Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167986.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_243, 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: 44336
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
File 1 of 2
Found at i:140 original size:16 final size:16
Alignment explanation
Indices: 119--149 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
109 ATTTAATGTT
*
119 ATATTAATATTAATTA
1 ATATTAAGATTAATTA
135 ATATTAAGATTAATT
1 ATATTAAGATTAATT
150 TAGTATAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
ATATTAAGATTAATTA
Found at i:1049 original size:18 final size:18
Alignment explanation
Indices: 1028--1074 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
1018 TATTATAAGG
1028 ATTTTAATT-TTAATATTA
1 ATTTTAATTATTAAT-TTA
1046 A-TTTAATTATTAATTTA
1 ATTTTAATTATTAATTTA
*
1063 TTTTTAA-TATTA
1 ATTTTAATTATTA
1075 TTAAATAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTAATTATTAATTTA
Found at i:1088 original size:28 final size:29
Alignment explanation
Indices: 1030--1093 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
1020 TTATAAGGAT
* * * **
1030 TTTAATTTTAATATTAATTTAATTATTAA
1 TTTATTTTTAATATTAATTAAATAACAAA
1059 TTTATTTTTAATATT-ATTAAATAACAAA
1 TTTATTTTTAATATTAATTAAATAACAAA
*
1087 TTAATTT
1 TTTATTT
1094 ATTATTTCAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
28 15 0.52
29 14 0.48
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (29 bp):
TTTATTTTTAATATTAATTAAATAACAAA
Found at i:2053 original size:16 final size:14
Alignment explanation
Indices: 2026--2070 Score: 56
Period size: 16 Copynumber: 3.1 Consensus size: 14
2016 ATTCAACCAT
*
2026 TATTATTATTAAAA
1 TATTAATATTAAAA
2040 TATAATAATATTAAAA
1 TAT--TAATATTAAAA
2056 TATTAAT-TTAAAA
1 TATTAATATTAAAA
2069 TA
1 TA
2071 ATTATTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 8 0.29
14 7 0.25
16 13 0.46
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TATTAATATTAAAA
Found at i:2074 original size:14 final size:15
Alignment explanation
Indices: 2027--2109 Score: 66
Period size: 14 Copynumber: 5.6 Consensus size: 15
2017 TTCAACCATT
*
2027 ATTATTATTAAAATA
1 ATTAATATTAAAATA
*
2042 TAATAATATTAAAAT-
1 -ATTAATATTAAAATA
2057 ATTAAT-TTAAAATA
1 ATTAATATTAAAATA
* *
2071 ATTATTTTTAATTAATA
1 ATTAATATTAA--AATA
*
2088 AATAATATT-AAATA
1 ATTAATATTAAAATA
2102 A-TAATATT
1 ATTAATATT
2110 TCATATTAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
13 14 0.25
14 15 0.27
15 4 0.07
16 13 0.23
17 10 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAATATTAAAATA
Found at i:2294 original size:22 final size:22
Alignment explanation
Indices: 2264--2320 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 22
2254 ATATGCCAAA
2264 AATTCATTAATTAATAAT-TA-AT
1 AATTCATT-ATT-ATAATATATAT
*
2286 AATTGATTATTATAATATATAT
1 AATTCATTATTATAATATATAT
*
2308 AATT-ATCATTATA
1 AATTCATTATTATA
2321 TGTTATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 5 0.16
21 13 0.42
22 13 0.42
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (22 bp):
AATTCATTATTATAATATATAT
Found at i:2320 original size:21 final size:20
Alignment explanation
Indices: 2277--2344 Score: 68
Period size: 21 Copynumber: 3.4 Consensus size: 20
2267 TCATTAATTA
*
2277 ATAATTA-ATAATTGATTATT
1 ATAATTATATAATT-ATCATT
2297 ATAATATATATAATTATCATT
1 ATAAT-TATATAATTATCATT
* *
2318 ATATGTTATATATTTATCA-T
1 ATA-ATTATATAATTATCATT
2338 ATAATTA
1 ATAATTA
2345 ACGATTAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
19 3 0.07
20 9 0.22
21 22 0.54
22 7 0.17
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (20 bp):
ATAATTATATAATTATCATT
Found at i:2572 original size:12 final size:12
Alignment explanation
Indices: 2555--2584 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2545 AACTTAATTC
2555 AATTATAATAAT
1 AATTATAATAAT
*
2567 AATTATAATATT
1 AATTATAATAAT
2579 AATTAT
1 AATTAT
2585 TTATATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AATTATAATAAT
Found at i:2601 original size:28 final size:27
Alignment explanation
Indices: 2570--2636 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
2560 TAATAATAAT
*
2570 TATAATATTAATTATTT-ATATTATAAAA
1 TATAATA-TAATCATTTAATATT-TAAAA
*
2598 TATAATATAATCATTTAATATTTAATA
1 TATAATATAATCATTTAATATTTAAAA
*
2625 TTTAATAATAAT
1 TATAAT-ATAAT
2637 AGTGAATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 17 0.50
28 17 0.50
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (27 bp):
TATAATATAATCATTTAATATTTAAAA
Found at i:3061 original size:14 final size:14
Alignment explanation
Indices: 3042--3087 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
3032 CAATTAAAAT
3042 ATAATTATATATAA
1 ATAATTATATATAA
3056 ATAATTAT-TATAA
1 ATAATTATATATAA
* *
3069 TTATATTAAAT-TAA
1 ATA-ATTATATATAA
3083 ATAAT
1 ATAAT
3088 CAAATAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 9 0.33
14 17 0.63
15 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATAATTATATATAA
Found at i:3130 original size:37 final size:32
Alignment explanation
Indices: 3064--3157 Score: 88
Period size: 31 Copynumber: 2.9 Consensus size: 32
3054 AAATAATTAT
*
3064 TATAAT-TATATTAAATTAAATAATCAAATA-ATA
1 TATAATAT-TATT-AATTAAATAA-CAAATATAAA
* *
3097 TATTACTATAATT-ATT-AATAACATAATATAAA
1 TA-TAATATTATTAATTAAATAACA-AATATAAA
3129 TATAATATTATTAATTAAATAACAAATAT
1 TATAATATTATTAATTAAATAACAAATAT
3158 TATTTAAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
30 2 0.04
31 17 0.34
32 15 0.30
33 9 0.18
34 6 0.12
35 1 0.02
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (32 bp):
TATAATATTATTAATTAAATAACAAATATAAA
Found at i:3221 original size:12 final size:13
Alignment explanation
Indices: 3034--3222 Score: 56
Period size: 12 Copynumber: 15.2 Consensus size: 13
3024 AATATTACCA
*
3034 ATTAAAATATAATT
1 ATTATAATATAA-T
3048 ATATATAA-ATAATT
1 AT-TATAATATAA-T
3062 ATTATAAT-T-AT
1 ATTATAATATAAT
3073 ATTA-AAT-TAA-
1 ATTATAATATAAT
*
3083 ATAATCAA-ATAAT
1 ATTAT-AATATAAT
*
3096 A-TATTACTATAATT
1 ATTA-TAATATAA-T
*
3110 ATTAATAACATAAT
1 ATT-ATAATATAAT
3124 A-TA-AATATAAT
1 ATTATAATATAAT
3135 ATTATTAAT-TAA-
1 ATTA-TAATATAAT
* * *
3147 ATAACAA-ATATT
1 ATTATAATATAAT
*
3159 ATT-TAAAAT-AT
1 ATTATAATATAAT
*
3170 TTTA-AATAATAAT
1 ATTATAAT-ATAAT
*
3183 ATCAT-ATATAAT
1 ATTATAATATAAT
*
3195 AATTATAAT-TGAT
1 -ATTATAATATAAT
3208 ATTATAATAT-AT
1 ATTATAATATAAT
3220 ATT
1 ATT
3223 TATTTATAAA
Statistics
Matches: 131, Mismatches: 19, Indels: 52
0.65 0.09 0.26
Matches are distributed among these distances:
10 7 0.05
11 25 0.19
12 38 0.29
13 30 0.23
14 19 0.15
15 11 0.08
16 1 0.01
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (13 bp):
ATTATAATATAAT
Found at i:3340 original size:26 final size:26
Alignment explanation
Indices: 3280--3332 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 26
3270 AAATATAGTT
*
3280 TATAT-TAA-AAATTAAACTATTTTA
1 TATATATAATAAATAAAACTATTTTA
3304 TATATATAATAAATAAAACTA-TTTA
1 TATATATAATAAATAAAACTATTTTA
3329 TATA
1 TATA
3333 CTCTAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 11 0.42
26 10 0.38
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (26 bp):
TATATATAATAAATAAAACTATTTTA
Found at i:3596 original size:18 final size:18
Alignment explanation
Indices: 3570--3604 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3560 TATTTATAAA
3570 ATTAATTAATTAATTATT
1 ATTAATTAATTAATTATT
*
3588 ATTATTTAATTAATTAT
1 ATTAATTAATTAATTAT
3605 AATTGTATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTAATTAATTAATTATT
Found at i:4484 original size:17 final size:18
Alignment explanation
Indices: 4436--4485 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
4426 GAATTGTAGA
4436 ATTTCTATATAATTAAAAT
1 ATTT-TATATAATTAAAAT
*
4455 ATTTTATACAATTAAAAT
1 ATTTTATATAATTAAAAT
*
4473 A-TTTATTTAATTA
1 ATTTTATATAATTA
4486 GTATTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 10 0.36
