Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008892.1 Hibiscus syriacus cultivar Beakdansim tig00112158_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: 110508
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:153 original size:36 final size:37
Alignment explanation
Indices: 65--261 Score: 143
Period size: 36 Copynumber: 5.2 Consensus size: 37
55 GTCATTCTCG
65 GAAGGCTTACTGATGGATTTGCTTCACTACTCTTCCGT
1 GAAGGCTTA-TGATGGATTTGCTTCACTACTCTTCCGT
*
103 GAAGGCTTATGATGG-TTTGCTTCACTACTCTTCTGT
1 GAAGGCTTATGATGGATTTGCTTCACTACTCTTCCGT
* ** * * * *
139 GAAGGCTT-TAGATGGCCTGGAGGACTT-AAT-CATCATGCTT
1 GAAGGCTTAT-GATGG-AT--TTG-CTTCACTAC-TCTTCCGT
* * *
179 GAAGGCTTACTGGTGCATTTGTTTCACTACTCTT-CGT
1 GAAGGCTTA-TGATGGATTTGCTTCACTACTCTTCCGT
* * * **
216 GAAGGCTTAAGATTGATTTGTTTCACTACTCTTTGGT
1 GAAGGCTTATGATGGATTTGCTTCACTACTCTTCCGT
253 GAAGGCTTA
1 GAAGGCTTA
262 AGATAGCCCG
Statistics
Matches: 125, Mismatches: 22, Indels: 25
0.73 0.13 0.15
Matches are distributed among these distances:
35 1 0.01
36 53 0.42
37 30 0.24
38 16 0.13
39 2 0.02
40 16 0.13
41 6 0.05
42 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (37 bp):
GAAGGCTTATGATGGATTTGCTTCACTACTCTTCCGT
Found at i:223 original size:37 final size:37
Alignment explanation
Indices: 178--264 Score: 115
Period size: 37 Copynumber: 2.4 Consensus size: 37
168 TCATCATGCT
*
178 TGAAGGCTTACTG-GTGCATTTGTTTCACTACTC-TTCG
1 TGAAGGCTTA-AGAGTG-ATTTGTTTCACTACTCTTTCG
* *
215 TGAAGGCTTAAGATTGATTTGTTTCACTACTCTTTGG
1 TGAAGGCTTAAGAGTGATTTGTTTCACTACTCTTTCG
252 TGAAGGCTTAAGA
1 TGAAGGCTTAAGA
265 TAGCCCGGAG
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
36 17 0.38
37 28 0.62
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.39
Consensus pattern (37 bp):
TGAAGGCTTAAGAGTGATTTGTTTCACTACTCTTTCG
Found at i:244 original size:114 final size:114
Alignment explanation
Indices: 1--302 Score: 428
Period size: 114 Copynumber: 2.6 Consensus size: 114
* * *
1 GATTTGCTTCACTAATCTTTGGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCGTCATTCTCGG
1 GATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCATCATGCTC-G
* *
66 AAGGCTTACTGATGGATTTGCTTCACTACTCTTCCGTGAAGGCTTATGAT
65 AAGGCTTACTGATGCATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGAT
* * * *
116 GGTTTGCTTCACTACTCTTCT-GTGAAGGCTTTAGATGGCCTGGAGGACTTAATCATCATGCTTG
1 GATTTGCTTCACTACTCTT-TGGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCATCATGCTCG
* *
180 AAGGCTTACTGGTGCATTTGTTTCACTACTCTT-CGTGAAGGCTTAAGATT
65 AAGGCTTACTGATGCATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA-T
* * *
230 GATTTGTTTCACTACTCTTTGGTGAAGGCTTAAGATAGCCCGGAGGACTAAATCATCATGCTCGA
1 GATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCATCATGCTCG-
295 AAGGCTTA
65 AAGGCTTA
303 TATATGACCC
Statistics
Matches: 165, Mismatches: 18, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
113 15 0.09
114 87 0.53
115 62 0.38
116 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.34
Consensus pattern (114 bp):
GATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCATCATGCTCGA
AGGCTTACTGATGCATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGAT
Found at i:265 original size:37 final size:36
Alignment explanation
Indices: 195--265 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 36
185 TTACTGGTGC
195 ATTTGTTTCACTACTCTTCGTGAAGGCTTAAGATTG
1 ATTTGTTTCACTACTCTTCGTGAAGGCTTAAGATTG
*
231 ATTTGTTTCACTACTCTTTGGTGAAGGCTTAAGAT
1 ATTTGTTTCACTACTC-TTCGTGAAGGCTTAAGAT
266 AGCCCGGAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 16 0.48
37 17 0.52
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (36 bp):
ATTTGTTTCACTACTCTTCGTGAAGGCTTAAGATTG
Found at i:2559 original size:7 final size:7
Alignment explanation
Indices: 2547--2611 Score: 82
Period size: 7 Copynumber: 9.4 Consensus size: 7
2537 TGGATCAGTT
2547 TTTTTTC
1 TTTTTTC
2554 TTTTTTC
1 TTTTTTC
2561 TTTTTTC
1 TTTTTTC
2568 TTTTTT-
1 TTTTTTC
2574 TCTTTTTC
1 T-TTTTTC
2582 -TTTTTC
1 TTTTTTC
2588 TTTTTT-
1 TTTTTTC
*
2594 TTTTTTT
1 TTTTTTC
2601 TTCTTTTC
1 TT-TTTTC
2609 TTT
1 TTT
2612 CATTTTTTGC
Statistics
Matches: 52, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
6 13 0.25
7 33 0.63
8 6 0.12
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:2564 original size:6 final size:6
Alignment explanation
Indices: 2548--2611 Score: 71
Period size: 6 Copynumber: 10.5 Consensus size: 6
2538 GGATCAGTTT
2548 TTTTTC TTTTTTC TTTTTTC TTTTTTTC TTTTTC TTTTTC TTTTT- TTTTT-
1 TTTTTC -TTTTTC -TTTTTC --TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
2598 TTTTTC -TTTTC TTT
1 TTTTTC TTTTTC TTT
2612 CATTTTTTGC
Statistics
Matches: 54, Mismatches: 0, Indels: 7
0.89 0.00 0.11
Matches are distributed among these distances:
5 15 0.28
6 19 0.35
7 13 0.24
8 7 0.13
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTTTC
Found at i:2574 original size:22 final size:22
Alignment explanation
Indices: 2546--2611 Score: 95
Period size: 20 Copynumber: 3.1 Consensus size: 22
2536 TTGGATCAGT
2546 TTTTTTTCTTTTTTCTTTTTTC
1 TTTTTTTCTTTTTTCTTTTTTC
2568 TTTTTTTC-TTTTTC-TTTTTC
1 TTTTTTTCTTTTTTCTTTTTTC
