Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001655.1 Hibiscus syriacus cultivar Beakdansim tig00003311_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: 63185
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:4199 original size:23 final size:24
Alignment explanation
Indices: 4156--4210 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
4146 TGTTTGTTTG
** *
4156 TTTATTTTT-ATTTGTTTTATTTC
1 TTTATTTTTAATTTGTAATATTAC
4179 TTTATTTTTAATTT-TAATATTAC
1 TTTATTTTTAATTTGTAATATTAC
4202 TTT-TTTTTA
1 TTTATTTTTA
4211 GGACAAAGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.21
23 18 0.64
24 4 0.14
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTATTTTTAATTTGTAATATTAC
Found at i:7646 original size:16 final size:16
Alignment explanation
Indices: 7625--7672 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
7615 CTCTTTGTTA
7625 TCTTTTTTTTCTTTGC
1 TCTTTTTTTTCTTTGC
*
7641 TCTTTTCTTTGTTTTTGC
1 TCTTTT-TTT-TCTTTGC
*
7659 T-TTTGTTTTCTTTG
1 TCTTTTTTTTCTTTG
7673 TTTTTTCTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 5 0.19
16 9 0.33
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.15, G:0.10, T:0.75
Consensus pattern (16 bp):
TCTTTTTTTTCTTTGC
Found at i:7655 original size:9 final size:9
Alignment explanation
Indices: 7616--7676 Score: 50
Period size: 9 Copynumber: 6.1 Consensus size: 9
7606 TTGTTTGTGC
*
7616 TCTTTGTTA
1 TCTTTGTTT
*
7625 TCTTTTTTT
1 TCTTTGTTT
7634 TCTTTGCTCTTT
1 TCTTTG---TTT
7646 TCTTTGTTTT
1 TCTTTG-TTT
7656 TGCTTTTGTTT
1 T-C-TTTGTTT
7667 TCTTTGTTT
1 TCTTTGTTT
7676 T
1 T
7677 TTCTTCGTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
9 20 0.47
10 5 0.12
11 5 0.12
12 13 0.30
ACGTcount: A:0.02, C:0.13, G:0.10, T:0.75
Consensus pattern (9 bp):
TCTTTGTTT
Found at i:7677 original size:21 final size:21
Alignment explanation
Indices: 7606--7677 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
7596 GAGGGACTCA
* *
7606 TTGTTTGTGCTCTTTGTTATCT
1 TTGTTTTTGCT-TTTGTTTTCT
*
7628 TT-TTTTT-CTTTGCTCTTTTCT
1 TTGTTTTTGCTTT--TGTTTTCT
7649 TTGTTTTTGCTTTTGTTTTCT
1 TTGTTTTTGCTTTTGTTTTCT
7670 TTGTTTTT
1 TTGTTTTT
7678 TCTTCGTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
19 2 0.05
20 2 0.05
21 27 0.64
22 7 0.17
23 4 0.10
ACGTcount: A:0.01, C:0.12, G:0.12, T:0.74
Consensus pattern (21 bp):
TTGTTTTTGCTTTTGTTTTCT
Found at i:7679 original size:32 final size:32
Alignment explanation
Indices: 7625--7713 Score: 105
Period size: 32 Copynumber: 2.8 Consensus size: 32
7615 CTCTTTGTTA
*
7625 TCTTTT-TTTTCTTTGCTCTTTTCTTTGTTTT
1 TCTTTTGTTTTCTTTGCTCTTTTCTTCGTTTT
*
7656 TGCTTTTGTTTTCTTTG-TTTTTTCTTCGTTTT
1 T-CTTTTGTTTTCTTTGCTCTTTTCTTCGTTTT
*
7688 TCTCTTTG-TTTCTTT-CTCTTTGCTTC
1 TCT-TTTGTTTTCTTTGCTCTTTTCTTC
7714 TTTGATTGGA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
31 18 0.36
32 23 0.46
33 9 0.18
ACGTcount: A:0.00, C:0.18, G:0.09, T:0.73
Consensus pattern (32 bp):
TCTTTTGTTTTCTTTGCTCTTTTCTTCGTTTT
Found at i:7688 original size:21 final size:22
Alignment explanation
Indices: 7629--7704 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 22
7619 TTGTTATCTT
7629 TTTTTTCTTTGCTCTTTTCTTTG
1 TTTTTTC-TTGCTCTTTTCTTTG
* * *
7652 TTTTTGCTT-TTGTTTTCTTTG
1 TTTTTTCTTGCTCTTTTCTTTG
*
7673 TTTTTTCTT-CGTTTTTCTCTTTG
1 TTTTTTCTTGC-TCTTT-TCTTTG
7696 TTTCTTTCT
1 TTT-TTTCT
7705 CTTTGCTTCT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
21 18 0.41
22 6 0.14
23 15 0.34
24 5 0.11
ACGTcount: A:0.00, C:0.16, G:0.09, T:0.75
Consensus pattern (22 bp):
TTTTTTCTTGCTCTTTTCTTTG
