Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1582
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: 47386
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Found at i:247 original size:18 final size:18
Alignment explanation
Indices: 225--270 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
215 AATAAATAAT
225 ATAAA-AATTATATTTATA
1 ATAAATAATTAT-TTTATA
* *
243 TTAAATAATAATTTTATA
1 ATAAATAATTATTTTATA
261 ATAAATAATT
1 ATAAATAATT
271 TTAAATTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATAAATAATTATTTTATA
Found at i:479 original size:2 final size:2
Alignment explanation
Indices: 472--512 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
462 AATGCAAATT
472 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
513 CTTAAATTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1320 original size:20 final size:20
Alignment explanation
Indices: 1289--1337 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
1279 TCAATTAATT
1289 ATATTAAAATATAAAATTTAA
1 ATATT-AAATATAAAATTTAA
* *
1310 ATATTAAATATATAATTTTA
1 ATATTAAATATAAAATTTAA
*
1330 ATAGTAAA
1 ATATTAAA
1338 AAGTATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
ATATTAAATATAAAATTTAA
Found at i:1363 original size:17 final size:18
Alignment explanation
Indices: 1343--1380 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
1333 GTAAAAAGTA
1343 TTAAAT-AAAATAAATAT
1 TTAAATAAAAATAAATAT
*
1360 TT-AATAAAAATATATAT
1 TTAAATAAAAATAAATAT
1377 TTAA
1 TTAA
1381 TTAAGTCGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
16 3 0.17
17 14 0.78
18 1 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TTAAATAAAAATAAATAT
Found at i:1381 original size:17 final size:17
Alignment explanation
Indices: 1349--1381 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1339 AGTATTAAAT
1349 AAAATAAATATTTAATA
1 AAAATAAATATTTAATA
*
1366 AAAATATATATTTAAT
1 AAAATAAATATTTAAT
1382 TAAGTCGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAATAAATATTTAATA
Found at i:2148 original size:23 final size:23
Alignment explanation
Indices: 2112--2176 Score: 60
Period size: 25 Copynumber: 2.8 Consensus size: 23
2102 AAAAATATCA
* * *
2112 TTTTAAATTTATTAATATTTTAT
1 TTTTAAAATAATTAATAATTTAT
*
2135 TTTTAAAATAATTATAAAAATTTAT
1 TTTTAAAATAA-T-TAATAATTTAT
*
2160 TTTTAAAA-ATTTAATAA
1 TTTTAAAATAATTAATAA
2177 AATTTATATT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
22 5 0.15
23 10 0.29
24 2 0.06
25 17 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTTAAAATAATTAATAATTTAT
Found at i:2162 original size:24 final size:24
Alignment explanation
Indices: 2116--2189 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 24
2106 ATATCATTTT
* *
2116 AAATTTATTAATATTTTATTTTTAAA
1 AAATTTAATAA-AATTTA-TTTTAAA
*
2142 ATAA-TT-ATAAAAATTTATTTTTAA
1 A-AATTTAAT-AAAATTTATTTTAAA
*
2166 AAATTTAATAAAATTTATATTAAA
1 AAATTTAATAAAATTTATTTTAAA
2190 TGTGTAAGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
23 2 0.05
24 22 0.56
25 8 0.21
26 5 0.13
27 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
AAATTTAATAAAATTTATTTTAAA
Found at i:2164 original size:25 final size:24
Alignment explanation
Indices: 2130--2183 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
2120 TTATTAATAT
2130 TTTATTTTTAAAATAATT-ATAAAAA
1 TTTATTTTTAAAA-AATTAAT-AAAA
*
2155 TTTATTTTTAAAAATTTAATAAAA
1 TTTATTTTTAAAAAATTAATAAAA
2179 TTTAT
1 TTTAT
2184 ATTAAATGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TTTATTTTTAAAAAATTAATAAAA