2588 TTTTTTT-TTTTTT-TTCTTTTC
1 TTTTTTTCTTTTTTCTT-TTTTC
2609 TTT
1 TTT
2612 CATTTTTTGC
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
20 19 0.46
21 14 0.34
22 8 0.20
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (22 bp):
TTTTTTTCTTTTTTCTTTTTTC
Found at i:2579 original size:27 final size:28
Alignment explanation
Indices: 2545--2611 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
2535 TTTGGATCAG
2545 TTTT-TTTTCTTTTTTC-TTTTTTCTTT
1 TTTTCTTTTCTTTTTTCTTTTTTTCTTT
*
2571 TTTTCTTTT-TCTTTTTCTTTTTTTTTTT
1 TTTTCTTTTCT-TTTTTCTTTTTTTCTTT
2599 TTTTCTTTTCTTT
1 TTTTCTTTTCTTT
2612 CATTTTTTGC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
26 5 0.14
27 10 0.28
28 20 0.56
29 1 0.03
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (28 bp):
TTTTCTTTTCTTTTTTCTTTTTTTCTTT
Found at i:2582 original size:28 final size:27
Alignment explanation
Indices: 2548--2611 Score: 94
Period size: 27 Copynumber: 2.3 Consensus size: 27
2538 GGATCAGTTT
2548 TTTTTCTTTTTTCTTTTTTCTTTTTTTC
1 TTTTTCTTTTTTCTTTTTT-TTTTTTTC
*
2576 TTTTTC-TTTTTCTTTTTTTTTTTTTT
1 TTTTTCTTTTTTCTTTTTTTTTTTTTC
2602 TCTTTTCTTT
1 T-TTTTCTTT
2612 CATTTTTTGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
26 8 0.24
27 17 0.52
28 8 0.24
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (27 bp):
TTTTTCTTTTTTCTTTTTTTTTTTTTC
Found at i:2617 original size:22 final size:22
Alignment explanation
Indices: 2547--2619 Score: 89
Period size: 21 Copynumber: 3.3 Consensus size: 22
2537 TGGATCAGTT
2547 TTTTTTCTTTTTTC-TTT-TTTC
1 TTTTTT-TTTTTTCTTTTCTTTC
2568 TTTTTTTCTTTTTCTTTTTCTTT-
1 TTTTTTT-TTTTTC-TTTTCTTTC
2591 TTTTTTTTTTTTCTTTTCTTTC
1 TTTTTTTTTTTTCTTTTCTTTC
*
2613 ATTTTTT
1 TTTTTTT
2620 GCTATATCTA
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
20 1 0.02
21 20 0.43
22 12 0.26
23 10 0.22
24 3 0.07
ACGTcount: A:0.01, C:0.12, G:0.00, T:0.86
Consensus pattern (22 bp):
TTTTTTTTTTTTCTTTTCTTTC
Found at i:2618 original size:27 final size:26
Alignment explanation
Indices: 2547--2619 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 26
2537 TGGATCAGTT
2547 TTTTTTC-TTTTTTCTTTTTTCTTTTT
1 TTTTTTCTTTTTTTCTTTTTT-TTTTT
*
2573 TTCTTTT-TCTTTTTC--TTTTTTTTT
1 TT-TTTTCTTTTTTTCTTTTTTTTTTT
*
2597 TTTTTTCTTTTCTTTCATTTTTT
1 TTTTTTCTTTT-TTTCTTTTTTT
2620 GCTATATCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
23 4 0.10
24 10 0.26
25 8 0.21
26 2 0.05
27 15 0.38
ACGTcount: A:0.01, C:0.12, G:0.00, T:0.86
Consensus pattern (26 bp):
TTTTTTCTTTTTTTCTTTTTTTTTTT
Found at i:2619 original size:1 final size:1
Alignment explanation
Indices: 2545--2607 Score: 63
Period size: 1 Copynumber: 63.0 Consensus size: 1
2535 TTTGGATCAG
* * * * * * *
2545 TTTTTTTTCTTTTTTCTTTTTTCTTTTTTTCTTTTTCTTTTTCTTTTTTTTTTTTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2608 CTTTCATTTT
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:2634 original size:46 final size:43
Alignment explanation
Indices: 2545--2635 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 43
2535 TTTGGATCAG
* * * *
2545 TTTTTTTTCTTTTTTCTTTTTTCTTTTTTTCTTTTTCTTTTTC
1 TTTTTTTTCTTTTTTCTTTTTTCTTTTTTGCTATATCTATTTC
*
2588 TTTTTTTTTTTTTTTCTTTTCTTTCATTTTTTGCTATATCTATTTC
1 TTTTTTTTCTTTTTTC-TTT-TTTC-TTTTTTGCTATATCTATTTC
2634 TT
1 TT
2636 ATTTCTCTGT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
43 15 0.38
44 3 0.08
45 4 0.10
46 18 0.45
ACGTcount: A:0.04, C:0.13, G:0.01, T:0.81
Consensus pattern (43 bp):
TTTTTTTTCTTTTTTCTTTTTTCTTTTTTGCTATATCTATTTC
Found at i:4856 original size:11 final size:12
Alignment explanation
Indices: 4840--4881 Score: 59
Period size: 13 Copynumber: 3.5 Consensus size: 12
4830 AAATGAATAC
4840 ATGCAATGCT-A
1 ATGCAATGCTAA
4851 ATGCAATGCTAA
1 ATGCAATGCTAA
*
4863 ATGTAAATGCTAA
1 ATG-CAATGCTAA
4876 ATGCAA
1 ATGCAA
4882 ATACAAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 10 0.37
12 6 0.22
13 11 0.41
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (12 bp):
ATGCAATGCTAA
Found at i:13357 original size:21 final size:22
Alignment explanation
Indices: 13331--13377 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
13321 TTCAATAAAA
13331 TTTACCTAAAACATT-ATTTGT
1 TTTACCTAAAACATTAATTTGT
* *
13352 TTTACCTAAAATATTAATTTTT
1 TTTACCTAAAACATTAATTTGT
13374 TTTA
1 TTTA
13378 ATATTTTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.34, C:0.11, G:0.02, T:0.53
Consensus pattern (22 bp):
TTTACCTAAAACATTAATTTGT
Found at i:14336 original size:19 final size:20
Alignment explanation
Indices: 14254--14343 Score: 76
Period size: 19 Copynumber: 4.3 Consensus size: 20
14244 ATTTTGATTT
*
14254 TGAAAAATGTGTTGCGATAG
1 TGAAAAACGTGTTGCGATAG
* * *
14274 T-TAAAATGTGTTGCGAGAG
1 TGAAAAACGTGTTGCGATAG
*
14293 TTTGAAAAACGTGTTGTTGTTATAG
1 --TGAAAAACGTGTTG-CG--ATAG
14318 TGAAAAA-GTGTTGCGATAG
1 TGAAAAACGTGTTGCGATAG
14337 TGAAAAA
1 TGAAAAA
14344 TCCAAAATAA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
19 27 0.47
20 1 0.02
21 2 0.04
22 16 0.28
23 8 0.14
25 3 0.05
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.32
Consensus pattern (20 bp):
TGAAAAACGTGTTGCGATAG
