Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168056.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_306, 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: 36646
ACGTcount: A:0.29, C:0.11, G:0.10, T:0.51
File 1 of 2
Found at i:1757 original size:22 final size:23
Alignment explanation
Indices: 1725--1785 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
1715 TAATTTTTTG
* *
1725 TTTTTGTTTTTATTTCTTTTACTA
1 TTTTTATTTTTATTT-TTTCACTA
*
1749 -TTTTA-TTTTATTTTTTCATTA
1 TTTTTATTTTTATTTTTTCACTA
1770 TTTTTATTTTTATTTT
1 TTTTTATTTTTATTTT
1786 ATAAAGTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 6 0.19
22 13 0.41
23 13 0.41
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.79
Consensus pattern (23 bp):
TTTTTATTTTTATTTTTTCACTA
Found at i:2259 original size:8 final size:7
Alignment explanation
Indices: 2248--2448 Score: 58
Period size: 7 Copynumber: 27.6 Consensus size: 7
2238 TCTTTATTCA
2248 ATTTTTGT
1 ATTTTT-T
*
2256 ATTTTTG
1 ATTTTTT
**
2263 ATTAATT
1 ATTTTTT
2270 ATTTTTT
1 ATTTTTT
2277 ATTTTTTT
1 A-TTTTTT
2285 ATTTTTTT
1 A-TTTTTT
2293 ATTTTTT
1 ATTTTTT
2300 ATTGTATTT
1 ATT-T-TTT
**
2309 -TGGTTT
1 ATTTTTT
2315 A-TTTTT
1 ATTTTTT
2321 ATTTTTT
1 ATTTTTT
2328 -TCTTTCTT
1 AT-TTT-TT
*
2336 ATTGGTATTG
1 ATT--T-TTT
2346 ATTTTTT
1 ATTTTTT
2353 -TTTCTTT
1 ATTT-TTT
*
2360 TTTTTTT
1 ATTTTTT
2367 ACTTTGTTT
1 A-TTT-TTT
2376 ATCTTTTT
1 AT-TTTTT
* *
2384 -TGTTTG
1 ATTTTTT
**
2390 ACTTTAAT
1 A-TTTTTT
2398 ATTCTTTT
1 ATT-TTTT
* *
2406 CTTATTT
1 ATTTTTT
2413 -TTTTTT
1 ATTTTTT
2419 ATTTTTT
1 ATTTTTT
*
2426 -TTATTT
1 ATTTTTT
**
2432 -TGGTTT
1 ATTTTTT
2438 ATTTTTT
1 ATTTTTT
2445 ATTT
1 ATTT
2449 CTTTCTTTAT
Statistics
Matches: 143, Mismatches: 29, Indels: 43
0.67 0.13 0.20
Matches are distributed among these distances:
6 28 0.20
7 55 0.38
8 44 0.31
9 10 0.07
10 5 0.03
11 1 0.01
ACGTcount: A:0.13, C:0.04, G:0.06, T:0.76
Consensus pattern (7 bp):
ATTTTTT
Found at i:2283 original size:23 final size:23
Alignment explanation
Indices: 2248--2302 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
2238 TCTTTATTCA
*
2248 ATTTTTGTA-TTTTTGA-TTAATT
1 ATTTTT-TATTTTTTTATTTAATT
**
2270 ATTTTTTATTTTTTTATTTTTTT
1 ATTTTTTATTTTTTTATTTAATT
2293 ATTTTTTATT
1 ATTTTTTATT
2303 GTATTTTGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.07
22 12 0.43
23 14 0.50
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (23 bp):
ATTTTTTATTTTTTTATTTAATT
Found at i:2291 original size:10 final size:10
Alignment explanation
Indices: 2278--2444 Score: 58
Period size: 10 Copynumber: 16.4 Consensus size: 10
2268 TTATTTTTTA
2278 TTTTTTTA--
1 TTTTTTTATT
2286 TTTTTTTATT
1 TTTTTTTATT
2296 TTTTATTGTATT
1 TTTT-TT-TATT
**
2308 TTGGTTTATT
1 TTTTTTTATT
2318 TTTATTTT-TT
1 TTT-TTTTATT
*
2328 TCTTTCTTATT
1 T-TTTTTTATT
** * *
2339 GGTATTGATT
1 TTTTTTTATT
*
2349 TTTTTTTCTT
1 TTTTTTTATT
*
2359 TTTTTTT-TAC
1 TTTTTTTAT-T
*
2369 TTTGTTTATCT
1 TTTTTTTAT-T
*
2380 TTTTTGTT-TGA
1 TTTTT-TTAT-T
* **
2391 CTTTAATATT
1 TTTTTTTATT
*
2401 CTTTTCTTATT
1 -TTTTTTTATT
2412 TTTTTTTA-T
1 TTTTTTTATT
2421 TTTTTTTATT
1 TTTTTTTATT
**
2431 TTGGTTTATT
1 TTTTTTTATT
2441 TTTT
1 TTTT
2445 ATTTCTTTCT
Statistics
Matches: 112, Mismatches: 34, Indels: 24
0.66 0.20 0.14
Matches are distributed among these distances:
8 8 0.07
9 10 0.09
10 58 0.52
11 28 0.25
12 8 0.07
ACGTcount: A:0.11, C:0.05, G:0.07, T:0.77
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:2325 original size:16 final size:14
Alignment explanation
Indices: 2272--2448 Score: 65
Period size: 15 Copynumber: 11.6 Consensus size: 14
2262 GATTAATTAT
2272 TTTTTATTTTTTTA
1 TTTTTATTTTTTTA
*
2286 TTTTTTTATTTTTTA
1 TTTTTAT-TTTTTTA
*
2301 -TTGTATTTTGGTTTA
1 TTTTTATTTT--TTTA
*
2316 TTTTTATTTTTTTC
1 TTTTTATTTTTTTA
* *
2330 TTTCTTATTGGTATTGA
1 TTT-TTATT--TTTTTA
* *
2347 TTTTTTTTTCTTTTT
1 TTTTTATTT-TTTTA
*
2362 TTTTTACTTTGTTTA
1 TTTTTA-TTTTTTTA
* *
2377 TCTTTT-TTGTTTGA
1 T-TTTTATTTTTTTA
*
2391 CTTTAATATTCTTTTCTTA
1 -TTT-TTA-T-TTTT-TTA
2410 TTTTT-TTTTATTT-
1 TTTTTATTTT-TTTA
2423 TTTTTATTTTGGTTTA
1 TTTTTATTTT--TTTA
2439 TTTTTTATTT
1 -TTTTTATTT
2449 CTTTCTTTAT
Statistics
Matches: 119, Mismatches: 23, Indels: 39
0.66 0.13 0.22
Matches are distributed among these distances:
13 8 0.07
14 33 0.28
15 34 0.29
16 19 0.16
17 17 0.14
18 6 0.05
19 2 0.02
ACGTcount: A:0.12, C:0.05, G:0.06, T:0.77
Consensus pattern (14 bp):
TTTTTATTTTTTTA
Found at i:2355 original size:35 final size:35
Alignment explanation
Indices: 2278--2363 Score: 102
Period size: 36 Copynumber: 2.4 Consensus size: 35
2268 TTATTTTTTA
* *
2278 TTTTTTTATTTTTTTATTTTTTATTGTATTTTGGTT
1 TTTTTTTATTTTTTTATTTCTTATTGTA-TTTGATT
* *
2314 TATTTTTATTTTTTTCTTTCTTATTGGTA-TTGATT
1 TTTTTTTATTTTTTTATTTCTTATT-GTATTTGATT
*
2349 TTTTTTTCTTTTTTT
1 TTTTTTTATTTTTTT
2364 TTTACTTTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
35 18 0.42
36 22 0.51
37 3 0.07
ACGTcount: A:0.10, C:0.03, G:0.07, T:0.79
Consensus pattern (35 bp):
TTTTTTTATTTTTTTATTTCTTATTGTATTTGATT
Found at i:2457 original size:19 final size:17
Alignment explanation
Indices: 2402--2460 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 17
2392 TTTAATATTC
2402 TTTTCTTATTTTTTTTTA
1 TTTT-TTATTTTTTTTTA
2420 TTTTTT-TTATTTTGGTTTA
1 TTTTTTATT-TTTT--TTTA
2439 TTTTTTATTTCTTTCTTTA
1 TTTTTTATTT-TTT-TTTA
2458 TTT
1 TTT
2461 AAATTTTCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
16 2 0.06
17 6 0.17
18 4 0.11
19 18 0.51
20 5 0.14
ACGTcount: A:0.10, C:0.05, G:0.03, T:0.81
Consensus pattern (17 bp):
TTTTTTATTTTTTTTTA
Found at i:2457 original size:62 final size:62
Alignment explanation
Indices: 2278--2457 Score: 156
Period size: 61 Copynumber: 2.9 Consensus size: 62
2268 TTATTTTTTA
* * ** *
2278 TTTTTTTATTTTTTTATTTTTTATTGTATTTTGGTTTA-TTTTTATTTTTTTCTTTCTTATTGG
1 TTTTATTATTTTTTTATTTTTT-TTTTATTTTGGTTTATTTTTTA-TTTTTTCTTTAATATTGC
* * * **
2341 TATTGATT-TTTTTTTCTTTTTTTTTTACTTT-GTTTATCTTTTT-TGTTTGACTTTAATATT-C
1 T-TTTATTATTTTTTTATTTTTTTTTTATTTTGGTTTAT-TTTTTAT-TTTTTCTTTAATATTGC
*
2402 TTTTCTTATTTTTTT-TTATTTTTTTTATTTTGGTTTATTTTTTATTTCTTTCTTTA
1 TTTTATTATTTTTTTATT-TTTTTTTTATTTTGGTTTATTTTTTATTT-TTTCTTTA
2458 TTTAAATTTT
Statistics
Matches: 93, Mismatches: 15, Indels: 19
0.73 0.12 0.15
Matches are distributed among these distances:
60 6 0.06
61 33 0.35
62 31 0.33
63 19 0.20
64 4 0.04
ACGTcount: A:0.12, C:0.06, G:0.06, T:0.77
Consensus pattern (62 bp):
TTTTATTATTTTTTTATTTTTTTTTTATTTTGGTTTATTTTTTATTTTTTCTTTAATATTGC
Found at i:2684 original size:22 final size:23
Alignment explanation
Indices: 2645--2698 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
2635 GCATTACCTT
2645 TTTTTTA-ATTTTTGTCTT-TGA
1 TTTTTTATATTTTTGTCTTATGA
*
2666 TTTTTTATATTATTT-TCTTATTA
1 TTTTTTATATT-TTTGTCTTATGA
*
2689 TTTCTTATAT
1 TTTTTTATAT
2699 GTTCTTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 7 0.25
22 7 0.25
23 14 0.50
ACGTcount: A:0.19, C:0.06, G:0.04, T:0.72
Consensus pattern (23 bp):
TTTTTTATATTTTTGTCTTATGA
Found at i:2795 original size:7 final size:7
Alignment explanation
Indices: 2785--2855 Score: 56
Period size: 7 Copynumber: 9.9 Consensus size: 7
2775 ATTTTTATCT
2785 TTTTTTA
1 TTTTTTA
2792 TTTTTTA
1 TTTTTTA
2799 TTTTCTTA
1 TTTT-TTA
2807 CTTTTTATA
1 -TTTTT-TA
2816 TTTTTT-
1 TTTTTTA
*
2822 TGTATTT-
1 T-TTTTTA
*
2829 TTGTTTA
1 TTTTTTA
*
2836 TTTTATA
1 TTTTTTA
*
2843 TTTTATA
1 TTTTTTA
2850 TTTTTT
1 TTTTTT
2856 TGTATTTTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
6 5 0.09
7 34 0.63
8 9 0.17
9 6 0.11
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (7 bp):
TTTTTTA
Found at i:2798 original size:17 final size:16
Alignment explanation
Indices: 2776--2942 Score: 88
Period size: 18 Copynumber: 9.6 Consensus size: 16
2766 TTTTATTCAA
2776 TTTTTATCTTTTTTTAT
1 TTTTTAT-TTTTTTTAT
*
2793 TTTTTA-TTTTCTTACT
1 TTTTTATTTTTTTTA-T
2809 TTTTATATTTTTTTGTAT
1 TTTT-TATTTTTTT-TAT
*
2827 TTTTGT-TTATTTTATAT
1 TTTT-TATT-TTTTTTAT
*
2844 TTTATATTTTTTTGTATT
1 TTTTTATTTTTTT-TA-T
2862 TTATTTATCTTTTTTGT-T
1 TT-TTTAT-TTTTTT-TAT
* *
2880 TTGCTTTAATTTTTTTCT
1 TT--TTTATTTTTTTTAT
2898 TATTTTATTTATATTTATAT
1 T-TTTTATTT-T-TTT-TAT
* **
2918 TTTTCATTTGGTTTAT
1 TTTTTATTTTTTTTAT
2934 TTTTTATTT
1 TTTTTATTT
2943 CTTTCTTTAT
Statistics
Matches: 119, Mismatches: 15, Indels: 33
0.71 0.09 0.20
Matches are distributed among these distances:
15 7 0.06
16 21 0.18
17 29 0.24
18 30 0.25
19 21 0.18
20 11 0.09
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (16 bp):
TTTTTATTTTTTTTAT
Found at i:2851 original size:24 final size:24
Alignment explanation
Indices: 2819--2865 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2809 TTTTATATTT
*
2819 TTTTGTATTTTTGTT-TATTTTATA
1 TTTTATATTTTT-TTGTATTTTATA
2843 TTTTATATTTTTTTGTATTTTAT