Found at i:7689 original size:42 final size:43
Alignment explanation
Indices: 7606--7698 Score: 109
Period size: 44 Copynumber: 2.1 Consensus size: 43
7596 GAGGGACTCA
*
7606 TTGTTTGTGCTCTTTGTTATCTTTTTTTTCTTTGCTCTTTTCT
1 TTGTTTGTGCTCTTTGTTATCTTTTTTTTCTTCGCTCTTTTCT
* * *
7649 TTGTTTTTGCT-TTTGTTTTCTTTGTTTTTTCTTCG-TTTTTCTCT
1 TTGTTTGTGCTCTTTGTTATC-TT-TTTTTTCTTCGCTCTTT-TCT
7693 TTGTTT
1 TTGTTT
7699 CTTTCTCTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
42 8 0.19
43 16 0.37
44 19 0.44
ACGTcount: A:0.01, C:0.14, G:0.12, T:0.73
Consensus pattern (43 bp):
TTGTTTGTGCTCTTTGTTATCTTTTTTTTCTTCGCTCTTTTCT
Found at i:7705 original size:14 final size:14
Alignment explanation
Indices: 7686--7716 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7676 TTTCTTCGTT
*
7686 TTTCTCTTTGTTTC
1 TTTCTCTTTGCTTC
7700 TTTCTCTTTGCTTC
1 TTTCTCTTTGCTTC
7714 TTT
1 TTT
7717 GATTGGATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.23, G:0.06, T:0.71
Consensus pattern (14 bp):
TTTCTCTTTGCTTC
Found at i:12726 original size:19 final size:19
Alignment explanation
Indices: 12702--12755 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
12692 TCGATTCCTC
12702 TCTTTTTCTCTTTTGTTTT
1 TCTTTTTCTCTTTTGTTTT
12721 TCTTTTTCTCTTTTTGTTTT
1 TCTTTTTCTC-TTTTGTTTT
*
12741 T-TTTTT-TTTTTTGTT
1 TCTTTTTCTCTTTTGTT
12756 CTTCCCCAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
17 7 0.21
18 1 0.03
19 15 0.45
20 10 0.30
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (19 bp):
TCTTTTTCTCTTTTGTTTT
Found at i:14862 original size:129 final size:129
Alignment explanation
Indices: 14630--14934 Score: 459
Period size: 129 Copynumber: 2.4 Consensus size: 129
14620 TACTTCTCTA
* * *
14630 AAGATCCGTGAAAACTGAAAACTAGTGCCGGCTCGGGTGGTTATTACTTTCGTGTTCTGAATTCC
1 AAGATTCGTGACAACTCAAAACTAGTGCCGGCTCGGGTGGTTATTACTTTCGTGTTCTGAATTCC
* * *
14695 AAATCATGACGTTAGTTAACGAACTTTCTTTTTCCATTATCTCAATACCGCACCAACGGGGATC
66 AAATCATGACGTTAGTTAACGAACTTTATTTTTCCATTATCTCAATACCACAACAACGGGGATC
* * *
14759 AAGATTCGTGACAACTCAAAACTAGTGCCGGCTCGGGTGGTTTTTACTTTTGTGTTCTGAGTTCC
1 AAGATTCGTGACAACTCAAAACTAGTGCCGGCTCGGGTGGTTATTACTTTCGTGTTCTGAATTCC
* * * * *
14824 GAATCTTGACGTTAGTTACCTAACTTTATTTGTT-CATTATCTCGATACCACAACAACGGGGATC
66 AAATCATGACGTTAGTTAACGAACTTTATTT-TTCCATTATCTCAATACCACAACAACGGGGATC
*
14888 AAGATTCGTGACAACTCAAAACTAGTGCTGGCTCGGGTGGTTATTAC
1 AAGATTCGTGACAACTCAAAACTAGTGCCGGCTCGGGTGGTTATTAC
14935 AGAGTTCAGA
Statistics
Matches: 159, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
129 157 0.99
130 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (129 bp):
AAGATTCGTGACAACTCAAAACTAGTGCCGGCTCGGGTGGTTATTACTTTCGTGTTCTGAATTCC
AAATCATGACGTTAGTTAACGAACTTTATTTTTCCATTATCTCAATACCACAACAACGGGGATC
Found at i:15637 original size:20 final size:19
Alignment explanation
Indices: 15621--15664 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
15611 AACTATATTA
15621 TAAAGTTATACTATATAATT
1 TAAA-TTATACTATATAATT
*
15641 TAAATTATACAAGT-TAATT
1 TAAATTATACTA-TATAATT
15660 TAAAT
1 TAAAT
15665 AAATAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (19 bp):
TAAATTATACTATATAATT
Found at i:25325 original size:15 final size:15
Alignment explanation
Indices: 25302--25335 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
25292 TAAAATTTTA
*
25302 CTAAAAAAATATTATT
1 CTAAAAAAA-ATTAAT
25318 CTAAAAAAAATTAAT
1 CTAAAAAAAATTAAT
25333 CTA
1 CTA
25336 TGGGCCCTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (15 bp):
CTAAAAAAAATTAAT
Found at i:28231 original size:78 final size:79
Alignment explanation