Found at i:14662 original size:6 final size:6
Alignment explanation
Indices: 14646--14685 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
14636 CTCGAGGTAG
*
14646 GGTCG- GGTCGT GGTCGT GGTCTT GGTCGT GGTCGT GGTCG
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCG
14686 GAGAGTAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.00, C:0.17, G:0.50, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:14760 original size:20 final size:20
Alignment explanation
Indices: 14735--14782 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
14725 ATTCTGTACT
14735 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
14755 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
14775 ATCGCGTT
1 ATCGCGTT
14783 ATGATTCTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGA
Found at i:16069 original size:23 final size:23
Alignment explanation
Indices: 16043--16112 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
16033 AAGGGTACTG
16043 ATGCAATTGATGTAAGTTTATTT
1 ATGCAATTGATGTAAGTTTATTT
** * *
16066 ATGC-A-TGA--TAAGGGTACTG
1 ATGCAATTGATGTAAGTTTATTT
*
16085 ATGCAGTTGATGTAAGTTTATTT
1 ATGCAATTGATGTAAGTTTATTT
16108 ATGCA
1 ATGCA
16113 TGATTAAGAA
Statistics
Matches: 34, Mismatches: 9, Indels: 8
0.67 0.18 0.16
Matches are distributed among these distances:
19 11 0.32
21 6 0.18
22 1 0.03
23 16 0.47
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (23 bp):
ATGCAATTGATGTAAGTTTATTT
Found at i:16089 original size:42 final size:42
Alignment explanation
Indices: 16030--16116 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
16020 TGATCTGATG
16030 GATAAGGGTACTGATGCAATTGATGTAAGTTTATTTATGCAT
1 GATAAGGGTACTGATGCAATTGATGTAAGTTTATTTATGCAT
*
16072 GATAAGGGTACTGATGCAGTTGATGTAAGTTTATTTATGCAT
1 GATAAGGGTACTGATGCAATTGATGTAAGTTTATTTATGCAT
16114 GAT
1 GAT
16117 TAAGAATCAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (42 bp):
GATAAGGGTACTGATGCAATTGATGTAAGTTTATTTATGCAT
Found at i:16605 original size:107 final size:108
Alignment explanation
Indices: 16418--16632 Score: 378
Period size: 107 Copynumber: 2.0 Consensus size: 108
16408 ATTACTACTC
*
16418 CCATTCGTTCATGTTTTGTTTTTGGTGAATTCAGTGCTACTTTTTCTTCTATTGTATTAACATAG
1 CCATTCGTTCATGTCTTGTTTTTGGTGAATTCAGTGCTACTTTTTCTTCTATTGTATTAACATAG
*
16483 ATGTATTGGTTAATGTCTTAGCATTTGGAAAGTGTAGTCAAGT
66 ATGTATTGGTTAATGTCTTAGCATTTGGAAAGTGTAATCAAGT
* *
16526 CCATTCGTTCATGTCTTGTTTTTGGTG-ATTCAGTGCTACTTTTTCTTCTATTTTATTATCATAG
1 CCATTCGTTCATGTCTTGTTTTTGGTGAATTCAGTGCTACTTTTTCTTCTATTGTATTAACATAG
*
16590 ATGTATTGGTTAATGTCTTAGTATTTGGAAAGTGTAATCAAGT
66 ATGTATTGGTTAATGTCTTAGCATTTGGAAAGTGTAATCAAGT
16633 ACAGAATCCC
Statistics
Matches: 102, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
107 76 0.75
108 26 0.25
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (108 bp):
CCATTCGTTCATGTCTTGTTTTTGGTGAATTCAGTGCTACTTTTTCTTCTATTGTATTAACATAG
ATGTATTGGTTAATGTCTTAGCATTTGGAAAGTGTAATCAAGT
Found at i:18005 original size:20 final size:21
Alignment explanation
Indices: 17980--18018 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17970 GGCTGCTGGA
*
17980 AACCGGTT-TAACCGGTTTTC
1 AACCGGTTCGAACCGGTTTTC
18000 AACCGGTTCGAACCGGTTT
1 AACCGGTTCGAACCGGTTT
18019 GACCGGTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.31
Consensus pattern (21 bp):
AACCGGTTCGAACCGGTTTTC
Found at i:18068 original size:17 final size:17
Alignment explanation
Indices: 18046--18101 Score: 94
Period size: 17 Copynumber: 3.3 Consensus size: 17
18036 TTGACCGATC
*
18046 TGACCCGACCCAACCGT
1 TGACCCGACCCGACCGT
*
18063 TGACCCAACCCGACCGT
1 TGACCCGACCCGACCGT
18080 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
18097 TGACC
1 TGACC
18102 GTTGACCGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 36 1.00
ACGTcount: A:0.21, C:0.46, G:0.20, T:0.12
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:18101 original size:7 final size:7
Alignment explanation
Indices: 18091--18121 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
18081 GACCCGACCC
18091 GACCGTT
1 GACCGTT
18098 GACCGTT
1 GACCGTT
18105 GACCGTT
1 GACCGTT
18112 GACCGTT
1 GACCGTT
18119 GAC
1 GAC
18122 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:25296 original size:9 final size:9
Alignment explanation
Indices: 25282--25375 Score: 80
Period size: 10 Copynumber: 9.8 Consensus size: 9
25272 GGCTGCTGGA
25282 AACCGGTTT
1 AACCGGTTT
25291 AACCGGTTTT
1 AACCGG-TTT
25301 CAACCGGTTCT
1 -AACCGGTT-T
*
25312 GACCGGTTT
1 AACCGGTTT
*
25321 GACCGGTTT
1 AACCGGTTT
*
25330 CAACCGGTTCG
1 -AACCGGTT-T
25341 AACCGGTTT
1 AACCGGTTT
* *
25350 GACCGGTCTG
1 AACCGGT-TT
25360 AACCGGTTT
1 AACCGGTTT
*
25369 GACCGGT
1 AACCGGT
25376 CTGAGCTGGT
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
9 29 0.41
10 34 0.49
11 7 0.10
ACGTcount: A:0.17, C:0.27, G:0.28, T:0.29
Consensus pattern (9 bp):
AACCGGTTT
Found at i:25327 original size:19 final size:18
Alignment explanation
Indices: 25303--25400 Score: 108
Period size: 19 Copynumber: 5.2 Consensus size: 18
25293 CCGGTTTTCA
*
25303 ACCGGTTCTGACCGGTTTG
1 ACCGGTT-TGACCGGTCTG
*
25322 ACCGGTTTCAACCGGT-TCG
1 ACCGGTTT-GACCGGTCT-G
