Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2292
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: 332330
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
File 1 of 3
Found at i:701 original size:6 final size:6
Alignment explanation
Indices: 692--718 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
682 ATTTTTATTT
692 ATTAAA ATTAAA ATTAAA ATTAAA ATT
1 ATTAAA ATTAAA ATTAAA ATTAAA ATT
719 TTAATACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
ATTAAA
Found at i:4092 original size:17 final size:18
Alignment explanation
Indices: 4070--4104 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
4060 TTCTACATTA
*
4070 TTTTAAAT-TTTTTATTT
1 TTTTAAATATTTATATTT
4087 TTTTAAATATTTATATTT
1 TTTTAAATATTTATATTT
4105 ACTATTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTAAATATTTATATTT
Found at i:4195 original size:2 final size:2
Alignment explanation
Indices: 4188--4222 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4178 TTCATATTGG
4188 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4223 GGGAGGGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5253 original size:13 final size:13
Alignment explanation
Indices: 5138--5253 Score: 50
Period size: 13 Copynumber: 9.2 Consensus size: 13
5128 TTTAGATACG
* *
5138 ATATAATTATAAG
1 ATATAAATATAAT
5151 ATATAAATATAAT
1 ATATAAATATAAT
5164 ATA-AAATA-AATT
1 ATATAAATATAA-T
* * *
5176 TTGTTAATAT-AT
1 ATATAAATATAAT
*
5188 -TA-AAAT-TTAT
1 ATATAAATATAAT
5198 ATA-AATATATAAT
1 ATATAA-ATATAAT
* *
5211 CTTTAAATATAAT
1 ATATAAATATAAT
* *
5224 -TATGACATAAAAAT
1 ATAT-AAAT-ATAAT
5238 ATATAAATATAAT
1 ATATAAATATAAT
5251 ATA
1 ATA
5254 AATATATGTG
Statistics
Matches: 77, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
9 1 0.01
10 5 0.06
11 7 0.09
12 12 0.16
13 40 0.52
14 9 0.12
15 3 0.04
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.41
Consensus pattern (13 bp):
ATATAAATATAAT
Found at i:11428 original size:13 final size:11
Alignment explanation
Indices: 11394--11419 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11384 TTTAGTTAAA
11394 TTTAAATTATT
1 TTTAAATTATT
11405 TTTAAATTATT
1 TTTAAATTATT
11416 TTTA
1 TTTA
11420 TTAATTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTAAATTATT
Found at i:11439 original size:22 final size:20
Alignment explanation
Indices: 11414--11454 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
11404 TTTTAAATTA
11414 TTTTTATTAATTATTATAATAT
1 TTTTTATTAA-TATTA-AATAT
11436 TTTTTATTAATATTAAATA
1 TTTTTATTAATATTAAATA
11455 AAAATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.21
21 5 0.26
22 10 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTTATTAATATTAAATAT
Found at i:11461 original size:24 final size:24
Alignment explanation
Indices: 11414--11484 Score: 60
Period size: 24 Copynumber: 3.0 Consensus size: 24
11404 TTTTAAATTA
*
11414 TTTTTATTAATTATT--AT-AATAT
1 TTTTTATTAA-TATTAAATAAAAAT
11436 TTTTTATTAATATTAAATAAAAAT
1 TTTTTATTAATATTAAATAAAAAT
* * *
11460 TTATTT-TTATTGTTAAATAATAAT
1 TT-TTTATTAATATTAAATAAAAAT
11484 T
1 T
11485 CAAGTTAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
21 4 0.10
22 10 0.24
23 2 0.05
24 22 0.54
25 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (24 bp):
TTTTTATTAATATTAAATAAAAAT
Found at i:12168 original size:14 final size:14
Alignment explanation
Indices: 12149--12182 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
12139 CAAGAATAAT
12149 AAAAATAAAAAGGA
1 AAAAATAAAAAGGA
12163 AAAAATAAAAAGGA
1 AAAAATAAAAAGGA
12177 AAAAAT
1 AAAAAT
12183 CCAATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (14 bp):
AAAAATAAAAAGGA
Found at i:12750 original size:27 final size:26
Alignment explanation
Indices: 12694--12776 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 26
12684 TAATGAGAAT
*
12694 AATATTTTATATTTAAA-TAAATATA
1 AATATTTTATATTAAAATTAAATATA
*
12719 TATATTTTATAATTAAAATTAAATA-A
1 AATATTTTAT-ATTAAAATTAAATATA
12745 CAATATTTGTATTATTAAAAGTTAAAT-TA
1 -AATATTT-TA-TATTAAAA-TTAAATATA
12774 AAT
1 AAT
12777 TAATTTAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
25 9 0.19
26 7 0.15
27 12 0.25
28 12 0.25
29 8 0.17
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (26 bp):
AATATTTTATATTAAAATTAAATATA
Found at i:12806 original size:12 final size:12
Alignment explanation
Indices: 12759--12815 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 12
12749 ATTTGTATTA
* *
12759 TTAAAAGTTAAA
1 TTAAAATTTAAT
12771 TT-AAA-TTAAT
1 TTAAAATTTAAT
12781 TT-AAATTT--T
1 TTAAAATTTAAT
*
12790 TTAAAATTTTAT
1 TTAAAATTTAAT
12802 TTAAAATTTAAT
1 TTAAAATTTAAT
12814 TT
1 TT
12816 TATCAATCGA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 3 0.08
10 15 0.38
11 5 0.13
12 16 0.41
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (12 bp):
TTAAAATTTAAT
Found at i:17088 original size:19 final size:20
Alignment explanation
Indices: 17066--17112 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 20
17056 CTATTTAATT
17066 AATAAAA-ATATATTTTTTA
1 AATAAAACATATATTTTTTA
* *
17085 AATAATAACTATTTATTTTTTC
1 AATAA-AAC-ATATATTTTTTA
17107 AATAAA
1 AATAAA
17113 CTCTAATCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 5 0.22
20 2 0.09
21 1 0.04
22 15 0.65
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (20 bp):
AATAAAACATATATTTTTTA
Found at i:18506 original size:54 final size:54
Alignment explanation
Indices: 18424--18531 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
18414 AAATGACATG
18424 GTCACATAAGAGTGTAATGTGACTACCTAATCATCTATTTCGTATGCTTTTAAA
1 GTCACATAAGAGTGTAATGTGACTACCTAATCATCTATTTCGTATGCTTTTAAA
18478 GTCACATAAGAGTGTAATGTGACTACCTAATCATCTATTTCGTATGCTTTTAAA
1 GTCACATAAGAGTGTAATGTGACTACCTAATCATCTATTTCGTATGCTTTTAAA
18532 ATCTTTCACT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (54 bp):
GTCACATAAGAGTGTAATGTGACTACCTAATCATCTATTTCGTATGCTTTTAAA
Found at i:18778 original size:14 final size:14
Alignment explanation
Indices: 18743--18787 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
18733 ATTAAAAATT
* *
18743 AATAATTTATTTAA
1 AATAATTAAATTAA
18757 AA-AATTAAATTAA
1 AATAATTAAATTAA
18770 AATAATTAAATTTAA
1 AATAATTAAA-TTAA
18785 AAT
1 AAT
18788 TAATATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 11 0.41
14 9 0.33
15 7 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATAATTAAATTAA
Found at i:18806 original size:19 final size:19
Alignment explanation
Indices: 18779--18818 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
18769 AAATAATTAA
18779 ATTTAAAA-TTAATATTTT
1 ATTTAAAATTTAATATTTT
*
18797 ATTTATAAATTTGATATTTT
1 ATTTA-AAATTTAATATTTT
18817 AT
1 AT
18819 ATATTTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 3 0.16
20 11 0.58
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
ATTTAAAATTTAATATTTT
Found at i:18866 original size:18 final size:19
Alignment explanation
Indices: 18845--18885 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
18835 TAATACTTTT
18845 TATTAATAT-ATTTTATAA
1 TATTAATATAATTTTATAA
* *
18863 TATTTATATAATTTTATCA
1 TATTAATATAATTTTATAA
18882 TATT
1 TATT
18886 TTAATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTAATATAATTTTATAA
Found at i:18867 original size:10 final size:9
Alignment explanation
Indices: 18850--18900 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
18840 CTTTTTATTA
18850 ATATATTTT
1 ATATATTTT
18859 ATA-ATATTT
1 ATATAT-TTT
18868 ATATAATTTT
1 ATAT-ATTTT
18878 ATCATATTTT
1 AT-ATATTTT
*
18888 A-ATTTTTT
1 ATATATTTT
18896 ATATA
1 ATATA
18901 ATTATGTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
8 9 0.26
9 11 0.31
10 11 0.31
11 4 0.11
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (9 bp):
ATATATTTT
Found at i:18878 original size:19 final size:18
Alignment explanation
Indices: 18796--18886 Score: 59
Period size: 16 Copynumber: 5.3 Consensus size: 18
18786 ATTAATATTT
* *
18796 TATTTATAAATTTGAT-A
1 TATTTATATATTTTATAA
**
18813 T-TTTATATATTTTATCC
1 TATTTATATATTTTATAA
*
18830 TA-TTATAATACTTT-T--
1 TATTTAT-ATATTTTATAA
*
18845 TATTAATATATTTTATAA
1 TATTTATATATTTTATAA
*
18863 TATTTATATAATTTTATCA
1 TATTTATAT-ATTTTATAA
18882 TATTT
1 TATTT
18887 TAATTTTTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
15 8 0.14
16 16 0.28
17 7 0.12
18 14 0.24
19 13 0.22
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.59
Consensus pattern (18 bp):
TATTTATATATTTTATAA
Found at i:18878 original size:52 final size:49
Alignment explanation
Indices: 18788--18915 Score: 129
Period size: 49 Copynumber: 2.6 Consensus size: 49
18778 AATTTAAAAT
* * * * *
18788 TAATATTTTATTTATAAATTTGAT-AT-TTTATATATTTTATCCTATTA
1 TAATTTTTTATTAATATATTTTATAATATTTATATATTTTATCATATTA
*
18835 TAATACTTTTTATTAATATATTTTATAATATTTATATAATTTTATCATATTT