Indices: 28136--28291 Score: 233
Period size: 79 Copynumber: 2.0 Consensus size: 79
28126 ATTAATATTT
* * *
28136 TTTAACATTTCCGGTAAAGTGCTACCTAAAATATTA-TTTTTCTACTGAAAATGTTAATATTAGG
1 TTTAACATTTCCGGTAAAGTGCTAACTAAAACATTATTTTTTCTACTGAAAATATTAATATTAGG
28200 CGCTACCTAAAATG
66 CGCTACCTAAAATG
* * **
28214 TTTAACATTTTCGGTAAAGTGCTAACTAAAACATTATTTTTTTTACTGGTAATATTAATATTAGG
1 TTTAACATTTCCGGTAAAGTGCTAACTAAAACATTATTTTTTCTACTGAAAATATTAATATTAGG
*
28279 CGCTACTTAAAAT
66 CGCTACCTAAAAT
28292 ATTATTTTTC
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
78 33 0.48
79 36 0.52
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (79 bp):
TTTAACATTTCCGGTAAAGTGCTAACTAAAACATTATTTTTTCTACTGAAAATATTAATATTAGG
CGCTACCTAAAATG
Found at i:29173 original size:21 final size:21
Alignment explanation
Indices: 29122--29174 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
29112 ATTATGACTA
29122 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
29143 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
29164 TCGCAATGCGA
1 TCGCAATGCGA
29175 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:29206 original size:20 final size:20
Alignment explanation
Indices: 29183--29297 Score: 142
Period size: 20 Copynumber: 5.7 Consensus size: 20
29173 GAATAAGTAA
*
29183 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
29203 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
29224 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
29244 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
29264 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
29284 TTCGCAACGAGATA
1 ATCGCAACGCGATA
29298 ATACATAATC
Statistics
Matches: 85, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
19 2 0.02
20 66 0.78
21 15 0.18
22 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:29226 original size:41 final size:41
Alignment explanation
Indices: 29181--29317 Score: 179
Period size: 41 Copynumber: 3.4 Consensus size: 41
29171 GCGAATAAGT
* *
29181 AAATCGCAATGCGATACTGACTATCGCAACGCGATAATACA
1 AAATCGCAACGCGATACTGACTTTCGCAACGCGATAATACA
*
29222 AAATCGCAACGCGATACTGACTTTCGCAACGCGATACTGAC-
1 AAATCGCAACGCGATACTGACTTTCGCAACGCGATAAT-ACA
** *
29263 -TTTCGCAACGCGATACTGACTTTCGCAACGAGATAATACA
1 AAATCGCAACGCGATACTGACTTTCGCAACGCGATAATACA
* *
29303 TAATCGCAATGCGAT
1 AAATCGCAACGCGAT
29318 TTTCAAAGCG
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
39 2 0.02
40 33 0.40
41 46 0.55
42 2 0.02
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (41 bp):
AAATCGCAACGCGATACTGACTTTCGCAACGCGATAATACA
Found at i:29512 original size:22 final size:22
Alignment explanation
Indices: 29484--29527 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
29474 CACTCTCTCA
*
29484 CCCATCTCCGATGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
* *
29506 CCCATCTTCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
29528 TATCTCCATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.20, C:0.41, G:0.16, T:0.23
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:29839 original size:20 final size:20
Alignment explanation
Indices: 29790--29848 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
29780 TTTATTCTCT
* **
29790 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
29810 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
29830 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
29849 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:31199 original size:18 final size:18
Alignment explanation
Indices: 31172--31215 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
