Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1299
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: 24053
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.35
Found at i:667 original size:5 final size:6
Alignment explanation
Indices: 637--681 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
627 TCACTTCCTC
* *
637 CGCTCT CTCTCT CG-TCT CGCTCT CGCT-T CGCTCT CTCTCT C-CTCT
1 CGCTCT CGCTCT CGCTCT CGCTCT CGCTCT CGCTCT CGCTCT CGCTCT
682 TTCTGTGTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
5 14 0.41
6 20 0.59
ACGTcount: A:0.00, C:0.49, G:0.11, T:0.40
Consensus pattern (6 bp):
CGCTCT
Found at i:2315 original size:1 final size:1
Alignment explanation
Indices: 2262--2303 Score: 75
Period size: 1 Copynumber: 42.0 Consensus size: 1
2252 TGTTGGTATT
*
2262 GGGGGGAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
2304 TTGTGGTGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.02, C:0.00, G:0.98, T:0.00
Consensus pattern (1 bp):
G
Found at i:2317 original size:6 final size:6
Alignment explanation
Indices: 2263--2457 Score: 61
Period size: 6 Copynumber: 32.7 Consensus size: 6
2253 GTTGGTATTG
*
2263 GGGGGA GGGGG- GGGGG- GGGGG- GGGGG- GGGGG- GGGGG- GGGGGT
1 GGGGGT GGGGGT GGGGGT GGGGGT GGGGGT GGGGGT GGGGGT GGGGGT
* * * ** ** ** *
2305 TGTGGT GGGGGT GGGTGGGG GGGGGT TTGGGT GGGTTT GTTGGT -TGGG-
1 GGGGGT GGGGGT -GG-GGGT GGGGGT GGGGGT GGGGGT GGGGGT GGGGGT
* **
2353 GGGGGT GGTTGGT GTGGGG- GGGGGT GGTGTGG- GGGGGT GGTTGT GGGGGT
1 GGGGGT GG-GGGT G-GGGGT GGGGGT GG-G-GGT GGGGGT GGGGGT GGGGGT
* * * *
2403 GGGGTT GGGGG- GGGTGGT GGTGTT GGGGTGGT GGGGGT GGGGTT GGGGGGT
1 GGGGGT GGGGGT GGG-GGT GGGGGT -GGG-GGT GGGGGT GGGGGT -GGGGGT
2454 GGGG
1 GGGG
2458 TGTTGTGGTG
Statistics
Matches: 141, Mismatches: 32, Indels: 32
0.69 0.16 0.16
Matches are distributed among these distances:
5 45 0.32
6 63 0.45
7 25 0.18
8 8 0.06
ACGTcount: A:0.01, C:0.00, G:0.77, T:0.22
Consensus pattern (6 bp):
GGGGGT
Found at i:2318 original size:9 final size:10
Alignment explanation
Indices: 2263--2443 Score: 58
Period size: 10 Copynumber: 17.9 Consensus size: 10
2253 GTTGGTATTG
*
2263 GGGGGAGGG-
1 GGGGGTGGGT
2272 GGGGG-GGG-
1 GGGGGTGGGT
*
2280 GGGGG-GGGG
1 GGGGGTGGGT
* *
2289 GGGGGGGGGG
1 GGGGGTGGGT
2299 GGGGGTTGTGGT
1 GGGGG-TG-GGT
2311 GGGGGTGGGT
1 GGGGGTGGGT
*
2321 GGGGGGGGGT
1 GGGGGTGGGT
**
2331 TTGGGTGGGTTT
1 GGGGGTGGG--T
* *
2343 GTTGGTTGGG-
1 G-GGGGTGGGT
2353 GGGGGT-GGT
1 GGGGGTGGGT
* * *
2362 TGGTGTGGGG
1 GGGGGTGGGT
2372 GGGGGTGGTGT
1 GGGGGTGG-GT
2383 GGGGGGGTGGTTGT
1 --GGGGGTGG--GT
2397 GGGGGTGGGGTT
1 GGGGGT-GGG-T
2409 GGGGG-GGGT
1 GGGGGTGGGT
*
2418 GGTGGT--GT
1 GGGGGTGGGT
*
2426 TGGGGT-GGT
1 GGGGGTGGGT
2435 GGGGGTGGG
1 GGGGGTGGG
2444 GTTGGGGGGT
Statistics
Matches: 134, Mismatches: 20, Indels: 35
0.71 0.11 0.19
Matches are distributed among these distances:
8 19 0.14
9 29 0.22
10 41 0.31
11 5 0.04
12 20 0.15
13 17 0.13
14 3 0.02
ACGTcount: A:0.01, C:0.00, G:0.77, T:0.22
Consensus pattern (10 bp):
GGGGGTGGGT
Found at i:2325 original size:38 final size:38
Alignment explanation
Indices: 2273--2470 Score: 118
Period size: 37 Copynumber: 5.1 Consensus size: 38
2263 GGGGGAGGGG
* *
2273 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGTTGTGGT
1 GGGGGTGGGTGGGGGGGGGGGGGGGGGGGGGTTGTGGT
*** * *
2311 GGGGGTGGGT-GGGGGGGGGTTTGGGTGGGTTTGTTGGTT
1 GGGGGTGGGTGGGGGGGGGGGGGGGGGGGGGTTG-TGG-T
** * * *
2350 GGGGG-GGGTGGTTGGTGTGGGGGGGGGTGG-TGTGG-
1 GGGGGTGGGTGGGGGGGGGGGGGGGGGGGGGTTGTGGT
* * ** *
2385 GGGGGTGGTTGTGGGGGTGGGGTTGGGGGGGGTGGTGGT
1 GGGGGTGGGTG-GGGGGGGGGGGGGGGGGGGGTTGTGGT
*
2424 GTTGGGGT-GGTGGGGGTGGGGTTGGGGGGTGGGGTGTTGTGGT
1 G--GGGGTGGGTGGGGG-GGGG--GGGGGG-GGGGGGTTGTGGT
2467 GGGG
1 GGGG
2471 TTGTGTGGTG
Statistics
Matches: 116, Mismatches: 31, Indels: 23
0.68 0.18 0.14
Matches are distributed among these distances:
35 5 0.04
36 4 0.03
37 35 0.30
38 21 0.18
39 21 0.18
40 6 0.05
41 8 0.07
42 4 0.03
43 12 0.10
ACGTcount: A:0.00, C:0.00, G:0.76, T:0.24
Consensus pattern (38 bp):
GGGGGTGGGTGGGGGGGGGGGGGGGGGGGGGTTGTGGT
Found at i:2338 original size:29 final size:29
Alignment explanation
Indices: 2284--2533 Score: 99
Period size: 29 Copynumber: 8.3 Consensus size: 29
2274 GGGGGGGGGG
* * *
2284 GGGGGGGGGGGGGGGGGGGGTT--GTGGT
1 GGGGGTGGGTGGGGGGGGGTTTGGGTGGT
2311 GGGGGTGGGTGGGGGGGGGTTTGGGTGG-
1 GGGGGTGGGTGGGGGGGGGTTTGGGTGGT
** * * * *
2339 GTTTGTTGGTTGGGGGGGGTGGTTGGTGTGGGG
1 G-GGGGTGGGTGGGGGGGG-GTTTGG-GT-GGT
2372 GGGGGTGGTGTGGGGGGGTGGTTGTGGG-GGT
1 GGGGGTGG-GTGGGGGGG-GGTT-TGGGTGGT
*
2403 GGGGTTGGG-GGGGGTGGTGGTGTTGGGGTGGT
1 GGGGGTGGGTGGGGG-GG-GGT-TT-GGGTGGT
2435 GGGGGTGGGGTTGGGGGGTGGGGTGTT--GTGGT
1 GGGGGT-GGG-T-GGGGG-GGGGT-TTGGGTGGT
* * * * *
2467 -GGGGT-TGTGTGGTGGTGTTTGGGTGTTT
1 GGGGGTGGGTGGGGGGGGGTTTGGGTG-GT
*
2495 GGGGGTGGGGTTGGGGGGGG--TGGGTTGGT
1 GGGGGT-GGGTGGGGGGGGGTTTGGG-TGGT
*
2524 GGGGTTGGGT
1 GGGGGTGGGT
2534 TGTGTGGGTT
Statistics
Matches: 170, Mismatches: 28, Indels: 49
0.69 0.11 0.20
Matches are distributed among these distances:
25 2 0.01
26 4 0.02
27 25 0.15
28 7 0.04
29 38 0.22
30 15 0.09
31 27 0.16
32 19 0.11
33 15 0.09
34 4 0.02
35 6 0.04
36 8 0.05
ACGTcount: A:0.00, C:0.00, G:0.72, T:0.28
Consensus pattern (29 bp):
GGGGGTGGGTGGGGGGGGGTTTGGGTGGT
Found at i:2369 original size:60 final size:55
Alignment explanation
Indices: 2290--2512 Score: 161
Period size: 60 Copynumber: 3.9 Consensus size: 55
2280 GGGGGGGGGG
* * *
2290 GGGGGGGGGGGGGGTTGTGGTGGGGGTGGGTGGGGGGGGGTTTGGGTGGGTTTGTTGGTT
1 GGGGGGGGTGGTGG-TGTGGTGGGGGTGGGTGGGGGGGGG-TTGGG-GGG-TTG-GGGTT
*
2350 GGGGGGGGTGGTTGGTGTGGGGGGGGGTGGTGTGGGGGGGTGGTTGTGGGGG-TGGGGTT
1 GGGGGGGGTGG-TGGTGT-GGTGGGGGTGG-GTGGGGGGG-GGTTG-GGGGGTTGGGGTT
*
2409 GGGGGGGGTGGTGGTGT--T-GGGGT-GGTGGGGGTGGGGTTGGGGGGTGGGGTGTT
1 GGGGGGGGTGGTGGTGTGGTGGGGGTGGGTGGGGG-GGGGTTGGGGGGTTGGG-GTT
* ** **
2462 GTGGTGGGGTTGTGTGGTG-GTGTTTGGGTGTTTGGGGGTGGGGTTGGGGGG
1 G-GG-GGGGGTG-GTGGTGTG-GTGGGGGTGGGTGGGGG-GGGGTTGGGGGG
2513 GGTGGGTTGG
Statistics
Matches: 137, Mismatches: 10, Indels: 32
0.77 0.06 0.18
Matches are distributed among these distances:
51 5 0.04
52 15 0.11
53 7 0.05
54 7 0.05
55 6 0.04
56 6 0.04
58 7 0.05
59 19 0.14
60 34 0.25
61 12 0.09
62 15 0.11
63 4 0.03
ACGTcount: A:0.00, C:0.00, G:0.71, T:0.29
Consensus pattern (55 bp):
GGGGGGGGTGGTGGTGTGGTGGGGGTGGGTGGGGGGGGGTTGGGGGGTTGGGGTT
Found at i:2430 original size:59 final size:61
Alignment explanation
Indices: 2346--2576 Score: 183
Period size: 62 Copynumber: 3.7 Consensus size: 61
2336 TGGGTTTGTT
*
2346 GGTTGGGGGGGGTGGTTGGTG-TGG-GGGGGGGTGGTGTGGGGGGGT-GGTTGTGGGGGTGG
1 GGTTGGGGGGGGTGG-TGGTGTTGGTGGGGGGGTGGGGTGGGGGGGTGGGTTGTGGGGGTGG
* * * *
2405 GGTTGGGGGGGGTGGTGGTGTTGGGGTGGTGGGGGTGGGGTTGGGGGGTGGGGTGTTGTGGTGG
1 GGTTGGGGGGGGTGGTGGTGTT--GGTGG-GGGGGTGGGGTGGGGGGGTGGGTTGTGGGGGTGG
* * *
2469 GGTT--GTGTGGTGGT-GT-TTGGGTGTTTGGGGGTGGGGTTGGGGGGGGTGGGTTG-GTGGGGT
1 GGTTGGGGGGGGTGGTGGTGTT-GGTG--GGGGGGTGGGG-T-GGGGGGGTGGGTTGTG-GGGGT
*
2529 TG
60 GG
* * *
2531 GGTT-GTGTGGGTTGTGGTGGTTGGTGGGGGGGTGTGGGTGGGGGGG
1 GGTTGGGGGGGGTGGTGGT-GTTGGTGGGGGGGTG-GGGTGGGGGGG
2577 GTGGTGGGGT
Statistics
Matches: 137, Mismatches: 19, Indels: 29
0.74 0.10 0.16
Matches are distributed among these distances:
58 5 0.04
59 21 0.15
60 12 0.09
61 5 0.04
62 38 0.28
63 30 0.22
64 20 0.15