1 TAAT--TTTTTATTAATATATTTTATAATATTTATAT-ATTTTATCATATTA
*
18887 TAATTTTTTATATAAT-TATGTT-TAATATT
1 TAATTTTTTAT-TAATATATTTTATAATATT
18916 ATTAGATTAT
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
47 4 0.06
49 23 0.34
50 14 0.21
51 11 0.16
52 16 0.24
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (49 bp):
TAATTTTTTATTAATATATTTTATAATATTTATATATTTTATCATATTA
Found at i:18894 original size:49 final size:49
Alignment explanation
Indices: 18814--18915 Score: 111
Period size: 50 Copynumber: 2.0 Consensus size: 49
18804 AATTTGATAT
* *
18814 TTTATATATTTTATCCTATTATAATACTTTTTATTAATATATTTTATAATA
1 TTTATATATTTTATCATATTAT--TAATTTTTATTAATATATTTTATAATA
*
18865 TTTATATAATTTTATCATATT-TTAATTTTTTATATAAT-TATGTT-TAATA
1 TTTATAT-ATTTTATCATATTATTAA-TTTTTAT-TAATATATTTTATAATA
18914 TT
1 TT
18916 ATTAGATTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
49 9 0.20
50 12 0.27
51 12 0.27
52 12 0.27
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (49 bp):
TTTATATATTTTATCATATTATTAATTTTTATTAATATATTTTATAATA
Found at i:24205 original size:17 final size:16
Alignment explanation
Indices: 24177--24225 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
24167 ATTTATTTAT
24177 TTTATA-TTTAATAAA
1 TTTATATTTTAATAAA
24192 TTTAATATTTTAAT-AA
1 TTT-ATATTTTAATAAA
*
24208 TTTATATTAT-ATAAA
1 TTTATATTTTAATAAA
24223 TTT
1 TTT
24226 TAAAATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
14 2 0.07
15 14 0.47
16 8 0.27
17 6 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTATATTTTAATAAA
Found at i:24227 original size:16 final size:15
Alignment explanation
Indices: 24175--24227 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
24165 TTATTTATTT
24175 ATTTTATATTTAATAA
1 ATTTTATATTT-ATAA
*
24191 ATTTAATATTT-TAA
1 ATTTTATATTTATAA
*
24205 TAATTTATATTATATAA
1 -ATTTTATATT-TATAA
24222 ATTTTA
1 ATTTTA
24228 AAATATTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
14 3 0.10
15 8 0.27
16 16 0.53
17 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTATATTTATAA
Found at i:24235 original size:25 final size:25
Alignment explanation
Indices: 24198--24245 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
24188 TAAATTTAAT
*
24198 ATTTTAATAATTTATA-TTATATAA
1 ATTTTAAAAATTTATATTTATATAA
24222 ATTTTAAAATATTTATATTTATAT
1 ATTTTAAAA-ATTTATATTTATAT
24246 CATATTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.38
25 7 0.33
26 6 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
ATTTTAAAAATTTATATTTATATAA
Found at i:24241 original size:6 final size:6
Alignment explanation
Indices: 24230--24276 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
24220 AAATTTTAAA
* *
24230 ATATTT ATATTT ATA-TC ATATTT ATATTT TTA-TT ATA-TT ATATTT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
24275 AT
1 AT
24277 GGTAATTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
5 13 0.37
6 22 0.63
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (6 bp):
ATATTT
Found at i:24242 original size:31 final size:30
Alignment explanation
Indices: 24170--24250 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 30
24160 TTCATTTATT
*
24170 TATTTAT-TTTATATT-TAATAAATTTAATA
1 TATTTATATTTATATTAT-ATAAATTTAAAA
24199 T-TTTAATAATTTATATTATATAAATTTTAAAA
1 TATTT-AT-ATTTATATTATATAAA-TTTAAAA
*
24231 TATTTATATTTATATCATAT
1 TATTTATATTTATATTATAT
24251 TTATATTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
28 3 0.07
29 3 0.07
31 25 0.57
32 10 0.23
33 3 0.07
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (30 bp):
TATTTATATTTATATTATATAAATTTAAAA
Found at i:24252 original size:17 final size:17
Alignment explanation
Indices: 24230--24276 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
24220 AAATTTTAAA
24230 ATATTTATATTTATATC
1 ATATTTATATTTATATC
* *
24247 ATATTTATATTTTTATT
1 ATATTTATATTTATATC
24264 ATA-TTATATTTAT
1 ATATTTATATTTAT
24277 GGTAATTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 9 0.33
17 18 0.67
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
ATATTTATATTTATATC
Found at i:24276 original size:11 final size:11
Alignment explanation
Indices: 24234--24276 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
24224 TTTAAAATAT
24234 TTATATTTATA
1 TTATATTTATA
*
24245 TCATATTTATA
1 TTATATTTATA
*
24256 TT-TTTATTATA
1 TTATAT-TTATA
24267 TTATATTTAT
1 TTATATTTAT
24277 GGTAATTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 2 0.08
11 22 0.85
12 2 0.08
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATATTTATA
Found at i:24605 original size:19 final size:18
Alignment explanation
Indices: 24583--24622 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
24573 TATTTTTATT
24583 TAAAT-TTAATTATAAATAA
1 TAAATATTAA-TATAAA-AA
24602 TAAATATTAATATAAAAA
1 TAAATATTAATATAAAAA
24620 TAA
1 TAA
24623 TTTTTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 11 0.55
20 4 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAATATTAATATAAAAA
Found at i:24622 original size:21 final size:19
Alignment explanation
Indices: 24583--24623 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
24573 TATTTTTATT
*
24583 TAAATTTAATTATAAATAA
1 TAAATTTAATTAAAAATAA
24602 TAAATATTAATATAAAAATAA
1 TAAAT-TTAAT-TAAAAATAA
24623 T
1 T
24624 TTTTAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 5 0.26
21 9 0.47
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAATTTAATTAAAAATAA
Found at i:25182 original size:16 final size:16
Alignment explanation
Indices: 25158--25189 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25148 TGTGAAATTT
*
25158 TTAATTTTTTTTAAAA
1 TTAAATTTTTTTAAAA
25174 TTAAATTTTTTTAAAA
1 TTAAATTTTTTTAAAA
25190 AAATAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTAAATTTTTTTAAAA
Found at i:29303 original size:113 final size:111
Alignment explanation
Indices: 29096--29431 Score: 413
Period size: 113 Copynumber: 2.9 Consensus size: 111
29086 ATTTTGATAA
* * * * *
29096 GGGTCGCCTTGTGGCGATCTCAA-TTTAAGTGACTTGGCGTTACTTAGTGTCTAGGATTCCTTGG
1 GGGTCGCCTTGTGGCGATCT-AAGTTTGAGTGACTCGGCGTCACTTAGTGTTTGGGATTCCTTGG
** *
29160 TGGCGATCTGAGTTTGAGTGACGAGGCATCATTTAGTGCTTCAATTT
65 TGGCGATCTGAGTTTGAGTGACTCGGCATCACTTAGTGCTTCAATTT
*
29207 GGGTCGCCTTGGTGGCGATCTAAGTTTGAGTGACTCAGCGTCACTTAGTGTTTGGGATTACCTTG
1 GGGTCGCCTT-GTGGCGATCTAAGTTTGAGTGACTCGGCGTCACTTAGTGTTTGGGATT-CCTTG
* * * *
29272 GTGGCGATCTGAGTTTAAGTGACTCGCCATCACTTAGTGTTTGAATTT
64 GTGGCGATCTGAGTTTGAGTGACTCGGCATCACTTAGTGCTTCAATTT
* * * * *
29320 GGGTCTCCTTAGTAGCGATCTGAGTTTGAATGACTCGGCGTCACTTAGTGTTTGAATTTGGATCG
1 GGGTCGCCTT-GTGGCGATCTAAGTTTGAGTGACTCGGCGTCACTTAGTGTTTG-----GGAT-T
29385 CCTTGGTGGCGATCTGAGTTTGAGTGACTCGGCATCACTTAGTGCTT
59 CCTTGGTGGCGATCTGAGTTTGAGTGACTCGGCATCACTTAGTGCTT
29432 GGGATTGCCT
Statistics
Matches: 193, Mismatches: 23, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
111 12 0.06
112 39 0.20
113 94 0.49
118 48 0.25
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.35
Consensus pattern (111 bp):
GGGTCGCCTTGTGGCGATCTAAGTTTGAGTGACTCGGCGTCACTTAGTGTTTGGGATTCCTTGGT
GGCGATCTGAGTTTGAGTGACTCGGCATCACTTAGTGCTTCAATTT
Found at i:29389 original size:172 final size:172
Alignment explanation
Indices: 29153--29545 Score: 561
Period size: 172 Copynumber: 2.3 Consensus size: 172
29143 TGTCTAGGAT
* * * * *
29153 TCCTTGGTGGCGATCTGAGTTTGAGTGACGAGGCATCATTTAGTGCTTCAATTTGGGTCGCCTTG
1 TCCTTGGTGGCGATCTGAGTTTGAGTGACTAGGCGTCATTTAGTGTTTGAATTTGGATCGCCTTG
* * *
29218 GTGGCGATCTAAGTTTGAGTGACTCAGCGTCACTTAGTGTTTGGGATTACCTTGGTGGCGATCTG
66 GTGGCGATCTAAGTTTGAGTGACTCAGCATCACTTAGTGCTTGGGATTACCTTGGTGGCAATCTG
**
29283 AGTTTAAGTGACTCGCCATCACTTAGTGTTTGAATTTGGGTC
131 AGTTTAAGTGACGAGCCATCACTTAGTGTTTGAATTTGGGTC
* * * * *
29325 TCCTTAGTAGCGATCTGAGTTTGAATGACTCGGCGTCACTTAGTGTTTGAATTTGGATCGCCTTG
1 TCCTTGGTGGCGATCTGAGTTTGAGTGACTAGGCGTCATTTAGTGTTTGAATTTGGATCGCCTTG
* * * *
29390 GTGGCGATCTGAGTTTGAGTGACTCGGCATCACTTAGTGCTTGGGATTGCCTTGGTGGCAATTTG
66 GTGGCGATCTAAGTTTGAGTGACTCAGCATCACTTAGTGCTTGGGATTACCTTGGTGGCAATCTG
* *
29455 AGTTTGAGTGACGAGGCATCACTTAGTGTTTGAATTTGGGTC
131 AGTTTAAGTGACGAGCCATCACTTAGTGTTTGAATTTGGGTC
* * * *
29497 GCCTTGGTGGCAATCTGAGTTTGAGTGACTTGGTGTCATTTAGTGTTTG
1 TCCTTGGTGGCGATCTGAGTTTGAGTGACTAGGCGTCATTTAGTGTTTG
29546 GGATTGCCTT
Statistics
Matches: 192, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
172 192 1.00
ACGTcount: A:0.17, C:0.16, G:0.30, T:0.36
Consensus pattern (172 bp):
TCCTTGGTGGCGATCTGAGTTTGAGTGACTAGGCGTCATTTAGTGTTTGAATTTGGATCGCCTTG
GTGGCGATCTAAGTTTGAGTGACTCAGCATCACTTAGTGCTTGGGATTACCTTGGTGGCAATCTG
AGTTTAAGTGACGAGCCATCACTTAGTGTTTGAATTTGGGTC
Found at i:29506 original size:113 final size:113
Alignment explanation
Indices: 29154--29570 Score: 411
Period size: 113 Copynumber: 3.6 Consensus size: 113
29144 GTCTAGGATT
