Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 127 of 131
Found at i:23140115 original size:8 final size:8
Alignment explanation
Indices: 23140102--23140184 Score: 55
Period size: 8 Copynumber: 10.2 Consensus size: 8
23140092 ATTGTCAAGT
23140102 TTAAATAA
1 TTAAATAA
23140110 TTAAATTAAA
1 TTAAA-T-AA
* *
23140120 TAAAATTA
1 TTAAATAA
*
23140128 TTAAATTA
1 TTAAATAA
23140136 TTAAAATAA
1 TT-AAATAA
23140145 TT--A-AA
1 TTAAATAA
* *
23140150 TGAAATTA
1 TTAAATAA
*
23140158 TTAAATTA
1 TTAAATAA
23140166 TTAAAATAA
1 TT-AAATAA
23140175 TTAAATAA
1 TTAAATAA
23140183 TT
1 TT
23140185 TCCATTCTCT
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
5 3 0.05
6 1 0.02
7 1 0.02
8 33 0.55
9 16 0.27
10 6 0.10
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (8 bp):
TTAAATAA
Found at i:23140147 original size:30 final size:30
Alignment explanation
Indices: 23140113--23140182 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
23140103 TAAATAATTA
23140113 AATTAAATAAAATTATTAAATTATTAAAAT
1 AATTAAATAAAATTATTAAATTATTAAAAT
*
23140143 AATTAAATGAAATTATTAAATTATTAAAAT
1 AATTAAATAAAATTATTAAATTATTAAAAT
23140173 AATTAAATAA
1 AATTAAATAA
23140183 TTTCCATTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (30 bp):
AATTAAATAAAATTATTAAATTATTAAAAT
Found at i:23140172 original size:22 final size:22
Alignment explanation
Indices: 23140130--23140170 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
23140120 TAAAATTATT
23140130 AAATTATTAAAATAATTAAATG
1 AAATTATTAAAATAATTAAATG
*
23140152 AAATTATT-AAATTATTAAA
1 AAATTATTAAAATAATTAAA
23140171 ATAATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
AAATTATTAAAATAATTAAATG
Found at i:23151467 original size:3 final size:3
Alignment explanation
Indices: 23151461--23151485 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
23151451 TCACCTGTAG
23151461 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
23151486 TCTTATCCAC
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:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:23153077 original size:21 final size:21
Alignment explanation
Indices: 23153039--23153078 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23153029 AGTTTAAAAT
* *
23153039 TTTAAAAAAATTATAAATAGA
1 TTTAAAAAAATCAAAAATAGA
*
23153060 TTTAATAAAATCAAAAATA
1 TTTAAAAAAATCAAAAATA
23153079 TTTATTTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (21 bp):
TTTAAAAAAATCAAAAATAGA
Found at i:23154784 original size:2 final size:2
Alignment explanation
Indices: 23154777--23154804 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
23154767 CATCAGCAAA
23154777 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
23154805 CTTTATCAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23158931 original size:2 final size:2
Alignment explanation
Indices: 23158924--23158957 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
23158914 AACCAGGTAT
23158924 TA TA TA TA 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 TA TA TA TA
23158958 CAGCTTTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23161919 original size:18 final size:17
Alignment explanation
Indices: 23161888--23161922 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23161878 AAGGATGGTT
23161888 AGATGATGAGCCTGAGG
1 AGATGATGAGCCTGAGG
*
23161905 AGATAGATGATCCTGAGG
1 AGAT-GATGAGCCTGAGG
23161923 CAACCAAGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.31, C:0.11, G:0.37, T:0.20
Consensus pattern (17 bp):
AGATGATGAGCCTGAGG
Found at i:23166452 original size:31 final size:33
Alignment explanation
Indices: 23166414--23166476 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 33
23166404 TGTACATCCA
23166414 CCTGACAAAAGT-T-TGAAAATTATAAATAAGG
1 CCTGACAAAAGTCTCTGAAAATTATAAATAAGG
23166445 CCTGACAAAAGTCTGCTGAAAATTATAAATAA
1 CCTGACAAAAGTCT-CTGAAAATTATAAATAA
23166477 AGGCTCCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
31 12 0.41
32 1 0.03
34 16 0.55
ACGTcount: A:0.48, C:0.13, G:0.14, T:0.25
Consensus pattern (33 bp):
CCTGACAAAAGTCTCTGAAAATTATAAATAAGG
Found at i:23171968 original size:13 final size:13
Alignment explanation
Indices: 23171950--23172002 Score: 52
Period size: 13 Copynumber: 3.7 Consensus size: 13
23171940 AAGATTTAAA
23171950 AAATTTTAAACAT
1 AAATTTTAAACAT
23171963 AAATTTTAAATTCATT
1 AAATTTTAAA--CA-T
*
23171979 AAATGATTTAAACTT
1 AAAT--TTTAAACAT
23171994 AAATTTTAA
1 AAATTTTAA
23172003 GCTCGTTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
13 15 0.44
15 7 0.21
16 6 0.18
18 6 0.18
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (13 bp):
AAATTTTAAACAT
Found at i:23172659 original size:16 final size:17
Alignment explanation
Indices: 23172640--23172677 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
23172630 ATAATTACAA
23172640 AAAATATAT-TA-AACAT
1 AAAATATATATATAA-AT
23172656 AAAATATATATATAAAT
1 AAAATATATATATAAAT
23172673 AAAAT
1 AAAAT
23172678 TTACACTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.45
17 9 0.45
18 2 0.10
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATATATATATAAAT
Found at i:23183015 original size:29 final size:29
Alignment explanation
Indices: 23182983--23183060 Score: 72
Period size: 29 Copynumber: 2.8 Consensus size: 29
23182973 TATGATGTAA
23182983 ATATAATATAAAAATAAAAT-ATAAAAAAT
1 ATATAATATAAAAATAAAATAAT-AAAAAT
* * * ** *
23183012 ATATGATTTAAAATTTTAATAATAATAAT
1 ATATAATATAAAAATAAAATAATAAAAAT
23183041 ATATAA-AT-AAAATAAAATAA
1 ATATAATATAAAAATAAAATAA
23183061 AATAATTTAT
Statistics
Matches: 37, Mismatches: 11, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
27 9 0.24
28 1 0.03
29 25 0.68
30 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (29 bp):
ATATAATATAAAAATAAAATAATAAAAAT
Found at i:23183082 original size:27 final size:28
Alignment explanation
Indices: 23183052--23183130 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 28
23183042 TATAAATAAA
23183052 ATAAAATAAA-ATAATT-TATATTTTTAT
1 ATAAAATAAATATAATTATA-ATTTTTAT
*
23183079 ATAACATAAATTATAATTATAATTTTTAT
1 ATAAAATAAA-TATAATTATAATTTTTAT
* * *
23183108 ATAAATTATGATATAAATATAAT
1 ATAAAATA-AATATAATTATAAT
23183131 ATAAATATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
27 9 0.21
29 31 0.72
30 3 0.07
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (28 bp):
ATAAAATAAATATAATTATAATTTTTAT
Found at i:23183143 original size:31 final size:31
Alignment explanation
Indices: 23183105--23183168 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
23183095 TTATAATTTT
*
23183105 TATAT-AAATTATGATATAAATATAATATAAA
1 TATATAAAATT-TAATATAAATATAATATAAA
**
23183136 TATATAAAATTTAATATTTATATAATATAAA
1 TATATAAAATTTAATATAAATATAATATAAA
23183167 TA
1 TA
23183169 CACGTATCAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 24 0.83
32 5 0.17
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (31 bp):
TATATAAAATTTAATATAAATATAATATAAA
Found at i:23183145 original size:20 final size:23
Alignment explanation
Indices: 23183077--23183152 Score: 68
Period size: 23 Copynumber: 3.4 Consensus size: 23
23183067 TTATATTTTT
* *
23183077 ATATAACATAAATTATAATTATAA
1 ATATAATATAAATTATGA-TATAA
* * *
23183101 TTTTTATATAAATTATGATATAA
1 ATATAATATAAATTATGATATAA
23183124 ATATAATATAAA-TAT-ATA-AA
1 ATATAATATAAATTATGATATAA
*
23183144 ATTTAATAT
1 ATATAATAT
23183153 TTATATAATA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
20 10 0.23
21 3 0.07
22 3 0.07
23 14 0.33
24 13 0.30
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (23 bp):
ATATAATATAAATTATGATATAA
Found at i:23192138 original size:21 final size:22
Alignment explanation
Indices: 23192099--23192157 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
23192089 TAAATTATTG
*
23192099 TTATAAATACCCA-AAAAAATC
1 TTATAAATAACCACAAAAAATC
*
23192120 -TATAAATATCCACAAAAAATC
1 TTATAAATAACCACAAAAAATC
23192141 TTATAAATAACC-CAAAA
1 TTATAAATAACCACAAAA
23192158 TTTTCTCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.32
21 13 0.38
22 10 0.29
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.24
Consensus pattern (22 bp):
TTATAAATAACCACAAAAAATC
Found at i:23192138 original size:22 final size:21
Alignment explanation
Indices: 23192099--23192157 Score: 84
Period size: 20 Copynumber: 2.8 Consensus size: 21
23192089 TAAATTATTG
23192099 TTATAAATACCCAAAAAAATC
1 TTATAAATACCCAAAAAAATC
*
23192120 -TATAAATATCCACAAAAAATC
1 TTATAAATACCCA-AAAAAATC
23192141 TTATAAATAACCCAAAA
1 TTATAAAT-ACCCAAAA
23192158 TTTTCTCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 11 0.33
21 8 0.24
22 10 0.30
23 4 0.12
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.24
Consensus pattern (21 bp):
TTATAAATACCCAAAAAAATC
Found at i:23193487 original size:98 final size:98
Alignment explanation
Indices: 23193318--23193512 Score: 300
Period size: 98 Copynumber: 2.0 Consensus size: 98
23193308 TAAAATGCCT
* *
23193318 GGTAATTGCATTTTGGGTTCCTTAACTTGTATAAATTGCATATAAATTTGTGATTTTGTTTGATG