25341 AACCGGTTTGACCGGTCTG
1 -ACCGGTTTGACCGGTCTG
25360 AACCGGTTTGACCGGTCTG
1 -ACCGGTTTGACCGGTCTG
*
25379 AGCTGGTTTGACCGGTCTG
1 A-CCGGTTTGACCGGTCTG
25398 ACC
1 ACC
25401 CGACCCGACC
Statistics
Matches: 70, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
18 4 0.06
19 57 0.81
20 9 0.13
ACGTcount: A:0.14, C:0.28, G:0.31, T:0.28
Consensus pattern (18 bp):
ACCGGTTTGACCGGTCTG
Found at i:25345 original size:29 final size:28
Alignment explanation
Indices: 25283--25375 Score: 123
Period size: 29 Copynumber: 3.2 Consensus size: 28
25273 GCTGCTGGAA
*
25283 ACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGG-TTTCAACCGGTTC-G
25313 ACCGGTTTGACCGGTTTCAACCGGTTCG
1 ACCGGTTTGACCGGTTTCAACCGGTTCG
* * *
25341 AACCGGTTTGACCGGTCTGAACCGGTTTG
1 -ACCGGTTTGACCGGTTTCAACCGGTTCG
25370 ACCGGT
1 ACCGGT
25376 CTGAGCTGGT
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
28 7 0.12
29 38 0.66
30 13 0.22
ACGTcount: A:0.16, C:0.27, G:0.28, T:0.29
Consensus pattern (28 bp):
ACCGGTTTGACCGGTTTCAACCGGTTCG
Found at i:25418 original size:17 final size:17
Alignment explanation
Indices: 25396--25434 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
25386 TTGACCGGTC
25396 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
25413 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
25430 TGACC
1 TGACC
25435 GTTGACCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.13
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:25434 original size:7 final size:7
Alignment explanation
Indices: 25424--25454 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
25414 GACCCGACCC
25424 GACCGTT
1 GACCGTT
25431 GACCGTT
1 GACCGTT
25438 GACCGTT
1 GACCGTT
25445 GACCGTT
1 GACCGTT
25452 GAC
1 GAC
25455 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:28762 original size:2 final size:2
Alignment explanation
Indices: 28755--28779 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
28745 AACAAATAAA
28755 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
28780 GATCTGCGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:32532 original size:20 final size:20
Alignment explanation
Indices: 32507--32553 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
32497 TTGATTCGTT
32507 GGTTTTTGTTTTTTGTTTAA
1 GGTTTTTGTTTTTTGTTTAA
32527 GGTTTTTGTTTTTTGTTTAA
1 GGTTTTTGTTTTTTGTTTAA
32547 -GTTTTTG
1 GGTTTTTG
32554 AGCTTCAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.09, C:0.00, G:0.21, T:0.70
Consensus pattern (20 bp):
GGTTTTTGTTTTTTGTTTAA
Found at i:33010 original size:70 final size:71
Alignment explanation
Indices: 32872--33010 Score: 176
Period size: 70 Copynumber: 2.0 Consensus size: 71
32862 AATGTTGTCG
* *
32872 ATTGAACTTCAATTTTCATTAGGCAATATTCCAAAGAGTATCTCTAACGTTTGATTAAATAATTA
1 ATTGAACTTCAATTTTCATTAGGCAATATTCCAAAGAATACCTCTAACGTTTGATTAAATAATTA
32937 TTTTTT
66 TTTTTT
* * ** *
32943 ATTGAACTTTAATTTTCTTTAGG-AATTATGT-CAAA-AATACCTCTAGTGTTTTATTAAATAAT
1 ATTGAACTTCAATTTTCATTAGGCAA-TAT-TCCAAAGAATACCTCTAACGTTTGATTAAATAAT
33005 TATTTT
64 TATTTT
33011 GATATATATT
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
70 30 0.51
71 28 0.47
72 1 0.02
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.46
Consensus pattern (71 bp):
ATTGAACTTCAATTTTCATTAGGCAATATTCCAAAGAATACCTCTAACGTTTGATTAAATAATTA
TTTTTT
Found at i:37295 original size:171 final size:169
Alignment explanation
Indices: 36903--37309 Score: 383
Period size: 171 Copynumber: 2.4 Consensus size: 169
36893 TTTTTGACAT
* * * * * * * * * *
36903 AGATTCTCTATAAAAGGTGAAAGCGCTTCTTGTGAGAA-AGACTTTCATTTTTATCATATATTCT
1 AGATTCCCTACAAAAGGAGAAAACGCTTCTTGTGAGAAGAGAATTCCTTTTTTCTCAGAGATTCT
* * * * * *
36967 -TTGCAATTTTCAGTTAATTATGTGTGCAAATAGTGTTCCCATTCGGGGAATTATTCATGTGAAC
66 CTT-C-ATTTTCAGTCAATTATATGTACAAATAGTGTTCCCATTCAGGGAACTATTCATGTCAAC
* * *
37031 ACCTCTTATGTTTGATGGGATGAGACACTATGACATGGTAG
129 ACCTCTTATGTCTGATAGGATGAGACACTATGACATGGTAC
* * * * * *
37072 AGATTCCCTACAAAAGGTGAAATCGCTTCTTTTTATAAGAGAATTCCTTTTTTTTGTCAGAGATT
1 AGATTCCCTACAAAAGGAGAAAACGCTTCTTGTGAGAAGAGAATTCC--TTTTTTCTCAGAGATT
**
37137 CTCTTCATTTTCAGTCAATTATATGTACAAAT-GATGTTCTTATTCAGGGAACTATTCATGTCAA
64 CTCTTCATTTTCAGTCAATTATATGTACAAATAG-TGTTCCCATTCAGGGAACTATTCATGTCAA
* *
37201 CACTTCTTGTGTCTGATAGGATGAGACACTATGACAAT-G-AC
128 CACCTCTTATGTCTGATAGGATGAGACACTATGAC-ATGGTAC
* ** ** * **
37242 ATATTTTCTGTAAAAGGAGAAAACGTTTCTTGTGAGAAGAGTTTTCTCTTTTTTCTCAGAGATTC
1 AGATTCCCTACAAAAGGAGAAAACGCTTCTTGTGAGAAGAGAATTC-CTTTTTTCTCAGAGATTC
37307 TCT
65 TCT
37310 GCAAAAGGTG
Statistics
Matches: 192, Mismatches: 39, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
169 51 0.27
170 41 0.21
171 81 0.42
172 17 0.09
173 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (169 bp):
AGATTCCCTACAAAAGGAGAAAACGCTTCTTGTGAGAAGAGAATTCCTTTTTTCTCAGAGATTCT
CTTCATTTTCAGTCAATTATATGTACAAATAGTGTTCCCATTCAGGGAACTATTCATGTCAACAC
CTCTTATGTCTGATAGGATGAGACACTATGACATGGTAC
Found at i:37323 original size:59 final size:59
Alignment explanation
Indices: 37248--37360 Score: 156
Period size: 59 Copynumber: 1.9 Consensus size: 59
37238 TGACATATTT
* ** * *