Found at i:2289 original size:14 final size:14
Alignment explanation
Indices: 2228--2289 Score: 54
Period size: 15 Copynumber: 4.2 Consensus size: 14
2218 TTTATGTATT
2228 TATTTATAAATATAA
1 TATTT-TAAATATAA
*
2243 AATTTTAAATAATACA
1 TATTTTAAAT-ATA-A
*
2259 TA-TTTAATATAAAA
1 TATTTTAA-ATATAA
*
2273 TATTTTAAATATCA
1 TATTTTAAATATAA
2287 TAT
1 TAT
2290 AAAATGTATA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
14 15 0.39
15 19 0.50
16 4 0.11
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (14 bp):
TATTTTAAATATAA
Found at i:2302 original size:28 final size:30
Alignment explanation
Indices: 2237--2302 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 30
2227 TTATTTATAA
* **
2237 ATATAAAATTTTAAATAATACATATTTAAT
1 ATATAATATTTTAAATAATACATATAAAAT
*
2267 ATAAAATATTTTAAAT-AT-CATATAAAAT
1 ATATAATATTTTAAATAATACATATAAAAT
*
2295 GTATAATA
1 ATATAATA
2303 AATTATTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
28 14 0.47
29 2 0.07
30 14 0.47
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (30 bp):
ATATAATATTTTAAATAATACATATAAAAT
Found at i:2643 original size:16 final size:17
Alignment explanation
Indices: 2615--2646 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
2605 AAATTCAATC
2615 TTTATTATTAATAATTT
1 TTTATTATTAATAATTT
2632 TTTATT-TTAATAATT
1 TTTATTATTAATAATT
2647 AAAATTACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTATTATTAATAATTT
Found at i:2675 original size:13 final size:12
Alignment explanation
Indices: 2644--2678 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
2634 TATTTTAATA
2644 ATTAAAA-TTAC
1 ATTAAAATTTAC
2655 ATTAAAATTTAC
1 ATTAAAATTTAC
2667 ATATAAAATTTA
1 AT-TAAAATTTA
2679 ATTCGATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 7 0.32
12 6 0.27
13 9 0.41
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTAAAATTTAC
Found at i:3454 original size:16 final size:16
Alignment explanation
Indices: 3436--3465 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3426 ATGTATTTAA
3436 AAAAAT-ATTAAAAAT
1 AAAAATGATTAAAAAT
3451 AAAAATGATTAAAAA
1 AAAAATGATTAAAAA
3466 ATTTAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
AAAAATGATTAAAAAT
Found at i:4398 original size:20 final size:21
Alignment explanation
Indices: 4343--4402 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 21
4333 CCTCTATAAG
* *
4343 ATAAAAAAATTAATAATAAAGT
1 ATAAAATAATTTA-AATAAAGT
4365 ATAAATATAAAATTTAAATAAA-T
1 ATAAA-AT--AATTTAAATAAAGT
4388 ATAAAATAATTTAAA
1 ATAAAATAATTTAAA
4403 ATAATTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
20 8 0.24
22 7 0.21
23 7 0.21
24 6 0.18
25 5 0.15
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
ATAAAATAATTTAAATAAAGT
Found at i:7108 original size:25 final size:27
Alignment explanation
Indices: 7080--7134 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
7070 TTATTTTTTA
*
7080 ATAT-TATA-ATTATATTTTAA-ATATT
1 ATATATATATATTA-ATTTTAATAAATT
*
7105 ATATATTTATATTAATTTTAATAAATT
1 ATATATATATATTAATTTTAATAAATT
7132 ATA
1 ATA
7135 ATTTATGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 4 0.16
26 10 0.40
27 11 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
ATATATATATATTAATTTTAATAAATT
Found at i:7114 original size:22 final size:21
Alignment explanation
Indices: 7066--7117 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
7056 TATTCAAAAT
*
7066 TATATTAT-TTTTTAATATTA
1 TATATTATATTTTAAATATTA
7086 TA-ATTATATTTTAAATATTA
1 TATATTATATTTTAAATATTA
7106 TATATTTATATT