1 GGTAATTGCATTTTGGGTTCCTTAACTTGTATAAATTGCATAAAAAGTTGTGATTTTGTTTGATG
*
23193383 ACACCAATGTCACTGTGAGTATGGAGTATCATA
66 ACACCAATGTCACTATGAGTATGGAGTATCATA
* * * *
23193416 GGTAATTGCCTTTTGGTTTCCTTAACTTGTATGAATTGCTTAAAAAGTTGTGATTTTGTTTGATG
1 GGTAATTGCATTTTGGGTTCCTTAACTTGTATAAATTGCATAAAAAGTTGTGATTTTGTTTGATG
** *
23193481 TTACCAATGTCATTATGAGTATGGAGTATCAT
66 ACACCAATGTCACTATGAGTATGGAGTATCAT
23193513 TATTCTGATA
Statistics
Matches: 87, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
98 87 1.00
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.43
Consensus pattern (98 bp):
GGTAATTGCATTTTGGGTTCCTTAACTTGTATAAATTGCATAAAAAGTTGTGATTTTGTTTGATG
ACACCAATGTCACTATGAGTATGGAGTATCATA
Found at i:23202350 original size:32 final size:32
Alignment explanation
Indices: 23202309--23202435 Score: 88
Period size: 31 Copynumber: 4.0 Consensus size: 32
23202299 GTCATATAAA
*
23202309 ATATTAAAATTAATATATTTATATTATATTTT
1 ATATAAAAATTAATATATTTATATTATATTTT
* *
23202341 ATATAAAAATT-ATATA-TAATAATT-TATGTTA
1 ATATAAAAATTAATATATTTAT-ATTATAT-TTT
* *
23202372 ATATAAAAATATAA-A-ATTTATTTTTTATTTT
1 ATATAAAAAT-TAATATATTTATATTATATTTT
* * *
23202403 AT-T-AAATTTATATATAATTATTATTAAATTTT
1 ATATAAAAATTA-ATATATTTA-TATTATATTTT
23202435 A
1 A
23202436 AATTTGATCA
Statistics
Matches: 74, Mismatches: 11, Indels: 20
0.70 0.10 0.19
Matches are distributed among these distances:
28 2 0.03
29 5 0.07
30 8 0.11
31 31 0.42
32 27 0.36
33 1 0.01
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (32 bp):
ATATAAAAATTAATATATTTATATTATATTTT
Found at i:23210989 original size:26 final size:26
Alignment explanation
Indices: 23210956--23211005 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
23210946 AACTAAAAAG
23210956 TATAAATATGTAATTTTATAGATAAA
1 TATAAATATGTAATTTTATAGATAAA
23210982 TATAAATATGTAATTTTATAGATA
1 TATAAATATGTAATTTTATAGATA
23211006 GTCTGATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (26 bp):
TATAAATATGTAATTTTATAGATAAA
Found at i:23218226 original size:12 final size:12
Alignment explanation
Indices: 23218209--23218233 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23218199 ATCATTTTTT
23218209 TTTTAAATTGAG
1 TTTTAAATTGAG
23218221 TTTTAAATTGAG
1 TTTTAAATTGAG
23218233 T
1 T
23218234 CATATATTGT
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:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TTTTAAATTGAG
Found at i:23218965 original size:19 final size:20
Alignment explanation
Indices: 23218941--23218989 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
23218931 GTAGCTCGTG
23218941 ATTTTAATTAAATTTTTA-T
1 ATTTTAATTAAATTTTTATT
*
23218960 ATTTTAA-TATATTTTTATT
1 ATTTTAATTAAATTTTTATT
23218979 ATTTTAATTAA
1 ATTTTAATTAA
23218990 TAAAATATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 9 0.35
19 15 0.58
20 2 0.08
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTTAATTAAATTTTTATT
Found at i:23221432 original size:42 final size:42
Alignment explanation
Indices: 23221373--23221457 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
23221363 CTTTTACCCC
*
23221373 CATGCTTCAGAGAATTGAATATGATATTATCTGCATGGTAAT
1 CATGCTTCAGAGAATTGAATATGATATTATCTGCATAGTAAT
23221415 CATGCTTCAGAGAATTGAATATGATATTATCTGCATAGTAAT
1 CATGCTTCAGAGAATTGAATATGATATTATCTGCATAGTAAT
23221457 C
1 C
23221458 TTATTATTGA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (42 bp):
CATGCTTCAGAGAATTGAATATGATATTATCTGCATAGTAAT
Found at i:23225006 original size:14 final size:14
Alignment explanation
Indices: 23224987--23225013 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23224977 TATTAGAGTT
23224987 AATTTTAATATATA
1 AATTTTAATATATA
23225001 AATTTTAATATAT
1 AATTTTAATATAT
23225014 TTTAATTTAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
AATTTTAATATATA
Found at i:23245276 original size:26 final size:27
Alignment explanation
Indices: 23245239--23245289 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
23245229 ACAAAAAAAT
*
23245239 TAAATTATTTAATATTTATAAAATTGA
1 TAAATTATTTAAAATTTATAAAATTGA
*
23245266 TAAATTA-TTAAAATTTATTAAATT
1 TAAATTATTTAAAATTTATAAAATT
23245290 ATTTTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (27 bp):
TAAATTATTTAAAATTTATAAAATTGA
Found at i:23245289 original size:18 final size:17
Alignment explanation
Indices: 23245257--23245292 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
23245247 TTAATATTTA
23245257 TAAAATTGATAAATTAT
1 TAAAATTGATAAATTAT
*
23245274 TAAAATTTATTAAATTAT
1 TAAAATTGA-TAAATTAT
23245292 T
1 T
23245293 TTTAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TAAAATTGATAAATTAT
Found at i:23245914 original size:27 final size:27
Alignment explanation
Indices: 23245883--23245938 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
23245873 ATAAACTAAA
**
23245883 ATTTA-TATGTAATAAAAATTTTAAATT
1 ATTTAGTAT-TAATAAAAATAATAAATT
*
23245910 ATTTAGTATTTATAAAAATAATAAATT
1 ATTTAGTATTAATAAAAATAATAAATT
23245937 AT
1 AT
23245939 AATAAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 22 0.88
28 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (27 bp):
ATTTAGTATTAATAAAAATAATAAATT
Found at i:23246646 original size:23 final size:22
Alignment explanation
Indices: 23246607--23246650 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
23246597 ATATGTATCA
23246607 TATTATATATAAATAATATAAAT
1 TATTATATATAAATAAT-TAAAT
*
23246630 TATTAT-TTTAAATTAATTAAA
1 TATTATATATAAA-TAATTAAA
23246651 ACTAATACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TATTATATATAAATAATTAAAT
Found at i:23257796 original size:138 final size:138
Alignment explanation
Indices: 23257544--23257822 Score: 540
Period size: 138 Copynumber: 2.0 Consensus size: 138
23257534 AGGAGGTTGC
23257544 TTGACAAGGTAATCTTTGTTCTGAGAGGAAGGATGGAGAGGCTCCTTTGTTTTCTACAACGTTCC
1 TTGACAAGGTAATCTTTGTTCTGAGAGGAAGGATGGAGAGGCTCCTTTGTTTTCTACAACGTTCC
*
23257609 TTTTAACATTTTCAATCCATCAGTCATCACTCATACATAAATTGTCCCTTGTCTCTTTTTTCCCC
66 TTTTAACATTTTCAATCCATCAGTCATCACTCATACATAAATTGCCCCTTGTCTCTTTTTTCCCC
23257674 TTATTTGT
131 TTATTTGT
*
23257682 TTGACAAGGTAATCTTTGTTCTGAGAGGAAGGATGGAGATGCTCCTTTGTTTTCTACAACGTTCC
1 TTGACAAGGTAATCTTTGTTCTGAGAGGAAGGATGGAGAGGCTCCTTTGTTTTCTACAACGTTCC
23257747 TTTTAACATTTTCAATCCATCAGTCATCACTCATACATAAATTGCCCCTTGTCTCTTTTTTCCCC
66 TTTTAACATTTTCAATCCATCAGTCATCACTCATACATAAATTGCCCCTTGTCTCTTTTTTCCCC
23257812 TTATTTGT
131 TTATTTGT
23257820 TTG
1 TTG
23257823 GCTGGGAGAG
Statistics
Matches: 139, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
138 139 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (138 bp):
TTGACAAGGTAATCTTTGTTCTGAGAGGAAGGATGGAGAGGCTCCTTTGTTTTCTACAACGTTCC
TTTTAACATTTTCAATCCATCAGTCATCACTCATACATAAATTGCCCCTTGTCTCTTTTTTCCCC
TTATTTGT
Found at i:23259985 original size:21 final size:20
Alignment explanation
Indices: 23259959--23259998 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
23259949 CTAAAATAAT
23259959 AATTTATATTATTTAATAAAA
1 AATTTATA-TATTTAATAAAA
*
23259980 AATTTATATATTTACTAAA
1 AATTTATATATTTAATAAA
23259999 TATATATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
AATTTATATATTTAATAAAA
Found at i:23270352 original size:3 final size:3
Alignment explanation
Indices: 23270304--23270340 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
23270294 AAAAATATTG
23270304 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
23270341 CTTTGAATAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:23280509 original size:22 final size:21
Alignment explanation
Indices: 23280460--23280509 Score: 84
Period size: 22 Copynumber: 2.4 Consensus size: 21
23280450 TGCATCAAAC
23280460 ATATA-ATATATATTTTTGTT
1 ATATATATATATATTTTTGTT
23280480 ATATATATATATATATTTTGTT
1 ATATATATATATAT-TTTTGTT
23280502 ATATATAT
1 ATATATAT
23280510 TTGTAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 5 0.18
21 8 0.29
22 15 0.54
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (21 bp):
ATATATATATATATTTTTGTT
Found at i:23282222 original size:7 final size:7
Alignment explanation
Indices: 23282209--23282241 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
23282199 AGCAAATATC
23282209 TTAAATT
1 TTAAATT
*
23282216 CTAAATT
1 TTAAATT
23282223 TTAAATT
1 TTAAATT
23282230 TTAAATT
1 TTAAATT
23282237 TTAAA
1 TTAAA
23282242 ATATAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (7 bp):
TTAAATT
Found at i:23285418 original size:13 final size:13
Alignment explanation
Indices: 23285400--23285426 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23285390 TTCTTGTTTT
23285400 ATAATAATAATTA
1 ATAATAATAATTA
23285413 ATAATAATAATTA
1 ATAATAATAATTA
23285426 A
1 A
23285427 ATGACAATGA
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATAATAATTA
Found at i:23285531 original size:18 final size:18
Alignment explanation
Indices: 23285504--23285538 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23285494 CCAAGTGTTA
*
23285504 AATAAAAAAATATATAAT
1 AATAAAAAAAAATATAAT
*
23285522 AATAATAAAAAATATAA
1 AATAAAAAAAAATATAA