** * *
29154 CCTTGGTGGCGATCTGAGTTTGAGTGACGAGGCATCATTTAGTGCTTCAATTTGGG-TCGCCTTG
1 CCTTGGTGGCGATCTGAGTTTGAGTGACTCGGCATCACTTAGTG---C---TTGGGATTGCCTTG
* **
29218 GTGGCGATCTAAGTTTGAGTGACTCA-GCGTCACTTAGTGTTTG-----GGATTA
60 GTGGCGATCTGAGTTTGAGTGAC-CAGGCGTCACTTAGTGTTTGAATTTGGATCG
* * * * *
29267 CCTTGGTGGCGATCTGAGTTTAAGTGACTCGCCATCACTTAGTG-TTTGAATTTGGGTCTCCTTA
1 CCTTGGTGGCGATCTGAGTTTGAGTGACTCGGCATCACTTAGTGCTTGGGA-TT--G---CCTTG
* *
29331 GTAGCGATCTGAGTTTGAATGACTC-GGCGTCACTTAGTGTTTGAATTTGGATCG
60 GTGGCGATCTGAGTTTGAGTGAC-CAGGCGTCACTTAGTGTTTGAATTTGGATCG
*
29385 CCTTGGTGGCGATCTGAGTTTGAGTGACTCGGCATCACTTAGTGCTTGGGATTGCCTTGGTGGCA
1 CCTTGGTGGCGATCTGAGTTTGAGTGACTCGGCATCACTTAGTGCTTGGGATTGCCTTGGTGGCG
* * * *
29450 ATTTGAGTTTGAGTGACGAGGCATCACTTAGTGTTTGAATTTGGGTCG
66 ATCTGAGTTTGAGTGACCAGGCGTCACTTAGTGTTTGAATTTGGATCG
* * ** * * *
29498 CCTTGGTGGCAATCTGAGTTTGAGTGACTTGGTGTCATTTAGTGTTTGGGATTGCCTTGGTGGTG
1 CCTTGGTGGCGATCTGAGTTTGAGTGACTCGGCATCACTTAGTGCTTGGGATTGCCTTGGTGGCG
29563 ATCTGAGT
66 ATCTGAGT
29571 GGAGTCGCAT
Statistics
Matches: 254, Mismatches: 35, Indels: 30
0.80 0.11 0.09
Matches are distributed among these distances:
106 3 0.01
108 1 0.00
110 1 0.00
113 196 0.77
116 1 0.00
118 48 0.19
119 4 0.02
ACGTcount: A:0.17, C:0.16, G:0.31, T:0.36
Consensus pattern (113 bp):
CCTTGGTGGCGATCTGAGTTTGAGTGACTCGGCATCACTTAGTGCTTGGGATTGCCTTGGTGGCG
ATCTGAGTTTGAGTGACCAGGCGTCACTTAGTGTTTGAATTTGGATCG
Found at i:29540 original size:59 final size:59
Alignment explanation
Indices: 29154--29545 Score: 435
Period size: 59 Copynumber: 6.8 Consensus size: 59
29144 GTCTAGGATT
** * * * *
29154 CCTTGGTGGCGATCTGAGTTTGAGTGACGAGGCATCATTTAGTGCTTCAATTTGGGTCG
1 CCTTGGTGGCGATCTGAGTTTGAGTGACTCGGCATCACTTAGTGTTTGAATTTGGATCG
* * * **
29213 CCTTGGTGGCGATCTAAGTTTGAGTGACTCAGCGTCACTTAGTGTTTG-----GGATTA
1 CCTTGGTGGCGATCTGAGTTTGAGTGACTCGGCATCACTTAGTGTTTGAATTTGGATCG
* * * *
29267 CCTTGGTGGCGATCTGAGTTTAAGTGACTCGCCATCACTTAGTGTTTGAATTTGGGTCT
1 CCTTGGTGGCGATCTGAGTTTGAGTGACTCGGCATCACTTAGTGTTTGAATTTGGATCG
* * * *
29326 CCTTAGTAGCGATCTGAGTTTGAATGACTCGGCGTCACTTAGTGTTTGAATTTGGATCG
1 CCTTGGTGGCGATCTGAGTTTGAGTGACTCGGCATCACTTAGTGTTTGAATTTGGATCG
* *
29385 CCTTGGTGGCGATCTGAGTTTGAGTGACTCGGCATCACTTAGTGCTTG-----GGATTG
1 CCTTGGTGGCGATCTGAGTTTGAGTGACTCGGCATCACTTAGTGTTTGAATTTGGATCG
* * ** *
29439 CCTTGGTGGCAATTTGAGTTTGAGTGACGAGGCATCACTTAGTGTTTGAATTTGGGTCG
1 CCTTGGTGGCGATCTGAGTTTGAGTGACTCGGCATCACTTAGTGTTTGAATTTGGATCG
* * ** *
29498 CCTTGGTGGCAATCTGAGTTTGAGTGACTTGGTGTCATTTAGTGTTTG
1 CCTTGGTGGCGATCTGAGTTTGAGTGACTCGGCATCACTTAGTGTTTG
29546 GGATTGCCTT
Statistics
Matches: 277, Mismatches: 46, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
54 94 0.34
59 183 0.66
ACGTcount: A:0.17, C:0.16, G:0.30, T:0.36
Consensus pattern (59 bp):
CCTTGGTGGCGATCTGAGTTTGAGTGACTCGGCATCACTTAGTGTTTGAATTTGGATCG
Found at i:36212 original size:21 final size:22
Alignment explanation
Indices: 36182--36222 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
36172 ATAAATTTTT
36182 TAGAGGATTGATTC-TTTTACCA
1 TAGAGGATTGA-TCATTTTACCA
36204 TAGA-GATTGATCATTTTAC
1 TAGAGGATTGATCATTTTAC
36223 AGAGAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.11
21 12 0.67
22 4 0.22
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.41
Consensus pattern (22 bp):
TAGAGGATTGATCATTTTACCA
Found at i:36307 original size:44 final size:43
Alignment explanation
Indices: 36209--36307 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 43
36199 TACCATAGAG
* * *
36209 ATTGATCATTTTACAGAGAAAATGGTTTTTCTTTTTTACATGA
1 ATTGATCATTTTACAAAGAAAATAGTTTTTCTTTTTTAAATGA
* * * *
36252 ATTAAACATTTTACAAAGAAATTAGTTTTTTTTTTCTTAAATGA
1 ATTGATCATTTTACAAAGAAAATAGTTTTTCTTTT-TTAAATGA
*
36296 ATTGATTATTTT
1 ATTGATCATTTT
36308 GTGCATTAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
43 29 0.64
44 16 0.36
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.49
Consensus pattern (43 bp):
ATTGATCATTTTACAAAGAAAATAGTTTTTCTTTTTTAAATGA
Found at i:41169 original size:29 final size:28
Alignment explanation
Indices: 41113--41188 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 28
41103 TGTACCGAAG
* *
41113 GTACCTATGACAGAGTATCTGTGCCAAAA
1 GTACCTAT-ACAGAGTACCTATGCCAAAA
*
41142 GTACCTATATCAGAGTACCTATGTCAAAA
1 GTACCTATA-CAGAGTACCTATGCCAAAA
* **
41171 ATATTTATACCAGAGTAC
1 GTACCTATA-CAGAGTAC
41189 TTGTACCGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
28 1 0.03
29 38 0.97
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.28
Consensus pattern (28 bp):
GTACCTATACAGAGTACCTATGCCAAAA
Found at i:41503 original size:85 final size:86
Alignment explanation
Indices: 41358--41514 Score: 291
Period size: 85 Copynumber: 1.8 Consensus size: 86
41348 AAAAGAAAAG
41358 AAAATAAATAAATAAACTAACAATAATAATAACTTTGAATAAAAACATAAATGAAA-TTTTTTTC
1 AAAATAAATAAATAAACTAACAATAATAATAACTTTGAATAAAAACATAAATGAAATTTTTTTTC
41422 TTTTTCTTTTTATGTTTCAAT
66 TTTTTCTTTTTATGTTTCAAT
41443 AAAATAAATAAATAAACTAACAATAATAATAACTTTGAATAAAAACATAAAT-AAATTTTTTTTT
1 AAAATAAATAAATAAACTAACAATAATAATAACTTTGAATAAAAACATAAATGAAA-TTTTTTTT
41507 CTTTTTCT
65 CTTTTTCT
41515 GTTTCACATA
Statistics
Matches: 70, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
84 3 0.04
85 52 0.74
86 15 0.21
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.40
Consensus pattern (86 bp):
AAAATAAATAAATAAACTAACAATAATAATAACTTTGAATAAAAACATAAATGAAATTTTTTTTC
TTTTTCTTTTTATGTTTCAAT
Found at i:41549 original size:85 final size:83
Alignment explanation
Indices: 41358--41537 Score: 258
Period size: 85 Copynumber: 2.2 Consensus size: 83
41348 AAAAGAAAAG
* *
41358 AAAATAAATAAATAAACTAACAATAATAATAACTTTGAATAAAAACATAAATGAAATTTTTTTCT
1 AAAAGAAAAAAATAAACTAACAATAATAATAACTTTGAATAAAAACATAAATGAAA--TTTTTCT
41423 TTTTCTTTTTATGTTTCAAT
64 TTTTCTTTTTATGTTTCAAT
* *
41443 AAAATAAATAAATAAACTAACAATAATAATAACTTTGAATAAAAACATAAAT-AAA-TTTT-TTT
1 AAAAGAAAAAAATAAACTAACAATAATAATAACTTTGAATAAAAACATAAATGAAATTTTTCTTT
*
41505 TTCTTTTTCTGTTTCACAT
66 TTCTTTTTATGTTTCA-AT
41524 AAAAAGAAAAAAAT
1 -AAAAGAAAAAAAT
41538 GTAGCGATAA
Statistics
Matches: 90, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
80 18 0.20
81 6 0.07
82 11 0.12
84 3 0.03
85 52 0.58
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (83 bp):
AAAAGAAAAAAATAAACTAACAATAATAATAACTTTGAATAAAAACATAAATGAAATTTTTCTTT
TTCTTTTTATGTTTCAAT
Found at i:41554 original size:2 final size:2
Alignment explanation
Indices: 41549--41579 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
41539 TAGCGATAAC
41549 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
41580 AAGAGTGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:41629 original size:17 final size:17
Alignment explanation
Indices: 41595--41651 Score: 73
Period size: 17 Copynumber: 3.4 Consensus size: 17
41585 TGAATAATTG
41595 AATAAAATAATAATAAT
1 AATAAAATAATAATAAT
41612 AATAATAATAATAA-AAT
1 AATAA-AATAATAATAAT
*
41629 AATAACA-AATAATAAAT
1 AATAAAATAATAAT-AAT
41646 AATAAA
1 AATAAA
41652 TATACAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
15 5 0.14
16 1 0.03
17 21 0.60
18 8 0.23
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (17 bp):
AATAAAATAATAATAAT
Found at i:41668 original size:3 final size:3
Alignment explanation
Indices: 41595--41650 Score: 71
Period size: 3 Copynumber: 18.7 Consensus size: 3
41585 TGAATAATTG
*
41595 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AAT AACA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
41639 AAT AAAT AAT AA
1 AAT -AAT AAT AA
41651 ATATACAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 4 0.09
3 38 0.81
4 5 0.11
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:41668 original size:22 final size:24
Alignment explanation
Indices: 41595--41668 Score: 82
Period size: 26 Copynumber: 3.0 Consensus size: 24
41585 TGAATAATTG
*
41595 AATAAAATAATAATAATAATAATAAT
1 AATAAAATAATAA-CA-AATAATAAT
41621 AATAAAATAATAACAAATAATAAAT
1 AATAAAATAATAACAAATAAT-AAT
41646 AAT-AAAT-AT-ACAAATAAATAAT
1 AATAAAATAATAACAAAT-AATAAT
41668 A
1 A
41669 TGAAAAGTGT
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
22 10 0.22
23 5 0.11
24 10 0.22
25 7 0.16
26 13 0.29
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (24 bp):
AATAAAATAATAACAAATAATAAT
Found at i:42012 original size:45 final size:44
Alignment explanation
Indices: 41917--42015 Score: 112
Period size: 45 Copynumber: 2.2 Consensus size: 44
41907 AACAAAATAT
* * *
41917 TATTTGATATGAGGTATTATTCGTAAGATAATATTCAGTAAGTA
1 TATTTAATACGAGATATTATTCGTAAGATAATATTCAGTAAGTA
*
41961 TCATTTAATACGAGATATTATTCGTGAA-ATAATATTC-GTGAGTTA
1 T-ATTTAATACGAGATATTATTCGT-AAGATAATATTCAGTAAG-TA
42006 CTATTTAATA
1 -TATTTAATA
42016 TAAAAATATT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
