Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009122.1 Hibiscus syriacus cultivar Beakdansim tig00112612_pilon, 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: 94956
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Found at i:680 original size:23 final size:23
Alignment explanation
Indices: 654--697 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
644 GAAATGGTTT
*
654 ATAATGATGCCT-TGATGTATATG
1 ATAATCATGCCTATGAT-TATATG
677 ATAATCATGCCTATGATTATA
1 ATAATCATGCCTATGATTATA
698 AAACTATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (23 bp):
ATAATCATGCCTATGATTATATG
Found at i:2066 original size:15 final size:17
Alignment explanation
Indices: 2046--2083 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
2036 TTACTGTAAA
2046 TTTTTTC-TTTT-TGCT
1 TTTTTTCTTTTTGTGCT
2061 TTTTTTCTTTTTGTGCT
1 TTTTTTCTTTTTGTGCT
2078 TTTTTT
1 TTTTTT
2084 TTGAACTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.33
16 4 0.19
17 10 0.48
ACGTcount: A:0.00, C:0.11, G:0.08, T:0.82
Consensus pattern (17 bp):
TTTTTTCTTTTTGTGCT
Found at i:2491 original size:25 final size:25
Alignment explanation
Indices: 2463--2512 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
2453 TTGATGTGTT
*
2463 GTTGTAAGAAAAATAATGGAAGATG
1 GTTGAAAGAAAAATAATGGAAGATG
**
2488 GTTGAAAGAATGATAATGGAAGATG
1 GTTGAAAGAAAAATAATGGAAGATG
2513 ATAAAGAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.30, T:0.24
Consensus pattern (25 bp):
GTTGAAAGAAAAATAATGGAAGATG
Found at i:9919 original size:20 final size:20
Alignment explanation
Indices: 9891--9940 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
9881 AGAATGAGGG
*
9891 TGAAGGGACAAGTTGGTTAA
1 TGAATGGACAAGTTGGTTAA
*
9911 TGAATGGACAAGTTGGTTCA
1 TGAATGGACAAGTTGGTTAA
9931 TGAATGGACA
1 TGAATGGACA
9941 TGTGATATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.34, C:0.08, G:0.32, T:0.26
Consensus pattern (20 bp):
TGAATGGACAAGTTGGTTAA
Found at i:12081 original size:12 final size:12
Alignment explanation
Indices: 12055--12088 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
12045 AGGATGCTTC
12055 AATGGTGAT-GA
1 AATGGTGATGGA
*
12066 AATGGTAATGGA
1 AATGGTGATGGA
12078 AATGGTGATGG
1 AATGGTGATGG
12089 TGTAGGCGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.35, C:0.00, G:0.38, T:0.26
Consensus pattern (12 bp):
AATGGTGATGGA
Found at i:14599 original size:24 final size:24
Alignment explanation
Indices: 14572--14628 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
14562 AGTGCTTTAG
**
14572 GTTCTTTTGTTTTTCCTTTTTATT
1 GTTCTTTTGAATTTCCTTTTTATT
14596 GTTCTTTTGAATTTCCTTTTTATT
1 GTTCTTTTGAATTTCCTTTTTATT
14620 GTTCTTTTG
1 GTTCTTTTG
14629 CATTATCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.07, C:0.12, G:0.11, T:0.70
Consensus pattern (24 bp):
GTTCTTTTGAATTTCCTTTTTATT
Found at i:16884 original size:24 final size:23
Alignment explanation
Indices: 16857--16904 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
16847 TTGAATGATC
* *
16857 ATGTTCCTTGGCATCCCAAAAATT
1 ATGTTCATTGG-ATCACAAAAATT
*
16881 ATGTTCATTGGATCATAAAAATT
1 ATGTTCATTGGATCACAAAAATT
16904 A
1 A
16905 ACAACTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (23 bp):
ATGTTCATTGGATCACAAAAATT
Found at i:18379 original size:19 final size:21
Alignment explanation
Indices: 18355--18406 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
18345 CAGCCAAGAG
*
18355 CATGTATCTTCA-TTAAAA-T
1 CATGTATTTTCATTTAAAAGT
18374 CATGTATTTTCATTTAAAAGT
1 CATGTATTTTCATTTAAAAGT
18395 CATGTATTTTCA
1 CATGTATTTTCA
18407 AAGGGGTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 6 0.20
21 13 0.43
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAGT
Found at i:24014 original size:13 final size:13
Alignment explanation
Indices: 23992--24021 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
23982 ACTAAACACC
23992 TTTC-ACATACCT
1 TTTCAACATACCT
24004 TTTCAACATACCT
1 TTTCAACATACCT
24017 TTTCA
1 TTTCA
24022 TCTTTGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTCAACATACCT
Found at i:26721 original size:14 final size:14
Alignment explanation
Indices: 26702--26734 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
26692 GTGCTTCCAA
26702 CTTTTCTTTCTT-TT
1 CTTTTCTTT-TTCTT
26716 CTTTTCTTTTTCTT
1 CTTTTCTTTTTCTT
26730 CTTTT
1 CTTTT
26735 TGAGTGCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 16 0.89
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
CTTTTCTTTTTCTT
Found at i:38467 original size:14 final size:13
Alignment explanation
Indices: 38439--38512 Score: 82
Period size: 14 Copynumber: 5.7 Consensus size: 13
38429 CTTGGCTTGC
*
38439 TTTCTTTTTTACT
1 TTTCTTTTTTTCT
38452 TTTCTTATTTTTCT
1 TTTCTT-TTTTTCT
38466 TTTCTTTTTTTCT
1 TTTCTTTTTTTCT
38479 GATTT-TTTTTTTCT
1 --TTTCTTTTTTTCT
*
38493 TTT-TGTTTTT-T
1 TTTCTTTTTTTCT
38504 TTTCTTTTT
1 TTTCTTTTT
38513 GTACTCAATT
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
11 4 0.07
12 13 0.24
13 13 0.24
14 21 0.39
15 3 0.06
ACGTcount: A:0.04, C:0.11, G:0.03, T:0.82
Consensus pattern (13 bp):
TTTCTTTTTTTCT
Found at i:38467 original size:22 final size:21
Alignment explanation
Indices: 38439--38506 Score: 65
Period size: 22 Copynumber: 3.4 Consensus size: 21
38429 CTTGGCTTGC
*
38439 TTTCTTTTTTACTTTTCTTATT
1 TTTCTTTTTT-CTTTTCTGATT
*
38461 TTTCTTTTCTTTTTTTCTGA-T
1 TTTCTTTT-TTCTTTTCTGATT
38482 TTT-TTTTTTCTTTT-TG-TT
1 TTTCTTTTTTCTTTTCTGATT
38500 TTT-TTTT
1 TTTCTTTT