23285539 AATGATTATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AATAAAAAAAAATATAAT
Found at i:23285849 original size:30 final size:30
Alignment explanation
Indices: 23285816--23285913 Score: 130
Period size: 30 Copynumber: 3.3 Consensus size: 30
23285806 CTCGAAATTG
*
23285816 AAACCCTAAATACCCCAAACCCTAAAATCG
1 AAACCCTAAATACCCCAAACCCTAAAATCA
* * *
23285846 AAACTCT-AA-ACCTCAAGCCCTAAAATCA
1 AAACCCTAAATACCCCAAACCCTAAAATCA
23285874 AAACCCTAAAT-CCTCCAAACCCTAAAATCA
1 AAACCCTAAATACC-CCAAACCCTAAAATCA
23285904 AAACCCTAAA
1 AAACCCTAAA
23285914 CATCCAAACT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
28 22 0.38
29 6 0.10
30 30 0.52
ACGTcount: A:0.48, C:0.35, G:0.02, T:0.15
Consensus pattern (30 bp):
AAACCCTAAATACCCCAAACCCTAAAATCA
Found at i:23285880 original size:14 final size:14
Alignment explanation
Indices: 23285832--23285950 Score: 91
Period size: 14 Copynumber: 8.3 Consensus size: 14
23285822 TAAATACCCC
*
23285832 AAACCCTAAAATCG
1 AAACCCTAAAATCA
* *
23285846 AAACTCTAAACCTC-
1 AAACCCTAAA-ATCA
*
23285860 AAGCCCTAAAATCA
1 AAACCCTAAAATCA
* *
23285874 AAACCCTAAATCCTCC
1 AAACCCTAAA--ATCA
23285890 AAACCCTAAAATCA
1 AAACCCTAAAATCA
*
23285904 AAACCCTAAACATCC
1 AAACCCTAAA-ATCA
*
23285919 AAACTCC-AAAGT-A
1 AAAC-CCTAAAATCA
23285932 AAGACCCTAAAATCA
1 AA-ACCCTAAAATCA
23285947 AAAC
1 AAAC
23285951 TTCAAACTTC
Statistics
Matches: 82, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
13 6 0.07
14 47 0.57
15 15 0.18
16 14 0.17
ACGTcount: A:0.50, C:0.32, G:0.03, T:0.15
Consensus pattern (14 bp):
AAACCCTAAAATCA
Found at i:23285926 original size:36 final size:36
Alignment explanation
Indices: 23285863--23286057 Score: 101
Period size: 36 Copynumber: 5.4 Consensus size: 36
23285853 AAACCTCAAG
23285863 CCCTAAAATCAAAACCCT-AA-AT-C---CTCCAAA
1 CCCTAAAATCAAAACCCTAAACATCCAAACTCCAAA
23285893 CCCTAAAATCAAAACCCTAAACATCCAAACTCCAAAGTAAAGA
1 CCCTAAAATCAAAACCCTAAACATCCAAACTCC------AA-A
* *
23285936 CCCTAAAATCAAAA-CTTCAAACTTCCAAA-TCCTAAA
1 CCCTAAAATCAAAACCCT-AAACATCCAAACTCC-AAA
* * *
23285972 CCCTAAAA-CTAGAA-CCTAGAAC--CTAGAACCCCAAA
1 CCCTAAAATC-AAAACCCTA-AACATCCA-AACTCCAAA
* *
23286007 CCCCAAAATCAAAACCCTAAA-ATCCAAAATCTCAAA
1 CCCTAAAATCAAAACCCTAAACATCCAAACTC-CAAA
*
23286043 CCTTAAAATCCAAAA
1 CCCTAAAAT-CAAAA
23286058 TTCTAAAAAC
Statistics
Matches: 127, Mismatches: 14, Indels: 41
0.70 0.08 0.23
Matches are distributed among these distances:
30 18 0.14
31 2 0.02
32 2 0.02
33 1 0.01
34 2 0.02
35 22 0.17
36 41 0.32
37 7 0.06
42 7 0.06
43 25 0.20
ACGTcount: A:0.49, C:0.32, G:0.03, T:0.16
Consensus pattern (36 bp):
CCCTAAAATCAAAACCCTAAACATCCAAACTCCAAA
Found at i:23285938 original size:29 final size:29
Alignment explanation
Indices: 23285816--23285956 Score: 96
Period size: 28 Copynumber: 4.9 Consensus size: 29
23285806 CTCGAAATTG
* * *
23285816 AAACCCTAAATACCCCAAAC-CCTAAAATCG
1 AAACCCTAAACA-TCCAAACTCC-AAAATCA
* * *
23285846 AAACTCTAAACCT-CAAGC-CCTAAAATCA
1 AAACCCTAAACATCCAAACTCC-AAAATCA
*
23285874 AAACCCTAAATCCTCCAAAC-CCTAAAATCA
1 AAACCCTAAA-CATCCAAACTCC-AAAATCA
*
23285904 AAACCCTAAACATCCAAACTCCAAAGT-A
1 AAACCCTAAACATCCAAACTCCAAAATCA
* *
23285932 AAGACCCTAAA-ATCAAAACTTCAAA
1 AA-ACCCTAAACATCCAAACTCCAAA
23285957 CTTCCAAATC
Statistics
Matches: 95, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
28 37 0.39
29 23 0.24
30 35 0.37
ACGTcount: A:0.49, C:0.33, G:0.03, T:0.16
Consensus pattern (29 bp):
AAACCCTAAACATCCAAACTCCAAAATCA
Found at i:23286022 original size:21 final size:21
Alignment explanation
Indices: 23285998--23286037 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23285988 TAGAACCTAG
*
23285998 AACCCCAAACCCCAAAATCAA
1 AACCCCAAAACCCAAAATCAA
* *
23286019 AACCCTAAAATCCAAAATC
1 AACCCCAAAACCCAAAATC
23286038 TCAAACCTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.38, G:0.00, T:0.10
Consensus pattern (21 bp):
AACCCCAAAACCCAAAATCAA
Found at i:23286049 original size:22 final size:21
Alignment explanation
Indices: 23286009--23286073 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 21
23285999 ACCCCAAACC
23286009 CCAAAATCAAAACCCTAAAAT
1 CCAAAATCAAAACCCTAAAAT
* *
23286030 CCAAAATCTCAAACCTTAAAAT
1 CCAAAATC-AAAACCCTAAAAT
23286052 CCAAAATTCTAAAAACCCTAAA
1 CCAAAA-TC--AAAACCCTAAA
23286074 TTTGGTACAC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
21 8 0.22
22 17 0.47
23 2 0.06
24 9 0.25
ACGTcount: A:0.54, C:0.28, G:0.00, T:0.18
Consensus pattern (21 bp):
CCAAAATCAAAACCCTAAAAT
Found at i:23288447 original size:17 final size:18
Alignment explanation
Indices: 23288427--23288460 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
23288417 ATCTAGTCAA
23288427 AGTTTTTT-TCTTTTTTT
1 AGTTTTTTGTCTTTTTTT
23288444 AGTTTTTTGTCTTTTTT
1 AGTTTTTTGTCTTTTTT
23288461 GTTTTATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.06, C:0.06, G:0.09, T:0.79
Consensus pattern (18 bp):
AGTTTTTTGTCTTTTTTT
Found at i:23288937 original size:19 final size:20
Alignment explanation
Indices: 23288913--23288952 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
23288903 ATTTTTTTGT
23288913 TGTTTG-TCATTTGATATTA
1 TGTTTGTTCATTTGATATTA
**
23288932 TGTTTGTTGTTTTGATATTA
1 TGTTTGTTCATTTGATATTA
23288952 T
1 T
23288953 CACTTTCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.17, C:0.03, G:0.17, T:0.62
Consensus pattern (20 bp):
TGTTTGTTCATTTGATATTA
Found at i:23289042 original size:2 final size:2
Alignment explanation
Indices: 23289035--23289060 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
23289025 TAGTTTCAAT
23289035 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
23289061 AAATAAGATA
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:23290508 original size:21 final size:21
Alignment explanation
Indices: 23290484--23290525 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
23290474 AATAATATAA
* *
23290484 ATAATAATATGAATTTATATT
1 ATAATAACATAAATTTATATT
23290505 ATAATAACATAAATTTATATT
1 ATAATAACATAAATTTATATT
23290526 TTTAGGACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
ATAATAACATAAATTTATATT
Found at i:23291190 original size:15 final size:15
Alignment explanation
Indices: 23291147--23291207 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
23291137 GATAATATAT
*
23291147 AATATTTATATAATAAT
1 AATATTTA-A-AATAAA
* *
23291164 AATGTTTCAAATAAA
1 AATATTTAAAATAAA
23291179 AATATTTAAAATAAA
1 AATATTTAAAATAAA
*
23291194 AGA-AATTAAAATAA
1 A-ATATTTAAAATAA
23291208 CATATTTATG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
15 29 0.78
16 2 0.05
17 6 0.16
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (15 bp):
AATATTTAAAATAAA
Found at i:23291385 original size:30 final size:28
Alignment explanation
Indices: 23291329--23291389 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
23291319 AATAAAAAAC
* *
23291329 ATAAAAAATTTAATAAAATTAAATATAT
1 ATAAAAAATTTAACAAAATAAAATATAT
23291357 ATAAATAAATTTAACAAAATAAAAATATAT
1 ATAAA-AAATTTAACAAAAT-AAAATATAT
23291387 ATA
1 ATA
23291390 TTTTTCTGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 5 0.17
29 13 0.45
30 11 0.38
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (28 bp):
ATAAAAAATTTAACAAAATAAAATATAT
Found at i:23297134 original size:5 final size:5
Alignment explanation
Indices: 23297124--23297148 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
23297114 TGTTTACAAA
23297124 TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT
23297149 CTCCTTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:23298238 original size:15 final size:14
Alignment explanation
Indices: 23298218--23298251 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
23298208 AATTCATTTA
*
23298218 TATTTATTTAGGATT
1 TATTTATTTA-AATT
23298233 TATTTATTTAAATT
1 TATTTATTTAAATT
23298247 TATTT
1 TATTT
23298252 GGTTATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (14 bp):
TATTTATTTAAATT
Found at i:23298272 original size:25 final size:25
Alignment explanation
Indices: 23298213--23298274 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
23298203 TTTAAAATTC
23298213 ATTTATATTTATTTAGGATTTATTT
1 ATTTATATTTATTTAGGATTTATTT
* *
23298238 ATTTAAATTTATTT-GGTTATTATTT
1 ATTTATATTTATTTAGGAT-TTATTT
23298263 -TTTATTATTTAT
1 ATTTA-TATTTAT
23298275 AAATATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 7 0.22
25 25 0.78
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.66
Consensus pattern (25 bp):
ATTTATATTTATTTAGGATTTATTT
Found at i:23298397 original size:14 final size:15
Alignment explanation
Indices: 23298369--23298397 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23298359 ATATCTTACT
23298369 ATTTAAATAAATTAA
1 ATTTAAATAAATTAA
23298384 ATTTAAAT-AATTAA
1 ATTTAAATAAATTAA
23298398 CATATAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTAAATAAATTAA
Found at i:23306361 original size:120 final size:118
Alignment explanation
Indices: 23306153--23306488 Score: 449
Period size: 120 Copynumber: 2.8 Consensus size: 118
