Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 107 of 129
Found at i:19248852 original size:19 final size:21
Alignment explanation
Indices: 19248830--19248880 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
19248820 TTTATATATT
19248830 ATATTTATTA-TT-AAAAATA
1 ATATTTATTATTTAAAAAATA
19248849 ATATTT-TATATTTAAAAAATA
1 ATATTTAT-TATTTAAAAAATA
19248870 ATATTTTATTA
1 ATA-TTTATTA
19248881 ATTTCGAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 1 0.04
19 8 0.30
20 2 0.07
21 10 0.37
22 5 0.19
23 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATTTATTATTTAAAAAATA
Found at i:19256658 original size:27 final size:27
Alignment explanation
Indices: 19256604--19256658 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
19256594 AATTGTAATA
* * *
19256604 AAAAATTATTATTAAATTTATTAGATT
1 AAAAATTATTAATAAAATTATTAAATT
19256631 AAAAATTATATAATAAAATT-TTAAATT
1 AAAAATTAT-TAATAAAATTATTAAATT
19256658 A
1 A
19256659 TTTAATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (27 bp):
AAAAATTATTAATAAAATTATTAAATT
Found at i:19256684 original size:19 final size:19
Alignment explanation
Indices: 19256641--19256703 Score: 53
Period size: 19 Copynumber: 3.5 Consensus size: 19
19256631 AAAAATTATA
19256641 TAATAAA-ATTT-T-AAAT
1 TAATAAATATTTATAAAAT
* *
19256657 TATTTAATATTTATAAAAT
1 TAATAAATATTTATAAAAT
* *
19256676 TAATAAATAATTA-AAAAC
1 TAATAAATATTTATAAAAT
19256694 TAATTAAATA
1 TAA-TAAATA
19256704 ATTTTTAAGT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
16 5 0.14
17 4 0.11
18 8 0.22
19 20 0.54
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
TAATAAATATTTATAAAAT
Found at i:19256819 original size:66 final size:62
Alignment explanation
Indices: 19256722--19256842 Score: 142
Period size: 66 Copynumber: 1.9 Consensus size: 62
19256712 GTTAAATAAT
19256722 AATTTTATTAATAAAAAATAATATATTAAATAATATTTTATTATATTA-AATTAAAAAATCATTT
1 AATTTTATTAATAAAAAATAATATATTAAAT-AT-TTTTA-TAT-TTACAA-TAAAAAATCATTT
19256786 CA
61 CA
19256788 AATTTT-TTAAATAAAAAATAA-AT-TCTAAAATATTTTTATATTTACAATAAAAAAT
1 AATTTTATT-AATAAAAAATAATATAT-T-AAATATTTTTATATTTACAATAAAAAAT
19256843 TAAAAAAAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
62 11 0.22
63 5 0.10
64 6 0.12
65 7 0.14
66 22 0.43
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (62 bp):
AATTTTATTAATAAAAAATAATATATTAAATATTTTTATATTTACAATAAAAAATCATTTCA
Found at i:19257029 original size:2 final size:2
Alignment explanation
Indices: 19257022--19257053 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
19257012 AAATGAAATG
19257022 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
19257054 AAATTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19257749 original size:20 final size:19
Alignment explanation
Indices: 19257718--19257801 Score: 71
Period size: 19 Copynumber: 4.2 Consensus size: 19
19257708 TAATGTTAAA
*
19257718 AAAATTATAAAAATAATTTT
1 AAAA-TATAAAAAAAATTTT
19257738 AAAATATAAAAAAAGAGTTTT
1 AAAATATAAAAAAA-A-TTTT
*
19257759 -CAATATTAAAAAATAATTTT
1 AAAATA-TAAAAAA-AATTTT
* **
19257779 GAAATATCTAAAAAATTTT
1 AAAATATAAAAAAAATTTT
19257798 AAAA
1 AAAA
19257802 AATTGACAAG
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
19 18 0.34
20 18 0.34
21 16 0.30
22 1 0.02
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (19 bp):
AAAATATAAAAAAAATTTT
Found at i:19257750 original size:21 final size:21
Alignment explanation
Indices: 19257718--19257801 Score: 68
Period size: 20 Copynumber: 4.2 Consensus size: 21
19257708 TAATGTTAAA
*
19257718 AAAAT-TATAAAAATAATTTT
1 AAAATATAAAAAAATAATTTT
* *
19257738 AAAATATAAAAAAAGAGTTTT
1 AAAATATAAAAAAATAATTTT
* *
19257759 -CAATATTAAAAAATAATTTT
1 AAAATATAAAAAAATAATTTT
* **
19257779 GAAATAT-CTAAAA-AATTTT
1 AAAATATAAAAAAATAATTTT
19257798 AAAA
1 AAAA
19257802 AATTGACAAG
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
19 9 0.18
20 25 0.49
21 17 0.33
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (21 bp):
AAAATATAAAAAAATAATTTT
Found at i:19258189 original size:26 final size:25
Alignment explanation
Indices: 19258135--19258201 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 25
19258125 ACAGAAAAAT
19258135 AATATAATATTTTTAA-A-TTTTATA
1 AATATAATA-TTTTAATATTTTTATA
19258159 AATATTTAATATTTTAATATTTTTAT-
1 AATA--TAATATTTTAATATTTTTATA
*
19258185 TATATAA-ATTTTAATAT
1 AATATAATATTTTAATAT
19258202 AATATTTTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
23 10 0.26
24 7 0.18
25 6 0.16
26 9 0.24
27 6 0.16
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
AATATAATATTTTAATATTTTTATA
Found at i:19258208 original size:28 final size:29
Alignment explanation
Indices: 19258134--19258211 Score: 95
Period size: 31 Copynumber: 2.6 Consensus size: 29
19258124 AACAGAAAAA
*
19258134 TAATATAATATTTTTAAATTTTATAAATATT
1 TAATATAATATTTTT--ATTATATAAATATT
19258165 TAATATTTTAATATTTTTATTATATAAAT-TT
1 TAATA---TAATATTTTTATTATATAAATATT
19258196 TAATATAATATTTTTA
1 TAATATAATATTTTTA
19258212 ATGATCATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
28 11 0.26
31 12 0.28
32 10 0.23
34 10 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (29 bp):
TAATATAATATTTTTATTATATAAATATT
Found at i:19258226 original size:15 final size:14
Alignment explanation
Indices: 19258173--19258233 Score: 54
Period size: 14 Copynumber: 4.3 Consensus size: 14
19258163 TTTAATATTT
19258173 TAATATTTTTATTATA
1 TAATATTTTTA--ATA
19258189 TAA-A-TTTTAATA
1 TAATATTTTTAATA
19258201 TAATATTTTTAATGA
1 TAATATTTTTAAT-A
* * *
19258216 TCATTTTTTTATTA
1 TAATATTTTTAATA
19258230 TAAT
1 TAAT
19258234 TCATTTTACT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
12 6 0.16
13 1 0.03
14 16 0.42
15 12 0.32
16 3 0.08
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (14 bp):
TAATATTTTTAATA
Found at i:19258933 original size:15 final size:14
Alignment explanation
Indices: 19258914--19258950 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
19258904 GTGTATTTTG
19258914 TTTTTTAATTTAAT
1 TTTTTTAATTTAAT
*
19258928 TATTTTTAATTTCAT
1 T-TTTTTAATTTAAT
19258943 TTTTTTAA
1 TTTTTTAA
19258951 CAAAAAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTTTAATTTAAT
Found at i:19260384 original size:30 final size:30
Alignment explanation
Indices: 19260350--19260407 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
19260340 AATTGAATCC
19260350 TAAAATATTTATTTTTACT-TAATTAAATTT
1 TAAAATATTTATTTTTACTCT-ATTAAATTT
19260380 TAAAATATTTATTTTTACTCTATTAAAT
1 TAAAATATTTATTTTTACTCTATTAAAT
19260408 CCTTGATTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (30 bp):
TAAAATATTTATTTTTACTCTATTAAATTT
Found at i:19260874 original size:6 final size:6
Alignment explanation
Indices: 19260859--19260904 Score: 58
Period size: 6 Copynumber: 7.3 Consensus size: 6
19260849 TTATTAAAAT
19260859 AATT-A AATTAA AATTAA AATTGAA AATTAA AATTGATA AATTAA AA
1 AATTAA AATTAA AATTAA AATT-AA AATTAA AATT-A-A AATTAA AA
19260905 AATTTTGTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
5 4 0.11
6 20 0.54
7 8 0.22
8 5 0.14
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (6 bp):
AATTAA
Found at i:19260901 original size:14 final size:13
Alignment explanation
Indices: 19260859--19260904 Score: 69
Period size: 13 Copynumber: 3.6 Consensus size: 13
19260849 TTATTAAAAT
19260859 AATT-AAATT-AA
1 AATTAAAATTGAA
19260870 AATTAAAATTGAA
1 AATTAAAATTGAA
19260883 AATTAAAATTGATA
1 AATTAAAATTGA-A
19260897 AATTAAAA
1 AATTAAAA
19260905 AATTTTGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 4 0.12
12 5 0.16
13 14 0.44
14 9 0.28
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (13 bp):
AATTAAAATTGAA
Found at i:19260955 original size:22 final size:24
Alignment explanation
Indices: 19260899--19260964 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
19260889 AATTGATAAA
*
19260899 TTAAA-AAATTTTGTTATATAAAT
1 TTAAATAAATTTTGTTATAAAAAT
*
19260922 TAAATATGAAATTTT-TT-TAAAAAT
1 TTAA-AT-AAATTTTGTTATAAAAAT
*
19260946 TTAAATAAATTTTGATATA
1 TTAAATAAATTTTGTTATA
19260965 TATTTTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
22 7 0.21
23 6 0.18
24 12 0.35
25 2 0.06
26 7 0.21
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (24 bp):
TTAAATAAATTTTGTTATAAAAAT
Found at i:19260984 original size:48 final size:48
Alignment explanation
Indices: 19260899--19261008 Score: 116
Period size: 48 Copynumber: 2.2 Consensus size: 48
19260889 AATTGATAAA
* *
19260899 TTAAAAAATTTTGTTATATAAATTAAATATGAAATTTTT-TTAAAAAT
1 TTAAAAAATTTTGATATATAAATTAAATATGAAATTTTTAATAAAAAT
** *
19260946 TTAAATAAATTTTGATATATATTTTTAAATA-GATATTTTTAATAAAAAT
1 TTAAA-AAATTTTGATATATA-AATTAAATATGAAATTTTTAATAAAAAT
*
19260995 ATTGATAAAATTTT
1 -TT-AAAAAATTTT
19261009 TATTATTAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
47 5 0.10
48 22 0.42
49 14 0.27
50 9 0.17
51 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (48 bp):
TTAAAAAATTTTGATATATAAATTAAATATGAAATTTTTAATAAAAAT
Found at i:19270048 original size:27 final size:29
Alignment explanation
Indices: 19270017--19270070 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
19270007 GTGTATAAAT
* *
19270017 AATTTTTAAAT-TGATAAAT-ATATTTTG
1 AATTTTGAAATATAATAAATCATATTTTG
19270044 AATTTTGAAATATAATAAATCATATTT
1 AATTTTGAAATATAATAAATCATATTT
19270071 ATCTTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 10 0.43
28 7 0.30
29 6 0.26
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (29 bp):
AATTTTGAAATATAATAAATCATATTTTG
Found at i:19270135 original size:19 final size:19
Alignment explanation
Indices: 19270097--19270137 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
19270087 AAACCATTTT
*
19270097 AAAAAATAAATGAATATAA
1 AAAAAATAAATGAAGATAA
* *
19270116 AAAAAATATATGAAGGTAA
1 AAAAAATAAATGAAGATAA
19270135 AAA
1 AAA
19270138 TATCAAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.20
Consensus pattern (19 bp):
AAAAAATAAATGAAGATAA
Found at i:19272440 original size:30 final size:30
Alignment explanation
Indices: 19272404--19272467 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
19272394 TTAAGGGTTT
*
19272404 TTTAGATATAAATTAAAAATTAAGAACTTA
1 TTTAGATATAAATTAAAAATTAAAAACTTA
* *
19272434 TTTAGATATAAATTAAAAGTTAAAAATTTA
1 TTTAGATATAAATTAAAAATTAAAAACTTA
19272464 TTTA
1 TTTA
19272468 CATGCAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.41
Consensus pattern (30 bp):
TTTAGATATAAATTAAAAATTAAAAACTTA
Found at i:19272495 original size:60 final size:59
Alignment explanation
Indices: 19272413--19272525 Score: 131
Period size: 60 Copynumber: 1.9 Consensus size: 59
19272403 TTTTAGATAT
*
19272413 AAATTAAAAATTAAGAACTTATTTAGATATAAATTAAAAGT-TAAAAATTTATTTACATGCA
1 AAATTAAAAATCAAGAACTTATTTAGATAT-AA-T-AAAGTATAAAAATTTATTTACATGCA
** * * *
19272474 AAATT-AAAATCAAGAGTTTATTTGGGTATAATAAAGTATAAAGATTTATTTA
1 AAATTAAAAATCAAGAACTTATTTAGATATAATAAAGTATAAAAATTTATTTA
19272526 GATAAAATGA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
57 5 0.11
58 14 0.31
59 2 0.04
60 19 0.42
61 5 0.11
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.37
Consensus pattern (59 bp):
AAATTAAAAATCAAGAACTTATTTAGATATAATAAAGTATAAAAATTTATTTACATGCA
Found at i:19272766 original size:20 final size:19
Alignment explanation
Indices: 19272730--19272767 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
19272720 TTAATTTCTT
*
19272730 TGAAAAGAGATATTTTGTA
1 TGAAAAGAGAAATTTTGTA
19272749 TGAAAAGAGAAAATTTTGT
1 TGAAAAGAG-AAATTTTGT
19272768 CTTATCTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (19 bp):
TGAAAAGAGAAATTTTGTA