38507 CTTTTTGTAC
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
18 10 0.24
19 6 0.15
20 4 0.10
21 4 0.10
22 15 0.37
23 2 0.05
ACGTcount: A:0.04, C:0.10, G:0.03, T:0.82
Consensus pattern (21 bp):
TTTCTTTTTTCTTTTCTGATT
Found at i:38501 original size:16 final size:16
Alignment explanation
Indices: 38482--38514 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
38472 TTTTTCTGAT
38482 TTTTTTTTTCTTTTTG
1 TTTTTTTTTCTTTTTG
38498 TTTTTTTTTCTTTTTG
1 TTTTTTTTTCTTTTTG
38514 T
1 T
38515 ACTCAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.88
Consensus pattern (16 bp):
TTTTTTTTTCTTTTTG
Found at i:38511 original size:22 final size:23
Alignment explanation
Indices: 38451--38512 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 23
38441 TCTTTTTTAC
*
38451 TTTTCTTATTTTTC-TTTTCTTT
1 TTTTCTGATTTTTCTTTTTCTTT
38473 TTTTCTGATTTTT-TTTTTCTTT
1 TTTTCTGATTTTTCTTTTTCTTT
*
38495 TTGTT-T-TTTTTTCTTTTT
1 TT-TTCTGATTTTTCTTTTT
38513 GTACTCAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 5 0.14
22 28 0.80
23 2 0.06
ACGTcount: A:0.03, C:0.10, G:0.03, T:0.84
Consensus pattern (23 bp):
TTTTCTGATTTTTCTTTTTCTTT
Found at i:39750 original size:18 final size:18
Alignment explanation
Indices: 39688--39750 Score: 69
Period size: 17 Copynumber: 3.6 Consensus size: 18
39678 ATTGGCTTGC
39688 TTTCTTTTT-TACTTTTCT
1 TTTCTTTTTGT-CTTTTCT
* **
39706 TTT-TTTCTGAATTTT-T
1 TTTCTTTTTGTCTTTTCT
39722 TTTCTTTTTGTCTTTTCT
1 TTTCTTTTTGTCTTTTCT
39740 TTTCTTTTTGT
1 TTTCTTTTTGT
39751 ACTCAATTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
16 4 0.11
17 17 0.47
18 15 0.42
ACGTcount: A:0.05, C:0.13, G:0.05, T:0.78
Consensus pattern (18 bp):
TTTCTTTTTGTCTTTTCT
Found at i:40986 original size:18 final size:18
Alignment explanation
Indices: 40924--40986 Score: 69
Period size: 17 Copynumber: 3.6 Consensus size: 18
40914 ATTGGCTTGC
40924 TTTCTTTTT-TACTTTTCT
1 TTTCTTTTTGT-CTTTTCT
* **
40942 TTT-TTTCTGAATTTT-T
1 TTTCTTTTTGTCTTTTCT
40958 TTTCTTTTTGTCTTTTCT
1 TTTCTTTTTGTCTTTTCT
40976 TTTCTTTTTGT
1 TTTCTTTTTGT
40987 ACTCAATTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
16 4 0.11
17 17 0.47
18 15 0.42
ACGTcount: A:0.05, C:0.13, G:0.05, T:0.78
Consensus pattern (18 bp):
TTTCTTTTTGTCTTTTCT
Found at i:42185 original size:22 final size:21
Alignment explanation
Indices: 42160--42234 Score: 70
Period size: 18 Copynumber: 3.7 Consensus size: 21
42150 CTTGGCTTGA
*
42160 TTTCTTTTTTACTTTTCTTATT
1 TTTCTTTTTT-CTTTTCTGATT
*
42182 TTTCTTTTCTTTTTTTCTGA-T
1 TTTCTTTT-TTCTTTTCTGATT
*
42203 TTT-TTTTTTCTTTT-TG-TC
1 TTTCTTTTTTCTTTTCTGATT
42221 TTT-TTTTTTCTTTT
1 TTTCTTTTTTCTTTT
42235 TGTACTCAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
18 16 0.34
19 6 0.13
20 4 0.09
21 4 0.09
22 15 0.32
23 2 0.04
ACGTcount: A:0.04, C:0.12, G:0.03, T:0.81
Consensus pattern (21 bp):
TTTCTTTTTTCTTTTCTGATT
Found at i:42188 original size:14 final size:13
Alignment explanation
Indices: 42160--42235 Score: 77
Period size: 14 Copynumber: 5.7 Consensus size: 13
42150 CTTGGCTTGA
*
42160 TTTCTTTTTTACT
1 TTTCTTTTTTTCT
42173 TTTCTTATTTTTCT
1 TTTCTT-TTTTTCT
42187 TTTCTTTTTTTCT
1 TTTCTTTTTTTCT
42200 GATTT-TTTTTTTCT
1 --TTTCTTTTTTTCT
42214 TTT-TGTCTTTTT-T
1 TTTCT-T-TTTTTCT
42227 TTTCTTTTT
1 TTTCTTTTT
42236 GTACTCAATT
Statistics
Matches: 56, Mismatches: 1, Indels: 13
0.80 0.01 0.19
Matches are distributed among these distances:
12 7 0.12
13 19 0.34
14 27 0.48
15 3 0.05
ACGTcount: A:0.04, C:0.12, G:0.03, T:0.82
Consensus pattern (13 bp):
TTTCTTTTTTTCT
Found at i:42224 original size:18 final size:18
Alignment explanation
Indices: 42172--42237 Score: 73
Period size: 18 Copynumber: 3.7 Consensus size: 18
42162 TCTTTTTTAC
* *
42172 TTTTCTTATTTTTCTTTTC
1 TTTTCTT-TTTGTCTTTTT
*
42191 TTTT-TTTCTGAT-TTTTT
1 TTTTCTTTTTG-TCTTTTT
42208 TTTTCTTTTTGTCTTTTT
1 TTTTCTTTTTGTCTTTTT
42226 TTTTCTTTTTGT
1 TTTTCTTTTTGT
42238 ACTCAATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
17 11 0.28
18 25 0.62
19 4 0.10
ACGTcount: A:0.03, C:0.11, G:0.05, T:0.82
Consensus pattern (18 bp):
TTTTCTTTTTGTCTTTTT
Found at i:43472 original size:18 final size:18
Alignment explanation
Indices: 43410--43472 Score: 69
Period size: 17 Copynumber: 3.6 Consensus size: 18
43400 ATTGGCTTGC
43410 TTTCTTTTT-TACTTTTCT
1 TTTCTTTTTGT-CTTTTCT
* **
43428 TTT-TTTCTGAATTTT-T
1 TTTCTTTTTGTCTTTTCT
43444 TTTCTTTTTGTCTTTTCT
1 TTTCTTTTTGTCTTTTCT
43462 TTTCTTTTTGT
1 TTTCTTTTTGT
43473 ACTCAATTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
16 4 0.11
17 17 0.47
18 15 0.42
ACGTcount: A:0.05, C:0.13, G:0.05, T:0.78
Consensus pattern (18 bp):
TTTCTTTTTGTCTTTTCT
Found at i:44681 original size:14 final size:15
Alignment explanation
Indices: 44644--44681 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
44634 CCTTGGCTTG
44644 CTTTCTTTTTACTTTT
1 CTTT-TTTTTACTTTT
*
44660 CTTATTTTT-CTTTT
1 CTTTTTTTTACTTTT
44674 CTTTTTTT
1 CTTTTTTT
44682 CTGAATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 5 0.25
16 3 0.15
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (15 bp):
CTTTTTTTTACTTTT
Found at i:44690 original size:22 final size:22
Alignment explanation
Indices: 44656--44697 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
44646 TTCTTTTTAC
* *
44656 TTTTCTTATTTTTCTTTTCTTT
1 TTTTCTGAATTTTCTTTTCTTT
*
44678 TTTTCTGAATTTTTTTTTCT
1 TTTTCTGAATTTTCTTTTCT
44698 GTTTGTACTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.07, C:0.12, G:0.02, T:0.79