31162 CTTCGGGAGT
*
31172 CATCAGCTCACCCAGAGC
1 CATCACCTCACCCAGAGC
*
31190 TATCACCTCACCCAGAGC
1 CATCACCTCACCCAGAGC
31208 CATCACCT
1 CATCACCT
31216 GATCGACCCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.45, G:0.11, T:0.16
Consensus pattern (18 bp):
CATCACCTCACCCAGAGC
Found at i:31804 original size:19 final size:20
Alignment explanation
Indices: 31750--31816 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
31740 TAGTTTACTT
* *
31750 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
31770 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
31790 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
31809 TCGCAACG
1 TCGCAACG
31817 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:31824 original size:14 final size:14
Alignment explanation
Indices: 31805--31863 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
31795 ATGCGAAATG
31805 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
31819 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
31838 AAAATCGCAACGAC
1 AAAATCGCAACGAC
31852 AAAATCGCAACG
1 AAAATCGCAACG
31864 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.49, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:31843 original size:19 final size:19
Alignment explanation
Indices: 31789--31847 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
31779 GGAAATGGCT
31789 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
31808 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
31822 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
31841 ATCGCAA
1 ATCGCAA
31848 CGACAAAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 10 0.30
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 17 0.52
ACGTcount: A:0.47, C:0.20, G:0.19, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:31879 original size:33 final size:33
Alignment explanation
Indices: 31789--31868 Score: 151
Period size: 33 Copynumber: 2.4 Consensus size: 33
31779 GGAAATGGCT
31789 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
31822 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
31855 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
31869 CACAAATCGC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:31897 original size:19 final size:19
Alignment explanation
Indices: 31875--31971 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
31865 GAAACACAAA
*
31875 TCGCATTGCGATTTTCACT
1 TCGCATTGCGATTTTCATT
**
31894 TCGCATTGCGA-TTT--GG
1 TCGCATTGCGATTTTCATT
31910 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
31927 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
31943 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
31960 TCGCATTGCGAT
1 TCGCATTGCGAT
31972 AGCCATTTCC
Statistics
Matches: 62, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 12 0.19
15 6 0.10
16 7 0.11
17 7 0.11
18 6 0.10
19 24 0.39
ACGTcount: A:0.13, C:0.21, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:31922 original size:33 final size:33
Alignment explanation
Indices: 31880--31971 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
31870 ACAAATCGCA
*
31880 TTGCGATTTTCACTTCGCATTGCGATTTGGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTGGTCG
*
31913 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTGGTCG
31946 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
31972 AGCCATTTCC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTGGTCG
Found at i:31951 original size:14 final size:14
Alignment explanation
Indices: 31899--31955 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