Found at i:19274836 original size:44 final size:44
Alignment explanation
Indices: 19274786--19274869 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
19274776 CCACTTCATG
19274786 ATTCAATATCAAATG-ACAATATTAAGTATATTATTTGATACGAT
1 ATTCAATATCAAATGTACAATA-TAAGTATATTATTTGATACGAT
**
19274830 ATTCAATATCAAATGTTGAATATAAGTATATTATTTGATA
1 ATTCAATATCAAATGTACAATATAAGTATATTATTTGATA
19274870 ACTTGAAATG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 33 0.89
45 4 0.11
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (44 bp):
ATTCAATATCAAATGTACAATATAAGTATATTATTTGATACGAT
Found at i:19291886 original size:238 final size:237
Alignment explanation
Indices: 19291463--19292147 Score: 783
Period size: 238 Copynumber: 2.9 Consensus size: 237
19291453 ATTGTCTCAC
* * * * *
19291463 TCACTTGATCTTGGCTTAATCCAAATCATTCTTCATGATTTATGGTTTCATCCTGATCATTTATT
1 TCACCTGATCTTGGCTCAGTCCAAATCATTCTTCATGATTCATGGTTCCATCCTGATCATTTATT
* * * * *
19291528 TTTAACCTCGACTCGATTTTGGTTACTTCATTTTTGACTTGTGGTTTCACCCCGATCACCTAATC
66 TTCAACCTCGACTCGATCTTGGTCATTTCATTTTTGACTTGTGGTTTCACCCC-ATCGCCTAATC
19291593 TTGG-TTCA-TCCAGATCATTCTTCATGATTCGTGGTTTCA-CCCTAATCATTTATTTTTAACCT
130 TTGGCTT-AGTCCAGATCATTCTTCATGATTCGTGGTTT-ATCCC-AATCATTTATTTTTAACCT
*
19291655 TGACTCGATCTTGGTCACTTTA-TTTTGACTTATGGTTTCACCCCGA
192 TGACT-GATCTTGGTCACTTCATTTTTGACTTATGGTTTCACCCCGA
* * * *
19291701 TCGCCTGATCTTGGCTCAGTCCAAATCATTCTTCATGATTCATGATTCCATCCCGATTATTTATT
1 TCACCTGATCTTGGCTCAGTCCAAATCATTCTTCATGATTCATGGTTCCATCCTGATCATTTATT
* * * *
19291766 TTCGACCTCGACTCGATCTTGGTCATTTCATTTTTTAC-TATGGTTTCACCCCTATCGCCTAATT
66 TTCAACCTCGACTCGATCTTGGTCATTTCATTTTTGACTTGTGGTTTCACCCC-ATCGCCTAATC
* * * *
19291830 TTGGCTTAGTTCAGATCATTCTTCATGATTCGTGGTTCTATCCCGATCATTTATTTTCAACATTG
130 TTGGCTTAGTCCAGATCATTCTTCATGATTCGTGGTT-TATCCCAATCATTTATTTTTAACCTTG
* * * * * *
19291895 ACTTAGTCTTAGTCACTTCATTTTTGCCTTGTGGTTTCATCCCGG
194 ACTGA-TCTTGGTCACTTCATTTTTGACTTATGGTTTCACCCCGA
* * ** *
19291940 TCACTTGATCTTGGCTCAGTCCAAATCATTCTTCATGATTCGTGGTTCTGTCCTGAACATTTATT
1 TCACCTGATCTTGGCTCAGTCCAAATCATTCTTCATGATTCATGGTTCCATCCTGATCATTTATT
* * * *
19292005 TTCAATCC-CGACTCGGTCTTGGTCAATTT-ATTTTTGACTTGTGGTTTCACACCAGTCGCTTGA
66 TTCAA-CCTCGACTCGATCTTGGTC-ATTTCATTTTTGACTTGTGGTTTCACCCCA-TCGCCTAA
* * * * ** *
19292068 TCTTGGCTTAGTCCAAATAATTCTTCGTGATTCGTGGTTTTGTTTCAATCA-TTATTTTTTACCT
128 TCTTGGCTTAGTCCAGATCATTCTTCATGATTCGTGG-TTTATCCCAATCATTTATTTTTAACCT
*
19292132 TGACTTGATCCTGGTC
192 TGAC-TGATCTTGGTC
19292148 GTTTCATTGG
Statistics
Matches: 374, Mismatches: 61, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
237 28 0.07
238 151 0.40
239 128 0.34
240 65 0.17
241 2 0.01
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.43
Consensus pattern (237 bp):
TCACCTGATCTTGGCTCAGTCCAAATCATTCTTCATGATTCATGGTTCCATCCTGATCATTTATT
TTCAACCTCGACTCGATCTTGGTCATTTCATTTTTGACTTGTGGTTTCACCCCATCGCCTAATCT
TGGCTTAGTCCAGATCATTCTTCATGATTCGTGGTTTATCCCAATCATTTATTTTTAACCTTGAC
TGATCTTGGTCACTTCATTTTTGACTTATGGTTTCACCCCGA
Found at i:19291979 original size:120 final size:120
Alignment explanation
Indices: 19291463--19292106 Score: 694
Period size: 119 Copynumber: 5.4 Consensus size: 120
19291453 ATTGTCTCAC
* * * ** *
19291463 TCACTTGATCTTGGCTTAATCCAAATCATTCTTCATGATTTATGGTT-TCATCCTGATCATTTAT
1 TCACCTGATCTTGGCTCAGTCCAAATCATTCTTCATGATTCGTGGTTCT-ATCCCGATCATTTAT
* * *
19291527 TTTTAACCTCGACTCGATTTTGGTTACTTCATTTTTGACTTGTGGTTTCACCCCGA
65 TTTCAACCTCGACTCGATCTTGGTCACTTCATTTTTGACTTGTGGTTTCACCCCGA
* * * *
19291583 TCACCTAATCTTGGTTCA-TCCAGATCATTCTTCATGATTCGTGGTT-TCA-CCCTAATCATTTA
1 TCACCTGATCTTGGCTCAGTCCAAATCATTCTTCATGATTCGTGGTTCT-ATCCC-GATCATTTA
* * * *
19291645 TTTTTAACCTTGACTCGATCTTGGTCACTTTA-TTTTGACTTATGGTTTCACCCCGA
64 TTTTCAACCTCGACTCGATCTTGGTCACTTCATTTTTGACTTGTGGTTTCACCCCGA
* * * * *
19291701 TCGCCTGATCTTGGCTCAGTCCAAATCATTCTTCATGATTCATGATTCCATCCCGATTATTTATT
1 TCACCTGATCTTGGCTCAGTCCAAATCATTCTTCATGATTCGTGGTTCTATCCCGATCATTTATT
* * * * *
19291766 TTCGACCTCGACTCGATCTTGGTCATTTCATTTTTTAC-TATGGTTTCACCCCTA
66 TTCAACCTCGACTCGATCTTGGTCACTTCATTTTTGACTTGTGGTTTCACCCCGA
* * * * * *
19291820 TCGCCTAATTTTGGCTTAGTTCAGATCATTCTTCATGATTCGTGGTTCTATCCCGATCATTTATT
1 TCACCTGATCTTGGCTCAGTCCAAATCATTCTTCATGATTCGTGGTTCTATCCCGATCATTTATT
* * * * * * *
19291885 TTCAACATTGACT-TAGTCTTAGTCACTTCATTTTTGCCTTGTGGTTTCATCCCGG
66 TTCAACCTCGACTCGA-TCTTGGTCACTTCATTTTTGACTTGTGGTTTCACCCCGA
* * * *
19291940 TCACTTGATCTTGGCTCAGTCCAAATCATTCTTCATGATTCGTGGTTCTGTCCTGAACATTTATT
1 TCACCTGATCTTGGCTCAGTCCAAATCATTCTTCATGATTCGTGGTTCTATCCCGATCATTTATT
* * * *
19292005 TTCAATCC-CGACTCGGTCTTGGTCAATTTATTTTTGACTTGTGGTTTCACACC-A
66 TTCAA-CCTCGACTCGATCTTGGTCACTTCATTTTTGACTTGTGGTTTCACCCCGA
* * * * *
19292059 GTCGCTTGATCTTGGCTTAGTCCAAATAATTCTTCGTGATTCGTGGTT
1 -TCACCTGATCTTGGCTCAGTCCAAATCATTCTTCATGATTCGTGGTT
19292107 TTGTTTCAAT
Statistics
Matches: 438, Mismatches: 76, Indels: 20
0.82 0.14 0.04
Matches are distributed among these distances:
118 41 0.09
119 223 0.51
120 173 0.39
121 1 0.00
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.43
Consensus pattern (120 bp):
TCACCTGATCTTGGCTCAGTCCAAATCATTCTTCATGATTCGTGGTTCTATCCCGATCATTTATT
TTCAACCTCGACTCGATCTTGGTCACTTCATTTTTGACTTGTGGTTTCACCCCGA
Found at i:19292534 original size:93 final size:93
Alignment explanation
Indices: 19292365--19292537 Score: 242
Period size: 93 Copynumber: 1.9 Consensus size: 93
19292355 GTTTGGGCCA
*
19292365 AATTAGGCCAACCTTGATCCATTCTGGTTTAGACCCAATTAGGCTCATTCTAGCTCAGGCCCAAC
1 AATTAGGCCAACCTTGATCCATTCTAGTTTAGACCCAATTAGGCTCATTCTAGCTCAGGCCCAAC
19292430 TAGACCCATTCTGGTCAAGCCCGAGCCC
66 TAGACCCATTCTGGTCAAGCCCGAGCCC
* * * * * *
19292458 AATTGGGCCCACCTTGATCCATTCTAGTTTGGGCCCGATTAGGCTCATTCTGGCTC-GAGCCCAA
1 AATTAGGCCAACCTTGATCCATTCTAGTTTAGACCCAATTAGGCTCATTCTAGCTCAG-GCCCAA
*
19292522 -TTGAACCCATTCTGGT
65 CTAG-ACCCATTCTGGT
19292538 TAGGTTCATC
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
92 3 0.04
93 67 0.96
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (93 bp):
AATTAGGCCAACCTTGATCCATTCTAGTTTAGACCCAATTAGGCTCATTCTAGCTCAGGCCCAAC
TAGACCCATTCTGGTCAAGCCCGAGCCC
Found at i:19292612 original size:3 final size:3
Alignment explanation
Indices: 19292571--19292637 Score: 71
Period size: 3 Copynumber: 22.3 Consensus size: 3
19292561 GTGCTTTTAC
* * * * * *
19292571 TAT TTT TAT TAT TGT TTT TAT TAG TAC TAT TAC TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
19292619 TAT TAT TAT TAT CAT TAT T
1 TAT TAT TAT TAT TAT TAT T
19292638 CGTTTCCTTT
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:19293080 original size:11 final size:11
Alignment explanation
Indices: 19293064--19293115 Score: 63
Period size: 10 Copynumber: 4.8 Consensus size: 11
19293054 GGACGATCTA
19293064 GGATTTTTTTT
1 GGATTTTTTTT
19293075 GGATTTTTTTTT
1 GGA-TTTTTTTT
*
19293087 AGA-TTTTTTT
1 GGATTTTTTTT
19293097 GGA-TTTTTTT
1 GGATTTTTTTT
*
19293107 GGGTTTTTT
1 GGATTTTTT
19293116 GAAAAACATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
10 18 0.50
11 8 0.22
12 10 0.28
ACGTcount: A:0.10, C:0.00, G:0.19, T:0.71
Consensus pattern (11 bp):
GGATTTTTTTT
Found at i:19293084 original size:12 final size:12
Alignment explanation
Indices: 19293067--19293106 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
19293057 CGATCTAGGA
19293067 TTTTTTTTGGAT
1 TTTTTTTTGGAT
*
19293079 TTTTTTTTAGA-
1 TTTTTTTTGGAT
19293090 -TTTTTTTGGAT
1 TTTTTTTTGGAT
19293101 TTTTTT
1 TTTTTT
19293107 GGGTTTTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 9 0.38
12 15 0.62
ACGTcount: A:0.10, C:0.00, G:0.12, T:0.78
Consensus pattern (12 bp):
TTTTTTTTGGAT
Found at i:19293115 original size:22 final size:22
Alignment explanation
Indices: 19293067--19293115 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
19293057 CGATCTAGGA
*
19293067 TTTTTTTTGGATTTTTTTTTAG
1 TTTTTTTTGGATTTTTTTTGAG
* *
19293089 ATTTTTTTGGA-TTTTTTTGGG
1 TTTTTTTTGGATTTTTTTTGAG
19293110 TTTTTT
1 TTTTTT
19293116 GAAAAACATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.08, C:0.00, G:0.16, T:0.76
Consensus pattern (22 bp):
TTTTTTTTGGATTTTTTTTGAG
Found at i:19295092 original size:29 final size:28
Alignment explanation
Indices: 19294991--19295106 Score: 94
Period size: 29 Copynumber: 4.1 Consensus size: 28
19294981 AAAATTTAAA
* * *
19294991 AATTTTATTTAAATAA-TTTTTATATTTT
1 AATTATATTCAAATAAGTCTTTA-ATTTT
* *
19295019 TATTATATTCAAATTAGTCTTTAATCTTT
1 AATTATATTCAAATAAGTCTTTAAT-TTT
* * *
19295048 AATTTTCCTT-AGATAAGTCTTTATATTTT
1 AATTAT-ATTCAAATAAGTCTTTA-ATTTT
19295077 AATTATATTCAAATAAGT-TATTAATTTT
1 AATTATATTCAAATAAGTCT-TTAATTTT
19295105 AA
1 AA
19295107 ATAAACTCTT
Statistics
Matches: 69, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
28 24 0.35
29 41 0.59
30 4 0.06
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (28 bp):
AATTATATTCAAATAAGTCTTTAATTTT
Found at i:19297610 original size:67 final size:67
Alignment explanation
Indices: 19297502--19297635 Score: 268
Period size: 67 Copynumber: 2.0 Consensus size: 67
19297492 CACAACGGAA
19297502 GGAAGAAGGCTAAAATCAAGTAAGCCAGAGTTATCTCCAGTGATATTGATAGTTTAAAATATGAT
1 GGAAGAAGGCTAAAATCAAGTAAGCCAGAGTTATCTCCAGTGATATTGATAGTTTAAAATATGAT
19297567 GT
66 GT
19297569 GGAAGAAGGCTAAAATCAAGTAAGCCAGAGTTATCTCCAGTGATATTGATAGTTTAAAATATGAT
1 GGAAGAAGGCTAAAATCAAGTAAGCCAGAGTTATCTCCAGTGATATTGATAGTTTAAAATATGAT
19297634 GT
66 GT
19297636 ATTTTATATT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.28
Consensus pattern (67 bp):
GGAAGAAGGCTAAAATCAAGTAAGCCAGAGTTATCTCCAGTGATATTGATAGTTTAAAATATGAT
GT
Found at i:19304282 original size:14 final size:14
Alignment explanation
Indices: 19304260--19304289 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19304250 TTTCATAAAA
19304260 AAATAAAAAATTGG
1 AAATAAAAAATTGG
*
19304274 AAATTAAAAATTGG
1 AAATAAAAAATTGG
19304288 AA
1 AA
19304290 CATATATGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.23
Consensus pattern (14 bp):
AAATAAAAAATTGG
Found at i:19305100 original size:13 final size:12
Alignment explanation
Indices: 19305079--19305119 Score: 57
Period size: 13 Copynumber: 3.4 Consensus size: 12
19305069 TTTGGTAGTC
19305079 TGAAATATGATA
1 TGAAATATGATA
19305091 TGATAATATGATA
1 TGA-AATATGATA
*
19305104 T-AAGTATGATA
1 TGAAATATGATA
19305115 TGAAA
1 TGAAA
19305120 AAAGATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 9 0.36
12 6 0.24
13 10 0.40
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (12 bp):
TGAAATATGATA
Found at i:19306400 original size:22 final size:21
Alignment explanation
Indices: 19306361--19306404 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
19306351 TTAGGATATA
19306361 AATAAATAAAAAACAATTGAT
1 AATAAATAAAAAACAATTGAT
*
19306382 AATAAATAAATAAATAATTGAT
1 AATAAATAAA-AAACAATTGAT
19306404 A
1 A
19306405 GTGACAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (21 bp):
AATAAATAAAAAACAATTGAT
Found at i:19307284 original size:18 final size:19
Alignment explanation
Indices: 19307257--19307298 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
19307247 ATATAAAAAA
* *
19307257 TAATATAATT-TATAATTT
1 TAATACAATTATATAAATT
19307275 TAATACAATTATATAAATT
1 TAATACAATTATATAAATT
19307294 TAATA
1 TAATA
19307299 AAATAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
TAATACAATTATATAAATT
Found at i:19310220 original size:21 final size:21
Alignment explanation
Indices: 19310180--19310220 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
19310170 CATAATTTAT
*
19310180 GTTAGATGATTAAGTTTGCAA
1 GTTAGATGATTAAGTCTGCAA