44 5 0.11
45 39 0.83
46 3 0.06
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.41
Consensus pattern (44 bp):
TATTTAATACGAGATATTATTCGTAAGATAATATTCAGTAAGTA
Found at i:44099 original size:15 final size:15
Alignment explanation
Indices: 44055--44099 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
44045 TTTTAATTTT
* *
44055 TTTTAATTTTTATAA
1 TTTTAAATTTTATTA
44070 TTTTAAATTTT-TTA
1 TTTTAAATTTTATTA
44084 TTTTAAATTTTATTA
1 TTTTAAATTTTATTA
44099 T
1 T
44100 GATGTGACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 13 0.48
15 14 0.52
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTAAATTTTATTA
Found at i:45590 original size:2 final size:2
Alignment explanation
Indices: 45583--45619 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
45573 GGACATTCTA
45583 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
45620 AAAGAAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:46680 original size:13 final size:13
Alignment explanation
Indices: 46662--46697 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
46652 CTTTATCTCC
*
46662 TTTTTCACTTTTT
1 TTTTTCAATTTTT
46675 TTTTTCAATTTTT
1 TTTTTCAATTTTT
*
46688 TTTTTTAATT
1 TTTTTCAATT
46698 AGAAGAAACG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTTCAATTTTT
Found at i:51000 original size:13 final size:12
Alignment explanation
Indices: 50979--51009 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
50969 AAAATTTCTT
*
50979 AAATTTTTTTAG
1 AAATTTTTTTTG
50991 AAATTTTTTTTG
1 AAATTTTTTTTG
51003 AAATTTT
1 AAATTTT
51010 AGAGAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (12 bp):
AAATTTTTTTTG
Found at i:51279 original size:45 final size:45
Alignment explanation
Indices: 51223--51356 Score: 180
Period size: 46 Copynumber: 3.0 Consensus size: 45
51213 AAATAATTTA
51223 TTTTTTA-TTATCTCTTAATTAATTTAATTTAATTAAAAATAAAT
1 TTTTTTATTTATCTCTTAATTAATTTAATTTAATTAAAAATAAAT
* *
51267 TTTTTTATTTATCTCTTAATTAATTTAATTTAATTAGAGATAATAT
1 TTTTTTATTTATCTCTTAATTAATTTAATTTAATTAAAAATAA-AT
* ** * * *
51313 CTTTCCATTTATCTTTTGATTAATTTAATTTTATTAAAAATAAA
1 TTTTTTATTTATCTCTTAATTAATTTAATTTAATTAAAAATAAA
51357 GTTTGATTGG
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
44 7 0.09
45 34 0.44
46 37 0.47
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.54
Consensus pattern (45 bp):
TTTTTTATTTATCTCTTAATTAATTTAATTTAATTAAAAATAAAT
Found at i:52187 original size:13 final size:13
Alignment explanation
Indices: 52165--52205 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
52155 TTAATTATTT
52165 TTTA-ATATTTTA
1 TTTATATATTTTA
52177 TTTATATATTTTA
1 TTTATATATTTTA
*
52190 TATT-TTTATTTTA
1 T-TTATATATTTTA
52203 TTT
1 TTT
52206 TTAAAATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 6 0.23
13 18 0.69
14 2 0.08
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTATATATTTTA
Found at i:52192 original size:20 final size:19
Alignment explanation
Indices: 52163--52208 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 19
52153 TTTTAATTAT
52163 TTTTTA-ATATTTTATTTATA
1 TTTTTATAT-TTTTATTT-TA
52183 TATTTTATATTTTTATTTTA
1 T-TTTTATATTTTTATTTTA
52203 TTTTTA
1 TTTTTA
52209 AAATAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.21
20 4 0.17
21 13 0.54
22 2 0.08
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTATATTTTTATTTTA
Found at i:52323 original size:15 final size:16
Alignment explanation
Indices: 52289--52323 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
52279 AAGTTTAAAA
52289 AATTATTTTATTAATT
1 AATTATTTTATTAATT
*
52305 AATTATTTT-TTACTT
1 AATTATTTTATTAATT
52320 AATT
1 AATT
52324 TTTACATCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
AATTATTTTATTAATT
Found at i:54711 original size:2 final size:2
Alignment explanation
Indices: 54704--54753 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
54694 AGTAAAAAGT
*
54704 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
54746 CA TA TA TA
1 TA TA TA TA
54754 AATGGTTATG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:55165 original size:26 final size:29
Alignment explanation
Indices: 55127--55183 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 29
55117 AATATTATTG
* *
55127 AATATAATATATTA-ATACTTA-ATATAT
1 AATAAAATATATTATATAATTATATATAT
55154 AATAAAAT-TATTATATAATTATATATAT
1 AATAAAATATATTATATAATTATATATAT
55182 AA
1 AA
55184 ATACTTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 5 0.19
27 13 0.50
28 8 0.31
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (29 bp):
AATAAAATATATTATATAATTATATATAT
Found at i:58065 original size:14 final size:15
Alignment explanation
Indices: 58040--58070 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
58030 AAAAAAAAAC
58040 AACAACAATAATAAT
1 AACAACAATAATAAT
58055 AACAA-AATAATAAT
1 AACAACAATAATAAT
58069 AA
1 AA
58071 TAATAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (15 bp):
AACAACAATAATAAT
Found at i:58071 original size:20 final size:19
Alignment explanation
Indices: 58046--58085 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
58036 AAACAACAAC
58046 AATAATAATAACAAAATAAT
1 AATAATAATAACAAAA-AAT
58066 AATAATAATAACAAAAAAT
1 AATAATAATAACAAAAAAT
58085 A
1 A
58086 TAGAAAGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (19 bp):
AATAATAATAACAAAAAAT
Found at i:61085 original size:16 final size:17
Alignment explanation
Indices: 61048--61104 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
61038 CATTTCTCAA
*
61048 TTATATAATATATATTAT
1 TTATATAATATTTA-TAT
61066 TT-TATTAATATTTATAT
1 TTATA-TAATATTTATAT
*
61083 TTATATAATATGTA-AT
1 TTATATAATATTTATAT
61099 TTATAT
1 TTATAT
61105 CATAGAAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
16 8 0.23
17 15 0.43
18 12 0.34
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
TTATATAATATTTATAT
Found at i:62595 original size:21 final size:21
Alignment explanation
Indices: 62571--62638 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
62561 TTAGAACATC
62571 ATTTTTATATTAAAATAATAT
1 ATTTTTATATTAAAATAATAT
*
62592 ATTTTTAT-TTAAATTTAAT-T
1 ATTTTTATATTAAA-ATAATAT
* *
62612 ATATATTATATAAAAATAA-AT
1 AT-TTTTATATTAAAATAATAT
62633 -TTTTTA
1 ATTTTTA
62639 ATAGGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
19 4 0.11
20 9 0.24
21 21 0.55
22 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTTTTATATTAAAATAATAT
Found at i:63091 original size:2 final size:2
Alignment explanation
Indices: 63086--63117 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
63076 ACACACACAC
63086 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
63118 GTGACCATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64157 original size:22 final size:21
Alignment explanation
Indices: 64131--64184 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
64121 GTTTGTAAGT
*
64131 TTAAATTATTATTAAAAATATA
1 TTAAATTA-TATTAAAAAAATA
*
64153 TTAAA--ATATTAAAAAAATT
1 TTAAATTATATTAAAAAAATA
64172 TTAAATTAATATT
1 TTAAATT-ATATT
64185 TATATATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 16 0.59
20 1 0.04
22 10 0.37
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TTAAATTATATTAAAAAAATA
Found at i:64218 original size:22 final size:22
Alignment explanation
Indices: 64156--64218 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 22
64146 AAATATATTA
*
64156 AAATATTAAAAAAATTTTAAATT
1 AAAT-TTAAATAAATTTTAAATT
* **
64179 AATATTTATATATTTTTTAAATT
1 AA-ATTTAAATAAATTTTAAATT
64202 AAATTTAAATAAATTTT
1 AAATTTAAATAAATTTT
64219 TTTATTAATT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
22 12 0.38
23 18 0.56
24 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AAATTTAAATAAATTTTAAATT
Found at i:64546 original size:13 final size:13
Alignment explanation
Indices: 64528--64553 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
64518 AACCAGGATT
64528 ATAAATTCTTTAA
1 ATAAATTCTTTAA
64541 ATAAATTCTTTAA
1 ATAAATTCTTTAA
64554 TTCATAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
ATAAATTCTTTAA
Found at i:64685 original size:2 final size:2
Alignment explanation
Indices: 64678--64703 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
64668 TTTCAATCAC
64678 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
64704 CACACACACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:70204 original size:25 final size:24
Alignment explanation
Indices: 70176--70232 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 24
70166 AAATTTGTAC
*
70176 TATACATAATTAATATTTTAATATA
1 TATACAAAATTAAT-TTTTAATATA
*
70201 TATATAAAATTAATTTTTAAT-T-
1 TATACAAAATTAATTTTTAATATA
70223 TATA-AAAATT
1 TATACAAAATT
70233 TATATATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 6 0.20
22 4 0.13
23 1 0.03
24 7 0.23
25 12 0.40