1 TTTTATATTTTTTTGTATTTTAT
2866 TTATCTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (24 bp):
TTTTATATTTTTTTGTATTTTATA
Found at i:2877 original size:20 final size:19
Alignment explanation
Indices: 2814--2909 Score: 76
Period size: 17 Copynumber: 5.2 Consensus size: 19
2804 TTACTTTTTA
*
2814 TATTTTTTTGTATTTT-TG
1 TATTTTTTTGTATTTTATT
* *
2832 T-TTATTTTATATTTTA--
1 TATTTTTTTGTATTTTATT
2848 TATTTTTTTGTATTTTATT
1 TATTTTTTTGTATTTTATT
**
2867 TATCTTTTTTGT-TTTGCTT
1 TAT-TTTTTTGTATTTTATT
*
2886 TAATTTTTTTCTTATTTTATT
1 T-ATTTTTTT-GTATTTTATT
2907 TAT
1 TAT
2910 ATTTATATTT
Statistics
Matches: 61, Mismatches: 9, Indels: 14
0.73 0.11 0.17
Matches are distributed among these distances:
16 1 0.02
17 25 0.41
18 1 0.02
19 15 0.25
20 13 0.21
21 6 0.10
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.76
Consensus pattern (19 bp):
TATTTTTTTGTATTTTATT
Found at i:3290 original size:17 final size:17
Alignment explanation
Indices: 3270--3351 Score: 53
Period size: 17 Copynumber: 4.8 Consensus size: 17
3260 TTTACACTTG
3270 TTTTGTTTTTATTTTTA
1 TTTTGTTTTTATTTTTA
* **
3287 TTTTGTTTTAACTTTTCC
1 TTTTGTTTTTA-TTTTTA
* *
3305 TTTTGTTAATT-TTTGTA
1 TTTTGTT-TTTATTTTTA
*
3322 TCTTTGATTTT-TTTTTA
1 T-TTTGTTTTTATTTTTA
3339 TTTT-TTTCTTATT
1 TTTTGTTT-TTATT
3352 ACATTATTTT
Statistics
Matches: 48, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
15 2 0.04
16 5 0.10
17 24 0.50
18 16 0.33
19 1 0.02
ACGTcount: A:0.12, C:0.06, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTTGTTTTTATTTTTA
Found at i:3480 original size:2 final size:2
Alignment explanation
Indices: 3473--3512 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
3463 TATTATTTGT
*
3473 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3513 AAATACCTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:3484 original size:25 final size:24
Alignment explanation
Indices: 3434--3485 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
3424 TTTAATTTTT
* * *
3434 TATCTTTCATTTTTTATATCTTTA
1 TATCTTTCATTTGTTATATATATA
*
3458 TATCTTATTATTTGTTATATATATA
1 TATCTT-TCATTTGTTATATATATA
3483 TAT
1 TAT
3486 ATATATATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.63
Consensus pattern (24 bp):
TATCTTTCATTTGTTATATATATA
Found at i:3674 original size:19 final size:20
Alignment explanation
Indices: 3622--3674 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 20
3612 TTATTTTTTA
* *
3622 TTATTTTTTCTTTTTGTACT
1 TTATTTTTTCATTTTATACT
* *
3642 TT-TTTTTACCTTTTAT-CT
1 TTATTTTTTCATTTTATACT
3660 TTATTTTTTCATTTT
1 TTATTTTTTCATTTT
3675 TTATTTTTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
18 4 0.15
19 21 0.78
20 2 0.07
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.75
Consensus pattern (20 bp):
TTATTTTTTCATTTTATACT
Found at i:3992 original size:7 final size:7
Alignment explanation
Indices: 3980--4131 Score: 78
Period size: 7 Copynumber: 20.4 Consensus size: 7
3970 CAATTTGCCT
3980 TTTTTTA
1 TTTTTTA
3987 TTTTTTA
1 TTTTTTA
*
3994 TTTTTGA
1 TTTTTTA
*
4001 -TTATTA
1 TTTTTTA
4007 TTTTTTA
1 TTTTTTA
4014 TTTTCTTA
1 TTTT-TTA
4022 CTTTTTATA
1 -TTTTT-TA
*
4031 TTTTATA
1 TTTTTTA
4038 TTTTCTTA
1 TTTT-TTA
*
4046 TTGGTATTGA
1 TT--T-TTTA
*
4056 TTTTTTC
1 TTTTTTA
4063 TTTTTT-
1 TTTTTTA
*
4069 TGTACTTTA
1 T-T-TTTTA
* *
4078 -TTTATC
1 TTTTTTA
*
4084 TTTTTTC
1 TTTTTTA
4091 TTATTTTA
1 TT-TTTTA
4099 -TTTTTA
1 TTTTTTA
4105 TTTTTTA
1 TTTTTTA
4112 TTTTGGTTTA
1 -TTT--TTTA
4122 TTTTTTA
1 TTTTTTA
4129 TTT
1 TTT
4132 CTGTTTTATT
Statistics
Matches: 113, Mismatches: 15, Indels: 34
0.70 0.09 0.21
Matches are distributed among these distances:
6 12 0.11
7 59 0.52
8 23 0.20
9 9 0.08
10 9 0.08
11 1 0.01
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.76
Consensus pattern (7 bp):
TTTTTTA
Found at i:4035 original size:49 final size:50
Alignment explanation
Indices: 3982--4115 Score: 118
Period size: 49 Copynumber: 2.7 Consensus size: 50
3972 ATTTGCCTTT
3982 TTTTATTTTTTATTTTTGATTATTATTTTTTATTTTCT-TACTTT-TTATA
1 TTTTATTTTTTATTTTTGATTATTATTTTTTATTTTCTGTACTTTATT-TA
* * * * * *
4031 TTTTATATTTTCTTATTG-GTATTGATTTTTTCTTTTTTTGTACTTTATTTA
1 TTTTATTTTTTATTTTTGATTATT-ATTTTTT-ATTTTCTGTACTTTATTTA
* *
4082 TCTTT-TTTCTTA-TTTT-ATTTTTATTTTTTATTTT
1 T-TTTATTTTTTATTTTTGATTATTATTTTTTATTTT
4116 GGTTTATTTT
Statistics
Matches: 66, Mismatches: 13, Indels: 13
0.72 0.14 0.14
Matches are distributed among these distances:
48 8 0.12
49 29 0.44
50 11 0.17
51 13 0.20
52 5 0.08
ACGTcount: A:0.16, C:0.05, G:0.04, T:0.75
Consensus pattern (50 bp):
TTTTATTTTTTATTTTTGATTATTATTTTTTATTTTCTGTACTTTATTTA
Found at i:4133 original size:42 final size:42
Alignment explanation
Indices: 3979--4149 Score: 97
Period size: 44 Copynumber: 3.9 Consensus size: 42
3969 TCAATTTGCC
3979 TTTT-TTTATTTTTTATTT-TTGATTATTATTTTTTATTTTCTTA
1 TTTTGTTTATTTTTTATTTCTT-ATTATTA-TTTTTATTTT-TTA
* *
4022 CTTTT-TATATTTTATATTTTCTTATTGGTATTGATTTTT-TCTTTTT-
1 -TTTTGTTTATTTTTTA-TTTCTTA-T--TATT-ATTTTTAT-TTTTTA
** *
4068 TTGTACTTTATTTATCTTTTTTCTTATT-TTATTTTTATTTTTTA
1 TT-TTGTTTATTT-T-TTATTTCTTATTATTATTTTTATTTTTTA
* *
4112 TTTTGGTTTATTTTTTATTTC-TGTT-TTATTTATATTTT
1 TTTT-GTTTATTTTTTATTTCTTATTATTATTTTTATTTT
4150 CATAAATTTT
Statistics
Matches: 102, Mismatches: 11, Indels: 31
0.71 0.08 0.22
Matches are distributed among these distances:
41 15 0.15
42 6 0.06
43 13 0.13
44 25 0.25
45 7 0.07
46 4 0.04
47 10 0.10
48 20 0.20
49 2 0.02
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.75
Consensus pattern (42 bp):
TTTTGTTTATTTTTTATTTCTTATTATTATTTTTATTTTTTA
Found at i:4148 original size:17 final size:17
Alignment explanation
Indices: 3982--4142 Score: 72
Period size: 17 Copynumber: 9.5 Consensus size: 17
3972 ATTTGCCTTT
3982 TTTTATTTTTTATTTTTG
1 TTTTATTTTTTA-TTTTG
4000 ATTATTATTTTTTA-TTT-
1 -TT-TTATTTTTTATTTTG
* * *
4017 TCTTACTTTTTATATT-
1 TTTTATTTTTTATTTTG
* *
4033 TTATATTTTCTTA-TTGG
1 TTTTATTTT-TTATTTTG
* *
4050 TATTGATTTTTTCTTTT-
1 T-TTTATTTTTTATTTTG
*
4067 TTTGTACTTTATTTATCTT-
1 TTT-TA-TTT-TTTATTTTG
*
4086 TTTTCTTATTTTA---T-
1 TTTTATT-TTTTATTTTG
4100 TTTTATTTTTTATTTTG
1 TTTTATTTTTTATTTTG
*
4117 GTTTATTTTTTATTTCTG
1 TTTTATTTTTTATTT-TG
4135 TTTTATTT
1 TTTTATTT
4143 ATATTTTCAT
Statistics
Matches: 108, Mismatches: 19, Indels: 31
0.68 0.12 0.20
Matches are distributed among these distances:
13 5 0.05
14 7 0.06
15 9 0.08
16 13 0.12
17 28 0.26
18 25 0.23
19 11 0.10
20 10 0.09
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.75
Consensus pattern (17 bp):
TTTTATTTTTTATTTTG
Found at i:4675 original size:19 final size:19
Alignment explanation
Indices: 4624--4677 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
4614 TTTTTTCCTA
*
4624 TTTTGTCATTTTTTCTTTAT
1 TTTTGT-ATTTTTTTTTTAT
* ** *
4644 TTTTGAAAATTTTTTTTGT
1 TTTTGTATTTTTTTTTTAT
4663 TTTTGTATTTTTTTT
1 TTTTGTATTTTTTTT
4678 AATTTTTTCT
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
19 21 0.81
20 5 0.19
ACGTcount: A:0.13, C:0.04, G:0.07, T:0.76
Consensus pattern (19 bp):
TTTTGTATTTTTTTTTTAT
Found at i:4811 original size:28 final size:27
Alignment explanation
Indices: 4723--4811 Score: 69
Period size: 28 Copynumber: 3.3 Consensus size: 27
4713 TTACTTTCTT
* *
4723 ATTTTTTCTATTTTGTGCTTTTG-TTT-
1 ATTTTTT-TATTTTTTCCTTTTGTTTTA
*
4749 ATTTTTATT-TTTTTTCCTTTT-TTAATA
1 ATTTTT-TTATTTTTTCCTTTTGTT-TTA
* *
4776 CTTATTTTATCTTTTTCCTTTTGTTTTA
1 ATTTTTTTAT-TTTTTCCTTTTGTTTTA
4804 ATTTTTTT
1 ATTTTTTT
4812 TTAAATTTAT
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
25 11 0.23
26 10 0.21
27 6 0.12
28 19 0.40
29 2 0.04
ACGTcount: A:0.12, C:0.09, G:0.04, T:0.74
Consensus pattern (27 bp):
ATTTTTTTATTTTTTCCTTTTGTTTTA
Found at i:5236 original size:141 final size:141
Alignment explanation
Indices: 5053--5311 Score: 414
Period size: 141 Copynumber: 1.8 Consensus size: 141
5043 TACAATTTCA
*
5053 ATTATTTTATTTACTATTTTGGATTGTATAATATTTATCTTTTATTTAATATAATTTGTTAAGAG
1 ATTATTTTATTTACTATTTTGGATTGTATAATATTTATCTTTTATTTAATACAATTTGTTAAGAG
*
5118 ATAATAATTATCT-TTATTATTTTCTTTTGAAATT-TTATTGGTTTATATATAATTTGAATTATT
66 ATAATAATTAT-TGTTATTATTTTCTTTTG-AATTGTTATTGGCTTATATATAATTTGAATTATT
5181 TTATTTATTACTT
129 TTATTTATTACTT
* * * *
5194 ATTATTTTATTTATTATTTTGGATTGTATAATATTTATCTTTTTTTTATTACAATTTGTTAAGTG
1 ATTATTTTATTTACTATTTTGGATTGTATAATATTTATCTTTTATTTAATACAATTTGTTAAGAG
* *
5259 ATAATAATTATTGTTGTTATTTTCTTTTGGATTGTTATTGGCTTATATATAAT
66 ATAATAATTATTGTTATTATTTTCTTTTGAATTGTTATTGGCTTATATATAAT
5312 AACACTAGTT
Statistics
Matches: 108, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
140 4 0.04
141 104 0.96
ACGTcount: A:0.29, C:0.03, G:0.09, T:0.59
Consensus pattern (141 bp):
ATTATTTTATTTACTATTTTGGATTGTATAATATTTATCTTTTATTTAATACAATTTGTTAAGAG
ATAATAATTATTGTTATTATTTTCTTTTGAATTGTTATTGGCTTATATATAATTTGAATTATTTT
