Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009609.1 Hibiscus syriacus cultivar Beakdansim tig00116995_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: 1078827
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 5
Found at i:1031945 original size:21 final size:21
Alignment explanation
Indices: 1031919--1031979 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
1031909 ATCAGATTGT
1031919 CCAGGGGGTACAGATTCCCCC
1 CCAGGGGGTACAGATTCCCCC
* *
1031940 CCAGGGGGAATAGATT-CCCC
1 CCAGGGGGTACAGATTCCCCC
*
1031960 CTAGGGGGTATC-GATTCCCC
1 CCAGGGGGTA-CAGATTCCCC
1031980 GGGAACAGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.20, C:0.33, G:0.30, T:0.18
Consensus pattern (21 bp):
CCAGGGGGTACAGATTCCCCC
Found at i:1031959 original size:20 final size:20
Alignment explanation
Indices: 1031919--1031979 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
1031909 ATCAGATTGT
*
1031919 CCAGGGGGTACAGATTCCCCC
1 CCAGGGGGTATAGATT-CCCC
*
1031940 CCAGGGGGAATAGATTCCCC
1 CCAGGGGGTATAGATTCCCC
* *
1031960 CTAGGGGGTATCGATTCCCC
1 CCAGGGGGTATAGATTCCCC
1031980 GGGAACAGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
20 21 0.60
21 14 0.40
ACGTcount: A:0.20, C:0.33, G:0.30, T:0.18
Consensus pattern (20 bp):
CCAGGGGGTATAGATTCCCC
Found at i:1032006 original size:33 final size:34
Alignment explanation
Indices: 1031945--1032027 Score: 123
Period size: 33 Copynumber: 2.4 Consensus size: 34
1031935 CCCCCCCAGG
*
1031945 GGGAATAGATTCCCCCTAGGGGGTATCGATTCCCC
1 GGGAATAGATT-CCCCTAAGGGGTATCGATTCCCC
*
1031980 GGGAACAGATTCCCC-AAGGGGTATCGATTCCCC
1 GGGAATAGATTCCCCTAAGGGGTATCGATTCCCC
*
1032013 GGGTATAGATTCCCC
1 GGGAATAGATTCCCC
1032028 CTGCATGGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
33 30 0.68
34 4 0.09
35 10 0.23
ACGTcount: A:0.22, C:0.29, G:0.28, T:0.22
Consensus pattern (34 bp):
GGGAATAGATTCCCCTAAGGGGTATCGATTCCCC
Found at i:1032018 original size:15 final size:15
Alignment explanation
Indices: 1031965--1032027 Score: 65
Period size: 15 Copynumber: 4.0 Consensus size: 15
1031955 TCCCCCTAGG
1031965 GGGTATCGATTCCCC
1 GGGTATCGATTCCCC
*
1031980 GGG-AACAGATTCCCC
1 GGGTATC-GATTCCCC
1031995 AAGGGGTATCGATTCCCC
1 ---GGGTATCGATTCCCC
*
1032013 GGGTATAGATTCCCC
1 GGGTATCGATTCCCC
1032028 CTGCATGGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 2 0.05
15 25 0.62
18 11 0.28
19 2 0.05
ACGTcount: A:0.21, C:0.30, G:0.27, T:0.22
Consensus pattern (15 bp):
GGGTATCGATTCCCC
Found at i:1032167 original size:21 final size:21
Alignment explanation
Indices: 1032141--1032182 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1032131 ATTTGAATAT
*
1032141 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
1032162 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
1032183 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:1032244 original size:21 final size:21
Alignment explanation
Indices: 1032211--1032250 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
1032201 TTTTTGTAGA
*
1032211 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
1032233 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
1032251 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:1032504 original size:34 final size:32
Alignment explanation
Indices: 1032465--1032534 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
1032455 TTTTGTAAAG
* *