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
TATACAAAATTAATTTTTAATATA
Found at i:70422 original size:21 final size:20
Alignment explanation
Indices: 70386--70427 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
70376 AATGATTCTA
*
70386 TTAAAAAATTAAAATATAAT
1 TTAAAAAATTAAAATAAAAT
70406 TTAAAAAA-TAATTAATAAAAT
1 TTAAAAAATTAA--AATAAAAT
70427 T
1 T
70428 AATATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 3 0.16
20 8 0.42
21 8 0.42
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TTAAAAAATTAAAATAAAAT
Found at i:70448 original size:19 final size:19
Alignment explanation
Indices: 70352--70449 Score: 68
Period size: 18 Copynumber: 5.4 Consensus size: 19
70342 GTAATTAATG
70352 AAATTAATATATTATATT-
1 AAATTAATATATTATATTA
* *
70370 AAATTCAAT-GATTCTATTAAA
1 AAATT-AATATATTATATT--A
* *
70391 AAATTAAAATATAAT-TTA
1 AAATTAATATATTATATTA
70409 AAA--AATA-ATTA-A-TA
1 AAATTAATATATTATATTA
70423 AAATTAATATATTATATTA
1 AAATTAATATATTATATTA
*
70442 AATTTAAT
1 AAATTAAT
70450 GAATGAGGTT
Statistics
Matches: 60, Mismatches: 9, Indels: 21
0.67 0.10 0.23
Matches are distributed among these distances:
14 5 0.08
15 3 0.05
16 7 0.12
17 4 0.07
18 17 0.28
19 12 0.20
20 4 0.07
21 8 0.13
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (19 bp):
AAATTAATATATTATATTA
Found at i:70503 original size:38 final size:39
Alignment explanation
Indices: 70420--70505 Score: 102
Period size: 43 Copynumber: 2.1 Consensus size: 39
70410 AAAATAATTA
**
70420 ATAAAATTAATATATTATATTAAATTTAATGAATGAGGTTGAG
1 ATAAAATTAATATATTATATTAAATACAATGAATGA----GAG
*
70463 ATAAAATTAATATATTATATTATATACAATGAATGA-AG
1 ATAAAATTAATATATTATATTAAATACAATGAATGAGAG
70501 ATAAA
1 ATAAA
70506 TGAAATCAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
38 7 0.17
43 33 0.82
ACGTcount: A:0.51, C:0.01, G:0.10, T:0.37
Consensus pattern (39 bp):
ATAAAATTAATATATTATATTAAATACAATGAATGAGAG
Found at i:70527 original size:13 final size:13
Alignment explanation
Indices: 70509--70533 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70499 AGATAAATGA
70509 AATCAAATTAATT
1 AATCAAATTAATT
70522 AATCAAATTAAT
1 AATCAAATTAAT
70534 ATTATATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (13 bp):
AATCAAATTAATT
Found at i:75371 original size:14 final size:14
Alignment explanation
Indices: 75352--75379 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
75342 AAATATTAAA
75352 AATATTTTTATATT
1 AATATTTTTATATT
75366 AATATTTTTATATT
1 AATATTTTTATATT
75380 TTTATAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
AATATTTTTATATT
Found at i:75378 original size:22 final size:22
Alignment explanation
Indices: 75353--75394 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
75343 AATATTAAAA
75353 ATATTTTTAT-ATTAATATTTTT
1 ATATTTTTATAATTAA-ATTTTT
75375 ATATTTTTATAATTAAATTT
1 ATATTTTTATAATTAAATTT
75395 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
ATATTTTTATAATTAAATTTTT
Found at i:75407 original size:28 final size:25
Alignment explanation
Indices: 75375--75425 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 25
75365 TAATATTTTT
75375 ATATTTTTATAATTAAATTTAAATAAAA
1 ATATTTTT-TAATT-AA-TTAAATAAAA
*
75403 ATATTTTTTTATTAATTAAATAA
1 ATATTTTTTAATTAATTAAATAA
75426 TAATTTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 8 0.36
26 2 0.09
27 4 0.18
28 8 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
ATATTTTTTAATTAATTAAATAAAA
Found at i:76035 original size:2 final size:2
Alignment explanation
Indices: 76028--76059 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
76018 CTTTCAATCA
76028 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
76060 CTACACACAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:76555 original size:23 final size:23
Alignment explanation
Indices: 76521--76565 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
76511 GTTAGAGATT
*
76521 TAAATTGCGATTTCCAAGGCATA
1 TAAATTGCGATTTCAAAGGCATA
*
76544 TAAATTGTGATTTCAAAGGCAT
1 TAAATTGCGATTTCAAAGGCAT
76566 TTTCAGTTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (23 bp):
TAAATTGCGATTTCAAAGGCATA
Found at i:78758 original size:15 final size:16
Alignment explanation
Indices: 78738--78767 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
78728 TTGATAGTTA
78738 AAAAT-ATTTTGATAG
1 AAAATAATTTTGATAG
78753 AAAATAATTTTGATA
1 AAAATAATTTTGATA
78768 AAGTAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (16 bp):
AAAATAATTTTGATAG
Found at i:78890 original size:11 final size:11
Alignment explanation
Indices: 78874--78899 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
78864 TAAAATTATC
78874 ATATTTATATT
1 ATATTTATATT
78885 ATATTTATATT
1 ATATTTATATT
78896 ATAT
1 ATAT
78900 GTTTATGGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
ATATTTATATT
Found at i:79157 original size:13 final size:13
Alignment explanation
Indices: 79139--79163 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79129 AAAAATTTAA
79139 AAATATTTATATC
1 AAATATTTATATC
79152 AAATATTTATAT
1 AAATATTTATAT
79164 TTAAATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATATTTATATC
Found at i:80294 original size:19 final size:21
Alignment explanation
Indices: 80258--80305 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
80248 CTAAGTTTTT
*
80258 TTTTTTTTTTTCAGTTTTG-A
1 TTTTTTTTTTTCACTTTTGCA
80278 TTTTTTTTTTT-ACTTTTGCA
1 TTTTTTTTTTTCACTTTTGCA
*
80298 TTATTTTT
1 TTTTTTTT
80306 CATTAGGCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.10, C:0.06, G:0.06, T:0.77
Consensus pattern (21 bp):
TTTTTTTTTTTCACTTTTGCA
Found at i:80304 original size:20 final size:20
Alignment explanation
Indices: 80261--80305 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
80251 AGTTTTTTTT
*
80261 TTTTTTTTCAGTTTTGATT-
1 TTTTTTTTCACTTTTGATTA
*
80280 TTTTTTTTTACTTTTGCATTA
1 TTTTTTTTCACTTTTG-ATTA
80301 TTTTT
1 TTTTT
80306 CATTAGGCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 14 0.64
20 3 0.14
21 5 0.23
ACGTcount: A:0.11, C:0.07, G:0.07, T:0.76
Consensus pattern (20 bp):
TTTTTTTTCACTTTTGATTA
Found at i:87331 original size:79 final size:83
Alignment explanation
Indices: 87220--87607 Score: 282
Period size: 88 Copynumber: 4.6 Consensus size: 83
87210 TTTTCGTATT
* *
87220 AGTAGGAATCTGATACCCCATGCATTTGTCACATCTTTCAAGTTTCAAGAAATATTA-G-T-TT-
1 AGTAGGAATCTGATACCCCATGCATCTGTCACATCTTTCGAGTTTCAAGAAATATTAGGATATTA
*
87281 AATATTTTCTGTCATGTC
66 AATATTTTCTATCATGTC
* * ** * *
87299 AGTAGGAATCTGATACACGATGCATCCATCACATTTTTCGAGTTTTAAGAAATTTATTAGGCATT
1 AGTAGGAATCTGATACCCCATGCATCTGTCACATCTTTCGAGTTTCAAGAAA--TATTAGG-A-T
87364 AATTAAATATTTTCTATCATGTC
62 -ATTAAATATTTTCTATCATGTC
* * * * * *
87387 AGAAGGAATCCGATACCCTATACATCTGTTACATCTTTCGAGTTTCAAGAAATTTATTAGGCGTT
1 AGTAGGAATCTGATACCCCATGCATCTGTCACATCTTTCGAGTTTCAAGAAA--TATTA-G-GAT
* * **
87452 AGTCAAATATTTTCGATCAAATC
62 A-TTAAATATTTTCTATCATGTC
* ** * * * *
87475 AG-AAGAATCTGATACCAAATGCATTTGCCACATCTTTTGAGTTTCAAAAAATTTATTAGGCATT
1 AGTAGGAATCTGATACCCCATGCATCTGTCACATCTTTCGAGTTTCAAGAAA--TATTAGG-A-T
* * * **
87539 AGTCAAATATTTTTTGTTGTGTC
62 A-TTAAATATTTTCTATCATGTC
* * * * *
87562 AGTAGAAATCTAATACCCAATGCATCTGTTACATCTTTCGAATTTC
1 AGTAGGAATCTGATACCCCATGCATCTGTCACATCTTTCGAGTTTC
87608 GAAAAATTTA
Statistics
Matches: 243, Mismatches: 51, Indels: 21
0.77 0.16 0.07
Matches are distributed among these distances:
79 44 0.18
81 5 0.02
82 1 0.00
85 2 0.01
86 1 0.00
87 68 0.28
88 120 0.49
89 1 0.00
90 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (83 bp):
AGTAGGAATCTGATACCCCATGCATCTGTCACATCTTTCGAGTTTCAAGAAATATTAGGATATTA
AATATTTTCTATCATGTC
Found at i:87394 original size:88 final size:88
Alignment explanation
Indices: 87281--87639 Score: 407
Period size: 88 Copynumber: 4.1 Consensus size: 88
87271 ATATTAGTTT
* * * * ** * *
87281 AATATTTTCTGTCATGTCAGTAGGAATCTGATACACGATGCATCCATCACATTTTTCGAGTTTTA
1 AATATTTTCTATCATGTCAGAAGGAATCTGATACCCAATGCATCTGTCACATCTTTCGAGTTTCA
* *
87346 AGAAATTTATTAGGCATTAATTA
66 AGAAATTTATTAGGCATTAGTCA
* * * *
87369 AATATTTTCTATCATGTCAGAAGGAATCCGATACCCTATACATCTGTTACATCTTTCGAGTTTCA
1 AATATTTTCTATCATGTCAGAAGGAATCTGATACCCAATGCATCTGTCACATCTTTCGAGTTTCA
*
87434 AGAAATTTATTAGGCGTTAGTCA
66 AGAAATTTATTAGGCATTAGTCA
* ** * * * *
87457 AATATTTTCGATCAAATCAGAA-GAATCTGATACCAAATGCATTTGCCACATCTTTTGAGTTTCA
1 AATATTTTCTATCATGTCAGAAGGAATCTGATACCCAATGCATCTGTCACATCTTTCGAGTTTCA
*
87521 AAAAATTTATTAGGCATTAGTCA
66 AGAAATTTATTAGGCATTAGTCA
* * ** * * * * *
87544 AATATTTTTTGTTGTGTCAGTAGAAATCTAATACCCAATGCATCTGTTACATCTTTCGAATTTCG
1 AATATTTTCTATCATGTCAGAAGGAATCTGATACCCAATGCATCTGTCACATCTTTCGAGTTTC-
87609 AA-AAATTTATTAGGCATTAGTCA
65 AAGAAATTTATTAGGCATTAGTCA
87632 AATATTTT
1 AATATTTT
87640 TTGTCACATC
Statistics
Matches: 226, Mismatches: 43, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