ATTTATTACTT
Found at i:5890 original size:17 final size:17
Alignment explanation
Indices: 5862--5912 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
5852 TTTAATTTCT
5862 TATCTT-TTATTTTTTA
1 TATCTTATTATTTTTTA
*
5878 TATCTTATTATTTGTTA
1 TATCTTATTATTTTTTA
*
5895 TATATATATATATTTTTT
1 TATCT-TAT-TATTTTTT
5913 TGTATTTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 6 0.21
17 13 0.45
18 3 0.10
19 7 0.24
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (17 bp):
TATCTTATTATTTTTTA
Found at i:6673 original size:11 final size:11
Alignment explanation
Indices: 6631--6680 Score: 57
Period size: 12 Copynumber: 4.5 Consensus size: 11
6621 TACTATTCTA
6631 TTTTATTT-TT
1 TTTTATTTATT
*
6641 TCTTACTTTATT
1 TTTTA-TTTATT
6653 TTTTCATTTATT
1 TTTT-ATTTATT
*
6665 TTTTATTTATA
1 TTTTATTTATT
6676 TTTTA
1 TTTTA
6681 AAATTTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 4 0.12
11 14 0.41
12 15 0.44
13 1 0.03
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTATTTATT
Found at i:6678 original size:45 final size:43
Alignment explanation
Indices: 6588--6680 Score: 109
Period size: 45 Copynumber: 2.1 Consensus size: 43
6578 TTAGCTAACT
* *
6588 TTTTATTTTTTTTGTTTATTTTTTTCATTTTTTTACTATTCTA
1 TTTTATTTTTTTTCTTTATTTTTTTCATTTTTTTACTATTATA
*
6631 TTTTATTTTTTCTTACTTTA-TTTTTTCATTTATTTT-TTATTTATA
1 TTTTATTTTTT-TT-CTTTATTTTTTTCATTT-TTTTACTA-TTATA
6676 TTTTA
1 TTTTA
6681 AAATTTTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
43 11 0.26
44 15 0.35
45 17 0.40
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.76
Consensus pattern (43 bp):
TTTTATTTTTTTTCTTTATTTTTTTCATTTTTTTACTATTATA
Found at i:6679 original size:12 final size:12
Alignment explanation
Indices: 6632--6679 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 12
6622 ACTATTCTAT
6632 TTTATTTTTTCTTA
1 TTTATTTTTTC--A
6646 CTTTATTTTTTCA
1 -TTTATTTTTTCA
6659 TTTATTTTTT-A
1 TTTATTTTTTCA
*
6670 TTTATATTTT
1 TTTATTTTTT
6680 AAAATTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 10 0.31
12 10 0.31
13 1 0.03
15 11 0.34
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTATTTTTTCA
Found at i:6690 original size:17 final size:17
Alignment explanation
Indices: 6670--6714 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
6660 TTATTTTTTA
6670 TTTATATTTTAAAATTT
1 TTTATATTTTAAAATTT
**
6687 TTTATAAAATTAAAATTT
1 TTTAT-ATTTTAAAATTT
*
6705 TTTTTATTTT
1 TTTATATTTT
6715 CTTATTGTCT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTATATTTTAAAATTT
Found at i:7180 original size:7 final size:7
Alignment explanation
Indices: 7170--7241 Score: 58
Period size: 7 Copynumber: 10.3 Consensus size: 7
7160 TTTTGTATTT
7170 TTTTTTA
1 TTTTTTA
*
7177 TTTTTCA
1 TTTTTTA
**
7184 TTCATTA
1 TTTTTTA
7191 TTTTTTA
1 TTTTTTA
7198 TTTTCTTA
1 TTTT-TTA
*
7206 CTTTTTA
1 TTTTTTA
7213 TATTTTTA
1 T-TTTTTA
7221 --TTTTA
1 TTTTTTA
*
7226 TTTTTTC
1 TTTTTTA
*
7233 TTTCTTA
1 TTTTTTA
7240 TT
1 TT
7242 GGTATTGATT
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
5 5 0.10
7 33 0.66
8 12 0.24
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTTA
Found at i:7211 original size:38 final size:34
Alignment explanation
Indices: 7169--7239 Score: 88
Period size: 38 Copynumber: 2.0 Consensus size: 34
7159 TTTTTGTATT
* *
7169 TTTTTTTATTTTTCATTCATTATTTTTTATTTTCTTAC
1 TTTTTATATTTTT-ATT--TTATTTTTT-CTTTCTTAC
7207 TTTTTATATTTTTATTTTATTTTTTCTTTCTTA
1 TTTTTATATTTTTATTTTATTTTTTCTTTCTTA
7240 TTGGTATTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 7 0.23
35 9 0.29
37 3 0.10
38 12 0.39
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.76
Consensus pattern (34 bp):
TTTTTATATTTTTATTTTATTTTTTCTTTCTTAC
Found at i:7770 original size:15 final size:16
Alignment explanation
Indices: 7752--7791 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
7742 TTTCTATATT
7752 TTTTTTATTCTC-TAA
1 TTTTTTATTCTCTTAA
* *
7767 TTTTTTATTTTCTTAC
1 TTTTTTATTCTCTTAA
7783 TTTTTTATT
1 TTTTTTATT
7792 TTTTGTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTTATTCTCTTAA
Found at i:7779 original size:17 final size:17
Alignment explanation
Indices: 7744--7793 Score: 59
Period size: 16 Copynumber: 2.9 Consensus size: 17
7734 ATTTTGTCTT
7744 TCTATATTTTTT-TTATTC
1 TCTA-ATTTTTTATT-TTC
7762 TCTAATTTTTTATTTTC
1 TCTAATTTTTTATTTTC
*
7779 T-TACTTTTTTATTTT
1 TCTAATTTTTTATTTT
7794 TTGTTTTTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 13 0.43
17 11 0.37
18 6 0.20
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (17 bp):
TCTAATTTTTTATTTTC
Found at i:7792 original size:23 final size:22
Alignment explanation
Indices: 7766--7838 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 22
7756 TTATTCTCTA
7766 ATTTTTTATTTTCTTACTTTTTT
1 ATTTTTTATTTTCTTA-TTTTTT
*
7789 ATTTTTTGTTTTTGCTTA-TTTTT
1 ATTTTTT-ATTTT-CTTATTTTTT
* * * *
7812 AATTGTTATTTTTTTATATTTT
1 ATTTTTTATTTTCTTATTTTTT
7834 ATTTT
1 ATTTT
7839 ATCTTTTATA
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
21 3 0.08
22 11 0.28
23 17 0.44
24 4 0.10
25 4 0.10
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.77
Consensus pattern (22 bp):
ATTTTTTATTTTCTTATTTTTT
Found at i:7845 original size:21 final size:21
Alignment explanation
Indices: 7804--7850 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
7794 TTGTTTTTGC
7804 TTATTTTTAATTGTTATTTTT
1 TTATTTTTAATTGTTATTTTT
7825 TTATATTTT-ATT-TTATCTTTT
1 TTAT-TTTTAATTGTTAT-TTTT
*
7846 ATATT
1 TTATT
7851 AATATTTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 5 0.22
21 14 0.61
22 4 0.17
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (21 bp):
TTATTTTTAATTGTTATTTTT
Found at i:7950 original size:23 final size:23
Alignment explanation
Indices: 7919--7962 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
7909 ATAAATTTCA
7919 AAAT-TTTTTTATTTTTATTTTGT
1 AAATCTTTTTTA-TTTTATTTTGT
7942 AAATCTTTTTTATTTTATTTT
1 AAATCTTTTTTATTTTATTTT
7963 CTTATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (23 bp):
AAATCTTTTTTATTTTATTTTGT
Found at i:7962 original size:12 final size:11
Alignment explanation
Indices: 7922--8005 Score: 69
Period size: 12 Copynumber: 7.1 Consensus size: 11
7912 AATTTCAAAA
7922 TTTTTTTATTT
1 TTTTTTTATTT
**
7933 TTATTTTGTAAAT
1 TT-TTTT-TATTT
*
7946 CTTTTTTATTT
1 TTTTTTTATTT
7957 TATTTTCTTATTT
1 T-TTTT-TTATTT
*
7970 TTTGTCTTATTT
1 TTT-TTTTATTT
*
7982 TTTTTCTATTT
1 TTTTTTTATTT
7993 TTTGTTTTATTT
1 TTT-TTTTATTT
8005 T
1 T
8006 ATAATTTTTC
Statistics
Matches: 57, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
11 14 0.25
12 31 0.54
13 12 0.21
ACGTcount: A:0.13, C:0.05, G:0.04, T:0.79
Consensus pattern (11 bp):
TTTTTTTATTT
Found at i:7991 original size:23 final size:25
Alignment explanation
Indices: 7951--8007 Score: 91
Period size: 23 Copynumber: 2.4 Consensus size: 25
7941 TAAATCTTTT
7951 TTATTTTATTTTCTTATTTTTTGTC
1 TTATTTTATTTTCTTATTTTTTGTC
*
7976 TTATTTT-TTTTC-TATTTTTTGTT
1 TTATTTTATTTTCTTATTTTTTGTC
7999 TTATTTTAT
1 TTATTTTAT
8008 AATTTTTCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 17 0.57
24 6 0.20
25 7 0.23
ACGTcount: A:0.12, C:0.05, G:0.04, T:0.79
Consensus pattern (25 bp):
TTATTTTATTTTCTTATTTTTTGTC
Found at i:8436 original size:18 final size:18
Alignment explanation
Indices: 8415--8449 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
8405 ATTTTACTAC
8415 TTTTTATATT-TTTCTTTA
1 TTTTT-TATTGTTTCTTTA
8433 TTTTTTATTGTTTCTTT
1 TTTTTTATTGTTTCTTT
8450 TCTTATTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.11, C:0.06, G:0.03, T:0.80
Consensus pattern (18 bp):
TTTTTTATTGTTTCTTTA
Found at i:8450 original size:24 final size:24
Alignment explanation
Indices: 8423--8475 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
8413 ACTTTTTATA
*
8423 TTTTTCTTTATT-TTTTATTGTTTC
1 TTTTTC-TTATTGTATTATTGTTTC
*
8447 -TTTTCTTATTGGTATTATTTTTTC
1 TTTTTCTTATT-GTATTATTGTTTC
8471 TTTTT
1 TTTTT
8476 TTTGTACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 5 0.21
23 5 0.21
24 10 0.42
25 4 0.17
ACGTcount: A:0.09, C:0.08, G:0.06, T:0.77
Consensus pattern (24 bp):
TTTTTCTTATTGTATTATTGTTTC
Found at i:8650 original size:16 final size:16
Alignment explanation
Indices: 8631--8664 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8621 TTATTTTTCA
8631 TTAACTTTATTTCTTT
1 TTAACTTTATTTCTTT
* *
8647 TTAATTTTTTTTCTTT
1 TTAACTTTATTTCTTT
8663 TT
1 TT
8665 CTTTACTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTAACTTTATTTCTTT
Found at i:8799 original size:21 final size:21
Alignment explanation
Indices: 8766--8808 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
8756 TTTTATTTCA
*
8766 TATTTTTGCTTCTTCATTTTTT
1 TATTTTTGCTTC-TAATTTTTT
*
8788 TATTTTT-TTTCTAATTTTTT
1 TATTTTTGCTTCTAATTTTTT
8808 T
1 T
8809 CATAAATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.47