1 TATA-TTATATT
7118 AATTTTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 5 0.18
20 15 0.54
21 1 0.04
22 7 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATATTATATTTTAAATATTA
Found at i:7119 original size:20 final size:20
Alignment explanation
Indices: 7051--7119 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
7041 TTGTAATTTA
*
7051 ATTTTTATTCAAA-ATTATATT
1 ATTTATATT-AAATATTATA-T
7072 ATTT-T-TT-AATATTATA-
1 ATTTATATTAAATATTATAT
*
7088 ATTATATTTTAAATATTATAT
1 ATT-TATATTAAATATTATAT
7109 ATTTATATTAA
1 ATTTATATTAA
7120 TTTTAATAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 13
0.75 0.02 0.24
Matches are distributed among these distances:
16 3 0.07
17 3 0.07
18 7 0.17
19 4 0.10
20 17 0.41
21 7 0.17
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTTATATTAAATATTATAT
Found at i:7686 original size:3 final size:3
Alignment explanation
Indices: 7678--7745 Score: 56
Period size: 3 Copynumber: 23.3 Consensus size: 3
7668 AAATATAAAT
* *
7678 TAA TAA TAA TAA -AA T-A TAA T-A TAAA TATA TGAA TTA T-A TAT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TA-A T-AA TAA TAA TAA TAA
7722 T-A TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
7746 GAAAAAAAAG
Statistics
Matches: 54, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
2 10 0.19
3 37 0.69
4 6 0.11
5 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:8369 original size:2 final size:2
Alignment explanation
Indices: 8325--8351 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8315 GAAGAGTAAC
8325 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
8352 AAAAGATAAA
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:8966 original size:18 final size:18
Alignment explanation
Indices: 8922--8958 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8912 ATATTATATT
*
8922 TTTATTTAAAATATAATA
1 TTTATATAAAATATAATA
*
8940 TTTATATAAAATTTAATA
1 TTTATATAAAATATAATA
8958 T
1 T
8959 ATTAATAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATAAAATATAATA
Found at i:8977 original size:50 final size:51
Alignment explanation
Indices: 8923--9024 Score: 120
Period size: 50 Copynumber: 2.0 Consensus size: 51
8913 TATTATATTT
*
8923 TTATTTAAAATATAATATTTATATAAA-ATTTA-A-TATATTAATAATTTTTA
1 TTATTTAAAATATAATA-TAAT-TAAATATTTATACTATATTAATAATTTTTA
* * * *
8973 TTATTTAAATTTTAATATAATTAAATATTTATACTATATTACTATTTTTTA
1 TTATTTAAAATATAATATAATTAAATATTTATACTATATTAATAATTTTTA
9024 T
1 T
9025 CATACTTTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
48 4 0.09
49 8 0.18
50 16 0.36
51 16 0.36
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (51 bp):
TTATTTAAAATATAATATAATTAAATATTTATACTATATTAATAATTTTTA
Found at i:9411 original size:17 final size:17
Alignment explanation
Indices: 9389--9449 Score: 59
Period size: 17 Copynumber: 3.2 Consensus size: 17
9379 GGTGCAGCCG
9389 AAAAAGAGAGAAAGAAA
1 AAAAAGAGAGAAAGAAA
9406 AAAAAGAAAGAGAAAAAAAGAAA
1 AAAAAG--AGAG----AAAGAAA
*
9429 AAAAAGAAAGAAAGAAA
1 AAAAAGAGAGAAAGAAA
9446 AAAA
1 AAAA
9450 TTTATATCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
17 17 0.46
19 4 0.11
21 3 0.08
23 13 0.35
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAAGAGAGAAAGAAA
Found at i:9425 original size:23 final size:24
Alignment explanation
Indices: 9399--9449 Score: 86
Period size: 23 Copynumber: 2.1 Consensus size: 24
9389 AAAAAGAGAG
9399 AAAGAAAAAAAAGAAAG-AGAAAA
1 AAAGAAAAAAAAGAAAGAAGAAAA
9422 AAAGAAAAAAAAGAAAGAAAGAAAA
1 AAAGAAAAAAAAGAAAG-AAGAAAA