19310201 GTTAGGATGATTAAG-CTGCA
1 GTTA-GATGATTAAGTCTGCA
19310221 TTGAACAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.32, C:0.07, G:0.27, T:0.34
Consensus pattern (21 bp):
GTTAGATGATTAAGTCTGCAA
Found at i:19314143 original size:19 final size:18
Alignment explanation
Indices: 19314107--19314157 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 18
19314097 AAAAATAAAA
19314107 AATAAAAAAAAG-AG--C
1 AATAAAAAAAAGAAGAAC
19314122 AATAAAAAAATAGAAGAAC
1 AATAAAAAAA-AGAAGAAC
*
19314141 AATAAGAAAAAGAAGAA
1 AATAAAAAAAAGAAGAA
19314158 GACATCCAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 10 0.32
16 2 0.06
17 2 0.06
18 7 0.23
19 10 0.32
ACGTcount: A:0.75, C:0.04, G:0.14, T:0.08
Consensus pattern (18 bp):
AATAAAAAAAAGAAGAAC
Found at i:19316560 original size:63 final size:64
Alignment explanation
Indices: 19316439--19316594 Score: 163
Period size: 63 Copynumber: 2.4 Consensus size: 64
19316429 GAATCGTAAA
* * * * * * * * *
19316439 TCAAAAAATTAAATAACCAAGATTGA-ATAGATGTTGAAAATGAGTGATTGAGATTGAATCACAA
1 TCAAAAAAATAAATGACCTAGATTGAGTTAG--GTCGAAAATGAGTGACTAAGACTGAATAACAA
19316503 G
64 G
* * *
19316504 TCAGAAAAA-AAATGACCTGGATTGAGTTAGGTCGAAAATGAGTGACTAAGACTGAATAACATG
1 TCAAAAAAATAAATGACCTAGATTGAGTTAGGTCGAAAATGAGTGACTAAGACTGAATAACAAG
*
19316567 TCAAAAAAATAAATGACTTAGATTGAGT
1 TCAAAAAAATAAATGACCTAGATTGAGT
19316595 CGAAGTTAAA
Statistics
Matches: 74, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
63 35 0.47
64 29 0.39
65 10 0.14
ACGTcount: A:0.46, C:0.09, G:0.20, T:0.25
Consensus pattern (64 bp):
TCAAAAAAATAAATGACCTAGATTGAGTTAGGTCGAAAATGAGTGACTAAGACTGAATAACAAG
Found at i:19317059 original size:17 final size:17
Alignment explanation
Indices: 19317037--19317080 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
19317027 GGTTTTCAGG
19317037 TTTGCAAGAATTCTAGT
1 TTTGCAAGAATTCTAGT
19317054 TTTGCAAGAATTCTAGT
1 TTTGCAAGAATTCTAGT
19317071 TTTGCAAGAA
1 TTTGCAAGAA
19317081 CTCAAAGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (17 bp):
TTTGCAAGAATTCTAGT
Found at i:19317557 original size:45 final size:45
Alignment explanation
Indices: 19317508--19317624 Score: 137
Period size: 45 Copynumber: 2.6 Consensus size: 45
19317498 ATTGATATCA
* *
19317508 AAAATTTCAAAAATTTACATT-AAAAAACTTTAACATTTGACAACC
1 AAAATTTCAAAAATTCACATTCAAAAAACTTTAACAATT-ACAACC
* * * * *
19317553 AAAATTTCAAAGATTCACATTCGAAAAATTTTAAGAATTATAACC
1 AAAATTTCAAAAATTCACATTCAAAAAACTTTAACAATTACAACC
* *
19317598 AAAATTTCAAAAATTCACCTTTAAAAA
1 AAAATTTCAAAAATTCACATTCAAAAA
19317625 TTTTTAGAGA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
45 47 0.78
46 13 0.22
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.31
Consensus pattern (45 bp):
AAAATTTCAAAAATTCACATTCAAAAAACTTTAACAATTACAACC
Found at i:19317586 original size:46 final size:43
Alignment explanation
Indices: 19317508--19317673 Score: 134
Period size: 45 Copynumber: 3.7 Consensus size: 43
19317498 ATTGATATCA
* * * *
19317508 AAAATTTCAAAAATTTACATTAAAAAACTTTAACATTTGACAACC
1 AAAATTTCAAAAATTCACATTGAAAAATTTTAAGA-TT-ACAACC
* *
19317553 AAAATTTCAAAGATTCACATTCGAAAAATTTTAAGAATTATAACC
1 AAAATTTCAAAAATTCACATT-GAAAAATTTTAAG-ATTACAACC
* * **
19317598 AAAATTTCAAAAATTCACCTTTAAAAATTTTTAGAGATTCACATTC
1 AAAATTTCAAAAATTCACATTGAAAAA-TTTTA-AGATT-ACAACC
* ** *
19317644 AAAGTTTCAATGATTCATATTCGAAAAATT
1 AAAATTTCAAAAATTCACATT-GAAAAATT
19317674 AGAGATTTAC
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
44 5 0.05
45 51 0.53
46 35 0.36
47 6 0.06
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (43 bp):
AAAATTTCAAAAATTCACATTGAAAAATTTTAAGATTACAACC
Found at i:19317707 original size:36 final size:36
Alignment explanation
Indices: 19317662--19317730 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
19317652 AATGATTCAT
* *
19317662 ATTCGAAAAATTAGAGATTTACATTCAAAGTTTTAC
1 ATTCAAAAAATTAGAGATTCACATTCAAAGTTTTAC
19317698 ATTCAAAAAATTAGAGATTCACATTCAAAGTTT
1 ATTCAAAAAATTAGAGATTCACATTCAAAGTTT
19317731 CAAAGGTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (36 bp):
ATTCAAAAAATTAGAGATTCACATTCAAAGTTTTAC
Found at i:19320611 original size:68 final size:68
Alignment explanation
Indices: 19320534--19320672 Score: 278
Period size: 68 Copynumber: 2.0 Consensus size: 68
19320524 AAACATACAA
19320534 AAATGTATATATAAATACATGTATGAAATATATAGTAACAACAAGAATTCATATTTAAAACTATG
1 AAATGTATATATAAATACATGTATGAAATATATAGTAACAACAAGAATTCATATTTAAAACTATG
19320599 TAC
66 TAC
19320602 AAATGTATATATAAATACATGTATGAAATATATAGTAACAACAAGAATTCATATTTAAAACTATG
1 AAATGTATATATAAATACATGTATGAAATATATAGTAACAACAAGAATTCATATTTAAAACTATG
19320667 TAC
66 TAC
19320670 AAA
1 AAA
19320673 ATTAAAATGG
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 71 1.00
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.32
Consensus pattern (68 bp):
AAATGTATATATAAATACATGTATGAAATATATAGTAACAACAAGAATTCATATTTAAAACTATG
TAC
Found at i:19320795 original size:133 final size:131
Alignment explanation
Indices: 19320614--19320866 Score: 307
Period size: 133 Copynumber: 1.9 Consensus size: 131
19320604 ATGTATATAT
* * * ** *
19320614 AAATACATGTATGAAATATATAGTAACAACAAGAATTCATATTTAAAACTATGTACAAAATT-AA
1 AAATACATGTATGAAATACATAGTAAAAACAAAAATTCATATCCAAAACTATGAACAAAATTGAA
* *
19320678 AATGGCAAAGATTTTC-CTAGATAAATGAAATAA-CATACATACAAAGATGTTTACATGAATTTA
66 AAT-GCAAAGATTTTCTC-AGACAAATGAAATAATC--ACATACAAAGATATTTACATGAATTTA
19320741 TATGG
127 TATGG
*
19320746 AAATACATGTA-GACAATACATAGATAAAAACAAAAATTCATATCCAAAACTATGAATAAAATTG
1 AAATACATGTATGA-AATACATAG-TAAAAACAAAAATTCATATCCAAAACTATGAACAAAATTG
* * * *
19320810 AGAATGCAAATATTTTCTCGGACAAATGAAATAATCACATATAAAGATATTTACATG
64 AAAATGCAAAGATTTTCTCAGACAAATGAAATAATCACATACAAAGATATTTACATG
19320867 GATGTATGTA
Statistics
Matches: 103, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
131 2 0.02
132 38 0.37
133 57 0.55
134 6 0.06
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.28
Consensus pattern (131 bp):
AAATACATGTATGAAATACATAGTAAAAACAAAAATTCATATCCAAAACTATGAACAAAATTGAA
AATGCAAAGATTTTCTCAGACAAATGAAATAATCACATACAAAGATATTTACATGAATTTATATG
G
Found at i:19322621 original size:25 final size:21
Alignment explanation
Indices: 19322593--19322645 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 21
19322583 AAAATATATT
19322593 TAAAAATAATAGATAATCAAATAAA
1 TAAAAATAATAG-T--T-AAATAAA
19322618 TAAATAA-AATAGTTAAATAAA
1 TAAA-AATAATAGTTAAATAAA
19322639 TAAAAAT
1 TAAAAAT
19322646 TAAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
20 2 0.08
21 11 0.42
22 1 0.04
24 1 0.04
25 9 0.35
26 2 0.08
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (21 bp):
TAAAAATAATAGTTAAATAAA
Found at i:19324579 original size:14 final size:15
Alignment explanation
Indices: 19324555--19324583 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19324545 TATAAAGATC
19324555 AAATAATAAAATGAT
1 AAATAATAAAATGAT
19324570 AAATAA-AAAATGAT
1 AAATAATAAAATGAT
19324584 TTTTTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (15 bp):
AAATAATAAAATGAT
Found at i:19328430 original size:25 final size:23
Alignment explanation
Indices: 19328402--19328453 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
19328392 TTAAAGAAAT
19328402 AAATTACTTCAAGATAAAAAAAAAA
1 AAATTACTT-AA-ATAAAAAAAAAA
* * *
19328427 AAATTTCTTGAATAAAAAAATAA
1 AAATTACTTAAATAAAAAAAAAA
19328450 AAAT
1 AAAT
19328454 GTTATATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 15 0.62
24 1 0.04
25 8 0.33
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.25
Consensus pattern (23 bp):
AAATTACTTAAATAAAAAAAAAA
Found at i:19329581 original size:42 final size:42
Alignment explanation
Indices: 19329489--19329571 Score: 112
Period size: 43 Copynumber: 2.0 Consensus size: 42
19329479 TTAAGACAAT
*
19329489 AATATTATTATATTATTTAACATTAATTATTAAAATAATAAA
1 AATATTATTATATTATTTAACATTAATCATTAAAATAATAAA
* ** *
19329531 AATATTATTATATTTTTTTATTATTTATCATTAAAATAATA
1 AATATTATTATA-TTATTTAACATTAATCATTAAAATAATA
19329572 TAGTATTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
42 12 0.34
43 23 0.66
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (42 bp):
AATATTATTATATTATTTAACATTAATCATTAAAATAATAAA
Found at i:19329957 original size:167 final size:167
Alignment explanation
Indices: 19329627--19329958 Score: 409
Period size: 167 Copynumber: 2.0 Consensus size: 167
19329617 ATATACAAAT
* * *
19329627 AAAATATTAAAAATTGAAATATCAAAAGACTTTTAATGTTAATATTTTAATTGTTTTAATTAAAA
1 AAAATATTAAAAATTAAAATATCAAAAGACTTTTAATATTAATATTTTAATTGTTTTAAGTAAAA
* * *
19329692 TTAAATAAAATTTTTTTATTAATATAATAATATTTCAAATTGAATCAAATCAAGTTCGAACTTAA
66 TTAAATAAAATTTATTTATCAATATAATAATATTTCAAATAGAATCAAATCAAGTTCGAACTTAA
* * *
19329757 CATAATATGTTCAAAGTTTTACTTGAATAAAATTACA
131 AATAATATGTGCAAAGTTTGACTTGAATAAAATTACA
* ** *
19329794 AAAATATTTAAAATTAAAATATTGAAAGATTTTTAATATTAATATTTTAATT-TTTTAAGTAAAA
1 AAAATATTAAAAATTAAAATATCAAAAGACTTTTAATATTAATATTTTAATTGTTTTAAGTAAAA
* * * * * **
19329858 TTAAATAAAATATTATTTATCAATATAATAATATTTTAGATCAG-GTCAAATTAAGTTTGAGTTT
66 TTAAATAAAAT-TTATTTATCAATATAATAATATTTCAAAT-AGAATCAAATCAAGTTCGAACTT
* * *
19329922 AAAAATATTATGTGCAAGGTTTGA-TTGAGTAAAATTA
129 -AAAATAATATGTGCAAAGTTTGACTTGAATAAAATTA
19329959 TTCTTAAAAC
Statistics
Matches: 139, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
166 22 0.16
167 98 0.71
168 19 0.14
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.42
Consensus pattern (167 bp):
AAAATATTAAAAATTAAAATATCAAAAGACTTTTAATATTAATATTTTAATTGTTTTAAGTAAAA
TTAAATAAAATTTATTTATCAATATAATAATATTTCAAATAGAATCAAATCAAGTTCGAACTTAA
AATAATATGTGCAAAGTTTGACTTGAATAAAATTACA
Found at i:19331609 original size:9 final size:10
Alignment explanation
Indices: 19331589--19331615 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
19331579 TTAAGTGCGT
19331589 AAAATTTAAA
1 AAAATTTAAA
19331599 AAAATTTAAA
1 AAAATTTAAA
19331609 AAAATTT
1 AAAATTT
19331616 TAATATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:19338897 original size:16 final size:16
Alignment explanation
Indices: 19338873--19338935 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
19338863 GATTTTTTTT
19338873 AGGACTTTGGATTTCA
1 AGGACTTTGGATTTCA
*
19338889 AGGATTTTGGATTTC-
1 AGGACTTTGGATTTCA
*
19338904 GGAGAGCTTTGGATTT-A
1 AG-GA-CTTTGGATTTCA
*
19338921 ATGGATTTTGGATTT
1 A-GGACTTTGGATTT
19338936 TTAGGGGTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
15 1 0.03
16 25 0.66
17 11 0.29
18 1 0.03
ACGTcount: A:0.22, C:0.06, G:0.29, T:0.43
Consensus pattern (16 bp):
AGGACTTTGGATTTCA
Found at i:19339469 original size:38 final size:38
Alignment explanation
Indices: 19339418--19339505 Score: 122
Period size: 38 Copynumber: 2.3 Consensus size: 38
19339408 GTCCGGGCGG
* * *
19339418 TCTGACCGGTTCGACGGTTGGATCGACAGTTCGAGCGA
1 TCTGACCGGTTCGACGGTCGGATCGACAGTCCGAGCCA
* *
19339456 TCTGACCGGTTCGACGGTCGGATCGACGGTCCGGGCCA
1 TCTGACCGGTTCGACGGTCGGATCGACAGTCCGAGCCA
*
19339494 TCTGATCGGTTC
1 TCTGACCGGTTC
19339506 AATCCGATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.15, C:0.27, G:0.34, T:0.24
Consensus pattern (38 bp):
TCTGACCGGTTCGACGGTCGGATCGACAGTCCGAGCCA
Found at i:19342782 original size:73 final size:73
Alignment explanation
Indices: 19342632--19342774 Score: 225
Period size: 73 Copynumber: 2.0 Consensus size: 73
19342622 AACGTTAACT
*
19342632 TTTTGAAAATTAATTAACATTCATATAAATAAAAATAATATAATAATTCAACGTACACATAGTGT
1 TTTTGAAAATTAATAAACATTCATATAAATAAAAATAATATAATAATTCAACGTACACATAGTGT
19342697 TATTAAAA
66 TATTAAAA
* * * * *
19342705 TTTTGAAAATTAATAAACATTCATATAAATATAAATTATATAATAATTTAATGTATACATAGTGT