37248 TCTGTAAAAGGAGAAAACGTTTCTTGTGAGAAGAG-TTTTCTCTTTTTTCTCAGAGATTC
1 TCTGCAAAAGGAGAAAACACTTCTTGTGAGAAGAGCTTTCCCCTTTTTT-TCAGAGATTC
*
37307 TCTGCAAAAGGTGAAAACACTTCTTGTGAGAAGAGCTTTCCCCTTTTTTTCAGA
1 TCTGCAAAAGGAGAAAACACTTCTTGTGAGAAGAGCTTTCCCCTTTTTTTCAGA
37361 TATTTTCTAC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
59 36 0.77
60 11 0.23
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.36
Consensus pattern (59 bp):
TCTGCAAAAGGAGAAAACACTTCTTGTGAGAAGAGCTTTCCCCTTTTTTTCAGAGATTC
Found at i:42476 original size:20 final size:20
Alignment explanation
Indices: 42442--42479 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
42432 GCTCAAGTGA
**
42442 TATCGATACTGGGGTCCTAT
1 TATCGATACACGGGTCCTAT
42462 TATCGATACACGGGTCCT
1 TATCGATACACGGGTCCT
42480 TGATCAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.32
Consensus pattern (20 bp):
TATCGATACACGGGTCCTAT
Found at i:48425 original size:14 final size:14
Alignment explanation
Indices: 48406--48432 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48396 CCTAAAAACA
48406 TAATATAAATAACT
1 TAATATAAATAACT
48420 TAATATAAATAAC
1 TAATATAAATAAC
48433 AATTATTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (14 bp):
TAATATAAATAACT
Found at i:50568 original size:21 final size:23
Alignment explanation
Indices: 50543--50588 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
50533 AATTTGAAAT
50543 AATATTT-AATAAAA-ATATTTA
1 AATATTTAAATAAAACATATTTA
*
50564 AATATTTAAATAAAACATTTTTA
1 AATATTTAAATAAAACATATTTA
50587 AA
1 AA
50589 AATAAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.32
22 7 0.32
23 8 0.36
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
AATATTTAAATAAAACATATTTA
Found at i:53347 original size:31 final size:31
Alignment explanation
Indices: 53309--53368 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
53299 ATTACGTCAG
* *
53309 GGACCATATTGCAAACGGACTAAATGTTGAT
1 GGACCATATCGCAAACAGACTAAATGTTGAT
53340 GGACCATATCGCAAACAGACTAAATGTTG
1 GGACCATATCGCAAACAGACTAAATGTTG
53369 GGAGATTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (31 bp):
GGACCATATCGCAAACAGACTAAATGTTGAT
Found at i:57471 original size:22 final size:22
Alignment explanation
Indices: 57417--57472 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
57407 TGTCAATCAT
*
57417 ATAAAATTTTATTTTAAAAATA
1 ATAATATTTTATTTTAAAAATA
* *
57439 ATTATAATTTATTTTAAAAA-A
1 ATAATATTTTATTTTAAAAATA
*
57460 CTCAATATTTTAT
1 AT-AATATTTTAT
57473 GAAATTATAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 2 0.07
22 25 0.93
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAATATTTTATTTTAAAAATA
Found at i:57927 original size:27 final size:27
Alignment explanation
Indices: 57874--57938 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
57864 TAAAATTTTG
*
57874 GATTTTTTAAAAAATATATAATTTTAA
1 GATTTTTTAAAAAATATATAATATTAA
*
57901 GTTTTTTTAATATAAATA-A-AATATTAA
1 GATTTTTTAA-A-AAATATATAATATTAA
*
57928 GATTTTATAAA
1 GATTTTTTAAA
57939 TGTGACATGT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
26 1 0.03
27 24 0.75
28 2 0.06
29 5 0.16
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (27 bp):
GATTTTTTAAAAAATATATAATATTAA
Found at i:58931 original size:14 final size:14
Alignment explanation
Indices: 58912--58941 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
58902 TGAAAGTTTC
*
58912 GAAACTCTTCGAAA
1 GAAACTCTTCAAAA
58926 GAAACTCTTCAAAA
1 GAAACTCTTCAAAA
58940 GA
1 GA
58942 GGGATTAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (14 bp):
GAAACTCTTCAAAA
Found at i:59023 original size:20 final size:18
Alignment explanation
Indices: 58990--59044 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
58980 AAACTACAAG
*
58990 GAAAGTTTCAAAACTCTTAT
1 GAAAGTTTCGAAACT-TT-T
*
59010 GAAAGTTTTGAAACTTTT
1 GAAAGTTTCGAAACTTTT
*
59028 GTAAAGTTTGGAAACTT
1 G-AAAGTTTCGAAACTT
59045 CTGGTCAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 2 0.06
19 16 0.52
20 13 0.42
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (18 bp):
GAAAGTTTCGAAACTTTT
Found at i:59221 original size:2 final size:2
Alignment explanation
Indices: 59214--59257 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
59204 ACAAAAATCA
59214 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59256 AT
1 AT
59258 GTCATATCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59875 original size:21 final size:21
Alignment explanation
Indices: 59849--59895 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
59839 ATCTTTATGA
*
59849 TTTGGATGTTAGTTTTCATAC
1 TTTGGATGTCAGTTTTCATAC
59870 TTTGGATGTCAGTTTTCATAC
1 TTTGGATGTCAGTTTTCATAC
59891 TTTGG
1 TTTGG
59896 TTGTGGATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.17, C:0.11, G:0.21, T:0.51
Consensus pattern (21 bp):
TTTGGATGTCAGTTTTCATAC
Found at i:67122 original size:20 final size:21
Alignment explanation
Indices: 67097--67148 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
67087 TTTTCCCAAT
*
67097 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
67117 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
67138 TCGCAATGCGA
1 TCGCAATGCGA