18 14 0.50
19 4 0.14
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTTTATATAATTAAAAT
Found at i:5312 original size:21 final size:21
Alignment explanation
Indices: 5283--5340 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
5273 ACTTATTCAA
* *
5283 TTAATTAATATATTAACTAAT
1 TTAAATAATATATTAAATAAT
* *
5304 TTAAATAATTTA-TAAATTAT
1 TTAAATAATATATTAAATAAT
*
5324 TTAATATATTATATTAA
1 TTAA-ATAATATATTAA
5341 TTCTTATAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 10 0.34
21 16 0.55
22 3 0.10
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAAATAATATATTAAATAAT
Found at i:5833 original size:11 final size:11
Alignment explanation
Indices: 5807--5872 Score: 57
Period size: 11 Copynumber: 6.1 Consensus size: 11
5797 AGTATATAAT
*
5807 TAATTATTATTA
1 TAATAATTA-TA
*
5819 TAATAAATATA
1 TAATAATTATA
5830 TAATAATTAT-
1 TAATAATTATA
5840 TATATAATTAT-
1 TA-ATAATTATA
* *
5851 TATTAAATA-A
1 TAATAATTATA
5861 TAATAATTATA
1 TAATAATTATA
5872 T
1 T
5873 TAACTAATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
10 14 0.32
11 23 0.52
12 7 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TAATAATTATA
Found at i:5843 original size:14 final size:14
Alignment explanation
Indices: 5799--5872 Score: 82
Period size: 14 Copynumber: 5.4 Consensus size: 14
5789 TATTTACAAG
5799 TATATAATTAATTAT
1 TATATAA-TAATTAT
5814 TATTATAATAA--A-
1 TA-TATAATAATTAT
5826 TATATAATAATTAT
1 TATATAATAATTAT
*
5840 TATATAATTATTAT
1 TATATAATAATTAT
* *
5854 TAAATAATAATAAT
1 TATATAATAATTAT
5868 TATAT
1 TATAT
5873 TAACTAATAT
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
11 8 0.16
12 2 0.04
13 2 0.04
14 28 0.56
15 5 0.10
16 5 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TATATAATAATTAT
Found at i:5875 original size:19 final size:20
Alignment explanation
Indices: 5843--5881 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
5833 TAATTATTAT
5843 ATAATTATTATTAAATAATA
1 ATAATTATTATTAAATAATA
*
5863 ATAATTA-TATTAACTAATA
1 ATAATTATTATTAAATAATA
5882 TTACTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
ATAATTATTATTAAATAATA
Found at i:5892 original size:19 final size:19
Alignment explanation
Indices: 5811--5893 Score: 52
Period size: 19 Copynumber: 4.4 Consensus size: 19
5801 TATAATTAAT
5811 TATTATTATAATAAATATATAA
1 TATTATTA-AAT-AATA-ATAA
5833 TAATTATT--AT-ATAAT--
1 T-ATTATTAAATAATAATAA
5848 TATTATTAAATAATAATAA
1 TATTATTAAATAATAATAA
* * *
5867 T-TATATTAACTAATATTAC
1 TAT-TATTAAATAATAATAA
5886 TATTATTA
1 TATTATTA
5894 TAGAAATTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 19
0.69 0.04 0.26
Matches are distributed among these distances:
14 6 0.12
15 1 0.02
16 2 0.04
17 7 0.14
18 4 0.08
19 20 0.40
20 3 0.06
22 1 0.02
23 6 0.12
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
TATTATTAAATAATAATAA
Found at i:6347 original size:10 final size:10
Alignment explanation
Indices: 6321--6446 Score: 63
Period size: 10 Copynumber: 12.6 Consensus size: 10
6311 AATAAATTAA
*
6321 ATATTAATTT
1 ATATTAATAT
6331 A-ATTAATAT
1 ATATTAATAT
6340 ATATTAATAAT
1 ATATTAAT-AT
6351 ATTATGTAATAT
1 A-TAT-TAATAT
*
6363 ATAATTGGATAT
1 AT-ATT-AATAT
6375 -TATT-A-AT
1 ATATTAATAT
6382 -TATT-ATAT
1 ATATTAATAT
*
6390 ATAATAATAT
1 ATATTAATAT
*
6400 ATATAAATAT
1 ATATTAATAT
6410 -TATATAAT-T
1 ATAT-TAATAT
6419 ATA-TAATACTT
1 ATATTAATA--T
*
6430 CATATTATTAT
1 -ATATTAATAT
6441 ATATTA
1 ATATTA
6447 TTAAAAATAA
Statistics
Matches: 93, Mismatches: 7, Indels: 32
0.70 0.05 0.24
Matches are distributed among these distances:
7 7 0.08
8 7 0.08
9 15 0.16
10 33 0.35
11 8 0.09
12 15 0.16
13 8 0.09
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (10 bp):
ATATTAATAT
Found at i:6352 original size:47 final size:47
Alignment explanation
Indices: 6301--6399 Score: 114
Period size: 47 Copynumber: 2.1 Consensus size: 47
6291 AACTAAATCC
6301 AATATTATCT-A-ATA-AATTAAATATTAATTTAATTAATATATATTAAT
1 AATATTATCTAATATATAATTAAATATT-A-TTAATTAATATATA-TAAT
* ** *
6348 AATATTATGTAATATATAATTGGATATTATTAATTATTATATATAAT
1 AATATTATCTAATATATAATTAAATATTATTAATTAATATATATAAT
6395 AATAT
1 AATAT
6400 ATATAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
47 18 0.40
48 14 0.31
49 4 0.09
50 9 0.20
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.47
Consensus pattern (47 bp):
AATATTATCTAATATATAATTAAATATTATTAATTAATATATATAAT
Found at i:6378 original size:25 final size:23
Alignment explanation
Indices: 6334--6399 Score: 64
Period size: 25 Copynumber: 2.8 Consensus size: 23
6324 TTAATTTAAT
6334 TAATATATATTAATAATATTATG
1 TAATATATATTAATAATATTATG
* *
6357 TAATATATAATTGGATATTATTAAT-
1 TAATATAT-ATT-AATAATATT-ATG
*
6382 TATTATATA-TAATAATAT
1 TAATATATATTAATAATAT
6400 ATATAAATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
22 6 0.17
23 9 0.26
24 4 0.11
25 14 0.40
26 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (23 bp):
TAATATATATTAATAATATTATG
Found at i:6435 original size:60 final size:61
Alignment explanation
Indices: 6316--6447 Score: 141
Period size: 60 Copynumber: 2.2 Consensus size: 61
6306 TATCTAATAA
* * * *
6316 ATTAAATATTA-ATTTAATTAATATATATTAATAATATTATGTAATATATAATTGGATATT
1 ATTAATTATTATATATAATTAATATATATTAATAATATTATATAATATATAATTGCATATT
*
6376 ATTAATTATTATATATAA-TAATATATA-T-A-AATATTATATAATTATATAATACTTCATATT
1 ATTAATTATTATATATAATTAATATATATTAATAATATTATATAA-TATATAAT--TGCATATT
6436 ATT-ATATATTAT
1 ATTAAT-TATTAT
6448 TAAAAATAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
57 11 0.18
58 9 0.15
59 3 0.05
60 34 0.55
61 5 0.08
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (61 bp):
ATTAATTATTATATATAATTAATATATATTAATAATATTATATAATATATAATTGCATATT
Found at i:6572 original size:22 final size:20
Alignment explanation
Indices: 6532--6578 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
6522 ATTGTTCAAG
* *
6532 TAATTATCATTTTATTTAAT
1 TAATTAACATTTTATTTAAA
6552 TAATTAACATTTAATATTTAAA
1 TAATTAACATTT--TATTTAAA
6574 TAATT
1 TAATT
6579 TTGACTGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 11 0.48
22 12 0.52
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATTAACATTTTATTTAAA
Found at i:6787 original size:36 final size:38
Alignment explanation
Indices: 6711--6804 Score: 97
Period size: 36 Copynumber: 2.6 Consensus size: 38
6701 AAATTTAATA
* **
6711 AATAATTTATAAT-ATAATTAATTATAATTATTATTTT
1 AATAATTTATAATAATAATTAATTATAATAATTATCCT
* *
6748 AATAATTTATAATAAT-ATT-GTTATTATAATTATCCT
1 AATAATTTATAATAATAATTAATTATAATAATTATCCT
*
6784 AATAA-TTACTAATAATGATTA
1 AATAATTTA-TAATAATAATTA
6805 TCTTTAATTA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
35 3 0.06
36 24 0.50
37 19 0.40
38 2 0.04
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (38 bp):
AATAATTTATAATAATAATTAATTATAATAATTATCCT
Found at i:7529 original size:14 final size:16
Alignment explanation
Indices: 7512--7544 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
7502 TTTATAGCAT
7512 TATAATTA-TA-AATA
1 TATAATTACTATAATA
7526 TATAATTACTATAATA
1 TATAATTACTATAATA
7542 TAT
1 TAT
7545 TTATATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 2 0.12
16 7 0.41
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TATAATTACTATAATA
Found at i:7756 original size:9 final size:9
Alignment explanation
Indices: 7744--7791 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
7734 AATAATTAAA
7744 ATTATTACT
1 ATTATTACT
7753 ATTAGTTA-T
1 ATTA-TTACT
7762 ATT-TTGACT
1 ATTATT-ACT
7771 ATTATT--T
1 ATTATTACT
7778 ATTATTACT
1 ATTATTACT
7787 ATTAT
1 ATTAT
7792 AATAATAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
7 9 0.27
8 1 0.03
9 18 0.55
10 5 0.15
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.58
Consensus pattern (9 bp):
ATTATTACT
Found at i:7773 original size:18 final size:16
Alignment explanation
Indices: 7744--7791 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