9447 AAA
1 AAA
9450 TTTATATCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 17 0.65
25 9 0.35
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (24 bp):
AAAGAAAAAAAAGAAAGAAGAAAA
Found at i:9578 original size:3 final size:3
Alignment explanation
Indices: 9572--9651 Score: 153
Period size: 3 Copynumber: 27.0 Consensus size: 3
9562 AAAAAAAAGG
9572 TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9619 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9652 CTATCTATAC
Statistics
Matches: 76, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 74 0.97
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:9714 original size:4 final size:4
Alignment explanation
Indices: 9705--9778 Score: 71
Period size: 4 Copynumber: 19.0 Consensus size: 4
9695 GTTTGGCTGG
* * * *
9705 GAAA GAAA GAAA GAAA GTAA GAAA -AAA AAAA GAAT GAAT GAAA G-AA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
* * *
9751 GAAA AAAA GAAA AAAA AAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
9779 AAAATTATAT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 6 0.10
4 53 0.90
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (4 bp):
GAAA
Found at i:9736 original size:23 final size:23
Alignment explanation
Indices: 9710--9782 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 23
9700 GCTGGGAAAG
*
9710 AAAGAAAGAAAGTAAGAAAAAAA
1 AAAGAAAGAAAGAAAGAAAAAAA
* * *
9733 AAAGAATGAATGAAAGAAGAAAA
1 AAAGAAAGAAAGAAAGAAAAAAA
* *
9756 AAAGAAAAAAAAAAAGAAAGAAAA
1 AAAGAAAGAAAGAAAGAAA-AAAA
9780 AAA
1 AAA
9783 TTATATGTTG
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 33 0.82
24 7 0.17
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.04
Consensus pattern (23 bp):
AAAGAAAGAAAGAAAGAAAAAAA
Found at i:9852 original size:25 final size:27
Alignment explanation
Indices: 9824--9876 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
9814 ATTTAAAATA
*
9824 TAAT-ATTT-TTATATTTTTTATATAT
1 TAATAATTTATTATATTTTATATATAT
* *
9849 TAATAATTTATTTTATTTTATGTATAT
1 TAATAATTTATTATATTTTATATATAT
9876 T
1 T
9877 TTTATACGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 4 0.17
26 4 0.17
27 15 0.65
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (27 bp):
TAATAATTTATTATATTTTATATATAT
Found at i:10545 original size:16 final size:16
Alignment explanation
Indices: 10506--10546 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
10496 TTTTTATTAA
10506 AAATAATTAAAAATAT
1 AAATAATTAAAAATAT
* *
10522 AAAAAATTAAAAATGT
1 AAATAATTAAAAATAT
*
10538 AATTAATTA
1 AAATAATTA
10547 TTTTATTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (16 bp):
AAATAATTAAAAATAT
Found at i:11318 original size:19 final size:18
Alignment explanation
Indices: 11294--11342 Score: 71
Period size: 19 Copynumber: 2.7 Consensus size: 18
11284 TACTGAGGTG
11294 AAAAAGAAAAAAAGAAACA
1 AAAAAGAAAAAAAGAAA-A
*
11313 AAAAAGCAAAAAAGAAAA
1 AAAAAGAAAAAAAGAAAA
*
11331 AAAAGGAAAAAA
1 AAAAAGAAAAAA
11343 TTTATGTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAAAAGAAAA
Found at i:11449 original size:14 final size:15
Alignment explanation
Indices: 11425--11466 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
11415 TTTATTTGAT
*
11425 TTTATTTTATATATA
1 TTTATTATATATATA
11440 TTT-TTATATATA-A
1 TTTATTATATATATA
*
11453 TTTATTTTATATAT
1 TTTATTATATATAT
11467 GGGAGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 4 0.17
14 16 0.70
15 3 0.13
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTATTATATATATA
Found at i:12466 original size:12 final size:14
Alignment explanation
Indices: 12449--12480 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
12439 TTTGTTAAAT
12449 ATTTTAAAA-TA-A
1 ATTTTAAAATTATA
12461 ATTTTAAAATTATA
1 ATTTTAAAATTATA
12475 ATTTTA
1 ATTTTA
12481 TTTAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.50
13 2 0.11
14 7 0.39
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTTAAAATTATA
Found at i:12653 original size:22 final size:24
Alignment explanation
Indices: 12628--12671 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
12618 CGTGATGGAA
12628 AAGAAAG-A-AAAAAAAAGAAAGG
1 AAGAAAGAAGAAAAAAAAGAAAGG
12650 AAGAAAGAAGAAAAAAAAGAAA
1 AAGAAAGAAGAAAAAAAAGAAA
12672 AAAATTTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 1 0.05
24 12 0.60
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (24 bp):
AAGAAAGAAGAAAAAAAAGAAAGG
Found at i:14386 original size:28 final size:24
Alignment explanation
Indices: 14330--14378 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
14320 TAATTTAAAA
*
14330 TTAATTAATAATAAATTAAAAATT
1 TTAATTAAAAATAAATTAAAAATT
14354 TTAATTAAAATATAAAATTAAAAAT
1 TTAATTAAAA-AT-AAATTAAAAAT
14379 AATTTAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.41
25 2 0.09
26 11 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
TTAATTAAAAATAAATTAAAAATT
Found at i:14628 original size:12 final size:12
Alignment explanation
Indices: 14606--14640 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
14596 TCGTAAAATT
*
14606 AATAATTTAAAA
1 AATAATATAAAA
*
14618 TATAATATAAAA
1 AATAATATAAAA
14630 AATAATATAAA
1 AATAATATAAA
14641 TAATTTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AATAATATAAAA
Found at i:14723 original size:17 final size:17
Alignment explanation
Indices: 14699--14736 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
14689 TAAATATACT
14699 TATG-ATATAAAAAATA
1 TATGAATATAAAAAATA
**
14715 TATGAATATTGAAAATA
1 TATGAATATAAAAAATA
14732 TATGA
1 TATGA
14737 GTTACTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (17 bp):
TATGAATATAAAAAATA
Found at i:15182 original size:21 final size:21
Alignment explanation
Indices: 15156--15208 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
15146 ATTATTTTTA
*
15156 AAAATATTTAAAT-TTAATTAT
1 AAAATATATAAATATTAA-TAT
15177 AAAATATATAAATATTAATAT
1 AAAATATATAAATATTAATAT
15198 AAAA-ATA-AAAT
1 AAAATATATAAAT
15209 TTTTATAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 4 0.13
20 3 0.10
21 19 0.63
22 4 0.13
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAATATATAAATATTAATAT
Found at i:20540 original size:20 final size:20
Alignment explanation
Indices: 20503--20541 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
20493 AATTTAATTT
* * *
20503 ATAAAATAATTTTTTAAATA
1 ATAAAATAAATGTCTAAATA
20523 ATAAAATAAATGTCTAAAT
1 ATAAAATAAATGTCTAAAT
20542 TAATCCGATC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
ATAAAATAAATGTCTAAATA
Found at i:21215 original size:20 final size:20
Alignment explanation
Indices: 21190--21235 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
21180 AAAAAATATA
21190 TTTAAATA-ATACTAGTGAAG
1 TTTAAATATATA-TAGTGAAG
*
21210 TTTAAATATTTATAGTGAAG
1 TTTAAATATATATAGTGAAG
21230 TTTAAA
1 TTTAAA
21236 ATTTTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 22 0.92
21 2 0.08
ACGTcount: A:0.43, C:0.02, G:0.13, T:0.41
Consensus pattern (20 bp):
TTTAAATATATATAGTGAAG
Found at i:21242 original size:21 final size:20