23306143 TTTTTATTTT
*
23306153 AAGAAAAATTGATACTTTCAACTTTTCCTAAAAAATATTTTTCTTGATAATTTTTATTTTTTAAG
1 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTCTT-A-AATTTTTA-TTTTTAAG
*
23306218 AAAAATTGGTACTTCCAATTTTTCCTCAAAATGCTTTTTTTCTGAAATTTTAATTCC
63 AAAAATTGGTACTTCCAACTTTTCCTCAAAATGCTTTTTTT-TGAAATTTTAATTCC
* *
23306275 AAGAAAAATTGATACTTTCAACTTTTCCTTTAAAAATATTTTTCTTCAAGTTTTATTTTTAAGAA
1 AAGAAAAATTGATACTTTCAACTTTTCC-TTAAAAATATTTTTCTTAAATTTTTATTTTTAAGAA
* * * *
23306340 AAATTGGTACTTCCAACTTTTCCTTAAGAAATGCTTTTTTTTTAAATTTTATTTTC
65 AAATTGGTACTTCCAACTTTTCC-TCA-AAATGCTTTTTTTTGAAATTTTAATTCC
* * * *
23306396 AAGAAAATTTGATATTTTCAACTTTTCCTTAAAAATATTTTT-TAGAAATTTTTATTTTCAAGAA
1 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTCT-TAAATTTTTATTTTTAAGAA
* ** *
23306460 AAATTGATACTTTTAACTTTTCTTCAAAA
65 AAATTGGTACTTCCAACTTTTCCTCAAAA
23306489 ATATATTTTT
Statistics
Matches: 191, Mismatches: 19, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
118 3 0.02
119 3 0.02
120 81 0.42
121 47 0.25
122 41 0.21
123 16 0.08
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (118 bp):
AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTCTTAAATTTTTATTTTTAAGAAA
AATTGGTACTTCCAACTTTTCCTCAAAATGCTTTTTTTTGAAATTTTAATTCC
Found at i:23306459 original size:59 final size:59
Alignment explanation
Indices: 23306143--23306517 Score: 393
Period size: 60 Copynumber: 6.3 Consensus size: 59
23306133 CATTTGGAGG
*
23306143 TTTTTATTTT-AAGAAAAATTGATACTTTCAACTTTTCCTAAAAAATATTTTTCTTGATAA
1 TTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTT-TTGA-AA
* * * * * *
23306203 TTTTTATTTTTTAAGAAAAATTGGTACTTCCAATTTTTCC-TCAAAATGCTTTTTTTCTGAAA
1 TTTTTA-TTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAAT--ATTTTTT-TGAAA
* * *
23306265 -TTTTAATTCCAAGAAAAATTGATACTTTCAACTTTTCCTTTAAAAATATTTTTCTT-CAA
1 TTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCC-TTAAAAATATTTTT-TTGAAA
* * * * * *
23306324 GTTTTATTTTTAAGAAAAATTGGTACTTCCAACTTTTCCTTAAGAAATGCTTTTTTTTTAAA
1 TTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAA-AAAT--ATTTTTTTGAAA
* * *
23306386 -TTTTATTTTCAAGAAAATTTGATATTTTCAACTTTTCCTTAAAAATATTTTTTAGAAA
1 TTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTGAAA
* * *
23306444 TTTTTATTTTCAAGAAAAATTGATACTTTTAACTTTT-CTTCAAAAATATATTTTTAAAA
1 TTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTT-AAAAATATTTTTTTGAAA
*
23306503 TTTTTATTTTAAAGA
1 TTTTTATTTTCAAGA
23306518 GATCATTAGA
Statistics
Matches: 263, Mismatches: 37, Indels: 31
0.79 0.11 0.09
Matches are distributed among these distances:
58 12 0.05
59 68 0.26
60 80 0.30
61 54 0.21
62 41 0.16
63 8 0.03
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (59 bp):
TTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTGAAA
Found at i:23306570 original size:3 final size:3
Alignment explanation
Indices: 23306562--23306613 Score: 77
Period size: 3 Copynumber: 17.3 Consensus size: 3
23306552 AATAAATGAA
* * *
23306562 AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT CAT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23306610 AAT A
1 AAT A
23306614 GCAAAAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:23307750 original size:44 final size:44
Alignment explanation
Indices: 23307702--23307902 Score: 215
Period size: 44 Copynumber: 4.5 Consensus size: 44
23307692 GCAACAGAAT
* * * * *
23307702 TTTGAAAAAATAAATAAAGCTCCTCCAAACAGAGGCTCAACGAC
1 TTTGAAAAAATAAACAAAGCTCCTCTAATCAAAGGCTCAACAAC
* * *
23307746 TTTGAAAAAATAAACAAAGTTCCTCTAATCAGAGGCTTAACAAC
1 TTTGAAAAAATAAACAAAGCTCCTCTAATCAAAGGCTCAACAAC
** * *
23307790 TTCAAAAAAATAAACAAAGCTTCTCTAATTAAAGGCTCAACAAC
1 TTTGAAAAAATAAACAAAGCTCCTCTAATCAAAGGCTCAACAAC
* * *
23307834 TTTTG-AAAAATAAATAAGGCTCATCTAATCAAAGGCTCAACAAC
1 -TTTGAAAAAATAAACAAAGCTCCTCTAATCAAAGGCTCAACAAC
* * *
23307878 TTTTCAAAAAGTAGACAAAGCTCCT
1 -TTTGAAAAAATAAACAAAGCTCCT
23307903 TGACAATCAT
Statistics
Matches: 129, Mismatches: 26, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
44 113 0.88
45 16 0.12
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (44 bp):
TTTGAAAAAATAAACAAAGCTCCTCTAATCAAAGGCTCAACAAC
Found at i:23308079 original size:11 final size:11
Alignment explanation
Indices: 23308061--23308103 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
23308051 AATCTCATAA
23308061 GAGATTTGTTT
1 GAGATTTGTTT
* *
23308072 GGGATTTGTTA
1 GAGATTTGTTT
23308083 GAGATTTGTTT
1 GAGATTTGTTT
*
23308094 AAGATTTGTT
1 GAGATTTGTT
23308104 GATATTGCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:23308085 original size:22 final size:22
Alignment explanation
Indices: 23308060--23308103 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
23308050 AAATCTCATA
**
23308060 AGAGATTTGTTTGGGATTTGTT
1 AGAGATTTGTTTAAGATTTGTT
23308082 AGAGATTTGTTTAAGATTTGTT
1 AGAGATTTGTTTAAGATTTGTT
23308104 GATATTGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (22 bp):
AGAGATTTGTTTAAGATTTGTT
Found at i:23308205 original size:52 final size:51
Alignment explanation
Indices: 23308140--23308284 Score: 186
Period size: 52 Copynumber: 2.8 Consensus size: 51
23308130 TGCAAAAAAA
*
23308140 AAAAATTCTAAGAGAAAGAGACTTCTTAATAGGTAAGTTTGACTTGCAAGAG
1 AAAAATTCTAAGAGAAAGAGA-TTCTTAATAGGTAAGTTTGACTTACAAGAG
23308192 AAAAATTCTAAGAGGAAATGA-ATTCTTAATAGGTAAGTTTGACTTACAAGAG
1 AAAAATTCTAAGA-GAAA-GAGATTCTTAATAGGTAAGTTTGACTTACAAGAG
* * * *
23308244 AAGAATTTTAAGAAGAAA-AGGATTCTTAATGGGCAAGTTTG
1 AAAAATTCTAAG-AGAAAGA-GATTCTTAATAGGTAAGTTTG
23308285 TATGGTTATA
Statistics
Matches: 83, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
50 1 0.01
52 74 0.89
53 6 0.07
54 2 0.02
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.28
Consensus pattern (51 bp):
AAAAATTCTAAGAGAAAGAGATTCTTAATAGGTAAGTTTGACTTACAAGAG
Found at i:23309304 original size:52 final size:51
Alignment explanation
Indices: 23309236--23309370 Score: 164
Period size: 52 Copynumber: 2.6 Consensus size: 51
23309226 CTTGCAAAAA
* * *
23309236 AAGAATCCTAAGAGAAAGAGACTTCTTAATAGATAAATTTAACTTACAAGAG
1 AAGAATTCTAAAAGAAAGAGA-TTCTTAATAGACAAATTTAACTTACAAGAG
* * * *
23309288 AAGAATTCTAAAAGAAAAAAAGTTTTTAATAGACAAATTTGACTTACAAGAG
1 AAGAATTCTAAAAGAAAGAGA-TTCTTAATAGACAAATTTAACTTACAAGAG
*
23309340 AAGAATT-TAAGAGGAAAGAGATTCTTAATAG
1 AAGAATTCTAA-AAGAAAGAGATTCTTAATAG
23309371 GTAAGTTTGT
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
51 12 0.17
52 58 0.83
ACGTcount: A:0.50, C:0.08, G:0.16, T:0.26
Consensus pattern (51 bp):
AAGAATTCTAAAAGAAAGAGATTCTTAATAGACAAATTTAACTTACAAGAG
Found at i:23309945 original size:25 final size:24
Alignment explanation
Indices: 23309911--23310046 Score: 123
Period size: 25 Copynumber: 5.5 Consensus size: 24
23309901 AAGTGGTATC
* * *
23309911 AGAGCTAAAGGTTCGAAACGTGAGA
1 AGAGTTAAAGGTTCGAGATGTGA-A
* *
23309936 AGAGTTAAAGATTCAAGATGTGAAA
1 AGAGTTAAAGGTTCGAGATGTG-AA
**
23309961 AGAGTCGAAGGTTCGAGATGTGAA
1 AGAGTTAAAGGTTCGAGATGTGAA
*
23309985 AGAGCTGAAA-GTTCGAGATGTGAA
1 AGAG-TTAAAGGTTCGAGATGTGAA
*
23310009 AGAGCTGAAA-GTTCGAGATGTGAGA
1 AGAG-TTAAAGGTTCGAGATGTGA-A
*
23310034 AGAGCTAAAGGTT
1 AGAGTTAAAGGTT
23310047 TAAGATATGG
Statistics
Matches: 94, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
24 46 0.49
25 47 0.50
26 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.32, T:0.21
Consensus pattern (24 bp):
AGAGTTAAAGGTTCGAGATGTGAA
Found at i:23309998 original size:24 final size:24
Alignment explanation
Indices: 23309911--23310043 Score: 139
Period size: 24 Copynumber: 5.5 Consensus size: 24
23309901 AAGTGGTATC
* *
23309911 AGAGCT-AAAGGTTCGAAACGTGAGA
1 AGAGCTGAAA-GTTCGAGATGTGA-A
* *
23309936 AGAG-TTAAAGATTCAAGATGTGAAA
1 AGAGCTGAAAG-TTCGAGATGTG-AA
*
23309961 AGAG-TCGAAGGTTCGAGATGTGAA
1 AGAGCT-GAAAGTTCGAGATGTGAA
23309985 AGAGCTGAAAGTTCGAGATGTGAA
1 AGAGCTGAAAGTTCGAGATGTGAA
23310009 AGAGCTGAAAGTTCGAGATGTGAGA
1 AGAGCTGAAAGTTCGAGATGTGA-A
23310034 AGAGCT-AAAG
1 AGAGCTGAAAG
23310044 GTTTAAGATA
Statistics
Matches: 95, Mismatches: 7, Indels: 13
0.83 0.06 0.11
Matches are distributed among these distances:
24 52 0.55
25 39 0.41
26 4 0.04
ACGTcount: A:0.40, C:0.08, G:0.32, T:0.20
Consensus pattern (24 bp):
AGAGCTGAAAGTTCGAGATGTGAA
Found at i:23310004 original size:49 final size:49
Alignment explanation
Indices: 23309911--23310052 Score: 164
Period size: 49 Copynumber: 2.9 Consensus size: 49
23309901 AAGTGGTATC
* * * *
23309911 AGAGCTAAAGGTTCGAAACGTGAGAAGAGTTAAAGATTCAAGATGTGAAA
1 AGAGCTGAAGGTTCGAGATGTGAGAAGAGCTAAAGATTCAAGATGTG-AA
*
23309961 AGAG-TCGAAGGTTCGAGATGTGA-AAGAGCTGAAAG-TTCGAGATGTGAA
1 AGAGCT-GAAGGTTCGAGATGTGAGAAGAGCT-AAAGATTCAAGATGTGAA
* * *
23310009 AGAGCTGAAAGTTCGAGATGTGAGAAGAGCTAAAGGTTTAAGAT
1 AGAGCTGAAGGTTCGAGATGTGAGAAGAGCTAAAGATTCAAGAT
23310053 ATGGAAATTG
Statistics
Matches: 79, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
48 26 0.33
49 31 0.39
50 22 0.28
ACGTcount: A:0.39, C:0.08, G:0.32, T:0.21
Consensus pattern (49 bp):
AGAGCTGAAGGTTCGAGATGTGAGAAGAGCTAAAGATTCAAGATGTGAA
