGTAATCACATATCGATGCCAATGTCCCAGACAT
* *
5831618 GATCTTACATGTAATCACA-ATACAATGCCAATGTCCCAAACAT
1 G-TCTTACATGTAATCACATAT-CGATGCCAATGTCCCAGACAT
5831661 GGTCTTACATGTAATCACAT
1 -GTCTTACATGTAATCACAT
5831681 CTCGGTCATC
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
42 2 0.02
43 84 0.97
44 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (42 bp):
GTCTTACATGTAATCACATATCGATGCCAATGTCCCAGACAT
Found at i:5834128 original size:48 final size:48
Alignment explanation
Indices: 5834054--5834201 Score: 199
Period size: 48 Copynumber: 3.1 Consensus size: 48
5834044 AGGTGAAAAA
* * * *
5834054 AATAGTGTCTGGTTACCCGTTTGGGTTAAACCTACATGAATAAA-AGAT
1 AATAGTGCCTAGTTACCCGTTAGGGTTAAACCTACACGAATAAAGA-AT
*
5834102 AATAGTGCCTAGTTACCCGTTAGGGTTAAACCTACACGAATAATGAAT
1 AATAGTGCCTAGTTACCCGTTAGGGTTAAACCTACACGAATAAAGAAT
* * * *
5834150 AATAGTGCCTAATTACCCATTAGGGTTAAACCTACACGATTAATGAAT
1 AATAGTGCCTAGTTACCCGTTAGGGTTAAACCTACACGAATAAAGAAT
5834198 AATA
1 AATA
5834202 ATGTTTGGTT
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
48 90 0.99
49 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (48 bp):
AATAGTGCCTAGTTACCCGTTAGGGTTAAACCTACACGAATAAAGAAT
Found at i:5835378 original size:25 final size:25
Alignment explanation
Indices: 5835350--5835406 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
5835340 TCACGTGATC
*
5835350 CACACGGCCTACCCTACCTGGCCAT
1 CACACGCCCTACCCTACCTGGCCAT
*
5835375 CACACGCCCTAGCCTACCTGGCCAT
1 CACACGCCCTACCCTACCTGGCCAT
*
5835400 CATACGC
1 CACACGC
5835407 TCGTGTGGCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.21, C:0.47, G:0.16, T:0.16
Consensus pattern (25 bp):
CACACGCCCTACCCTACCTGGCCAT
Found at i:5838025 original size:45 final size:45
Alignment explanation
Indices: 5837961--5838051 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
5837951 TTAACAGTAC
5837961 TCATTAATTCCATAGTTCTATTTCCAAAGCTAAAATTTCGATTGG
1 TCATTAATTCCATAGTTCTATTTCCAAAGCTAAAATTTCGATTGG
5838006 TCATTAATTCCATAGTTCTATTTCCAAAGCTAAAATTTCGATTGG
1 TCATTAATTCCATAGTTCTATTTCCAAAGCTAAAATTTCGATTGG
5838051 T
1 T
5838052 TCTTTTGAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.41
Consensus pattern (45 bp):
TCATTAATTCCATAGTTCTATTTCCAAAGCTAAAATTTCGATTGG
Found at i:5842099 original size:161 final size:162
Alignment explanation
Indices: 5841830--5842159 Score: 574
Period size: 161 Copynumber: 2.0 Consensus size: 162
5841820 GTGTGATAGT
*
5841830 CACTTGAAAGATTTTAGGAGATATTCCTCAATTTAAAAAAAAACACTATTATATCAACTAACAAT
1 CACTTGAAAGATTTTAGGAGATATTCCTCAATTTAAAAAAAAACACTATTATATCAACTAACAAG
5841895 ATTTAACCACTAATCCTATCCAACTAATCAAAATTTAAATTTAACCCAATTACCAACAACATGGG
66 ATTTAACCACTAATCCTATCCAACTAATCAAAATTTAAATTTAACCCAATTACCAACAACATGGG
*
5841960 C-GACACAAACAGGGAGTAGGAAAAATAATTCC
131 CAG-CACAAACAGGGAGAAGGAAAAATAATTCC
*
5841992 CACTTGAAAGATTTTAGGAGATATTCCTCAATTT-AAAAAAGACACTATTATATCAACTAACAAG
1 CACTTGAAAGATTTTAGGAGATATTCCTCAATTTAAAAAAAAACACTATTATATCAACTAACAAG
* * * *
5842056 ATTTAACCACTAATCTTATCTAACTAATCAGAATTTGAATTTAACCCAATTACCAACAACATGGG
66 ATTTAACCACTAATCCTATCCAACTAATCAAAATTTAAATTTAACCCAATTACCAACAACATGGG
5842121 CAGCACAAACAGGGAGAAGGAAAAATAATTCC
131 CAGCACAAACAGGGAGAAGGAAAAATAATTCC
5842153 CACTTGA
1 CACTTGA
5842160 GCACAACAAA
Statistics
Matches: 160, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
161 125 0.78
162 35 0.22
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (162 bp):
CACTTGAAAGATTTTAGGAGATATTCCTCAATTTAAAAAAAAACACTATTATATCAACTAACAAG
ATTTAACCACTAATCCTATCCAACTAATCAAAATTTAAATTTAACCCAATTACCAACAACATGGG
CAGCACAAACAGGGAGAAGGAAAAATAATTCC
Found at i:5843313 original size:17 final size:19
Alignment explanation
Indices: 5843271--5843314 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
5843261 ATGAAATTTT
*
5843271 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
5843290 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
5843308 AA-TATTA
1 AATTATTA
5843315 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:5845166 original size:28 final size:28
Alignment explanation
Indices: 5845134--5845202 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
5845124 GCGTAGATCA
5845134 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
5845162 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
5845190 CGATA-TACCCCTA
1 CGAAATTACCCCTA
5845203 GGGTTTTAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:5854070 original size:48 final size:48
Alignment explanation
Indices: 5854015--5854164 Score: 183
Period size: 48 Copynumber: 3.1 Consensus size: 48
5854005 CTGAGCTATC
*
5854015 GACATCGATATGTGATCCCATGTAAGACTATGTCTGGGACATGGCATT
1 GACATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATT
* ** *
5854063 GACATCGATCTACGATCCCATGTAAGACCATGTCTGGGACATGGGATT
1 GACATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATT
* * * * * * *
5854111 GGCATCAATATGTGATCTCATGTAATACCATATCGGGGATATGGCATT
1 GACATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATT
*
5854159 GGCATC
1 GACATC
5854165 CTACCATGTG
Statistics
Matches: 86, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 86 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (48 bp):
GACATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATT
Found at i:5856510 original size:40 final size:40
Alignment explanation
Indices: 5856343--5856519 Score: 139
Period size: 40 Copynumber: 4.4 Consensus size: 40
5856333 TCAATATCTT
* * * * *
5856343 GCACACTAAGTGCTAAAGAATAGTCGAAGCTAT-TATAATCTT
1 GCACACTAAGTGCTATA-TATAGCCGAAGCTATCT-TGA-CTC
**
5856385 GCACAC-AAGTGCCT-T-TCATAGCCGAAGCTATCTCAACCTC
1 GCACACTAAGTG-CTATAT-ATAGCCGAAGCTATCTTGA-CTC
* *
5856425 GCACGCTAAGTGCTATATATAGCCGAAGCTAT-TCTGATTC
1 GCACACTAAGTGCTATATATAGCCGAAGCTATCT-TGACTC
* * * *
5856465 TCACACTAAATGCTTTATATAGCCGAAGCTATCTTGACAC
1 GCACACTAAGTGCTATATATAGCCGAAGCTATCTTGACTC
5856505 GCACACTAAGTGCTA
1 GCACACTAAGTGCTA
5856520 AACATAGTTG
Statistics
Matches: 108, Mismatches: 19, Indels: 18
0.74 0.13 0.12
Matches are distributed among these distances:
40 71 0.66
41 28 0.26
42 9 0.08
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (40 bp):
GCACACTAAGTGCTATATATAGCCGAAGCTATCTTGACTC
Found at i:5858824 original size:17 final size:16
Alignment explanation