65 4 0.03
66 2 0.01
ACGTcount: A:0.00, C:0.00, G:0.70, T:0.30
Consensus pattern (61 bp):
GGTTGGGGGGGGTGGTGGTGTTGGTGGGGGGGTGGGGTGGGGGGGTGGGTTGTGGGGGTGG
Found at i:2525 original size:23 final size:23
Alignment explanation
Indices: 2498--2561 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
2488 GGTGTTTGGG
2498 GGTGGGGTTGGGGGGGGTGGGTT
1 GGTGGGGTTGGGGGGGGTGGGTT
** *
2521 GGTGGGGTTGGGTTGTGTGGGTT
1 GGTGGGGTTGGGGGGGGTGGGTT
2544 -GTGGTGGTTGGTGGGGGG
1 GGTGG-GGTTGG-GGGGGG
2562 GTGTGGGTGG
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
22 4 0.12
23 26 0.79
24 3 0.09
ACGTcount: A:0.00, C:0.00, G:0.69, T:0.31
Consensus pattern (23 bp):
GGTGGGGTTGGGGGGGGTGGGTT
Found at i:2542 original size:14 final size:14
Alignment explanation
Indices: 2417--2587 Score: 59
Period size: 14 Copynumber: 11.7 Consensus size: 14
2407 TTGGGGGGGG
* *
2417 TGGTGGTGTTGGGG
1 TGGTGGGGTTGGGT
*
2431 TGGTGGGGGTGGGGT
1 TGGT-GGGGTTGGGT
*
2446 TGG-GGGGTGGGGTGTT
1 TGGTGGGGT-TGG-G-T
*
2462 GTGGTGGGGTTGTG-
1 -TGGTGGGGTTGGGT
*
2476 TGGTGGTGTTTGGG-
1 TGGTGG-GGTTGGGT
* *
2490 TGTTTGGGGGTGGGGT
1 TG-GT-GGGGTTGGGT
* *
2506 TGGGGGGGGTGGGT
1 TGGTGGGGTTGGGT
2520 TGGTGGGGTTGGGT
1 TGGTGGGGTTGGGT
*
2534 TGTGTGGGTTGTGGTGGT
1 TG-GTGGG--GTTG-GGT
2552 TGGTGGGG--GGGT
1 TGGTGGGGTTGGGT
*
2564 GTGGGTGGGG--GGGG
1 -T-GGTGGGGTTGGGT
2578 TGGTGGGGTT
1 TGGTGGGGTT
2588 TTTGTTGTGG
Statistics
Matches: 121, Mismatches: 18, Indels: 36
0.69 0.10 0.21
Matches are distributed among these distances:
12 10 0.08
13 14 0.12
14 46 0.38
15 23 0.19
16 6 0.05
17 12 0.10
18 10 0.08
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (14 bp):
TGGTGGGGTTGGGT
Found at i:2618 original size:13 final size:13
Alignment explanation
Indices: 2299--2618 Score: 67
Period size: 13 Copynumber: 24.0 Consensus size: 13
2289 GGGGGGGGGG
*
2299 GGGGGTTGT-GGT
1 GGGGGTGGTGGGT
*
2311 GGGGGTGGGTGGGG
1 GGGGGT-GGTGGGT
*
2325 GGGGGT-TTGGGT
1 GGGGGTGGTGGGT
*
2337 GGGTTTGTTGGTTGGG-
1 GGG---GGTGG-TGGGT
2353 GGGGGTGGTTGGTGT
1 GGGGGTGG-TGG-GT
*
2368 GGGGGGGGGTGGTGT
1 -GGGGGTGGTGG-GT
2383 GGGGG-GGTGGTTGT
1 GGGGGTGGTGG--GT
2397 GGGGGTGGGGTTGGG-
1 GGGGGT--GG-TGGGT
2412 GGGGGTGGTGGTGT
1 GGGGGTGGTGG-GT
*
2426 TGGGGTGGTGGGGGT
1 GGGGGTGGT--GGGT
* *
2441 GGGGTTGGGGGGT
1 GGGGGTGGTGGGT
*
2454 -GGGGTGTTGTGGT
1 GGGGGTGGTG-GGT
*
2467 -GGGGTTGTGTGGT
1 GGGGGTGGTG-GGT
** **
2480 GGTGTTTGGGTGTTT
1 GG-GGGT-GGTGGGT
*
2495 GGGGGTGG-GGTT
1 GGGGGTGGTGGGT
*
2507 GGGGGGGGTGGGT
1 GGGGGTGGTGGGT
*
2520 --TGGT-G-GGGT
1 GGGGGTGGTGGGT
* *
2529 TGGGTTGTGTGGGT
1 GGGGGTG-GTGGGT
* * *
2543 TGTGGTGGTTGGT
1 GGGGGTGGTGGGT
*
2556 GGGGGGGTGTGGGT
1 GGGGGTG-GTGGGT
*
2570 GGGGGGGGT-GGT
1 GGGGGTGGTGGGT
** * *
2582 -GGGGTTTTTGTT
1 GGGGGTGGTGGGT
*
2594 GTGGGTGG-GGGT
1 GGGGGTGGTGGGT
2606 GGGGGTGGTGGGT
1 GGGGGTGGTGGGT
2619 TGTGGTTTGT
Statistics
Matches: 227, Mismatches: 48, Indels: 65
0.67 0.14 0.19
Matches are distributed among these distances:
9 4 0.02
10 1 0.00
11 9 0.04
12 46 0.20
13 61 0.27
14 54 0.24
15 27 0.12
16 16 0.07
17 6 0.03
18 3 0.01
ACGTcount: A:0.00, C:0.00, G:0.69, T:0.31
Consensus pattern (13 bp):
GGGGGTGGTGGGT
Found at i:2629 original size:33 final size:34
Alignment explanation
Indices: 2564--2640 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 34
2554 GTGGGGGGGT
* * *
2564 GTGGGTGGGGGGGGTGGTGGGGTTTTTGTTGTG-G
1 GTGGG-GGTGGGGGTGGTGGGGTTGTGGTTGTGAG
*
2598 GTGGGGGTGGGGGTGGT-GGGTTGTGGTTTGTGAT
1 GTGGGGGTGGGGGTGGTGGGGTTGTGG-TTGTGAG
2632 GTGGGGGTG
1 GTGGGGGTG
2641 TTGTGTGTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
32 7 0.19
33 16 0.43
34 14 0.38
ACGTcount: A:0.01, C:0.00, G:0.65, T:0.34
Consensus pattern (34 bp):
GTGGGGGTGGGGGTGGTGGGGTTGTGGTTGTGAG
Found at i:2651 original size:23 final size:21
Alignment explanation
Indices: 2617--2658 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
2607 GGGGTGGTGG
2617 GTTGTGGTTTGTGATGTGGGGGT
1 GTTGTGGTTTGT--TGTGGGGGT
2640 GTTGT-GTGTTGTTGTGGGG
1 GTTGTGGT-TTGTTGTGGGG
2659 AGTTTGGGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
21 7 0.39
22 2 0.11
23 9 0.50
ACGTcount: A:0.02, C:0.00, G:0.52, T:0.45
Consensus pattern (21 bp):
GTTGTGGTTTGTTGTGGGGGT
Found at i:2726 original size:16 final size:16
Alignment explanation
Indices: 2707--2760 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
2697 TGTTGTTTTG
2707 TGGGTGGTGGGGTGTT
1 TGGGTGGTGGGGTGTT
*
2723 TGGGT-GAGGGG-G-T
1 TGGGTGGTGGGGTGTT
* *
2736 TGGGTGGTGGGTTTTT
1 TGGGTGGTGGGGTGTT
2752 TGGTGTGGT
1 TGG-GTGGT
2761 TTGGTGTTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
13 6 0.20
14 5 0.17
15 5 0.17
16 9 0.30
17 5 0.17
ACGTcount: A:0.02, C:0.00, G:0.59, T:0.39
Consensus pattern (16 bp):
TGGGTGGTGGGGTGTT
Found at i:2787 original size:21 final size:22
Alignment explanation
Indices: 2753--2819 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 22
2743 TGGGTTTTTT
* *
2753 GGTGTGGTTTGGTGTTGGTGTTG
1 GGTG-GGTTGGGTGTTGGTGGTG
2776 GG-GGGTTGGGTG-TGGTGGTG
1 GGTGGGTTGGGTGTTGGTGGTG
* *
2796 GGTTGGTTGGGTGTGGGGTGGTG
1 GGTGGGTTGGGTGT-TGGTGGTG
2819 G
1 G
2820 TTTGTGGTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
20 9 0.24
21 17 0.46
22 1 0.03
23 10 0.27
ACGTcount: A:0.00, C:0.00, G:0.63, T:0.37
Consensus pattern (22 bp):
GGTGGGTTGGGTGTTGGTGGTG
Found at i:2792 original size:26 final size:26
Alignment explanation
Indices: 2753--2820 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
2743 TGGGTTTTTT
** *
2753 GGTGTGGTTTGGTGTTGGTGTTGG-GG
1 GGTGTGGGGTGGTGGTGG-GTTGGTGG
*
2779 GGT-TGGGTGTGGTGGTGGGTTGGTTG
1 GGTGTGGG-GTGGTGGTGGGTTGGTGG
2805 GGTGTGGGGTGGTGGT
1 GGTGTGGGGTGGTGGT
2821 TTGTGGTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
25 8 0.23
26 23 0.66
27 4 0.11
ACGTcount: A:0.00, C:0.00, G:0.62, T:0.38
Consensus pattern (26 bp):
GGTGTGGGGTGGTGGTGGGTTGGTGG
Found at i:2867 original size:25 final size:23
Alignment explanation
Indices: 2799--2867 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 23
2789 GGTGGTGGGT
*
2799 TGGTTGGGTGTGGGGTGGTGGTTTG
1 TGGTTTGGTG-GGGGTGG-GGTTTG
* * *
2824 TGGTTTGTTGGTGGAGGGGTTTAG
1 TGGTTTGGTGGGGGTGGGGTTT-G
2848 TGGGTTTGGTGGGGGTGGGG
1 T-GGTTTGGTGGGGGTGGGG
2868 GGGGTGGGGT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
23 5 0.14
24 7 0.20
25 23 0.66
ACGTcount: A:0.03, C:0.00, G:0.59, T:0.38
Consensus pattern (23 bp):
TGGTTTGGTGGGGGTGGGGTTTG
Found at i:2908 original size:13 final size:14
Alignment explanation
Indices: 2892--3228 Score: 82
Period size: 11 Copynumber: 26.2 Consensus size: 14
2882 TGTGTTGTGT
2892 GGGGGTGT-GTGGG
1 GGGGGTGTGGTGGG
2905 GGGGGTGTGGTGGG
1 GGGGGTGTGGTGGG
*
2919 TGGTGGTAGTGGTTGGTG
1 -GGGGGT-GTGG-TGG-G
* **
2937 GGGTGGTTTTTTGGG
1 GGG-GGTGTGGTGGG
* * *
2952 GGTGGTGGGGGTTGG
1 GGGGGT-GTGGTGGG
** * *
2967 GTTGGTGTTGTGGT
1 GGGGGTGTGGTGGG
*
2981 GGTGGTG-GG-GGG
1 GGGGGTGTGGTGGG
2993 GGGGG-G-GG-GGG
1 GGGGGTGTGGTGGG
3004 GGGGG-G-GG-GGG
1 GGGGGTGTGGTGGG
*
3015 GGGGG-GAGG-GGG
1 GGGGGTGTGGTGGG
*
3027 GGGGG-G-GGGGGG
1 GGGGGTGTGGTGGG
* * *
3039 GGGGGGGGGGGGGG
1 GGGGGTGTGGTGGG
* *
3053 GGGGGGGGGGTGGG
1 GGGGGTGTGGTGGG
3067 GGGGG-G-GG-GGG
1 GGGGGTGTGGTGGG
3078 GGGGG-G-GG-GGG
1 GGGGGTGTGGTGGG
3089 GGGGG-G-GG-GGG
1 GGGGGTGTGGTGGG
*
3100 GAGGGGGGTGG-GGG
1 G-GGGGTGTGGTGGG
* *
3114 GGGGG-GGGGGGGG
1 GGGGGTGTGGTGGG
* * *
3127 GGGGGGGGGGGGGG
1 GGGGGTGTGGTGGG