Found at i:23310447 original size:52 final size:52
Alignment explanation
Indices: 23310358--23310460 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 52
23310348 GAACAAGAAG
*
23310358 ACTTACAAAAGAAGAATTCTTAGAGAAAGAAACTTCTTAATAGGTAAGTTTA
1 ACTTACAAAAGAAGAATTCTTAGAGAAAGAAACTTCTTAATAGGCAAGTTTA
* ** *
23310410 ACTTACAAGAGAAGAATT-TTAAGAGGAAAGCGA-TTCTTAATGGGCAAGTTT
1 ACTTACAAAAGAAGAATTCTT-AGA-GAAAGAAACTTCTTAATAGGCAAGTTT
23310461 GTATGGTTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
51 2 0.05
52 36 0.82
53 6 0.14
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.28
Consensus pattern (52 bp):
ACTTACAAAAGAAGAATTCTTAGAGAAAGAAACTTCTTAATAGGCAAGTTTA
Found at i:23311235 original size:28 final size:28
Alignment explanation
Indices: 23311203--23311257 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
23311193 AGTTCCATAT
*
23311203 CTCAAATATTC-TCATTTGAAACTCAAAA
1 CTCAAAGATTCTTC-TTTGAAACTCAAAA
*
23311231 CTCAAAGATTCTTCTTTGAAATTCAAA
1 CTCAAAGATTCTTCTTTGAAACTCAAA
23311258 TATTCTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.40, C:0.20, G:0.05, T:0.35
Consensus pattern (28 bp):
CTCAAAGATTCTTCTTTGAAACTCAAAA
Found at i:23311262 original size:21 final size:21
Alignment explanation
Indices: 23311232--23311272 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23311222 AACTCAAAAC
23311232 TCAAAGATTCTTC-TTTGAAAT
1 TCAAAGATTC-TCATTTGAAAT
*
23311253 TCAAATATTCTCATTTGAAA
1 TCAAAGATTCTCATTTGAAA
23311273 AAAAATCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (21 bp):
TCAAAGATTCTCATTTGAAAT
Found at i:23312216 original size:15 final size:16
Alignment explanation
Indices: 23312190--23312223 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
23312180 CATTGGGATG
23312190 AATGAGATATTCAAAC
1 AATGAGATATTCAAAC
23312206 AATGA-ATATTCAAAC
1 AATGAGATATTCAAAC
23312221 AAT
1 AAT
23312224 TCTAATCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.53, C:0.12, G:0.09, T:0.26
Consensus pattern (16 bp):
AATGAGATATTCAAAC
Found at i:23312440 original size:15 final size:15
Alignment explanation
Indices: 23312411--23312466 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
23312401 AATTTGAGTC
23312411 TTCATTTTCTCTCATT
1 TTCATTTT-TCTCATT
23312427 TTCATTTTTCTCATT
1 TTCATTTTTCTCATT
* * *
23312442 TT-TTTTTTTTCTTT
1 TTCATTTTTCTCATT
*
23312456 TTTATTTTTCT
1 TTCATTTTTCT
23312467 TTCATTCTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 11 0.32
15 15 0.44
16 8 0.24
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (15 bp):
TTCATTTTTCTCATT
Found at i:23318772 original size:13 final size:15
Alignment explanation
Indices: 23318744--23318775 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
23318734 CCCTAAATGC
23318744 TTTTGAAAATTTTTA
1 TTTTGAAAATTTTTA
23318759 TTTT-AAAA-TTTTA
1 TTTTGAAAATTTTTA
23318772 TTTT
1 TTTT
23318776 TAAGAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 4 0.24
15 4 0.24
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (15 bp):
TTTTGAAAATTTTTA
Found at i:23319077 original size:60 final size:60
Alignment explanation
Indices: 23318763--23319138 Score: 385
Period size: 59 Copynumber: 6.3 Consensus size: 60
23318753 TTTTTATTTT
* * * *
23318763 AAAA-TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTC-TAAAAATA--TTTAAA
1 AAAATTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTAG
* ** * * *
23318819 AAAATTTTTGTCATAAAGGAAAATTAATACTTTCAACTTTTCCTTAAAAATATTTTTCT--
1 AAAATTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTT-TAG
** * * * * * * *
23318878 TCAAGTTTTATTTTTAAGGAAACTTGGTACTTTCAACTTTT-TTTCAAGAAATGCATTTTTTTG
1 AAAATTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTT-AA-AAAT--ATTTTTTAG
* * *
23318941 AAAA-TTTAATTTTCAAGAAAAAATGATACTTTTAACTTTTCCTTAAAAATATTTTTTAG
1 AAAATTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTAG
* *
23319000 AAAATTTTT-TTTTCAAGAAAAAATGATACTTTTAACTTTTCCTTAAAAATATTTTTTAG
1 AAAATTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTAG
* * *
23319059 AAAATTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATA-TTTTTAA
1 AAAATTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTAG
*
23319118 AAAATTTTTATTTTAAAGAAA
1 AAAATTTTTATTTTCAAGAAA
23319139 TCATTAAAAA
Statistics
Matches: 269, Mismatches: 37, Indels: 25
0.81 0.11 0.08
Matches are distributed among these distances:
56 4 0.01
57 31 0.12
58 10 0.04
59 130 0.48
60 48 0.18
61 5 0.02
62 37 0.14
63 4 0.01
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.46
Consensus pattern (60 bp):
AAAATTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTAG
Found at i:23319187 original size:3 final size:3
Alignment explanation
Indices: 23319179--23319226 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
23319169 TGAATAAATG
* * *
23319179 ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATC ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23319227 GCAAAAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:23320811 original size:8 final size:8
Alignment explanation
Indices: 23320800--23320864 Score: 67
Period size: 9 Copynumber: 7.5 Consensus size: 8
23320790 TAAAAAAATT
23320800 AAAAATGA
1 AAAAATGA
23320808 AAAAATGAA
1 AAAAATG-A
23320817 AAAAATGA
1 AAAAATGA
*
23320825 AAAAGTGAA
1 AAAAATG-A
*
23320834 AAAAAGTTAA
1 AAAAA--TGA
23320844 AAAAATGA
1 AAAAATGA
23320852 AAGAAATGA
1 AA-AAATGA
23320861 AAAA
1 AAAA
23320865 GTAAAAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
8 20 0.42
9 21 0.44
10 6 0.12
11 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (8 bp):
AAAAATGA
Found at i:23320820 original size:17 final size:17
Alignment explanation
Indices: 23320800--23320875 Score: 89
Period size: 17 Copynumber: 4.4 Consensus size: 17
23320790 TAAAAAAATT
23320800 AAAAATGAAAAAATGAA
1 AAAAATGAAAAAATGAA
*
23320817 AAAAATGAAAAAGTGAA
1 AAAAATGAAAAAATGAA
*
23320834 AAAAAGTTAAAAAAATGAA
1 AAAAA--TGAAAAAATGAA
* * *
23320853 AGAAATGAAAAAGTAAA
1 AAAAATGAAAAAATGAA
23320870 AAAAAT
1 AAAAAT
23320876 TTAAAAAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
17 35 0.71
19 14 0.29
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (17 bp):
AAAAATGAAAAAATGAA
Found at i:23320852 original size:36 final size:36
Alignment explanation
Indices: 23320807--23320893 Score: 138
Period size: 36 Copynumber: 2.4 Consensus size: 36
23320797 ATTAAAAATG
*
23320807 AAAAAATGAAAAAAATGAAAAAGTGAAAAAAAGTTA
1 AAAAAATGAAAAAAATGAAAAAGTAAAAAAAAGTTA
* *
23320843 AAAAAATGAAAGAAATGAAAAAGTAAAAAAAATTTA
1 AAAAAATGAAAAAAATGAAAAAGTAAAAAAAAGTTA
*
23320879 AAAAAAAGAAAAAAA
1 AAAAAATGAAAAAAA
23320894 AGACTCAAAT
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:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (36 bp):
AAAAAATGAAAAAAATGAAAAAGTAAAAAAAAGTTA
Found at i:23320890 original size:26 final size:26
Alignment explanation
Indices: 23320800--23320891 Score: 78
Period size: 27 Copynumber: 3.5 Consensus size: 26
23320790 TAAAAAAATT
* * *
23320800 AAAAATGAAAAAATGAAAAAAATGAA
1 AAAAAAGAAAAAGTAAAAAAAATGAA
* *
23320826 AAAGTGAA-AAAAAGTTAAAAAAATGAA
1 AAA--AAAGAAAAAGTAAAAAAAATGAA
* * *
23320853 AGAAATGAAAAAGTAAAAAAAATTTAA
1 AAAAAAGAAAAAGTAAAAAAAA-TGAA
23320880 AAAAAAGAAAAA
1 AAAAAAGAAAAA
23320892 AAAGACTCAA
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
25 1 0.02
26 17 0.33
27 32 0.63
28 1 0.02
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.13
Consensus pattern (26 bp):
AAAAAAGAAAAAGTAAAAAAAATGAA
Found at i:23322458 original size:108 final size:106
Alignment explanation
Indices: 23322238--23322449 Score: 257
Period size: 108 Copynumber: 2.0 Consensus size: 106
23322228 TTTGAATTTC
* ** *
23322238 GATGAGAAACTCTAAAATCAATTGAATGTAAATCTTTAAACTTGAATGAGAAGCTTTGAACTTTT
1 GATGTGAAACTCTAAAATCAATCAAATGTAAATCTTTAAACTCGAATGAGAAGCTTTGAACTTTT
* * * *
23322303 GAATGTGAACTCCAAATTTTTTTGAATAAGAACCTTTGAATTA
66 GAATGTGAACTCCAAA--TATTCGAATAAGAACATTTAAATTA
* *
23322346 GATGTGAAACTCTAAAATCTATCAAATGTAAATCTTTGAACTCGAATGAGAAGCTTTGAACTTTT
1 GATGTGAAACTCTAAAATCAATCAAATGTAAATCTTTAAACTCGAATGAGAAGCTTTGAACTTTT
** *
23322411 AGAA-GTGAATCTCCAAA-ATTCGAATGTGAATATTTAAAT
66 -GAATGTGAA-CTCCAAATATTCGAATAAGAACATTTAAAT
23322450 GTTGGATGTA
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
106 15 0.17
108 64 0.72
109 10 0.11
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (106 bp):
GATGTGAAACTCTAAAATCAATCAAATGTAAATCTTTAAACTCGAATGAGAAGCTTTGAACTTTT
GAATGTGAACTCCAAATATTCGAATAAGAACATTTAAATTA
Found at i:23322696 original size:17 final size:17
Alignment explanation
Indices: 23322674--23322735 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
23322664 CTTAAGAATC
*
23322674 AAATTCTTGCAAGCTTG
1 AAATTCTTGCAAACTTG
*
23322691 AAATTCTTGCAAATTTG
1 AAATTCTTGCAAACTTG
* * *
23322708 AAAATCTTACAAACTTAA
1 AAATTCTTGCAAACTT-G
23322726 AAATTCTTGC
1 AAATTCTTGC
23322736 GAACCTAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
17 28 0.78
18 8 0.22