Indices: 5858798--5858829 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
5858788 TGATAAATCT
5858798 CCGACGAGCTTCCAAC
1 CCGACGAGCTTCCAAC
5858814 CCGATCGAGCTTCCAA
1 CCGA-CGAGCTTCCAA
5858830 TAGTCTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.25, C:0.41, G:0.19, T:0.16
Consensus pattern (16 bp):
CCGACGAGCTTCCAAC
Found at i:5862279 original size:24 final size:27
Alignment explanation
Indices: 5862232--5862283 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 27
5862222 ACCCGAGGTA
5862232 AGTTCGTATGTTAAATAAGCTTTAATAT
1 AGTTCGTATGTTAAAT-AGCTTTAATAT
5862260 AGTT-GTAT-TTAAAT-GCTTTAATAT
1 AGTTCGTATGTTAAATAGCTTTAATAT
5862284 TGCATGAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 10 0.42
26 6 0.25
27 4 0.17
28 4 0.17
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.46
Consensus pattern (27 bp):
AGTTCGTATGTTAAATAGCTTTAATAT
Found at i:5870158 original size:33 final size:31
Alignment explanation
Indices: 5870097--5870158 Score: 72
Period size: 33 Copynumber: 1.9 Consensus size: 31
5870087 AAGTTTTAAG
*
5870097 AAATAAAATAAAACAACTAAAAACAATAACAA
1 AAATAAAATAAAACAAC-AAAAAAAATAACAA
5870129 AAATAAAAATAAAACTAA-AAAAATAAATAA
1 AAAT-AAAATAAAAC-AACAAAAA-AAATAA
5870159 GATCAGTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
32 9 0.35
33 15 0.58
34 2 0.08
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (31 bp):
AAATAAAATAAAACAACAAAAAAAATAACAA
Found at i:5871555 original size:13 final size:13
Alignment explanation
Indices: 5871533--5871571 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
5871523 AAGTAAACAG
*
5871533 TAAATCATAATAA
1 TAAATAATAATAA
*
5871546 TAAATAATAACAA
1 TAAATAATAATAA
*
5871559 TAAAAAATAATAA
1 TAAATAATAATAA
5871572 GAATAGAACC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (13 bp):
TAAATAATAATAA
Found at i:5871566 original size:16 final size:16
Alignment explanation
Indices: 5871541--5871576 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
5871531 AGTAAATCAT
*
5871541 AATAATAAATAATAAC
1 AATAAAAAATAATAAC
*
5871557 AATAAAAAATAATAAG
1 AATAAAAAATAATAAC
5871573 AATA
1 AATA
5871577 GAACCTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (16 bp):
AATAAAAAATAATAAC
Found at i:5871716 original size:24 final size:23
Alignment explanation
Indices: 5871693--5871752 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 23
5871683 AGTAGGAATA
5871693 ATAATAATAAAATAA-TACTAAAT
1 ATAATAATAAAA-AATTACTAAAT
5871716 ATAATAATAATAAAATTACTAAAT
1 ATAATAATAA-AAAATTACTAAAT
5871740 ATAATAAATAAAA
1 ATAAT-AATAAAA
5871753 GAAAAAGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
23 12 0.35
24 17 0.50
25 5 0.15
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (23 bp):
ATAATAATAAAAAATTACTAAAT
Found at i:5871723 original size:26 final size:24
Alignment explanation
Indices: 5871690--5871746 Score: 96
Period size: 26 Copynumber: 2.3 Consensus size: 24
5871680 GTTAGTAGGA
5871690 ATAATAATAATAAAATAATACTAAAT
1 ATAATAATAATAAAAT--TACTAAAT
5871716 ATAATAATAATAAAATTACTAAAT
1 ATAATAATAATAAAATTACTAAAT
5871740 ATAATAA
1 ATAATAA
5871747 ATAAAAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 15 0.48
26 16 0.52
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.32
Consensus pattern (24 bp):
ATAATAATAATAAAATTACTAAAT
Found at i:5878543 original size:38 final size:39
Alignment explanation
Indices: 5878501--5878576 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 39
5878491 TATGTTACAT
5878501 ATAACCTGAGAATCTACAAC-AAGGCTAGATCTCATTAA
1 ATAACCTGAGAATCTACAACAAAGGCTAGATCTCATTAA
* * **
5878539 ATAACCTGAGGATCTGCAACAAATTCTAGATCTCATTA
1 ATAACCTGAGAATCTACAACAAAGGCTAGATCTCATTA
5878577 TAACATGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
38 18 0.55
39 15 0.45
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.26
Consensus pattern (39 bp):
ATAACCTGAGAATCTACAACAAAGGCTAGATCTCATTAA
Found at i:5880085 original size:93 final size:93
Alignment explanation
Indices: 5879973--5880144 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
5879963 GCCCATAAGT
* *
5879973 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
5880038 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
5880066 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
5880131 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
5880145 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:5880140 original size:46 final size:46
Alignment explanation
Indices: 5879965--5880140 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
5879955 TGTAACCCGC
* * *
5879965 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
5880011 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
5880061 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
5880104 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
5880141 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:5882567 original size:30 final size:30
Alignment explanation
Indices: 5882523--5882611 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
5882513 CAAAGATAAC
5882523 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
5882552 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
5882582 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
5882612 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:5882571 original size:15 final size:15
Alignment explanation
Indices: 5882523--5882602 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
5882513 CAAAGATAAC
*
5882523 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
5882537 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
5882552 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
5882567 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
5882582 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
5882597 AAGAAA
1 AAGAAA
5882603 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:5882611 original size:15 final size:15
Alignment explanation
Indices: 5882534--5882611 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
5882524 AGAAAACCGA
5882534 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
5882549 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
5882563 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