* *
3141 GGGGGGGGGGTGGG
1 GGGGGTGTGGTGGG
3155 GGGGG-G-GG-GGG
1 GGGGGTGTGGTGGG
3166 GGGGG-G-GG-GGG
1 GGGGGTGTGGTGGG
3177 GGGGG-G-GG-GGG
1 GGGGGTGTGGTGGG
3188 GGGGG-G-GG-GGG
1 GGGGGTGTGGTGGG
* * *
3199 GGGGGGGGGGGGGG
1 GGGGGTGTGGTGGG
3213 GGGGGTG-GGTGGG
1 GGGGGTGTGGTGGG
3226 GGG
1 GGG
3229 TGGAGGGGGT
Statistics
Matches: 280, Mismatches: 25, Indels: 38
0.82 0.07 0.11
Matches are distributed among these distances:
11 92 0.33
12 37 0.13
13 35 0.12
14 83 0.30
15 16 0.06
16 7 0.03
17 6 0.02
18 4 0.01
ACGTcount: A:0.01, C:0.00, G:0.88, T:0.11
Consensus pattern (14 bp):
GGGGGTGTGGTGGG
Found at i:2972 original size:29 final size:29
Alignment explanation
Indices: 2856--2991 Score: 82
Period size: 29 Copynumber: 4.6 Consensus size: 29
2846 AGTGGGTTTG
* *
2856 GTGGGGGTGGGGGGGGTGGGGTGTGTTGTGTTGT
1 GTGGGGGTGGTGGGGGTTGGG-GTG--GTG-T-T
*
2890 GTGGGGGTGTGTGGGGG--GGGTGTGGTG-G
1 GTGGGGGTG-GTGGGGGTTGGG-GTGGTGTT
* * * *
2918 GTGGTGGTAGTGGTTGG-TGGGGTGGTTTT
1 GTGGGGGTGGTGG-GGGTTGGGGTGGTGTT
* *
2947 TTGGGGGTGGTGGGGGTTGGGTTGGTGTT
1 GTGGGGGTGGTGGGGGTTGGGGTGGTGTT
*
2976 GTGGTGGTGGTGGGGG
1 GTGGGGGTGGTGGGGG
2992 GGGGGGGGGG
Statistics
Matches: 82, Mismatches: 15, Indels: 15
0.73 0.13 0.13
Matches are distributed among these distances:
27 4 0.05
28 16 0.20
29 37 0.45
31 3 0.04
33 7 0.09
34 9 0.11
35 6 0.07
ACGTcount: A:0.01, C:0.00, G:0.66, T:0.33
Consensus pattern (29 bp):
GTGGGGGTGGTGGGGGTTGGGGTGGTGTT
Found at i:2993 original size:1 final size:1
Alignment explanation
Indices: 2987--3400 Score: 495
Period size: 1 Copynumber: 414.0 Consensus size: 1
2977 TGGTGGTGGT
*
2987 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
* * *
3052 GGGGGGGGGGGTGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGAGGGGGGTGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
*
3117 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGTGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
* * * * * * **
3182 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGTGGGTGGGGGGTGGAGGGGGTGGGTGGTT
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
* **** * ** * * * ** * * * ** **
3247 GGAGTTTTGGGGTGGGGATGTGGGGGTGGGTGATGGGGGTGTGGGTGTTGGGTTGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
* * *
3312 GGGAGGGGGGGGGGGTGGGGGGGGGGGGGGGGGGGGGGGGTGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
*
3377 GGGGGGGGGGGGGGGTGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGG
3401 TACAAACAAA
Statistics
Matches: 353, Mismatches: 60, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 353 1.00
ACGTcount: A:0.02, C:0.00, G:0.91, T:0.07
Consensus pattern (1 bp):
G
Found at i:3430 original size:22 final size:21
Alignment explanation
Indices: 3404--3537 Score: 125
Period size: 21 Copynumber: 6.2 Consensus size: 21
3394 GGGGGGGTAC
*
3404 AAACAAAACCAACAAAAACAAA
1 AAACAAAA-AAACAAAAACAAA
3426 AAACAAAAAAAACAAAAAACAAA
1 AAAC-AAAAAAAC-AAAAACAAA
*
3449 AAAAAAAAAAACAAAAACCAAACA
1 AAACAAAAAAACAAAAA-C-AA-A
3473 AAACACAAAAAA-AAAAACAAA
1 AAACA-AAAAAACAAAAACAAA
3494 AAA-AAAAAAA-AAAAA-AAA
1 AAACAAAAAAACAAAAACAAA
*
3512 AAACAAACACAACAAAAA-AAA
1 AAACAAA-AAAACAAAAACAAA
*
3533 CAACA
1 AAACA
3538 TTTTATTTTT
Statistics
Matches: 98, Mismatches: 5, Indels: 19
0.80 0.04 0.16
Matches are distributed among these distances:
18 6 0.06
19 14 0.14
20 4 0.04
21 21 0.21
22 18 0.18
23 19 0.19
24 10 0.10
25 6 0.06
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (21 bp):
AAACAAAAAAACAAAAACAAA
Found at i:3435 original size:9 final size:9
Alignment explanation
Indices: 3402--3535 Score: 117
Period size: 9 Copynumber: 15.4 Consensus size: 9
3392 TGGGGGGGGT
3402 ACAAACAAAA
1 ACAAA-AAAA
* *
3412 CCAACAAAA
1 ACAAAAAAA
3421 AC--AAAAA
1 ACAAAAAAA
3428 ACAAAAAAA
1 ACAAAAAAA
3437 AC--AAAAA
1 ACAAAAAAA
3444 AC--AAAAA
1 ACAAAAAAA
3451 A-AAAAAAA
1 ACAAAAAAA
3459 ACAAAAACCAA
1 ACAAAAA--AA
3470 ACAAAACACAA
1 ACAAAA-A-AA
3481 A-AAAAAAA
1 ACAAAAAAA
3489 ACAAAAAAA
1 ACAAAAAAA
3498 A-AAAAAAA
1 ACAAAAAAA
3506 A-AAAAAAA
1 ACAAAAAAA
* *
3514 ACAAACACA
1 ACAAAAAAA
3523 ACAAAAAAA
1 ACAAAAAAA
3532 ACAA
1 ACAA
3536 CATTTTATTT
Statistics
Matches: 106, Mismatches: 8, Indels: 21
0.79 0.06 0.16
Matches are distributed among these distances:
7 19 0.18
8 25 0.24
9 42 0.40
10 7 0.07
11 12 0.11
12 1 0.01
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (9 bp):
ACAAAAAAA
Found at i:3442 original size:31 final size:31
Alignment explanation
Indices: 3404--3535 Score: 137
Period size: 31 Copynumber: 4.2 Consensus size: 31
3394 GGGGGGGTAC
*
3404 AAACAAAACCAACAAAAACAAAAAACAAAAA
1 AAACAAAAACAACAAAAACAAAAAACAAAAA
*
3435 AAACAAAAAACAA-AAAAAAAAAAAACAAAAA
1 AAAC-AAAAACAACAAAAACAAAAAACAAAAA
3466 CCAAAC-AAAAC-ACAAAAA-AAAAAACAAAAAA
1 --AAACAAAAACAACAAAAACAAAAAAC-AAAAA
* * *
3497 AAAAAAAAAAAAAAAAAACAAACACAACAAAAA
1 AAACAAAAACAACAAAAACAAA-A-AACAAAAA
3530 AAACAA
1 AAACAA
3536 CATTTTATTT
Statistics
Matches: 85, Mismatches: 6, Indels: 18
0.78 0.06 0.17
Matches are distributed among these distances:
29 3 0.04
30 12 0.14
31 42 0.49
32 10 0.12
33 15 0.18
34 3 0.04
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (31 bp):
AAACAAAAACAACAAAAACAAAAAACAAAAA
Found at i:3482 original size:49 final size:45
Alignment explanation
Indices: 3417--3535 Score: 159
Period size: 47 Copynumber: 2.5 Consensus size: 45
3407 CAAAACCAAC
*
3417 AAAAACAAAAAACAAAAAAAACAAAAAACAAAAAAAAAAAAAACAAA
1 AAAAACAAAACACAAAAAAAACAAAAAA-AAAAAAAAAAAAAA-AAA
*
3464 AACCAAACAAAACACAAAAAAAA-AAACAAAAAAAAAAAAAAAAAAA
1 AA--AAACAAAACACAAAAAAAACAAAAAAAAAAAAAAAAAAAAAAA
3510 AAAAACAAACACAACAAAAAAAACAA
1 AAAAACAAA-AC-ACAAAAAAAACAA
3536 CATTTTATTT
Statistics
Matches: 65, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
44 7 0.11
45 2 0.03
46 15 0.23
47 18 0.28
48 5 0.08
49 18 0.28
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (45 bp):
AAAAACAAAACACAAAAAAAACAAAAAAAAAAAAAAAAAAAAAAA
Found at i:3503 original size:45 final size:43
Alignment explanation
Indices: 3417--3535 Score: 161
Period size: 45 Copynumber: 2.8 Consensus size: 43
3407 CAAAACCAAC
* *
3417 AAAAACAAAAAACAAA-A-AAAACAAAAAACAAAAAAAAAAAA
1 AAAAAAAAAAAACAAACACAAAAAAAAAAACAAAAAAAAAAAA
**
3458 AACAAAAACCAAACAAAACACAAAAAAAAAAACAAAAAAAAAAAA
1 AA-AAAAAAAAAAC-AAACACAAAAAAAAAAACAAAAAAAAAAAA
*
3503 AAAAAAAAAAAACAAACACAACAAAAAAAACAA
1 AAAAAAAAAAAACAAACACAAAAAAAAAAACAA
3536 CATTTTATTT
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
41 2 0.03
42 8 0.12
43 22 0.33
44 10 0.15
45 25 0.37
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (43 bp):
AAAAAAAAAAAACAAACACAAAAAAAAAAACAAAAAAAAAAAA
Found at i:3507 original size:64 final size:64
Alignment explanation
Indices: 3403--3529 Score: 170
Period size: 64 Copynumber: 2.0 Consensus size: 64
3393 GGGGGGGGTA
* *
3403 CAAACAAAACCAACAAAAACAAAAAACAAAAAAAACAAAAAACAAAAAA-AAAAAAAACAAAAAC
1 CAAACAAAACCAACAAAAACAAAAAA-AAAAAAAAAAAAAAAAAAAAAACAAAAAAAACAAAAAC
* *
3467 CAAACAAAACACAA-AAAAA-AAAACAAAAAAAAAAAAAAAAAAAAAAAACAAACACAACAAAAA
1 CAAACAAAAC-CAACAAAAACAAAA-AAAAAAAAAAAAAAAAAAAAAAAACAAAAAAAACAAAAA
3530 AAACAACATT
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
63 24 0.43
64 29 0.52
65 3 0.05
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (64 bp):
CAAACAAAACCAACAAAAACAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAAAAAACAAAAAC
Found at i:3532 original size:1 final size:1
Alignment explanation
Indices: 3417--3514 Score: 97
Period size: 1 Copynumber: 98.0 Consensus size: 1
3407 CAAAACCAAC
* * * * * ** * * *
3417 AAAAACAAAAAACAAAAAAAACAAAAAACAAAAAAAAAAAAAACAAAAACCAAACAAAACACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
3482 AAAAAAAACAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3515 CAAACACAAC
Statistics
Matches: 77, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 77 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:3633 original size:28 final size:26
Alignment explanation
Indices: 3565--3633 Score: 66
Period size: 28 Copynumber: 2.5 Consensus size: 26
3555 TTTGGTTTTT
*
3565 GTGGGGTTGTGTGTTGTTGTTTTGGTG
1 GTGGGG-TGTGTGTTGTTGTGTTGGTG
* *
3592 GTGGGGTTTTTGTTGGTTGGTGTTGGTG
1 GTGGGGTGTGTGTT-GTT-GTGTTGGTG
* *
3620 GTTGTGTGTGTGTT
1 GTGGGGTGTGTGTT
3634 TTTTTGTTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
26 6 0.18
27 9 0.27
28 18 0.55
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (26 bp):
GTGGGGTGTGTGTTGTTGTGTTGGTG
Found at i:3832 original size:8 final size:8
Alignment explanation
Indices: 3819--3926 Score: 83
Period size: 8 Copynumber: 12.5 Consensus size: 8
3809 TTAGTTTGTA
3819 GGGGGGGT
1 GGGGGGGT
*
3827 GGGGGGGGG
1 -GGGGGGGT
*
3836 GGGGGGGC
1 GGGGGGGT
3844 GGGTGGGGT
1 GGG-GGGGT
3853 GGGGGGGT
1 GGGGGGGT
*
3861 GGGTGGGT
1 GGGGGGGT
*
3869 GGGGGGTT
1 GGGGGGGT
3877 GGGTGGGG-
1 GGG-GGGGT
3885 GGTGGGGTTGT
1 GG-GGGG--GT
*
3896 GGATGGTGGTT
1 GG--GG-GGGT
3907 GGGGGGGT
1 GGGGGGGT
3915 GGGGGGGT
1 GGGGGGGT
3923 GGGG
1 GGGG
3927 TGTTTGGGAT
Statistics
Matches: 82, Mismatches: 9, Indels: 17
0.76 0.08 0.16
Matches are distributed among these distances:
8 51 0.62
9 20 0.24
10 1 0.01
11 5 0.06
12 3 0.04
13 2 0.02
ACGTcount: A:0.01, C:0.01, G:0.81, T:0.18
Consensus pattern (8 bp):
GGGGGGGT
Found at i:3836 original size:12 final size:12
Alignment explanation
Indices: 3819--3928 Score: 78
Period size: 12 Copynumber: 8.8 Consensus size: 12
3809 TTAGTTTGTA
3819 GGGGGGGTGGGG
1 GGGGGGGTGGGG
*
3831 GGGGGGGGGGGG
1 GGGGGGGTGGGG
3843 CGGGTGGGGTGGGG
1 -GGG-GGGGTGGGG
*
3857 GGGTGGGT-GGG
1 GGGGGGGTGGGG
* *
3868 TGGGGGGTTGGG
1 GGGGGGGTGGGG
*
3880 TGGGGGGTGGGG
1 GGGGGGGTGGGG
** **
3892 TTGTGGATGGTGGTT
1 --G-GGGGGGTGGGG
3907 GGGGGGGTGGGG
1 GGGGGGGTGGGG
3919 GGGTGGGGTG
1 GGG-GGGGTG
3929 TTTGGGATTT
Statistics
Matches: 76, Mismatches: 15, Indels: 13
0.73 0.14 0.12
Matches are distributed among these distances:
11 9 0.12
12 39 0.51
13 13 0.17
14 8 0.11
15 7 0.09
ACGTcount: A:0.01, C:0.01, G:0.80, T:0.18
Consensus pattern (12 bp):
GGGGGGGTGGGG
Found at i:3883 original size:4 final size:4
Alignment explanation
Indices: 3823--3925 Score: 58
Period size: 4 Copynumber: 26.8 Consensus size: 4
3813 TTTGTAGGGG
* * *
3823 GGGT GGG- GGG- GGG- GGGG GGGC GGGT GGGGT GGGG GGGT GGGT GGGT
1 GGGT GGGT GGGT GGGT GGGT GGGT GGGT -GGGT GGGT GGGT GGGT GGGT
* * * *
3869 GGG- GGGTT GGGT GGG- GGGT GGG- GTTGT GGAT -GGT GGTT GGGG GGGT
1 GGGT GGG-T GGGT GGGT GGGT GGGT G-GGT GGGT GGGT GGGT GGGT GGGT
*
3915 GGGG GGGT GGG
1 GGGT GGGT GGG
3926 GTGTTTGGGA
Statistics
Matches: 77, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
3 18 0.23
4 51 0.66
5 8 0.10
ACGTcount: A:0.01, C:0.01, G:0.80, T:0.18
Consensus pattern (4 bp):
GGGT
Found at i:3916 original size:19 final size:19
Alignment explanation
Indices: 3849--3916 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
3839 GGGGCGGGTG
3849 GGGTGGGGGGGT-G--GGT
1 GGGTGGGGGGGTGGATGGT
* * *
3865 GGGTGGGGGGTTGGGTGGG
1 GGGTGGGGGGGTGGATGGT
**
3884 GGGTGGGGTTGTGGATGGT
1 GGGTGGGGGGGTGGATGGT
*
3903 GGTTGGGGGGGTGG
1 GGGTGGGGGGGTGG
3917 GGGGGTGGGG
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
16 11 0.28
17 1 0.03
19 27 0.69
ACGTcount: A:0.01, C:0.00, G:0.75, T:0.24
Consensus pattern (19 bp):
GGGTGGGGGGGTGGATGGT
Found at i:3924 original size:27 final size:26
Alignment explanation
Indices: 3824--3925 Score: 95
Period size: 27 Copynumber: 4.0 Consensus size: 26
3814 TTGTAGGGGG
*
3824 GGTGG-GGGGGGG-GGGGGGGCGGGT
1 GGTGGTGGGGGGGTGGGGGGGTGGGT
* *
3848 GG-GGTGGGGGGGTGGGTGGGTGGGG
1 GGTGGTGGGGGGGTGGGGGGGTGGGT
** *
3873 GGTTGG-GTGGGGGGTGGGGTTGTGGAT
1 GG-TGGTG-GGGGGGTGGGGGGGTGGGT
3900 GGTGGTTGGGGGGGTGGGGGGGTGGG
1 GGTGG-TGGGGGGGTGGGGGGGTGGG
3926 GTGTTTGGGA
Statistics
Matches: 60, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
23 2 0.03
24 9 0.15
25 11 0.18
26 4 0.07
27 33 0.55
28 1 0.02
ACGTcount: A:0.01, C:0.01, G:0.79, T:0.19
Consensus pattern (26 bp):
GGTGGTGGGGGGGTGGGGGGGTGGGT
Found at i:4005 original size:18 final size:18
Alignment explanation
Indices: 3974--4016 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
3964 ACAAAAAAAA
*
3974 AAAC-CACACCACACAAC
1 AAACACACACAACACAAC
3991 AAACACACACAACACAAC
1 AAACACACACAACACAAC
4009 AAA-ACACA
1 AAACACACA
4017 ACCCCCCACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.60, C:0.40, G:0.00, T:0.00
Consensus pattern (18 bp):
AAACACACACAACACAAC
Found at i:4097 original size:33 final size:35
Alignment explanation
Indices: 4060--4124 Score: 82
Period size: 33 Copynumber: 1.9 Consensus size: 35
4050 CAACCCAAAC
*
4060 ACCCC-CACGCCACACAAC-CCAACC-AACCACACG
1 ACCCCACAC-CCACACAACGCAAACCAAACCACACG
*
4093 ACCCCACACCCCCACAACGCAAACCAAACCAC
1 ACCCCACACCCACACAACGCAAACCAAACCAC
4125 CACAACCACA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 13 0.48
34 8 0.30
35 6 0.22
ACGTcount: A:0.38, C:0.57, G:0.05, T:0.00
Consensus pattern (35 bp):
ACCCCACACCCACACAACGCAAACCAAACCACACG
Found at i:4201 original size:1 final size:1
Alignment explanation
Indices: 4197--4253 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
4187 TTGGTGGGGG
* * * * ** *
4197 TTTTTGTTTTTTTTTTGTTTTGTTTTTTTTTTTTTTGTTTTGGTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4254 GGTTGTGTTG
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (1 bp):
T
Found at i:4207 original size:6 final size:6
Alignment explanation
Indices: 4196--4304 Score: 70
Period size: 6 Copynumber: 18.0 Consensus size: 6
4186 GTTGGTGGGG
*
4196 GTTTTT GTTTTT -TTTTT G-TTTT G-TTTT -TTTTT -TTTTT GTTTTG
1 GTTTTT GTTTTT GTTTTT GTTTTT GTTTTT GTTTTT GTTTTT GTTTTT
* *
4239 GTTTTTT GTTTTT -TTGGTTGT GTTGTT GTAGTTTT GTTTTT TTTTGTT
1 G-TTTTT GTTTTT GTT--TT-T GTTTTT GT--TTTT GTTTTT GTTT-TT
4287 GTTTTT GTTGTTT -TTTTT
1 GTTTTT GTT-TTT GTTTTT
4305 ATATTTTTTT
Statistics
Matches: 85, Mismatches: 6, Indels: 25
0.73 0.05 0.22
Matches are distributed among these distances:
5 28 0.33
6 33 0.39
7 16 0.19
8 6 0.07
9 2 0.02
ACGTcount: A:0.01, C:0.00, G:0.18, T:0.81
Consensus pattern (6 bp):
GTTTTT
Found at i:4227 original size:21 final size:21
Alignment explanation
Indices: 4196--4317 Score: 88
Period size: 21 Copynumber: 5.6 Consensus size: 21
4186 GTTGGTGGGG
4196 GTTTTTGTTTTTTTTTTGTTTT
1 GTTTTT-TTTTTTTTTTGTTTT
4218 G-TTTTTTTTTTTTTTGTTTT
1 GTTTTTTTTTTTTTTTGTTTT
*
4238 GGTTTTTTGTTTTTTTGGTTGTGTT
1 -GTTTTTT-TTTTTTT--TTGTTTT
** *
4263 GTTGTAGTTTTGTTTTT-TTTT
1 GTT-TTTTTTTTTTTTTGTTTT
* *
4284 GTTGTTTTTGTTGTTTT-TTTT
1 GTT-TTTTTTTTTTTTTGTTTT
* *
4305 ATATTTTTTTTTT
1 GTTTTTTTTTTTT
4318 AACCCCCAAC
Statistics
Matches: 80, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
20 23 0.29
21 25 0.31
22 8 0.10
23 7 0.09