87 69 0.31
88 155 0.69
89 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (88 bp):
AATATTTTCTATCATGTCAGAAGGAATCTGATACCCAATGCATCTGTCACATCTTTCGAGTTTCA
AGAAATTTATTAGGCATTAGTCA
Found at i:87550 original size:175 final size:174
Alignment explanation
Indices: 87141--87645 Score: 506
Period size: 175 Copynumber: 2.9 Consensus size: 174
87131 TCGTGTTAGA
* * * *
87141 AATCTGATATC-CCATGCATACATCACATCTTTT-AGGTTCCAAGAAATTTATTAGGCATTAGTC
1 AATCTGATA-CACAATGCATCCACCACATCTTTTGA-GTTTCAAGAAATTTATTAGGCATTAGTC
* * * *
87204 AAATATTTTTCGTAT-T-AGTAGGAATCTGATACCCCATGCATTTGTCACATCTTTCAAGTTTCA
64 AAATATTTTT-GTATGTCAGTAGGAATCTGATACCCAATGCATCTGTTACATCTTTCGAGTTTCA
** *
87267 AGAAA--TATTA---GTT--T--AATATTTTCTGTCATGTCAGTAGG
128 AGAAATTTATTAGGCGTTAGTCAAATATTTTCTGTCAAATCAGTAAG
* * * * *
87305 AATCTGATACACGATGCATCCATCACAT-TTTTCGAGTTTTAAGAAATTTATTAGGCATTAATTA
1 AATCTGATACACAATGCATCCACCACATCTTTT-GAGTTTCAAGAAATTTATTAGGCATTAGTCA
* * * * *
87369 AATATTTTCTATCATGTCAGAAGGAATCCGATACCCTATACATCTGTTACATCTTTCGAGTTTCA
65 AATATTTT-TGT-ATGTCAGTAGGAATCTGATACCCAATGCATCTGTTACATCTTTCGAGTTTCA
87434 AGAAATTTATTAGGCGTTAGTCAAATATTTTC-GATCAAATCAG-AAG
128 AGAAATTTATTAGGCGTTAGTCAAATATTTTCTG-TCAAATCAGTAAG
*** *
87480 AATCTGATAC-CAAATGCATTTGCCACATCTTTTGAGTTTCAAAAAATTTATTAGGCATTAGTCA
1 AATCTGATACAC-AATGCATCCACCACATCTTTTGAGTTTCAAGAAATTTATTAGGCATTAGTCA
* * * *
87544 AATATTTTTTGTTGTGTCAGTAGAAATCTAATACCCAATGCATCTGTTACATCTTTCGAATTTCG
65 AATA-TTTTTG-TATGTCAGTAGGAATCTGATACCCAATGCATCTGTTACATCTTTCGAGTTTC-
* *
87609 AA-AAATTTATTAGGCATTAGTCAAATATTTTTTGTCA
127 AAGAAATTTATTAGGCGTTAGTCAAATATTTTCTGTCA
87646 CATCTTTCAA
Statistics
Matches: 281, Mismatches: 37, Indels: 35
0.80 0.10 0.10
Matches are distributed among these distances:
163 5 0.02
164 58 0.21
165 4 0.01
166 1 0.00
167 45 0.16
169 5 0.02
172 3 0.01
174 2 0.01
175 130 0.46
176 28 0.10
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.38
Consensus pattern (174 bp):
AATCTGATACACAATGCATCCACCACATCTTTTGAGTTTCAAGAAATTTATTAGGCATTAGTCAA
ATATTTTTGTATGTCAGTAGGAATCTGATACCCAATGCATCTGTTACATCTTTCGAGTTTCAAGA
AATTTATTAGGCGTTAGTCAAATATTTTCTGTCAAATCAGTAAG
Found at i:87675 original size:53 final size:54
Alignment explanation
Indices: 87592--87694 Score: 149
Period size: 53 Copynumber: 1.9 Consensus size: 54
87582 TGCATCTGTT
*
87592 ACATCTTTCGAATTTCGAAAAATTTATTAGGC-ATTAGTCAAATATTTTTTGTC
1 ACATCTTTCGAATTTCGAAAAATGTATTAGGCAATTAGTCAAATATTTTTTGTC
87645 ACATCTTTC-AAGTTTC-AAGAAATGTATTAGGCATATTAGTCAAATATTTT
1 ACATCTTTCGAA-TTTCGAA-AAATGTATTAGGCA-ATTAGTCAAATATTTT
87695 CTATCGTGTC
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
52 4 0.09
53 25 0.56
55 16 0.36
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.42
Consensus pattern (54 bp):
ACATCTTTCGAATTTCGAAAAATGTATTAGGCAATTAGTCAAATATTTTTTGTC
Found at i:88091 original size:15 final size:15
Alignment explanation
Indices: 88071--88120 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
88061 TATCGCTAGT
88071 GCTTCTTCTTGAATG
1 GCTTCTTCTTGAATG
*
88086 GCTTCTTATTGAATG
1 GCTTCTTCTTGAATG
* *
88101 GTTTCTTCTTGAGTG
1 GCTTCTTCTTGAATG
88116 GCTTC
1 GCTTC
88121 ATTTACAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (15 bp):
GCTTCTTCTTGAATG
Found at i:90175 original size:19 final size:19
Alignment explanation
Indices: 90151--90212 Score: 106
Period size: 19 Copynumber: 3.2 Consensus size: 19
90141 AAATTATACC
90151 TTAATCTTTCAAACAAATT
1 TTAATCTTTCAAACAAATT
90170 TTAATCTTTCAAACAAATCT
1 TTAATCTTTCAAACAAAT-T
*
90190 TAAATCTTTCAAACAAATT
1 TTAATCTTTCAAACAAATT
90209 TTAA
1 TTAA
90213 CCGCTAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 22 0.55
20 18 0.45
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (19 bp):
TTAATCTTTCAAACAAATT
Found at i:90212 original size:20 final size:20
Alignment explanation
Indices: 90153--90212 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
90143 ATTATACCTT
90153 AATCTTTCAAACAAATTTT-
1 AATCTTTCAAACAAATTTTA
*
90172 AATCTTTCAAACAAATCTTA
1 AATCTTTCAAACAAATTTTA
90192 AATCTTTCAAACAAATTTTA
1 AATCTTTCAAACAAATTTTA
90212 A
1 A
90213 CCGCTAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 18 0.47
20 20 0.53
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (20 bp):
AATCTTTCAAACAAATTTTA
Found at i:90279 original size:6 final size:6
Alignment explanation
Indices: 90268--90293 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
90258 TAATAAACTA
90268 TAAAAT TAAAAT TAAAAT TAAAAT TA
1 TAAAAT TAAAAT TAAAAT TAAAAT TA
90294 TTTATTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TAAAAT
Found at i:90664 original size:12 final size:12
Alignment explanation
Indices: 90642--90676 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
90632 ACAAACAAAT
90642 AAAACAAAAAAACC
1 AAAA-AAAAAAA-C
90656 AAAAAAAAAAAC
1 AAAAAAAAAAAC
90668 AAAAAAAAA
1 AAAAAAAAA
90677 CCTATCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 10 0.48
13 7 0.33
14 4 0.19
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:90668 original size:21 final size:22
Alignment explanation
Indices: 90633--90674 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
90623 GTGACCCTAA
*
90633 CAAACAAATAAAACAAAAAAAC
1 CAAACAAAAAAAACAAAAAAAC
90655 CAAA-AAAAAAAACAAAAAAA
1 CAAACAAAAAAAACAAAAAAA
90675 AACCTATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.83, C:0.14, G:0.00, T:0.02
Consensus pattern (22 bp):
CAAACAAAAAAAACAAAAAAAC
Found at i:90704 original size:13 final size:13
Alignment explanation
Indices: 90642--90676 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
90632 ACAAACAAAT
*
90642 AAAACAAAAAAAC
1 AAAAAAAAAAAAC
*
90655 CAAAAAAAAAAAC
1 AAAAAAAAAAAAC
90668 AAAAAAAAA
1 AAAAAAAAA
90677 CCTATCAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:90782 original size:12 final size:13
Alignment explanation
Indices: 90738--90784 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
90728 ATACAATAAA
*
90738 ATTAAATTTAATT
1 ATTAAATTAAATT
* *
90751 ATGAAAATAAATT
1 ATTAAATTAAATT
*
90764 ATAAAATTAAATT
1 ATTAAATTAAATT
90777 -TTAAATTA
1 ATTAAATTA
90785 TTTATTTAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
12 7 0.25
13 21 0.75
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (13 bp):
ATTAAATTAAATT
Found at i:92302 original size:25 final size:24
Alignment explanation
Indices: 92254--92306 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
92244 TAAAACTTAG
*
92254 TATTGTGTTTTAATATTTTATATA
1 TATTATGTTTTAATATTTTATATA
* *
92278 TATTATGTTCTTATTATTTTTTATA
1 TATTATGTT-TTAATATTTTATATA
92303 TATT
1 TATT
92307 TAAAGTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.66
Consensus pattern (24 bp):
TATTATGTTTTAATATTTTATATA
Found at i:93779 original size:19 final size:18
Alignment explanation
Indices: 93739--93788 Score: 75
Period size: 17 Copynumber: 2.8 Consensus size: 18
93729 TAATTTTGAG
*
93739 TTTTTTATTAATTCTTTA
1 TTTTTTATCAATTCTTTA
93757 -TTTTTATCAATTCTTTA
1 TTTTTTATCAATTCTTTA
93774 TTTTTTTATCAATTC
1 -TTTTTTATCAATTC
93789 CTTACTAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 16 0.55
19 13 0.45
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTTATCAATTCTTTA
Found at i:94227 original size:2 final size:2
Alignment explanation
Indices: 94214--94250 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
94204 CCAAAATACA
*
94214 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
94251 ATAGATTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:94837 original size:16 final size:17
Alignment explanation
Indices: 94811--94856 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
94801 TATAATTTTT
94811 TATTAATTATTAATTATA
1 TATTAA-TATTAATTATA
* *
94829 T-TTAATATTTATTTTA
1 TATTAATATTAATTATA
94845 TATTAA-ATTAAT
1 TATTAATATTAAT
94857 ATTTAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 15 0.62
17 8 0.33
18 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTAATATTAATTATA
Found at i:95416 original size:21 final size:20
Alignment explanation
Indices: 95379--95426 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
95369 TAAATTAAAC
95379 TTTAAA-TAGAATATTTTGTAA
1 TTTAAATTAGAATATTTT-T-A
*
95400 TTTAAATTAG-ATTTTTTTA
1 TTTAAATTAGAATATTTTTA
95419 TTTAAATT
1 TTTAAATT
95427 TATCTAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 9 0.36
20 1 0.04
21 12 0.48
22 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTAAATTAGAATATTTTTA
Found at i:95807 original size:2 final size:2
Alignment explanation
Indices: 95800--95839 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
95790 CTAGAAAACG
95800 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95840 GGCACTTGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96375 original size:19 final size:20