31889 TCACTTCGCA
*
31899 TTGCGATTTGGTCG
1 TTGCGATTTTGTCG
*
31913 TTGCGATTTTCATTTCG
1 TTGCGA-TTT--TGTCG
31930 CATTGCGATTTTGTCG
1 --TTGCGATTTTGTCG
31946 TTGCGATTTT
1 TTGCGATTTT
31956 CATTTCGCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 16 0.46
15 3 0.09
16 4 0.11
17 3 0.09
18 3 0.09
19 6 0.17
ACGTcount: A:0.11, C:0.16, G:0.25, T:0.49
Consensus pattern (14 bp):
TTGCGATTTTGTCG
Found at i:31990 original size:20 final size:19
Alignment explanation
Indices: 31956--32010 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
31946 TTGCGATTTT
*
31956 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
31975 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
31995 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
32011 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:33740 original size:14 final size:14
Alignment explanation
Indices: 33698--33734 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
33688 TATTGTTTAA
*
33698 TTGATTTGTAAAAG
1 TTGATTTGTAAAAT
*
33712 ATGATTTGTAAAAT
1 TTGATTTGTAAAAT
33726 TTGATTTGT
1 TTGATTTGT
33735 TTAATTGATG
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:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAT
Found at i:33875 original size:14 final size:14
Alignment explanation
Indices: 33856--33920 Score: 58
Period size: 14 Copynumber: 4.3 Consensus size: 14
33846 AATGCGAAAT
33856 GAAAATCGCAACGA
1 GAAAATCGCAACGA
33870 GAAAATCGCAACGCGAAA
1 GAAAATCGCAA--CG--A
33888 TGAAAATCGCAACGA
1 -GAAAATCGCAACGA
* * *
33903 CAAAATCACAACGC
1 GAAAATCGCAACGA
33917 GAAA
1 GAAA
33921 CTAAATTCGC
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
14 25 0.60
15 1 0.02
16 2 0.05
17 2 0.05
18 1 0.02
19 11 0.26
ACGTcount: A:0.51, C:0.23, G:0.18, T:0.08
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:33886 original size:33 final size:33
Alignment explanation
Indices: 33841--33920 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
33831 AAAAATGACT
* *
33841 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
33874 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
*
33907 ATCACAACGCGAAA
1 ATCGCAACGCGAAA
33921 CTAAATTCGC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.49, C:0.23, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:33900 original size:19 final size:19
Alignment explanation
Indices: 33841--33901 Score: 78
Period size: 19 Copynumber: 3.5 Consensus size: 19
33831 AAAAATGACT
*
33841 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
33860 ATCGCAA--CG--A-GAAA
1 ATCGCAACGCGAAATGAAA
33874 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
33893 ATCGCAACG
1 ATCGCAACG
33902 ACAAAATCAC
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
14 11 0.30
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 20 0.54
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:33948 original size:19 final size:19
Alignment explanation
Indices: 33926--34062 Score: 123
Period size: 19 Copynumber: 7.7 Consensus size: 19
33916 CGAAACTAAA
33926 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
33945 TTCGCTTTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
33960 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
33978 TTCGCATTGCGA--TT-A-
1 TTCGCGTTGCGATTTTCAT
*
33993 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
34011 TTCGCGTTGCAATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* **
34030 TTCGCATTGCGATAGTCAT
1 TTCGCGTTGCGATTTTCAT
34049 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
34063 AGACATTAAG