1 TTTTGAAAATTAATAAACATTCATATAAATAAAAATAATATAATAATTCAACGTACACATAGTGT
19342770 T-TTAA
66 TATTAA
19342775 TGATTTTGGG
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
72 4 0.06
73 60 0.94
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (73 bp):
TTTTGAAAATTAATAAACATTCATATAAATAAAAATAATATAATAATTCAACGTACACATAGTGT
TATTAAAA
Found at i:19346596 original size:13 final size:13
Alignment explanation
Indices: 19346543--19346598 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
19346533 GGATAGTATG
19346543 AATAATTATAAAT
1 AATAATTATAAAT
**
19346556 AATAAATTATTGAT
1 AAT-AATTATAAAT
*
19346570 -ATAATTGT--AT
1 AATAATTATAAAT
19346580 AATAATTATAAAT
1 AATAATTATAAAT
19346593 AATAAT
1 AATAAT
19346599 ATTTTTAGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
10 2 0.06
11 7 0.20
12 5 0.14
13 13 0.37
14 8 0.23
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (13 bp):
AATAATTATAAAT
Found at i:19348206 original size:6 final size:6
Alignment explanation
Indices: 19348188--19348243 Score: 55
Period size: 6 Copynumber: 9.7 Consensus size: 6
19348178 TTAAAATTTT
* * *
19348188 TTTAT- TTTTTA TTTATA TTTATA TTTAGTA TTTATA TATATT TTTA-A
1 TTTATA TTTATA TTTATA TTTATA TTTA-TA TTTATA TTTATA TTTATA
19348235 TTTA-A TTTA
1 TTTATA TTTA
19348244 AATATATTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
5 13 0.30
6 24 0.56
7 6 0.14
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (6 bp):
TTTATA
Found at i:19348233 original size:19 final size:19
Alignment explanation
Indices: 19348197--19348233 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19348187 TTTTATTTTT
*
19348197 TATTTATATTTATATTTAG
1 TATTTATATATATATTTAG
*
19348216 TATTTATATATATTTTTA
1 TATTTATATATATATTTA
19348234 ATTTAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TATTTATATATATATTTAG
Found at i:19348237 original size:17 final size:17
Alignment explanation
Indices: 19348190--19348238 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 17
19348180 AAAATTTTTT
* *
19348190 TATTTTTTATTTATATT
1 TATTTTTAATTTATATA
*
19348207 TATATTTAGTATTTATATA
1 TATTTTTA--ATTTATATA
19348226 TATTTTTAATTTA
1 TATTTTTAATTTA
19348239 ATTTAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 11 0.42
19 15 0.58
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTTTTAATTTATATA
Found at i:19349957 original size:96 final size:96
Alignment explanation
Indices: 19349804--19349978 Score: 269
Period size: 96 Copynumber: 1.8 Consensus size: 96
19349794 AACCCAGCCT
* * * *
19349804 ATTGTTCACTTGGAGAAGGTGGAACCTAAGGCTATTATTATAAAGAGAGTCCTTGGGCAACCTAA
1 ATTGTTCACTTGGAGAAGGTGGAACCTAAGGATACTATTATAAAGAGAGTCCCTGGGCAACATAA
19349869 AATGAAGCTAAAAAAACTATTTACGTTACCC
66 AATGAAGCTAAAAAAACTATTTACGTTACCC
* * * * *
19349900 ATTGTTCATTTGGAGAAGGTGGAACCTAAGGATGCTATTATAAGGAGTGTCCCTGGGCAATATAA
1 ATTGTTCACTTGGAGAAGGTGGAACCTAAGGATACTATTATAAAGAGAGTCCCTGGGCAACATAA
19349965 AATGAAGCTAAAAA
66 AATGAAGCTAAAAA
19349979 TAAAAAATAA
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 70 1.00
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (96 bp):
ATTGTTCACTTGGAGAAGGTGGAACCTAAGGATACTATTATAAAGAGAGTCCCTGGGCAACATAA
AATGAAGCTAAAAAAACTATTTACGTTACCC
Found at i:19353023 original size:22 final size:20
Alignment explanation
Indices: 19352938--19353024 Score: 70
Period size: 20 Copynumber: 4.3 Consensus size: 20
19352928 CAATTATACG
* *
19352938 TTTTCCTTTATTTTTTTAT-
1 TTTTCTTTTCTTTTTTTATC
* *
19352957 TTTTATTTT-TATTTTTTTTC
1 TTTTCTTTTCT-TTTTTTATC
* *
19352977 TTTTCTTTTCTTTTTTCATT
1 TTTTCTTTTCTTTTTTTATC
*
19352997 TTTTCTATTTGTTTTTTTATC
1 TTTTCT-TTTCTTTTTTTATC
19353018 TCTTTCT
1 T-TTTCT
19353025 CAAGCAAAGT
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
18 1 0.02
19 14 0.26
20 20 0.38
21 13 0.25
22 5 0.09
ACGTcount: A:0.08, C:0.11, G:0.01, T:0.79
Consensus pattern (20 bp):
TTTTCTTTTCTTTTTTTATC
Found at i:19355161 original size:61 final size:58
Alignment explanation
Indices: 19355077--19355310 Score: 269
Period size: 59 Copynumber: 4.0 Consensus size: 58
19355067 CAAAGAATAT
* * * *
19355077 TTTTCAAAAAAAAAAATTTTAAGGAAAAGTTGAAAGTATAAATTTTCCTTGAAAATGAAA
1 TTTTC-AAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAA
*
19355137 TTTTCAAAAAAATATGTTTATAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAA
1 TTTTCAAAAAAATAT-TTT-TAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAA
* * *
19355197 ATTTCAAAGAAGAA-ATTTTTGAGAAAAAATTGAAAGTATCAATTTTCCTTGAAAATAAA
1 TTTTCAAA-AA-AATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAA
** * * *
19355256 -AAT--AAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTGAAAGTAAA
1 TTTTCAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAA
19355311 AAACTTAAAA
Statistics
Matches: 157, Mismatches: 12, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
54 2 0.01
55 44 0.28
56 2 0.01
58 1 0.01
59 45 0.29
60 21 0.13
61 40 0.25
62 2 0.01
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.33
Consensus pattern (58 bp):
TTTTCAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAA
Found at i:19355247 original size:59 final size:57
Alignment explanation
Indices: 19355084--19355355 Score: 298
Period size: 58 Copynumber: 4.7 Consensus size: 57
19355074 TATTTTTCAA
* * * *
19355084 AAAAAAAAATTTTAAGGAAAAGTTGAAAGTATAAATTTTCCTTGAAAATGAAATTTTC
1 AAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAATTTC
*
19355142 AAAAAAATATGTTTATAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTC
1 AAAAAAA-AT-TTT-TGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTC
* * *
19355202 AAAGAAGAAATTTTTGAGAAAAAATTGAAAGTATCAATTTTCCTTGAAAATAAAA-AT-
1 AAA-AA-AAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTC
* * * * *
19355259 AAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTGAAAGTAAAAAACTT-
1 AAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAA--ATAAAATTTC
* * * *
19355317 AAAATATATTTTTGAGGAAAAATTGAAAGTATTAATTTT
1 AAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
19355356 TCTGATATAA
Statistics
Matches: 189, Mismatches: 17, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
55 39 0.21
56 2 0.01
57 8 0.04
58 43 0.23
59 39 0.21
60 16 0.08
61 40 0.21
62 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.12, T:0.33
Consensus pattern (57 bp):
AAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTC
Found at i:19355257 original size:32 final size:32
Alignment explanation
Indices: 19355162--19355258 Score: 96
Period size: 32 Copynumber: 3.2 Consensus size: 32
19355152 GTTTATAAGG
*
19355162 AAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
1 AAAAATTGAAAGTATCAATTTTCCTTGAAAAT
* * ** * *
19355194 AAAATTTCAAAG-AAGAAATTT--TTG-AGA-
1 AAAAATTGAAAGTATCAATTTTCCTTGAAAAT
19355221 AAAAATTGAAAGTATCAATTTTCCTTGAAAAT
1 AAAAATTGAAAGTATCAATTTTCCTTGAAAAT
19355253 AAAAAT
1 AAAAAT
19355259 AAAAAATATT
Statistics
Matches: 48, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
27 10 0.21
28 8 0.17
29 3 0.06
30 3 0.06
31 8 0.17
32 16 0.33
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.32
Consensus pattern (32 bp):
AAAAATTGAAAGTATCAATTTTCCTTGAAAAT
Found at i:19355357 original size:114 final size:118
Alignment explanation
Indices: 19355093--19355355 Score: 315
Period size: 120 Copynumber: 2.3 Consensus size: 118
19355083 AAAAAAAAAA
* * * **
19355093 TTTTAAGGAAAAGTTGAAAGTATAAATTTTCCTTGAAAATGAAATTTTCAAAAAAATATGTTTAT
1 TTTTGAGGAAAAATTGAAAGTATTAATTTTCCTTGAAAATGAAATAAT-AAAAAAATATGTTTAT
* * * *
19355158 AAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCAAAGAAGAAAT
65 AAGAAAAAGTTAAAAGTATCAATTTTCCTTGAAAAAAAAACTT-AAAGAAGAAAT
* * *
19355213 TTTTGAGAAAAAATTGAAAGTATCAATTTTCCTTGAAAAT-AAA-AAT-AAAAAATAT-TTT-TG
1 TTTTGAGGAAAAATTGAAAGTATTAATTTTCCTTGAAAATGAAATAATAAAAAAATATGTTTATA
* *
19355273 AGAAAAAGTTAAAAGTATCAATTTTCCTTGAAAGTAAAAAACTT-AA-AATATAT
66 AGAAAAAGTTAAAAGTATCAATTTTCCTTGAAA--AAAAAACTTAAAGAAGAAAT
19355326 TTTTGAGGAAAAATTGAAAGTATTAATTTT
1 TTTTGAGGAAAAATTGAAAGTATTAATTTT
19355356 TCTGATATAA
Statistics
Matches: 126, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
113 33 0.26
114 34 0.27
115 3 0.02
116 16 0.13
118 1 0.01
119 3 0.02
120 36 0.29
ACGTcount: A:0.48, C:0.05, G:0.12, T:0.35
Consensus pattern (118 bp):
TTTTGAGGAAAAATTGAAAGTATTAATTTTCCTTGAAAATGAAATAATAAAAAAATATGTTTATA
AGAAAAAGTTAAAAGTATCAATTTTCCTTGAAAAAAAAACTTAAAGAAGAAAT
Found at i:19358356 original size:20 final size:19
Alignment explanation
Indices: 19358317--19358356 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
19358307 AGAGAAATGC
*
19358317 TAAGATTTCTTTTATGTCA
1 TAAGATTTCTTTTATATCA
*
19358336 TAAGATTTCATTTTTTATCA
1 TAAGATTTC-TTTTATATCA
19358356 T
1 T
19358357 TTTAATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.28, C:0.10, G:0.07, T:0.55
Consensus pattern (19 bp):
TAAGATTTCTTTTATATCA
Found at i:19358846 original size:5 final size:5
Alignment explanation
Indices: 19358826--19358875 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
19358816 AGTCTTAAAT
* * *
19358826 AGAAA AAAAA AG-AA AGAAA AGCAAA A-AAA AAAAA AAAAA AGAAA AGAAA
1 AGAAA AGAAA AGAAA AGAAA AG-AAA AGAAA AGAAA AGAAA AGAAA AGAAA
19358875 A
1 A
19358876 ATGAATGCCA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
4 8 0.21
5 27 0.69
6 4 0.10
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:19358866 original size:25 final size:24
Alignment explanation
Indices: 19358828--19358876 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
19358818 TCTTAAATAG
*
19358828 AAAAAAAAAGAAAGAAAAGCAAAAA
1 AAAAAAAAAAAAAGAAAAG-AAAAA
19358853 AAAAAAAAAAAAAGAAAAGAAAAA
1 AAAAAAAAAAAAAGAAAAGAAAAA
19358877 TGAATGCCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.88, C:0.02, G:0.10, T:0.00
Consensus pattern (24 bp):
AAAAAAAAAAAAAGAAAAGAAAAA
Found at i:19359264 original size:8 final size:8
Alignment explanation
Indices: 19359251--19359353 Score: 50
Period size: 8 Copynumber: 12.6 Consensus size: 8
19359241 ATAAAAGAAA
19359251 GAAAAAGAG
1 GAAAAA-AG
*
19359260 GAAAAAAA
1 GAAAAAAG
19359268 GAAAAAAG
1 GAAAAAAG
*
19359276 GAAAAAAAA
1 G-AAAAAAG
* *
19359285 GAGAAAAT
1 GAAAAAAG
*
19359293 GAAAGAATAA
1 GAAA-AA-AG
19359303 G-AAAAAG
1 GAAAAAAG
*
19359310 GAAAAAAT
1 GAAAAAAG
*
19359318 G-AAAAAT
1 GAAAAAAG
*
19359325 G-AAAAAT
1 GAAAAAAG
*
19359332 GAAAATAG
1 GAAAAAAG
*
19359340 AGAGAAAAG
1 -GAAAAAAG
19359349 GAAAA
1 GAAAA
19359354 CTTAAATTTA
Statistics
Matches: 74, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
7 16 0.22
8 33 0.45
9 23 0.31
10 2 0.03
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.06
Consensus pattern (8 bp):
GAAAAAAG
Found at i:19359270 original size:17 final size:16
Alignment explanation
Indices: 19359243--19359323 Score: 83
Period size: 17 Copynumber: 4.8 Consensus size: 16
19359233 GTGAAAGAAT
19359243 AAAAGAAAGAAAAAGAGG
1 AAAA-AAAGAAAAA-AGG
19359261 AAAAAAAGAAAAAAGG
1 AAAAAAAGAAAAAAGG
* *
19359277 AAAAAAAAGAGAAAATG
1 -AAAAAAAGAAAAAAGG
19359294 AAAGAATAAG-AAAAAGG
1 AAA-AA-AAGAAAAAAGG
*
19359311 AAAAAATGAAAAA
1 AAAAAAAGAAAAA
19359324 TGAAAAATGA
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
15 2 0.04
16 12 0.22
17 33 0.61
18 7 0.13
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.04
Consensus pattern (16 bp):
AAAAAAAGAAAAAAGG
Found at i:19359337 original size:6 final size:7
Alignment explanation
Indices: 19359288--19359336 Score: 53
Period size: 7 Copynumber: 6.4 Consensus size: 7
19359278 AAAAAAAGAG
19359288 AAAATGA
1 AAAATGA
19359295 AAGAATAAGA