Alignment explanation
Indices: 96342--96381 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
96332 AATCCATTTC
96342 AATAGTAATTATATTATTAA
1 AATAGTAATTATATTATTAA
*
96362 AATA-TAATTTTATTATTAA
1 AATAGTAATTATATTATTAA
96381 A
1 A
96382 TAATAATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
AATAGTAATTATATTATTAA
Found at i:96387 original size:19 final size:19
Alignment explanation
Indices: 96342--96389 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
96332 AATCCATTTC
*
96342 AATAGTAATTATATTATTA
1 AATAATAATTATATTATTA
*
96361 AA-ATATAATTTTATTATTA
1 AATA-ATAATTATATTATTA
96380 AATAATAATT
1 AATAATAATT
96390 CAAACTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 1 0.04
19 23 0.92
20 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
AATAATAATTATATTATTA
Found at i:96582 original size:48 final size:48
Alignment explanation
Indices: 96506--96597 Score: 175
Period size: 48 Copynumber: 1.9 Consensus size: 48
96496 TACCTCAGGT
96506 AAGTCCATCTATGCATATACTTTCATTTCCATGATATTTTACTTAGAC
1 AAGTCCATCTATGCATATACTTTCATTTCCATGATATTTTACTTAGAC
*
96554 AAGTTCATCTATGCATATACTTTCATTTCCATGATATTTTACTT
1 AAGTCCATCTATGCATATACTTTCATTTCCATGATATTTTACTT
96598 CTTAATGAAC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.45
Consensus pattern (48 bp):
AAGTCCATCTATGCATATACTTTCATTTCCATGATATTTTACTTAGAC
Found at i:97420 original size:14 final size:14
Alignment explanation
Indices: 97403--97429 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
97393 TTTAAAAAAT
97403 TATTTTTATATTTA
1 TATTTTTATATTTA
97417 TATTTTTATATTT
1 TATTTTTATATTT
97430 TATAATAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTTTTATATTTA
Found at i:97465 original size:20 final size:20
Alignment explanation
Indices: 97440--97479 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
97430 TATAATAAAA
97440 TTTAAATACAATAAT-ATTTT
1 TTTAAAT-CAATAATAATTTT
*
97460 TTTAAATGAATAATAATTTT
1 TTTAAATCAATAATAATTTT
97480 AGTCTAGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (20 bp):
TTTAAATCAATAATAATTTT
Found at i:98176 original size:30 final size:29
Alignment explanation
Indices: 98142--98198 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
98132 TAATTATGTT
*
98142 TAAAAT-ATTATATATTTATATAATTTTTGA
1 TAAAATAATT-TATA-TTATATAAATTTTGA
98172 TAAAATAATTTATATTATATAAATTTT
1 TAAAATAATTTATATTATATAAATTTT
98199 AACGTGTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 12 0.48
30 10 0.40
31 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (29 bp):
TAAAATAATTTATATTATATAAATTTTGA
Found at i:98331 original size:2 final size:2
Alignment explanation
Indices: 98324--98361 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
98314 CATGTGAAAT
98324 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
98362 ATTGCATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:101387 original size:23 final size:23
Alignment explanation
Indices: 101351--101396 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
101341 AAATATTTTT
* *
101351 TAAAAATTATTTATATAA-ATTAA
1 TAAAAAATAATTATA-AATATTAA
101374 TAAAAAATAATTATAAATATTAA
1 TAAAAAATAATTATAAATATTAA
101397 AAATAAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
TAAAAAATAATTATAAATATTAA
Found at i:101690 original size:11 final size:11
Alignment explanation
Indices: 101674--101716 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
101664 ATAATTAATA
101674 TATTTATATTT
1 TATTTATATTT
*
101685 TATTTATATAT
1 TATTTATATTT
*
101696 T-TTTATATTA
1 TATTTATATTT
*
101706 TAATTATATTT
1 TATTTATATTT
101717 AAAATATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TATTTATATTT
Found at i:101700 original size:21 final size:21
Alignment explanation
Indices: 101664--101714 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
101654 TATTAATTTA
101664 ATAATTA-ATATATTTATATT
1 ATAATTATATATATTTATATT
* * *
101684 TTATTTATATATTTTTATATT
1 ATAATTATATATATTTATATT
101705 ATAATTATAT
1 ATAATTATAT
101715 TTAAAATATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
ATAATTATATATATTTATATT
Found at i:101702 original size:27 final size:27
Alignment explanation
Indices: 101672--101808 Score: 72
Period size: 26 Copynumber: 5.2 Consensus size: 27
101662 TAATAATTAA
101672 TATATTTATATTTTATTTATATATTTT
1 TATATTTATATTTTATTTATATATTTT
* *
101699 TATA-TTATAATTATATTTAAAATATTTT
1 TATATTTAT-ATTTTATTT-ATATATTTT
* ** * *
101727 ATATTTTTATAAATT-TTAATA-ATTTA
1 -TATATTTATATTTTATTTATATATTTT
* *
101753 TATTATATAAATTTTA--T-TATATTTT
1 TA-TATTTATATTTTATTTATATATTTT
* * **
101778 TATATTCATATTATATCAATAT-TTTT
1 TATATTTATATTTTATTTATATATTTT
101804 TATAT
1 TATAT
101809 CGTATTAAAT
Statistics
Matches: 79, Mismatches: 21, Indels: 21
0.65 0.17 0.17
Matches are distributed among these distances:
24 11 0.14
25 8 0.10
26 24 0.30
27 17 0.22
28 10 0.13
29 5 0.06
30 4 0.05
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (27 bp):
TATATTTATATTTTATTTATATATTTT
Found at i:101706 original size:19 final size:19
Alignment explanation
Indices: 101671--101782 Score: 60
Period size: 17 Copynumber: 6.2 Consensus size: 19
101661 TTAATAATTA
* *
101671 ATATATTTATATTTTATTT
1 ATATATTTTTATATTATTT
*
101690 ATATATTTTTATATTA-TA
1 ATATATTTTTATATTATTT
* * *
101708 AT-TATATTTAAAATATTT
1 ATATATTTTTATATTATTT
*
101726 -TATATTTTTATA-AATTT
1 ATATATTTTTATATTATTT
* *
101743 -TA-ATAATTTATATTATAT
1 ATATAT-TTTTATATTATTT
*
101761 AAAT-TTTATTATATT-TTT
1 ATATATTT-TTATATTATTT
101779 ATAT
1 ATAT
101783 TCATATTATA
Statistics
Matches: 69, Mismatches: 17, Indels: 15
0.68 0.17 0.15
Matches are distributed among these distances:
16 2 0.03
17 23 0.33
18 21 0.30
19 23 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATATATTTTTATATTATTT
Found at i:101776 original size:25 final size:25
Alignment explanation
Indices: 101719--101768 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
101709 TTATATTTAA
* *
101719 AATATTTTATATTTTTATAAATTTT
1 AATAATTTATATTTATATAAATTTT
101744 AATAATTTATA-TTATATAAATTTT
1 AATAATTTATATTTATATAAATTTT
101768 A
1 A
101769 TTATATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
AATAATTTATATTTATATAAATTTT
Found at i:101868 original size:20 final size:19
Alignment explanation
Indices: 101832--101877 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
101822 ATGTCATATT
* *
101832 TTAATTATTTTTTATATAA
1 TTAATTATATTTAATATAA
*
101851 TTATATTATATTTAATATTA
1 TTA-ATTATATTTAATATAA
101871 TTAATTA
1 TTAATTA
101878 AAAAAAAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTAATTATATTTAATATAA
Found at i:103515 original size:15 final size:16
Alignment explanation
Indices: 103479--103518 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
103469 ACAATAAAAA
103479 ATAATAATAAAATATG
1 ATAATAATAAAATATG
103495 AT-ATAA-AAAATTAT-
1 ATAATAATAAAA-TATG
103509 ATAATAATAA
1 ATAATAATAA
103519 CATAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
14 6 0.29
15 11 0.52
16 4 0.19
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (16 bp):
ATAATAATAAAATATG
Found at i:104236 original size:20 final size:20
Alignment explanation
Indices: 104194--104236 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
104184 CTAACTAGTT
* *
104194 TTAATTTTAATATTCAAACA
1 TTAAATTTAATATTCAAAAA
104214 TTAAATTTAATA-TCAAATAA
1 TTAAATTTAATATTCAAA-AA
104234 TTA
1 TTA
104237 TTAAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (20 bp):
TTAAATTTAATATTCAAAAA
Found at i:107110 original size:31 final size:31
Alignment explanation
Indices: 107068--107129 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
107058 GCACTTGAAA
107068 CCAGCAACTCGAG-CTTCTTCCAGCTTCCACG
1 CCAGCAACTCGAGCCTT-TTCCAGCTTCCACG
*
107099 CCAGCAGCTCGAGCCTTTTCCAGCTTCCACG
1 CCAGCAACTCGAGCCTTTTCCAGCTTCCACG
107130 AACATAGCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 26 0.90
32 3 0.10
ACGTcount: A:0.18, C:0.42, G:0.18, T:0.23
Consensus pattern (31 bp):
CCAGCAACTCGAGCCTTTTCCAGCTTCCACG
Found at i:107200 original size:16 final size:16
Alignment explanation
Indices: 107154--107202 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
107144 CCGCGAACAC
107154 TCCAGCAATGACAGCA
1 TCCAGCAATGACAGCA
* * *
107170 TCCACCAA-CAGCAGCT
1 TCCAGCAATGA-CAGCA
107186 TCCAGCAATGACAGCA
1 TCCAGCAATGACAGCA
107202 T
1 T
107203 TGAACAACGG
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
15 1 0.04
16 23 0.92
17 1 0.04
ACGTcount: A:0.35, C:0.35, G:0.16, T:0.14
Consensus pattern (16 bp):
TCCAGCAATGACAGCA
Found at i:107999 original size:16 final size:15
Alignment explanation
Indices: 107978--108008 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
107968 AAAATTTAAA
107978 AAAATAATAACAAAAT
1 AAAATAATAA-AAAAT
107994 AAAATAATAAAAAAT
1 AAAATAATAAAAAAT