24 9 0.11
25 8 0.10
ACGTcount: A:0.02, C:0.00, G:0.16, T:0.81
Consensus pattern (21 bp):
GTTTTTTTTTTTTTTTGTTTT
Found at i:4228 original size:20 final size:20
Alignment explanation
Indices: 4198--4316 Score: 91
Period size: 20 Copynumber: 5.7 Consensus size: 20
4188 TGGTGGGGGT
4198 TTTTGTTTTTTTTTTGTTTTG
1 TTTT-TTTTTTTTTTGTTTTG
4219 TTTTTTTTTTTTTTGTTTTGG
1 TTTTTTTTTTTTTTGTTTT-G
* *
4240 TTTTTTGTTTTTTTG-GTTG
1 TTTTTTTTTTTTTTGTTTTG
* * **
4259 TGTTGTTGTAGTTTTGTTTT-
1 T-TTTTTTTTTTTTTGTTTTG
4279 TTTTTGTTGTTTTTGTTGTTTT-
1 TTTTT-TT-TTTTT-TTGTTTTG
4301 TTTTATATTTTTTTTT
1 TTTT-T-TTTTTTTTT
4317 TAACCCCCAA
Statistics
Matches: 80, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
19 5 0.06
20 30 0.38
21 26 0.32
22 16 0.20
23 3 0.04
ACGTcount: A:0.03, C:0.00, G:0.16, T:0.82
Consensus pattern (20 bp):
TTTTTTTTTTTTTTGTTTTG
Found at i:4311 original size:19 final size:19
Alignment explanation
Indices: 4197--4311 Score: 68
Period size: 19 Copynumber: 6.3 Consensus size: 19
4187 TTGGTGGGGG
4197 TTTTTGTT-TTTTTT-TT-
1 TTTTTGTTGTTTTTTGTTA
*
4213 GTTTTGTT-TTTTTT-TT-
1 TTTTTGTTGTTTTTTGTTA
*
4229 TTTTGTTTTGGTTTTTTGTT-
1 TTTT-TGTT-GTTTTTTGTTA
*
4249 TTTTTGGTTGTGTTGTTG-TA
1 TTTTT-GTTGT-TTTTTGTTA
* * *
4269 GTTTTGTTTTTTTTTGTTG
1 TTTTTGTTGTTTTTTGTTA
4288 TTTTTGTTGTTTTTT-TTA
1 TTTTTGTTGTTTTTTGTTA
4306 TATTTT
1 T-TTTT
4312 TTTTTTAACC
Statistics
Matches: 78, Mismatches: 12, Indels: 15
0.74 0.11 0.14
Matches are distributed among these distances:
16 18 0.23
17 3 0.04
18 8 0.10
19 32 0.41
20 17 0.22
ACGTcount: A:0.03, C:0.00, G:0.17, T:0.81
Consensus pattern (19 bp):
TTTTTGTTGTTTTTTGTTA
Found at i:4353 original size:1 final size:1
Alignment explanation
Indices: 4347--4498 Score: 106
Period size: 1 Copynumber: 152.0 Consensus size: 1
4337 CCACCCGTGG
* * ** * * *
4347 TTTTTTTTTTTATTTTTTTTTTTTTTTTTTTTTTTTTTGTTTTTAATTTTTTGTTTGTTTTTGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * ** * * * ** *
4412 TTTTTGTTTTTTTTGTGTTTTGGTTGTTTTTTTTGTTTTTTTTATTTTTGGTTATTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** * *
4477 GGTGTTTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTT
4499 GGTTATTTGT
Statistics
Matches: 115, Mismatches: 36, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 115 1.00
ACGTcount: A:0.03, C:0.00, G:0.11, T:0.86
Consensus pattern (1 bp):
T
Found at i:4415 original size:52 final size:52
Alignment explanation
Indices: 4359--4494 Score: 159
Period size: 52 Copynumber: 2.6 Consensus size: 52
4349 TTTTTTTTTA
* * *
4359 TTTTTTTTTTTTTTTTTTTTTTTTTTGTTTTTAATT-TTTTGTTTGTTTTT-G
1 TTTTTTTTTTTTTTTGTGTTTTTTTTGTTTTT-ATTGTTTTGTTTATTTTTGG
** * *
4410 TTTTTTTGTTTTTTTTGTGTTTTGGTTGTTTTTTTTGTTTTTTTTATTTTTGG
1 TTTTTTT-TTTTTTTTGTGTTTTTTTTGTTTTTATTGTTTTGTTTATTTTTGG
* *
4463 TTATTTTTTTTTTTGGTGTTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTGTGTTTTTTTTGTTTTT
4495 TTTTGGTTAT
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
51 9 0.13
52 55 0.77
53 7 0.10
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.85
Consensus pattern (52 bp):
TTTTTTTTTTTTTTTGTGTTTTTTTTGTTTTTATTGTTTTGTTTATTTTTGG
Found at i:4496 original size:10 final size:10
Alignment explanation
Indices: 4349--4552 Score: 129
Period size: 10 Copynumber: 20.1 Consensus size: 10
4339 ACCCGTGGTT
*
4349 TTTTTTTTTA
1 TTTTTTTTTG
4359 TTTTTTTTT-
1 TTTTTTTTTG
4368 TTTTTTTTT-
1 TTTTTTTTTG
*
4377 TTTTTTTTGTT
1 TTTTTTTT-TG
4388 TTTAATTTTTTG
1 TTT--TTTTTTG
*
4400 TTTGTTTTTG
1 TTTTTTTTTG
4410 --TTTTTTTG
1 TTTTTTTTTG
4418 -TTTTTTTTG
1 TTTTTTTTTG
**
4427 TGTTTTGGTTG
1 T-TTTTTTTTG
4438 -TTTTTTTTG
1 TTTTTTTTTG
4447 TTTTTTTTAT-
1 TTTTTTTT-TG
4457 TTTTGGTTATTT-
1 TTTT--TT-TTTG
*
4469 TTTTTTTTGG
1 TTTTTTTTTG
4479 TGTTTTTTTTG
1 T-TTTTTTTTG
4490 TTTTTTTTTGG
1 TTTTTTTTT-G
4501 TTATTTGTTTTG
1 TT-TTT-TTTTG
* *
4513 TTGTTTGTTG
1 TTTTTTTTTG
* *
4523 -TTTTGTGTG
1 TTTTTTTTTG
*
4532 TTTTTGTTTG
1 TTTTTTTTTG
*
4542 TTTGTTTTTG
1 TTTTTTTTTG
4552 T
1 T
4553 GTTGTTTTCC
Statistics
Matches: 158, Mismatches: 18, Indels: 36
0.75 0.08 0.17
Matches are distributed among these distances:
8 7 0.04
9 39 0.25
10 59 0.37
11 25 0.16
12 17 0.11
13 11 0.07
ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:4499 original size:22 final size:22
Alignment explanation
Indices: 4471--4560 Score: 74
Period size: 22 Copynumber: 3.8 Consensus size: 22
4461 GGTTATTTTT
4471 TTTTTTGGTGTTTTTTTTGTTT
1 TTTTTTGGTGTTTTTTTTGTTT
*
4493 TTTTTTGGTTATTTGTTTTGTTGTTT
1 TTTTTTGG-T-GTT-TTTT-TTGTTT
4519 GTTGTTTTGTGTGTTTTTGTTTGTTT
1 -TT-TTTTG-GTGTTTTT-TTTGTTT
* *
4545 GTTTTT-GTGTTGTTTT
1 TTTTTTGGTGTTTTTTT
4561 CCAACCCCCC
Statistics
Matches: 56, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
21 2 0.04
22 15 0.27
23 1 0.02
24 6 0.11
25 5 0.09
26 15 0.27
27 5 0.09
28 6 0.11
29 1 0.02
ACGTcount: A:0.01, C:0.00, G:0.22, T:0.77
Consensus pattern (22 bp):
TTTTTTGGTGTTTTTTTTGTTT
Found at i:4507 original size:18 final size:18
Alignment explanation
Indices: 4348--4550 Score: 113
Period size: 18 Copynumber: 11.3 Consensus size: 18
4338 CACCCGTGGT
**
4348 TTTTTTTTTTATTTTTT-
1 TTTTTTTTTGGTTTTTTG
*
4365 TTTTTTTTT--TTTTTTT
1 TTTTTTTTTGGTTTTTTG
**
4381 TTTTGTTTTTAATTTTTTG
1 TTTT-TTTTTGGTTTTTTG
* *
4400 TTTGTTTTTGTTTTTTTG
1 TTTTTTTTTGGTTTTTTG
4418 -TTTTTTTTGTGTTTTGGTTG
1 TTTTTTTTTG-GTTTT--TTG
4438 -TTTTTTTT-G-TTTTT-
1 TTTTTTTTTGGTTTTTTG
*
4452 TTTATTTTTGGTTATTTT-
1 TTTTTTTTTGGTT-TTTTG
* *
4470 TTTTTTTGGTGTTTTTTTTG
1 TTTTTTT-TTG-GTTTTTTG
*
4490 TTTTTTTTTGGTTATTTG
1 TTTTTTTTTGGTTTTTTG
4508 TTTTGTTGTTT-GTTGTTTTG
1 TTTT-TT-TTTGGTT-TTTTG
* *
4528 TGTGTTTTT-GTTTGTTTG
1 TTTTTTTTTGGTTT-TTTG
4546 TTTTT
1 TTTTT
4551 GTGTTGTTTT
Statistics
Matches: 150, Mismatches: 18, Indels: 35
0.74 0.09 0.17
Matches are distributed among these distances:
15 15 0.10
16 5 0.03
17 27 0.18
18 50 0.33
19 24 0.16
20 29 0.19
ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82
Consensus pattern (18 bp):
TTTTTTTTTGGTTTTTTG
Found at i:4523 original size:15 final size:14
Alignment explanation
Indices: 4346--4558 Score: 95
Period size: 12 Copynumber: 16.0 Consensus size: 14
4336 CCCACCCGTG
4346 GTTTTT-TTTT-TT
1 GTTTTTGTTTTGTT
* *
4358 ATTTTT-TTTTTTT
1 GTTTTTGTTTTGTT
* * *
4371 TTTTTTTTTTTTTT
1 GTTTTTGTTTTGTT
*
4385 GTTTTTAATTTT-TT
1 GTTTTT-GTTTTGTT
*
4399 GTTTGT-TTTTGTT
1 GTTTTTGTTTTGTT
4412 -TTTTTG-TTT-TT
1 GTTTTTGTTTTGTT
*
4423 -TTTGTGTTTTGGTT
1 GTTTTTGTTTT-GTT
4437 G-TTTT-TTTTGTT
1 GTTTTTGTTTTGTT
* *
4449 TTTTTTATTTTTGGTT
1 GTTTTT-GTTTT-GTT
*
4465 ATTTTT-TTTT-TT
1 GTTTTTGTTTTGTT
* *
4477 GGTGTT-TTTT-TT
1 GTTTTTGTTTTGTT
4489 GTTTTT-TTTTG--
1 GTTTTTGTTTTGTT
4500 GTTATTTGTTTTGTT
1 GTT-TTTGTTTTGTT
4515 GTTTGTTGTTTTGTGT
1 GTTT-TTGTTTTGT-T
4531 GTTTTTG-TTTGTTT
1 GTTTTTGTTTTG-TT
*
4545 GTTTTTGTGTTGTT
1 GTTTTTGTTTTGTT
4559 TTCCAACCCC
Statistics
Matches: 163, Mismatches: 16, Indels: 42
0.74 0.07 0.19
Matches are distributed among these distances:
11 10 0.06
12 48 0.29
13 22 0.13
14 43 0.26
15 27 0.17
16 13 0.08
ACGTcount: A:0.03, C:0.00, G:0.16, T:0.81
Consensus pattern (14 bp):
GTTTTTGTTTTGTT
Found at i:4527 original size:38 final size:37
Alignment explanation
Indices: 4346--4549 Score: 133
Period size: 38 Copynumber: 5.6 Consensus size: 37
4336 CCCACCCGTG
* * *
4346 GTTTTTTTTT--TTATTT-TTTTTTTTTTTTTTTTTT
1 GTTTTTTTTTGGTTATTTGTTTTGTTTTTGTTGTTTT