7734 AATAATTAAA
7744 ATTATTACTATTAGTTAT
1 ATTATTACTATTA-TT-T
7762 ATT-TTGACTATTATTT
1 ATTATT-ACTATTATTT
7778 ATTATTACTATTAT
1 ATTATTACTATTAT
7792 AATAATAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 12 0.43
17 6 0.21
18 10 0.36
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.58
Consensus pattern (16 bp):
ATTATTACTATTATTT
Found at i:9434 original size:18 final size:18
Alignment explanation
Indices: 9387--9456 Score: 54
Period size: 18 Copynumber: 3.7 Consensus size: 18
9377 ATTATAATTG
9387 AATTAATATTAA-TATTAT
1 AATT-ATATTAATTATTAT
*
9405 AATTATAATAATTATTAT
1 AATTATATTAATTATTAT
*
9423 -TTTCATATTAATTAAAATTAT
1 AATT-ATATTAATT---ATTAT
*
9444 AATAATATTAATT
1 AATTATATTAATT
9457 GAATAATAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
17 8 0.20
18 18 0.44
21 14 0.34
22 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (18 bp):
AATTATATTAATTATTAT
Found at i:9456 original size:15 final size:15
Alignment explanation
Indices: 9271--9466 Score: 65
Period size: 15 Copynumber: 13.1 Consensus size: 15
9261 ATAATATTAT
*
9271 ATATAAATTA-AATA
1 ATATTAATTATAATA
*
9285 A-A-TAATT-TATTA
1 ATATTAATTATAATA
* *
9297 ATATAAATTAAAATA
1 ATATTAATTATAATA
* *
9312 ATTTTAATTTTAATA
1 ATATTAATTATAATA
*
9327 TTA-TAATT-TAATTA
1 ATATTAATTATAA-TA
*
9341 ATA-AAATTAATAATA
1 ATATTAATT-ATAATA
**
9356 ATATTAACAATAAT-
1 ATATTAATTATAATA
* *
9370 ATGATTTATTATAATTG
1 AT-ATTAATTATAA-TA
9387 A-ATTAA-TATTAATA
1 ATATTAATTA-TAATA
*
9401 TTA-TAATTATAATA
1 ATATTAATTATAATA
* *
9415 ATTATTATTTTCATATTA
1 A-TATTA-ATT-ATAATA
*
9433 AT-TAAAATTATAATA
1 ATAT-TAATTATAATA
9448 ATATTAATTGAATAATA
1 ATATTAATT--ATAATA
9465 AT
1 AT
9467 TCAAATATTA
Statistics
Matches: 131, Mismatches: 29, Indels: 41
0.65 0.14 0.20
Matches are distributed among these distances:
12 8 0.06
13 5 0.04
14 31 0.24
15 56 0.43
16 12 0.09
17 13 0.10
18 6 0.05
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.46
Consensus pattern (15 bp):
ATATTAATTATAATA
Found at i:9633 original size:17 final size:17
Alignment explanation
Indices: 9597--9652 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 17
9587 AATACTATGA
9597 ATTATTAATATAAGTCTTAT
1 ATTA-TAATATAAG--TTAT
9617 ATTATAATATAAGTTAT
1 ATTATAATATAAGTTAT
*
9634 ATTAATAA-ATTAGTTAT
1 ATT-ATAATATAAGTTAT
9651 AT
1 AT
9653 CATATTAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
17 17 0.50
18 4 0.12
19 9 0.26
20 4 0.12
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (17 bp):
ATTATAATATAAGTTAT
Found at i:10192 original size:21 final size:22
Alignment explanation
Indices: 10168--10213 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
10158 TTCTTAGTTA
*
10168 TAAATCTAATTGTATTT-ATTT
1 TAAATATAATTGTATTTAATTT
* *
10189 TAAATATTATTTTATTTAATTT
1 TAAATATAATTGTATTTAATTT
10211 TAA
1 TAA
10214 TAATCAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
TAAATATAATTGTATTTAATTT
Found at i:10243 original size:23 final size:23
Alignment explanation
Indices: 10217--10262 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
10207 ATTTTAATAA
* *
10217 TCAATTTAAAATAAATATTATAT
1 TCAATATAAAATAAATAATATAT
* *
10240 TCAATATATATTAAATAATATAT
1 TCAATATAAAATAAATAATATAT
10263 AAAAAATTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
TCAATATAAAATAAATAATATAT
Found at i:10292 original size:21 final size:20
Alignment explanation
Indices: 10236--10293 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
10226 AATAAATATT
*
10236 ATATTCAATATATATTAAATA
1 ATATTCAAAATAT-TTAAATA
* *
10257 ATATAT-AAAAAATTTAATTA
1 ATAT-TCAAAATATTTAAATA
10277 ATTATTCAAAATATTTA
1 A-TATTCAAAATATTTA
10294 TTTTTATATC
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 8 0.27
21 21 0.70
22 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (20 bp):
ATATTCAAAATATTTAAATA
Found at i:10554 original size:22 final size:22
Alignment explanation
Indices: 10514--10556 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10504 TTAAATTTGT
*
10514 ATTATAATAAATATTATATTAC
1 ATTATAATAAATATAATATTAC
10536 ATTATAAT-AATAGTAATATTA
1 ATTATAATAAATA-TAATATTA
10557 GTTAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
ATTATAATAAATATAATATTAC
Found at i:10573 original size:33 final size:34
Alignment explanation
Indices: 10536--10615 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 34
10526 ATTATATTAC
* * * *
10536 ATTATAATAATAGTAATATTAGTTAAT-ATAATT
1 ATTATTATAATAGTAATATAAATTAATAATAAAT
*
10569 ATTATTATATTA-TAATATAAATTAATAATAAAT
1 ATTATTATAATAGTAATATAAATTAATAATAAAT
10602 ATTATTA-AATAGTA
1 ATTATTATAATAGTA
10616 CTAAGAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
32 15 0.38
33 24 0.62
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (34 bp):
ATTATTATAATAGTAATATAAATTAATAATAAAT
Found at i:11080 original size:22 final size:22
Alignment explanation
Indices: 11055--11096 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
11045 ATTAATCAGT
*
11055 TTTAATTTATTTAA-TAATATTA
1 TTTAAATTA-TTAATTAATATTA
11077 TTTAAATTATTAATTAATAT
1 TTTAAATTATTAATTAATAT
11097 ATTGATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTAAATTATTAATTAATATTA
Found at i:11110 original size:25 final size:25
Alignment explanation
Indices: 11065--11112 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
11055 TTTAATTTAT
11065 TTAATAATATTATTTAAATTATTAA
1 TTAATAATATTATTTAAATTATTAA
11090 TTAAT-ATATTGA-TTAATATTATT
1 TTAATAATATT-ATTTAA-ATTATT
11113 TGTAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
TTAATAATATTATTTAAATTATTAA
Found at i:11126 original size:22 final size:22
Alignment explanation
Indices: 11101--11165 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 22
11091 TAATATATTG
11101 ATTAATATTATTTGTAATAAAT
1 ATTAATATTATTTGTAATAAAT
*
11123 ATTAATATTA---ATAAT-AAT
1 ATTAATATTATTTGTAATAAAT
* *
11141 AATAATAACTATTTGTAATAAAT
1 ATTAAT-ATTATTTGTAATAAAT
11164 AT
1 AT
11166 GATATAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 9
0.70 0.11 0.19
Matches are distributed among these distances:
18 8 0.24
19 7 0.21
22 14 0.42
23 4 0.12
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.45
Consensus pattern (22 bp):
ATTAATATTATTTGTAATAAAT
Found at i:11922 original size:18 final size:17
Alignment explanation
Indices: 11899--11953 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 17
11889 ATATCAGTAT
11899 ATTTATAATTTGTATTAA
1 ATTTATAATTT-TATTAA
11917 ATTTATAATTTTAATATAA
1 ATTTATAATTTT-AT-TAA
11936 ATTGTA-AATTTATATTAA
1 ATT-TATAATTT-TATTAA
11954 TAGTTATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
17 1 0.03
18 16 0.48
19 13 0.39
20 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (17 bp):
ATTTATAATTTTATTAA
Found at i:12254 original size:20 final size:20
Alignment explanation
Indices: 12231--12293 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
12221 TTATTATCTT
12231 TAAAACTATTTAATTATAAC
1 TAAAACTATTTAATTATAAC
* * *
12251 T-AAA-TAATTAAATTATTAT
1 TAAAACT-ATTTAATTATAAC
12270 TAAAACTATTTAATTATAAC
1 TAAAACTATTTAATTATAAC
12290 TAAA
1 TAAA
12294 TAATTAAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 1 0.03
19 14 0.41
20 18 0.53
21 1 0.03
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAAACTATTTAATTATAAC
Found at i:12258 original size:14 final size:14
Alignment explanation
Indices: 12241--12299 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 14
12231 TAAAACTATT
12241 TAATTATAACTAAA
1 TAATTATAACTAAA
*
12255 TAATTA-AA-T-TA
1 TAATTATAACTAAA
* * **
12266 TTATTAAAACTATT
1 TAATTATAACTAAA
12280 TAATTATAACTAAA
1 TAATTATAACTAAA
12294 TAATTA
1 TAATTA
12300 AATTGTTATT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
11 6 0.17
12 3 0.09
13 3 0.09
14 23 0.66
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (14 bp):
TAATTATAACTAAA
Found at i:12266 original size:39 final size:39