Alignment explanation
Indices: 21202--21239 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
21192 TAAATAATAC
21202 TAGTGAAGTTTAAATATTTA
1 TAGTGAAGTTTAAATATTTA
21222 TAGTGAAGTTTAAA-ATTT
1 TAGTGAAGTTTAAATATTT
21240 TTAAAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (20 bp):
TAGTGAAGTTTAAATATTTA
Found at i:21318 original size:12 final size:14
Alignment explanation
Indices: 21300--21334 Score: 56
Period size: 12 Copynumber: 2.6 Consensus size: 14
21290 ATAATGATAT
21300 TTAAAAATT-AAAA
1 TTAAAAATTAAAAA
21313 -TAAAAATTAAAAA
1 TTAAAAATTAAAAA
21326 TTAAAAATT
1 TTAAAAATT
21335 TCACTAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 8 0.40
13 4 0.20
14 8 0.40
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
TTAAAAATTAAAAA
Found at i:21332 original size:8 final size:7
Alignment explanation
Indices: 21300--21334 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
21290 ATAATGATAT
21300 TTAAAAA
1 TTAAAAA
21307 TT-AAAA
1 TTAAAAA
21313 -TAAAAA
1 TTAAAAA
21319 TTAAAAA
1 TTAAAAA
21326 TTAAAAA
1 TTAAAAA
21333 TT
1 TT
21335 TCACTAATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 1 0.04
6 8 0.31
7 17 0.65
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
TTAAAAA
Found at i:22392 original size:17 final size:17
Alignment explanation
Indices: 22370--22403 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
22360 TGTATCACTG
22370 GAATTTGAAGAACACAT
1 GAATTTGAAGAACACAT
22387 GAATTTGAAGAACACAT
1 GAATTTGAAGAACACAT
22404 AAATCCTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.24
Consensus pattern (17 bp):
GAATTTGAAGAACACAT
Found at i:24416 original size:17 final size:18
Alignment explanation
Indices: 24394--24434 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
24384 ATTTTTAATT
*
24394 ATTGATTAAATTAGTT-A
1 ATTGATTAAATTAATTGA
*
24411 ATTGATTAGATTAATTGA
1 ATTGATTAAATTAATTGA
24429 ATTGAT
1 ATTGAT
24435 CGGTTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.46
Consensus pattern (18 bp):
ATTGATTAAATTAATTGA
Found at i:25110 original size:27 final size:29
Alignment explanation
Indices: 25066--25119 Score: 69
Period size: 27 Copynumber: 1.9 Consensus size: 29
25056 ATTTTTAGTA
25066 TTTTGATAATAAATATTT-TAAGTTTAATT
1 TTTTGATAATAAATATTTATAA-TTTAATT
*
25095 TTTTTATAA-AAA-ATTTATAATTTAA
1 TTTTGATAATAAATATTTATAATTTAA
25120 GAATAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 9 0.39
28 6 0.26
29 8 0.35
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (29 bp):
TTTTGATAATAAATATTTATAATTTAATT
Found at i:27221 original size:28 final size:27
Alignment explanation
Indices: 27190--27296 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 27
27180 ATTTTTTATA
*
27190 TTATATTTATATTAATTTTTTAAATAAT
1 TTATATTTATATAAATTTTTTAAAT-AT
*
27218 TTATA-TTATATAAAATTTTTAAATAT
1 TTATATTTATATAAATTTTTTAAATAT
* * *
27244 TTATATATTTTATAAATTTTTTATATTT
1 TTATAT-TTATATAAATTTTTTAAATAT
*
27272 ATTATATTT-TA-ATTATTTTTTAAAT
1 -TTATATTTATATA-AATTTTTTAAAT
27297 TAATGATTAA
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
26 8 0.12
27 29 0.43
28 24 0.36
29 6 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
TTATATTTATATAAATTTTTTAAATAT
Found at i:27236 original size:27 final size:27
Alignment explanation
Indices: 27190--27266 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 27
27180 ATTTTTTATA
*
27190 TTATATTTATATTAATTTTTTAAATAAT
1 TTATA-TTATATAAATTTTTTAAATAAT
* *
27218 TTATATTATATAAAATTTTTAAATATT
1 TTATATTATATAAATTTTTTAAATAAT