1 AA-AAT--GA
*
19359305 AAAAGGAA
1 AAAATG-A
19359313 AAAATGA
1 AAAATGA
19359320 AAAATGA
1 AAAATGA
19359327 AAAATGA
1 AAAATGA
19359334 AAA
1 AAA
19359337 TAGAGAGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
7 21 0.58
8 9 0.25
9 2 0.06
10 4 0.11
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.10
Consensus pattern (7 bp):
AAAATGA
Found at i:19360715 original size:51 final size:50
Alignment explanation
Indices: 19360642--19360758 Score: 119
Period size: 51 Copynumber: 2.3 Consensus size: 50
19360632 GAAAATCTTT
* * * ** *
19360642 AATTTTTTCGAATCTCCGATTCTTGTGAATATGAAGATATT-GTGAATTTCC
1 AATTTTTGCGAATCTCCAATTCTAGCAAATATGAA-A-ATTAGTGAATCTCC
* *
19360693 AATTTTTGCGAATCTCTAATTCTAGCAAATCTGAAAATTAGGTGAATCTCC
1 AATTTTTGCGAATCTCCAATTCTAGCAAATATGAAAATTA-GTGAATCTCC
*
19360744 AATTTTTGTGAATCT
1 AATTTTTGCGAATCT
19360759 GAAAATTTTC
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
49 3 0.05
50 1 0.02
51 51 0.93
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (50 bp):
AATTTTTGCGAATCTCCAATTCTAGCAAATATGAAAATTAGTGAATCTCC
Found at i:19360767 original size:17 final size:17
Alignment explanation
Indices: 19360720--19360767 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
19360710 AATTCTAGCA
**
19360720 AATCTGAAAATTAGGTG
1 AATCTGAAAATTTTGTG
** *
19360737 AATCTCCAATTTTTGTG
1 AATCTGAAAATTTTGTG
19360754 AATCTGAAAATTTT
1 AATCTGAAAATTTT
19360768 CTAAACCTTG
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (17 bp):
AATCTGAAAATTTTGTG
Found at i:19361097 original size:86 final size:86
Alignment explanation
Indices: 19360941--19361556 Score: 524
Period size: 86 Copynumber: 7.2 Consensus size: 86
19360931 TCATGACTTT
* * * * * * **
19360941 GGCTTAGTCCAAGTTAGTCGTTTCAAACTTCGGTTCAATCCAGGTCATTTTATTTTCAGATTTTG
1 GGCTTAGTCCAAGTCATTCATTTCAGACTTCAGTTCAATCTAGGTCATTTTATTTTCAGATTTCA
*
19361006 GCATATGCCAAATCTTTTTTC
66 GCATATGCCAAATCCTTTTTC
** * *
19361027 GGCTTAGTCCAAGTCATTCATTTCAGACTTCAGTTCAATCTATATCATTTTATTTTTAAATTTCA
1 GGCTTAGTCCAAGTCATTCATTTCAGACTTCAGTTCAATCTAGGTCATTTTATTTTCAGATTTCA
* *
19361092 ACATATGCCAAATCCTTCTTC
66 GCATATGCCAAATCCTTTTTC
* * *
19361113 AGCTTAGTCCAAGTCATTTATTTCAGACTTC-GATTAAATCTAGGTCATTTTATTTTC-GAATTT
1 GGCTTAGTCCAAGTCATTCATTTCAGACTTCAG-TTCAATCTAGGTCATTTTATTTTCAG-ATTT
19361176 C-GACATATGCCAAATCCTTTTTC
64 CAG-CATATGCCAAATCCTTTTTC
* ** * * **
19361199 GGCTTAGTCCAAGTCATTCATTTTAGACTTTGGTGCAATCAAGGTCATTTTATTTTTGGATTTCA
1 GGCTTAGTCCAAGTCATTCATTTCAGACTTCAGTTCAATCTAGGTCATTTTATTTTCAGATTTCA
* *
19361264 GCATATGCCAGATCCCTTTTC
66 GCATATGCCAAATCCTTTTTC
* * * ** * * ** *
19361285 AGCTTAGTCTAACTCATTTGTTTTAGACTTTAGTTCAAT-TCAGGTCATTCTGCTTTTGA-ATTT
1 GGCTTAGTCCAAGTCATTCATTTCAGACTTCAGTTCAATCT-AGGTCATT-TTATTTTCAGATTT
* * * *
19361348 -TGACATATGCTAGATCCTTTTTT
64 CAG-CATATGCCAAATCCTTTTTC
* * * * * * *
19361371 GACTTAGTCTAAGTAATTCGTTTTAGACTTTAGTTCAATCTAGGTCATTTTGTTTTCAGATTTCA
1 GGCTTAGTCCAAGTCATTCATTTCAGACTTCAGTTCAATCTAGGTCATTTTATTTTCAGATTTCA
* * *
19361436 GCATATGTCAGATCCTTCTTC
66 GCATATGCCAAATCCTTTTTC
* * ** * * * * * * *
19361457 AGTTTAGTATAAATTATTCATTTCAGGCTTCGGTTCAGTCTAAGTCATTTTGTTTTCAGATTTCA
1 GGCTTAGTCCAAGTCATTCATTTCAGACTTCAGTTCAATCTAGGTCATTTTATTTTCAGATTTCA
* * **
19361522 GCATATGCTAGATCCTCCTTC
66 GCATATGCCAAATCCTTTTTC
* *
19361543 GGTTTAGTCTAAGT
1 GGCTTAGTCCAAGT
19361557 TAATTAAGTC
Statistics
Matches: 436, Mismatches: 82, Indels: 24
0.80 0.15 0.04
Matches are distributed among these distances:
85 8 0.02
86 418 0.96
87 10 0.02
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.43
Consensus pattern (86 bp):
GGCTTAGTCCAAGTCATTCATTTCAGACTTCAGTTCAATCTAGGTCATTTTATTTTCAGATTTCA
GCATATGCCAAATCCTTTTTC
Found at i:19361552 original size:172 final size:172
Alignment explanation
Indices: 19360961--19361605 Score: 629
Period size: 172 Copynumber: 3.8 Consensus size: 172
19360951 AAGTTAGTCG
* * * * *
19360961 TTTCAAACTTCGGTTCAATCCAGGTCATTTTATTTTCAGATTTTGGCATATGCCAAATCTTTTTT
1 TTTCAGACTTCGGTTCAATCTAGGTCATTTTATTTTCAGATTTCGACATATGCCAAATCCTTTTT
* * ** *
19361026 CGGCTTAGTCCAAGTCATTCATTTCAGACTTCAGTTCAATCTATATCATTTTATTTTTAAATTTC
66 CGGCTTAGTCCAAGTAATTCATTTCAGACTTTAGTTCAATCTAGGTCATTTTATTTTTAGATTTC
* * * *
19361091 AACATATGCCAAATCCTTCTTCAGCTTAGTCCAAGTCATTTA
131 AGCATATGCCAGATCCTTCTTCAGCTTAGTCTAAATCATTTA
* *
19361133 TTTCAGACTTCGATTAAATCTAGGTCATTTTATTTTC-GAATTTCGACATATGCCAAATCCTTTT
1 TTTCAGACTTCGGTTCAATCTAGGTCATTTTATTTTCAG-ATTTCGACATATGCCAAATCCTTTT
* * * * * *
19361197 TCGGCTTAGTCCAAGTCATTCATTTTAGACTTTGGTGCAATCAAGGTCATTTTATTTTTGGATTT
65 TCGGCTTAGTCCAAGTAATTCATTTCAGACTTTAGTTCAATCTAGGTCATTTTATTTTTAGATTT
* *
19361262 CAGCATATGCCAGATCCCTT-TTCAGCTTAGTCTAACTCATTTG
130 CAGCATATGCCAGAT-CCTTCTTCAGCTTAGTCTAAATCATTTA
* ** ** * * * *
19361305 TTTTAGACTTTAGTTCAAT-TCAGGTCATTCTGCTTTTGA-ATTTTGACATATGCTAGATCCTTT
1 TTTCAGACTTCGGTTCAATCT-AGGTCATT-TTATTTTCAGATTTCGACATATGCCAAATCCTTT
* * * * * * *
19361368 TTTGACTTAGTCTAAGTAATTCGTTTTAGACTTTAGTTCAATCTAGGTCATTTTGTTTTCAGATT
64 TTCGGCTTAGTCCAAGTAATTCATTTCAGACTTTAGTTCAATCTAGGTCATTTTATTTTTAGATT
* * * * *
19361433 TCAGCATATGTCAGATCCTTCTTCAGTTTAGTATAAATTATTCA
129 TCAGCATATGCCAGATCCTTCTTCAGCTTAGTCTAAATCATTTA
* * * * * * **
19361477 TTTCAGGCTTCGGTTCAGTCTAAGTCATTTTGTTTTCAGATTTC-AGCATATGCTAGATCCTCCT
1 TTTCAGACTTCGGTTCAATCTAGGTCATTTTATTTTCAGATTTCGA-CATATGCCAAATCCTTTT
* * ** * * * * *
19361541 TCGGTTTAGTCTAAGTTAATT-AAGTCAGACTTTGGTTCCATCCAAGTCATTTT-GTTTTAGATT
65 TCGGCTTAGTCCAAG-TAATTCATTTCAGACTTTAGTTCAATCTAGGTCATTTTATTTTTAGATT
19361604 TC
129 TC
19361606 GATCTATGCT
Statistics
Matches: 388, Mismatches: 75, Indels: 21
0.80 0.15 0.04
Matches are distributed among these distances:
171 23 0.06
172 350 0.90
173 15 0.04
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.44
Consensus pattern (172 bp):
TTTCAGACTTCGGTTCAATCTAGGTCATTTTATTTTCAGATTTCGACATATGCCAAATCCTTTTT
CGGCTTAGTCCAAGTAATTCATTTCAGACTTTAGTTCAATCTAGGTCATTTTATTTTTAGATTTC
AGCATATGCCAGATCCTTCTTCAGCTTAGTCTAAATCATTTA
Found at i:19361578 original size:86 final size:86
Alignment explanation
Indices: 19361351--19361854 Score: 359
Period size: 86 Copynumber: 5.9 Consensus size: 86
19361341 TGAATTTTGA
* * ** * * * * * *
19361351 CATATGCTAGATCCTTTTTTGACTTAGTCTAAG-TAATT-CGTTTTAGACTTTAGTTCAATCTAG
1 CATATGCTAGATCCTTCTTCGGTTTAGTCTAAGTTAATTAAG--TCAGACTTTGGTTCCATCCAA
19361414 GTCATTTTGTTTTCAGATTTCAG
64 GTCATTTTGTTTTCAGATTTCAG
* * * ** * * *
19361437 CATATG-TCAGATCCTTCTTCAGTTTAGTATAAATT-ATTCATTTCAGGCTTCGGTT-CAGTCTA
1 CATATGCT-AGATCCTTCTTCGGTTTAGTCTAAGTTAATT-AAGTCAGACTTTGGTTCCA-TCCA
19361499 AGTCATTTTGTTTTCAGATTTCAG
63 AGTCATTTTGTTTTCAGATTTCAG
*
19361523 CATATGCTAGATCCTCCTTCGGTTTAGTCTAAGTTAATTAAGTCAGACTTTGGTTCCATCCAAGT
1 CATATGCTAGATCCTTCTTCGGTTTAGTCTAAGTTAATTAAGTCAGACTTTGGTTCCATCCAAGT
*
19361588 CATTTTGTTTT-AGATTTCGAT
66 CATTTTGTTTTCAGATTTC-AG
* * * **
19361609 C-TATGCTAGATCTTTTTTCGATTTAACCTAAGTTAATTAAGTCAGACTTTGGTTCCATCCAAGT
1 CATATGCTAGATCCTTCTTCGGTTTAGTCTAAGTTAATTAAGTCAGACTTTGGTTCCATCCAAGT
* *
19361673 CATTTTGTTTT-GGATTT-TG
66 CATTTTGTTTTCAGATTTCAG
* * ** * * * **
19361692 ACCTATGCCAGATTGTTCTTCAGTTTAGT-TCAAATTAATTAAGTCAAACTTTAATTCCATCC-A
1 -CATATGCTAGATCCTTCTTCGGTTTAGTCT-AAGTTAATTAAGTCAGACTTTGGTTCCATCCAA
* * *
19361755 GATCACTTTTGTTCT-GGATTTTAG
64 G-TCA-TTTTGTTTTCAGATTTCAG
* * * * * ** *** * *
19361779 CTTATGCTAGAGCC-TCTTTCGATTCAGTCAAAGTTAATTATTTTTTATTTTGGTTCCATCCAGG
1 CATATGCTAGATCCTTC-TTCGGTTTAGTCTAAGTTAATTAAGTCAGACTTTGGTTCCATCCAAG
19361843 TCATTTTGTTTT
65 TCATTTTGTTTT
19361855 GGACTTTGGC
Statistics
Matches: 332, Mismatches: 68, Indels: 37
0.76 0.16 0.08
Matches are distributed among these distances:
84 4 0.01
85 140 0.42
86 179 0.54
87 9 0.03
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.45
Consensus pattern (86 bp):
CATATGCTAGATCCTTCTTCGGTTTAGTCTAAGTTAATTAAGTCAGACTTTGGTTCCATCCAAGT
CATTTTGTTTTCAGATTTCAG
Found at i:19361640 original size:85 final size:84
Alignment explanation
Indices: 19361498--19361945 Score: 334
Period size: 85 Copynumber: 5.2 Consensus size: 84
19361488 GGTTCAGTCT
* * * * ** *
19361498 AAGTCATTTTGTTTTCAGATTTCAGCATATGCTAGATCCTCCTTCGGTTT-AGTCTAAGTTAATT
1 AAGTCATTTTGTTTT-GGATTTGA-CCTATGCTAGATCTTTTTTCGATTTAAG-CTAAGTTAATT
19361562 AAGTCAGACTTTGGTTCCATCC
63 AAGTCAGACTTTGGTTCCATCC
* * *
19361584 AAGTCATTTTGTTTTAGATTTCGATCTATGCTAGATCTTTTTTCGATTTAACCTAAGTTAATTAA
1 AAGTCATTTTGTTTTGGATTT-GACCTATGCTAGATCTTTTTTCGATTTAAGCTAAGTTAATTAA
19361649 GTCAGACTTTGGTTCCATCC
65 GTCAGACTTTGGTTCCATCC
* * * *
19361669 AAGTCATTTTGTTTTGGATTTTGACCTATGCCAGAT-TGTTCTTC-AGTTT-AGTTCAAATTAAT
1 AAGTCATTTTGTTTTGGA-TTTGACCTATGCTAGATCT-TTTTTCGA-TTTAAGCT-AAGTTAAT
* **
19361731 TAAGTCAAACTTTAATTCCATCC
62 TAAGTCAGACTTTGGTTCCATCC
* * * * * * * *
19361754 -AGATCACTTTTGTTCTGGATTTTAGCTTATGCTAGAGCCTCTTTCGA-TTCAGTCAAAGTTAAT
1 AAG-TCA-TTTTGTTTTGGATTTGA-CCTATGCTAGATCTTTTTTCGATTTAAG-CTAAGTTAAT
** *** *
19361817 TATTTTTTATTTTGGTTCCATCC
62 TAAGTCAGACTTTGGTTCCATCC
* * * * * * *
19361840 AGGTCATTTTGTTTTGGACTTTGGCCTACGCCAGATCTTTTTTCGATTT-AGTTCAGGTTATTTA
1 AAGTCATTTTGTTTTGGA-TTTGACCTATGCTAGATCTTTTTTCGATTTAAGCT-AAGTTAATTA
** **
19361904 TTTCAGACTTCAGTTCCATCC
64 AGTCAGACTTTGGTTCCATCC
*
19361925 AAGTCAGTTTGTTTTGGATTT
1 AAGTCATTTTGTTTTGGATTT
19361946 TGATTCTTTT
Statistics
Matches: 286, Mismatches: 59, Indels: 36
0.75 0.15 0.09
Matches are distributed among these distances:
84 9 0.03
85 199 0.70
86 76 0.27
87 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.16, T:0.44
Consensus pattern (84 bp):
AAGTCATTTTGTTTTGGATTTGACCTATGCTAGATCTTTTTTCGATTTAAGCTAAGTTAATTAAG
TCAGACTTTGGTTCCATCC
Found at i:19361767 original size:171 final size:170
Alignment explanation
Indices: 19361539--19361875 Score: 383
Period size: 171 Copynumber: 2.0 Consensus size: 170
19361529 CTAGATCCTC
* * * ** *
19361539 CTTCGGTTTAGTCTAAGTTAATTAAGTCAGACTTTGGTTCCATCCAAGTCATTTTGTTTTAGATT
1 CTTCAGTTTAGTCTAAATTAATTAAGTCAAACTTTAATTCCATCCAAGTCATTTTGTTCTAGATT
* * * * * *
19361604 TCGATC-TATGCTAGATCTTTTTTCGATTTAACCTAAGTTAATTAAGTCAGACTTTGGTTCCATC
66 T-GAGCTTATGCTAGAGCCTCTTTCGATTCAACCAAAGTTAATTAAGTCAGACTTTGGTTCCATC
* *
19361668 CAAGTCATTTTGTTTTGGATTTTGACCTATGCCAGATTGTT
130 CAAGTCATTTTGTTTTGGACTTTGACCTACGCCAGATTGTT
*
19361709 CTTCAGTTTAGT-TCAAATTAATTAAGTCAAACTTTAATTCCATCC-AGATCACTTTTGTTCTGG
1 CTTCAGTTTAGTCT-AAATTAATTAAGTCAAACTTTAATTCCATCCAAG-TCA-TTTTGTTCTAG
* ** ** *** *
19361772 ATTTTAGCTTATGCTAGAGCCTCTTTCGATTCAGTCAAAGTTAATTATTTTTTATTTTGGTTCCA
63 ATTTGAGCTTATGCTAGAGCCTCTTTCGATTCAACCAAAGTTAATTAAGTCAGACTTTGGTTCCA
* *
19361837 TCCAGGTCATTTTGTTTTGGACTTTGGCCTACGCCAGAT
128 TCCAAGTCATTTTGTTTTGGACTTTGACCTACGCCAGAT
19361876 CTTTTTTCGA
Statistics
Matches: 137, Mismatches: 26, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
169 3 0.02
170 43 0.31
171 91 0.66
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.44
Consensus pattern (170 bp):
CTTCAGTTTAGTCTAAATTAATTAAGTCAAACTTTAATTCCATCCAAGTCATTTTGTTCTAGATT
TGAGCTTATGCTAGAGCCTCTTTCGATTCAACCAAAGTTAATTAAGTCAGACTTTGGTTCCATCC
AAGTCATTTTGTTTTGGACTTTGACCTACGCCAGATTGTT
Found at i:19364172 original size:59 final size:56
Alignment explanation
Indices: 19364033--19364349 Score: 370
Period size: 57 Copynumber: 5.5 Consensus size: 56
19364023 AAAAAATTTA
* * * *
19364033 AGGAAAAGTGGAAAGTGTCAATTTTCTTTGAAAATGAAATTTTTAAAAAATATTTTTATG
1 AGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAA-ATTTAAAAAATA-TTTT-TG
*
19364093 AGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAACAAAATTTCAAAGAAGATATTTTTG