Statistics
Matches: 93, Mismatches: 14, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
14 18 0.19
16 6 0.06
17 6 0.06
19 53 0.57
20 10 0.11
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.45
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:33972 original size:33 final size:33
Alignment explanation
Indices: 33930--34020 Score: 155
Period size: 33 Copynumber: 2.8 Consensus size: 33
33920 ACTAAATTCG
* *
33930 CGTTGCGATTTTCATTTCGCTTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTATCT
33963 CGTTGCGATTTTCATTTCGCATTGCGATTATCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTATCT
*
33996 CGTTGCGATTTTCATTTCGCGTTGC
1 CGTTGCGATTTTCATTTCGCATTGC
34021 AATTTTCATT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTATCT
Found at i:34108 original size:20 final size:20
Alignment explanation
Indices: 34036--34108 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
34026 TCATTTCGCA
*
34036 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGTCATTTCCGTG
* **
34056 TTGCGATAGACA-TTAAGATG
1 TTGCGATAGTCATTTCCG-TG
34076 ATTGCGA-ACGTCATTTCCGTG
1 -TTGCGATA-GTCATTTCCGTG
34097 TTGCGATAGTCA
1 TTGCGATAGTCA
34109 AATGATTGCC
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.07
20 23 0.56
21 12 0.29
22 3 0.07
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGTG
Found at i:37382 original size:20 final size:20
Alignment explanation
Indices: 37357--37428 Score: 117
Period size: 20 Copynumber: 3.6 Consensus size: 20
37347 ATTCTGTATT
*
37357 ATCTCGTTGCGATAGTCAGA
1 ATCTCGTTGCGAAAGTCAGA
37377 ATCTCGTTGCGAAAGTCAGA
1 ATCTCGTTGCGAAAGTCAGA
*
37397 ATCGCGTTGCGAAAGTCAGA
1 ATCTCGTTGCGAAAGTCAGA
*
37417 ATCACGTTGCGA
1 ATCTCGTTGCGA
37429 TTTTGTATTA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (20 bp):
ATCTCGTTGCGAAAGTCAGA
Found at i:37455 original size:41 final size:41
Alignment explanation
Indices: 37342--37473 Score: 133
Period size: 41 Copynumber: 3.2 Consensus size: 41
37332 GAAAATCGCA
* * * *
37342 TTGCAATTCTGTATTATCTCGTTGCGATAGTCAGAATCTCG
1 TTGCGATTTTGTATTATCGCGTTGCGATAGTCAGAATCACG
** ** *
37383 TTGCGA--AAGTCAGAATCGCGTTGCGAAAGTCAGAATCACG
1 TTGCGATTTTGT-ATTATCGCGTTGCGATAGTCAGAATCACG
* * *
37423 TTGCGATTTTGTATTATCGCGTTGCGATAGTCAGTATCGCA
1 TTGCGATTTTGTATTATCGCGTTGCGATAGTCAGAATCACG
37464 TTGCGATTTT
1 TTGCGATTTT
37474 CCAAATTCGC
Statistics
Matches: 72, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
39 2 0.03
40 30 0.42
41 38 0.53
42 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.35
Consensus pattern (41 bp):
TTGCGATTTTGTATTATCGCGTTGCGATAGTCAGAATCACG
Found at i:37462 original size:20 final size:20
Alignment explanation
Indices: 37361--37470 Score: 114
Period size: 20 Copynumber: 5.5 Consensus size: 20
37351 TGTATTATCT
*
37361 CGTTGCGATAGTCAGAATCT
1 CGTTGCGATAGTCAGAATCG
*
37381 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGATAGTCAGAATCG
* *
37401 CGTTGCGAAAGTCAGAATCA
1 CGTTGCGATAGTCAGAATCG
* **
37421 CGTTGCGATTTTGT-ATTATCG
1 CGTTGCGA--TAGTCAGAATCG
*
37442 CGTTGCGATAGTCAGTATCG
1 CGTTGCGATAGTCAGAATCG
*
37462 CATTGCGAT
1 CGTTGCGAT
37471 TTTCCAAATT
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
19 3 0.04
20 59 0.78
21 12 0.16
22 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (20 bp):
CGTTGCGATAGTCAGAATCG
Found at i:37485 original size:21 final size:21
Alignment explanation
Indices: 37459--37514 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
37449 ATAGTCAGTA
37459 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
37480 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