67149 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:67162 original size:20 final size:20
Alignment explanation
Indices: 67137--67250 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
67127 AATTGGGAAA
*
67137 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
67157 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
67177 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
67198 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
67218 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
67238 TTCGCAACGCGAT
1 ATCGCAACGCGAT
67251 TTACATAGTG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:67181 original size:61 final size:61
Alignment explanation
Indices: 67134--67250 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
67124 GCGAATTGGG
* * * * *
67134 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
67195 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
67251 TTACATAGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:67845 original size:19 final size:19
Alignment explanation
Indices: 67806--67850 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
67796 GCAACGAGAT
*
67806 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAACAAA
* *
67825 AATCGTAACGCGAAACCAA
1 AATCGCAACGCGAAACAAA
67844 AATCGCA
1 AATCGCA
67851 TTGCGATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.49, C:0.24, G:0.16, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAACAAA
Found at i:67868 original size:19 final size:19
Alignment explanation
Indices: 67846--68030 Score: 165
Period size: 19 Copynumber: 10.1 Consensus size: 19
67836 GAAACCAAAA
*
67846 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
67865 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
67884 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
67903 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
* *
67923 TTGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
67939 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
67956 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
67970 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
67989 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
68009 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
68029 TC
1 TC
68031 AACCAAAAGA
Statistics
Matches: 137, Mismatches: 16, Indels: 26
0.77 0.09 0.15
Matches are distributed among these distances:
14 20 0.15
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 60 0.44
20 48 0.35
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:67923 original size:39 final size:38
Alignment explanation
Indices: 67846--68030 Score: 165
Period size: 33 Copynumber: 5.1 Consensus size: 38
67836 GAAACCAAAA
*
67846 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
*
67884 TCGCGTTGCGATTTTTATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGC-GTTGCGATTTTCATT
* * * **
67923 TTGCGTTGCGATTGTC---T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* **
67956 TCGCGTTGCGA--TTC---TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* *
67989 TCCGCGTTGCGATTCTCATTATCTCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT-TCGCGTTGCGATTTTCATT
68029 TC
1 TC
68031 AACCAAAAGA
Statistics
Matches: 122, Mismatches: 15, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
31 3 0.02
33 37 0.30
34 10 0.08
35 1 0.01
36 3 0.02
38 21 0.17
39 29 0.24
40 18 0.15
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
Found at i:68007 original size:20 final size:20
Alignment explanation
Indices: 67973--68030 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
67963 GCGATTCTCT
**
67973 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
67993 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
68013 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
68031 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:70701 original size:24 final size:24
Alignment explanation
Indices: 70667--70720 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
70657 CTGAAACATC
* *
70667 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
70691 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
70715 ATCAAA
1 ATCAAA
70721 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:71806 original size:20 final size:20
Alignment explanation
Indices: 71781--71838 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
71771 ATTCATTTGA
71781 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
71801 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
71821 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
71839 CGCATTGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:71860 original size:14 final size:16
Alignment explanation
Indices: 71842--71915 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 16
71832 AGAAAATCGC
71842 ATTGCGATTTTC-TCG
1 ATTGCGATTTTCTTCG
71857 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC--TTCG
71874 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC--TTCG
71893 CATTGCGATTTTC-TCG
1 -ATTGCGATTTTCTTCG
71909 -TTGCGAT
1 ATTGCGAT
71916 AGCCATTTCG
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.33