*
27245 TATATATTTTATAAATTTTTTA
1 T-TATATTATATAAATTTTTTA
27267 TATTTATTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 20 0.47
28 23 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
TTATATTATATAAATTTTTTAAATAAT
Found at i:27253 original size:18 final size:18
Alignment explanation
Indices: 27232--27297 Score: 57
Period size: 18 Copynumber: 3.7 Consensus size: 18
27222 ATTATATAAA
27232 ATTTT-TAAATATTTATAT
1 ATTTTATAAAT-TTTATAT
*
27250 ATTTTATAAATTTTTTAT
1 ATTTTATAAATTTTATAT
*
27268 A-TTTATTATATTTTA-ATT
1 ATTTTA-TAAATTTTATA-T
*
27286 ATTTTTTAAATT
1 ATTTTATAAATT
27298 AATGATTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
17 5 0.13
18 26 0.67
19 8 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTTATAAATTTTATAT
Found at i:27277 original size:27 final size:27
Alignment explanation
Indices: 27188--27282 Score: 95
Period size: 28 Copynumber: 3.4 Consensus size: 27
27178 ATATTTTTTA
* *
27188 TATTATATTTATATTAATTTTTTA-AAT
1 TATTATATTT-TATAAATTTTTTATATT
* * *
27215 AATTTATATTATATAAAATTTTTAAATATT
1 TA-TTATATTTTAT-AAATTTTT-TATATT
27245 TA-TATATTTTATAAATTTTTTATATT
1 TATTATATTTTATAAATTTTTTATATT
27271 TATTATATTTTA
1 TATTATATTTTA
27283 ATTATTTTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
26 7 0.13
27 21 0.38
28 23 0.42
29 1 0.02
30 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (27 bp):
TATTATATTTTATAAATTTTTTATATT
Found at i:28262 original size:26 final size:27
Alignment explanation
Indices: 28233--28302 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 27
28223 GAAAATTTTG
*
28233 TAATATTTATAAATATTTAA-TTAAAT
1 TAATATTAATAAATATTTAAGTTAAAT
* * *
28259 TAATAATCATGTAA-ATTTAAGTTAAAT
1 TAATATTAAT-AAATATTTAAGTTAAAT
*
28286 T-ATATTAATAATTATTT
1 TAATATTAATAAATATTT
28303 TTTTTTTGTA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
25 1 0.03
26 24 0.71
27 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (27 bp):
TAATATTAATAAATATTTAAGTTAAAT
Found at i:28986 original size:30 final size:30
Alignment explanation
Indices: 28894--28992 Score: 85
Period size: 30 Copynumber: 3.2 Consensus size: 30
28884 TAATATGTAA
* * *
28894 AAAATAATATAAATATGACATAAAAATAATTT
1 AAAAT-ATAAAAATAT-ACATAAATATAATAT
*
28926 AAAA-ATAAATAA-ATAAATAAAATATGAATAT
1 AAAATATAAA-AATATACAT-AAATAT-AATAT
*
28957 AAAATATAAAAATATACATATATATAATAT
1 AAAATATAAAAATATACATAAATATAATAT
*
28987 TAAATA
1 AAAATA
28993 AATTTTTGAT
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
29 3 0.05
30 21 0.38
31 17 0.31
32 14 0.25
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (30 bp):
AAAATATAAAAATATACATAAATATAATAT
Found at i:29553 original size:24 final size:25
Alignment explanation
Indices: 29517--29565 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
29507 AAAAATTATG
*
29517 TTTTAAACGTAAATAATTTTAAAATT
1 TTTTAAAC-TAAATAAATTTAAAATT
29543 TTTTAAA-TAAATAAATTTAAAAT
1 TTTTAAACTAAATAAATTTAAAAT
29566 AATAATAGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 15 0.68
26 7 0.32
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (25 bp):
TTTTAAACTAAATAAATTTAAAATT
Found at i:29987 original size:2 final size:2
Alignment explanation
Indices: 29930--29974 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
29920 AATTCTAGTG
29930 TA TA 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 TA TA
29972 TA T
1 TA T
29975 GCACGAATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:41307 original size:17 final size:16
Alignment explanation