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (17 bp):
AAATTCTTGCAAACTTG
Found at i:23322825 original size:23 final size:23
Alignment explanation
Indices: 23322799--23322865 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
23322789 CGAATCTTTG
*
23322799 AATTGTGAACCTTTGAATTTCAA
1 AATTGTGAATCTTTGAATTTCAA
* *
23322822 AATTGTGATTCTTTGAACTT--A
1 AATTGTGAATCTTTGAATTTCAA
* *
23322843 AATTGTGAATATTTGAGTTTCAA
1 AATTGTGAATCTTTGAATTTCAA
23322866 TTACAAATAT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
21 17 0.49
23 18 0.51
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (23 bp):
AATTGTGAATCTTTGAATTTCAA
Found at i:23325782 original size:2 final size:2
Alignment explanation
Indices: 23325775--23325803 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23325765 ATATTAACCC
23325775 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
23325804 AAGATTGGGA
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:23325949 original size:29 final size:29
Alignment explanation
Indices: 23325881--23325949 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
23325871 ATGATTTTTA
*
23325881 AATTATAATAAAATATTTAATGTAATACTTG
1 AATTAT-A-AAAATATTTAATATAATACTTG
* *
23325912 AAGTT-TAAAAATTTTTAATATAATATTTG
1 AA-TTATAAAAATATTTAATATAATACTTG
23325941 AATTATAAA
1 AATTATAAA
23325950 TTTATTAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
28 2 0.06
29 25 0.76
30 1 0.03
31 3 0.09
32 2 0.06
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.43
Consensus pattern (29 bp):
AATTATAAAAATATTTAATATAATACTTG
Found at i:23325950 original size:27 final size:28
Alignment explanation
Indices: 23325890--23325957 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
23325880 AAATTATAAT
* *
23325890 AAAATATTTAATGTAATACTTGAAGTTTA
1 AAAATTTTTAATATAATACTTGAAG-TTA
*
23325919 AAAATTTTTAATATAATATTTGAA-TTA
1 AAAATTTTTAATATAATACTTGAAGTTA
*
23325946 TAAATTTATTAA
1 AAAATTT-TTAA
23325958 CTAATAAGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 9 0.26
28 4 0.12
29 21 0.62
ACGTcount: A:0.47, C:0.01, G:0.06, T:0.46
Consensus pattern (28 bp):
AAAATTTTTAATATAATACTTGAAGTTA
Found at i:23328918 original size:2 final size:2
Alignment explanation
Indices: 23328911--23328938 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
23328901 GTATGTTGTT
23328911 TA 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 TA
23328939 ATAGTGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23337406 original size:27 final size:27
Alignment explanation
Indices: 23337371--23337453 Score: 166
Period size: 27 Copynumber: 3.1 Consensus size: 27
23337361 TCAGGAAACC
23337371 AGGTTGATTCTTGGAAGTAAGAAGTCT
1 AGGTTGATTCTTGGAAGTAAGAAGTCT
23337398 AGGTTGATTCTTGGAAGTAAGAAGTCT
1 AGGTTGATTCTTGGAAGTAAGAAGTCT
23337425 AGGTTGATTCTTGGAAGTAAGAAGTCT
1 AGGTTGATTCTTGGAAGTAAGAAGTCT
23337452 AG
1 AG
23337454 CCCACATCCT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (27 bp):
AGGTTGATTCTTGGAAGTAAGAAGTCT
Found at i:23338164 original size:16 final size:16
Alignment explanation
Indices: 23338145--23338179 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
23338135 CATATATTTT
* *
23338145 TTATTTTATATTTGAA
1 TTATATTATATTTCAA
23338161 TTATATTATATTTCAA
1 TTATATTATATTTCAA
23338177 TTA
1 TTA
23338180 AAACTTCAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (16 bp):
TTATATTATATTTCAA
Found at i:23340899 original size:2 final size:2
Alignment explanation
Indices: 23340892--23340919 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
23340882 TTGTATCACC
23340892 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
23340920 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23340924 original size:2 final size:2
Alignment explanation
Indices: 23340919--23340954 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
23340909 TATATATATA
*
23340919 TG TG TG TG TG TG TG TG TG TG TG TA TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
23340955 CGAGACAGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.03, C:0.00, G:0.47, T:0.50
Consensus pattern (2 bp):
TG
Found at i:23342866 original size:25 final size:25
Alignment explanation
Indices: 23342838--23342892 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
23342828 TTTAATATTT
*
23342838 TAATATTGATATAAATTATAAAATA
1 TAATATTGATATAAAATATAAAATA
* * *
23342863 TAATTTTTATATAAAATATAATATA
1 TAATATTGATATAAAATATAAAATA
23342888 -AATAT
1 TAATAT
23342893 ATATTTTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (25 bp):
TAATATTGATATAAAATATAAAATA
Found at i:23342892 original size:18 final size:18
Alignment explanation
Indices: 23342846--23342893 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
23342836 TTTAATATTG
23342846 ATATAAATTATAAAATATA
1 ATATAAA-TATAAAATATA
* **
23342865 ATTTTTATATAAAATATA
1 ATATAAATATAAAATATA
23342883 ATATAAATATA
1 ATATAAATATA
23342894 TATTTTAATA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATAAATATAAAATATA
Found at i:23346676 original size:44 final size:44
Alignment explanation
Indices: 23346621--23346708 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
23346611 TGTGAAATTC
*
23346621 ATCCAACCTAGATAGAATATACTGACCATCTATCAGTTAATTAA
1 ATCCAAACTAGATAGAATATACTGACCATCTATCAGTTAATTAA
23346665 ATCCAAACTAGATAGAATATACTGACCATCTATCAGTTAATTAA
1 ATCCAAACTAGATAGAATATACTGACCATCTATCAGTTAATTAA
23346709 TTCATTATAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (44 bp):
ATCCAAACTAGATAGAATATACTGACCATCTATCAGTTAATTAA
Found at i:23351752 original size:13 final size:13
Alignment explanation
Indices: 23351734--23351759 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23351724 TTAAAAATAT
23351734 ATAAAATTTTTTA
1 ATAAAATTTTTTA
23351747 ATAAAATTTTTTA
1 ATAAAATTTTTTA
23351760 TTATATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATAAAATTTTTTA
Found at i:23351886 original size:23 final size:22
Alignment explanation
Indices: 23351840--23351925 Score: 79
Period size: 23 Copynumber: 3.9 Consensus size: 22
23351830 AAAATTAAAA
* *
23351840 ATATTTTAA-AAATATTATTTT
1 ATATTTTAATAAAAATAATTTT
23351861 ATATTTTCAATAAAAATAATTTT
1 ATATTTT-AATAAAAATAATTTT
* *
23351884 ATAATATTAA-ATAAATATATTTT
1 AT-ATTTTAATAAAAATA-ATTTT
23351907 ATATTTT-ATATAAAATAAT
1 ATATTTTAATA-AAAATAAT
23351926 ATTAATTAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
21 8 0.15
22 15 0.28
23 26 0.49
24 4 0.08
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATTTTAATAAAAATAATTTT
Found at i:23353478 original size:30 final size:31
Alignment explanation
Indices: 23353444--23353504 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
23353434 AATATAAAAA
* *
23353444 ATAATTT-TATTAATTTTATTAAA-TTTATTT
1 ATAATTTATACTAATATT-TTAAATTTTATTT
23353474 ATAATTTATACTAATATTTTAAATTTTATTT
1 ATAATTTATACTAATATTTTAAATTTTATTT
23353505 TTTTATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 12 0.44
31 15 0.56
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (31 bp):
ATAATTTATACTAATATTTTAAATTTTATTT
Found at i:23353525 original size:13 final size:14
Alignment explanation
Indices: 23353509--23353555 Score: 62
Period size: 13 Copynumber: 3.4 Consensus size: 14
23353499 TTATTTTTTT
23353509 ATATTTTTTAT-TC
1 ATATTTTTTATATC
23353522 ATATTATTTTATATC
1 ATATT-TTTTATATC
*
23353537 ATA-TTATTATATC
1 ATATTTTTTATATC
23353550 ATATTT
1 ATATTT
23353556 AAAATTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 16 0.53
14 9 0.30
15 5 0.17
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (14 bp):
ATATTTTTTATATC
Found at i:23353531 original size:15 final size:16
Alignment explanation
Indices: 23353513--23353544 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
23353503 TTTTTTATAT
23353513 TTTTTAT-TCATATTA
1 TTTTTATATCATATTA
23353528 -TTTTATATCATATTA
1 TTTTTATATCATATTA
23353543 TT
1 TT
23353545 ATATCATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 3
0.83 0.00 0.17
Matches are distributed among these distances:
14 6 0.40
15 8 0.53
16 1 0.07
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTTATATCATATTA
Found at i:23354299 original size:33 final size:31
Alignment explanation
Indices: 23354254--23354339 Score: 82
Period size: 31 Copynumber: 2.7 Consensus size: 31
23354244 TTATTAATTA
23354254 AAAAATTATTTAATAATTAAGTTTATATAAAGAT
1 AAAAATT-TTTAATAATTAAGTTTATAT-AA-AT
* * * * * *
23354288 AAATATTTTTAATTAGTAATTTTTTGTAAAT
1 AAAAATTTTTAATAATTAAGTTTATATAAAT
*
23354319 AAAAATTTTTAATAATAAAGT
1 AAAAATTTTTAATAATTAAGT
23354340 AATGGAATTC
Statistics
Matches: 41, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
31 18 0.44
32 2 0.05
33 15 0.37
34 6 0.15
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (31 bp):
AAAAATTTTTAATAATTAAGTTTATATAAAT
Found at i:23355146 original size:74 final size:74
Alignment explanation
Indices: 23355059--23355207 Score: 289
Period size: 74 Copynumber: 2.0 Consensus size: 74
23355049 TAGGATTGCA
*
23355059 TTCTTTTACATTTATGATAGTTAAGGCTGCAAATGCATGGTAATTCATATCATAAAACCTTGTAT