37501 TCGCATTGCGATTT
1 TCGCATTGCGATTT
37515 ACTTATTCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.39
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:37573 original size:21 final size:22
Alignment explanation
Indices: 37524--37573 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
37514 TACTTATTCA
37524 CATTGCG-AATTGGGAAAATCG
1 CATTGCGAAATTGGGAAAATCG
**
37545 CAACGCGAAATT-GGAAAATCG
1 CATTGCGAAATTGGGAAAATCG
37566 CATTGCGA
1 CATTGCGA
37574 TAGTCATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (22 bp):
CATTGCGAAATTGGGAAAATCG
Found at i:38400 original size:28 final size:27
Alignment explanation
Indices: 38325--38411 Score: 94
Period size: 28 Copynumber: 3.3 Consensus size: 27
38315 ACATAAAATC
38325 AAATATTTATTTTAACTAAAAATAATT
1 AAATATTTATTTTAACTAAAAATAATT
* *
38352 AAA-A--TA-TTAAAC-AATATATAATTT
1 AAATATTTATTTTAACTAA-AAATAA-TT
38376 AAATATTTATTTTAACTAAAAATAATT
1 AAATATTTATTTTAACTAAAAATAATT
38403 AAAGTATTT
1 AAA-TATTT
38412 GAAGTGGTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
22 2 0.04
23 10 0.21
24 7 0.15
25 1 0.02
26 1 0.02
27 10 0.21
28 15 0.31
29 2 0.04
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (27 bp):
AAATATTTATTTTAACTAAAAATAATT
Found at i:43711 original size:39 final size:39
Alignment explanation
Indices: 43664--43775 Score: 170
Period size: 39 Copynumber: 2.8 Consensus size: 39
43654 GCAGTCATGA
*
43664 CTTTATATATTTTGTTTAATCTTGAATGAAATTGGTCAG
1 CTTTATATATTTTGTTCAATCTTGAATGAAATTGGTCAG
* *
43703 CTTTATATATATTGTTCAATTTTGAATGAAATTGGTCAG
1 CTTTATATATTTTGTTCAATCTTGAATGAAATTGGTCAG
* *
43742 ATTTATATATTTTCTTCAATCTTGAATGGAAATT
1 CTTTATATATTTTGTTCAATCTTGAAT-GAAATT
43776 TTGGTCAACT
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 59 0.91
40 6 0.09
ACGTcount: A:0.30, C:0.08, G:0.13, T:0.48
Consensus pattern (39 bp):
CTTTATATATTTTGTTCAATCTTGAATGAAATTGGTCAG
Found at i:44064 original size:54 final size:54
Alignment explanation
Indices: 43968--44082 Score: 133
Period size: 54 Copynumber: 2.1 Consensus size: 54
43958 ACATACTTAA
* * * * * * * *
43968 TTACATCGGTGTAAATATGTATATCTCCAAGAACGTGTAGCACTTAATATATAC
1 TTACACCGGCGTAAATATGTATATATCCAAGAAAGTGCAGCACTAAAGACATAC
*
44022 TTACACCGGCGTAAGTATGTATATATCTCAA-AAAGTGCAGCACTAAAGACATAC
1 TTACACCGGCGTAAATATGTATATATC-CAAGAAAGTGCAGCACTAAAGACATAC
44076 TTACACC
1 TTACACC
44083 AGTACAAGTA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 48 0.94
55 3 0.06
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.29
Consensus pattern (54 bp):
TTACACCGGCGTAAATATGTATATATCCAAGAAAGTGCAGCACTAAAGACATAC
Found at i:46716 original size:39 final size:39
Alignment explanation
Indices: 46673--46783 Score: 177
Period size: 39 Copynumber: 2.8 Consensus size: 39
46663 CAGTCATGAT
*
46673 TTTATATATTTTGTTCAATCTTGAATGAAATTGGTCAGC
1 TTTATATATTTTGTTCAATCTTGAATGAAATTGGTCAGA
* *
46712 TTTATATATATTGTTCAATTTTGAATGAAATTGGTCAGA
1 TTTATATATTTTGTTCAATCTTGAATGAAATTGGTCAGA
*
46751 TTTATATATTTTCTTCAATCTTGAATGGAAATT
1 TTTATATATTTTGTTCAATCTTGAAT-GAAATT
46784 TTGGTCAACT
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
39 59 0.91
40 6 0.09
ACGTcount: A:0.31, C:0.08, G:0.14, T:0.48
Consensus pattern (39 bp):
TTTATATATTTTGTTCAATCTTGAATGAAATTGGTCAGA
Found at i:47070 original size:54 final size:54
Alignment explanation
Indices: 46974--47088 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 54
46964 ACATACTTAA
* * * * * * * * *
46974 TTACATCGGTGTAAATATGTATATCTCCCAGAACGTGTAGCACTTAATATATAC
1 TTACACCGGCGTAAATATGTATATATCCCAAAAAGTGCAGCACTAAAGACATAC