5882578 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
5882594 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
5882609 ATA
1 ATA
5882612 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:5885675 original size:93 final size:93
Alignment explanation
Indices: 5885563--5885734 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
5885553 GCCCATAAGT
* *
5885563 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
5885628 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
5885656 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
5885721 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
5885735 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:5885730 original size:46 final size:46
Alignment explanation
Indices: 5885555--5885730 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
5885545 TGTAACCCGC
* * *
5885555 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
5885601 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
5885651 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
5885694 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
5885731 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:5889292 original size:14 final size:14
Alignment explanation
Indices: 5889273--5889304 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
5889263 TATTTGATCC
*
5889273 CTAATTATATATGT
1 CTAATTAAATATGT
5889287 CTAATTAAATATGT
1 CTAATTAAATATGT
5889301 CTAA
1 CTAA
5889305 AGCTTGTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (14 bp):
CTAATTAAATATGT
Found at i:5890780 original size:19 final size:20
Alignment explanation
Indices: 5890736--5890780 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
5890726 TTACCCCAAA
* *
5890736 CTCCCAAACCTCTTTACTTT
1 CTCCCAAAACTCTTTACTCT
*
5890756 CCCCCAAAACT-TTTACTCT
1 CTCCCAAAACTCTTTACTCT
5890775 CTCCCA
1 CTCCCA
5890781 CTTTCCCTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.22, C:0.44, G:0.00, T:0.33
Consensus pattern (20 bp):
CTCCCAAAACTCTTTACTCT
Found at i:5891567 original size:19 final size:19
Alignment explanation
Indices: 5891543--5891670 Score: 219
Period size: 19 Copynumber: 6.9 Consensus size: 19
5891533 ATAATCTTTA
5891543 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5891562 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
5891581 ATGAT-TTCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5891599 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5891618 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5891635 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5891653 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
5891671 AAATATGGTT
Statistics
Matches: 103, Mismatches: 2, Indels: 8
0.91 0.02 0.07
Matches are distributed among these distances:
17 16 0.16
18 33 0.32
19 54 0.52
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:5891592 original size:37 final size:37
Alignment explanation
Indices: 5891551--5891670 Score: 199
Period size: 37 Copynumber: 3.3 Consensus size: 37
5891541 TAATGATATG
*
5891551 CAATCTTAGATATGATATGCAATCTTAGATATGATTT
1 CAATCTTAGATATGATATGCAATCTTAGATATGATTA
5891588 CAATCTTAGATATGATATGCAATCTTAGATATGA-TA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATTA
*
5891624 CAATCTTAGATATGAT-TGCAATCTTAGATATGATATG
1 CAATCTTAGATATGATATGCAATCTTAGATATGAT-TA
5891661 CAATCTTAGA
1 CAATCTTAGA
5891671 AAATATGGTT
Statistics
Matches: 79, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
35 17 0.22
36 17 0.22
37 45 0.57
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.38
Consensus pattern (37 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGATTA
Found at i:5891633 original size:54 final size:55
Alignment explanation
Indices: 5891543--5891670 Score: 231
Period size: 54 Copynumber: 2.3 Consensus size: 55
5891533 ATAATCTTTA
*
5891543 ATGATATGCAATCTTAGATATGATATGCAATCTTAGATATGATTTCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTAGATATGATTGCAATCTTAGAT
5891599 ATGATATGCAATCTTAGATATGATA-CAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATAGCAATCTTAGATATGATTGCAATCTTAGAT
5891653 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
5891671 AAATATGGTT
Statistics
Matches: 71, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
54 46 0.65
56 25 0.35
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.38
Consensus pattern (55 bp):
ATGATATGCAATCTTAGATATGATAGCAATCTTAGATATGATTGCAATCTTAGAT
Found at i:5898830 original size:52 final size:52
Alignment explanation
Indices: 5898752--5898850 Score: 198
Period size: 52 Copynumber: 1.9 Consensus size: 52
5898742 TTCCTTGACG
5898752 AGAAGTGGAACCCTAAAGATTGTGGTTATTATTGTACGAAAAACCATGGACA
1 AGAAGTGGAACCCTAAAGATTGTGGTTATTATTGTACGAAAAACCATGGACA
5898804 AGAAGTGGAACCCTAAAGATTGTGGTTATTATTGTACGAAAAACCAT
1 AGAAGTGGAACCCTAAAGATTGTGGTTATTATTGTACGAAAAACCAT
5898851 CATACTAAGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.26
Consensus pattern (52 bp):
AGAAGTGGAACCCTAAAGATTGTGGTTATTATTGTACGAAAAACCATGGACA
Found at i:5900818 original size:44 final size:44
Alignment explanation
Indices: 5900769--5901426 Score: 576
Period size: 44 Copynumber: 14.9 Consensus size: 44
5900759 GATCCAATAT
* **
5900769 GATTTGGCATCTCTATATTGGCAGAGAGCAGATCGAAGGCAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* * *
5900813 GATTTGGCATCTCTGTATTTGGCGGAGAGCAGATCGAAGACATAGCT
1 GATTTGGCATCTCTGTA-TTGGCAGAGAGCAGATCGAAG--ATAACA
** * * * ** *
5900860 GATTCAGCTTCCACGTGT-TTACGTTGA-AGCA-AGTCTAAGAT----
1 GATTTGGCAT-CTC-TGTATT-GGCAGAGAGCAGA-TCGAAGATAACA
* * *
5900901 GATTTGGCATCTCTGTATTGGTAGAGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
5900945 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* *
5900989 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* * * * *
5901033 GATTTGGCATCTCTGTTTTTGACGGAGAGCAGATCGAAGACATAGCT
1 GATTTGGCATCTCTG-TATTGGCAGAGAGCAGATCGAAG--ATAACA
* * * ** *
5901080 GATTTGGCTTCCACGTGT-TTACGTTGA-AGCA-AGTCTAAGAT----
1 GATTTGGCAT-CTC-TGTATT-GGCAGAGAGCAGA-TCGAAGATAACA
*
5901121 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* * * *
5901165 AATTTAGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* * * * *
5901209 GATTTGGCATCTCTGTATTCG-ACGAAGAGCAGATTGAAAACATAGCT