16 3 0.06
17 3 0.06
19 30 0.56
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCGATTTTCTTCG
Found at i:71879 original size:19 final size:19
Alignment explanation
Indices: 71838--71905 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
71828 AACGAGAAAA
71838 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
71854 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
71871 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
71890 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
71906 TCGTTGCGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.23
16 3 0.06
17 3 0.06
19 30 0.64
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:72041 original size:14 final size:14
Alignment explanation
Indices: 72022--72058 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
72012 CATCAATTAA
72022 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
72036 ACAAATCATCTTTT
1 ACAAATCAACATTT
72050 ACAAATCAA
1 ACAAATCAA
72059 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:73955 original size:20 final size:19
Alignment explanation
Indices: 73920--73986 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
73910 GAAACTTAAA
73920 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
73939 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
73959 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
73978 ATCGCAACG
1 ATCGCAACG
73987 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:73994 original size:14 final size:14
Alignment explanation
Indices: 73975--74032 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
73965 ATGCGAAATG
73975 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
73989 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
74005 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
74021 AAAATCGCAACG
1 AAAATCGCAACG
74033 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:74017 original size:32 final size:33
Alignment explanation
Indices: 73959--74037 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
73949 GGAAATGGCT
*
73959 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
73992 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
74024 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
74038 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:74085 original size:14 final size:14
Alignment explanation
Indices: 74066--74123 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
74056 TTTCATTTCG
74066 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
74080 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
74096 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
74112 CGTTGCGATTTT
1 CGTTGCGATTTT
74124 CATTTCGCGT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:74130 original size:33 final size:33
Alignment explanation
Indices: 74049--74139 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
74039 ACAAATCGCA
74049 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
74082 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
74114 TTGCGATTTTCATTTCGCGTTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
74140 AGCCATTTCC
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 31 0.56
33 24 0.44
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:74154 original size:20 final size:19
Alignment explanation
Indices: 74124--74178 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
74114 TTGCGATTTT
74124 CATTTCGCGTTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
74143 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
74163 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
74179 AAATAACTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 5 0.16
20 24 0.75
21 3 0.09
ACGTcount: A:0.15, C:0.24, G:0.25, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:74685 original size:18 final size:18
Alignment explanation
Indices: 74659--74703 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
74649 GTCGATCAGA
*
74659 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
74677 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
74695 TGATGGCTC
1 TGATGGCTC
74704 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:76047 original size:20 final size:20
Alignment explanation
Indices: 76022--76059 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
76012 AATAGTTTCT
76022 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
76042 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
76060 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:76341 original size:20 final size:21
Alignment explanation
Indices: 76316--76364 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
76306 TCTGAGAGAT
*
76316 GGAGAT-AGACGGGTTTCGCC
1 GGAGATGAGACGGATTTCGCC
*
76336 GGAGATGGAGACGGATTTCGTC
1 GGAGAT-GAGACGGATTTCGCC
76358 GGAGATG
1 GGAGATG
76365 GGTAAGAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.24
21 1 0.04
22 18 0.72
ACGTcount: A:0.22, C:0.14, G:0.43, T:0.20
Consensus pattern (21 bp):
GGAGATGAGACGGATTTCGCC
Found at i:76349 original size:22 final size:22
Alignment explanation