Consensus pattern (22 bp):
TTTTCTGAATTTTCTTTTCTTT
Found at i:44711 original size:23 final size:23
Alignment explanation
Indices: 44663--44713 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
44653 TACTTTTCTT
* * *
44663 ATTTTTCTTTTCTTTTTTTCTGA
1 ATTTTTCTTTTCTTTTGTACTCA
44686 ATTTTT-TTTTCTGTTTGTACTCA
1 ATTTTTCTTTTCT-TTTGTACTCA
44709 ATTTT
1 ATTTT
44714 GTTGAAGGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.12, C:0.12, G:0.06, T:0.71
Consensus pattern (23 bp):
ATTTTTCTTTTCTTTTGTACTCA
Found at i:45922 original size:21 final size:23
Alignment explanation
Indices: 45889--45934 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
45879 TCTTTTTTAC
*
45889 TTTTCTTATA-TTTCTTTTCTTT
1 TTTTCTGATATTTTCTTTTCTTT
*
45911 TTTTCTGA-ATTTTTTTTTCTTT
1 TTTTCTGATATTTTCTTTTCTTT
45933 TT
1 TT
45935 GTACTCAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.78
Consensus pattern (23 bp):
TTTTCTGATATTTTCTTTTCTTT
Found at i:45944 original size:23 final size:22
Alignment explanation
Indices: 45903--45946 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
45893 CTTATATTTC
* *
45903 TTTTCTTTTTTTCTGAATTTTT
1 TTTTCTTTTTTACTCAATTTTT
45925 TTTTCTTTTTGTACTCAATTTT
1 TTTTCTTTTT-TACTCAATTTT
45947 GTTGAAGGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.11, C:0.11, G:0.05, T:0.73
Consensus pattern (22 bp):
TTTTCTTTTTTACTCAATTTTT
Found at i:45946 original size:22 final size:21
Alignment explanation
Indices: 45898--45946 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
45888 CTTTTCTTAT
* * *
45898 ATTTCTTTTCTTTTTTTCTGA
1 ATTTTTTTTCTTTTTTACTCA
45919 ATTTTTTTTTCTTTTTGTACTCA
1 A-TTTTTTTTCTTTTT-TACTCA
45942 ATTTT
1 ATTTT
45947 GTTGAAGGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 17 0.74
23 5 0.22
ACGTcount: A:0.12, C:0.12, G:0.04, T:0.71
Consensus pattern (21 bp):
ATTTTTTTTCTTTTTTACTCA
Found at i:47177 original size:23 final size:23
Alignment explanation
Indices: 47129--47179 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
47119 TACTTTTCTT
* *
47129 ATTTTTCTTTTATTTTTTTCTGA
1 ATTTTTCTTTTATTTTTTACTCA
*
47152 ATTTTT-TTTTCTTTTTGTACTCA
1 ATTTTTCTTTTATTTTT-TACTCA
47175 ATTTT
1 ATTTT
47180 GTTGAAGGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.14, C:0.10, G:0.04, T:0.73
Consensus pattern (23 bp):
ATTTTTCTTTTATTTTTTACTCA
Found at i:48413 original size:23 final size:23
Alignment explanation
Indices: 48369--48413 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
48359 CTTATATTTC
* *
48369 TTTTCTTTTTTTCTGAATTTTTT
1 TTTTCTTTTTTACTCAATTTTTT
48392 TTTTCTTTTTGTACTCAATTTT
1 TTTTCTTTTT-TACTCAATTTT
48414 GTTGAAGGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.11, C:0.11, G:0.04, T:0.73
Consensus pattern (23 bp):
TTTTCTTTTTTACTCAATTTTTT
Found at i:49640 original size:23 final size:23
Alignment explanation
Indices: 49592--49642 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
49582 TACTTTTCTT
* *
49592 ATTTTTCTTTTATTTTTTTCTGA
1 ATTTTTCTTTTATTTTTTACTCA
*
49615 ATTTTT-TTTTCTTTTTGTACTCA
1 ATTTTTCTTTTATTTTT-TACTCA
49638 ATTTT
1 ATTTT
49643 GTTGAAGGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.14, C:0.10, G:0.04, T:0.73
Consensus pattern (23 bp):
ATTTTTCTTTTATTTTTTACTCA
Found at i:50817 original size:8 final size:8
Alignment explanation
Indices: 50804--50877 Score: 55
Period size: 8 Copynumber: 9.1 Consensus size: 8
50794 CTTGGCTTAC
50804 TTTCTTTT
1 TTTCTTTT
50812 TTTCTTTT
1 TTTCTTTT
*
50820 CTTATTTTTCT
1 -TT-TCTTT-T
50831 TTTCTTTT
1 TTTCTTTT
*
50839 TTTC--TG
1 TTTCTTTT
*
50845 ATT-TTTT
1 TTTCTTTT
50852 TTTCTTTT
1 TTTCTTTT
*
50860 TGTCTTTTT
1 TTTC-TTTT
50869 TTTCTTTT
1 TTTCTTTT
50877 T
1 T
50878 GTACTCAATT
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
6 3 0.06
7 3 0.06
8 25 0.49
9 13 0.25
10 6 0.12
11 1 0.02
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (8 bp):
TTTCTTTT
Found at i:50823 original size:21 final size:20
Alignment explanation
Indices: 50799--50871 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 20
50789 CTTTCCTTGG
50799 CTTACTTTCTTTTTTTCTTTT
1 CTTACTTT-TTTTTTTCTTTT
*
50820 CTTA-TTTTTCTTTTCTTTT
1 CTTACTTTTTTTTTTCTTTT
*
50839 -TTTCTGATTTTTTTTTCTTTT
1 CTTACT--TTTTTTTTTCTTTT
50860 -TGT-CTTTTTTTT
1 CT-TACTTTTTTTT
50872 CTTTTTGTAC
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
18 2 0.04
19 19 0.42
20 3 0.07
21 20 0.44
22 1 0.02
ACGTcount: A:0.04, C:0.14, G:0.03, T:0.79
Consensus pattern (20 bp):
CTTACTTTTTTTTTTCTTTT
Found at i:50829 original size:14 final size:13
Alignment explanation
Indices: 50804--50877 Score: 82
Period size: 13 Copynumber: 5.7 Consensus size: 13
50794 CTTGGCTTAC
50804 TTTCTTTTTTTCT
1 TTTCTTTTTTTCT
50817 TTTCTTATTTTTCT
1 TTTCTT-TTTTTCT
50831 TTTCTTTTTTTCT
1 TTTCTTTTTTTCT
*
50844 GATT-TTTTTTTCT
1 -TTTCTTTTTTTCT
*
50857 TTT-TGTCTTTT-T
1 TTTCT-TTTTTTCT
50869 TTTCTTTTT
1 TTTCTTTTT
50878 GTACTCAATT
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
12 10 0.19
13 28 0.53
14 15 0.28
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (13 bp):
TTTCTTTTTTTCT
Found at i:50829 original size:22 final size:22
Alignment explanation
Indices: 50804--50876 Score: 96
Period size: 22 Copynumber: 3.4 Consensus size: 22
50794 CTTGGCTTAC
50804 TTTCTTTT-TTTCTTTTCTTATT
1 TTTCTTTTCTTT-TTTTCTTATT
*
50826 TTTCTTTTCTTTTTTTCTGATT
1 TTTCTTTTCTTTTTTTCTTATT
* *
50848 TTT-TTTTCTTTTTGTCTTTTT
1 TTTCTTTTCTTTTTTTCTTATT