1 GATTTGGCATCTCTGTATTGGCA-G-AGAGCAGATCG--AAGATAACA
5901256 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* * * *
5901300 AATTTGACATTTCTGTATTGGCAGAGAGCAGATCGAAGATAATA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* *
5901344 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAATATAGA-A
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA-ACA
* * *
5901388 GATTTGG-AGTCTCTGTTTTGTCAGAGAGCATATCGAAGA
1 GATTTGGCA-TCTCTGTATTGGCAGAGAGCAGATCGAAGA
5901427 GAAGAACAAC
Statistics
Matches: 500, Mismatches: 79, Indels: 70
0.77 0.12 0.11
Matches are distributed among these distances:
39 13 0.03
40 30 0.06
41 18 0.04
43 1 0.00
44 288 0.58
45 53 0.11
46 12 0.02
47 69 0.14
48 11 0.02
49 5 0.01
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
Found at i:5901127 original size:176 final size:176
Alignment explanation
Indices: 5900769--5901426 Score: 655
Period size: 176 Copynumber: 3.7 Consensus size: 176
5900759 GATCCAATAT
* **
5900769 GATTTGGCATCTCTATATTGGCAGAGAGCAGATCGAAGGCAACAGATTTGGCATCTCTGTATTTG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTA-TTG
* * * ** * * * **
5900834 GCGGAGAGCAGATCGAAGACAT-AGCTGATTCAGCTTC-CACGTGTTT-ACGTTGA--AG--C-A
65 GCAGAGAGCAGATC-AA-AGATGA-CAGATTTGGCATCTC-TGTTTTTGACGGAGAGCAGATCGA
* * * * * *
5900891 AGTC-TAAGATGATTTGGCATCTCTGTATTGGTAGAGAGCAGATCAAAGATAGCA
126 AGACAT-AGCTGATTTGGCATCACTGTATTCGCAGAGAGCAGATCGAAGAT---A
5900945 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
5901010 CAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTTTTTGACGGAGAGCAGATCGAAGACA
66 CAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTTTTTGACGGAGAGCAGATCGAAGACA
* ** *
5901075 TAGCTGATTTGGCTTCCACGTGT-TTACGTTGA-AGCA-AGTCTAAGAT-
131 TAGCTGATTTGGCAT-CAC-TGTATT-CGCAGAGAGCAGA-TCGAAGATA
* * *
5901121 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAAATTTAGCATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
* * * * *
5901186 CAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCGACGAAGAGCAGATTGAAAACA
66 CAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTTTTTGACGGAGAGCAGATCGAAGACA
* *
5901251 TAGCTGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
131 TAGCTGATTTGGCATCACTGTATTCGCAGAGAGCAGATCGAAGAT---A
* * * * *
5901300 AATTTGACATTTCTGTATTGGCAGAGAGCAGATCGAAGATAATAGATTTGGCGTCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
* * * * *
5901365 CAGAGAGCAGATCGAATATAGA-AGATTTGG-AGTCTCTG-TTTTGTCAGAGAGCATATCGAAGA
66 CAGAGAGCAGATCAAAGAT-GACAGATTTGGCA-TCTCTGTTTTTGACGGAGAGCAGATCGAAGA
5901427 GAAGAACAAC
Statistics
Matches: 408, Mismatches: 52, Indels: 42
0.81 0.10 0.08
Matches are distributed among these distances:
173 17 0.04
174 15 0.04
175 31 0.08
176 197 0.48
178 18 0.04
179 105 0.26
180 18 0.04
181 7 0.02
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (176 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGG
CAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTTTTTGACGGAGAGCAGATCGAAGACA
TAGCTGATTTGGCATCACTGTATTCGCAGAGAGCAGATCGAAGATA
Found at i:5901151 original size:220 final size:219
Alignment explanation
Indices: 5900769--5901294 Score: 797
Period size: 220 Copynumber: 2.4 Consensus size: 219
5900759 GATCCAATAT
* * *
5900769 GATTTGGCATCTCTATATTGGCAGAGAGCAGATCGAAGGCA-ACAGATTTGGCATCTCTGTATTT
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATC-AAAG-ATACAGATTTGGCATCTCTGTTTTT
5900833 GGCGGAGAGCAGATCGAAGACATAGCTGATTCAGCTTCCACGTGTTTACGTTGAAGCAAGTCTAA
64 GGCGGAGAGCAGATCGAAGACATAGCTGATTCAGCTTCCACGTGTTTACGTTGAAGCAAGTCTAA
* * *
5900898 GATGATTTGGCATCTCTGTATTGGTAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTAT
129 GATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAGCAAATTTAGCATCTCTGTAT
*
5900963 TGGCAGAGAGCAGATCGAAGATAACA
194 TGGCAGAGAGCAGATCAAAGATAACA
5900989 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTTTTTG
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT-ACAGATTTGGCATCTCTGTTTTTG
* **
5901054 ACGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAG
65 GCGGAGAGCAGATCGAAGACATAGCTGATTCAGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAG
*
5901119 ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAAATTTAGCATCTCTGTATT
130 ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAGCAAATTTAGCATCTCTGTATT
*
5901184 GGCAGAGAGCAGATCAAAGATGACA
195 GGCAGAGAGCAGATCAAAGATAACA
* * * *
5901209 GATTTGGCATCTCTGTATTCG-ACGAAGAGCAGATTGAAAACATAGCTGATTTGGCATCTCTG-T
1 GATTTGGCATCTCTGTATTGGCA-G-AGAGCAGA-T-CAAAGATA-CAGATTTGGCATCTCTGTT
* *
5901272 ATTGGCAGAGAGCAGATCGAAGA
61 TTTGGCGGAGAGCAGATCGAAGA
5901295 TAACAAATTT
Statistics
Matches: 280, Mismatches: 19, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
218 1 0.00
219 4 0.01
220 223 0.80
221 8 0.03
222 23 0.08
223 21 0.08
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.27
Consensus pattern (219 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATACAGATTTGGCATCTCTGTTTTTGG
CGGAGAGCAGATCGAAGACATAGCTGATTCAGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAGA
TGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAGCAAATTTAGCATCTCTGTATTG
GCAGAGAGCAGATCAAAGATAACA
Found at i:5901642 original size:134 final size:134
Alignment explanation
Indices: 5901479--5901834 Score: 462
Period size: 134 Copynumber: 2.6 Consensus size: 134
5901469 GATCCAAGAT
* *
5901479 GATTTGGCATTCCTGTGTTTACAGGGAACAGATCAAAGACATAGCAGATCTGACATTCCTGTGCT
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGATCAAAGACATAGCAGATCTGACATTCATGTGCT
* *
5901544 TACAGCGAAGCAGATCAAAGATTTTAACATGGCATCCCTATGTTTATAGGGAACAAGTTAAAGAT
66 TACAGCGAAGCAGATCAAAGATTTCAACATGGCATCCCTATGTTTATAAGGAACAAGTTAAAGAT
5901609 AGCA
131 AGCA
* * *
5901613 GATTTGGCATCCCTGTGTTTACAAGGAACAGATCGAAGACATAGCAGATCTGACATTCTTGTGCT
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGATCAAAGACATAGCAGATCTGACATTCATGTGCT
** * * *
5901678 TACAGCGAAGCAGATTGAAGATTTCAGCATGGCATCCCTATGTTTATAAGGAATAAGTTGAAGAT
66 TACAGCGAAGCAGATCAAAGATTTCAACATGGCATCCCTATGTTTATAAGGAACAAGTTAAAGAT
*
5901743 AGTA
131 AGCA
* ** * * * *
5901747 GATTTGGCATCTCCATAT-TCGACAGGGAGCAGATTAAAGACATAGTAGATCTGACCTTCATGTG
1 GATTTGGCATC-CC-TGTGTTTACAGGGAACAGATCAAAGACATAGCAGATCTGACATTCATGTG
* *** *