* *
47028 TTACACCGGCGTAAGTATGTATATATCTCAAAAAGTGCAGCACTAAAGACATAC
1 TTACACCGGCGTAAATATGTATATATCCCAAAAAGTGCAGCACTAAAGACATAC
47082 TTACACC
1 TTACACC
47089 AGTACAAGTA
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.29
Consensus pattern (54 bp):
TTACACCGGCGTAAATATGTATATATCCCAAAAAGTGCAGCACTAAAGACATAC
Found at i:48834 original size:32 final size:33
Alignment explanation
Indices: 48792--48861 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 33
48782 TTAATCCCTA
*
48792 AAAACATAAAAC-AAACACATA-TTTATTTTTTTT
1 AAAACATAAAACTAAACA-A-AGTTGATTTTTTTT
*
48825 AAAA-ATAAAACTATACAAAGTTGATTTTTTTT
1 AAAACATAAAACTAAACAAAGTTGATTTTTTTT
48857 AAAAC
1 AAAAC
48862 TAACTGCATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
31 1 0.03
32 23 0.72
33 8 0.25
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.37
Consensus pattern (33 bp):
AAAACATAAAACTAAACAAAGTTGATTTTTTTT
Found at i:54168 original size:31 final size:31
Alignment explanation
Indices: 54133--54222 Score: 112
Period size: 32 Copynumber: 2.9 Consensus size: 31
54123 GTAGGCTCTG
54133 CGGCCCTGAGATCATTCTTGGGTAGGCCCCA
1 CGGCCCTGAGATCATTCTTGGGTAGGCCCCA
* *
54164 CGGCCCTAAGAT-ATGTTCTTAGGTAGGCCCCA
1 CGGCCCTGAGATCA--TTCTTGGGTAGGCCCCA
*
54196 CGGCCCTGAAATC-TATCTTGGGTAGGC
1 CGGCCCTGAGATCAT-TCTTGGGTAGGC
54223 TCTCAGGCCA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
30 2 0.04
31 22 0.44
32 26 0.52
ACGTcount: A:0.19, C:0.29, G:0.28, T:0.24
Consensus pattern (31 bp):
CGGCCCTGAGATCATTCTTGGGTAGGCCCCA
Found at i:54189 original size:32 final size:31
Alignment explanation
Indices: 54117--54202 Score: 102
Period size: 31 Copynumber: 2.7 Consensus size: 31
54107 CTAATGTGAC
* ** *
54117 TCTTAGGTAGGCTCTGCGGCCCTGAGATCAT
1 TCTTAGGTAGGCCCCACGGCCCTAAGATCAT
*
54148 TCTTGGGTAGGCCCCACGGCCCTAAGAT-ATGT
1 TCTTAGGTAGGCCCCACGGCCCTAAGATCA--T
54180 TCTTAGGTAGGCCCCACGGCCCT
1 TCTTAGGTAGGCCCCACGGCCCT
54203 GAAATCTATC
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
30 1 0.02
31 23 0.49
32 23 0.49
ACGTcount: A:0.16, C:0.30, G:0.28, T:0.26
Consensus pattern (31 bp):
TCTTAGGTAGGCCCCACGGCCCTAAGATCAT
Found at i:54247 original size:63 final size:64
Alignment explanation
Indices: 54116--54250 Score: 161
Period size: 63 Copynumber: 2.1 Consensus size: 64
54106 CCTAATGTGA
* ** * *
54116 CTCTTAGGTAGGCTCTGCGGCCCTGAGATCATTCTTGGGTAGGCCCCACGGCCCTAAGATATGT
1 CTCTTAGGTAGGCCCCACGGCCCTGAAATCATTCTTGGGTAGGCCCCACGGCCATAAGATATGT
* *
54180 -TCTTAGGTAGGCCCCACGGCCCTGAAATC-TATCTTGGGTAGGCTCTCA-GGCCATAAGATGT-
1 CTCTTAGGTAGGCCCCACGGCCCTGAAATCAT-TCTTGGGTAGGC-CCCACGGCCATAAGATATG
54241 T
64 T
54242 CTCTTAGGT
1 CTCTTAGGT
54251 TAACTCTTTG
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
62 2 0.03
63 56 0.92
64 3 0.05
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.28
Consensus pattern (64 bp):
CTCTTAGGTAGGCCCCACGGCCCTGAAATCATTCTTGGGTAGGCCCCACGGCCATAAGATATGT
Found at i:55103 original size:17 final size:17
Alignment explanation
Indices: 55081--55114 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
55071 TGATGCTATA
55081 ATTTTTGTAATTATTTT
1 ATTTTTGTAATTATTTT
* *
55098 ATTTTTTTGATTATTTT
1 ATTTTTGTAATTATTTT
55115 CAAAAATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (17 bp):
ATTTTTGTAATTATTTT
Found at i:57219 original size:2 final size:2
Alignment explanation
Indices: 57212--57246 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
57202 TTTTAAATAC
57212 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
57247 TTTTCTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.