1 TTCTTTTACATTTATGATAGTTAAGGCTGCAAATGCATGGTAATTCATATCACAAAACCTTGTAT
23355124 AAGATATAG
66 AAGATATAG
23355133 TTCTTTTACATTTATGATAGTTAAGGCTGCAAATGCATGGTAATTCATATCACAAAACCTTGTAT
1 TTCTTTTACATTTATGATAGTTAAGGCTGCAAATGCATGGTAATTCATATCACAAAACCTTGTAT
23355198 AAGATATAG
66 AAGATATAG
23355207 T
1 T
23355208 CCACAGATCA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (74 bp):
TTCTTTTACATTTATGATAGTTAAGGCTGCAAATGCATGGTAATTCATATCACAAAACCTTGTAT
AAGATATAG
Found at i:23359342 original size:14 final size:15
Alignment explanation
Indices: 23359312--23359348 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
23359302 AATAATAATC
23359312 TTAAAAAATAAACTT
1 TTAAAAAATAAACTT
*
23359327 TTAAAAAATATA-TT
1 TTAAAAAATAAACTT
23359341 TTAAAAAA
1 TTAAAAAA
23359349 AGTTGAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (15 bp):
TTAAAAAATAAACTT
Found at i:23359672 original size:60 final size:59
Alignment explanation
Indices: 23359316--23359903 Score: 485
Period size: 59 Copynumber: 10.0 Consensus size: 59
23359306 ATAATCTTAA
* * * *
23359316 AAAATAAACTTTT--AAAAAATATATTTTAAAAAAAGTTGAAAGTAT-AATTTTT-TTA
1 AAAATAAAATTTTCAAAAAAATATTTTTTAAGAAAAGTTGAAAGTATCAATTTTTCTTG
* * * * **
23359371 AAAATAAAAAATTT-AAAAAAATA-TTTTTGAGAAAAATTAAAAGTATCAATTTTT-TAA
1 AAAAT-AAAATTTTCAAAAAAATATTTTTTAAGAAAAGTTGAAAGTATCAATTTTTCTTG
* *
23359428 AAAATAAAAATTTT--TAAAAATA-TTTTTAA-AAAATGGTTGAAAATATCAATTTTT-TTCG
1 AAAAT-AAAATTTTCAAAAAAATATTTTTTAAGAAAA--GTTGAAAGTATCAATTTTTCTT-G
* * * * * * *
23359486 AAGATAAAATTATC-AAAAAACATTTTTTAGGAAAACTTAAAAGTATCAATTTTTCTTA
1 AAAATAAAATTTTCAAAAAAATATTTTTTAAGAAAAGTTGAAAGTATCAATTTTTCTTG
* * * * * * * *
23359544 AAAATAAAATTTTTAAAAAAGTATTTTTGAAAAAAAATTAAAAGTATTAA-TTTTCTTT
1 AAAATAAAATTTTCAAAAAAATATTTTTTAAGAAAAGTTGAAAGTATCAATTTTTCTTG
*
23359602 AAAA-ATAAATTTATCAAAAAAATATTTTTTAAGAAAAGTTGAAAGTATTAATTTTTCTTG
1 AAAATA-AAATTT-TCAAAAAAATATTTTTTAAGAAAAGTTGAAAGTATCAATTTTTCTTG
* * * * *
23359662 AAAATAAAATTGTCAAAAAAATATTTTTTAGGAAAAGTTTG-GAGTAACAATTTTTCTTC
1 AAAATAAAATTTTCAAAAAAATATTTTTTAAGAAAAG-TTGAAAGTATCAATTTTTCTTG
* * * *
23359721 AAAATAAAATTTTCAAAAAAAGTATTGTTGAGGAAATGTTGAAAGTATCAATTTTAT-TTG
1 AAAATAAAATTTTCAAAAAAA-TATTTTTTAAGAAAAGTTGAAAGTATCAATTTT-TCTTG
* * * *
23359781 AAAATAAAATTTTGAAAAAAGCAT-TCTTTTTAGGAAAAATTAAAAGTATCAATTTTTCTTG
1 AAAATAAAATTTTCAAAAAA--ATAT-TTTTTAAGAAAAGTTGAAAGTATCAATTTTTCTTG
* * *
23359842 AAAATAAAAAATTT-AAGAAAAATATATTTTTGAGGAAAAAGTTGAAAGTGTCAATTTTTCTT
1 AAAAT-AAAATTTTCAA-AAAAATAT-TTTTT-AAG-AAAAGTTGAAAGTATCAATTTTTCTT
23359904 ATATAAAGGC
Statistics
Matches: 438, Mismatches: 67, Indels: 48
0.79 0.12 0.09
Matches are distributed among these distances:
55 9 0.02
56 37 0.08
57 55 0.13
58 54 0.12
59 129 0.29
60 72 0.16
61 44 0.10
62 15 0.03
63 23 0.05
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (59 bp):
AAAATAAAATTTTCAAAAAAATATTTTTTAAGAAAAGTTGAAAGTATCAATTTTTCTTG
Found at i:23360869 original size:62 final size:63
Alignment explanation
Indices: 23360697--23360869 Score: 149
Period size: 63 Copynumber: 2.8 Consensus size: 63
23360687 GAGTTTTTTG
** * *
23360697 CTAAAAACGTTTTCAATAATCCATTTCAATTTTTATGAGATGATTATTAAAGGCAGTTTTACC
1 CTAAAAACACTTTCAATAATCCCTTTCAATTTTTATGAGATGATTATTAAAGACAGTTTTACC
* ** * ** * * *
23360760 CTTAAAATGCTTTGAATAAT-CCTTTACAAAAAATTTATTA-A-GGTTATTGAAGAC-GTTTCTA
1 CTAAAAACACTTTCAATAATCCCTTT-C--AATTTTTATGAGATGATTATTAAAGACAGTTT-TA
*
23360821 GC
62 CC
23360823 C-AAAAACACTTTCAATAATCCCTTTCAATTTTTATGAGATGATTATT
1 CTAAAAACACTTTCAATAATCCCTTTCAATTTTTATGAGATGATTATT
23360870 TAAGGTTTTT
Statistics
Matches: 83, Mismatches: 20, Indels: 15
0.70 0.17 0.13
Matches are distributed among these distances:
60 8 0.10
61 1 0.01
62 29 0.35
63 36 0.43
64 1 0.01
65 8 0.10
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.39
Consensus pattern (63 bp):
CTAAAAACACTTTCAATAATCCCTTTCAATTTTTATGAGATGATTATTAAAGACAGTTTTACC
Found at i:23365102 original size:63 final size:61
Alignment explanation
Indices: 23364996--23365150 Score: 150
Period size: 63 Copynumber: 2.5 Consensus size: 61
23364986 ATGCCTTCTT
* * * *
23364996 AAAAACACATTGAATAATCCACTAATAAAAATTAAAAATGATTATTCATGGCATTTTCTAT-GC
1 AAAAACACATTGAATAAT-CATTCATAAAAATTAAAAAGGATTATTCAAGGCATTTT-T-TGGC
* ** *
23365059 AAAAACACATTGAATAATCATTTCATAAAAATTGAAGGGGATTATTGAAGGCATTTTTTGGC
1 AAAAACACATTGAATAATCA-TTCATAAAAATTAAAAAGGATTATTCAAGGCATTTTTTGGC
* * * *
23365121 TAGAACACCTTGAATAATCCCTTCATAAAA
1 AAAAACACATTGAATAAT-CATTCATAAAA
23365151 TTTTTTGAAG
Statistics
Matches: 77, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
61 1 0.01
62 29 0.38
63 47 0.61
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (61 bp):
AAAAACACATTGAATAATCATTCATAAAAATTAAAAAGGATTATTCAAGGCATTTTTTGGC
Found at i:23366091 original size:2 final size:2
Alignment explanation
Indices: 23366084--23366133 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
23366074 ATTTTATCAT
* * *
23366084 TA TA TA TA TG TA TA TA TA TA TA TA TA CA TA CA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23366126 TA TA TA TA
1 TA TA TA TA
23366134 AATTCAAACT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:23366417 original size:2 final size:2
Alignment explanation
Indices: 23366410--23366435 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
23366400 GAAACCACCT
23366410 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
23366436 ATGCTTCGTA
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:23367487 original size:20 final size:20
Alignment explanation
Indices: 23367462--23367499 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
23367452 CCTCCCTCCA
*
23367462 ATAAAAAGGCAAAAACAATT
1 ATAAAAAAGCAAAAACAATT
23367482 ATAAAAAAGCAAAAACAA
1 ATAAAAAAGCAAAAACAA
23367500 AGTAGATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.71, C:0.11, G:0.08, T:0.11
Consensus pattern (20 bp):
ATAAAAAAGCAAAAACAATT
Found at i:23373788 original size:65 final size:65
Alignment explanation
Indices: 23373692--23373813 Score: 167
Period size: 65 Copynumber: 1.9 Consensus size: 65
23373682 TAATCTATAC
*
23373692 AAAAAATTTGAAGAGGGATTACTGAAAGCGTTTATATCCAAAAACACCTTTAATAATCCATAAAA
1 AAAAAATTTGAAGAGGGATTACTGAAAGCGTTTATATCCAAAAACACCTTCAATAATCCATAAAA
* * * *
23373757 AAAAAATTTGGAA-AGGGATTA-TTAAAGGCGTTTTTATCTAAAAATACCTTCAATAAT
1 AAAAAATTT-GAAGAGGGATTACTGAAA-GCGTTTATATCCAAAAACACCTTCAATAAT
23373814 TCCCTCAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
64 4 0.08
65 43 0.86
66 3 0.06
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (65 bp):
AAAAAATTTGAAGAGGGATTACTGAAAGCGTTTATATCCAAAAACACCTTCAATAATCCATAAAA
Found at i:23373935 original size:108 final size:109
Alignment explanation
Indices: 23373730--23373937 Score: 242
Period size: 108 Copynumber: 1.9 Consensus size: 109
23373720 CGTTTATATC
* * * **
23373730 CAAAAACACCTTTAATAATCCATAAAAAAAAAATTTGGAAAGGGATTATTAAAGGCGTTTTTATC
1 CAAAAACAACTTCAATAATCCAT-AAAAAAAAATTTGGAAAGAGATTATTAAAAACGTTTTTATC
* * * *
23373795 TAAAAATACCTTCAATAATTCCCTCAATAAATTTTTTTGTATGGA
65 TAAAAATACCTTCAATAAGTCCATAAAAAAATTTTTTTGTATGGA
* * * *
23373840 CAAAAACAACTTCAATAATCCAT-ACAAAAAATTTTGAAATAGATTATTAAAAATGTTTTTGATC
1 CAAAAACAACTTCAATAATCCATAAAAAAAAATTTGGAAAGAGATTATTAAAAACGTTTTT-ATC
* *
23373904 -AAAAATACTTTCAAT-AGTCCATAAAAAAAATTTT
65 TAAAAATACCTTCAATAAGTCCATAAAAAAATTTTT
23373938 AGAAAGGATT
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
107 14 0.17
108 44 0.54
109 3 0.04
110 21 0.26
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (109 bp):
CAAAAACAACTTCAATAATCCATAAAAAAAAATTTGGAAAGAGATTATTAAAAACGTTTTTATCT
AAAAATACCTTCAATAAGTCCATAAAAAAATTTTTTTGTATGGA
Found at i:23373948 original size:63 final size:63
Alignment explanation
Indices: 23373850--23373985 Score: 168
Period size: 63 Copynumber: 2.2 Consensus size: 63
23373840 CAAAAACAAC
* * *
23373850 TTCAATAATCCATACAAAAAATTTTGAAATAGATTATTAAAAATGTTTTTGATCAAAAA-TACT
1 TTCAATAATCCATAAAAAAAATTTTGAAATAGATTATTAAAAACGTTTTTGACCAAAAACT-CT
* * * * *
23373913 TTCAATAGTCCATAAAAAAAATTTTAGAAA-GGATTATTGAAAGCGTTTTTGGCCAAAAACTCT
1 TTCAATAATCCATAAAAAAAATTTT-GAAATAGATTATTAAAAACGTTTTTGACCAAAAACTCT
23373976 TTCAATAATC
1 TTCAATAATC
23373986 TCTCATAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
63 57 0.92
64 5 0.08
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.35
Consensus pattern (63 bp):
TTCAATAATCCATAAAAAAAATTTTGAAATAGATTATTAAAAACGTTTTTGACCAAAAACTCT
Found at i:23374026 original size:64 final size:64
Alignment explanation
Indices: 23373934--23374126 Score: 191
Period size: 61 Copynumber: 3.1 Consensus size: 64
23373924 ATAAAAAAAA
* * **
23373934 TTTTAGAAAGGATTATTGAAAGCGTTTTTGGCCAAAAACTCTTTCAATAATCTCTCATAAAAATT
1 TTTTAGAAAGGATTATTGAAGGCATTTTTGAACAAAAAC-CTTTCAATAATCTCTCATAAAAATT
* * * *
23373999 TTTTA-AAAGGATTATTGAAGGCATTTTT-AACGAAAACGTTTCAATAATC-CTCTTAAAAA-A
1 TTTTAGAAAGGATTATTGAAGGCATTTTTGAACAAAAACCTTTCAATAATCTCTCATAAAAATT
* * * * * * *