5901811 TTTACATTAAAGCAGATCCAAGAT
64 CTTACAGCGAAGCAGATCAAAGAT
5901835 GACAGATTTG
Statistics
Matches: 192, Mismatches: 28, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
134 133 0.69
135 57 0.30
136 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (134 bp):
GATTTGGCATCCCTGTGTTTACAGGGAACAGATCAAAGACATAGCAGATCTGACATTCATGTGCT
TACAGCGAAGCAGATCAAAGATTTCAACATGGCATCCCTATGTTTATAAGGAACAAGTTAAAGAT
AGCA
Found at i:5901681 original size:46 final size:47
Alignment explanation
Indices: 5901490--5901698 Score: 125
Period size: 46 Copynumber: 4.6 Consensus size: 47
5901480 ATTTGGCATT
* * * *
5901490 CCTGTGTTTACAGGGAA-CAGATCAAAGACATAGCAGATCTGACATT
1 CCTGTGCTTACAGCGAAGCAGATCGAAGACATAGCAGATCTGACATC
* *** *
5901536 CCTGTGCTTACAGCGAAGCAGATC-AA-AGATTTTA-A-CATGGCATC
1 CCTGTGCTTACAGCGAAGCAGATCGAAGACATAGCAGATC-TGACATC
* * * * * * * *
5901580 CCTATGTTTATAGGGAA-CA-AGT-TAA-AGATAGCAGATTTGGCATC
1 CCTGTGCTTACAGCGAAGCAGA-TCGAAGACATAGCAGATCTGACATC
* *
5901624 CCTGTGTTTACAAG-GAA-CAGATCGAAGACATAGCAGATCTGACATT
1 CCTGTGCTTAC-AGCGAAGCAGATCGAAGACATAGCAGATCTGACATC
* *
5901670 CTTGTGCTTACAGCGAAGCAGATTGAAGA
1 CCTGTGCTTACAGCGAAGCAGATCGAAGA
5901699 TTTCAGCATG
Statistics
Matches: 125, Mismatches: 26, Indels: 23
0.72 0.15 0.13
Matches are distributed among these distances:
42 1 0.01
43 11 0.09
44 42 0.34
45 11 0.09
46 44 0.35
47 16 0.13
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.25
Consensus pattern (47 bp):
CCTGTGCTTACAGCGAAGCAGATCGAAGACATAGCAGATCTGACATC
Found at i:5901905 original size:45 final size:46
Alignment explanation
Indices: 5901821--5902020 Score: 250
Period size: 45 Copynumber: 4.5 Consensus size: 46
5901811 TTTACATTAA
* * *
5901821 AGCAGATC-CAAGATGACAGATTTGGCATCTTTGTATTAGACGGGG
1 AGCAGATCAGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* *
5901866 AGCAAATCAG-AGATAACAGATTTGGCATCTCTGTTTTAGACGGGG
1 AGCAGATCAGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * * *
5901911 AGCAGAT-TGAAGA-AGCAAATTTGGCGTCTCTGTATTAGACGGGG
1 AGCAGATCAGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* *
5901955 AGCAGATC-GAAGATAACAGATTTGGCGTCTCTGTATTAGACGAGG
1 AGCAGATCAGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
*
5902000 AGCAGATCA-AAGATAGCAGAT
1 AGCAGATCAGAAGATAACAGAT
5902021 ATCGCCTTCC
Statistics
Matches: 135, Mismatches: 15, Indels: 10
0.84 0.09 0.06
Matches are distributed among these distances:
44 40 0.30
45 95 0.70
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.24
Consensus pattern (46 bp):
AGCAGATCAGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
Found at i:5901947 original size:89 final size:89
Alignment explanation
Indices: 5901840--5902006 Score: 264
Period size: 89 Copynumber: 1.9 Consensus size: 89
5901830 AAGATGACAG
* *
5901840 ATTTGGCATCTTTGTATTAGACGGGGAGCAAATC-AGAGATAACAGATTTGGCATCTCTGTTTTA
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGA-AGATAACAGATTTGGCATCTCTGTATTA
*
5901904 GACGGGGAGCAGATTGAAGAAGCAA
65 GACGAGGAGCAGATTGAAGAAGCAA
* * *
5901929 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTAG
5901994 ACGAGGAGCAGAT
66 ACGAGGAGCAGAT
5902007 CAAAGATAGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
89 70 0.99
90 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.27
Consensus pattern (89 bp):
ATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTAG
ACGAGGAGCAGATTGAAGAAGCAA
Found at i:5902394 original size:19 final size:19
Alignment explanation
Indices: 5902370--5902436 Score: 69
Period size: 19 Copynumber: 3.9 Consensus size: 19
5902360 ATAATCTTCA
5902370 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5902389 ATGATATG----C---GAT
1 ATGATATGCAATCTTAGAT
5902401 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
5902419 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
5902437 AGATATGATT
Statistics
Matches: 39, Mismatches: 1, Indels: 16
0.70 0.02 0.29
Matches are distributed among these distances:
11 2 0.05
12 8 0.21
15 2 0.05
18 8 0.21
19 19 0.49
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:5904105 original size:3 final size:3
Alignment explanation
Indices: 5904097--5904137 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
5904087 ACTAAAATCC
5904097 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
5904138 CACAACTCAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:5904493 original size:17 final size:17
Alignment explanation
Indices: 5904442--5904493 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
5904432 TGAATGATGT
*
5904442 TATTTATGTTCTTAATTA
1 TATTTAT-TTATTAATTA
* *
5904460 TA-TTATTTAATACTTA
1 TATTTATTTATTAATTA
*
5904476 TATTTATTTATTATTTA
1 TATTTATTTATTAATTA
5904493 T
1 T
5904494 TTTGGAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 9 0.32
17 17 0.61
18 2 0.07
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (17 bp):
TATTTATTTATTAATTA
Found at i:5907241 original size:3 final size:3
Alignment explanation
Indices: 5907233--5907285 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
5907223 CTTTCTTTCT
5907233 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
5907281 TTC TT
1 TTC TT
5907286 GCCTTTTCCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:5908019 original size:3 final size:3
Alignment explanation
Indices: 5908011--5908043 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
5908001 GTTATATGGA
5908011 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
5908044 GTGGAAAGCA
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):
AAT
Found at i:5910159 original size:19 final size:17
Alignment explanation
Indices: 5910135--5910170 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
5910125 ATTTTTTGGC
5910135 TTTTCTTTCTTTCTTTTTT
1 TTTTCTTT-TTT-TTTTTT
5910154 TTTTCTTTTTTTTTTTT
1 TTTTCTTTTTTTTTTTT
5910171 GCTATATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 3 0.18
19 8 0.47
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (17 bp):
TTTTCTTTTTTTTTTTT
Found at i:5910160 original size:11 final size:11
Alignment explanation
Indices: 5910134--5910168 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
5910124 TATTTTTTGG
5910134 CTTTTCTTTCTTT
1 CTTTT-TTT-TTT
5910147 CTTTTTTTTTT
1 CTTTTTTTTTT
5910158 CTTTTTTTTTT
1 CTTTTTTTTTT