50869 TTTCTTTT
1 TTTCTTTT
50877 TGTACTCAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
21 18 0.40
22 24 0.53
23 3 0.07
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (22 bp):
TTTCTTTTCTTTTTTTCTTATT
Found at i:50834 original size:27 final size:26
Alignment explanation
Indices: 50804--50859 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
50794 CTTGGCTTAC
*
50804 TTTCTTTTTTTCT-TTTCTTATTTTTCT
1 TTTCTTTTTTTCTGATT-TT-TTTTTCT
50831 TTTCTTTTTTTCTGATTTTTTTTTCT
1 TTTCTTTTTTTCTGATTTTTTTTTCT
50857 TTT
1 TTT
50860 TGTCTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 10 0.37
27 15 0.56
28 2 0.07
ACGTcount: A:0.04, C:0.12, G:0.02, T:0.82
Consensus pattern (26 bp):
TTTCTTTTTTTCTGATTTTTTTTTCT
Found at i:50860 original size:27 final size:28
Alignment explanation
Indices: 50804--50870 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 28
50794 CTTGGCTTAC
*
50804 TTTCTTTTTTTCTTTTCTTATTTTTC-T
1 TTTCTTTTTTTCTATTCTTATTTTTCTT
50831 TTTCTTTTTTTCTGATT-TT-TTTTTCTTT
1 TTTCTTTTTTTCT-ATTCTTATTTTTC-TT
50859 TTGTCTTTTTTT
1 TT-TCTTTTTTT
50871 TCTTTTTGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
26 6 0.17
27 15 0.43
28 5 0.14
29 9 0.26
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (28 bp):
TTTCTTTTTTTCTATTCTTATTTTTCTT
Found at i:50867 original size:17 final size:18
Alignment explanation
Indices: 50811--50879 Score: 74
Period size: 17 Copynumber: 3.9 Consensus size: 18
50801 TACTTTCTTT
*
50811 TTTTCTTTTCTTATTTTTC
1 TTTTCTTTTCTT-TTTGTC
*
50830 TTTTCTTTT-TTTCTGAT-
1 TTTTCTTTTCTTTTTG-TC
50847 TTTT-TTTTCTTTTTGTC
1 TTTTCTTTTCTTTTTGTC
50864 TTTT-TTTTCTTTTTGT
1 TTTTCTTTTCTTTTTGT
50880 ACTCAATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
16 5 0.11
17 27 0.61
18 3 0.07
19 9 0.20
ACGTcount: A:0.03, C:0.12, G:0.04, T:0.81
Consensus pattern (18 bp):
TTTTCTTTTCTTTTTGTC
Found at i:52066 original size:8 final size:8
Alignment explanation
Indices: 52053--52126 Score: 55
Period size: 8 Copynumber: 9.1 Consensus size: 8
52043 CTTGGCTTAC
52053 TTTCTTTT
1 TTTCTTTT
52061 TTTCTTTT
1 TTTCTTTT
*
52069 CTTATTTTTCT
1 -TT-TCTTT-T
52080 TTTCTTTT
1 TTTCTTTT
*
52088 TTTC--TG
1 TTTCTTTT
*
52094 ATT-TTTT
1 TTTCTTTT
52101 TTTCTTTT
1 TTTCTTTT
*
52109 TGTCTTTTT
1 TTTC-TTTT
52118 TTTCTTTT
1 TTTCTTTT
52126 T
1 T
52127 GTACTCAATT
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
6 3 0.06
7 3 0.06
8 25 0.49
9 13 0.25
10 6 0.12
11 1 0.02
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (8 bp):
TTTCTTTT
Found at i:52072 original size:21 final size:20
Alignment explanation
Indices: 52048--52120 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 20
52038 CTTTCCTTGG
52048 CTTACTTTCTTTTTTTCTTTT
1 CTTACTTT-TTTTTTTCTTTT
*
52069 CTTA-TTTTTCTTTTCTTTT
1 CTTACTTTTTTTTTTCTTTT
*
52088 -TTTCTGATTTTTTTTTCTTTT
1 CTTACT--TTTTTTTTTCTTTT
52109 -TGT-CTTTTTTTT
1 CT-TACTTTTTTTT
52121 CTTTTTGTAC
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
18 2 0.04
19 19 0.42
20 3 0.07
21 20 0.44
22 1 0.02
ACGTcount: A:0.04, C:0.14, G:0.03, T:0.79
Consensus pattern (20 bp):
CTTACTTTTTTTTTTCTTTT
Found at i:52078 original size:14 final size:13
Alignment explanation
Indices: 52053--52126 Score: 82
Period size: 13 Copynumber: 5.7 Consensus size: 13
52043 CTTGGCTTAC
52053 TTTCTTTTTTTCT
1 TTTCTTTTTTTCT
52066 TTTCTTATTTTTCT
1 TTTCTT-TTTTTCT
52080 TTTCTTTTTTTCT
1 TTTCTTTTTTTCT
*
52093 GATT-TTTTTTTCT
1 -TTTCTTTTTTTCT
*
52106 TTT-TGTCTTTT-T
1 TTTCT-TTTTTTCT
52118 TTTCTTTTT
1 TTTCTTTTT
52127 GTACTCAATT
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
12 10 0.19
13 28 0.53
14 15 0.28
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (13 bp):
TTTCTTTTTTTCT
Found at i:52078 original size:22 final size:22
Alignment explanation
Indices: 52053--52125 Score: 96
Period size: 22 Copynumber: 3.4 Consensus size: 22
52043 CTTGGCTTAC
52053 TTTCTTTT-TTTCTTTTCTTATT
1 TTTCTTTTCTTT-TTTTCTTATT
*
52075 TTTCTTTTCTTTTTTTCTGATT
1 TTTCTTTTCTTTTTTTCTTATT
* *
52097 TTT-TTTTCTTTTTGTCTTTTT
1 TTTCTTTTCTTTTTTTCTTATT
52118 TTTCTTTT
1 TTTCTTTT
52126 TGTACTCAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
21 18 0.40
22 24 0.53
23 3 0.07
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (22 bp):
TTTCTTTTCTTTTTTTCTTATT
Found at i:52083 original size:27 final size:26
Alignment explanation
Indices: 52053--52108 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
52043 CTTGGCTTAC
*
52053 TTTCTTTTTTTCT-TTTCTTATTTTTCT
1 TTTCTTTTTTTCTGATT-TT-TTTTTCT
52080 TTTCTTTTTTTCTGATTTTTTTTTCT
1 TTTCTTTTTTTCTGATTTTTTTTTCT
52106 TTT
1 TTT
52109 TGTCTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 10 0.37
27 15 0.56
28 2 0.07
ACGTcount: A:0.04, C:0.12, G:0.02, T:0.82
Consensus pattern (26 bp):
TTTCTTTTTTTCTGATTTTTTTTTCT
Found at i:52109 original size:27 final size:28
Alignment explanation
Indices: 52053--52119 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 28
52043 CTTGGCTTAC
*
52053 TTTCTTTTTTTCTTTTCTTATTTTTC-T
1 TTTCTTTTTTTCTATTCTTATTTTTCTT
52080 TTTCTTTTTTTCTGATT-TT-TTTTTCTTT
1 TTTCTTTTTTTCT-ATTCTTATTTTTC-TT
52108 TTGTCTTTTTTT
1 TT-TCTTTTTTT
52120 TCTTTTTGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
26 6 0.17
27 15 0.43
28 5 0.14
29 9 0.26
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (28 bp):
TTTCTTTTTTTCTATTCTTATTTTTCTT
Found at i:52116 original size:17 final size:18
Alignment explanation
Indices: 52060--52128 Score: 74