1 AGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTT-AAA-AA-ATATTTTTG
* * *
19364152 AGGAAAAATTGAAAGTATCAATTTTCCTTGAAAATAAAA-GTAAAAAACATTTTTG
1 AGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTAAAAAATATTTTTG
** * *
19364207 AACAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTCAAAACATATTTTTG
1 AGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTT-AAAAAATATTTTTG
* *
19364264 AGGAAAAGTTGAAA-TATCAATTTTCCTT-AAAAGTAAAAAACTTAAAAAATATTTTTA
1 AGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAA-T--AAAATTTAAAAAATATTTTTG
* *
19364321 AGGAAAAATCGAAAGTATCAATTTTCCTT
1 AGGAAAAGTTGAAAGTATCAATTTTCCTT
19364350 ATATAAAGGA
Statistics
Matches: 224, Mismatches: 24, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
55 47 0.21
56 17 0.08
57 51 0.23
58 24 0.11
59 45 0.20
60 37 0.17
61 3 0.01
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.34
Consensus pattern (56 bp):
AGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTAAAAAATATTTTTG
Found at i:19376429 original size:11 final size:11
Alignment explanation
Indices: 19376359--19376433 Score: 57
Period size: 11 Copynumber: 6.9 Consensus size: 11
19376349 GGATATTAAA
19376359 ATTTTT-TTAT
1 ATTTTTATTAT
*
19376369 -TTTTTGTTTAT
1 ATTTTT-ATTAT
*
19376380 ATTTTTATTAA
1 ATTTTTATTAT
* *
19376391 ATATTTATATCT
1 ATTTTTAT-TAT
*
19376403 ATTTTAATT-T
1 ATTTTTATTAT
*
19376413 AATTTTATTAT
1 ATTTTTATTAT
19376424 ATTTTTATTA
1 ATTTTTATTA
19376434 CATTATCTAT
Statistics
Matches: 50, Mismatches: 10, Indels: 9
0.72 0.14 0.13
Matches are distributed among these distances:
9 5 0.10
10 8 0.16
11 25 0.50
12 12 0.24
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (11 bp):
ATTTTTATTAT
Found at i:19382098 original size:18 final size:18
Alignment explanation
Indices: 19382071--19382112 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
19382061 TGGTTGAAGC
19382071 CAAC-ACCGATGTTACAG
1 CAACTACCGATGTTACAG
*
19382088 CAACTACCGATGTTGCAG
1 CAACTACCGATGTTACAG
19382106 CAACTAC
1 CAACTAC
19382113 TAATGTTGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.33, C:0.31, G:0.17, T:0.19
Consensus pattern (18 bp):
CAACTACCGATGTTACAG
Found at i:19382118 original size:18 final size:18
Alignment explanation
Indices: 19382079--19382120 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
19382069 GCCAACACCG
* *
19382079 ATGTTACAGCAACTACCG
1 ATGTTGCAGCAACTACCA
*
19382097 ATGTTGCAGCAACTACTA
1 ATGTTGCAGCAACTACCA
19382115 ATGTTG
1 ATGTTG
19382121 ACCCAACGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (18 bp):
ATGTTGCAGCAACTACCA
Found at i:19389112 original size:17 final size:17
Alignment explanation
Indices: 19389092--19389135 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
19389082 CAAGATTGAA
*
19389092 AGCAATCCCATCAATTC
1 AGCAATCCAATCAATTC
19389109 AGCAATCCAATCAATTC
1 AGCAATCCAATCAATTC
19389126 AGCAATCCAA
1 AGCAATCCAA
19389136 AAAAAAGCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.41, C:0.32, G:0.07, T:0.20
Consensus pattern (17 bp):
AGCAATCCAATCAATTC
Found at i:19396056 original size:81 final size:82
Alignment explanation
Indices: 19395959--19396123 Score: 296
Period size: 82 Copynumber: 2.0 Consensus size: 82
19395949 TTTGGCTACG
*
19395959 GTGATAGCTTAACCTTTACTTTTCTTAATTTTGTTTTAAT-ATTAAGTCTCTTTTACATTTGCAT
1 GTGATAGCTTAACCTTTACTTTTCTTAACTTTGTTTTAATAATTAAGTCTCTTTTACATTTGCAT
19396023 AATCTCTCTTTTATTTA
66 AATCTCTCTTTTATTTA
* *
19396040 GTGATAGCTTAACCTTTACTTTTGTTAACTTTGTTTTAATAATTAAGTCTCTTTTACATTTGTAT
1 GTGATAGCTTAACCTTTACTTTTCTTAACTTTGTTTTAATAATTAAGTCTCTTTTACATTTGCAT
19396105 AATCTCTCTTTTATTTA
66 AATCTCTCTTTTATTTA
19396122 GT
1 GT
19396124 TTAATGCAAG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
81 38 0.47
82 42 0.52
ACGTcount: A:0.24, C:0.14, G:0.08, T:0.54
Consensus pattern (82 bp):
GTGATAGCTTAACCTTTACTTTTCTTAACTTTGTTTTAATAATTAAGTCTCTTTTACATTTGCAT
AATCTCTCTTTTATTTA
Found at i:19399068 original size:216 final size:215
Alignment explanation
Indices: 19398664--19399077 Score: 534
Period size: 216 Copynumber: 1.9 Consensus size: 215
19398654 GCGTATTTTT
* * **
19398664 TTGGCTTGGAATCTATTTGAAAGGTCACCAAATTGAACCAAGAGATTTTGGCATTTGAGGTAACA
1 TTGGCTTGGAATCTATTTGAAAGATCACCAAATTGAACCAAGAGATTTTGACATTCAAGGTAACA
* * * *
19398729 TCTTTAGCCAAAACTATGCATACTTGTATATATATATGTTGTTTGTATACTCTTATTGATTAATA
66 CCTTTAGCCAAAACTATGCATACTTG-ATATATATATGTTGTTTGTAAAATCCTATTGATTAATA
* * *
19398794 TTAGCTTTAAGGAACTAAAATTTTTAAAAGTTTCATTGCTTTAACTCTATTCATACAT-AGTTCC
130 TTAGCTTTAAGGAACTAAAATTTTTAAAAATTTCACTACTTTAACTCTATTCATACATAAGTTCC
19398858 TTTCAAACACTTGGCAACTTC
195 TTTCAAACACTTGGCAACTTC
* *
19398879 TTGGCTTGGAATCTATTTGGAAGATCACCAAATTGAAGCAAGCA-ATTTTTGACATTCAAGGTAA
1 TTGGCTTGGAATCTATTTGAAAGATCACCAAATTGAACCAAG-AGA-TTTTGACATTCAAGGTAA
*
19398943 CACCTTTAGCCAAAACTATGCATGCTTG-TATATATATGTTGTTTGTAAAATCCTATTGATTGAA
64 CACCTTTAGCCAAAACTATGCATACTTGATATATATATGTTGTTTGTAAAATCCTATTGATT-AA
* * * * *
19399007 CT-TT-GTTTTAGGGAATTAAAA-TTTTAAAAATTTCACTATTTTAACTCTGATAATGATACATA
128 -TATTAGCTTTAAGGAACTAAAATTTTTAAAAATTTCACTACTTTAACTCT-AT--TCATACATA
*
19399069 ATTTCCTTT
189 AGTTCCTTT
19399078 AATTAGTATC
Statistics
Matches: 171, Mismatches: 20, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
213 23 0.13
214 46 0.27
215 44 0.26
216 50 0.29
217 8 0.05
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (215 bp):
TTGGCTTGGAATCTATTTGAAAGATCACCAAATTGAACCAAGAGATTTTGACATTCAAGGTAACA
CCTTTAGCCAAAACTATGCATACTTGATATATATATGTTGTTTGTAAAATCCTATTGATTAATAT
TAGCTTTAAGGAACTAAAATTTTTAAAAATTTCACTACTTTAACTCTATTCATACATAAGTTCCT
TTCAAACACTTGGCAACTTC
Found at i:19403762 original size:14 final size:15
Alignment explanation
Indices: 19403721--19403761 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
19403711 TTGGATTTTA
* *
19403721 TTATTCTTATTTTAT
1 TTATTTTTATTTTGT
19403736 TTA-TTTTATTTTGT
1 TTATTTTTATTTTGT
19403750 TTATTTTTATTT
1 TTATTTTTATTT
19403762 GCTCTTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.78
Consensus pattern (15 bp):
TTATTTTTATTTTGT
Found at i:19409062 original size:22 final size:23
Alignment explanation
Indices: 19409023--19409065 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
19409013 GAACCTGGCA
19409023 AATCTTTGAATTTTCAAGTTGTG
1 AATCTTTGAATTTTCAAGTTGTG
*
19409046 AATCTTTGGA-TTTCAAGTTG
1 AATCTTTGAATTTTCAAGTTG
19409066 AAATCCCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.47
Consensus pattern (23 bp):
AATCTTTGAATTTTCAAGTTGTG
Found at i:19409219 original size:64 final size:63
Alignment explanation
Indices: 19409082--19409310 Score: 201
Period size: 64 Copynumber: 3.6 Consensus size: 63
19409072 CAATCACTTG
* * * * * * * *
19409082 TTTTGATCTTGGCTCAATCCAAATCATTTTATTTTCAGACCTGTGGTTCAATCTCAGTCAGTCG
1 TTTTGATCTTGACTCAGTCTAAATCATTTTATTTTCAAACTTATGGTTCAATCTC-GTCACTCA
** * * *
19409146 TTTCAATCTTGACTCAGTCTAAATCATTTTGTTTTCAAACTTACGATTCAATCTTCGTCACTCA
1 TTTTGATCTTGACTCAGTCTAAATCATTTTATTTTCAAACTTATGGTTCAATC-TCGTCACTCA
* * * *
19409210 TTTTGATCTTAGA-TCGGTCTAGATCATTTTATTTTTCTAACTCATGGTTCAATCTCGATCACTC
1 TTTTGATCTT-GACTCAGTCTAAATCATTTTA-TTTTCAAACTTATGGTTCAATCTCG-TCACTC
19409274 A
63 A
* * *
19409275 GTTTTGATCTT-ATCTTAGTTTAAATCAATTTATTTT
1 -TTTTGATCTTGA-CTCAGTCTAAATCATTTTATTTT
19409311 TTTAACTTGC
Statistics
Matches: 131, Mismatches: 27, Indels: 13
0.77 0.16 0.08
Matches are distributed among these distances:
64 75 0.57
65 33 0.25
66 23 0.18
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.45
Consensus pattern (63 bp):
TTTTGATCTTGACTCAGTCTAAATCATTTTATTTTCAAACTTATGGTTCAATCTCGTCACTCA
Found at i:19410348 original size:14 final size:15
Alignment explanation
Indices: 19410331--19410366 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
19410321 TTTATCCTTC
19410331 TTATTTTATTTA-TT
1 TTATTTTATTTATTT
*
19410345 TTATTTTGTTTATTT
1 TTATTTTATTTATTT
19410360 TTATTTT
1 TTATTTT
19410367 CTTTTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.81
Consensus pattern (15 bp):
TTATTTTATTTATTT
Found at i:19410364 original size:20 final size:19
Alignment explanation
Indices: 19410339--19410387 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
19410329 TCTTATTTTA
*
19410339 TTTATTTTATTTTGTTTATT
1 TTTATTTTATTTT-ATTATT
*
19410359 TTTATTTTCTTTTATTATT
1 TTTATTTTATTTTATTATT
19410378 TCTTATTTTA
1 T-TTATTTTA
19410388 AATTAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (19 bp):
TTTATTTTATTTTATTATT
Found at i:19418492 original size:42 final size:42
Alignment explanation
Indices: 19418433--19418516 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
19418423 AAACCAAGAT
19418433 AACATCTCATGTAAATAGTAATAATCAAGAGTCATCCTTGGG
1 AACATCTCATGTAAATAGTAATAATCAAGAGTCATCCTTGGG
*
19418475 AACATCTCATTTAAATAGTAATAATCAAGAGTCATCCTTGGG
1 AACATCTCATGTAAATAGTAATAATCAAGAGTCATCCTTGGG
19418517 CCAGATCTCG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (42 bp):
AACATCTCATGTAAATAGTAATAATCAAGAGTCATCCTTGGG
Found at i:19418776 original size:15 final size:14
Alignment explanation
Indices: 19418733--19418780 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
19418723 TTTAAGGGTT
* *
19418733 GGTTTTGGGGTTTG
1 GGTTTAGGGTTTTG
* *
19418747 GGCTTAGGTTTTTG
1 GGTTTAGGGTTTTG
19418761 GGTTTAAGGGTTTTG
1 GGTTT-AGGGTTTTG
19418776 GGTTT
1 GGTTT
19418781 CGAATTTGGG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 14 0.52
15 13 0.48
ACGTcount: A:0.06, C:0.02, G:0.42, T:0.50
Consensus pattern (14 bp):
GGTTTAGGGTTTTG
Found at i:19419971 original size:20 final size:20
Alignment explanation
Indices: 19419948--19420004 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
19419938 TTTAAACAAG
19419948 TTTGACTAATTTTGACTAAA
1 TTTGACTAATTTTGACTAAA
** *
19419968 TTTGACTTGTTTTGA-TCAA
1 TTTGACTAATTTTGACTAAA
19419987 TGTTGA-TAAATTTTGACT
1 T-TTGACT-AATTTTGACT
19420005 TTAGGGCATT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
19 5 0.17
20 23 0.79
21 1 0.03
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.49
Consensus pattern (20 bp):
TTTGACTAATTTTGACTAAA
Found at i:19420299 original size:51 final size:51
Alignment explanation
Indices: 19420226--19420518 Score: 238
Period size: 51 Copynumber: 5.7 Consensus size: 51
19420216 TTTTTTATTG
* *
19420226 AAGGTTTGAGATTTACACCAAAAAGGTTGGGATTCACACTAGGATTTTTCA
1 AAGGTTTGAGATTCACACCAAAAAGGCTGGGATTCACACTAGGATTTTTCA
* * * *
19420277 AAGGTTTTAGATTCACATCAAAAGGGCTGAGATTCACACTAGGATTCTTT-A
1 AAGGTTTGAGATTCACACCAAAAAGGCTGGGATTCACACTAGGATT-TTTCA
* * * *** *** *
19420328 GAGGTTCGAGATTTACA-TTGAAAGGCTCTAAATTCACACTATGATTTTTCA
1 AAGGTTTGAGATTCACACCAAAAAGGCT-GGGATTCACACTAGGATTTTTCA
* * *
19420379 AATGTTT-AGGATTCACACCAAAAAGGCTGGGATTCACACCAAGATTTTTCA
1 AAGGTTTGA-GATTCACACCAAAAAGGCTGGGATTCACACTAGGATTTTTCA
** * * * *
19420430 AAGGTTCAAGATTCACACCAAAATGGTTAGGG-TTCTCATCT-GAATTCTTT-A
1 AAGGTTTGAGATTCACACCAAAAAGGCT-GGGATTCACA-CTAGGATT-TTTCA
* * *
19420481 AAGGTTTGGGATTCACACCCAAAAGGCTAGGATTCACA
1 AAGGTTTGAGATTCACACCAAAAAGGCTGGGATTCACA
19420519 ATAAGATTCC
Statistics
Matches: 187, Mismatches: 45, Indels: 20
0.74 0.18 0.08
Matches are distributed among these distances:
50 12 0.06
51 157 0.84
52 18 0.10
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (51 bp):
AAGGTTTGAGATTCACACCAAAAAGGCTGGGATTCACACTAGGATTTTTCA
Found at i:19420533 original size:153 final size:152
Alignment explanation
Indices: 19420235--19420533 Score: 316
Period size: 153 Copynumber: 2.0 Consensus size: 152
19420225 GAAGGTTTGA
* * * * ** *
19420235 GATTTACACCAAAAAGGTTGGGATTCACACTAGGATTTTTCAAAGGTTTTAGATTCACATCAAAA