5910169 TTGCTATATG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 14 0.64
12 3 0.14
13 5 0.23
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
CTTTTTTTTTT
Found at i:5910168 original size:15 final size:15
Alignment explanation
Indices: 5910135--5910170 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
5910125 ATTTTTTGGC
*
5910135 TTTTCTTTCTTTCTT
1 TTTTTTTTCTTTCTT
5910150 TTTTTTTTCTTT-TT
1 TTTTTTTTCTTTCTT
5910164 TTTTTTT
1 TTTTTTT
5910171 GCTATATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (15 bp):
TTTTTTTTCTTTCTT
Found at i:5910690 original size:15 final size:17
Alignment explanation
Indices: 5910658--5910690 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
5910648 CTATTAACCC
5910658 TATTATTAAAATATAAA
1 TATTATTAAAATATAAA
5910675 TATTA-TAAAA-ATAAA
1 TATTATTAAAATATAAA
5910690 T
1 T
5910691 GGTGTGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 5 0.31
17 5 0.31
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TATTATTAAAATATAAA
Found at i:5918560 original size:5 final size:6
Alignment explanation
Indices: 5918534--5918573 Score: 62
Period size: 6 Copynumber: 6.3 Consensus size: 6
5918524 TTATTAAATG
5918534 TTAATAT TTAATT TTAATAT TTAATT TTAATT TTAATT TT
1 TTAAT-T TTAATT TTAAT-T TTAATT TTAATT TTAATT TT
5918574 TTATTAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 21 0.66
7 11 0.34
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TTAATT
Found at i:5918574 original size:13 final size:13
Alignment explanation
Indices: 5918534--5918573 Score: 73
Period size: 13 Copynumber: 3.2 Consensus size: 13
5918524 TTATTAAATG
5918534 TTAATATTTAATT
1 TTAATATTTAATT
5918547 TTAATATTTAATT
1 TTAATATTTAATT
5918560 TTAAT-TTTAATT
1 TTAATATTTAATT
5918572 TT
1 TT
5918574 TTATTAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 9 0.33
13 18 0.67
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTAATATTTAATT
Found at i:5919347 original size:29 final size:30
Alignment explanation
Indices: 5919247--5919374 Score: 92
Period size: 29 Copynumber: 4.4 Consensus size: 30
5919237 TATTTAAAAA
* *
5919247 TATTAAAATATTGATATAA-AATATTATTAAT
1 TATT-AAATATT-ATTTAACAATATAATTAAT
* *
5919278 T-TTAAATATTATTAAAC-ATACTATTTAAT
1 TATTAAATATTATTTAACAATA-TAATTAAT
5919307 TATT---TA-TATTTAACAATATAATTAAT
1 TATTAAATATTATTTAACAATATAATTAAT
** * * *
5919333 TATT-AATATTATTTATTATTTTAATAAAT
1 TATTAAATATTATTTAACAATATAATTAAT
5919362 TATTAAATATTAT
1 TATTAAATATTAT
5919375 AATTTTATTT
Statistics
Matches: 78, Mismatches: 11, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
26 18 0.23
27 5 0.06
28 9 0.12
29 33 0.42
30 12 0.15
31 1 0.01
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (30 bp):
TATTAAATATTATTTAACAATATAATTAAT
Found at i:5924380 original size:3 final size:3
Alignment explanation
Indices: 5924372--5924408 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
5924362 ATACTTTTTC
5924372 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
5924409 TTACTTTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:5925968 original size:30 final size:30
Alignment explanation
Indices: 5925934--5925992 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
5925924 TATTTTATTA
*
5925934 TTAATTTTGTTATTTTTTTAAAGGTATTTC
1 TTAATTTTGTTATTATTTTAAAGGTATTTC
* *
5925964 TTAATTTTTTTATTATTTTAGAGGTATTT
1 TTAATTTTGTTATTATTTTAAAGGTATTT
5925993 ACTTGTTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.24, C:0.02, G:0.10, T:0.64
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGTATTTC
Found at i:5927822 original size:14 final size:14
Alignment explanation
Indices: 5927779--5927826 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
5927769 TTTTTAAATT
5927779 TTAAAAGTATAAAAA
1 TTAAAA-TATAAAAA
* *
5927794 -TAAAATTTATCAAA
1 TTAAAATATA-AAAA
5927808 TTAAAATATAAAAA
1 TTAAAATATAAAAA
5927822 TTAAA
1 TTAAA
5927827 TCCACAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
13 3 0.11
14 16 0.59
15 8 0.30
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (14 bp):
TTAAAATATAAAAA
Found at i:5928146 original size:54 final size:54
Alignment explanation
Indices: 5928086--5928201 Score: 182
Period size: 56 Copynumber: 2.1 Consensus size: 54
5928076 TATACTTTGA
5928086 AATTTTCACATATTTACATCA-T-GGTCAACTATTAGAAAAAAAAATTACATATAC
1 AATTTTCACATATTTACATCAGTCGGTCAACTATTAG--AAAAAAATTACATATAC
5928140 AATTTTCACATATTTACATCATGGTCGGTCAACTATTAGAAAAAAATTACATATAC
1 AATTTTCACATATTTACATCA--GTCGGTCAACTATTAGAAAAAAATTACATATAC
5928196 AATTTT
1 AATTTT
5928202 ATCCTTTTCA
Statistics
Matches: 58, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
54 21 0.36
56 23 0.40
57 1 0.02
58 13 0.22
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (54 bp):
AATTTTCACATATTTACATCAGTCGGTCAACTATTAGAAAAAAATTACATATAC
Found at i:5932584 original size:114 final size:114
Alignment explanation
Indices: 5932377--5932605 Score: 334
Period size: 114 Copynumber: 2.0 Consensus size: 114
5932367 ACCTTTTGCA
* * * * * *
5932377 CATGCCCAGGTTTGAACCCAAGACTTCTCAAATATTTTCCAAAACACTTAACCACTGAGGCAGAC
1 CATGCCCAGGCTTGAACCCAAGACTTCTCAAACACTTCCCAAAACACTTAACCACTAACGCAGAC
* *
5932442 ATACAGTTATGTCACTTTCTTGTGCAATTAAACATTTATGTGCAGCCTC
66 ACACAGTTATGTCACTTTCTTGTACAATTAAACATTTATGTGCAGCCTC
* * *
5932491 CATGCCCAGGCTTGAACCCAAGACTTCTTAGACACTTCCCAGAACACTTAACCACTAACGCAGAC
1 CATGCCCAGGCTTGAACCCAAGACTTCTCAAACACTTCCCAAAACACTTAACCACTAACGCAGAC
*
5932556 ACACAGTTTTGTCACTTTCTT-TCACAATTAAACATTTATGTGCAGCCTC
66 ACACAGTTATGTCACTTTCTTGT-ACAATTAAACATTTATGTGCAGCCTC
5932605 C
1 C
5932606 TAATTGTTCC
Statistics
Matches: 102, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
113 1 0.01
114 101 0.99
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.28
Consensus pattern (114 bp):
CATGCCCAGGCTTGAACCCAAGACTTCTCAAACACTTCCCAAAACACTTAACCACTAACGCAGAC
ACACAGTTATGTCACTTTCTTGTACAATTAAACATTTATGTGCAGCCTC
Found at i:5933202 original size:3 final size:3
Alignment explanation
Indices: 5933194--5933240 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
5933184 TATTAATTTA
5933194 TAT TAT TA- TAT TAT TA- TAT TA- TAT TAT TA- TAT ATAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
5933235 TAT TAT
1 TAT TAT