21 3 0.16
22 7 0.37
ACGTcount: A:0.12, C:0.09, G:0.02, T:0.77
Consensus pattern (21 bp):
TATTTTTGCTTCTAATTTTTT
Found at i:9108 original size:18 final size:18
Alignment explanation
Indices: 9087--9129 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
9077 TCATTGTCAT
9087 TTTTTCTTCATTTTTGAA
1 TTTTTCTTCATTTTTGAA
* ** *
9105 TTTTTTTTTGTTTTTGCA
1 TTTTTCTTCATTTTTGAA
9123 TTTTTCT
1 TTTTTCT
9130 AATTTTTTCT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.09, C:0.09, G:0.07, T:0.74
Consensus pattern (18 bp):
TTTTTCTTCATTTTTGAA
Found at i:9290 original size:32 final size:33
Alignment explanation
Indices: 9237--9305 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 33
9227 TACTTATCTT
*
9237 TTTTCTTTTGTTTTAATATTTTT-TTAATTTTA
1 TTTTCTTTTATTTTAATATTTTTCTTAATTTTA
* * *
9269 TTTTCTTTTTATTTTTA-ATTTTTCTTATTTTTG
1 TTTTC-TTTTATTTTAATATTTTTCTTAATTTTA
9302 TTTT
1 TTTT
9306 TTCATAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
32 11 0.35
33 20 0.65
ACGTcount: A:0.14, C:0.04, G:0.03, T:0.78
Consensus pattern (33 bp):
TTTTCTTTTATTTTAATATTTTTCTTAATTTTA
Found at i:9296 original size:16 final size:16
Alignment explanation
Indices: 9236--9300 Score: 58
Period size: 17 Copynumber: 3.9 Consensus size: 16
9226 GTACTTATCT
*
9236 TTTTTCTTTTGTTTTAA
1 TTTTTCTTAT-TTTTAA
* * *
9253 TATTTTTTTAATTTTAT
1 T-TTTTCTTATTTTTAA
*
9270 TTTCTTTTTATTTTTAA
1 TTT-TTCTTATTTTTAA
9287 TTTTTCTTATTTTT
1 TTTTTCTTATTTTT
9301 GTTTTTTCAT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
16 12 0.31
17 21 0.54
18 6 0.15
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (16 bp):
TTTTTCTTATTTTTAA
Found at i:9306 original size:16 final size:16
Alignment explanation
Indices: 9235--9308 Score: 60
Period size: 16 Copynumber: 4.4 Consensus size: 16
9225 AGTACTTATC
*
9235 TTTTTTCTTTTGTTTTAA
1 TTTTTTCTTAT-TTTT-A
*
9253 TATTTTT-TTAATTTTA
1 T-TTTTTCTTATTTTTA
*
9269 TTTTCTTTTTATTTTTA
1 TTTT-TTCTTATTTTTA
* *
9286 ATTTTTCTTATTTTTG
1 TTTTTTCTTATTTTTA
9302 TTTTTTC
1 TTTTTTC
9309 ATAAAAATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
15 3 0.07
16 20 0.43
17 15 0.33
18 3 0.07
19 5 0.11
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTTTTCTTATTTTTA
Found at i:9306 original size:23 final size:23
Alignment explanation
Indices: 9255--9307 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
9245 TGTTTTAATA
* *
9255 TTTTTTTAATTTTATTTTCTTTT
1 TTTTTTTAATTTTATCTTATTTT
*
9278 TATTTTTAATTTT-TCTTATTTT
1 TTTTTTTAATTTTATCTTATTTT
9300 TGTTTTTT
1 T-TTTTTT
9308 CATAAAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 8 0.32
23 17 0.68
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.81
Consensus pattern (23 bp):
TTTTTTTAATTTTATCTTATTTT
Found at i:10159 original size:23 final size:23
Alignment explanation
Indices: 10107--10160 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
10097 CTTCATTTTC
*
10107 TCTTTTTTTATTTTTTTAAGGGCTT
1 TCTTTCTTTATTTTTTT-A-GGCTT
10132 T-TTTCTTTATTTTTTT-GGCATT
1 TCTTTCTTTATTTTTTTAGGC-TT
10154 TCTTTCT
1 TCTTTCT
10161 AATTTGTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 3 0.12
22 3 0.12
23 5 0.19
24 14 0.54
25 1 0.04
ACGTcount: A:0.09, C:0.11, G:0.09, T:0.70
Consensus pattern (23 bp):
TCTTTCTTTATTTTTTTAGGCTT
Found at i:10243 original size:18 final size:18
Alignment explanation
Indices: 10194--10250 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 18
10184 CCTTCTTTTA
*
10194 TTTTTATTTTTAT-TTTG
1 TTTTAATTTTTATCTTTG
*
10211 TTTTAACTTTT-TCTTT-
1 TTTTAATTTTTATCTTTG
10227 TTTTAATTTTTTATCTTTG
1 TTTTAA-TTTTTATCTTTG
10246 ATTTT
1 -TTTT
10251 TTATATCTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
16 7 0.22
17 16 0.50
18 5 0.16
20 4 0.12
ACGTcount: A:0.14, C:0.05, G:0.04, T:0.77
Consensus pattern (18 bp):
TTTTAATTTTTATCTTTG
Found at i:10250 original size:22 final size:24
Alignment explanation
Indices: 10225--10288 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 24
10215 AACTTTTTCT
10225 TTTTTTA-ATTTTTTATCTT-TGA
1 TTTTTTATATTTTTTATCTTATGA
*
10247 TTTTTTATATCTTTATT-TCTTATTA
1 TTTTTTATAT-TTT-TTATCTTATGA
*
10272 TTTGTTATATTTTTTAT
1 TTTTTTATATTTTTTAT
10289 TTTTTGTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
22 7 0.20
23 4 0.11
24 11 0.31
25 13 0.37
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.73
Consensus pattern (24 bp):
TTTTTTATATTTTTTATCTTATGA
Found at i:10252 original size:16 final size:15
Alignment explanation
Indices: 10228--10269 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
10218 TTTTTCTTTT
*
10228 TTTAATTTTT-TATC
1 TTTATTTTTTATATC
10242 TTTGATTTTTTATATC
1 TTT-ATTTTTTATATC
*
10258 TTTATTTCTTAT
1 TTTATTTTTTAT
10270 TATTTGTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 3 0.12
15 14 0.58
16 7 0.29
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTTTTATATC
Found at i:10288 original size:19 final size:19
Alignment explanation
Indices: 10260--10296 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10250 TTTATATCTT
10260 TATTTCTTATTATTTGTTA
1 TATTTCTTATTATTTGTTA
* *
10279 TATTTTTTATTTTTTGTT
1 TATTTCTTATTATTTGTT
10297 TGTATTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.76
Consensus pattern (19 bp):
TATTTCTTATTATTTGTTA
Found at i:10289 original size:7 final size:7
Alignment explanation
Indices: 10189--10293 Score: 52
Period size: 7 Copynumber: 13.6 Consensus size: 7
10179 CACTTCCTTC
10189 TTTTA-T
1 TTTTATT
10195 TTTTATT
1 TTTTATT
*
10202 TTTATTTT
1 TTT-TATT
10210 GTTTTAACTT
1 -TTTT-A-TT
10220 TTTCT-TT
1 TTT-TATT
10227 TTTTAATT
1 TTTT-ATT
*
10235 TTTTATC
1 TTTTATT
*
10242 TTTGATT
1 TTTTATT
10249 TTTTATAT
1 TTTTAT-T
*
10257 CTTTATTT
1 TTTTA-TT
10265 CTTATTATT
1 -TT-TTATT
10274 TGTTATATT
1 T-TT-TATT
10283 TTTTATT
1 TTTTATT
10290 TTTT
1 TTTT
10294 GTTTGTATTT
Statistics
Matches: 77, Mismatches: 8, Indels: 27
0.69 0.07 0.24
Matches are distributed among these distances:
6 6 0.08
7 29 0.38
8 20 0.26
9 16 0.21
10 6 0.08
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (7 bp):
TTTTATT
Found at i:10336 original size:17 final size:18
Alignment explanation
Indices: 10316--10354 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
10306 TAGTCTAAAG
10316 TTTTTTCT-ATTTTGTCA
1 TTTTTTCTCATTTTGTCA
*
10333 -TTTTTCTCATTTTTTCA
1 TTTTTTCTCATTTTGTCA
10350 TTTTT
1 TTTTT
10355 GGCAGTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 7 0.37
17 8 0.42
18 4 0.21
ACGTcount: A:0.10, C:0.13, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTTTTCTCATTTTGTCA
Found at i:10337 original size:9 final size:9
Alignment explanation
Indices: 10325--10372 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
10315 GTTTTTTCTA
10325 TTTTGTCAT
1 TTTTGTCAT
*
10334 TTTTCTCAT
1 TTTTGTCAT
10343 TTTT-TCAT
1 TTTTGTCAT
*
10351 TTTTGGCAGT
1 TTTTGTCA-T
10361 TTTTGT-AT
1 TTTTGTCAT
10369 TTTT
1 TTTT
10373 TAAAAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
8 13 0.38
9 15 0.44
10 6 0.18
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.69
Consensus pattern (9 bp):
TTTTGTCAT
Found at i:10354 original size:8 final size:8
Alignment explanation
Indices: 10316--10354 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
10306 TAGTCTAAAG
10316 TTTTTTCTA
1 TTTTTTC-A
*
10325 TTTTGTCA
1 TTTTTTCA
10333 TTTTTCTCA
1 TTTTT-TCA
10342 TTTTTTCA
1 TTTTTTCA
10350 TTTTT
1 TTTTT
10355 GGCAGTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 13 0.48
9 14 0.52
ACGTcount: A:0.10, C:0.13, G:0.03, T:0.74
Consensus pattern (8 bp):
TTTTTTCA
Found at i:10354 original size:26 final size:26
Alignment explanation
Indices: 10316--10373 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
10306 TAGTCTAAAG
*
10316 TTTTTTCTATTTTGTCA-TTTTTCTCA
1 TTTTTTCTATTTTGGCAGTTTTTCT-A
*
10342 TTTTTTC-ATTTTTGGCAGTTTTTGTA
1 TTTTTTCTA-TTTTGGCAGTTTTTCTA
10368 TTTTTT
1 TTTTTT
10374 AAAAAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 1 0.04
26 21 0.75
27 6 0.21
ACGTcount: A:0.10, C:0.10, G:0.09, T:0.71
Consensus pattern (26 bp):
TTTTTTCTATTTTGGCAGTTTTTCTA
Found at i:10915 original size:23 final size:23
Alignment explanation
Indices: 10889--10936 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
10879 AATTTTTCCC
10889 TTTTTTTT-TTTATATTTGTTATA
1 TTTTTTTTCTTTATATTTG-TATA
* *
10912 TTTTTTTTCTTTTTCTTTGTATA
1 TTTTTTTTCTTTATATTTGTATA
10935 TT
1 TT
10937 CTAAACTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.79
Consensus pattern (23 bp):
TTTTTTTTCTTTATATTTGTATA
Found at i:11034 original size:17 final size:18
Alignment explanation
Indices: 11008--11041 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10998 TTTCTTCCTT
11008 TTTATCTTTTTGTTCTTG
1 TTTATCTTTTTGTTCTTG
*
11026 TTTAT-TTTTTTTTCTT
1 TTTATCTTTTTGTTCTT
11042 TTTTTACTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.06, C:0.09, G:0.06, T:0.79