Alignment explanation
Indices: 12230--12313 Score: 159
Period size: 39 Copynumber: 2.2 Consensus size: 39
12220 TTTATTATCT
12230 TTAAAACTATTTAATTATAACTAAATAATTAAATTATTA
1 TTAAAACTATTTAATTATAACTAAATAATTAAATTATTA
*
12269 TTAAAACTATTTAATTATAACTAAATAATTAAATTGTTA
1 TTAAAACTATTTAATTATAACTAAATAATTAAATTATTA
12308 TTAAAA
1 TTAAAA
12314 ATTATAACAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (39 bp):
TTAAAACTATTTAATTATAACTAAATAATTAAATTATTA
Found at i:12343 original size:24 final size:24
Alignment explanation
Indices: 12312--12379 Score: 76
Period size: 23 Copynumber: 3.1 Consensus size: 24
12302 TTGTTATTAA
*
12312 AAAT-TATAACAAGTAATTAATAT
1 AAATATATAATAAGTAATTAATAT
12335 AAATATATAATAAG-AATT--TA-
1 AAATATATAATAAGTAATTAATAT
*
12355 AATTA-ATAATAAGTAATTAATAT
1 AAATATATAATAAGTAATTAATAT
12378 AA
1 AA
12380 TTTTTAATCT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
19 8 0.21
20 8 0.21
21 2 0.05
22 2 0.05
23 10 0.26
24 8 0.21
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATATATAATAAGTAATTAATAT
Found at i:12380 original size:19 final size:19
Alignment explanation
Indices: 12336--12380 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
12326 AATTAATATA
12336 AATAT-ATAATAAGAATTT
1 AATATAATAATAAGAATTT
12354 AA-ATTAATAATAAGTAA-TT
1 AATA-TAATAATAAG-AATTT
12373 AATATAAT
1 AATATAAT
12381 TTTTAATCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
17 1 0.04
18 3 0.13
19 16 0.70
20 3 0.13
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (19 bp):
AATATAATAATAAGAATTT
Found at i:12387 original size:23 final size:23
Alignment explanation
Indices: 12315--12387 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
12305 TTATTAAAAA
*
12315 TTATAACAAGTAATTAATATAAAT
1 TTATAATAAGTAATTAATAT-AAT
*
12339 ATATAATAAG-AATT--TA-AAT
1 TTATAATAAGTAATTAATATAAT
*
12358 TAATAATAAGTAATTAATATAAT
1 TTATAATAAGTAATTAATATAAT
*
12381 TTTTAAT
1 TTATAAT
12388 CTAATTAACA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
19 11 0.28
20 4 0.10
21 2 0.05
22 2 0.05
23 12 0.31
24 8 0.21
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.41
Consensus pattern (23 bp):
TTATAATAAGTAATTAATATAAT
Found at i:12489 original size:20 final size:19
Alignment explanation
Indices: 12452--12499 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
12442 GATATATTTT
*
12452 TAATTAATTTAGTTATTATA
1 TAATTAA-TTAGTTATTAAA
*
12472 TAATTAATTATTTAATTAAA
1 TAATTAATTAGTT-ATTAAA
*
12492 TTATTAAT
1 TAATTAAT
12500 AAATATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TAATTAATTAGTTATTAAA
Found at i:12954 original size:21 final size:21
Alignment explanation
Indices: 12916--12955 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12906 TATAGTAATA
*
12916 AATTATTAAATAATTTATTGC
1 AATTATTAAATAACTTATTGC
12937 AATTATT-AATATACTTATT
1 AATTATTAAATA-ACTTATT
12956 TATTTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (21 bp):
AATTATTAAATAACTTATTGC
Found at i:13057 original size:16 final size:17
Alignment explanation
Indices: 13036--13093 Score: 61
Period size: 16 Copynumber: 3.6 Consensus size: 17
13026 AACTAGTGTA
13036 ATATAATATTAT-AATT
1 ATATAATATTATAAATT
* *
13052 ATATAATATT-TGAATA
1 ATATAATATTATAAATT
13068 ATATAA-ATTATACAATT
1 ATATAATATTATA-AATT
13085 A-ATAATATT
1 ATATAATATT
13094 TTTATAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
15 4 0.11
16 24 0.69
17 7 0.20
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (17 bp):
ATATAATATTATAAATT
Found at i:13090 original size:32 final size:32
Alignment explanation
Indices: 13034--13103 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
13024 ATAACTAGTG
13034 TAATATAATATTATAATTATATAATATTTGAA
1 TAATATAATATTATAATTATATAATATTTGAA
**
13066 TAATATAA-ATTATACAATTA-ATAATATTTTTA
1 TAATATAATATTAT--AATTATATAATATTTGAA
13098 TAATAT
1 TAATAT
13104 TATTAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 5 0.15
32 24 0.71
33 5 0.15
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (32 bp):
TAATATAATATTATAATTATATAATATTTGAA
Found at i:13141 original size:22 final size:22
Alignment explanation
Indices: 13116--13203 Score: 67
Period size: 22 Copynumber: 3.9 Consensus size: 22
13106 TTAAAAATAA
*
13116 TATTAAATTAAATATATTTAAT
1 TATTAAATTAAATAAATTTAAT
13138 TATTAAAATT-AATAAATTTAA-
1 TATT-AAATTAAATAAATTTAAT
*
13159 CATT-AA-TAAATTATAATTATAAACT
1 TATTAAATTAAA-TA-AATT-T-AA-T
*
13184 TATTAAATTGAATAAATTTA
1 TATTAAATTAAATAAATTTA
13204 TACTTATAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 19
0.69 0.05 0.25
Matches are distributed among these distances:
18 1 0.02
19 4 0.08
20 2 0.04
21 7 0.13
22 15 0.29
23 8 0.15
24 1 0.02
25 7 0.13
26 4 0.08
27 3 0.06
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (22 bp):
TATTAAATTAAATAAATTTAAT
Found at i:13163 original size:15 final size:15
Alignment explanation
Indices: 13140--13203 Score: 60
Period size: 15 Copynumber: 4.2 Consensus size: 15
13130 TATTTAATTA
13140 TTAAAATTAATAAAT
1 TTAAAATTAATAAAT
*
13155 TTAACATTAATAAA-
1 TTAAAATTAATAAAT
*
13169 TTATAATT-ATAAACT
1 TTAAAATTAATAAA-T
*
13184 TATTAAATTGAATAAAT
1 T-TAAAATT-AATAAAT
13201 TTA
1 TTA
13204 TACTTATAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
13 5 0.13
14 6 0.16
15 14 0.37
16 6 0.16
17 2 0.05
18 5 0.13
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (15 bp):
TTAAAATTAATAAAT
Found at i:13287 original size:30 final size:30
Alignment explanation
Indices: 13253--13315 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
13243 TAACTAAAAA
* *
13253 TATAATGTATTTAATTAA-AATTATAGTTAG
1 TATAAT-TATTTAACTAATAACTATAGTTAG
*
13283 TATAATTATTTAACTAATAACTATAGTTTG
1 TATAATTATTTAACTAATAACTATAGTTAG
13313 TAT
1 TAT
13316 TACAATAACC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.48
Consensus pattern (30 bp):
TATAATTATTTAACTAATAACTATAGTTAG
Found at i:13622 original size:27 final size:26
Alignment explanation
Indices: 13572--13634 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
13562 ATTGTATATT
* * *
13572 TTAATAAATTTATTACAATTAAATTAG
1 TTAATAATTTTATAACAATCAAA-TAG
*
13599 TTAATAATTTTATAATAATCAAATAG
1 TTAATAATTTTATAACAATCAAATAG
13625 TATAATAATT
1 T-TAATAATT
13635 AAATGTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (26 bp):
TTAATAATTTTATAACAATCAAATAG
Found at i:13630 original size:16 final size:15
Alignment explanation
Indices: 13609--13643 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
13599 TTAATAATTT
13609 TATAATAATCAAATAG
1 TATAATAATCAAAT-G
*
13625 TATAATAATTAAATG
1 TATAATAATCAAATG
13640 TATA
1 TATA
13644 TATGAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (15 bp):
TATAATAATCAAATG
Found at i:13703 original size:23 final size:26
Alignment explanation
Indices: 13668--13723 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 26
13658 TGAATCAATA
*
13668 ATTAA-AAATATTT-AT-GATTATTT
1 ATTAATAATTATTTCATAGATTATTT
*
13691 -TTAATAATTATTTCATAGCTTATTT
1 ATTAATAATTATTTCATAGATTATTT
13716 ATTAATAA
1 ATTAATAA
13724 ATATCGATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 4 0.15
23 7 0.26
24 2 0.07
25 7 0.26
26 7 0.26
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.52
Consensus pattern (26 bp):
ATTAATAATTATTTCATAGATTATTT
Found at i:13787 original size:29 final size:28
Alignment explanation
Indices: 13734--13791 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
13724 ATATCGATAA
13734 TTAAATAATAAAAATTAAATATTTTAAT
1 TTAAATAATAAAAATTAAATATTTTAAT
* *
13762 TTAAATATTTAAAACTTAAA-ATTTTTAAT
1 TTAAATA-ATAAAAATTAAATA-TTTTAAT
13791 T
1 T
13792 ATTAACATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
TTAAATAATAAAAATTAAATATTTTAAT
Found at i:14055 original size:24 final size:23
Alignment explanation
Indices: 13999--14055 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
13989 TAATTACATA
* * *
13999 TATATATAATATTAATTTATATT
1 TATAAATAATAATAATTTATAAT