5933241 ATATATATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
2 10 0.26
3 25 0.66
4 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:5933202 original size:8 final size:8
Alignment explanation
Indices: 5933191--5933242 Score: 74
Period size: 8 Copynumber: 6.8 Consensus size: 8
5933181 ATATATTAAT
5933191 TTATATTA
1 TTATATTA
5933199 TTATATTA
1 TTATATTA
5933207 -T-TA-TA
1 TTATATTA
5933212 TTATATTA
1 TTATATTA
5933220 TTATATATA
1 TTATAT-TA
5933229 TTATATTA
1 TTATATTA
5933237 TTATAT
1 TTATAT
5933243 ATATATGTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
5 2 0.05
6 3 0.08
7 3 0.08
8 24 0.60
9 8 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TTATATTA
Found at i:5933205 original size:5 final size:5
Alignment explanation
Indices: 5933182--5933237 Score: 53
Period size: 5 Copynumber: 10.6 Consensus size: 5
5933172 AAATAAGTAA
5933182 TATAT TA-ATT TATAT TAT-T ATATTAT TATAT TATAT TATTAT ATATAT
1 TATAT TATA-T TATAT TATAT -TA-TAT TATAT TATAT TA-TAT -TATAT
5933230 TATAT TAT
1 TATAT TAT
5933238 TATATATATA
Statistics
Matches: 44, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
4 2 0.05
5 29 0.66
6 10 0.23
7 3 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:5933230 original size:17 final size:17
Alignment explanation
Indices: 5933192--5933246 Score: 87
Period size: 17 Copynumber: 3.3 Consensus size: 17
5933182 TATATTAATT
5933192 TATATTAT-TATATTAT-
1 TATATTATAT-TATTATA
5933208 TATATTATATTATTATA
1 TATATTATATTATTATA
5933225 TATATTATATTATTATA
1 TATATTATATTATTATA
5933242 TATAT
1 TATAT
5933247 ATGTAAAACA
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
16 14 0.38
17 23 0.62
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TATATTATATTATTATA
Found at i:5937218 original size:28 final size:28
Alignment explanation
Indices: 5937178--5937256 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
5937168 GCAATCAAAT
* *
5937178 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
*
5937206 ATGGCACTTAGTGTACGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * *
5937234 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTACGAAATAT
5937257 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:5942906 original size:31 final size:31
Alignment explanation
Indices: 5942871--5942941 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
5942861 AAATACAAAA
5942871 AAGTCACTAAAATATTCAAAAGTTTTCATTT
1 AAGTCACTAAAATATTCAAAAGTTTTCATTT
* * * ** *
5942902 AAGTCATTGAACTATTTGAAAGTTTTTATTT
1 AAGTCACTAAAATATTCAAAAGTTTTCATTT
5942933 AAGTCACTA
1 AAGTCACTA
5942942 GGCTGTTAAG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (31 bp):
AAGTCACTAAAATATTCAAAAGTTTTCATTT
Found at i:5943581 original size:32 final size:32
Alignment explanation
Indices: 5943538--5943613 Score: 143
Period size: 32 Copynumber: 2.3 Consensus size: 32
5943528 TGGCATAGAC
5943538 TTAAAAGAAAATTAAATAAAGATTAAAGGATTT
1 TTAAAA-AAAATTAAATAAAGATTAAAGGATTT
5943571 TTAAAAAAAATTAAATAAAGATTAAAGGATTT
1 TTAAAAAAAATTAAATAAAGATTAAAGGATTT
5943603 TTAAAAAAAAT
1 TTAAAAAAAAT
5943614 AAAAAGTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
32 37 0.86
33 6 0.14
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (32 bp):
TTAAAAAAAATTAAATAAAGATTAAAGGATTT
Found at i:5946888 original size:18 final size:18
Alignment explanation
Indices: 5946860--5946903 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
5946850 AATTGAAATG
5946860 ATTTGGACATATGTGGTAA
1 ATTT-GACATATGTGGTAA
5946879 ATTTGACATATGTGGTAA
1 ATTTGACATATGTGGTAA
5946897 ATTTGAC
1 ATTTGAC
5946904 TTAGTGAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.39
Consensus pattern (18 bp):
ATTTGACATATGTGGTAA
Found at i:5951041 original size:12 final size:12
Alignment explanation
Indices: 5951024--5951052 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
5951014 GGCACTAATC
5951024 CTGTAAGTATTT
1 CTGTAAGTATTT
5951036 CTGTAAGTATTT
1 CTGTAAGTATTT
5951048 CTGTA
1 CTGTA
5951053 TTTGGTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.10, G:0.17, T:0.48
Consensus pattern (12 bp):
CTGTAAGTATTT
Found at i:5954098 original size:18 final size:18
Alignment explanation
Indices: 5954071--5954109 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
5954061 ATCTATACTG
*
5954071 ATCACCAGAGTTTCAAGT
1 ATCACAAGAGTTTCAAGT
5954089 ATCACAAGAGTTTCAAGT
1 ATCACAAGAGTTTCAAGT
5954107 ATC
1 ATC
5954110 TCCTTATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (18 bp):
ATCACAAGAGTTTCAAGT
Found at i:5959363 original size:13 final size:13
Alignment explanation
Indices: 5959345--5959373 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
5959335 CTTGGTTCAA
5959345 TTAGAAATTTATT
1 TTAGAAATTTATT
5959358 TTAGAAATTTATT
1 TTAGAAATTTATT
5959371 TTA
1 TTA
5959374 TAGTTCTTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (13 bp):
TTAGAAATTTATT
Found at i:5962201 original size:2 final size:2
Alignment explanation
Indices: 5962194--5962229 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
5962184 TCTAAAACCC
* *
5962194 TA TA TA TA TA TA TA TA TA GA TA TG TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5962230 AACTTATCTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (2 bp):
TA
Found at i:5965011 original size:21 final size:23
Alignment explanation
Indices: 5964963--5965005 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
5964953 ACATGCATAT
5964963 ATATATAAATACAAGTATTAGAA
1 ATATATAAATACAAGTATTAGAA
*
5964986 ATATAT-AATATAA-TATTAGA
1 ATATATAAATACAAGTATTAGA
5965006 GGTATACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 6 0.32
23 6 0.32
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (23 bp):
ATATATAAATACAAGTATTAGAA
Found at i:5965054 original size:11 final size:11
Alignment explanation
Indices: 5965038--5965097 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
5965028 GTAATATTAA
5965038 AAAATATATAT
1 AAAATATATAT
5965049 AAAATATATATT
1 AAAATATATA-T
*
5965061 AAAAGACTTATAT
1 AAAATA--TATAT
* *
5965074 ATAACATATAT
1 AAAATATATAT
5965085 GAAAA-ATATAT
1 -AAAATATATAT
5965096 AA
1 AA
5965098 TATTAAACAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
10 2 0.05
11 21 0.51
12 9 0.22
13 5 0.12
14 4 0.10
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (11 bp):