Consensus pattern (18 bp):
TTTATCTTTTTGTTCTTG
Found at i:11523 original size:26 final size:26
Alignment explanation
Indices: 11478--11528 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
11468 TTTAAACTAA
*
11478 TTTTTTTCATTTTGTCATTCCTTTTC
1 TTTTTTTCATTTTGTCATTCATTTTC
11504 TTTTTTTGACATTTT-T-ATTCATTTT
1 TTTTTTT--CATTTTGTCATTCATTTT
11529 TTGCATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
26 15 0.68
27 1 0.05
28 6 0.27
ACGTcount: A:0.12, C:0.14, G:0.04, T:0.71
Consensus pattern (26 bp):
TTTTTTTCATTTTGTCATTCATTTTC
Found at i:12322 original size:22 final size:22
Alignment explanation
Indices: 12278--12323 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
12268 AACATCAAAA
*
12278 TTTTATTTTATTTTGTGAATTT
1 TTTTATTTTATTTTATGAATTT
*
12300 TTTTATTTTATTTTAT-TATTT
1 TTTTATTTTATTTTATGAATTT
12321 TTT
1 TTT
12324 CCTATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.78
Consensus pattern (22 bp):
TTTTATTTTATTTTATGAATTT
Found at i:12753 original size:7 final size:7
Alignment explanation
Indices: 12743--12893 Score: 62
Period size: 7 Copynumber: 20.7 Consensus size: 7
12733 AATTTTTGTC
12743 TTTTTTA
1 TTTTTTA
12750 TTTTTTA
1 TTTTTTA
*
12757 TTTTTGA
1 TTTTTTA
**
12764 TTCATTA
1 TTTTTTA
12771 TTTTTTA
1 TTTTTTA
*
12778 TTTTCATA
1 TTTT-TTA
12786 CTTTTTATA
1 -TTTTT-TA
*
12795 ATTTTTA
1 TTTTTTA
*
12802 --TTATA
1 TTTTTTA
12807 TTTTTGTA
1 TTTTT-TA
12815 TTTTTTAA
1 TTTTTT-A
12823 TTTTTTCTA
1 -TTTTT-TA
12832 CTTTATTTA
1 -TTT-TTTA
12841 TCTTTTT-
1 T-TTTTTA
**
12848 TCTTTTGC
1 T-TTTTTA
**
12856 TTTAATA
1 TTTTTTA
12863 TTTTTT-
1 TTTTTTA
12869 TTATTTTA
1 TT-TTTTA
12877 -TTTTTA
1 TTTTTTA
12883 -TTTTTA
1 TTTTTTA
12889 TTTTT
1 TTTTT
12894 ATAAAGTTTT
Statistics
Matches: 110, Mismatches: 19, Indels: 30
0.69 0.12 0.19
Matches are distributed among these distances:
5 4 0.04
6 13 0.12
7 52 0.47
8 19 0.17
9 19 0.17
10 3 0.03
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (7 bp):
TTTTTTA
Found at i:12774 original size:36 final size:34
Alignment explanation
Indices: 12725--12828 Score: 97
Period size: 36 Copynumber: 2.9 Consensus size: 34
12715 TTTTTCAAAA
*
12725 TTTTATTCA-ATTTTTGTCTTTTTTATTTTTT-AT
1 TTTTATT-ATATTTTTGTATTTTTTATTTTTTAAT
*
12758 TTTTGATTCATTATTTTT-TATTTTCATACTTTTTATAAT
1 TTTT-ATT-A-TATTTTTGTATTTT-TTA-TTTTT-TAAT
12797 TTTTATTATATTTTTGTATTTTTTAATTTTTT
1 TTTTATTATATTTTTGTATTTTTT-ATTTTTT
12829 CTACTTTATT
Statistics
Matches: 59, Mismatches: 3, Indels: 16
0.76 0.04 0.21
Matches are distributed among these distances:
33 4 0.07
34 5 0.08
35 6 0.10
36 21 0.36
37 13 0.22
38 4 0.07
39 6 0.10
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.73
Consensus pattern (34 bp):
TTTTATTATATTTTTGTATTTTTTATTTTTTAAT
Found at i:12800 original size:10 final size:9
Alignment explanation
Indices: 12787--12922 Score: 50
Period size: 9 Copynumber: 14.7 Consensus size: 9
12777 ATTTTCATAC
*
12787 TTTTTATAA
1 TTTTTATAT
12796 TTTTTATTAT
1 TTTTTA-TAT
*
12806 ATTTTTGTAT
1 -TTTTTATAT
12816 TTTTTA-AT
1 TTTTTATAT
*
12824 TTTTTCTACT
1 TTTTTATA-T
*
12834 TTATTTATCT
1 TT-TTTATAT
*
12844 TTTTTCT-T
1 TTTTTATAT
12852 TTGCTTTAATAT
1 TT--TTT-ATAT
*
12864 TTTTTTTAT
1 TTTTTATAT
12873 TTTATT-T-T
1 TTT-TTATAT
12881 TATTTT-TA-
1 T-TTTTATAT
*
12889 TTTTTATAAA
1 TTTTTAT-AT
* *
12899 GTTTTAGAT
1 TTTTTATAT
*
12908 TTTTTATTT
1 TTTTTATAT
12917 TTTTTA
1 TTTTTA
12923 GTTTCCATTA
Statistics
Matches: 97, Mismatches: 15, Indels: 30
0.68 0.11 0.21
Matches are distributed among these distances:
7 4 0.04
8 17 0.18
9 39 0.40
10 24 0.25
11 10 0.10
12 3 0.03
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.74
Consensus pattern (9 bp):
TTTTTATAT
Found at i:12875 original size:6 final size:6
Alignment explanation
Indices: 12866--12895 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
12856 TTTAATATTT
12866 TTTTTA -TTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T
12896 AAAGTTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:12876 original size:17 final size:17
Alignment explanation
Indices: 12860--12892 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12850 TTTTGCTTTA
12860 ATATTT-TTTTTATTTT
1 ATATTTATTTTTATTTT
*
12876 ATTTTTATTTTTATTTT
1 ATATTTATTTTTATTTT
12893 TATAAAGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (17 bp):
ATATTTATTTTTATTTT
Found at i:13425 original size:18 final size:17
Alignment explanation
Indices: 13385--13453 Score: 50
Period size: 18 Copynumber: 3.9 Consensus size: 17
13375 TTTATAAACT
*
13385 AATTTTTTT-ATTTTGTC
1 AATTTTTTTAATTTT-TG
* *
13402 ATTTTTTCTTCATTTTTG
1 AATTTTT-TTAATTTTTG
**
13420 AATTTTTTTTGTTTTTG
1 AATTTTTTTAATTTTTG
*
13437 CATTTTTTTTAATTTTT
1 -AATTTTTTTAATTTTT
13454 TCTTTGGACT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
17 14 0.34
18 22 0.54
19 5 0.12
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.74
Consensus pattern (17 bp):
AATTTTTTTAATTTTTG
Found at i:13425 original size:35 final size:35
Alignment explanation
Indices: 13385--13453 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
13375 TTTATAAACT
*
13385 AATTTTTTTAT-TTTGT-CATTTTTTCTTCATTTTTG
1 AATTTTTTT-TGTTTGTGCATTTTTT-TTAATTTTTG
*
13420 AATTTTTTTTGTTTTTGCATTTTTTTTAATTTTT
1 AATTTTTTTTGTTTGTGCATTTTTTTTAATTTTT
13454 TCTTTGGACT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 1 0.03
35 21 0.70
36 8 0.27
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.74
Consensus pattern (35 bp):
AATTTTTTTTGTTTGTGCATTTTTTTTAATTTTTG
Found at i:13452 original size:17 final size:17
Alignment explanation
Indices: 13387--13452 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
13377 TATAAACTAA
13387 TTTTTTT-ATTTTGTCAT
1 TTTTTTTAATTTTG-CAT
* *
13404 TTTTTCTTCATTTTTGAAT
1 TTTTT-TT-AATTTTGCAT
**
13423 TTTTTTTGTTTTTGCAT
1 TTTTTTTAATTTTGCAT
13440 TTTTTTTAATTTT
1 TTTTTTTAATTTT
13453 TTCTTTGGAC
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
17 24 0.60
18 4 0.10
19 7 0.17
20 5 0.12
ACGTcount: A:0.12, C:0.06, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTTTTTAATTTTGCAT
Found at i:13918 original size:21 final size:21
Alignment explanation
Indices: 13894--13935 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
13884 ATTTATCCTT
13894 TATTTCATACATTTTGTTAAG
1 TATTTCATACATTTTGTTAAG
13915 TATTTCATACATTTTGTTAAG
1 TATTTCATACATTTTGTTAAG
13936 AGATAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.52
Consensus pattern (21 bp):
TATTTCATACATTTTGTTAAG
Found at i:14347 original size:19 final size:19
Alignment explanation
Indices: 14292--14350 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 19
14282 TGCATAATTT
*
14292 TTTTTATTTCATTATTTACTTC
1 TTTTTATTTTATT-TTT--TTC
*
14314 TTTTTATTACT-TTTTTTTC
1 TTTTTATT-TTATTTTTTTC
14333 TTTTTATTTTATTTTTTT
1 TTTTTATTTTATTTTTTT
14351 AATTTTTATG
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 1 0.03
19 18 0.56
21 3 0.09
22 10 0.31
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTATTTTATTTTTTTC
Found at i:14723 original size:14 final size:15
Alignment explanation
Indices: 14692--14731 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 15
14682 TTATTTTGTA
14692 TTAACTTTTTT-TCTT
1 TTAA-TTTTTTATCTT
14707 TTAATTTTTTATC-T
1 TTAATTTTTTATCTT
14721 TT-ATTTTTTAT
1 TTAATTTTTTAT
14732 TATTTGTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 9 0.38
14 9 0.38
15 6 0.25
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.75
Consensus pattern (15 bp):
TTAATTTTTTATCTT
Found at i:15199 original size:16 final size:16
Alignment explanation
Indices: 15158--15216 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 16
15148 TTTTTATAGT
* * *
15158 TTTTTTATTCTCTAAT
1 TTTTTTATTTTCTTAC
15174 TTTTTTATTTTCTTAC
1 TTTTTTATTTTCTTAC
* *
15190 TTTTTTATTTTTTTAG
1 TTTTTTATTTTCTTAC
*
15206 TATTTTATTTT
1 TTTTTTATTTT
15217 ATTTTTCTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (16 bp):
TTTTTTATTTTCTTAC
Found at i:15336 original size:15 final size:14
Alignment explanation
Indices: 15303--15360 Score: 54
Period size: 15 Copynumber: 4.4 Consensus size: 14
15293 AGTTCAAAAT
15303 TTTTTTATTTT-TC
1 TTTTTTATTTTATC
15316 TTTTTTA----ATC
1 TTTTTTATTTTATC
*
15326 TTTTTTATTTTCTC
1 TTTTTTATTTTATC
*
15340 ATTTTTTATTTTGTC
1 -TTTTTTATTTTATC
15355 TTTTTT
1 TTTTTT
15361 TTGCTATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
10 9 0.24
13 7 0.19
14 8 0.22
15 13 0.35
ACGTcount: A:0.10, C:0.09, G:0.02, T:0.79
Consensus pattern (14 bp):
TTTTTTATTTTATC
Found at i:15370 original size:11 final size:12
Alignment explanation
Indices: 15348--15382 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
15338 TCATTTTTTA
15348 TTTTGTCT-TTT
1 TTTTGTCTATTT
15359 TTTTG-CTATTT
1 TTTTGTCTATTT
15370 TTTTGTCTATTT
1 TTTTGTCTATTT