* ** * *
4380 TTTTTGTTTTTAATTTTTTG-TTTGTTTTTGTTTTTTT
1 GTTTT-TTTTTGGTTATTTGTTTTGTTTTTGTTGTTTT
* *
4417 G-TTTTTTTT-GTGT-TTTG-GTTGTTTTTTTTGTTTT
1 GTTTTTTTTTGGT-TATTTGTTTTGTTTTTGTTGTTTT
*
4451 -TTTTATTTTTGGTTATTT-TTTT-TTTTGGTGTTTTTTTT
1 GTTTT-TTTTTGGTTATTTGTTTTGTTTT--TG-TTGTTTT
4489 GTTTTTTTTTGGTTATTTGTTTTGTTGTTTGTTGTTTT
1 GTTTTTTTTTGGTTATTTGTTTTGTT-TTTGTTGTTTT
* * * *
4527 GTGTGTTTTTGTTTGTTTGTTTT
1 GTTTTTTTTTGGTTATTTGTTTT
4550 TGTGTTGTTT
Statistics
Matches: 136, Mismatches: 17, Indels: 30
0.74 0.09 0.16
Matches are distributed among these distances:
34 26 0.19
35 21 0.15
36 10 0.07
37 21 0.15
38 44 0.32
39 10 0.07
40 2 0.01
41 2 0.01
ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82
Consensus pattern (37 bp):
GTTTTTTTTTGGTTATTTGTTTTGTTTTTGTTGTTTT
Found at i:4606 original size:3 final size:3
Alignment explanation
Indices: 4598--4653 Score: 62
Period size: 3 Copynumber: 18.3 Consensus size: 3
4588 CCCCCACCCC
4598 CTT CTT CTT CTT CTT CTT ACTT CTT CTT CTT CTT -TCT CTT CTAT CTT
1 CTT CTT CTT CTT CTT CTT -CTT CTT CTT CTT CTT CT-T CTT CT-T CTT
*
4645 -TT CCT CTT C
1 CTT CTT CTT C
4654 CTCTCTATCT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
2 3 0.07
3 36 0.78
4 7 0.15
ACGTcount: A:0.04, C:0.34, G:0.00, T:0.62
Consensus pattern (3 bp):
CTT
Found at i:4622 original size:16 final size:16
Alignment explanation
Indices: 4601--4644 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
4591 CCACCCCCTT
4601 CTTCTTCTTCTTCTTA
1 CTTCTTCTTCTTCTTA
*
4617 CTTCTTCTTCTTCTTT
1 CTTCTTCTTCTTCTTA
4633 C-TCTTCTATCTT
1 CTTCTTCT-TCTT
4645 TTCCTCTTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 6 0.23
16 20 0.77
ACGTcount: A:0.05, C:0.32, G:0.00, T:0.64
Consensus pattern (16 bp):
CTTCTTCTTCTTCTTA
Found at i:4779 original size:16 final size:16
Alignment explanation
Indices: 4760--4811 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 16
4750 CTCCCTCCCC
4760 CCCTCCTCCCCCTTCT
1 CCCTCCTCCCCCTTCT
*
4776 CCCT-CTCCCCCCT-T
1 CCCTCCTCCCCCTTCT
* *
4790 CCC-CCTCCCACTTCC
1 CCCTCCTCCCCCTTCT
4805 CCCTCCT
1 CCCTCCT
4812 TCTTCGCCCC
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 11 0.38
15 11 0.38
16 7 0.24
ACGTcount: A:0.02, C:0.71, G:0.00, T:0.27
Consensus pattern (16 bp):
CCCTCCTCCCCCTTCT
Found at i:4779 original size:24 final size:23
Alignment explanation
Indices: 4750--4795 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
4740 CCCCCATCAC
4750 CTCCCTC-CCCCCCTCCTCCCCCTT
1 CTCCCTCTCCCCCCT--TCCCCCTT
4774 CTCCCTCTCCCCCCTTCCCCCT
1 CTCCCTCTCCCCCCTTCCCCCT
4796 CCCACTTCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 7 0.33
25 7 0.33
ACGTcount: A:0.00, C:0.74, G:0.00, T:0.26
Consensus pattern (23 bp):
CTCCCTCTCCCCCCTTCCCCCTT
Found at i:4805 original size:13 final size:13
Alignment explanation
Indices: 4752--4810 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
4742 CCCATCACCT
4752 CCCTCCCCC--CC
1 CCCTCCCCCTTCC
*
4763 TCCTCCCCCTTCTC
1 CCCTCCCCCTTC-C
4777 CCTCTCCCCCCTTCC
1 CC-CT-CCCCCTTCC
*
4792 CCCTCCCACTTCC
1 CCCTCCCCCTTCC
4805 CCCTCC
1 CCCTCC
4811 TTCTTCGCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
11 8 0.20
13 15 0.38
14 4 0.10
15 5 0.12
16 8 0.20
ACGTcount: A:0.02, C:0.75, G:0.00, T:0.24
Consensus pattern (13 bp):
CCCTCCCCCTTCC
Found at i:4812 original size:23 final size:23
Alignment explanation
Indices: 4758--4813 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
4748 ACCTCCCTCC
4758 CCCCCTCC-TCCCCCTTCTCCCT
1 CCCCCTCCTTCCCCCTTCTCCCT
4780 CTCCCC-CCTTCCCCC-TC-CCACTT
1 C-CCCCTCCTTCCCCCTTCTCC-C-T
4803 CCCCCTCCTTC
1 CCCCCTCCTTC
4814 TTCGCCCCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
21 2 0.07
22 10 0.34
23 17 0.59
ACGTcount: A:0.02, C:0.71, G:0.00, T:0.27
Consensus pattern (23 bp):
CCCCCTCCTTCCCCCTTCTCCCT
Found at i:5318 original size:14 final size:13
Alignment explanation
Indices: 5301--5339 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 13
5291 CAGAAAGGAT
5301 AAAGAAGAAAAATG
1 AAAGAAGAAAAA-G
5315 AAAGAAAGAAAAAG
1 AAAG-AAGAAAAAG
5329 AAA-AAGAAAAA
1 AAAGAAGAAAAA
5340 AAATTTATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.33
14 8 0.33
15 8 0.33
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (13 bp):
AAAGAAGAAAAAG
Found at i:5401 original size:24 final size:26
Alignment explanation
Indices: 5361--5420 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 26
5351 TTCGTATGTA
*
5361 TATTTT-TATTTAAATATT-AT-ATT
1 TATTTTATTTTTAAATATTAATAATT
*
5384 T-TTTATATTTTTACATATTAATAATT
1 TATTT-TATTTTTAAATATTAATAATT
5410 TATTTTATTTT
1 TATTTTATTTT
5421 ATGTATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
22 3 0.10
23 2 0.07
24 10 0.33
25 2 0.07
26 10 0.33
27 3 0.10
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (26 bp):
TATTTTATTTTTAAATATTAATAATT
Found at i:5689 original size:14 final size:14
Alignment explanation
Indices: 5670--5697 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5660 ATATCTCAAT
5670 TTATATTTTGCATA
1 TTATATTTTGCATA
5684 TTATATTTTGCATA
1 TTATATTTTGCATA
5698 GCTAATCACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (14 bp):
TTATATTTTGCATA
Found at i:6334 original size:14 final size:14
Alignment explanation
Indices: 6317--6379 Score: 65
Period size: 14 Copynumber: 4.4 Consensus size: 14
6307 AATTTTAATT
*
6317 TTAAAATTTATTTA
1 TTAAAATTTATTAA
6331 TTAAATATTT-TTAA
1 TTAAA-ATTTATTAA
* *
6345 ATAAATTTTATTAA
1 TTAAAATTTATTAA
*
6359 TTATAATTTATTTAA
1 TTAAAATTTA-TTAA
6374 TTAAAA
1 TTAAAA
6380 ATTTTATAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
13 3 0.08
14 23 0.59
15 13 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTAAAATTTATTAA
Found at i:6354 original size:28 final size:29
Alignment explanation
Indices: 6318--6379 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
6308 ATTTTAATTT
*
6318 TAAAATTTATTTATTA-AATATT-TTTAAA
1 TAAAATTTATTAATTATAAT-TTATTTAAA
* *
6346 TAAATTTTATTAATTATAATTTATTTAAT
1 TAAAATTTATTAATTATAATTTATTTAAA
6375 TAAAA
1 TAAAA
6380 ATTTTATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
28 16 0.57
29 12 0.43
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
TAAAATTTATTAATTATAATTTATTTAAA
Found at i:6520 original size:18 final size:17
Alignment explanation
Indices: 6484--6524 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
6474 TGTTGTTTTA
*
6484 TTTTTTTCTTGCAGTTT
1 TTTTTTTCTTGCAATTT
*
6501 TTTTTTTCTTTCAATCTT
1 TTTTTTTCTTGCAAT-TT
6519 TTTTTT
1 TTTTTT
6525 GTAGTTCAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.07, C:0.12, G:0.05, T:0.76
Consensus pattern (17 bp):
TTTTTTTCTTGCAATTT
Found at i:6747 original size:13 final size:12
Alignment explanation
Indices: 6725--6766 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
6715 ATATTTTAAC
6725 TATTTTTTATAA
1 TATTTTTTATAA
*
6737 TATTCTTTTATAT
1 TATT-TTTTATAA
6750 TATTTTTATATAA
1 TATTTTT-TATAA
6763 -ATTT
1 TATTT
6767 ATATAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (12 bp):
TATTTTTTATAA
Found at i:8117 original size:25 final size:25
Alignment explanation
Indices: 8072--8140 Score: 63
Period size: 25 Copynumber: 2.7 Consensus size: 25
8062 TATTTTTATA
* *
8072 AATTT-TTTTATATAT-TAATACTTT
1 AATTTATTTTATGTATATAATAC-AT
8096 AATTTATTTTATGTATAT-ATACAT
1 AATTTATTTTATGTATATAATACAT
8120 ATATTTATATTATATGTATAT