Period size: 17 Copynumber: 3.9 Consensus size: 18
52050 TACTTTCTTT
*
52060 TTTTCTTTTCTTATTTTTC
1 TTTTCTTTTCTT-TTTGTC
*
52079 TTTTCTTTT-TTTCTGAT-
1 TTTTCTTTTCTTTTTG-TC
52096 TTTT-TTTTCTTTTTGTC
1 TTTTCTTTTCTTTTTGTC
52113 TTTT-TTTTCTTTTTGT
1 TTTTCTTTTCTTTTTGT
52129 ACTCAATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
16 5 0.11
17 27 0.61
18 3 0.07
19 9 0.20
ACGTcount: A:0.03, C:0.12, G:0.04, T:0.81
Consensus pattern (18 bp):
TTTTCTTTTCTTTTTGTC
Found at i:53338 original size:22 final size:21
Alignment explanation
Indices: 53313--53375 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
53303 TCTTTTTTAC
53313 TTTTCTTATTTTTCTTTTCCTT
1 TTTTCTTATTTTTCTTTT-CTT
*
53335 TTTTCTGAATTTTT-TTTTCTT
1 TTTTCT-TATTTTTCTTTTCTT
*
53356 TTTGTCTTTTCTTTTCTTTT
1 TTT-TCTTAT-TTTTCTTTT
53376 TGTACTCAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 7 0.21
22 17 0.50
23 10 0.29
ACGTcount: A:0.05, C:0.14, G:0.03, T:0.78
Consensus pattern (21 bp):
TTTTCTTATTTTTCTTTTCTT
Found at i:53365 original size:18 final size:18
Alignment explanation
Indices: 53307--53378 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 18
53297 TTGCTTTCTT
*
53307 TTTTACTTTTCTTATTTTTC
1 TTTT-CTTTTCTT-TTTGTC
* * **
53327 TTTTCCTTT-TTTCTGAA
1 TTTTCTTTTCTTTTTGTC
*
53344 TTTTTTTTTCTTTTTGTC
1 TTTTCTTTTCTTTTTGTC
53362 TTTTCTTTTCTTTTTGT
1 TTTTCTTTTCTTTTTGT
53379 ACTCAATTTT
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
17 9 0.22
18 23 0.57
19 4 0.10
20 4 0.10
ACGTcount: A:0.06, C:0.14, G:0.04, T:0.76
Consensus pattern (18 bp):
TTTTCTTTTCTTTTTGTC
Found at i:54616 original size:573 final size:573
Alignment explanation
Indices: 53528--54677 Score: 2201
Period size: 573 Copynumber: 2.0 Consensus size: 573
53518 GCCCTGATCT
53528 ATGATTGACAAGTACTGATGTCCTTGAATTATAAGATTGGATGCAATGAAAATAAGAAAGAAAAT
1 ATGATTGACAAGTACTGATGTCCTTGAATTATAAGATTGGATGCAATGAAAATAAGAAAGAAAAT
*
53593 AATATTAATGGTGAAATTAAGAAATGGATAATAATAAAAATAATGGAAATAGAAAGAAATGAAAT
66 AATATTAATGGTAAAATTAAGAAATGGATAATAATAAAAATAATGGAAATAGAAAGAAATGAAAT
* *
53658 AAAGATAGAAAGAGATGGCCGCGGAAGAATGAAGTTGGTATGGACTTGATGAAGGATGTTGATGA
131 AAAGATAGAAAGAGATGGCCACGGAAGAATGAAGTTAGTATGGACTTGATGAAGGATGTTGATGA
53723 TGAAATAAAGATGATGGTGATGTTGTATCTCAAACACGCCAAAGATGAAACAATGTTAAGGAGCA
196 TGAAATAAAGATGATGGTGATGTTGTATCTCAAACACGCCAAAGATGAAACAATGTTAAGGAGCA
*
53788 CAATCCCAATCTTCACAAACTTGCTTGAGGGTGGTGATAGTGTCTTCAACCCACTTGATATTAAT
261 CAATCCCAATCTTCACAAACTTGCTTGAGGGTGCTGATAGTGTCTTCAACCCACTTGATATTAAT
*
53853 CTAGGAATTTTGGAATCAGGATGGAAGGAATGACGCCACAAGTATAGGAATTATACTTGCTTAAT
326 CTAGGAATTTCGGAATCAGGATGGAAGGAATGACGCCACAAGTATAGGAATTATACTTGCTTAAT
*
53918 CGATAAAGTTCACAAAGAACATGAAGAGAAATTAACTCACAATAGTAATTTTTATATATGAGATG
391 CGATAAAGTTCACAAAGAACATGAAGAGAAATTAACTCACAAGAGTAATTTTTATATATGAGATG
*
53983 AGATGACTACAGATGATGGCAAGCCACTCTATTTATAGGAAATGAGAGGGCTTGGCCGAATGGTT
456 AGATGACTACAGATGATGGCAAGCCACTCTATTTATAGGAAATAAGAGGGCTTGGCCGAATGGTT
54048 ACATAGCTATTCGGTTGATACAAGACTTTTAATGAAAGTACATAATGCTTAAA
521 ACATAGCTATTCGGTTGATACAAGACTTTTAATGAAAGTACATAATGCTTAAA
*
54101 ATGATTGACAAGTACTGATGTCCTTGAATTATAAGATTGGCTGCAATGAAAATAAGAAAGAAAAT
1 ATGATTGACAAGTACTGATGTCCTTGAATTATAAGATTGGATGCAATGAAAATAAGAAAGAAAAT
54166 AATATTAATGGTAAAATTAAGAAATGGATAATAATAAAAATAATGGAAATAGAAAGAAATGAAAT
66 AATATTAATGGTAAAATTAAGAAATGGATAATAATAAAAATAATGGAAATAGAAAGAAATGAAAT
* *
54231 AAAGATAGAAAGAGATGGCTACGGAAGAATGAAGTTAGTATGGTCTTGATGAAGGATGTTGATGA
131 AAAGATAGAAAGAGATGGCCACGGAAGAATGAAGTTAGTATGGACTTGATGAAGGATGTTGATGA
54296 TGAAATAAAGATGATGGTGATGTTGTATCTCAAACACGCCAAAGATGAAACAATGTTAAGGAGCA
196 TGAAATAAAGATGATGGTGATGTTGTATCTCAAACACGCCAAAGATGAAACAATGTTAAGGAGCA
*
54361 CAATCCCAATCTTCACAAACTTGCTTGAGGGTGCTGATAGTGTTTTCAACCCACTTGATATTAAT
261 CAATCCCAATCTTCACAAACTTGCTTGAGGGTGCTGATAGTGTCTTCAACCCACTTGATATTAAT
54426 CTAGGAATTTCGGAATCAGGATGGAAGGAATGACGCCACAAGTATAGGAATTATACTTGCTTAAT
326 CTAGGAATTTCGGAATCAGGATGGAAGGAATGACGCCACAAGTATAGGAATTATACTTGCTTAAT
54491 CGATAAAGTTCACAAAGAACATGAAGAGAAATTAACTCACAAGAGTAATTTTTATATATGAGATG
391 CGATAAAGTTCACAAAGAACATGAAGAGAAATTAACTCACAAGAGTAATTTTTATATATGAGATG
54556 AGATGACTACAGATGATGGCAAGCCACTCTATTTATAGGAAATAAGAGGGCTTGGCCGAATGGTT
456 AGATGACTACAGATGATGGCAAGCCACTCTATTTATAGGAAATAAGAGGGCTTGGCCGAATGGTT
54621 ACATAGCTATTCGGTTGATACAAGACTTTTAATGAAAGTACATAATGCTTAAA
521 ACATAGCTATTCGGTTGATACAAGACTTTTAATGAAAGTACATAATGCTTAAA
54674 ATGA
1 ATGA
54678 ATGATTGAGT
Statistics
Matches: 566, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
573 566 1.00
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (573 bp):
ATGATTGACAAGTACTGATGTCCTTGAATTATAAGATTGGATGCAATGAAAATAAGAAAGAAAAT
AATATTAATGGTAAAATTAAGAAATGGATAATAATAAAAATAATGGAAATAGAAAGAAATGAAAT
AAAGATAGAAAGAGATGGCCACGGAAGAATGAAGTTAGTATGGACTTGATGAAGGATGTTGATGA
TGAAATAAAGATGATGGTGATGTTGTATCTCAAACACGCCAAAGATGAAACAATGTTAAGGAGCA
CAATCCCAATCTTCACAAACTTGCTTGAGGGTGCTGATAGTGTCTTCAACCCACTTGATATTAAT
CTAGGAATTTCGGAATCAGGATGGAAGGAATGACGCCACAAGTATAGGAATTATACTTGCTTAAT
CGATAAAGTTCACAAAGAACATGAAGAGAAATTAACTCACAAGAGTAATTTTTATATATGAGATG
AGATGACTACAGATGATGGCAAGCCACTCTATTTATAGGAAATAAGAGGGCTTGGCCGAATGGTT
ACATAGCTATTCGGTTGATACAAGACTTTTAATGAAAGTACATAATGCTTAAA
Found at i:55191 original size:22 final size:22
Alignment explanation
Indices: 55146--55193 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
55136 CTTTTTTTAT
* *
55146 TTTTCTTTTCTTTTTTTCTGAA
1 TTTTCTTTTCTTTTTTACTCAA
55168 TTTT-TTTTCTTTTTGTACTCAA
1 TTTTCTTTTCTTTTT-TACTCAA