*
14022 TTTAATATAATAATAATTATATAAT
1 TATAA-ATAATAATAATT-TATAAT
14047 TATAAATAA
1 TATAAATAA
14056 AATTCATACT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
23 3 0.11
24 15 0.56
25 9 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TATAAATAATAATAATTTATAAT
Found at i:14130 original size:14 final size:15
Alignment explanation
Indices: 14105--14133 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14095 AACTATTTTA
14105 TAATATTTATATAAT
1 TAATATTTATATAAT
14120 TAATA-TTATATAAT
1 TAATATTTATATAAT
14134 ATTATAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAATATTTATATAAT
Found at i:14143 original size:18 final size:17
Alignment explanation
Indices: 14102--14146 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
14092 AACAACTATT
14102 TTATAATATT-TATATA
1 TTATAATATTATATATA
*
14118 AT-TAATATTATATAATA
1 TTATAATATTATAT-ATA
14135 TTATAATATTAT
1 TTATAATATTAT
14147 TGTTAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 7 0.29
16 4 0.17
17 4 0.17
18 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTATAATATTATATATA
Found at i:14407 original size:16 final size:16
Alignment explanation
Indices: 14386--14416 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14376 ATTTAATGTT
*
14386 ATATTAATATTAATTA
1 ATATTAAGATTAATTA
14402 ATATTAAGATTAATT
1 ATATTAAGATTAATT
14417 TAGTATAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
ATATTAAGATTAATTA
Found at i:15318 original size:18 final size:18
Alignment explanation
Indices: 15297--15343 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
15287 TATTATAAGG
15297 ATTTTAATT-TTAATATTA
1 ATTTTAATTATTAAT-TTA
15315 A-TTTAATTATTAATTTA
1 ATTTTAATTATTAATTTA
*
15332 TTTTTAA-TATTA
1 ATTTTAATTATTA
15344 TTAAATAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTAATTATTAATTTA
Found at i:15357 original size:28 final size:29
Alignment explanation
Indices: 15299--15362 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
15289 TTATAAGGAT
* * * **
15299 TTTAATTTTAATATTAATTTAATTATTAA
1 TTTATTTTTAATATTAATTAAATAACAAA
15328 TTTATTTTTAATATT-ATTAAATAACAAA
1 TTTATTTTTAATATTAATTAAATAACAAA
*
15356 TTAATTT
1 TTTATTT
15363 ATTATTTCAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
28 15 0.52
29 14 0.48
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (29 bp):
TTTATTTTTAATATTAATTAAATAACAAA
Found at i:15997 original size:27 final size:28
Alignment explanation
Indices: 15932--15999 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 28
15922 TTAGATATCT
15932 ATTAATTAATAAAAATCAATAATTAAAATA
1 ATTAA-TAAT-AAAATCAATAATTAAAATA
* * *
15962 TTTAA-AATAAAATCAAT-ATTCAGATA
1 ATTAATAATAAAATCAATAATTAAAATA
15988 ATTAATAATAAA
1 ATTAATAATAAA
16000 TTATAAGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
26 11 0.33
27 15 0.45
28 3 0.09
30 4 0.12
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.34
Consensus pattern (28 bp):
ATTAATAATAAAATCAATAATTAAAATA
Found at i:16000 original size:26 final size:27
Alignment explanation
Indices: 15934--16000 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 27
15924 AGATATCTAT
15934 TAATTAATAA-AAATCAATAATTAAAA
1 TAATTAATAATAAATCAATAATTAAAA
* * *
15960 TATTTAA-AATAAAATCAAT-ATTCAGA
1 TAATTAATAAT-AAATCAATAATTAAAA
15986 TAATTAATAATAAAT
1 TAATTAATAATAAAT
16001 TATAAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
25 2 0.06
26 21 0.62
27 11 0.32
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.34
Consensus pattern (27 bp):
TAATTAATAATAAATCAATAATTAAAA
Found at i:16019 original size:23 final size:25
Alignment explanation
Indices: 15990--16039 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
15980 TTCAGATAAT
*
15990 TAATAATAAATT-A-TAAGTATTTA
1 TAATAATAAATTAATTAAATATTTA
*
16013 TAATAATAATTTAATTAAATATTTA
1 TAATAATAAATTAATTAAATATTTA
16038 TA
1 TA
16040 TTTTATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 11 0.48
24 1 0.04
25 11 0.48
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
TAATAATAAATTAATTAAATATTTA
Found at i:16583 original size:19 final size:21
Alignment explanation
Indices: 16559--16597 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
16549 AAATTCATTA
16559 ATTATATAAT-TA-ATAATTG
1 ATTATATAATATATATAATTG
16578 ATTATATAATATATATAATT
1 ATTATATAATATATATAATT
16598 ATAATTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
20 2 0.11
21 6 0.33
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (21 bp):
ATTATATAATATATATAATTG
Found at i:16745 original size:23 final size:21
Alignment explanation
Indices: 16704--16788 Score: 77
Period size: 21 Copynumber: 4.0 Consensus size: 21
16694 TACAATTGAT
16704 ATTAATTATA-TTATTATAATA
1 ATTAATTATACTTATTATAA-A
*
16725 ATTGATTATACTATATTATAACA
1 ATTAATTATACT-TATTATAA-A
* * *
16748 ACTAAATATAATTATTATAAA
1 ATTAATTATACTTATTATAAA
*
16769 CTTAATTATAC-TA-TATAAA
1 ATTAATTATACTTATTATAAA
16788 A
1 A
16789 ATTATATTTT
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
19 6 0.12
20 2 0.04
21 17 0.33
22 9 0.18
23 17 0.33
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (21 bp):
ATTAATTATACTTATTATAAA
Found at i:16855 original size:12 final size:12
Alignment explanation
Indices: 16840--16869 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
16830 ACTTAATATC
16840 AATTATAATAAT
1 AATTATAATAAT
*
16852 AATTATAATATT
1 AATTATAATAAT
16864 AATTAT
1 AATTAT
16870 TTATATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AATTATAATAAT
Found at i:16874 original size:80 final size:81
Alignment explanation
Indices: 16704--16890 Score: 190
Period size: 80 Copynumber: 2.3 Consensus size: 81
16694 TACAATTGAT
* *
16704 ATTAATTATATTATTATAA-TAAT-TGATTATACTATATTATAACAACTAAATATAATTATTATA
1 ATTAATTATATT-TTATAATTAATAT-ATTATAATATATTATAACAACTAAATATAATTATAATA
*
16767 AACTTAATTATACTATATA
64 AAC-TAATTATAATATATA
* ** *
16786 A-AAATTATATTTTATAATTAATATATTATAATATATTCATTTCAACTTAATATCAATTATAAT-
1 ATTAATTATATTTTATAATTAATATATTATAATATATT-ATAACAACTAAATAT-AATTATAATA
16849 AA-TAATTATAATAT-TA
64 AACTAATTATAATATATA
* *
16865 ATTATTTATATTATA-AATATAATATA
1 ATTAATTATATTTTATAAT-TAATATA
16891 ATCATTTTAT
Statistics
Matches: 89, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 34 0.38
81 25 0.28
82 16 0.18
83 8 0.09
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.47
Consensus pattern (81 bp):
ATTAATTATATTTTATAATTAATATATTATAATATATTATAACAACTAAATATAATTATAATAAA
CTAATTATAATATATA
Found at i:16886 original size:27 final size:27
Alignment explanation
Indices: 16850--16903 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
16840 AATTATAATA
* *
16850 ATAATTATAATATTAATTA-TTTATATT
1 ATAAATATAATA-TAATCATTTTATATT
16877 ATAAATATAATATAATCATTTTATATT
1 ATAAATATAATATAATCATTTTATATT
16904 TAATATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
ATAAATATAATATAATCATTTTATATT
Found at i:17336 original size:14 final size:14
Alignment explanation
Indices: 17319--17365 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
17309 AATTATAAAT
17319 ATAATTATATATAA
1 ATAATTATATATAA
17333 ATAATTAT-TATAA
1 ATAATTATATATAA
*
17346 ATTATATTAAAT-TAA
1 A-TA-ATTATATATAA
17361 ATAAT
1 ATAAT
17366 CAAATAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 8 0.28
14 12 0.41
15 8 0.28
16 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATAATTATATATAA
Found at i:17354 original size:29 final size:28
Alignment explanation
Indices: 17310--17365 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
17300 AATATTACCA
*
17310 ATTATAAATATAATTATATATAAATAATT
1 ATTATAAATATAATTAAAT-TAAATAATT
17339 ATTATAAAT-TATATTAAATTAAATAAT
1 ATTATAAATATA-ATTAAATTAAATAAT
17366 CAAATAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
ATTATAAATATAATTAAATTAAATAATT
Found at i:17434 original size:30 final size:30
Alignment explanation
Indices: 17341--17435 Score: 81
Period size: 32 Copynumber: 3.1 Consensus size: 30