Indices: 41285--41331 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
41275 AAAAAATATA
41285 TAAATATAATATATTAT
1 TAAATATAATATATT-T
* *
41302 TAAATATATTAAAATTT
1 TAAATATAAT-ATATTT
41319 TAAATATAA-ATAT
1 TAAATATAATATAT
41332 AATATATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 3 0.12
17 18 0.72
18 4 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAAATATAATATATTT
Found at i:41313 original size:9 final size:9
Alignment explanation
Indices: 41278--41370 Score: 66
Period size: 9 Copynumber: 10.1 Consensus size: 9
41268 TTTTTTTAAA
41278 AAATATA-T
1 AAATATATT
*
41286 AAATATAAT
1 AAATATATT
*
41295 ATAT-TATT
1 AAATATATT
41303 AAATATATT
1 AAATATATT
*
41312 AAA-ATTTT
1 AAATATATT
41320 AAATATAAATAT
1 AAATAT--AT-T
41332 AATATATATT
1 AA-ATATATT
41342 AAATATATT
1 AAATATATT
*
41351 ATATCATATT
1 AAAT-ATATT
* *
41361 TATTATATT
1 AAATATATT
41370 A
1 A
41371 TTTTATATTT
Statistics
Matches: 67, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
8 20 0.30
9 28 0.42
10 9 0.13
11 3 0.04
12 3 0.04
13 4 0.06
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (9 bp):
AAATATATT
Found at i:41353 original size:5 final size:5
Alignment explanation
Indices: 41336--41402 Score: 59
Period size: 5 Copynumber: 13.8 Consensus size: 5
41326 AAATATAATA
* * *
41336 TATAT TA-AA TATAT TATAT CATAT T-TAT TATAT TATTT TATAT T-TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
* *
41383 TAAATT TATAT TATAA TATA
1 TATA-T TATAT TATAT TATA
41403 ATATTACATT
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
4 11 0.22
5 34 0.69
6 4 0.08
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:41367 original size:19 final size:19
Alignment explanation
Indices: 41345--41384 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
41335 ATATATTAAA
41345 TATATTATATCATATTTAT
1 TATATTATATCATATTTAT
* *
41364 TATATTATTTTATATTTAT
1 TATATTATATCATATTTAT
41383 TA
1 TA
41385 AATTTATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TATATTATATCATATTTAT
Found at i:41634 original size:20 final size:20
Alignment explanation
Indices: 41598--41635 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
41588 TATTATTTAA
*
41598 AAAATAATGATATATTAAAT
1 AAAATAATAATATATTAAAT
41618 AAAATAATTAATA-ATTAA
1 AAAATAA-TAATATATTAA
41636 TTTATGTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATAATAATATATTAAAT
Found at i:42158 original size:30 final size:29
Alignment explanation
Indices: 42124--42181 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
42114 TATAAATCAA
*
42124 ATAATAATATTATAAAGATATTTATTTTTT
1 ATAATAATATTATAAA-ATATATATTTTTT
* *
42154 ATAATTATTTTATAAAATATATATTTTT
1 ATAATAATATTATAAAATATATATTTTT
42182 AAAAAACTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (29 bp):
ATAATAATATTATAAAATATATATTTTTT
Found at i:42294 original size:2 final size:2
Alignment explanation
Indices: 42289--42326 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
42279 ATTCACACAC
42289 AT AT AT AT AT AT AT AT -T AT AT AT AT AT A- 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
42327 GTGTGTGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:42310 original size:13 final size:13
Alignment explanation
Indices: 42291--42326 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
42281 TCACACACAT
42291 ATATATATATATA
1 ATATATATATATA
*
42304 TTATATATATATA
1 ATATATATATATA
42317 ATATATATAT
1 ATATATATAT
42327 GTGTGTGTGT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATATATATATATA
Done.