55190 TTTT
1 TTTT
55194 GTTGAAGGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.10, C:0.12, G:0.04, T:0.73
Consensus pattern (22 bp):
TTTTCTTTTCTTTTTTACTCAA
Found at i:56393 original size:21 final size:20
Alignment explanation
Indices: 56369--56463 Score: 103
Period size: 20 Copynumber: 4.8 Consensus size: 20
56359 TCTTTTTTAC
*
56369 TTTTCTTATTTTTCTTTTCTTT
1 TTTTCTGATTTTT-TTTTC-TT
56391 TTTTCTGATTTTTTTTTC--
1 TTTTCTGATTTTTTTTTCTT
56409 TTTT-TG-TCTTTTTTTTCTT
1 TTTTCTGAT-TTTTTTTTCTT
56428 TTTTCTGATTTTTTTTTCTT
1 TTTTCTGATTTTTTTTTCTT
56448 TTTGTCT--TTTTTTTTT
1 TTT-TCTGATTTTTTTTT
56464 GTACTCAATT
Statistics
Matches: 66, Mismatches: 1, Indels: 15
0.80 0.01 0.18
Matches are distributed among these distances:
16 1 0.02
17 11 0.17
18 4 0.06
19 13 0.20
20 16 0.24
21 9 0.14
22 12 0.18
ACGTcount: A:0.03, C:0.11, G:0.04, T:0.82
Consensus pattern (20 bp):
TTTTCTGATTTTTTTTTCTT
Found at i:56430 original size:37 final size:38
Alignment explanation
Indices: 56378--56461 Score: 152
Period size: 37 Copynumber: 2.2 Consensus size: 38
56368 CTTTTCTTAT
56378 TTTTCTTTTCTTTTTTTCTGATTTTTTTTTCTTTTTGTC
1 TTTT-TTTTCTTTTTTTCTGATTTTTTTTTCTTTTTGTC
56417 TTTTTTTTC-TTTTTTCTGATTTTTTTTTCTTTTTGTC
1 TTTTTTTTCTTTTTTTCTGATTTTTTTTTCTTTTTGTC
56454 TTTTTTTT
1 TTTTTTTT
56462 TTGTACTCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
37 36 0.80
38 5 0.11
39 4 0.09
ACGTcount: A:0.02, C:0.11, G:0.05, T:0.82
Consensus pattern (38 bp):
TTTTTTTTCTTTTTTTCTGATTTTTTTTTCTTTTTGTC
Found at i:57702 original size:573 final size:573
Alignment explanation
Indices: 56614--59567 Score: 2649
Period size: 573 Copynumber: 5.0 Consensus size: 573
56604 GCCCTGATCT
*
56614 ATGATTGACAAGTACTGATGTCCTTGAATTATAAGATTGGATGCAATGAAAATAAGAAAGAAAAT
1 ATGATTGACAAGTACTGATGTCCTTGAATTATAAGATTGGCTGCAATGAAAATAAGAAAGAAAAT
* *
56679 AATATTAATGGTGAAATTAAGAAATGGATAATAATAAAAATAATGGAAATATAAAGAAATGAAAT
66 AATATTAATGGTAAAATTAAGAAATGGATAATAATAAAAATAATGGAAATAGAAAGAAATGAAAT
*
56744 AAAGATAGAAAGAGATGGCTGCGGAAGAATGAAGTTGGTATGGTCTTGATGAAGGATGTTGATGA
131 AAAGATAGAAAGAGATGGCTACGGAAGAATGAAGTTGGTATGGTCTTGATGAAGGATGTTGATGA
**
56809 TGAAATACCGATGATGGTGATGTTGTATCTCAAACACGCCAAAGATGAAACAATGTTAAGGAGCA
196 TGAAATAAAGATGATGGTGATGTTGTATCTCAAACACGCCAAAGATGAAACAATGTTAAGGAGCA
56874 CAATCCCAATCTTCACAAACTTGCTTGAGGGTGGTGATAGTGTCTTCAACCCACTTGATATTAAT
261 CAATCCCAATCTTCACAAACTTGCTTGAGGGTGGTGATAGTGTCTTCAACCCACTTGATATTAAT
56939 CTAGGAATTTCGGAATCAGGATAGAAGGAATGACGCCACAAGTATAGGAATTATACTTGCTTAAT
326 CTAGGAATTTCGGAATCAGGATAGAAGGAATGACGCCACAAGTATAGGAATTATACTTGCTTAAT
57004 CGATAAAGTTCACAAAGAACATGAAGAGAAATTAACTCACAAGAGTAATTTTTATATATGAGATG
391 CGATAAAGTTCACAAAGAACATGAAGAGAAATTAACTCACAAGAGTAATTTTTATATATGAGATG
57069 AGATGACTACAGATGATGGCAAGCCACTCTATTTATAGGAAATGAGAGGGCTTGGCCGAATGGTT
456 AGATGACTACAGATGATGGCAAGCCACTCTATTTATAGGAAATGAGAGGGCTTGGCCGAATGGTT
57134 ACATAGCTATTCGGTTGATACAAGACTTTTAATGAAAGTACATAGTGCTTAAA
521 ACATAGCTATTCGGTTGATACAAGACTTTTAATGAAAGTACATAGTGCTTAAA
*
57187 ATGATTGACAAGTACTGATGTCCTTTAATTATAAGATTGGCTGCAATGAAAATAAGAAAGAAAAT
1 ATGATTGACAAGTACTGATGTCCTTGAATTATAAGATTGGCTGCAATGAAAATAAGAAAGAAAAT
57252 AATATTAATGGTAAAATTAAGAAATGGATAATAATAAAAATAATGGAAATAGAAAGAAATGAAAT
66 AATATTAATGGTAAAATTAAGAAATGGATAATAATAAAAATAATGGAAATAGAAAGAAATGAAAT
57317 AAAGATAGAAAGAGATGGCTACGGAAGAATGAAGTTGGTATGGTCTTGATGAAGGATGTTGATGA
131 AAAGATAGAAAGAGATGGCTACGGAAGAATGAAGTTGGTATGGTCTTGATGAAGGATGTTGATGA
*
57382 TCAAATAAAGATGATGGTGATGTTGTATCTCAAACACGCCAAAGATGAAACAATGTTAAGGAGCA
196 TGAAATAAAGATGATGGTGATGTTGTATCTCAAACACGCCAAAGATGAAACAATGTTAAGGAGCA
57447 CAATCCCAATCTTCACAAACTTGCTTGAGGGTGGTGATAGTGTCTTCAACCCACTTGATATTAAT
261 CAATCCCAATCTTCACAAACTTGCTTGAGGGTGGTGATAGTGTCTTCAACCCACTTGATATTAAT
*
57512 CTAGGAATTTCGGAATCAGGATGGAAGGAATGACGCCACAAGTATAGGAATTATACTTGCTTAAT
326 CTAGGAATTTCGGAATCAGGATAGAAGGAATGACGCCACAAGTATAGGAATTATACTTGCTTAAT
*
57577 CGATAAAGTTCACAAAGAACATGAAGAGAAATTAACTAACAAGAGTAATTTTTATATATGAGATG
391 CGATAAAGTTCACAAAGAACATGAAGAGAAATTAACTCACAAGAGTAATTTTTATATATGAGATG
57642 AGATGACTACAGATGATGGCAAGCCACTCTATTTATAGGAAATGAGAGGGCTTGGCCGAATGGTT
456 AGATGACTACAGATGATGGCAAGCCACTCTATTTATAGGAAATGAGAGGGCTTGGCCGAATGGTT
*
57707 ACATAGCTATTCGGTTGATACAAGACTTTTAATGAAAGTACATAATGCTTAAAATGA
521 ACATAGCTATTCGGTTGATACAAGACTTTTAATGAAAGTACATAGTGCTT--AA--A
** ** * * * *
57764 ATGATTGAGGCCTTTGGGCTTGTGATGGTTC-GGCAAACCCTTCTTGAAG--GGGCTTG--ATGA
1 ATGATTGA---C---AAG-TACTGAT-GTCCTTG--AA---TT-AT-AAGATTGGC-TGCAATGA
* * ** * * *** * ***** * * * ****
57824 TTCGACTAAGGATGGGAAGAT-ATCTCCCTTGTTAAAAATT-CCCCTTCTGAT-CTCACT-CTCT
50 ---AAATAA-GA-AAGAAAATAATAT-TAATGGT-AAAATTAAGAAAT-GGATAAT-AATAAAAA
* ** **** *** **** *** * ***** * *
57885 TAATTAGCATTTTTCCACTCATTTTCTCTTGTTAAGTCCTTTGA-GGAACTTACTGAAGATTAGA
106 TAA-T-GGAAATAGAAAGAAATGAAATAAAGAT-AG-AAAGAGATGG--C-TACGGAAGAAT-G-
** * * * * * *
57949 ACAAGTTAATCCT-TTCCTTG-TGTTTATCGGCTGTAT-ATAGGCTAGGGTAGAAATAATAAAAG
162 --AAGTTGGT-ATGGT-CTTGATG---A-AGGATGT-TGAT--G--A---T-GAAAT-A-AAGAT
* * * ** * * ** * *
58011 GAAATGG-AAAGTTAGAAGAAAT-AAAGAAAGAAATGGTTGAAGACATAGAAAATAAAGGTATAG
208 G--ATGGTGATGTT-G--TATCTCAAA-CACGCCA------AAG--AT-G-AAA-CAATGT-T--
*** * ** * * *** * * *
58074 AAAAGGAAGTTGTGACTTACAAT-TTAAGAAACAACACTT-A--CT-GT-A-ACCTTTC-TCAAG
253 --AAGG-AG--CACAATCCCAATCTTCACAAAC-TTGCTTGAGGGTGGTGATA-GTGTCTTC-A-
** * * * ** * ** ** * * *
58131 AAACAATAAGGTTATCTTCTCTTAGTGTAGATAAGCATCTTTGATGTATTTGCAATGGTAGA-GC