17331 AAATAATTAT
17341 TATAAAT-T-ATATTA-AATTAAATAATCAAA
1 TATAAATATAATATTATAATT-AATAA-CAAA
* * *
17370 TA-ATATATTAACTATAATTATTAATAACATAAA
1 TATAAATA-TAA-TATTATAATTAATAAC--AAA
17403 TATAAATATAATATTATAATTAATAACAAA
1 TATAAATATAATATTATAATTAATAACAAA
17433 TAT
1 TAT
17436 TATTTAAATA
Statistics
Matches: 52, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
28 3 0.06
29 2 0.04
30 7 0.13
31 2 0.04
32 23 0.44
33 11 0.21
34 4 0.08
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (30 bp):
TATAAATATAATATTATAATTAATAACAAA
Found at i:17486 original size:18 final size:17
Alignment explanation
Indices: 17443--17491 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
17433 TATTATTTAA
*
17443 ATATTTTAATA-ATAAT
1 ATATTATAATATATAAT
17459 ATCA-TATAATATATAAT
1 AT-ATTATAATATATAAT
17476 GATATTATAATATATA
1 -ATATTATAATATATA
17492 TTTATTTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 8 0.29
17 7 0.25
18 13 0.46
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (17 bp):
ATATTATAATATATAAT
Found at i:17553 original size:16 final size:17
Alignment explanation
Indices: 17517--17557 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
17507 TTTTGCTTAC
*
17517 TATTAATAATAATACTA
1 TATTAAAAATAATACTA
*
17534 TATTAAAAAT-ATATTA
1 TATTAAAAATAATACTA
17550 TATTAAAA
1 TATTAAAA
17558 TTAAATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
TATTAAAAATAATACTA
Found at i:17565 original size:16 final size:16
Alignment explanation
Indices: 17517--17565 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
17507 TTTTGCTTAC
* *
17517 TATTAATAATAATACTA
1 TATTAAAAATAA-ATTA
*
17534 TATTAAAAATATATTA
1 TATTAAAAATAAATTA
*
17550 TATTAAAATTAAATTA
1 TATTAAAAATAAATTA
17566 ATTTTATATA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 17 0.63
17 10 0.37
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
TATTAAAAATAAATTA
Found at i:17619 original size:10 final size:10
Alignment explanation
Indices: 17601--17655 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
17591 TTATATACTC
17601 TAATA-TTAT
1 TAATATTTAT
17610 TAATATTTAT
1 TAATATTTAT
17620 T-A-ATTTAT
1 TAATATTTAT
17628 T-ATAATTTAT
1 TAAT-ATTTAT
*
17638 ATAATATTTGT
1 -TAATATTTAT
17649 TAATATT
1 TAATATT
17656 AGAAGATGAG
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
8 8 0.20
9 6 0.15
10 18 0.45
11 6 0.15
12 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (10 bp):
TAATATTTAT
Found at i:17629 original size:18 final size:20
Alignment explanation
Indices: 17601--17645 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
17591 TTATATACTC
17601 TAATATTATTA-ATATTTAT-
1 TAATATTATTATA-ATTTATA
17620 TAAT-TTATTATAATTTATA
1 TAATATTATTATAATTTATA
17639 TAATATT
1 TAATATT
17646 TGTTAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 12 0.52
19 9 0.39
20 2 0.09
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TAATATTATTATAATTTATA
Found at i:17837 original size:22 final size:21
Alignment explanation
Indices: 17811--17859 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
17801 ACTAGTAATT
17811 TTAATAATTATTTATAAATTAA
1 TTAATAATTA-TTATAAATTAA
* *
17833 TTAATTAATTATTATTATTTAA
1 TTAA-TAATTATTATAAATTAA
17855 TTAAT
1 TTAAT
17860 TTTAATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 17 0.71
23 6 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTAATAATTATTATAAATTAA
Found at i:17840 original size:26 final size:24
Alignment explanation
Indices: 17806--17869 Score: 76
Period size: 26 Copynumber: 2.6 Consensus size: 24
17796 ATATAACTAG
17806 TAATTTTAATAATTATT-TATAAAT
1 TAATTTTAATAATTATTAT-TAAAT
* *
17830 TAATTAATTAATTATTATTATTTAAT
1 TAATT--TTAATAATTATTATTAAAT
17856 TAATTTTAATAATT
1 TAATTTTAATAATT
17870 GTATAGATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 13 0.38
26 20 0.59
27 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TAATTTTAATAATTATTATTAAAT
Found at i:17849 original size:18 final size:17
Alignment explanation
Indices: 17828--17869 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
17818 TTATTTATAA
17828 ATTAATTAATTAATTATT
1 ATTAATTAATTAATT-TT
*
17846 ATTATTTAATTAATTTT
1 ATTAATTAATTAATTTT
*
17863 AATAATT
1 ATTAATT
17870 GTATAGATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTAATTAATTAATTTT
Found at i:17992 original size:11 final size:11
Alignment explanation
Indices: 17976--18005 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
17966 CTATTCACAC
17976 AATTATATCAT
1 AATTATATCAT
*
17987 AATTATATCGT
1 AATTATATCAT
17998 AATTATAT
1 AATTATAT
18006 TAGATACCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (11 bp):
AATTATATCAT
Found at i:18335 original size:13 final size:13
Alignment explanation
Indices: 18319--18362 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
18309 GTTATAAAAT
*
18319 ATATTTATTATTA
1 ATATTTATTATAA
*
18332 ATATTGATTATAA
1 ATATTTATTATAA
*
18345 ATATTTATAATAA
1 ATATTTATTATAA
*
18358 TTATT
1 ATATT
18363 AAAAAATAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
ATATTTATTATAA
Found at i:18363 original size:22 final size:24
Alignment explanation
Indices: 18330--18377 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
18320 TATTTATTAT
*
18330 TAATATTGATT-ATAAAT-ATTTA
1 TAATATTGATTAAAAAATAATTTA
18352 TAATAATT-ATTAAAAAATAATTTA
1 TAAT-ATTGATTAAAAAATAATTTA
18376 TA
1 TA
18378 TAAACAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 7 0.32
23 8 0.36
24 7 0.32
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (24 bp):
TAATATTGATTAAAAAATAATTTA
Found at i:18372 original size:14 final size:17
Alignment explanation
Indices: 18353--18398 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
18343 AAATATTTAT
18353 AATAATTAT-T-AA-AA
1 AATAATTATATAAACAA
18367 AATAATTTATATAAACAA
1 AATAA-TTATATAAACAA
18385 AATAATTAATATAA
1 AATAATT-ATATAA
18399 CTATAACAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 5 0.19
15 4 0.15
16 1 0.04
17 4 0.15
18 13 0.48
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
AATAATTATATAAACAA
Found at i:18740 original size:18 final size:18
Alignment explanation
Indices: 18691--18741 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
18681 GAATTGTAGA
18691 ATTTCTATATAATTAAAAT
1 ATTT-TATATAATTAAAAT
*
18710 ATTTTATACAATTAAAAT
1 ATTTTATATAATTAAAAT
*
18728 ATTTTATTTAATTA
1 ATTTTATATAATTA
18742 GTATTTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 25 0.86
19 4 0.14
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTTATATAATTAAAAT
Found at i:19362 original size:23 final size:24
Alignment explanation
Indices: 19335--19386 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
19325 TAGATAAATT
19335 ATATAACATTATGA-TTAATGTTA
1 ATATAACATTATGATTTAATGTTA
* *
19358 ATATAACATTATTATTTAATTTTA
1 ATATAACATTATGATTTAATGTTA
19382 A-ATAA
1 ATATAA
19387 ATAATTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 17 0.65
24 9 0.35
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (24 bp):
ATATAACATTATGATTTAATGTTA
Found at i:19697 original size:28 final size:31
Alignment explanation
Indices: 19666--19725 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 31
19656 TATTTTTCAT
*
19666 ATTATTAATTT-TAATTA-ATATAAA-AATA
1 ATTAGTAATTTATAATTATATATAAATAATA
*
19694 ATTAGTATTTTATAATTATATATAAATAATA
1 ATTAGTAATTTATAATTATATATAAATAATA
19725 A
1 A
19726 AAATTTAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 9 0.33
29 6 0.22
30 7 0.26
31 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (31 bp):
ATTAGTAATTTATAATTATATATAAATAATA
Found at i:19731 original size:28 final size:29
Alignment explanation
Indices: 19677--19731 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
19667 TTATTAATTT
* **
19677 TAATTAATATAAAAATAATTAGTATTTTA
1 TAATTAATATAAAAATAATAAAAATTTTA
*
19706 TAATT-ATATATAAATAATAAAAATTT
1 TAATTAATATAAAAATAATAAAAATTT