1 GATTCACACCAAAAAGGCTGGGATTCACACCAAGATTTTTCAAAGGTTCAAGATTCACACCAAAA
* * * ***
19420300 GGGCTGAGATTCACACTAGGATTCTTTAGAGGTTCGAGATTTACATTGAAAGGCTCTAAATTCAC
66 GGGCTGAGATTCACACTAGAATTCTTTAAAGGTTCGAGATTCACACCAAAAGGC-CTAAATTCAC
* * **
19420365 ACTATGATTTTTCAAATGTTTAG
130 AATAAGATTCCTCAAATGTTTAG
19420388 GATTCACACCAAAAAGGCTGGGATTCACACCAAGATTTTTCAAAGGTTCAAGATTCACACCAAAA
1 GATTCACACCAAAAAGGCTGGGATTCACACCAAGATTTTTCAAAGGTTCAAGATTCACACCAAAA
* * * * * * *
19420453 TGG-TTAGGGTTCTCATCT-GAATTCTTTAAAGGTTTGGGATTCACACCCAAAAGG-CTAGGATT
66 GGGCTGA-GATTCACA-CTAGAATTCTTTAAAGGTTCGAGATTCACA-CCAAAAGGCCTA-AATT
19420515 CACAATAAGATTCCTCAAA
127 CACAATAAGATTCCTCAAA
19420534 AAGTTTAACT
Statistics
Matches: 118, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
152 5 0.04
153 106 0.90
154 7 0.06
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (152 bp):
GATTCACACCAAAAAGGCTGGGATTCACACCAAGATTTTTCAAAGGTTCAAGATTCACACCAAAA
GGGCTGAGATTCACACTAGAATTCTTTAAAGGTTCGAGATTCACACCAAAAGGCCTAAATTCACA
ATAAGATTCCTCAAATGTTTAG
Found at i:19422393 original size:28 final size:27
Alignment explanation
Indices: 19422335--19422393 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
19422325 CTGCTATTTC
* * *
19422335 TTTTTTTTTTTTCTTCTTTTGTTCTTC
1 TTTTTTTGTTTTCTTCTTTTGTCCTTA
19422362 TTTTTTTCGTTTTCTTCCTTTT-TCCTTA
1 TTTTTTT-GTTTTCTT-CTTTTGTCCTTA
19422390 TTTT
1 TTTT
19422394 ATCCTTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 7 0.26
28 15 0.56
29 5 0.19
ACGTcount: A:0.02, C:0.17, G:0.03, T:0.78
Consensus pattern (27 bp):
TTTTTTTGTTTTCTTCTTTTGTCCTTA
Found at i:19422400 original size:11 final size:11
Alignment explanation
Indices: 19422380--19422414 Score: 56
Period size: 10 Copynumber: 3.4 Consensus size: 11
19422370 GTTTTCTTCC
19422380 TTTT-TCCTTA
1 TTTTATCCTTA
19422390 TTTTATCCTTA
1 TTTTATCCTTA
19422401 TTTTA-CCTTA
1 TTTTATCCTTA
19422411 TTTT
1 TTTT
19422415 TGTTTTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.54
11 11 0.46
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTATCCTTA
Found at i:19424646 original size:396 final size:397
Alignment explanation
Indices: 19423907--19424670 Score: 1206
Period size: 396 Copynumber: 1.9 Consensus size: 397
19423897 AGTAACAAAG
* * * * * *
19423907 CAAATTATAACACATAAAAGATGTTTATGAATGCATGAATATGATGACGATGCAAAAGAATTTCA
1 CAAATTACAACACACAAAAGATGTTTATGAATGAATGAATATGATGACAATGCAAAAAAATGTCA
* * * * * *
19423972 TGAAATGCAAAGATGCATAAGACAATGGATTTTCATATGTATAAGGCCCCAAATGATAAAAAAAT
66 TAAAATGCAAAGATGAATAAAAAAATGAATTTTCATATGTATAAGGCCCAAAATGAT-AAAAAAT
* *** * *
19424037 TTCATTACCTAAAAATATGCAAGAAATGCAATGTCTTATTGTGGAGGTAGTTAGTGCAATTTTAT
130 TTCATCACCTAAAAATATGCAAGAAATGCAATGTCTTATTACAGAGGTAGTGAATGCAATTTTAT
*
19424102 ACAATGCATGTTTTATAGAATCCTATTATTCATAGATCCATATGCATGAAATGTAATGACATACT
195 ACAATGCATGTTTTATAGAATCCTATTATTAATAGATCCATATGCATGAAATGTAATGACATACT
*
19424167 ACATAAGTAATGAGGTGTATACTTATGACTAATGCAACATACATATATGATATGTATTGATGTAT
260 ACATAAGTAATGAGGTGTATACTTATGACTAATGCAACATACATATATGAGATGTATTGATGTAT
*
19424232 TATATGCATGAAGTATGTCTATATGAAATGTAATGCATGTGTTAGCACTTCTTAGTAAATGAAAG
325 TATATGCATGAAGTATGTCTACATGAAATGTAATGCATGTGTTAGCACTTCTTAGTAAATGAAAG
19424297 CCACACAA
390 CCACACAA
* *
19424305 CAAATTACAACACACAAGAGATGTTTATGAATGAATGAATATGATGATAATGCAAAAAAATGTCA
1 CAAATTACAACACACAAAAGATGTTTATGAATGAATGAATATGATGACAATGCAAAAAAATGTCA
19424370 TAAAATGCAAAGATGAATAAAAAAATGAATTTTCATATGTATAAGGCCCAAAATGAT-AAAAATT
66 TAAAATGCAAAGATGAATAAAAAAATGAATTTTCATATGTATAAGGCCCAAAATGATAAAAAATT
* * * * *
19424434 TTATCGCTTAAAAATATGCAAGAAATGTAATGTCTTGTTACAGAGGTAGTGAATGCAATTTTATA
131 TCATCACCTAAAAATATGCAAGAAATGCAATGTCTTATTACAGAGGTAGTGAATGCAATTTTATA
* *
19424499 CAATGCATGTTTTATAGAATCCTATTATTAATGGATCCATATGCATGAAATGTAATGTCATACTA
196 CAATGCATGTTTTATAGAATCCTATTATTAATAGATCCATATGCATGAAATGTAATGACATACTA
* *
19424564 CATAAGTAATGAGGTGTATACTTATGATTGATGCAACATACATATATGAGATGTATTGATGTATT
261 CATAAGTAATGAGGTGTATACTTATGACTAATGCAACATACATATATGAGATGTATTGATGTATT
* *
19424629 ATATGCATGAGGTATGTCTACATGTAATGTAATGCATGTGTT
326 ATATGCATGAAGTATGTCTACATGAAATGTAATGCATGTGTT
19424671 GTGCAAATCC
Statistics
Matches: 332, Mismatches: 34, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
396 224 0.67
398 108 0.33
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (397 bp):
CAAATTACAACACACAAAAGATGTTTATGAATGAATGAATATGATGACAATGCAAAAAAATGTCA
TAAAATGCAAAGATGAATAAAAAAATGAATTTTCATATGTATAAGGCCCAAAATGATAAAAAATT
TCATCACCTAAAAATATGCAAGAAATGCAATGTCTTATTACAGAGGTAGTGAATGCAATTTTATA
CAATGCATGTTTTATAGAATCCTATTATTAATAGATCCATATGCATGAAATGTAATGACATACTA
CATAAGTAATGAGGTGTATACTTATGACTAATGCAACATACATATATGAGATGTATTGATGTATT
ATATGCATGAAGTATGTCTACATGAAATGTAATGCATGTGTTAGCACTTCTTAGTAAATGAAAGC
CACACAA
Found at i:19424787 original size:37 final size:37
Alignment explanation
Indices: 19424746--19424926 Score: 170
Period size: 37 Copynumber: 4.9 Consensus size: 37
19424736 TATTATGGTA
*
19424746 TGCATGAAATGGAATGCATATACTATCTATT-ACAATG
1 TGCATGAAATGGAATGCATGTACTATCTATTGA-AATG
* * * *
19424783 TGCATGAGATAGAGTGCATGT-CTTATTTATT-AAGATG
1 TGCATGAAATGGAATGCATGTAC-TATCTATTGAA-ATG
* * * * * *
19424820 TGCATGAGATAGAGTGTATGTATTATCTATTGACATG
1 TGCATGAAATGGAATGCATGTACTATCTATTGAAATG
* * *
19424857 TGCATGAAATGGAATGCATGTACTACCTATTGAGATA
1 TGCATGAAATGGAATGCATGTACTATCTATTGAAATG
* *
19424894 TGCATGAAATGGAATTCATGTACTACCTATTGA
1 TGCATGAAATGGAATGCATGTACTATCTATTGA
19424927 CATATCTCTA
Statistics
Matches: 122, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
36 2 0.02
37 119 0.98
38 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (37 bp):
TGCATGAAATGGAATGCATGTACTATCTATTGAAATG
Found at i:19424915 original size:74 final size:74
Alignment explanation
Indices: 19424720--19424929 Score: 203
Period size: 74 Copynumber: 2.8 Consensus size: 74
19424710 CGTGAGATAA
* * * *
19424720 AATGCATG-CATTACCTTATTATGGTATGCATGAAATGGAATGCATATACTATCTATT-ACAATG
1 AATGCATGTC-TTACC-TATTAAGATATGCATGAAATGGAATTCATGTACTATCTATTGAC-ATG
*
19424783 TGCATGAGATAG
63 TGCATGAAATAG
* ** * * * * *
19424795 AGTGCATGTCTTATTTATTAAGATGTGCATGAGATAGAGTGT-ATGTATTATCTATTGACATGTG
1 AATGCATGTCTTACCTATTAAGATATGCATGAAATGGAAT-TCATGTACTATCTATTGACATGTG
*
19424859 CATGAAATGG
65 CATGAAATAG
* *
19424869 AATGCATGTAC-TACCTATTGAGATATGCATGAAATGGAATTCATGTACTACCTATTGACAT
1 AATGCATGT-CTTACCTATTAAGATATGCATGAAATGGAATTCATGTACTATCTATTGACAT
19424930 ATCTCTAAAA
Statistics
Matches: 106, Mismatches: 24, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
73 1 0.01
74 91 0.86
75 13 0.12
76 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (74 bp):
AATGCATGTCTTACCTATTAAGATATGCATGAAATGGAATTCATGTACTATCTATTGACATGTGC
ATGAAATAG
Found at i:19426517 original size:87 final size:86
Alignment explanation
Indices: 19426372--19426547 Score: 307
Period size: 87 Copynumber: 2.0 Consensus size: 86
19426362 TATTACTTGA
*
19426372 TATATGCACTTAAAGGCTTTATACAAAAAGCAACAATCAGAGTGCATTTACTATCTATTGATGTG
1 TATATGCACTTAAAGGCTTTATACAAAAAACAACAATCAGAGTGCATTTACTATCTATTGATGTG
*
19426437 GATGAGATAGAATGCATTTAC
66 GATGAGATAGAATGCATGTAC
* *
19426458 TATATGCACTTGAAGGCTTTTATACAAAAAACAACAATTAGAGTGCATTTACTATCTATTGATGT
1 TATATGCACTTAAAGGC-TTTATACAAAAAACAACAATCAGAGTGCATTTACTATCTATTGATGT
19426523 GGATGAGATAGAATGCATGTAC
65 GGATGAGATAGAATGCATGTAC
19426545 TAT
1 TAT
19426548 CGATTAAGAT
Statistics
Matches: 85, Mismatches: 4, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
86 16 0.19
87 69 0.81
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (86 bp):
TATATGCACTTAAAGGCTTTATACAAAAAACAACAATCAGAGTGCATTTACTATCTATTGATGTG
GATGAGATAGAATGCATGTAC
Found at i:19426547 original size:35 final size:36
Alignment explanation
Indices: 19426496--19426591 Score: 106
Period size: 37 Copynumber: 2.6 Consensus size: 36
19426486 AAACAACAAT
* * *
19426496 TAGAGTGCATTTACTATCTATT-GATGTGGATGAGA
1 TAGAATGCATGTACTATCTATTAGATGTGCATGAGA
*
19426531 TAGAATGCATGTACTATCGATTAAGATGTGCATGAGA
1 TAGAATGCATGTACTATCTATT-AGATGTGCATGAGA
*
19426568 T-GAAATGTATGTACTATCTTATTA
1 TAG-AATGCATGTACTATC-TATTA
19426592 TTTTCTACTC
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
35 19 0.37
36 1 0.02
37 28 0.55
38 3 0.06
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.36
Consensus pattern (36 bp):
TAGAATGCATGTACTATCTATTAGATGTGCATGAGA
Found at i:19427580 original size:9 final size:9
Alignment explanation
Indices: 19427565--19427607 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
19427555 CACATGCACA
19427565 CATTTTTTT
1 CATTTTTTT
*
19427574 TATTTTTTT
1 CATTTTTTT
*
19427583 --TATTTTT
1 CATTTTTTT
19427590 CATTTTTTT
1 CATTTTTTT
19427599 CATTTTTTT
1 CATTTTTTT
19427608 AGGAAAACAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
7 6 0.21
9 23 0.79
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.81
Consensus pattern (9 bp):
CATTTTTTT
Found at i:19427594 original size:16 final size:16
Alignment explanation
Indices: 19427569--19427605 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
19427559 TGCACACATT
* *
19427569 TTTTTTATTTTTTTTA
1 TTTTTCATTTTTTTCA
19427585 TTTTTCATTTTTTTCA
1 TTTTTCATTTTTTTCA
19427601 TTTTT
1 TTTTT
19427606 TTAGGAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.05, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTCATTTTTTTCA
Found at i:19428403 original size:18 final size:17
Alignment explanation
Indices: 19428372--19428405 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
19428362 TATTATCTTA
*
19428372 TTTAAAAATAATTTTTC
1 TTTAAAAACAATTTTTC
19428389 TTTAAAAACATATTTTT
1 TTTAAAAACA-ATTTTT
19428406 TGAAAACAAA
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:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTAAAAACAATTTTTC
Found at i:19430008 original size:118 final size:116
Alignment explanation
Indices: 19429829--19430100 Score: 352
Period size: 118 Copynumber: 2.3 Consensus size: 116
19429819 TGTACAAAGA
* * * * * *
19429829 AAAATTGATACTTTTAACTTTTC-CCCAAAATATTTTTTTGAAATTTTAATTTCGAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTGGAAACTTTAATTTCGAGAAAAATTG
* *
19429893 ATACTTTCAACTCTTCCTCAAAAAAAACTTTTTT-GAGAATC-TATTTTTAAGC
66 ATACTTTCAACTCTTCCTC-AAAAAAA-TTTTTTGGA-AAGCTTATTTTCAAGC
19429945 AAAATTGATACTTTCAACTTTTTCTTCAAAAATATTTTTTGGAAACTTTAATTTCGAGAAAAATT
1 AAAATTGATACTTTCAAC-TTTTCTTCAAAAATATTTTTTGGAAACTTTAATTTCGAGAAAAATT
* * * *
19430010 GATACTTTCAACTTTTTCTCAAAAATATTTTTTGGAAAGCTTATTTTCAAGG
65 GATACTTTCAACTCTTCCTCAAAAAAATTTTTTGGAAAGCTTATTTTCAAGC
* * *
19430062 AAAATTGATATTTTCAACTTTTCTTCAAAATTTTTTTTT
1 AAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTT
19430101 TGAATTTTAT
Statistics
Matches: 137, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
116 45 0.33
117 39 0.28
118 53 0.39
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.45
Consensus pattern (116 bp):
AAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTGGAAACTTTAATTTCGAGAAAAATTG
ATACTTTCAACTCTTCCTCAAAAAAATTTTTTGGAAAGCTTATTTTCAAGC
Found at i:19430033 original size:58 final size:58
Alignment explanation
Indices: 19429825--19430122 Score: 288
Period size: 58 Copynumber: 5.2 Consensus size: 58
19429815 CTTTTGTACA
* * * * *
19429825 AAGAAAAATTGATACTTTTAAC-TTTTCCCCAAAATATTTTTTTGAAATTTTAATTTC
1 AAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTGGAAACTTTAATTTC
* * * * * *
19429882 GAGGAAAATTGATACTTTCAACTCTTCCTCAAAAAAAACTTTTTTGAGAATCTATT--TTT-
1 AAGAAAAATTGATACTTTCAACTTTTTCTC-AAAAATA-TTTTTTG-GAAACT-TTAATTTC
*
19429941 AAGCAAAATTGATACTTTCAACTTTTTCTTCAAAAATATTTTTTGGAAACTTTAATTTC