15382 T
1 T
15383 ATAATTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 2 0.09
11 13 0.59
12 7 0.32
ACGTcount: A:0.06, C:0.09, G:0.09, T:0.77
Consensus pattern (12 bp):
TTTTGTCTATTT
Found at i:15799 original size:10 final size:9
Alignment explanation
Indices: 15786--15864 Score: 61
Period size: 9 Copynumber: 8.2 Consensus size: 9
15776 TTTTATTCAA
15786 TTTTATCTTT
1 TTTTAT-TTT
15796 TTTTATTTT
1 TTTTATTTT
*
15805 TCATTCATTTT
1 T--TTTATTTT
15816 TTTTA-TTT
1 TTTTATTTT
* *
15824 TCTTACTTT
1 TTTTATTTT
*
15833 TTATATTTT
1 TTTTATTTT
15842 TATTGTATTTT
1 T-TT-TATTTT
15853 TGTTTATTTT
1 T-TTTATTTT
15863 TT
1 TT
15865 ATTTTTTCTT
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
8 7 0.12
9 18 0.32
10 14 0.25
11 17 0.30
ACGTcount: A:0.14, C:0.06, G:0.03, T:0.77
Consensus pattern (9 bp):
TTTTATTTT
Found at i:15824 original size:28 final size:28
Alignment explanation
Indices: 15793--15870 Score: 74
Period size: 28 Copynumber: 2.8 Consensus size: 28
15783 CAATTTTATC
15793 TTTTTTTATTTTTCATTCATTTTT-TT-TA-
1 TTTTTTTATTTTT-A-T-ATTTTTATTGTAT
*
15821 TTTTCTTACTTTTTATATTTTTATTGTAT
1 TTTTTTTA-TTTTTATATTTTTATTGTAT
15850 TTTTGTTTATTTTT-TATTTTT
1 TTTT-TTTATTTTTATATTTTT
15871 TCTTTTCTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
26 6 0.14
27 3 0.07
28 17 0.40
29 14 0.33
30 3 0.07
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (28 bp):
TTTTTTTATTTTTATATTTTTATTGTAT
Found at i:15833 original size:37 final size:37
Alignment explanation
Indices: 15786--15871 Score: 106
Period size: 37 Copynumber: 2.3 Consensus size: 37
15776 TTTTATTCAA
15786 TTTTATCTTTTTTTATTTTTCATT-CATTTTT-TTTATT
1 TTTTA-CTTTTTTTATTTTT-ATTGCATTTTTGTTTATT
* *
15823 TTCTTACTTTTTATATTTTTATTGTATTTTTGTTTATT
1 TT-TTACTTTTTTTATTTTTATTGCATTTTTGTTTATT
15861 TTTTA-TTTTTT
1 TTTTACTTTTTT
15872 CTTTTCTTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
36 8 0.19
37 24 0.56
38 11 0.26
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.78
Consensus pattern (37 bp):
TTTTACTTTTTTTATTTTTATTGCATTTTTGTTTATT
Found at i:15852 original size:11 final size:10
Alignment explanation
Indices: 15787--15868 Score: 50
Period size: 11 Copynumber: 8.3 Consensus size: 10
15777 TTTATTCAAT
15787 TTTATCTTTT-
1 TTTAT-TTTTA
15797 TTTATTTTTCA
1 TTTATTTTT-A
*
15808 TTCATTTTT-
1 TTTATTTTTA
15817 TTTA-TTTT-
1 TTTATTTTTA
*
15825 CTTACTTTTTA
1 TTTA-TTTTTA
15836 --TATTTTTA
1 TTTATTTTTA
*
15844 TTGTATTTTTG
1 TT-TATTTTTA
15855 TTTATTTTTTA
1 TTTA-TTTTTA
15866 TTT
1 TTT
15869 TTTCTTTTCT
Statistics
Matches: 58, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
8 13 0.22
9 9 0.16
10 11 0.19
11 25 0.43
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:15876 original size:23 final size:22
Alignment explanation
Indices: 15814--15876 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 22
15804 TTCATTCATT
15814 TTTTTTATTTTCTTACTTTTTATA
1 TTTTTTATTTT-TT-CTTTTTATA
*
15838 -TTTTTATTGTATTT-TTGTT-TA
1 TTTTTTATT-T-TTTCTTTTTATA
15859 TTTTTTATTTTTTCTTTT
1 TTTTTTATTTTTTCTTTT
15877 CTTATTGGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
20 3 0.09
21 6 0.18
22 12 0.36
23 8 0.24
24 3 0.09
25 1 0.03
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (22 bp):
TTTTTTATTTTTTCTTTTTATA
Found at i:16043 original size:17 final size:18
Alignment explanation
Indices: 16023--16061 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
16013 AATGTTTTAG
*
16023 ATTTTTTTAT-TTTTTTC
1 ATTTTTCTATCTTTTTTC
16040 ATTTTTCTATCTTTTTTC
1 ATTTTTCTATCTTTTTTC
16058 -TTTT
1 ATTTT
16062 CTTTTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (18 bp):
ATTTTTCTATCTTTTTTC
Found at i:16440 original size:18 final size:18
Alignment explanation
Indices: 16413--16447 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16403 CTTGTCATCC
*
16413 CTTTTCATTTTTTATCTT
1 CTTTTAATTTTTTATCTT
16431 CTTTTAATTTTTTATCT
1 CTTTTAATTTTTTATCT
16448 GTGATTTTTA
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:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (18 bp):
CTTTTAATTTTTTATCTT
Found at i:16691 original size:23 final size:23
Alignment explanation
Indices: 16616--16691 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
16606 TTTACTTTTT
16616 TTTTTCTCTTTTTTAGTGC--TTAT
1 TTTTTCTCTTTTTT--TGCTTTTAT
* * *
16639 TTTATCTTTTTCCTTTTGCTTTAAT
1 TTTTTCTCTTT--TTTTGCTTTTAT
* *
16664 ATTTTCTCTTTTTTTCCTTTTAT
1 TTTTTCTCTTTTTTTGCTTTTAT
16687 TTTTT
1 TTTTT
16692 TTTGTTTTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
23 26 0.65
25 14 0.35
ACGTcount: A:0.09, C:0.14, G:0.04, T:0.72
Consensus pattern (23 bp):
TTTTTCTCTTTTTTTGCTTTTAT
Found at i:16700 original size:11 final size:10
Alignment explanation
Indices: 16681--16711 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
16671 CTTTTTTTCC
*
16681 TTTTATTTTT
1 TTTTGTTTTT
16691 TTTTGTTTTT
1 TTTTGTTTTT
16701 TTTTGTTTTT
1 TTTTGTTTTT
16711 T
1 T
16712 ATAAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.03, C:0.00, G:0.06, T:0.90
Consensus pattern (10 bp):
TTTTGTTTTT
Found at i:17362 original size:23 final size:23
Alignment explanation
Indices: 17330--17393 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
17320 TTCTTAAATT
*
17330 TTTACT-TATTATTTTTTTGTTA
1 TTTACTATATTTTTTTTTTGTTA
*
17352 TTTACTATATTTTTCTTTTTTTTA
1 TTTACTATATTTTT-TTTTTGTTA
*
17376 TTT-CTATCTTTTTTTTTT
1 TTTACTATATTTTTTTTTT
17394 ACAAAATACT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 11 0.30
23 15 0.41
24 11 0.30
ACGTcount: A:0.14, C:0.08, G:0.02, T:0.77
Consensus pattern (23 bp):
TTTACTATATTTTTTTTTTGTTA
Found at i:18073 original size:181 final size:181
Alignment explanation
Indices: 17794--18129 Score: 433
Period size: 181 Copynumber: 1.9 Consensus size: 181
17784 TACTTATCAA
* *
17794 AATATTAATAAATTAATATTATTTTAATCCGAATAAACTTGTATGAATAGAAACAATTGTTTTAT
1 AATATTAATAAATTAACATTATTTTAATCCGAATAAACTTGTATGAATAGAAACAATTATTTTAT
*
17859 GACAAAACAAAAAATCATAGCAAGTTGAAATAAAAAATTACTCAAATAGTCATAACGAATTTAAA
66 GACAAAACAAAAAATCATAGCAAGTTCAAATAAAAAATTACTCAAATAGTCATAA-GAATTTAAA
* * * *
17924 CTTGTTCAGTAAACAAATTTATTTTTTAAATCTTTTACTTATTAACTGTCTT
130 ATTATTCAATAAACAAATTAATTTTTTAAATCTTTTACTTATTAACTGTCTT
** * * * *
17976 AATATTAATAAATTTGCATTATTTT-ATTCGAATAAGCTTGTATGAATAGAAA-ATTTTATTTTT
1 AATATTAATAAATTAACATTATTTTAATCCGAATAAACTTGTATGAATAGAAACA-ATTATTTTA
** * ** * * * **
18039 TGACAAAACAAAAGGTTATAGTGATTTCAAATAAATAATTATTCAAATAGTCATAATTATTTAAA
65 TGACAAAACAAAAAATCATAGCAAGTTCAAATAAAAAATTACTCAAATAGTCATAAGAATTTAAA
18104 ATTATTCAATAAACAAATTAATTTTT
130 ATTATTCAATAAACAAATTAATTTTT
18130 AGATTATTAG
Statistics
Matches: 130, Mismatches: 23, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
180 30 0.23
181 78 0.60
182 22 0.17
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (181 bp):
AATATTAATAAATTAACATTATTTTAATCCGAATAAACTTGTATGAATAGAAACAATTATTTTAT
GACAAAACAAAAAATCATAGCAAGTTCAAATAAAAAATTACTCAAATAGTCATAAGAATTTAAAA
TTATTCAATAAACAAATTAATTTTTTAAATCTTTTACTTATTAACTGTCTT
Found at i:21385 original size:22 final size:23
Alignment explanation
Indices: 21346--21388 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
21336 ATAAATAAAT
*
21346 TTAATTTTTAAATCTATTATTTA
1 TTAATTTTTAAATATATTATTTA
21369 TTAATTTTTAAA-ATATTATT
1 TTAATTTTTAAATATATTATT
21389 AAATTAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TTAATTTTTAAATATATTATTTA
Found at i:21394 original size:23 final size:24
Alignment explanation
Indices: 21341--21394 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
21331 ATTAGATAAA
*
21341 TAAATTTAATTTTTAAATCTATTAT
1 TAAA-TTAATTTTTAAATATATTAT
*
21366 T-TATTAATTTTTAAA-ATATTAT
1 TAAATTAATTTTTAAATATATTAT
21388 TAAATTA
1 TAAATTA
21395 GTATTATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 7 0.28
23 16 0.64
24 1 0.04
25 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (24 bp):
TAAATTAATTTTTAAATATATTAT
Found at i:21669 original size:18 final size:19
Alignment explanation
Indices: 21624--21673 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
21614 CAAATTATAC
21624 TATTTAT-TAATATTAATA
1 TATTTATATAATATTAATA
* *
21642 TAATTA-ATAATTTTAAT-
1 TATTTATATAATATTAATA
21659 TATTTATATAA-ATTA
1 TATTTATATAATATTA
21674 CAGTAACAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 8 0.31
18 18 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TATTTATATAATATTAATA
Found at i:21985 original size:25 final size:25
Alignment explanation
Indices: 21957--22058 Score: 74
Period size: 25 Copynumber: 4.2 Consensus size: 25
21947 TTTTAATAAC
21957 TATATAATATTATAATTAAATATAT
1 TATATAATATTATAATTAAATATAT
*
21982 TATATTTAATATATAATTATTAAATATA-
1 TATA--TAATAT-T-ATAATTAAATATAT
* *
22010 AAT-TAATA-TATAATT--ATAAAT
1 TATATAATATTATAATTAAATATAT
*
22031 TA-ATAATTATTATAATTAATTA-AT
1 TATATAA-TATTATAATTAAATATAT