1 A-ATTTAT-TT-TATGTATAT
8141 TATTTTCATG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
24 7 0.18
25 19 0.50
26 3 0.08
27 9 0.24
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (25 bp):
AATTTATTTTATGTATATAATACAT
Found at i:8415 original size:15 final size:16
Alignment explanation
Indices: 8379--8418 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
8369 TTTAATATTT
*
8379 ATAAAATTTTTAATTAA
1 ATAAAA-TTATAATTAA
8396 ATAAAATTATAATT-A
1 ATAAAATTATAATTAA
8411 ATAAAATT
1 ATAAAATT
8419 TATTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
16 7 0.32
17 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAAAATTATAATTAA
Found at i:8421 original size:16 final size:17
Alignment explanation
Indices: 8379--8421 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
8369 TTTAATATTT
*
8379 ATAAAATTTTTAATTAA
1 ATAAAATTTATAATTAA
8396 ATAAAA-TTATAATT-A
1 ATAAAATTTATAATTAA
8411 ATAAAATTTAT
1 ATAAAATTTAT
8422 TTAAAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 7 0.29
16 11 0.46
17 6 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAAAATTTATAATTAA
Found at i:8562 original size:26 final size:25
Alignment explanation
Indices: 8501--8564 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 25
8491 AAATTGAGAT
* *
8501 ATAATACAAATATAATATTAAAAAA
1 ATAATATAAATATAATATGAAAAAA
8526 ATAAT-TAAA-ATAAATATGACACAAAA
1 ATAATATAAATAT-AATATGA-A-AAAA
8552 ATAATATAAATAT
1 ATAATATAAATAT
8565 GATAAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
23 2 0.06
24 9 0.28
25 6 0.19
26 9 0.28
27 4 0.12
28 2 0.06
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.28
Consensus pattern (25 bp):
ATAATATAAATATAATATGAAAAAA
Found at i:8937 original size:23 final size:24
Alignment explanation
Indices: 8896--8955 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 24
8886 TGAACACAAC
*
8896 ATAAAAAATAATTAAAAATATAGT
1 ATAAAAAATAAGTAAAAATATAGT
*
8920 ATAAAAAAT-AGTATAAATATA--
1 ATAAAAAATAAGTAAAAATATAGT
*
8941 AT-ACAAATAAGTAAA
1 ATAAAAAATAAGTAAA
8956 CTTACCAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
20 5 0.16
21 7 0.23
23 10 0.32
24 9 0.29
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.27
Consensus pattern (24 bp):
ATAAAAAATAAGTAAAAATATAGT
Found at i:9417 original size:25 final size:23
Alignment explanation
Indices: 9413--9467 Score: 51
Period size: 23 Copynumber: 2.4 Consensus size: 23
9403 ATTTTTTTAC
*
9413 ATATTAATAATTT-ATTTTATTTT
1 ATATT-ATATTTTTATTTTATTTT
*
9436 ATA-TATATTTTTATGTATATTTT
1 ATATTATATTTTTAT-TTTATTTT
*
9459 ATTTTATAT
1 ATATTATAT
9468 ATGGGAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 6 0.23
22 3 0.12
23 12 0.46
24 5 0.19
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
ATATTATATTTTTATTTTATTTT
Found at i:9444 original size:16 final size:16
Alignment explanation
Indices: 9425--9469 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
9415 ATTAATAATT
9425 TATTTTATTTTATATA
1 TATTTTATTTTATATA
*
9441 TA---T-TTTTATGTA
1 TATTTTATTTTATATA
9453 TATTTTATTTTATATA
1 TATTTTATTTTATATA
9469 T
1 T
9470 GGGAGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 8
0.70 0.06 0.24
Matches are distributed among these distances:
12 10 0.43
13 1 0.04
15 1 0.04
16 11 0.48
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
TATTTTATTTTATATA
Found at i:9551 original size:19 final size:19
Alignment explanation
Indices: 9527--9587 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
9517 ATTAAACATA
9527 TTATAAATTTATGTAATAT
1 TTATAAATTTATGTAATAT
* *
9546 TTATAAATATT-TTTTATAT
1 TTATAAAT-TTATGTAATAT
* * *
9565 TTGTATATTTATGTCATAT
1 TTATAAATTTATGTAATAT
9584 TTAT
1 TTAT
9588 TTTTTTGTAT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
18 2 0.06
19 29 0.88
20 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (19 bp):
TTATAAATTTATGTAATAT
Found at i:10572 original size:3 final size:3
Alignment explanation
Indices: 10564--10599 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
10554 CTTTACTAGA
10564 ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
10600 ACTTGTTCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:13090 original size:2 final size:2
Alignment explanation
Indices: 13083--13119 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
13073 GATTTTCAAA
*
13083 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13120 AATAAAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:13553 original size:24 final size:22
Alignment explanation
Indices: 13499--13553 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 22
13489 ATTTCATATT
**
13499 TTTTTTCTTTCTTTTTCCTTCA
1 TTTTTTCTTTCTTTTTCCTAAA
13521 TCTTCTTTCTTTCTTTTTTACCTAAA
1 T-TT-TTTCTTTC-TTTTT-CCTAAA
13547 TTTTTTC
1 TTTTTTC
13554 AACCCATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 1 0.04
23 2 0.07
24 12 0.44
25 7 0.26
26 5 0.19
ACGTcount: A:0.09, C:0.22, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTTTCTTTCTTTTTCCTAAA
Found at i:14822 original size:32 final size:32
Alignment explanation
Indices: 14767--15336 Score: 899
Period size: 32 Copynumber: 17.8 Consensus size: 32
14757 AAAATGGTGA
* * *
14767 TTTGAAAAGGGTTGCCACTGACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
14799 TTTTAAATGGATTGCCACCGACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * * *
14831 TTTTAAATGGGTTGCCACCAACTTCTGGGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
**
14863 TTTGAAAAAGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
14895 TTTGAAATGGGTTGCCACCTACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
14927 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
14959 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
14991 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
15023 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
15055 TTCGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
15087 TTTGAAATAGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
15119 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
15151 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
15183 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
15215 TTTGAAATGGGTTGCCACCAACTTGTGTGGGA
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
15247 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
15279 TTCGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
15311 TTTGAAATGGG-TGCCACAGAGTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
15337 GATTTAAAAG
Statistics
Matches: 499, Mismatches: 39, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
31 13 0.03
32 486 0.97
ACGTcount: A:0.16, C:0.19, G:0.34, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:15354 original size:27 final size:27
Alignment explanation
Indices: 15319--16219 Score: 1466
Period size: 27 Copynumber: 33.0 Consensus size: 27
15309 GCTTTGAAAT
* *
15319 GGGTGCCACAGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
**
15346 GGACGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
15373 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
15400 GGGTGCCACAGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
15427 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
15455 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
15482 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