1 AAGAAAAATTGATACTTTCAACTTTTTC-TCAAAAATATTTTTTGGAAACTTTAATTTC
* *
19430000 GAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTGGAAAGC-TTATTTTC
1 AAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTGGAAA-CTTTAATTTC
* * * * * * *
19430058 AAGGAAAATTGATATTTTCAAC-TTTTCTTCAAAATTTTTTTTTTG-AA-TTTTATTTA
1 AAGAAAAATTGATACTTTCAACTTTTTC-TCAAAAATATTTTTTGGAAACTTTAATTTC
19430114 AAGAAAAAT
1 AAGAAAAAT
19430123 AAATAAATAA
Statistics
Matches: 199, Mismatches: 30, Indels: 25
0.78 0.12 0.10
Matches are distributed among these distances:
56 15 0.08
57 31 0.16
58 74 0.37
59 62 0.31
60 11 0.06
61 4 0.02
62 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (58 bp):
AAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTGGAAACTTTAATTTC
Found at i:19430111 original size:57 final size:58
Alignment explanation
Indices: 19429829--19430112 Score: 297
Period size: 59 Copynumber: 4.9 Consensus size: 58
19429819 TGTACAAAGA
* * * * *
19429829 AAAATTGATACTTTTAACTTTTC-CCCAAAATATTTTTTTGAAATTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTGAAATTTTATTTTCAAGG
* * * * * * *
19429886 AAAATTGATACTTTCAACTCTTCCTCAAAAAAAACTTTTTTGAGAA-TCTATTTTTAAGC
1 AAAATTGATACTTTCAACTTTTCTTC-AAAAATATTTTTTTGA-AATTTTATTTTCAAGG
* * * * *
19429945 AAAATTGATACTTTCAACTTTTTCTTCAAAAATATTTTTTGGAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAAC-TTTTCTTCAAAAATATTTTTTTGAAATTTTATTTTCAAGG
* **
19430004 AAAATTGATACTTTCAACTTTT-TCTCAAAAATATTTTTTGGAAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCT-TCAAAAATATTTTTTTGAAATTTTATTTTCAAGG
* * *
19430062 AAAATTGATATTTTCAACTTTTCTTCAAAATTTTTTTTTTG-AATTTTATTT
1 AAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTGAAATTTTATTT
19430113 AAAGAAAAAT
Statistics
Matches: 188, Mismatches: 32, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
57 30 0.16
58 71 0.38
59 79 0.42
60 8 0.04
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.46
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTGAAATTTTATTTTCAAGG
Found at i:19430157 original size:10 final size:10
Alignment explanation
Indices: 19430117--19430179 Score: 72
Period size: 10 Copynumber: 6.1 Consensus size: 10
19430107 TTATTTAAAG
*
19430117 AAAAATAAAT
1 AAAAAAAAAT
19430127 AAATAAAAAAT
1 AAA-AAAAAAT
*
19430138 GAAAATAAAAT
1 -AAAAAAAAAT
19430149 AAAAAAAAAT
1 AAAAAAAAAT
*
19430159 AAATAAAAAT
1 AAAAAAAAAT
*
19430169 AGAAAAAAAT
1 AAAAAAAAAT
19430179 A
1 A
19430180 TTAAACAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
10 30 0.67
11 12 0.27
12 3 0.07
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:19430167 original size:11 final size:11
Alignment explanation
Indices: 19430123--19430257 Score: 61
Period size: 10 Copynumber: 12.3 Consensus size: 11
19430113 AAAGAAAAAT
19430123 AAATAAATAAA
1 AAATAAATAAA
*
19430134 AAATGAAA-ATA
1 AAAT-AAATAAA
19430145 AAATAAA-AAA
1 AAATAAATAAA
19430155 AAATAAAT-AA
1 AAATAAATAAA
*
19430165 AAATAGA-AAA
1 AAATAAATAAA
*
19430175 AAAT-ATTAAA
1 AAATAAATAAA
* *
19430185 CAAATCTAATCTAAT
1 -AAA--TAA-ATAAA
*
19430200 GAATAAAT-AA
1 AAATAAATAAA
* *
19430210 TAAT-AATAAT
1 AAATAAATAAA
*
19430220 AAATATATAAA
1 AAATAAATAAA
19430231 AAATAAAATGAAA
1 AAAT-AAAT-AAA
19430244 AAA-AAATAATA
1 AAATAAATAA-A
19430255 AAA
1 AAA
19430258 AAAAACCTAG
Statistics
Matches: 94, Mismatches: 16, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
9 3 0.03
10 39 0.41
11 30 0.32
12 9 0.10
13 7 0.07
14 3 0.03
15 3 0.03
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.21
Consensus pattern (11 bp):
AAATAAATAAA
Found at i:19430245 original size:14 final size:13
Alignment explanation
Indices: 19430208--19430262 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
19430198 ATGAATAAAT
* *
19430208 AATAATAATAATA
1 AATAATAAAAAAA
*
19430221 AATATATAAAAAAT
1 AATA-ATAAAAAAA
19430235 AA-AATGAAAAAAA
1 AATAAT-AAAAAAA
19430248 AATAATAAAAAAA
1 AATAATAAAAAAA
19430261 AA
1 AA
19430263 CCTAGAAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
12 2 0.06
13 22 0.63
14 11 0.31
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (13 bp):
AATAATAAAAAAA
Found at i:19431195 original size:14 final size:14
Alignment explanation
Indices: 19431178--19431249 Score: 56
Period size: 14 Copynumber: 4.8 Consensus size: 14
19431168 TATAAATTAA
19431178 AAATAATAATAGAT
1 AAATAATAATAGAT
* *
19431192 AAATTATAATATAT
1 AAATAATAATAGAT
*
19431206 AAATAGATAAATAATAGT
1 AAATA-AT-AAT-AGA-T
19431224 AAATATATAACTAGAT
1 AAATA-ATAA-TAGAT
19431240 AAATAA-AATA
1 AAATAATAATA
19431250 TATATATAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
13 2 0.04
14 18 0.38
15 3 0.06
16 9 0.19
17 7 0.15
18 9 0.19
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (14 bp):
AAATAATAATAGAT
Found at i:19431213 original size:22 final size:22
Alignment explanation
Indices: 19431169--19431253 Score: 77
Period size: 26 Copynumber: 3.8 Consensus size: 22
19431159 AAATTAACAT
*
19431169 ATAAATTA-AAAATA-ATAATAG
1 ATAAATTATAATATATA-AATAG
19431190 ATAAATTATAATATATAAATAG
1 ATAAATTATAATATATAAATAG
*
19431212 ATAAATAATAGTAAATATATAACTAG
1 ATAAAT--TA-T-AATATATAAATAG
*
19431238 ATAAA-TAAAATATATA
1 ATAAATTATAATATATA
19431254 TATAAATATT
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
21 16 0.29
22 16 0.29
23 3 0.05
24 2 0.04
25 1 0.02
26 17 0.31
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (22 bp):
ATAAATTATAATATATAAATAG
Found at i:19431228 original size:26 final size:25
Alignment explanation
Indices: 19431178--19431261 Score: 97
Period size: 26 Copynumber: 3.5 Consensus size: 25
19431168 TATAAATTAA
19431178 AAATA-AT-AATAGATAAAT--TAT
1 AAATATATAAATAGATAAATAATAT
19431199 -AATATATAAATAGATAAATAATAGT
1 AAATATATAAATAGATAAATAATA-T
* *
19431224 AAATATATAACTAGATAAATAAAAT
1 AAATATATAAATAGATAAATAATAT
*
19431249 ATATATATAAATA
1 AAATATATAAATA
19431262 TTAACATAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
20 4 0.08
21 2 0.04
22 11 0.21
24 2 0.04
25 13 0.25
26 21 0.40
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (25 bp):
AAATATATAAATAGATAAATAATAT
Found at i:19431389 original size:6 final size:6
Alignment explanation
Indices: 19431378--19431426 Score: 59
Period size: 6 Copynumber: 8.5 Consensus size: 6
19431368 ATACAAAGGA
*
19431378 AAATAT AAATAT AAA-AT AAAAAAT AAATAT AAATAT -AATA- AAATAT
1 AAATAT AAATAT AAATAT -AAATAT AAATAT AAATAT AAATAT AAATAT
19431424 AAA
1 AAA
19431427 ATACAAAATA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 26 0.68
7 2 0.05
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (6 bp):
AAATAT
Found at i:19431400 original size:7 final size:7
Alignment explanation
Indices: 19431384--19431458 Score: 57
Period size: 7 Copynumber: 11.0 Consensus size: 7
19431374 AGGAAAATAT
*
19431384 AAATATA
1 AAATAAA
19431391 AAATAAA
1 AAATAAA
19431398 AAAT-AA
1 AAATAAA
*
19431404 ATAT-AA
1 AAATAAA
*
19431410 ATATAATA
1 AAATAA-A
*
19431418 AAATATA
1 AAATAAA
*
19431425 AAATACA
1 AAATAAA
*
19431432 AAATACA
1 AAATAAA
*
19431439 AAATAAT
1 AAATAAA
19431446 AAA-AAA
1 AAATAAA
19431452 AAATAAA
1 AAATAAA
19431459 GTGAACCTAC
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
6 16 0.28
7 36 0.63
8 5 0.09
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (7 bp):
AAATAAA
Found at i:19431455 original size:34 final size:34
Alignment explanation
Indices: 19431384--19431456 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
19431374 AGGAAAATAT
* * *
19431384 AAATATAAAATAAAAAATAAATATAAATATAATA
1 AAATATAAAATAAAAAATAAAAATAAATAAAAAA
*
19431418 AAATATAAAATACAAAATACAAAAT-AATAAAAAA
1 AAATATAAAATAAAAAATA-AAAATAAATAAAAAA
19431452 AAATA
1 AAATA
19431457 AAGTGAACCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 30 0.88
35 4 0.12
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (34 bp):
AAATATAAAATAAAAAATAAAAATAAATAAAAAA
Found at i:19431787 original size:43 final size:43
Alignment explanation
Indices: 19431641--19431787 Score: 152
Period size: 42 Copynumber: 3.4 Consensus size: 43
19431631 TTTGATCAAG
* * * *
19431641 GCTCCTCTAAGCAGAGGCTCAATGACTTTAAAAAACATAAACAAT
1 GCTCCTCTAATCAGAGGCTCAATGACTTT-GAAAA-ATAAATAAA
* * * *
19431686 GCTTCTCTAATCAAAAGCTCAATGACTTTG-AAAATGAATAAA
1 GCTCCTCTAATCAGAGGCTCAATGACTTTGAAAAATAAATAAA
* * * *
19431728 ACTCCTCTAATAAGAGGCTCCACGACTTTGAAAAATAAATAAA
1 GCTCCTCTAATCAGAGGCTCAATGACTTTGAAAAATAAATAAA
*
19431771 GCTCCTTTAATCAGAGG
1 GCTCCTCTAATCAGAGG
19431788 TGATTTTTGT
Statistics
Matches: 82, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
42 29 0.35
43 28 0.34
45 25 0.30
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (43 bp):
GCTCCTCTAATCAGAGGCTCAATGACTTTGAAAAATAAATAAA
Found at i:19432025 original size:45 final size:42
Alignment explanation
Indices: 19431960--19432287 Score: 354
Period size: 42 Copynumber: 7.7 Consensus size: 42
19431950 ATTTGATCAA
* * *
19431960 GGCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAATATAAACAA
1 GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAA-AT-AA-AT
* *
19432005 AGCTCCTCTAATCAGAGGCTCAACGACTTTTAAAAAATAAAT
1 GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAAT
* * * * * *
19432047 GGCTCATTTAATTAGAGGATCAATGACCTT-AAAAAATTAAAT
1 GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAA-TAAAT
* * *
19432089 GGCTCTTCTAATCAGAGGCTCGACGACTTTGGAAAAATAAAT
1 GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAAT
* *
19432131 GGCCCCTCTAATCAGAGGCTCAACGACTTTGGAAAAATAAAT
1 GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAAT
* * * * *
19432173 GGCTCCTTTAATCAAATGCTCGACGACTTTTGGAAAAATAAAT
1 GGCTCCTCTAATCAGAGGCTCAACGAC-TTTGAAAAAATAAAT
* * **
19432216 TGCTCCTCTAAACAGAGGCTTGACGACTTTGAAAAAATAAAT
1 GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAAT
* *
19432258 GGCTCCTCTAATTAGAGGCTC-ACAACTTTG
1 GGCTCCTCTAATCAGAGGCTCAACGACTTTG
19432288 GAAAGTAAAT
Statistics
Matches: 240, Mismatches: 40, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
41 14 0.06
42 149 0.62
43 43 0.18
44 2 0.01
45 32 0.13
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (42 bp):
GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAAT
Found at i:19433308 original size:9 final size:9
Alignment explanation
Indices: 19433290--19433336 Score: 60
Period size: 10 Copynumber: 5.0 Consensus size: 9
19433280 GAGTCCTCCT
19433290 TTTTTATTCA
1 TTTTT-TTCA
19433300 TTTTTTTCA
1 TTTTTTTCA
19433309 -TTTTTTCA
1 TTTTTTTCA
19433317 TTTTTTTCCA
1 TTTTTTT-CA
19433327 TTTTGTTTCA
1 TTTT-TTTCA
19433337 AGCATAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.24
9 10 0.29
10 13 0.38
11 3 0.09
ACGTcount: A:0.13, C:0.13, G:0.02, T:0.72
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:19433318 original size:17 final size:19
Alignment explanation
Indices: 19433291--19433330 Score: 66
Period size: 17 Copynumber: 2.2 Consensus size: 19
19433281 AGTCCTCCTT
19433291 TTTTATTCATTTTTTT-CA
1 TTTTATTCATTTTTTTCCA
19433309 TTTT-TTCATTTTTTTCCA
1 TTTTATTCATTTTTTTCCA
19433327 TTTT
1 TTTT
19433331 GTTTCAAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTATTCATTTTTTTCCA
Found at i:19440886 original size:22 final size:22
Alignment explanation
Indices: 19440861--19440913 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
19440851 CTCGATGTAT
*
19440861 TTTTATCTTCCTAAGTTTTCTC
1 TTTTATCATCCTAAGTTTTCTC
19440883 TTTTATCATCCTAAGTTTTCTC
1 TTTTATCATCCTAAGTTTTCTC
19440905 TTTTATCAT
1 TTTTATCAT
19440914 ACCAGACTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.17, C:0.21, G:0.04, T:0.58
Consensus pattern (22 bp):
TTTTATCATCCTAAGTTTTCTC
Done.