19732 AAACAATGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 17 0.77
29 5 0.23
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (29 bp):
TAATTAATATAAAAATAATAAAAATTTTA
Found at i:20052 original size:41 final size:39
Alignment explanation
Indices: 20007--20084 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 39
19997 ATTTGTTTAT
* *
20007 TATATTTATAACTATA-ATTAATATAATATATTACTTATATG
1 TATATTTACAACTATATATAAAT-TAAT-TATTA-TTATATG
*
20048 TATATTTACAAGTATATATAAATTAATTATTATTATA
1 TATATTTACAACTATATATAAATTAATTATTATTATA
20085 ATAAATAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 5 0.15
40 5 0.15
41 18 0.55
42 5 0.15
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.49
Consensus pattern (39 bp):
TATATTTACAACTATATATAAATTAATTATTATTATATG
Found at i:20096 original size:31 final size:34
Alignment explanation
Indices: 20061--20139 Score: 82
Period size: 33 Copynumber: 2.5 Consensus size: 34
20051 ATTTACAAGT
20061 ATATATAAATTAATTAT-T-ATTA-TAATAAATA
1 ATATATAAATTAATTATATAATTATTAATAAATA
*
20092 ATATA-ATAATT-ATTATATAATTATTATTAAATA
1 ATATATA-AATTAATTATATAATTATTAATAAATA
20125 ATA-AT-AATTATATTA
1 ATATATAAATTA-ATTA
20140 ACTAATATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
30 6 0.15
31 14 0.35
32 5 0.12
33 15 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (34 bp):
ATATATAAATTAATTATATAATTATTAATAAATA
Found at i:20108 original size:12 final size:12
Alignment explanation
Indices: 20071--20118 Score: 62
Period size: 12 Copynumber: 4.1 Consensus size: 12
20061 ATATATAAAT
*
20071 TAATTATTATTA
1 TAATAATTATTA
* *
20083 TAATAAATAATA
1 TAATAATTATTA
20095 TAATAATTATTA
1 TAATAATTATTA
20107 T-ATAATTATTA
1 TAATAATTATTA
20118 T
1 T
20119 TAAATAATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
11 11 0.35
12 20 0.65
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TAATAATTATTA
Found at i:20111 original size:14 final size:14
Alignment explanation
Indices: 20071--20137 Score: 75
Period size: 14 Copynumber: 4.9 Consensus size: 14
20061 ATATATAAAT
20071 TAATTATTATTATAA
1 TAATTATTA-TATAA
*
20086 TAA--ATAATATAA
1 TAATTATTATATAA
20098 TAATTATTATATAA
1 TAATTATTATATAA
* *
20112 TTATTATTAAATAA
1 TAATTATTATATAA
*
20126 TAATAATTATAT
1 TAATTATTATAT
20138 TAACTAATAT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
12 8 0.19
13 3 0.07
14 29 0.67
15 3 0.07
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TAATTATTATATAA
Found at i:20140 original size:19 final size:20
Alignment explanation
Indices: 20071--20146 Score: 63
Period size: 19 Copynumber: 4.0 Consensus size: 20
20061 ATATATAAAT
20071 TAATTATTATT--ATAATAAA
1 TAATTATTATTAAATAAT-AA
* * *
20090 TAA-TA-TAATAATTATTATA
1 TAATTATTATTAAATAATA-A
20109 TAATTATTATTAAATAATAA
1 TAATTATTATTAAATAATAA
*
20129 TAATTA-TATTAACTAATA
1 TAATTATTATTAAATAATA
20147 TTACTATTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
17 3 0.07
18 3 0.07
19 21 0.47
20 9 0.20
21 9 0.20
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (20 bp):
TAATTATTATTAAATAATAA
Found at i:20157 original size:19 final size:19
Alignment explanation
Indices: 20086--20158 Score: 52
Period size: 19 Copynumber: 4.1 Consensus size: 19
20076 ATTATTATAA
20086 TAAATAAT-ATAATAATTAT
1 TAAATAATAATAAT-ATTAT
20105 T--AT-ATAAT--TATTAT
1 TAAATAATAATAATATTAT
20119 TAAATAATAATAAT-TATAT
1 TAAATAATAATAATAT-TAT
* * *
20138 TAACTAATATTACTATTAT
1 TAAATAATAATAATATTAT
20157 TA
1 TA
20159 TAGAAATTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
14 6 0.14
15 1 0.02
16 4 0.09
17 9 0.21
18 1 0.02
19 21 0.49
20 1 0.02
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
TAAATAATAATAATATTAT
Found at i:20275 original size:28 final size:29
Alignment explanation
Indices: 20191--20275 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 29
20181 TTAATATAAC
20191 TTTA-AATAAATA-TTAATTAATT-AATTA
1 TTTATAATAAATATTTAA-TAATTAAATTA
* * * *
20218 ATTAT-ATAATCTATTTAATGATTATA-TA
1 TTTATAATAA-ATATTTAATAATTAAATTA
20246 TTTATAATAAATATTTAAT-ATTAAATTA
1 TTTATAATAAATATTTAATAATTAAATTA
20274 TT
1 TT
20276 GCAATTGTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
27 12 0.27
28 24 0.53
29 9 0.20
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (29 bp):
TTTATAATAAATATTTAATAATTAAATTA
Found at i:20609 original size:10 final size:10
Alignment explanation
Indices: 20584--20708 Score: 61
Period size: 10 Copynumber: 12.5 Consensus size: 10
20574 ATAAATTAAC
*
20584 TATTAATTTA
1 TATTAATATA
20594 -ATTAATATA
1 TATTAATATA
20603 TATTAATAATA
1 TATTAAT-ATA
20614 TTATGTAATATA
1 -TAT-TAATATA
*
20626 TAATTGGATAT-
1 T-ATT-AATATA
20637 TATT-A-AT-
1 TATTAATATA
20644 TATT-ATATA
1 TATTAATATA
*
20653 TAATAATATA
1 TATTAATATA
*
20663 TATAAATAT-
1 TATTAATATA
20672 TATATAAT-TA
1 TAT-TAATATA
20682 TA-TAATACTTCA
1 TATTAATA--T-A
*
20694 TATTATTATA
1 TATTAATATA
20704 TATTA
1 TATTA
20709 TTAAAAATAA
Statistics
Matches: 92, Mismatches: 7, Indels: 32
0.70 0.05 0.24
Matches are distributed among these distances:
7 7 0.08
8 7 0.08
9 15 0.16
10 32 0.35
11 8 0.09
12 15 0.16
13 8 0.09
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (10 bp):
TATTAATATA
Found at i:20640 original size:25 final size:23
Alignment explanation
Indices: 20596--20661 Score: 64
Period size: 25 Copynumber: 2.8 Consensus size: 23
20586 TTAATTTAAT
20596 TAATATATATTAATAATATTATG
1 TAATATATATTAATAATATTATG
* *
20619 TAATATATAATTGGATATTATTAAT-
1 TAATATAT-ATT-AATAATATT-ATG
*
20644 TATTATATA-TAATAATAT
1 TAATATATATTAATAATAT
20662 ATATAAATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
22 6 0.17
23 9 0.26
24 4 0.11
25 14 0.40
26 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (23 bp):
TAATATATATTAATAATATTATG
Found at i:20697 original size:60 final size:61
Alignment explanation
Indices: 20578--20709 Score: 141
Period size: 60 Copynumber: 2.2 Consensus size: 61
20568 TATCTAATAA
* * * *
20578 ATTAACTATTA-ATTTAATTAATATATATTAATAATATTATGTAATATATAATTGGATATT
1 ATTAATTATTATATATAATTAATATATATTAATAATATTATATAATATATAATTGCATATT
*
20638 ATTAATTATTATATATAA-TAATATATA-T-A-AATATTATATAATTATATAATACTTCATATT
1 ATTAATTATTATATATAATTAATATATATTAATAATATTATATAA-TATATAAT--TGCATATT
20698 ATT-ATATATTAT
1 ATTAAT-TATTAT
20710 TAAAAATAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
57 11 0.18
58 9 0.15
59 3 0.05
60 34 0.55
61 5 0.08
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (61 bp):
ATTAATTATTATATATAATTAATATATATTAATAATATTATATAATATATAATTGCATATT
Found at i:20833 original size:22 final size:20
Alignment explanation
Indices: 20793--20839 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
20783 ATTGTTCAAG
* *
20793 TAATTATCATTTTATTTAAT
1 TAATTAACATTTTATTTAAA
20813 TAATTAACATTTAATATTTAAA
1 TAATTAACATTT--TATTTAAA
20835 TAATT
1 TAATT
20840 TTGACTGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 11 0.48
22 12 0.52
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATTAACATTTTATTTAAA
Found at i:21047 original size:36 final size:38
Alignment explanation
Indices: 20971--21064 Score: 97
Period size: 36 Copynumber: 2.6 Consensus size: 38
20961 TAAATTTATA
* **
20971 AATAATTTATAAT-ATAATTAATTATAATTATTATTTT
1 AATAATTTATAATAATAATTAATTATAATAATTATCCT
* *
21008 AATAATTTATAATAAT-ATT-GTTATTATAATTATCCT
1 AATAATTTATAATAATAATTAATTATAATAATTATCCT
*
21044 AATAA-TTACTAATAATGATTA
1 AATAATTTA-TAATAATAATTA
21065 TCTTTAATTA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
35 3 0.06
36 24 0.50
37 19 0.40
38 2 0.04
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (38 bp):
AATAATTTATAATAATAATTAATTATAATAATTATCCT
Found at i:21575 original size:18 final size:18
Alignment explanation
Indices: 21554--21588 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21544 TTAAATAAAC
*
21554 AATTATTATTATATTATT
1 AATTATTAATATATTATT
*
21572 AATTGTTAATATATTAT
1 AATTATTAATATATTAT