22055 TATA
1 TATA
22059 ATAAATCAGT
Statistics
Matches: 60, Mismatches: 6, Indels: 22
0.68 0.07 0.25
Matches are distributed among these distances:
20 4 0.07
21 4 0.07
22 7 0.12
23 8 0.13
24 4 0.07
25 12 0.20
27 6 0.10
28 3 0.05
29 12 0.20
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TATATAATATTATAATTAAATATAT
Found at i:22027 original size:18 final size:17
Alignment explanation
Indices: 22006--22059 Score: 69
Period size: 18 Copynumber: 3.3 Consensus size: 17
21996 AATTATTAAA
22006 TATAAATTAATATATAAT
1 TATAAATTAATA-ATAAT
*
22024 TATAAATTAATAATTAT
1 TATAAATTAATAATAAT
22041 TAT-AATTAAT--TAAT
1 TATAAATTAATAATAAT
22055 TATAA
1 TATAA
22060 TAAATCAGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
14 6 0.18
15 1 0.03
16 7 0.21
17 7 0.21
18 12 0.36
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TATAAATTAATAATAAT
Found at i:22038 original size:14 final size:14
Alignment explanation
Indices: 22019--22059 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 14
22009 AAATTAATAT
22019 ATAATTATAAATTA
1 ATAATTATAAATTA
22033 ATAATTATTATAATTA
1 ATAATTA-TA-AATTA
22049 ATTAATTATAA
1 A-TAATTATAA
22060 TAAATCAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 7 0.29
15 3 0.12
16 8 0.33
17 6 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATAATTATAAATTA
Found at i:22044 original size:17 final size:17
Alignment explanation
Indices: 22006--22064 Score: 75
Period size: 17 Copynumber: 3.4 Consensus size: 17
21996 AATTATTAAA
*
22006 TATAAATTAATATATAAT
1 TATAAATTAATA-ATTAT
22024 TATAAATTAATAATTAT
1 TATAAATTAATAATTAT
22041 TAT-AATTAATTAATTAT
1 TATAAATTAA-TAATTAT
*
22058 AATAAAT
1 TATAAAT
22065 CAGTATTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TATAAATTAATAATTAT
Found at i:22060 original size:14 final size:14
Alignment explanation
Indices: 21965--22060 Score: 56
Period size: 14 Copynumber: 6.6 Consensus size: 14
21955 ACTATATAAT
*
21965 ATTATAATTAAATA
1 ATTATAATTAATTA
*
21979 TATTATATTTAA-T-
1 -ATTATAATTAATTA
21992 A-TATAATT-ATTA
1 ATTATAATTAATTA
*
22004 AATATAAATTAATATATA
1 ATTAT-AATT-A-AT-TA
*
22022 ATTATAAATTAATAATT
1 ATTAT-AATTAAT--TA
22039 ATTATAATTAATTA
1 ATTATAATTAATTA
22053 ATTATAAT
1 ATTATAAT
22061 AAATCAGTAT
Statistics
Matches: 67, Mismatches: 5, Indels: 19
0.74 0.05 0.21
Matches are distributed among these distances:
10 1 0.01
11 7 0.10
12 2 0.03
13 3 0.04
14 14 0.21
15 10 0.15
16 9 0.13
17 10 0.15
18 11 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTATAATTAATTA
Found at i:22102 original size:14 final size:14
Alignment explanation
Indices: 21952--22178 Score: 61
Period size: 13 Copynumber: 16.9 Consensus size: 14
21942 TAATTTTTTA
*
21952 ATAACTATAT-AAT
1 ATAATTATATAAAT
* *
21965 ATTATAAT-TAAAT
1 ATAATTATATAAAT
21978 AT-ATTATATTTAATAT
1 ATAATTATA--TAA-AT
21994 ATAATTAT-TAAAT
1 ATAATTATATAAAT
22007 ATAA--AT-TAATAT
1 ATAATTATATAA-AT
*
22019 ATAATTATA-AATT
1 ATAATTATATAAAT
*
22032 AATAATTATTATAATT
1 -ATAATTA-TATAAAT
22048 AATTAATTATAATAAAT
1 -A-TAATTAT-ATAAAT
*
22065 CAGT-ATTA-A-AATT
1 -A-TAATTATATAAAT
* *
22078 TTTATTA-ATAAAT
1 ATAATTATATAAAT
22091 ATAATTATAT-AAT
1 ATAATTATATAAAT
* *
22104 ATTAATTTTATCAA-
1 A-TAATTATATAAAT
22118 ATAA-TATATTAAAT
1 ATAATTATA-TAAAT
22132 AT-ATTA-AT--A-
1 ATAATTATATAAAT
22141 ATAATTATA-ATAAT
1 ATAATTATATA-AAT
22155 -TAATT-TATAAAT
1 ATAATTATATAAAT
22167 -TAATTATCATAA
1 ATAATTAT-ATAA
22179 TAGTTATCAT
Statistics
Matches: 166, Mismatches: 16, Indels: 63
0.68 0.07 0.26
Matches are distributed among these distances:
9 2 0.01
10 5 0.03
11 7 0.04
12 30 0.18
13 48 0.29
14 34 0.20
15 7 0.04
16 15 0.09
17 18 0.11
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (14 bp):
ATAATTATATAAAT
Found at i:22292 original size:22 final size:21
Alignment explanation
Indices: 22263--22316 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 21
22253 AATAATCGGA
* *
22263 TAAAATTATTATTATGATTTT
1 TAAAATTATAATTATGATTAT
*
22284 TAAAGATTATAATTATTATTAT
1 TAAA-ATTATAATTATGATTAT
*
22306 TAATA-TATAAT
1 TAAAATTATAAT
22317 ATTTATTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 6 0.21
21 5 0.18
22 17 0.61
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (21 bp):
TAAAATTATAATTATGATTAT
Found at i:22349 original size:4 final size:4
Alignment explanation
Indices: 22331--22381 Score: 50
Period size: 4 Copynumber: 11.8 Consensus size: 4
22321 ATTATACTTT
22331 TTAA -TAA TATAA TTAA TTAA TTAA CTTAAA TTAA TTAAA TATAA TTAA
1 TTAA TTAA T-TAA TTAA TTAA TTAA -TT-AA TTAA TT-AA T-TAA TTAA
22379 TTA
1 TTA
22382 TTATTCATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
3 3 0.07
4 21 0.51
5 14 0.34
6 3 0.07
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (4 bp):
TTAA
Found at i:22364 original size:14 final size:14
Alignment explanation
Indices: 22344--22381 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
22334 ATAATATAAT
*
22344 TAATTAATTAACT-
1 TAATTAATTAAATA
22357 TAAATTAATTAAATA
1 T-AATTAATTAAATA
22372 TAATTAATTA
1 TAATTAATTA
22382 TTATTCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 1 0.05
14 20 0.91
15 1 0.05
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (14 bp):
TAATTAATTAAATA
Found at i:22413 original size:51 final size:47
Alignment explanation
Indices: 22363--22482 Score: 120
Period size: 48 Copynumber: 2.5 Consensus size: 47
22353 AACTTAAATT
*
22363 AATTA-AATATAATTAATTATTATTCATATAATATTA-ATTATATGATA
1 AATTATAATATAATTAATTAATA-T-ATATAATATTATATTATATGATA
* * *
22410 AATTATAATATAATTTATTAATATATTTAATATTATATTATAATTATAA
1 AATTATAATATAATTAATTAATATATATAATATTATATTAT-ATGAT-A
22459 TATATTAATAATATAATT-ATTAAT
1 -A-ATT-ATAATATAATTAATTAAT
22483 TTGAATAATT
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
46 10 0.16
47 11 0.18
48 19 0.31
49 1 0.02
50 1 0.02
51 9 0.15
52 11 0.18
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (47 bp):
AATTATAATATAATTAATTAATATATATAATATTATATTATATGATA
Found at i:22457 original size:11 final size:11
Alignment explanation
Indices: 22370--22478 Score: 52
Period size: 11 Copynumber: 9.8 Consensus size: 11
22360 ATTAATTAAA
22370 TATAATTA-AT
1 TATAATTATAT
*
22380 TATTATTCATAT
1 TATAATT-ATAT
22392 AATATTAATTATAT
1 --TA-TAATTATAT
* *
22406 GATAAATTATAA
1 TAT-AATTATAT
22418 TATAATT-TA-
1 TATAATTATAT
22427 T-TAA-TATAT
1 TATAATTATAT
22436 T-TAATATTATAT
1 TAT-A-ATTATAT
*
22448 TATAATTATAA
1 TATAATTATAT
*
22459 TAT-ATTAATAA
1 TATAATT-ATAT
22470 TATAATTAT
1 TATAATTAT
22479 TAATTTGAAT
Statistics
Matches: 79, Mismatches: 6, Indels: 27
0.71 0.05 0.24
Matches are distributed among these distances:
7 1 0.01
8 5 0.06
9 3 0.04
10 12 0.15
11 25 0.32
12 22 0.28
13 1 0.01
14 6 0.08
15 4 0.05
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (11 bp):
TATAATTATAT
Found at i:22511 original size:29 final size:28
Alignment explanation
Indices: 22413--22500 Score: 85
Period size: 29 Copynumber: 3.1 Consensus size: 28
22403 TATGATAAAT
*
22413 TATAA-TATAATTTATTAATATATTTAATAT
1 TATAATTATAA-TTA-TAATATA-TTAATAA
22443 TAT-ATTATAATTATAATATATTAATAA
1 TATAATTATAATTATAATATATTAATAA
22470 TATAATTATTAATT-TGAATA-ATTAATTAA
1 TATAATTA-TAATTAT-AATATATTAA-TAA
22499 TA
1 TA
22501 AAGGTTATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 11
0.81 0.02 0.17
Matches are distributed among these distances:
27 9 0.17
28 17 0.33
29 18 0.35
30 8 0.15
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (28 bp):
TATAATTATAATTATAATATATTAATAA
Found at i:22756 original size:24 final size:24
Alignment explanation
Indices: 22728--22776 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
22718 ATGAACTAAG
22728 ATAATTGTAATAAT-TATTA-TTATA
1 ATAATT-T-ATAATATATTATTTATA
22752 ATAATTTATAATATATTATTTATA
1 ATAATTTATAATATATTATTTATA
22776 A
1 A
22777 CACGTTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.22
23 6 0.26
24 12 0.52
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
ATAATTTATAATATATTATTTATA
Found at i:22887 original size:26 final size:25
Alignment explanation
Indices: 22829--22887 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
22819 ATTTACTATT
22829 TTAATATTAAATTAATATAATATAA
1 TTAATATTAAATTAATATAATATAA
* *
22854 CTATATATTAAATTATAATTTAAT-TAA
1 TTA-ATATTAAA-T-TAATATAATATAA
22881 TTAATAT
1 TTAATAT
22888 AATTGAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 2 0.07
26 12 0.43
27 6 0.21
28 8 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
TTAATATTAAATTAATATAATATAA
Found at i:22888 original size:18 final size:20
Alignment explanation
Indices: 22838--22891 Score: 58
Period size: 23 Copynumber: 2.6 Consensus size: 20
22828 TTTAATATTA
*
22838 AATTAATATAATATAACTAT
1 AATTAATATAATTTAACTAT
22858 ATATTAAATTATAATTTAA-T-T
1 A-ATT-AA-TATAATTTAACTAT
22879 AATTAATATAATT
1 AATTAATATAATT