AAAATATATAT
Found at i:5965064 original size:25 final size:25
Alignment explanation
Indices: 5965031--5965107 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 25
5965021 ATAACTAGTA
*
5965031 ATATTAAAAAATATATATAAAATAT
1 ATATTAAAAAATATATATAAAACAT
* *
5965056 ATATTAAAAGACT-TATATATAACAT
1 ATATTAAAA-AATATATATAAAACAT
* *
5965081 ATATGAAAAATATATAATATTAAACAT
1 ATATTAAAAA-ATAT-ATATAAAACAT
5965108 TTACATAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
24 1 0.02
25 28 0.68
26 3 0.07
27 9 0.22
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (25 bp):
ATATTAAAAAATATATATAAAACAT
Found at i:5965306 original size:26 final size:25
Alignment explanation
Indices: 5965277--5965325 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
5965267 ATATATATAT
5965277 TAAGATATAT-ATATATATATAAATGA
1 TAAGATATATAATA-ATA-ATAAATGA
*
5965303 TAAGATCTATAATAATAATAAAT
1 TAAGATATATAATAATAATAAAT
5965326 ACAATACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 6 0.29
26 12 0.57
27 3 0.14
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (25 bp):
TAAGATATATAATAATAATAAATGA
Found at i:5967183 original size:68 final size:65
Alignment explanation
Indices: 5966991--5967167 Score: 185
Period size: 68 Copynumber: 2.6 Consensus size: 65
5966981 AAGTGAACTG
** * * * *
5966991 AGGCTCAACTCATTTCTCGCAATATGGGTTGATTTTTGAAACGTAGAAATTAAAAGAAGAAATTA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAGTA-AAA-TAAAAAAAGAAATTA
5967056 GA
64 GA
* * ** * *
5967058 AGGCTCAACTCACCTCTCGCAACATGAGTTAATACTTTGAAAAGTAGATTTTGAAAAACGAAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAT-CTTTGAAAAGTA-A-AATAAAAAAAG-AAAT
5967123 TA-A
62 TAGA
5967126 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAA
5967168 ATTAAAAAAA
Statistics
Matches: 93, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
67 37 0.40
68 50 0.54
69 6 0.06
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (65 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAGTAAAATAAAAAAAGAAATTAGA
Found at i:5967580 original size:70 final size:70
Alignment explanation
Indices: 5967536--5967712 Score: 309
Period size: 70 Copynumber: 2.5 Consensus size: 70
5967526 AGCGTGCCCC
* ** *
5967536 GAGGCTCAATTCATTTCTCGCAATATGAGTTGATTTTGGAACATAAATTGAAATTACCTCAACGT
1 GAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGGAACATAAATTGAAATTACCTCAACGT
5967601 GTCTT
66 GTCTT
5967606 GAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGGAACATAAATTGAAATTACCTCAACGT
1 GAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGGAACATAAATTGAAATTACCTCAACGT
5967671 GTCTT
66 GTCTT
*
5967676 GAGGCTCAACTCACCTCTCGCAATATAAGCTGATTTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
5967713 TGAAACAACA
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
70 102 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (70 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGGAACATAAATTGAAATTACCTCAACGT
GTCTT
Found at i:5967855 original size:72 final size:72
Alignment explanation
Indices: 5967738--5967872 Score: 216
Period size: 72 Copynumber: 1.9 Consensus size: 72
5967728 TAAAAAGTAG
* * *
5967738 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
5967803 GAAACAT
66 GAAACAT
* * *
5967810 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
5967873 CTTGGAAAAC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 57 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (72 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
GAAACAT
Found at i:5967856 original size:160 final size:161
Alignment explanation
Indices: 5967580--5967967 Score: 604
Period size: 161 Copynumber: 2.4 Consensus size: 161
5967570 TTTGGAACAT
* * * * * *
5967580 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA--TTTT
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTT
*
5967643 GGAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGCTG
66 GAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGCTG
*
5967708 A-TTT-TTGAAACAACAGGAATTAAAAAGTAG
131 ATTTTCTTGAAA-AACAGGAATTAAAAAGCAG
5967738 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTT
*
5967803 GAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
66 GAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGCTG
* * *
5967868 ATTTTCTTGGAAAACATGAATTAAGAAGCAG
131 ATTTTCTTGAAAAACAGGAATTAAAAAGCAG
* * *
5967899 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCGATATGAGTTAATTTTTG
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTT
5967964 GAAA
66 GAAA
5967968 AAACAAAATT
Statistics
Matches: 211, Mismatches: 15, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
158 53 0.25
160 68 0.32
161 85 0.40
162 5 0.02
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (161 bp):
AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTT
GAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGCTG
ATTTTCTTGAAAAACAGGAATTAAAAAGCAG
Found at i:5976875 original size:71 final size:72
Alignment explanation
Indices: 5976792--5977079 Score: 375
Period size: 71 Copynumber: 3.9 Consensus size: 72
5976782 AACAATTCAG
5976792 GAAATTGAAATTACCTCAACGTGT-TTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTG
1 GAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTG
5976856 GAAACAT
66 GAAACAT
*
5976863 GAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAAGTTGATTTT
1 GAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG-AGCTGA---T
*
5976928 TTTGAACGAATAAAGT
62 TTTG---GAA-ACA-T
* * * * * *
5976944 AGAAATTGAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTT
1 -GAAATTG-AAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTT
*
5977009 TTGAAACAT
64 TGGAAACAT
5977018 -AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA-CTCTCGCAATATGAGCTGATTTT
1 GAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
5977080 CTTGGAAAAT
Statistics
Matches: 190, Mismatches: 15, Indels: 25
0.83 0.07 0.11
Matches are distributed among these distances:
70 21 0.11
71 53 0.28
72 35 0.18
73 5 0.03
74 1 0.01
75 2 0.01
76 8 0.04
79 7 0.04
80 2 0.01
81 1 0.01
82 13 0.07
83 42 0.22
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (72 bp):
GAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTG
GAAACAT
Done.