309 ACCCACT--TGATAT-TAATC-TAG-GAATTTCGGAATC----A-GGA-TAG-AA-GG-A-ATG-
* *** * ***** * * * ** **** ****
58195 ACTTTCC-TTGGCTTGCTTTCTTTTTTACTTTTCTTATTTTTCTTTTCTTTTTTTCTGATTTTTT
358 AC--GCCACAAG-TA--TAGGAATTATAC-TTGCTTA---ATC---GATAAAGTTC--A--CAAA
*** * *** ** ** * * ** * * * ** *
58259 TTTCTTTTTGTACTCAATTATTTGA-AGGAGTCCTTTTTTTTCTTTGCACG-CCA-ATGAC-ACT
407 GAACATGAAG-A-GAAATTAACTCACAAGAGT-AATTTTTATATATG-A-GATGAGATGACTACA
** * * * * * * * * * * *
58320 TTTGTTGTCAATCCA-ACTATGCTCTGATTACCG--CT-TGA-TG-TAGGCTG-AT-G-TACACA
467 GATGATGGCAAGCCACTCTAT--T-T-A-TA-GGAAATGAGAGGGCTTGGCCGAATGGTTACATA
* * * * * ** * **
58376 -CT-TT-GATGGA-A-GAGA---GT-A-GATAGCTTTATTA-TGCCCTGATCT
526 GCTATTCGGTTGATACAAGACTTTTAATGAAAG-TACA-TAGTG--CTTA-AA
*
58418 ATGATTGACAAGTACTGATGTCCTTGAATTATAAGATTGGATGCAATGAAAATAAGAAAGAAAAT
1 ATGATTGACAAGTACTGATGTCCTTGAATTATAAGATTGGCTGCAATGAAAATAAGAAAGAAAAT
** *
58483 AATATTAATGGTGTAATTAAGAAATGGATAATAATAAAAATAATGGAAATAGAAAGAAACGAAAT
66 AATATTAATGGTAAAATTAAGAAATGGATAATAATAAAAATAATGGAAATAGAAAGAAATGAAAT
* *
58548 AAAGATAGAAAGAGATGGATGCGGAAGAATGAAGTTGGTATGGTCTTGATGAAGGATGTTGATGA
131 AAAGATAGAAAGAGATGGCTACGGAAGAATGAAGTTGGTATGGTCTTGATGAAGGATGTTGATGA
58613 TGAAATAAAGATGATGGTGATGTTGTATCTCAAACACGCCAAAGATGAAACAATGTTAAGGAGCA
196 TGAAATAAAGATGATGGTGATGTTGTATCTCAAACACGCCAAAGATGAAACAATGTTAAGGAGCA
58678 CAATCCCAATCTTCACAAACTTGCTTGAGGGTGGTGATAGTGTCTTCAACCCACTTGATATTAAT
261 CAATCCCAATCTTCACAAACTTGCTTGAGGGTGGTGATAGTGTCTTCAACCCACTTGATATTAAT
58743 CTAGGAATTTCGGAATCAGGATAGAAGGAATGACGCCACAAGTATAGGAATTATACTTGCTTAAT
326 CTAGGAATTTCGGAATCAGGATAGAAGGAATGACGCCACAAGTATAGGAATTATACTTGCTTAAT
58808 CGATAAAGTTCACAAAGAACATGAAGAGAAATTAACTCACAAGAGTAATTTTTATATATGAGATG
391 CGATAAAGTTCACAAAGAACATGAAGAGAAATTAACTCACAAGAGTAATTTTTATATATGAGATG
58873 AGATGACTACAGATGATGGCAAGCCACTCTATTTATAGGAAATGAGAGGGCTTGGCCGAATGGTT
456 AGATGACTACAGATGATGGCAAGCCACTCTATTTATAGGAAATGAGAGGGCTTGGCCGAATGGTT
58938 ACATAGCTATTCGGTTGATACAAGACTTTTAATGAAAGTACATAGTGCTTAAA
521 ACATAGCTATTCGGTTGATACAAGACTTTTAATGAAAGTACATAGTGCTTAAA
58991 ATGATTGACAAGTACTGATGTCCTTGAATTATAAGATTGGCTGCAATGAAAATAAGAAAGAAAAT
1 ATGATTGACAAGTACTGATGTCCTTGAATTATAAGATTGGCTGCAATGAAAATAAGAAAGAAAAT
59056 AATATTAATGGTAAAATTAAGAAATGGATAATAATAAAAATAATGGAAATAGAAAGAAATGAAAT
66 AATATTAATGGTAAAATTAAGAAATGGATAATAATAAAAATAATGGAAATAGAAAGAAATGAAAT
59121 AAAGATAGAAAGAGATGGCTACGGAAGAATGAAGTTGGTATGGTCTTGATGAAGGATGTTGATGA
131 AAAGATAGAAAGAGATGGCTACGGAAGAATGAAGTTGGTATGGTCTTGATGAAGGATGTTGATGA
*
59186 TCAAATAAAGATGATGGTGATGTTGTATCTCAAACACGCCAAAGATGAAACAATGTTAAGGAGCA
196 TGAAATAAAGATGATGGTGATGTTGTATCTCAAACACGCCAAAGATGAAACAATGTTAAGGAGCA
59251 CAATCCCAATCTTCACAAACTTGCTTGAGGGTGGTGATAGTGTCTTCAACCCACTTGATATTAAT
261 CAATCCCAATCTTCACAAACTTGCTTGAGGGTGGTGATAGTGTCTTCAACCCACTTGATATTAAT
*
59316 CTAGGAATTTCGGAATCAGGATGGAAGGAATGACGCCACAAGTATAGGAATTATACTTGCTTAAT
326 CTAGGAATTTCGGAATCAGGATAGAAGGAATGACGCCACAAGTATAGGAATTATACTTGCTTAAT
59381 CGATAAAGTTCACAAAGAACATGAAGAGAAATTAACTCACAAGAGTAATTTTTATATATGAGATG
391 CGATAAAGTTCACAAAGAACATGAAGAGAAATTAACTCACAAGAGTAATTTTTATATATGAGATG
59446 AGATGACTACAGATGATGGCAAGCCACTCTATTTATAGGAAATGAGAGGGCTTGGCCGAATGGTT
456 AGATGACTACAGATGATGGCAAGCCACTCTATTTATAGGAAATGAGAGGGCTTGGCCGAATGGTT
*
59511 ACATAGCTATTCGGTTGATACAAGACTTTTAATGAAAGTACATAATGCTTAAA
521 ACATAGCTATTCGGTTGATACAAGACTTTTAATGAAAGTACATAGTGCTTAAA
59564 ATGA
1 ATGA
59568 ATGATTGAGT
Statistics
Matches: 1830, Mismatches: 368, Indels: 366
0.71 0.14 0.14
Matches are distributed among these distances:
559 1 0.00
560 2 0.00
561 3 0.00
562 5 0.00
563 23 0.01
564 23 0.01
565 9 0.00
566 1 0.00
567 6 0.00
568 2 0.00
569 6 0.00
570 4 0.00
571 1 0.00
572 5 0.00
573 1127 0.62
574 3 0.00
575 11 0.01
576 11 0.01
577 13 0.01
578 3 0.00
579 1 0.00
580 4 0.00
581 2 0.00
582 2 0.00
583 3 0.00
584 7 0.00
585 5 0.00
586 3 0.00
588 4 0.00
589 5 0.00
590 10 0.01
591 19 0.01
592 16 0.01
593 19 0.01
594 17 0.01
595 15 0.01
596 9 0.00
597 5 0.00
598 2 0.00
599 13 0.01
600 4 0.00
601 1 0.00
602 2 0.00
603 9 0.00
604 8 0.00
606 1 0.00
607 7 0.00
608 1 0.00
609 1 0.00
610 5 0.00
611 4 0.00
612 5 0.00
613 4 0.00
614 5 0.00
615 5 0.00
616 6 0.00
617 5 0.00
618 4 0.00
619 5 0.00
620 4 0.00
621 5 0.00
622 1 0.00
623 1 0.00
624 7 0.00
625 1 0.00
627 8 0.00
628 9 0.00
629 2 0.00
630 1 0.00
631 4 0.00
632 12 0.01
633 1 0.00
634 5 0.00
635 9 0.00
636 14 0.01
637 15 0.01
638 19 0.01
639 16 0.01
640 19 0.01
641 10 0.01
642 4 0.00
643 4 0.00
645 3 0.00
646 5 0.00
647 8 0.00
648 3 0.00
649 2 0.00
650 2 0.00
651 4 0.00
652 1 0.00
653 3 0.00
654 12 0.01
655 12 0.01
656 9 0.00
657 2 0.00
659 5 0.00
660 1 0.00
661 4 0.00
662 6 0.00
663 2 0.00
664 6 0.00
665 1 0.00
666 9 0.00
667 23 0.01
668 23 0.01
669 5 0.00
670 3 0.00
671 2 0.00
672 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.29
Consensus pattern (573 bp):
ATGATTGACAAGTACTGATGTCCTTGAATTATAAGATTGGCTGCAATGAAAATAAGAAAGAAAAT
AATATTAATGGTAAAATTAAGAAATGGATAATAATAAAAATAATGGAAATAGAAAGAAATGAAAT
AAAGATAGAAAGAGATGGCTACGGAAGAATGAAGTTGGTATGGTCTTGATGAAGGATGTTGATGA
TGAAATAAAGATGATGGTGATGTTGTATCTCAAACACGCCAAAGATGAAACAATGTTAAGGAGCA
CAATCCCAATCTTCACAAACTTGCTTGAGGGTGGTGATAGTGTCTTCAACCCACTTGATATTAAT
CTAGGAATTTCGGAATCAGGATAGAAGGAATGACGCCACAAGTATAGGAATTATACTTGCTTAAT
CGATAAAGTTCACAAAGAACATGAAGAGAAATTAACTCACAAGAGTAATTTTTATATATGAGATG
AGATGACTACAGATGATGGCAAGCCACTCTATTTATAGGAAATGAGAGGGCTTGGCCGAATGGTT
ACATAGCTATTCGGTTGATACAAGACTTTTAATGAAAGTACATAGTGCTTAAA