108009 TCTTTTCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAATAATAAAAAAT
Found at i:109660 original size:991 final size:985
Alignment explanation
Indices: 107720--109697 Score: 3302
Period size: 991 Copynumber: 2.0 Consensus size: 985
107710 TGAATTTGAT
107720 TGGAAGAAATAATGATATTGTGCTTTTTTTTAATTTATAAGTTATTTTAATAATGTTCGTAAAAT
1 TGGAAGAAATAATGATATTGTGCTTTTTTTTAATTTATAAGTTATTTTAATAATGTTCGTAAAAT
*
107785 TAGGGACTAAATCGAAAAGGAATAGAGGTTAAAGGGTTTAATAGTAATTTTTAGATTTTGATGAA
66 TAGGGACTAAATCAAAAAGGAATAGAGGTTAAAGGGTTTAATAGTAATTTTTAGATTTTGATGAA
*
107850 AATATCCTCATACTAATCATTTTCATATATTTCTAATATTCCCATGGGTGTCTGCGAGAGTATTA
131 AATATCCTCATACTAATCATTTTCATATATTTCTAATATTCCCATGGGTGTCCGCGAGAGTATTA
*
107915 GAAATAGTCAAAACCTTTCGTATTTTTTCAAGTTTCCATTAAGGTACGAAAGTAAAATTTAAAAA
196 AAAATAGTCAAAACCTTTCGTATTTTTTCAAGTTTCCATTAAGGTACGAAAGTAAAATTTAAAAA
*
107980 AATAATAACAAAATAAAATAATAAAAAATTCTTTTCATCTAATAACAATTATCACCAAAATTTTT
261 AATAATAACAAAATAAAATAATAAAAAATTATTTTCATCTAATAACAATTATCACCAAAATTTTT
*
108045 GAAATTTTTAATATTTTCATGGGTATCCGTAGGGGTATGGAATTTTCTTCAAACATTTTGTATCT
326 GAAATTTTTAATATTTTCATGGGTATCCGTAGGGGTATGGAATTTTCTTCAAACATTTCGTATCT
* * *
108110 TTTCGGGCTTCTATTGAGGTATGAAATAAATTTTTCGAAGATTGAAAAATCAAAGAAAAATTATT
391 CTTCGGGCTTCTATTGAGATATAAAATAAATTTTTCGAAGATTGAAAAATCAAAGAAAAATTATT
** *
108175 TTCTTAATATTTCAAGATTTCTTTAATATTCTTATGATTTTTTGTAGGGGTATGAAAAATTTTAA
456 TTCTTAATATTTCAAGATTTCTTTAATATTCTTATGATTTTCCGTAAGGGTATGAAAAATTTTAA
* * * *
108240 TACTTTTTGTATCCCCTTATTTTTTATCGGGTACGAAACATAAAGTTTTAAAATTTCGAAGTTAA
521 TACCTTTCGTATCCCCTGATTTTTCATCGGGTACGAAACATAAAGTTTTAAAATTTCGAAGTTAA
108305 TTTTAAAAAATAAAACAAATTTCGGTTTCCTTAAATCAATAACAAAAAAATGTGTGGTCTTTTAT
586 TTTTAAAAAATAAAACAAATTTCGGTTTCCTTAAATCAATAACAAAAAAATGTGTGGTCTTTTAT
* *
108370 TCACTCGAGTCATATTTTCATACTATTATGGGTTTTCTGTAGGGGTATGAAAAATCCCTAAAATT
651 TCACTCGAGTCATATTTTCATACTATTATGGGTTTTCTGTAAGGATATGAAAAATCCCTAAAATT
* ** *
108435 CGTATCCTTTGGTGTTCCATTGGGTACGAGATGAAGTTTTAAAACATAGATATTTACACGTAATT
716 CGTATCCCTTAATGTTCCATTGGGTACGAGATGAAGTTTTAAAACATAGACATTTACACGTAATT
** * *
108500 CTTGAAAATTTTCCATTTAGGATAAAATTATTTTATTAATCTTTATTTCAATGTCCCGGGATGCT
781 CTTGAAAATTACCCATTTAGGATAAAATTAATTTATTAATCTTTATTTCAATATCCCGGGATGCT
* *
108565 TTTACGTCAAAATTTACCTTGAGGAATATTTTTGTATTTCTTTCCAAAATCGAGTTTTAAATAAA
846 TTTAAGTCAAAATTTACCTTGAGGAATATTTCTGTATTTCTTTCCAAAATCGAGTTTTAAATAAA
*
108630 ATTTGGATATTTTCAAAGATAAAGGTAATATCTCGAAGTTAAAAAGGTACATGAAATTTCTCCCA
911 ATTTGGATATTTTAAAAGATAAAGGTAATATCTCGAAGTTAAAAAGGTACATGAAATTTCTCCCA
108695 TCCATATATA
976 TCCATATATA
* *
108705 TGGAAGAAATAATGATATTGTGTTTTTTTTTTAATTTTATAAGTTGTTTTAATAATGTTCGTAAA
1 TGGAAGAAATAATGATATTGTG-CTTTTTTTTAA-TTTATAAGTTATTTTAATAATGTTCGTAAA
108770 ATTAGGGACTAAATCAAAAAGGAATAGAGGTTAAAGGGTTTAATAGTAATTTTTAGATTTTGATG
64 ATTAGGGACTAAATCAAAAAGGAATAGAGGTTAAAGGGTTTAATAGTAATTTTTAGATTTTGATG
* *
108835 AAAATATCCTCATACTAATCATTTTCATATATTTTTAATATTCCCATGGGTGTCCGCGGGAGTAT
129 AAAATATCCTCATACTAATCATTTTCATATATTTCTAATATTCCCATGGGTGTCCGCGAGAGTAT
*** *
108900 TAAAAATAGTCAAAACCTTTCGTATTTTTTTGGGTTTCTATTAAGGTACGAAAGTAAAATTTAAA
194 TAAAAATAGTCAAAACCTTTCGTATTTTTTCAAGTTTCCATTAAGGTACGAAAGTAAAATTT-AA
108965 AAAATATAATAACAAAATAAAATAATAAAAAAATTATTTTCATCTAATAACAATTATCACCGAAA
258 AAAA-ATAATAACAAAATAAAATAAT-AAAAAATTATTTTCATCTAATAACAATTATCACC-AAA
* *
109030 TTTTTTGAAATTTTTAATATTTTCATGGGTATCCGT-GGAGTTATGGAATTTTCTTCAAACATTT
320 ATTTTTGAAATTTTTAATATTTTCATGGGTATCCGTAGG-GGTATGGAATTTTCTTCAAACATTT
109094 CGTATCTCTTCGGGCTT-TCATTGAGATATAAAATAAATTTTTCGAAGATTGAAAAATCAAAGAA
384 CGTATCTCTTCGGGCTTCT-ATTGAGATATAAAATAAATTTTTCGAAGATTGAAAAATCAAAGAA
*
109158 AAATTGTTTTCTTAATATTTCAAGATTTCTTTAATATTCTTAT-AGTTTTCCGTAAGGGTATGAA
448 AAATTATTTTCTTAATATTTCAAGATTTCTTTAATATTCTTATGA-TTTTCCGTAAGGGTATGAA
* * * *
109222 AAATTTTAATGCCTTTCGTATCCCCTGGTTTTTCGTCGGGTACGAAACATAAATTTTTAAAATTT
512 AAATTTTAATACCTTTCGTATCCCCTGATTTTTCATCGGGTACGAAACATAAAGTTTTAAAATTT
*
109287 TGAAGTTAATTTTAAAAAATAAAACAAATTTCGGTTTCCTTAAATCAATAACAAAAAAAATGTGT
577 CGAAGTTAATTTTAAAAAATAAAACAAATTTCGGTTTCCTTAAATCAATAAC-AAAAAAATGTGT
* *
109352 GGTCTTTTATTCACTCGAGTCATATTTTCATACTCTTATGAGTTTT-TCGTAAGGATATGAAAAA
641 GGTCTTTTATTCACTCGAGTCATATTTTCATACTATTATGGGTTTTCT-GTAAGGATATGAAAAA
* * *
109416 TTCTTAAAATTCGTATCCCTTAATGTTCCATTGGGTACGAGATGAATTTTTAAAACATAGACATT
705 TCCCTAAAATTCGTATCCCTTAATGTTCCATTGGGTACGAGATGAAGTTTTAAAACATAGACATT
*
109481 TATACGTAATTCTTGAAAATTACCCATTTAGGAT-AAATTAATTTATTAATCTTTATTTCAATAT
770 TACACGTAATTCTTGAAAATTACCCATTTAGGATAAAATTAATTTATTAATCTTTATTTCAATAT
* * *
109545 CCGGGGATGCTTTTAAGTCAAAATTTACCCTT-AGGGATATTTCTGTATTTCTTTTCAAAATCGA
835 CCCGGGATGCTTTTAAGTCAAAATTTA-CCTTGAGGAATATTTCTGTATTTCTTTCCAAAATCGA
* *
109609 GTTTTAAATAAAATTTGGATATTTTAAAAGATAAAGGTAATGTCTCGAAGTTAAAATGGTACATG
899 GTTTTAAATAAAATTTGGATATTTTAAAAGATAAAGGTAATATCTCGAAGTTAAAAAGGTACATG
*
109674 AAATTTCTCTCATCCATATATA
964 AAATTTCTCCCATCCATATATA
109696 TG
1 TG
109698 AGAGAGGTTT
Statistics
Matches: 925, Mismatches: 56, Indels: 18
0.93 0.06 0.02
Matches are distributed among these distances:
985 22 0.02
986 10 0.01
987 212 0.23
988 6 0.01
989 21 0.02
990 37 0.04
991 454 0.49
992 163 0.18
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.40
Consensus pattern (985 bp):
TGGAAGAAATAATGATATTGTGCTTTTTTTTAATTTATAAGTTATTTTAATAATGTTCGTAAAAT
TAGGGACTAAATCAAAAAGGAATAGAGGTTAAAGGGTTTAATAGTAATTTTTAGATTTTGATGAA
AATATCCTCATACTAATCATTTTCATATATTTCTAATATTCCCATGGGTGTCCGCGAGAGTATTA
AAAATAGTCAAAACCTTTCGTATTTTTTCAAGTTTCCATTAAGGTACGAAAGTAAAATTTAAAAA
AATAATAACAAAATAAAATAATAAAAAATTATTTTCATCTAATAACAATTATCACCAAAATTTTT
GAAATTTTTAATATTTTCATGGGTATCCGTAGGGGTATGGAATTTTCTTCAAACATTTCGTATCT
CTTCGGGCTTCTATTGAGATATAAAATAAATTTTTCGAAGATTGAAAAATCAAAGAAAAATTATT
TTCTTAATATTTCAAGATTTCTTTAATATTCTTATGATTTTCCGTAAGGGTATGAAAAATTTTAA
TACCTTTCGTATCCCCTGATTTTTCATCGGGTACGAAACATAAAGTTTTAAAATTTCGAAGTTAA
TTTTAAAAAATAAAACAAATTTCGGTTTCCTTAAATCAATAACAAAAAAATGTGTGGTCTTTTAT
TCACTCGAGTCATATTTTCATACTATTATGGGTTTTCTGTAAGGATATGAAAAATCCCTAAAATT
CGTATCCCTTAATGTTCCATTGGGTACGAGATGAAGTTTTAAAACATAGACATTTACACGTAATT
CTTGAAAATTACCCATTTAGGATAAAATTAATTTATTAATCTTTATTTCAATATCCCGGGATGCT
TTTAAGTCAAAATTTACCTTGAGGAATATTTCTGTATTTCTTTCCAAAATCGAGTTTTAAATAAA
ATTTGGATATTTTAAAAGATAAAGGTAATATCTCGAAGTTAAAAAGGTACATGAAATTTCTCCCA
TCCATATATA
Found at i:110617 original size:36 final size:36
Alignment explanation
Indices: 110539--110616 Score: 149
Period size: 36 Copynumber: 2.2 Consensus size: 36
110529 TTTTCATTAG
110539 GATTTTTCACATTACTTAATTTGCTTTAAAATTTAA
1 GATTTTTCACATTACTTAATTTGCTTTAAAATTTAA
110575 GATTTTTCACATTACTTAATTTGCTTTAAAATTTAA
1 GATTTTTCACATTACTTAATTTGCTTTAAAATTTAA
110611 -ATTTTT
1 GATTTTT
110617 TTATTATAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 6 0.14
36 36 0.86
ACGTcount: A:0.32, C:0.10, G:0.05, T:0.53
Consensus pattern (36 bp):
GATTTTTCACATTACTTAATTTGCTTTAAAATTTAA
Found at i:110907 original size:2 final size:2
Alignment explanation
Indices: 110900--110926 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
110890 AACTCAGACG
110900 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
110927 AAATTCTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:111922 original size:31 final size:31
Alignment explanation
Indices: 111886--111945 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 31
111876 ATAAAAGTTG
111886 TTTATTTAGAAGG-TCCTCCAAATTTTACATA
1 TTTATTTAGAAGGTTCC-CCAAATTTTACATA
111917 TTTATTTAGAAGGTTCCCCAAATTTTACA
1 TTTATTTAGAAGGTTCCCCAAATTTTACA
111946 GTCAACTATC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 25 0.89
32 3 0.11
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.42
Consensus pattern (31 bp):
TTTATTTAGAAGGTTCCCCAAATTTTACATA
Found at i:112566 original size:16 final size:16
Alignment explanation
Indices: 112547--112603 Score: 57
Period size: 15 Copynumber: 3.6 Consensus size: 16
112537 GATTGGATCG
112547 TTTTAATTTTAAGATA
1 TTTTAATTTTAAGATA
*
112563 TTTTGAA-TTT-AGTTA
1 TTTT-AATTTTAAGATA
112578 TTTTAATTTTAA-ATTA
1 TTTTAATTTTAAGA-TA
112594 TTTTTAATTT
1 -TTTTAATTT
112604 AAGTTACTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 11 0.32
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (16 bp):
TTTTAATTTTAAGATA
Found at i:112582 original size:31 final size:32
Alignment explanation
Indices: 112547--112609 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
112537 GATTGGATCG
112547 TTTTAATTTTAAGA-TATTTTGAATTT-AGTTA
1 TTTTAATTTTAA-ATTATTTTGAATTTAAGTTA
*
112578 TTTTAATTTTAAATTATTTTTAATTTAAGTTA
1 TTTTAATTTTAAATTATTTTGAATTTAAGTTA
112610 CTATGTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 1 0.03
31 23 0.79
32 5 0.17
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.60
Consensus pattern (32 bp):
TTTTAATTTTAAATTATTTTGAATTTAAGTTA
Done.