22892 GAATATTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
18 7 0.23
19 2 0.07
20 4 0.13
21 5 0.17
22 3 0.10
23 9 0.30
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
AATTAATATAATTTAACTAT
Found at i:22913 original size:36 final size:37
Alignment explanation
Indices: 22838--22918 Score: 89
Period size: 36 Copynumber: 2.2 Consensus size: 37
22828 TTTAATATTA
*
22838 AATTAATATAATATAACTATATATTAAATTATAATTT
1 AATTAATATAATATAACTATATATTAAACTATAATTT
* *
22875 AATTAAT-TAATATAATTGA-ATATTAAGCTATTAA-TT
1 AATTAATATAATATAACT-ATATATTAAACTA-TAATTT
22911 AA-TAATAT
1 AATTAATAT
22919 TGTTTTAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
35 4 0.11
36 23 0.61
37 11 0.29
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (37 bp):
AATTAATATAATATAACTATATATTAAACTATAATTT
Found at i:23019 original size:9 final size:9
Alignment explanation
Indices: 23005--23063 Score: 64
Period size: 9 Copynumber: 6.2 Consensus size: 9
22995 TATTTATTTT
23005 AAATAATTA
1 AAATAATTA
*
23014 AAATAATAA
1 AAATAATTA
23023 TAAATAATTA
1 -AAATAATTA
*
23033 AAATAAATA
1 AAATAATTA
*
23042 TAATAATTA
1 AAATAATTA
23051 TAAATAACTTA
1 -AAATAA-TTA
23062 AA
1 AA
23064 TATATATTAG
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
9 23 0.56
10 15 0.37
11 3 0.07
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (9 bp):
AAATAATTA
Found at i:23028 original size:19 final size:18
Alignment explanation
Indices: 23004--23057 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 18
22994 TTATTTATTT
23004 TAAATAATTAAAATAATAA
1 TAAATAATTAAAATAA-AA
23023 TAAATAATTAAAAT-AAA
1 TAAATAATTAAAATAAAA
23040 TATAATAATTATAAATAA
1 TA-AATAATTA-AAATAA
23058 CTTAAATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.12
18 9 0.28
19 18 0.56
20 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAATAATTAAAATAAAA
Found at i:23037 original size:28 final size:29
Alignment explanation
Indices: 23005--23072 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 29
22995 TATTTATTTT
23005 AAATAATTAAAATAATAATAAATAA-TTA
1 AAATAATTAAAATAATAATAAATAACTTA
* * *
23033 AAATAAATATAATAATTATAAATAACTTA
1 AAATAATTAAAATAATAATAAATAACTTA
23062 AATATATATTA
1 AA-ATA-ATTA
23073 GTTATTAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 22 0.67
29 5 0.15
30 3 0.09
31 3 0.09
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (29 bp):
AAATAATTAAAATAATAATAAATAACTTA
Found at i:23065 original size:19 final size:17
Alignment explanation
Indices: 23003--23065 Score: 72
Period size: 19 Copynumber: 3.4 Consensus size: 17
22993 ATTATTTATT
23003 TTAAATAATTAAAATAA
1 TTAAATAATTAAAATAA
23020 TAATAAATAATTAAAATAA
1 T--TAAATAATTAAAATAA
*
23039 ATATAATAATTATAAATAA
1 TTA-AATAATTA-AAATAA
23058 CTTAAATA
1 -TTAAATA
23066 TATATTAGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
17 3 0.08
18 8 0.21
19 26 0.67
20 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAATAATTAAAATAA
Found at i:23252 original size:23 final size:25
Alignment explanation
Indices: 23226--23288 Score: 69
Period size: 28 Copynumber: 2.5 Consensus size: 25
23216 GTATTTTAAC
*
23226 TATATTAATAT-TAATT-ATAGTAT
1 TATATTAATATATAATTAATAATAT
23249 TATATTTAAATTATATAATTAATAATAT
1 TATA-TT-AA-TATATAATTAATAATAT
23277 TAT-TTAATATAT
1 TATATTAATATAT
23289 TACTAATATA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
23 4 0.12
24 7 0.21
25 4 0.12
26 5 0.15
27 5 0.15
28 9 0.26
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TATATTAATATATAATTAATAATAT
Found at i:23965 original size:27 final size:27
Alignment explanation
Indices: 23935--24002 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
23925 CCAATATTAG
23935 TAATAATTAATTGTATAT-TAATAAATA
1 TAATAATTAATT-TATATATAATAAATA
* * *
23962 TAATATATTAGTTTATATATTATAATTA
1 TAATA-ATTAATTTATATATAATAAATA
23990 -AATAATATAATTT
1 TAATAAT-TAATTT
24003 CAATTAGTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
26 2 0.06
27 19 0.56
28 13 0.38
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (27 bp):
TAATAATTAATTTATATATAATAAATA
Found at i:24304 original size:37 final size:35
Alignment explanation
Indices: 24257--24346 Score: 87
Period size: 37 Copynumber: 2.5 Consensus size: 35
24247 TTTTTATATT
*
24257 TTATAATTATAATTTAATAGAAAATAATATTAATTTA
1 TTATATTTATAATTTAATAGAAAAT--TATTAATTTA
* * *
24294 TTATATTTATAAATT-ATATATAATTATTAATTTA
1 TTATATTTATAATTTAATAGAAAATTATTAATTTA
24328 -TA-ATCTTATAATTATAATA
1 TTATAT-TTATAATT-TAATA
24347 TATTAATAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
32 2 0.04
33 9 0.20
34 11 0.24
35 3 0.07
36 7 0.16
37 13 0.29
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (35 bp):
TTATATTTATAATTTAATAGAAAATTATTAATTTA
Found at i:24312 original size:26 final size:25
Alignment explanation
Indices: 24278--24330 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
24268 ATTTAATAGA
24278 AAATAATAT-TAATTTATTATATTTAT
1 AAATAATATATAA-TTATTA-ATTTAT
*
24304 AAATTATATATAATTATTAATTTAT
1 AAATAATATATAATTATTAATTTAT
24329 AA
1 AA
24331 TCTTATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 8 0.32
26 14 0.56
27 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
AAATAATATATAATTATTAATTTAT
Found at i:24828 original size:22 final size:25
Alignment explanation
Indices: 24803--24856 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 25
24793 AATTTAGATT
24803 ATATATAAT-TAATAA-ATTAA-AA
1 ATATATAATCTAATAATATTAATAA
* *
24825 ATATATTATCTAATAATATTAATTA
1 ATATATAATCTAATAATATTAATAA
24850 ATATATA
1 ATATATA
24857 TTATTTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 8 0.31
23 6 0.23
24 5 0.19
25 7 0.27
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
ATATATAATCTAATAATATTAATAA
Found at i:24865 original size:27 final size:24
Alignment explanation
Indices: 24802--24865 Score: 69
Period size: 27 Copynumber: 2.6 Consensus size: 24
24792 TAATTTAGAT
*
24802 TATATA-TAATTAATAAATTAAAA
1 TATATATTATTTAATAAATTAAAA
*
24825 -ATATATTATCTAATAATATTAATTAA
1 TATATATTATTTAATAA-ATTAA--AA
24851 TATATATTATTTAAT
1 TATATATTATTTAAT
24866 TTAATGAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 5 0.15
23 8 0.24
24 5 0.15
26 2 0.06
27 13 0.39
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
TATATATTATTTAATAAATTAAAA
Found at i:25591 original size:8 final size:9
Alignment explanation
Indices: 25552--25617 Score: 57
Period size: 9 Copynumber: 7.1 Consensus size: 9
25542 GTTACTAAAC
25552 AATATATATT
1 AATA-ATATT
*
25562 AATAA-ATA
1 AATAATATT
25570 AATAACTATAT
1 AATAA-TAT-T
25581 AATAA-ATT
1 AATAATATT
25589 AATAATATT
1 AATAATATT
25598 AATAATAATT
1 AATAAT-ATT
25608 -ATAATCATT
1 AATAAT-ATT
25617 A
1 A
25618 GCTCAAATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
8 13 0.28
9 20 0.43
10 9 0.19
11 5 0.11
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (9 bp):
AATAATATT
Found at i:25661 original size:24 final size:23
Alignment explanation
Indices: 25637--25682 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
25627 TTTATTAATA
25637 TAAAAATATAAATAATAAATTATAT
1 TAAAAA-ATAAATAAT-AATTATAT
* *
25662 TATAAAATAATTAATAATTAT
1 TAAAAAATAAATAATAATTAT
25683 TTATAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 8 0.42
25 5 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
TAAAAAATAAATAATAATTATAT
Found at i:25689 original size:22 final size:22
Alignment explanation
Indices: 25644--25710 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
25634 ATATAAAAAT
*
25644 ATAAATAATAAATTATATTATAAA
1 ATAATTAAT-AATTAT-TTATAAA
25668 ATAATTAATAATTATTTATAAA
1 ATAATTAATAATTATTTATAAA
* *
25690 TTAATTATATAA-TAGTTATAA
1 ATAATTA-ATAATTATTTATAA
25711 TCAGTACCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
22 21 0.54
23 10 0.26
24 8 0.21
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (22 bp):
ATAATTAATAATTATTTATAAA
Found at i:25691 original size:11 final size:11
Alignment explanation
Indices: 25651--25698 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
25641 AATATAAATA
25651 ATAAATTATATT
1 ATAAATTA-ATT
*
25663 ATAAAATAATT
1 ATAAATTAATT
*
25674 A-ATAATTATTT
1 ATA-AATTAATT
25685 ATAAATTAATT
1 ATAAATTAATT
25696 ATA
1 ATA
25699 TAATAGTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
10 1 0.03
11 21 0.70
12 8 0.27
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATAAATTAATT
Found at i:26148 original size:6 final size:7
Alignment explanation
Indices: 26115--26155 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
26105 AATGAAGTGT
26115 GAAAAAA
1 GAAAAAA
* *
26122 GATATAA
1 GAAAAAA
26129 GAAAAAA
1 GAAAAAA
26136 GCAAAAAA
1 G-AAAAAA
26144 GAAAAAA
1 GAAAAAA
26151 GAAAA
1 GAAAA
26156 TACTAAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 22 0.76
8 7 0.24
ACGTcount: A:0.78, C:0.02, G:0.15, T:0.05
Consensus pattern (7 bp):
GAAAAAA
Done.