Found at i:58239 original size:22 final size:22
Alignment explanation
Indices: 58211--58264 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
58201 CTTGGCTTGC
*
58211 TTTCTTTT-TTACTTTTCTTATT
1 TTTCTTTTCTT-CTTTTCTGATT
*
58233 TTTCTTTTCTTTTTTTCTGATT
1 TTTCTTTTCTTCTTTTCTGATT
58255 TTT-TTTTCTT
1 TTTCTTTTCTT
58265 TTTGTACTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 7 0.24
22 20 0.69
23 2 0.07
ACGTcount: A:0.06, C:0.13, G:0.02, T:0.80
Consensus pattern (22 bp):
TTTCTTTTCTTCTTTTCTGATT
Found at i:58248 original size:13 final size:13
Alignment explanation
Indices: 58211--58266 Score: 69
Period size: 13 Copynumber: 4.2 Consensus size: 13
58201 CTTGGCTTGC
*
58211 TTTCTTTTTTACT
1 TTTCTTTTTTTCT
58224 TTTCTTATTTTTCT
1 TTTCTT-TTTTTCT
58238 TTTCTTTTTTTCT
1 TTTCTTTTTTTCT
*
58251 GATT-TTTTTTTCT
1 -TTTCTTTTTTTCT
58264 TTT
1 TTT
58267 TGTACTCAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
12 2 0.05
13 22 0.58
14 14 0.37
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.80
Consensus pattern (13 bp):
TTTCTTTTTTTCT
Found at i:58267 original size:22 final size:22
Alignment explanation
Indices: 58223--58267 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
58213 TCTTTTTTAC
*
58223 TTTTCTTATTTTTCTTTTCTTT
1 TTTTCTGATTTTTCTTTTCTTT
58245 TTTTCTGATTTTT-TTTTCTTT
1 TTTTCTGATTTTTCTTTTCTTT
58266 TT
1 TT
58268 GTACTCAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.04, C:0.11, G:0.02, T:0.82
Consensus pattern (22 bp):
TTTTCTGATTTTTCTTTTCTTT
Found at i:60052 original size:13 final size:13
Alignment explanation
Indices: 60015--60054 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
60005 CTTGGCTTGC
*
60015 TTTCTTTTTTACT
1 TTTCTTTTTTTCT
60028 TTTCTTATTTTTCT
1 TTTCTT-TTTTTCT
60042 TTTCTTTTTTTCT
1 TTTCTTTTTTTCT
60055 GAATTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTCTTTTTTTCT
Found at i:60082 original size:23 final size:23
Alignment explanation
Indices: 60034--60084 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
60024 TACTTTTCTT
* * *
60034 ATTTTTCTTTTCTTTTTTTCTGA
1 ATTTTTCTTTCCTTTTTTACTCA
60057 ATTTTT-TTTCCTTTTTGTACTCA
1 ATTTTTCTTTCCTTTTT-TACTCA
60080 ATTTT
1 ATTTT
60085 GTTGAAGGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.12, C:0.14, G:0.04, T:0.71
Consensus pattern (23 bp):
ATTTTTCTTTCCTTTTTTACTCA
Found at i:68947 original size:24 final size:25
Alignment explanation
Indices: 68920--68967 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
68910 CTTTGAGTCT
*
68920 TTGATGTAAGG-CTTCTGATGCCAC
1 TTGATATAAGGCCTTCTGATGCCAC
68944 TTGATATAAGGCTCTTCTGATGCC
1 TTGATATAAGGC-CTTCTGATGCC
68968 TTAACAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.48
26 11 0.52
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (25 bp):
TTGATATAAGGCCTTCTGATGCCAC
Found at i:72839 original size:15 final size:15
Alignment explanation
Indices: 72804--72832 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
72794 GTGCTTCAAC
72804 TTCTTT-CTTTTCTT
1 TTCTTTGCTTTTCTT
72818 TTCTTTGCTTTTCTT
1 TTCTTTGCTTTTCTT
72833 CTTTTTGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (15 bp):
TTCTTTGCTTTTCTT
Found at i:72983 original size:24 final size:25
Alignment explanation
Indices: 72954--73002 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
72944 CTGATTATCG
72954 CTTGATGTAAGG-CTTCTGATGCCA
1 CTTGATGTAAGGCCTTCTGATGCCA
72978 CTTGATGTAAGGCTCTTCTGATGCC
1 CTTGATGTAAGGC-CTTCTGATGCC
73003 TTAACAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 12 0.52
26 11 0.48
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.35
Consensus pattern (25 bp):
CTTGATGTAAGGCCTTCTGATGCCA
Found at i:77286 original size:33 final size:33
Alignment explanation
Indices: 77244--77312 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
77234 GTTGATGAAT
*
77244 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
77277 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
77310 GAA
1 GAA
77313 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:77317 original size:13 final size:12
Alignment explanation
Indices: 77298--77394 Score: 62
Period size: 13 Copynumber: 8.0 Consensus size: 12
77288 TTATTGGCGT
77298 GATATGGTGATG
1 GATATGGTGATG
77310 GAATATGGTGAT-
1 G-ATATGGTGATG
*
77322 GATATAGGCG-T-
1 GATAT-GGTGATG
77333 GATAATGGTGATG
1 GAT-ATGGTGATG
77346 GACTATGGTGAT-
1 GA-TATGGTGATG
*
77358 GATATAGGCG-T-
1 GATAT-GGTGATG
*
77369 GATAATGGAGATG
1 GAT-ATGGTGATG
77382 GATTATGGTGATG
1 GA-TATGGTGATG
77395 AAAATAGTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 21
0.73 0.05 0.22
Matches are distributed among these distances:
11 21 0.30
12 16 0.23
13 30 0.43
14 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.31
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:77353 original size:36 final size:36
Alignment explanation
Indices: 77283--77395 Score: 174
Period size: 36 Copynumber: 3.2 Consensus size: 36
77273 AATGGAAGGA
* *
77283 TGATGTTATTGGCGTGAT-ATGGTGATGGAATATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
*
77318 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
* *
77354 TGATGATATAGGCGTGATAATGGAGATGGATTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
77390 TGATGA
1 TGATGA
77396 AAATAGTATC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
35 16 0.22
36 56 0.78
ACGTcount: A:0.27, C:0.04, G:0.36, T:0.33
Consensus pattern (36 bp):
TGATGATATAGGCGTGATAATGGTGATGGAATATGG
Done.