15510 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
15537 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
15564 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
15592 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
*
15620 GGGTGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
15647 GGGTGCCACGGAGTTGTGGTA-TTAAAA
1 GGGTGCCACGGAGTTGTGG-ACTTAAAA
* *
15674 GGAATGCCACAGAGTTGTGGACTTAAAA
1 GG-GTGCCACGGAGTTGTGGACTTAAAA
15702 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
15729 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
15756 GGGTGCCACGGAGTTGT-GATCTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-C-TTAAAA
15784 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
15811 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
15838 GGGTGCCACGGAGTTGTGGACTT-AAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
15864 GGGTGCCACGGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
15891 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
15919 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
15946 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
15973 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
16000 GGGTGCCACGGAGTTGTGGTCTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
16028 GGGTGTCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
16055 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
16082 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
16109 AGGTGCCATGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
16136 AGGTGCCACAGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
16163 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
16191 GGGTGCCACAGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
16219 G
1 G
16220 AAAATGTGAA
Statistics
Matches: 820, Mismatches: 41, Indels: 25
0.93 0.05 0.03
Matches are distributed among these distances:
26 27 0.03
27 557 0.68
28 234 0.29
29 2 0.00
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:15535 original size:82 final size:81
Alignment explanation
Indices: 15319--16219 Score: 1466
Period size: 82 Copynumber: 11.0 Consensus size: 81
15309 GCTTTGAAAT
* * **
15319 GGGTGCCACAGAGTTGTGGATTTAAAAGGACGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
15384 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
* * *
15400 GGGTGCCACAGAGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
15465 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
15482 GAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
15547 GAGTTGTGGTCTTAAAA
65 GAGTTGTGGACTTAAAA
15564 GGGATGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
*
15629 GAAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
* *
15647 GGGTGCCACGGAGTTGTGGTA-TTAAAAGGAATGCCACAGAGTTGTGGACTTAAAAGGGTGCCAC
1 GGGTGCCACGGAGTTGTGG-ACTTAAAAGG-GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
15711 GGAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
15729 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGT-GATCTTTAAAAGGGTGCCAC
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA-C-TTAAAAGGGTGCCAC
15793 GGAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
15811 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
15875 AGTTGTGGACTAAAAA
66 AGTTGTGGACTTAAAA
*
15891 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
15956 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
15973 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTTAAAAGGGTGTCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
16038 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
16055 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCATGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
16120 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
* * * *
16136 AGGTGCCACAGAGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
16201 GAGTTGTGGACTTTAAAA
65 GAGTTGTGGAC-TTAAAA
16219 G
1 G
16220 AAAATGTGAA
Statistics
Matches: 768, Mismatches: 37, Indels: 28
0.92 0.04 0.03
Matches are distributed among these distances:
80 52 0.07
81 190 0.25
82 422 0.55
83 104 0.14
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (81 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAA
Found at i:15791 original size:109 final size:108
Alignment explanation
Indices: 15319--16219 Score: 1466
Period size: 109 Copynumber: 8.3 Consensus size: 108
15309 GCTTTGAAAT
* * **
15319 GGGTGCCACAGAGTTGTGGATTTAAAAGGACGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* *
15384 AGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTAAAAA
66 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
15427 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCAC
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCAC
*
15492 GGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
15537 GGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGATGCCAC
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGG-TGCCAC
*
15602 GGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
15647 GGGTGCCACGGAGTTGTGGTA-TTAAAAGGAATGCCACAGAGTTGTGGACTTAAAAGGGTGCCAC
1 GGGTGCCACGGAGTTGTGG-ACTTAAAAGG-GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
15711 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
15756 GGGTGCCACGGAGTTGT-GATCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
1 GGGTGCCACGGAGTTGTGGA-C-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
15820 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAA
64 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
15864 GGGTGCCACGGAGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
15929 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
15973 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTTAAAAGGGTGTCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
16038 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * * *
16082 GGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCATGGAGTTGTGGACTTAAAAAGGTGCCACAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
16147 AGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAA
66 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAA
*
16191 GGGTGCCACAGAGTTGTGGACTTTAAAAG
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAG
16220 AAAATGTGAA
Statistics
Matches: 744, Mismatches: 35, Indels: 26
0.92 0.04 0.03
Matches are distributed among these distances:
107 27 0.04
108 146 0.20
109 362 0.49
110 209 0.28
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (108 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:16275 original size:30 final size:31
Alignment explanation
Indices: 16239--16296 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
16229 ACTTAAAAGG
*
16239 ATGCCACGGAGTTGTGGACTTT-AAAAGAAA
1 ATGCCACGGAGTCGTGGACTTTGAAAAGAAA
*
16269 ATGCCACTGAGTCGTGGACTTTGAAAAG
1 ATGCCACGGAGTCGTGGACTTTGAAAAG
16297 GTCACAGTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.24
Consensus pattern (31 bp):
ATGCCACGGAGTCGTGGACTTTGAAAAGAAA
Found at i:23680 original size:2 final size:2
Alignment explanation
Indices: 23673--23713 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
23663 AGATTTTCAA
*
23673 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23714 AATAAAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Done.