Indices: 76322--76365 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
76312 AGATGGAGAT
*
76322 AGACGGGTTTCGCCGGAGATGG
1 AGACGGATTTCGCCGGAGATGG
*
76344 AGACGGATTTCGTCGGAGATGG
1 AGACGGATTTCGCCGGAGATGG
76366 GTAAGAGAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
AGACGGATTTCGCCGGAGATGG
Found at i:76579 original size:20 final size:20
Alignment explanation
Indices: 76554--76606 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
76544 GATTATGTAT
*
76554 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTAAG
76574 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTAAG
*
76594 TATCTCGTTGCGA
1 TATCGCGTTGCGA
76607 TTTTTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTAAG
Found at i:76641 original size:20 final size:20
Alignment explanation
Indices: 76554--76649 Score: 84
Period size: 20 Copynumber: 4.7 Consensus size: 20
76544 GATTATGTAT
*
76554 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
76574 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGATAGTCAG
* ** * *
76594 TATCTCGTTGCGATTTTTTTAT
1 TATCGCGTTGCGA--TAGTCAG
*
76616 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
76636 TATCGCATTGCGAT
1 TATCGCGTTGCGAT
76650 TTTCCCAATT
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
20 48 0.79
22 13 0.21
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:80997 original size:18 final size:18
Alignment explanation
Indices: 80974--81010 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
80964 TATATTTTAC
80974 CCTTAAAAAATACTTAAA
1 CCTTAAAAAATACTTAAA
80992 CCTTAAAAAATACTTAAA
1 CCTTAAAAAATACTTAAA
81010 C
1 C
81011 TATGTTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (18 bp):
CCTTAAAAAATACTTAAA
Found at i:82825 original size:13 final size:13
Alignment explanation
Indices: 82807--82834 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
82797 GAAAAAGACA
82807 AGAGAGAAGGTTG
1 AGAGAGAAGGTTG
82820 AGAGAGAAGGTTG
1 AGAGAGAAGGTTG
82833 AG
1 AG
82835 CCGCTGAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.46, T:0.14
Consensus pattern (13 bp):
AGAGAGAAGGTTG
Found at i:83406 original size:12 final size:12
Alignment explanation
Indices: 83389--83427 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
83379 TTATTTCTTG
83389 TATTTATGAAGA
1 TATTTATGAAGA
83401 TATTTATGAAGA
1 TATTTATGAAGA
83413 TATTTA--AAGA
1 TATTTATGAAGA
83423 TATTT
1 TATTT
83428 TAAACAAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 9 0.33
12 18 0.67
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (12 bp):
TATTTATGAAGA
Found at i:83482 original size:2 final size:2
Alignment explanation
Indices: 83475--83519 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
83465 TTCCCCGCAT
83475 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
83517 TA T
1 TA T
83520 GAATGACACG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:88659 original size:25 final size:25
Alignment explanation
Indices: 88617--88672 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
88607 TTTTAAAAAA
88617 CTTT-ATCAAACATTTTTCAAAATT
1 CTTTCATCAAACATTTTTCAAAATT
*
88641 CTTTCATCCAACATTTTTCAAAATT
1 CTTTCATCAAACATTTTTCAAAATT
88666 CTTTCAT
1 CTTTCAT
88673 TATTTAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 4 0.13
25 26 0.87
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.46
Consensus pattern (25 bp):
CTTTCATCAAACATTTTTCAAAATT
Found at i:91251 original size:17 final size:17
Alignment explanation
Indices: 91229--91261 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
91219 AAAACTAAAC
91229 CTAACCCTAACCCTAAT
1 CTAACCCTAACCCTAAT
*
91246 CTAACCTTAACCCTAA
1 CTAACCCTAACCCTAA
91262 ACCATCATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.39, G:0.00, T:0.24
Consensus pattern (17 bp):
CTAACCCTAACCCTAAT
Found at i:95039 original size:22 final size:22
Alignment explanation
Indices: 94992--95039 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
94982 AAAAAAATAT
*
94992 AATTCATTTCATAATGATATTT
1 AATTCATTTCATAATGATATTA
95014 AATTCTATTTC-TAATAGA-ATTA
1 AATTC-ATTTCATAAT-GATATTA
95036 AATT
1 AATT
95040 ATGCGTTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (22 bp):
AATTCATTTCATAATGATATTA
Found at i:104125 original size:21 final size:21
Alignment explanation
Indices: 104079--104125 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
104069 CAATTTCTAG
* *
104079 CTTTTTTTGGCTTTTTATCTT
1 CTTTTATTGCCTTTTTATCTT
*
104100 TTTTTATTGCCTTTTTAT-TT
1 CTTTTATTGCCTTTTTATCTT
104120 CCTTTT
1 -CTTTT
104126 TCTTTTCTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.06, C:0.15, G:0.06, T:0.72
Consensus pattern (21 bp):
CTTTTATTGCCTTTTTATCTT
Found at i:108456 original size:23 final size:23
Alignment explanation
Indices: 108425--108480 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
108415 TAAAACCAAT
108425 TATA-AATTCCCAAAAATATAAA
1 TATATAATTCCCAAAAATATAAA
108447 TATATAATTCCCAAAAATATAAA
1 TATATAATTCCCAAAAATATAAA
108470 TATATAATTCC
1 TATATAATTCC
108481 AAACTATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 4 0.12
23 29 0.88
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (23 bp):
TATATAATTCCCAAAAATATAAA
Done.