21589 AGTAATTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
AATTATTAATATATTATT
Found at i:21788 original size:14 final size:16
Alignment explanation
Indices: 21771--21803 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
21761 TTTATAGCAT
21771 TATAATTA-TA-AATA
1 TATAATTACTATAATA
21785 TATAATTACTATAATA
1 TATAATTACTATAATA
21801 TAT
1 TAT
21804 TTATATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 2 0.12
16 7 0.41
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TATAATTACTATAATA
Found at i:21873 original size:25 final size:24
Alignment explanation
Indices: 21822--21876 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
21812 ATTATAATCT
*
21822 TAATAAATTATTATTAATTTACTTA
1 TAATAAATTATTATTAA-TGACTTA
21847 TAATAAATTATTTATTAA-GACTATA
1 TAATAAATTA-TTATTAATGACT-TA
21872 TAATA
1 TAATA
21877 TATGAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 3 0.11
25 17 0.63
26 7 0.26
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (24 bp):
TAATAAATTATTATTAATGACTTA
Found at i:22039 original size:16 final size:16
Alignment explanation
Indices: 22002--22050 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 16
21992 AATAATTAAA
22002 ATTATTACTATTCAGTTAT
1 ATTATTACTATT-A-TT-T
22021 ATT-TTGACTATTATTT
1 ATTATT-ACTATTATTT
22037 ATTATTACTATTAT
1 ATTATTACTATTAT
22051 AATAATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
16 12 0.43
17 4 0.14
18 3 0.11
19 9 0.32
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (16 bp):
ATTATTACTATTATTT
Found at i:22576 original size:22 final size:23
Alignment explanation
Indices: 22527--22581 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
22517 TATAATAAAA
**
22527 TAATTATAATTTATTAATTTATT
1 TAATTATAATTTATTAAAATATT
* *
22550 AAATTATTA-TTATTAAAATATT
1 TAATTATAATTTATTAAAATATT
*
22572 TAATTCTAAT
1 TAATTATAAT
22582 CAATATTGTA
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TAATTATAATTTATTAAAATATT
Found at i:23549 original size:20 final size:20
Alignment explanation
Indices: 23524--23561 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23514 AATAATATTA
23524 TAAT-AATATATTTATTAAAT
1 TAATAAATA-ATTTATTAAAT
23544 TAATAAATAATTTATTAA
1 TAATAAATAATTTATTAA
23562 TATAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TAATAAATAATTTATTAAAT
Found at i:23698 original size:18 final size:18
Alignment explanation
Indices: 23651--23720 Score: 54
Period size: 18 Copynumber: 3.7 Consensus size: 18
23641 ATTATAATTG
23651 AATTAATATTAA-TATTAT
1 AATT-ATATTAATTATTAT
*
23669 AATTATAATAATTATTAT
1 AATTATATTAATTATTAT
*
23687 -TTTCATATTAATTAAAATTAT
1 AATT-ATATTAATT---ATTAT
*
23708 AATAATATTAATT
1 AATTATATTAATT
23721 GAATAATAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
17 8 0.20
18 18 0.44
21 14 0.34
22 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (18 bp):
AATTATATTAATTATTAT
Found at i:23897 original size:17 final size:17
Alignment explanation
Indices: 23861--23916 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 17
23851 AATACTATGA
23861 ATTATTAATATAAGTCTTAT
1 ATTA-TAATATAAG--TTAT
23881 ATTATAATATAAGTTAT
1 ATTATAATATAAGTTAT
*
23898 ATTAATAA-ATTAGTTAT
1 ATT-ATAATATAAGTTAT
23915 AT
1 AT
23917 CATATTAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
17 17 0.50
18 4 0.12
19 9 0.26
20 4 0.12
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (17 bp):
ATTATAATATAAGTTAT
Found at i:24447 original size:21 final size:22
Alignment explanation
Indices: 24423--24468 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
24413 TTCTTAGTTA
*
24423 TAAATCTAATTGTATTT-ATTT
1 TAAATATAATTGTATTTAATTT
* *
24444 TAAATATTATTTTATTTAATTT
1 TAAATATAATTGTATTTAATTT
24466 TAA
1 TAA
24469 TAATCAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
TAAATATAATTGTATTTAATTT
Found at i:24498 original size:23 final size:23
Alignment explanation
Indices: 24472--24517 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
24462 ATTTTAATAA
* *
24472 TCAATTTAAAATAAATATTATAT
1 TCAATATAAAATAAATAATATAT
* *
24495 TCAATATATATTAAATAATATAT
1 TCAATATAAAATAAATAATATAT
24518 AAAAAATTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
TCAATATAAAATAAATAATATAT
Found at i:24547 original size:21 final size:20
Alignment explanation
Indices: 24491--24548 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
24481 AATAAATATT
*
24491 ATATTCAATATATATTAAATA
1 ATATTCAAAATAT-TTAAATA
* *
24512 ATATAT-AAAAAATTTAATTA
1 ATAT-TCAAAATATTTAAATA
24532 ATTATTCAAAATATTTA
1 A-TATTCAAAATATTTA
24549 TTTTTATATC
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 8 0.27
21 21 0.70
22 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (20 bp):
ATATTCAAAATATTTAAATA
Found at i:24809 original size:22 final size:22
Alignment explanation
Indices: 24769--24811 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
24759 TTAAATTTGT
*
24769 ATTATAATAAATATTATATTAC
1 ATTATAATAAATATAATATTAC
24791 ATTATAAT-AATAGTAATATTA
1 ATTATAATAAATA-TAATATTA
24812 GTTAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
ATTATAATAAATATAATATTAC
Found at i:24828 original size:33 final size:34
Alignment explanation
Indices: 24791--24870 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 34
24781 ATTATATTAC
* * * *
24791 ATTATAATAATAGTAATATTAGTTAAT-ATAATT
1 ATTATTATAATAGTAATATAAATTAATAATAAAT
*
24824 ATTATTATATTA-TAATATAAATTAATAATAAAT
1 ATTATTATAATAGTAATATAAATTAATAATAAAT
24857 ATTATTA-AATAGTA
1 ATTATTATAATAGTA
24871 CTAAGAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
32 15 0.38
33 24 0.62
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (34 bp):
ATTATTATAATAGTAATATAAATTAATAATAAAT
Found at i:25346 original size:22 final size:22
Alignment explanation
Indices: 25306--25361 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 22
25296 TATTATCAGT
25306 TTTAAATTTATTTAATAATATT-A
1 TTTAAA-TTA-TTAATAATATTGA
25329 TTTAAATTATTAATTAATATTGA
1 TTTAAATTATTAA-TAATATTGA
25352 -TT-AATTATTA
1 TTTAAATTATTA
25362 TTTTAATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
21 12 0.39
22 12 0.39
23 7 0.23
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTAAATTATTAATAATATTGA
Found at i:25356 original size:14 final size:13
Alignment explanation
Indices: 25317--25376 Score: 63
Period size: 12 Copynumber: 4.8 Consensus size: 13
25307 TTAAATTTAT
* *
25317 TTAATAATATTAT
1 TTAATATTATTAA
25330 TTAA-ATTATTAA
1 TTAATATTATTAA
25342 TTAATATTGATTAA
1 TTAATATT-ATTAA
*
25356 TTATTATT-TTAA
1 TTAATATTATTAA
25368 -TAATATTAT
1 TTAATATTAT
25377 ATTAATAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
11 6 0.15
12 15 0.38
13 7 0.17
14 12 0.30
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
TTAATATTATTAA
Found at i:25357 original size:21 final size:21
Alignment explanation
Indices: 25306--25381 Score: 64
Period size: 22 Copynumber: 3.2 Consensus size: 21
25296 TATTATCAGT
25306 TTTAAATTTATTTAATAATATTA
1 TTTAAA-TTA-TTAATAATATTA
25329 TTTAAATTATTAATTAATATTGA
1 TTTAAATTATTAA-TAATATT-A
25352 -TTAATTATTATTTTAATAATATTA
1 TTTAA--ATTA--TTAATAATATTA
25376 TATTAA
1 T-TTAA
25382 TAATAATATA
Statistics
Matches: 45, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
21 4 0.09
22 14 0.31
23 7 0.16
24 5 0.11
25 7 0.16
26 8 0.18
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (21 bp):
TTTAAATTATTAATAATATTA
Found at i:25381 original size:14 final size:14
Alignment explanation
Indices: 25336--25392 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 14
25326 TTATTTAAAT
25336 TATTAATTAATATT-
1 TATTAA-TAATATTA
*
25350 GATTAAT--TATTA
1 TATTAATAATATTA
*
25362 TTTTAATAATATTA
1 TATTAATAATATTA
*
25376 TATTAATAATAATA
1 TATTAATAATATTA
25390 TAT
1 TAT
25393 ACTATTTGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
11 4 0.11
12 5 0.14
13 1 0.03
14 25 0.71
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (14 bp):
TATTAATAATATTA
Done.