23374059 TTGTAGAAAGAATTATTGAAGGTATTTTTGATCAAAAACACATTCAATAA-CTTTCAT-TAAATT
1 TTTTAGAAAGGATTATTGAAGGCATTTTTGAACAAAAAC-CTTTCAATAATCTCTCATAAAAATT
23374122 TTTTA
1 TTTTA
23374127 TAATATTGTT
Statistics
Matches: 103, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
60 4 0.04
61 30 0.29
62 22 0.21
63 21 0.20
64 21 0.20
65 5 0.05
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.38
Consensus pattern (64 bp):
TTTTAGAAAGGATTATTGAAGGCATTTTTGAACAAAAACCTTTCAATAATCTCTCATAAAAATT
Found at i:23374628 original size:161 final size:160
Alignment explanation
Indices: 23374364--23374672 Score: 503
Period size: 161 Copynumber: 1.9 Consensus size: 160
23374354 TTGAAAGCTC
*
23374364 TCTTCGCTTACACCCCTATAGATAGATTATTTTGTAAACATCTAAGTCTATTGTCTACTACATGA
1 TCTTCGCTTACACCCCTATAGATAGATTATTTTGTAAACATCTAAGCCTATTGTCTACTACATGA
* * *
23374429 TACTTTAAATTAAGGTCTATTATCAGAGTTAACTATAACATTATTTTTTATCCATATGCTGTTCA
66 TACTTTAAATTAAGGACTATTATCAGAGTTAACTATAACATTATTTTTCATCCATATGCTATTCA
*
23374494 AATAATTTTCCTTTTCCTATAGATAGATTA
131 AATAATTTTCATTTTCCTATAGATAGATTA
*
23374524 TCTTCGCTTACACCCCTATAGATAGATTATTTTTGTAAATATCTAAGCCTATTGTCTACTACATG
1 TCTTCGCTTACACCCCTATAGATAGATTA-TTTTGTAAACATCTAAGCCTATTGTCTACTACATG
*
23374589 ATACTTTGAATT-AGGAACTATTATCAGAGTTAACTATAACATTATTTTTCATCCATATGCTATT
65 ATACTTTAAATTAAGG-ACTATTATCAGAGTTAACTATAACATTATTTTTCATCCATATGCTATT
** *
23374653 TTAATAATTTTTATTTTCCT
129 CAAATAATTTTCATTTTCCT
23374673 TCTTGTAGAT
Statistics
Matches: 137, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
160 32 0.23
161 105 0.77
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (160 bp):
TCTTCGCTTACACCCCTATAGATAGATTATTTTGTAAACATCTAAGCCTATTGTCTACTACATGA
TACTTTAAATTAAGGACTATTATCAGAGTTAACTATAACATTATTTTTCATCCATATGCTATTCA
AATAATTTTCATTTTCCTATAGATAGATTA
Found at i:23389742 original size:2 final size:2
Alignment explanation
Indices: 23389737--23389762 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
23389727 CTCTTGTTTG
23389737 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
23389763 TTTATAGATC
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):
AT
Found at i:23390288 original size:2 final size:2
Alignment explanation
Indices: 23390281--23390318 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
23390271 TCACTGTAAG
23390281 CT CT CT CT CT CT CT CT CT CT CT CT C- 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 C
23390319 ATTTCATTGC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:23390373 original size:17 final size:17
Alignment explanation
Indices: 23390343--23390376 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
23390333 TTTCTCCTCC
23390343 GATTTCTGTTATTCTCT
1 GATTTCTGTTATTCTCT
23390360 GATTT-TGTTGATTCTCT
1 GATTTCTGTT-ATTCTCT
23390377 CTTCGCTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.12, C:0.15, G:0.15, T:0.59
Consensus pattern (17 bp):
GATTTCTGTTATTCTCT
Found at i:23394279 original size:122 final size:123
Alignment explanation
Indices: 23394057--23394307 Score: 380
Period size: 122 Copynumber: 2.0 Consensus size: 123
23394047 TTAATGTGCA
* * * *
23394057 GCCTTTGTTGATATACATATAAATATATATACTACGTTATTTCAAGTCTCCAGTCCATAATTTAA
1 GCCTTTGTTGACATACATAT-AATACATACACTACGTTATTTCAAGTCTCCAGTCCATAATTCAA
* * * *
23394122 TGCTGCCAGGGACAGAGTAAGAGCGAGTTTAAAGGACGAGGATATTTATCCTTACTCTT
65 TGCTGCCAGGGACAGAGTAAGAACGAGTTTAAAGGACAAGGACATTTACCCTTACTCTT
*
23394181 GCCTTTGTTGACATACATAT-ATACATACACTACGTTATTTCAAGTCTCCAGTCCATAATTCGAT
1 GCCTTTGTTGACATACATATAATACATACACTACGTTATTTCAAGTCTCCAGTCCATAATTCAAT
* *
23394245 GCTGCCAGGGACAGAGTAAGAATGAGTTTGAAGGACAAGGACATTTACCCTTACTCTT
66 GCTGCCAGGGACAGAGTAAGAACGAGTTTAAAGGACAAGGACATTTACCCTTACTCTT
23394303 -CCTTT
1 GCCTTT
23394308 CTTTTAGGGA
Statistics
Matches: 116, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
121 5 0.04
122 92 0.79
124 19 0.16
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (123 bp):
GCCTTTGTTGACATACATATAATACATACACTACGTTATTTCAAGTCTCCAGTCCATAATTCAAT
GCTGCCAGGGACAGAGTAAGAACGAGTTTAAAGGACAAGGACATTTACCCTTACTCTT
Found at i:23395740 original size:24 final size:24
Alignment explanation
Indices: 23395710--23395764 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
23395700 ACTTTGACAT
23395710 TGTACATTATATGATCACTTAATC
1 TGTACATTATATGATCACTTAATC
*
23395734 TGTACATTATATTATCACTTAATC
1 TGTACATTATATGATCACTTAATC
23395758 T-TACATT
1 TGTACATT
23395765 CTAGGAGCGT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 6 0.20
24 24 0.80
ACGTcount: A:0.33, C:0.16, G:0.05, T:0.45
Consensus pattern (24 bp):
TGTACATTATATGATCACTTAATC
Found at i:23399708 original size:131 final size:131
Alignment explanation
Indices: 23399474--23399735 Score: 524
Period size: 131 Copynumber: 2.0 Consensus size: 131
23399464 GAGGTAGAAA
23399474 TTGGTGTGCGAGGAGGTAGTGCCGTAGGGAACTGCAAAATGCAACTGCAAAAAGGAGCCTTACGA
1 TTGGTGTGCGAGGAGGTAGTGCCGTAGGGAACTGCAAAATGCAACTGCAAAAAGGAGCCTTACGA
23399539 ACACTGGCAAATTTTTTCAGCACCTACTGGATTTGAAATCACGTTTTCTCCACCTACCCAATATA
66 ACACTGGCAAATTTTTTCAGCACCTACTGGATTTGAAATCACGTTTTCTCCACCTACCCAATATA
23399604 T
131 T
23399605 TTGGTGTGCGAGGAGGTAGTGCCGTAGGGAACTGCAAAATGCAACTGCAAAAAGGAGCCTTACGA
1 TTGGTGTGCGAGGAGGTAGTGCCGTAGGGAACTGCAAAATGCAACTGCAAAAAGGAGCCTTACGA
23399670 ACACTGGCAAATTTTTTCAGCACCTACTGGATTTGAAATCACGTTTTCTCCACCTACCCAATATA
66 ACACTGGCAAATTTTTTCAGCACCTACTGGATTTGAAATCACGTTTTCTCCACCTACCCAATATA
23399735 T
131 T
23399736 CATAAAACGA
Statistics
Matches: 131, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 131 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (131 bp):
TTGGTGTGCGAGGAGGTAGTGCCGTAGGGAACTGCAAAATGCAACTGCAAAAAGGAGCCTTACGA
ACACTGGCAAATTTTTTCAGCACCTACTGGATTTGAAATCACGTTTTCTCCACCTACCCAATATA
T
Found at i:23399855 original size:12 final size:12
Alignment explanation
Indices: 23399796--23399862 Score: 52
Period size: 12 Copynumber: 5.7 Consensus size: 12
23399786 TTTTTTTTTG
23399796 ATTTAATA-AAA
1 ATTTAATATAAA
* *
23399807 ATTCTAGTAAAAA
1 ATT-TAATATAAA
*
23399820 ATTTAA-ATCAAT
1 ATTTAATAT-AAA
23399832 ATATT-A-ATAAA
1 AT-TTAATATAAA
23399843 ATTTAATATAAA
1 ATTTAATATAAA
23399855 ATTTAATA
1 ATTTAATA
23399863 ATATGAATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
10 2 0.04
11 9 0.20
12 26 0.58
13 8 0.18
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (12 bp):
ATTTAATATAAA
Found at i:23399864 original size:25 final size:25
Alignment explanation
Indices: 23399796--23399865 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 25
23399786 TTTTTTTTTG
*
23399796 ATTTAATA-AAAATTCTAGTAA-AAA
1 ATTTAATATAAAATT-TAATAATAAA
* * *
23399820 ATTTAA-AT-CAATATATTAATAAA
1 ATTTAATATAAAATTTAATAATAAA
23399843 ATTTAATATAAAATTTAATAATA
1 ATTTAATATAAAATTTAATAATA
23399866 TGAATAAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
22 5 0.14
23 13 0.36
24 8 0.22
25 10 0.28
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (25 bp):
ATTTAATATAAAATTTAATAATAAA
Found at i:23402067 original size:33 final size:33
Alignment explanation
Indices: 23402030--23402093 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
23402020 GAAATTTGTG
* * *
23402030 AAAATTTTTATTAAAAATAATTAATTAAAATTA
1 AAAATTATAATTAAAAATAATAAATTAAAATTA
* *
23402063 AAAATTATAATTAAAATTGATAAATTAAAAT
1 AAAATTATAATTAAAAATAATAAATTAAAAT
23402094 ATCTTTTTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (33 bp):
AAAATTATAATTAAAAATAATAAATTAAAATTA
Found at i:23402073 original size:19 final size:20
Alignment explanation
Indices: 23402039--23402080 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
23402029 GAAAATTTTT
23402039 ATTAAAAATAATTAATTAAA
1 ATTAAAAATAATTAATTAAA
*
23402059 ATTAAAAATTA-TAATTAAA
1 ATTAAAAATAATTAATTAAA
23402078 ATT
1 ATT
23402081 GATAAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTAAAAATAATTAATTAAA
Found at i:23402090 original size:14 final size:13
Alignment explanation
Indices: 23402052--23402093 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
23402042 AAAAATAATT
23402052 AATTA-AAATTAAA
1 AATTATAAATT-AA
23402065 AATTAT-AATTAA
1 AATTATAAATTAA
23402077 AATTGATAAATTAA
1 AATT-ATAAATTAA
23402091 AAT
1 AAT
23402094 ATCTTTTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.23
13 11 0.42
14 9 0.35
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (13 bp):
AATTATAAATTAA
Found at i:23406109 original size:3 final size:3
Alignment explanation
Indices: 23406101--23406127 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
23406091 TCCTTATGCC
23406101 CCT CCT CCT CCT CCT CCT CCT CCT CCT
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT
23406128 GGATCAACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (3 bp):
CCT
Found at i:23410706 original size:1 final size:1
Alignment explanation
Indices: 23410700--23410733 Score: 68
Period size: 1 Copynumber: 34.0 Consensus size: 1
23410690 GTGCATTCAG
23410700 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
23410734 GAGAAGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Done.