1032465 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
1032499 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
1032531 GGGA
1 GGGA
1032535 GTTGTAAGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:1050482 original size:34 final size:34
Alignment explanation
Indices: 1050423--1050493 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
1050413 TTCTTGAGAG
*
1050423 TTGTTTTCTCCTTTTTATCAAGAGAGAA-TTATAA
1 TTGTTTTCTCCTTTTGATC-AGAGAGAAGTTATAA
*
1050457 TTGTTTTCTCCTTTGTAGATC-GAGAGAAGTTGTAA
1 TTGTTTTCTCCTTT-T-GATCAGAGAGAAGTTATAA
1050492 TT
1 TT
1050494 CCTATTTTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
34 21 0.66
35 8 0.25
36 3 0.09
ACGTcount: A:0.25, C:0.11, G:0.17, T:0.46
Consensus pattern (34 bp):
TTGTTTTCTCCTTTTGATCAGAGAGAAGTTATAA
Found at i:1051194 original size:3 final size:3
Alignment explanation
Indices: 1051188--1051227 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
1051178 AGAAGGTAAA
1051188 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1051228 GTGAGGGATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1054486 original size:15 final size:16
Alignment explanation
Indices: 1054469--1054500 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
1054459 GAAAATGTTA
1054469 TGTGAATTTGGATTATG
1 TGTGAATTTGGATTA-G
1054486 TGTGAATTTGGATTA
1 TGTGAATTTGGATTA
1054501 AATAGAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (16 bp):
TGTGAATTTGGATTAG
Found at i:1057909 original size:14 final size:14
Alignment explanation
Indices: 1057890--1057935 Score: 83
Period size: 14 Copynumber: 3.3 Consensus size: 14
1057880 CGCTGGGCAT
*
1057890 CGAGGCCATCCGAC
1 CGAGGCCATCCGAA
1057904 CGAGGCCATCCGAA
1 CGAGGCCATCCGAA
1057918 CGAGGCCATCCGAA
1 CGAGGCCATCCGAA
1057932 CGAG
1 CGAG
1057936 CTATGCGAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.26, C:0.37, G:0.30, T:0.07
Consensus pattern (14 bp):
CGAGGCCATCCGAA
Found at i:1057969 original size:23 final size:23
Alignment explanation
Indices: 1057918--1057977 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
1057908 GCCATCCGAA
* * *
1057918 CGAGGCCATCCGAACGAGCTATG
1 CGAGGGCAACCGAGCGAGCTATG
1057941 CGAGGGCAACCGAGCGAGCTATG
1 CGAGGGCAACCGAGCGAGCTATG
1057964 CGAGGG-AATCCGAG
1 CGAGGGCAA-CCGAG
1057978 GGCAACCGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 2 0.06
23 31 0.94
ACGTcount: A:0.27, C:0.27, G:0.37, T:0.10
Consensus pattern (23 bp):
CGAGGGCAACCGAGCGAGCTATG
Found at i:1058078 original size:10 final size:10
Alignment explanation
Indices: 1058036--1058130 Score: 64
Period size: 10 Copynumber: 8.9 Consensus size: 10
1058026 CGCTCGGTTG
*
1058036 CTCGGATTCC
1 CTCGGATGCC
*
1058046 CTCGCATAGCTC
1 CTCGGAT-GC-C
*
1058058 GCTCGGTTGCC
1 -CTCGGATGCC
1058069 CTCGGATGCC
1 CTCGGATGCC
*
1058079 CTCGCATAGCTC
1 CTCGGAT-GC-C
* *
1058091 GTTCGGATGGC
1 -CTCGGATGCC
*
1058102 CTCGGATGCT
1 CTCGGATGCC
*
1058112 CTCGGATGGC
1 CTCGGATGCC
1058122 CTCGGATGC
1 CTCGGATGC
1058131 TTTCAGATGG
Statistics
Matches: 64, Mismatches: 15, Indels: 12
0.70 0.16 0.13
Matches are distributed among these distances:
10 44 0.69
11 5 0.08
12 5 0.08
13 10 0.16
ACGTcount: A:0.11, C:0.35, G:0.29, T:0.25
Consensus pattern (10 bp):
CTCGGATGCC
Found at i:1058081 original size:33 final size:32
Alignment explanation
Indices: 1058024--1058115 Score: 123
Period size: 33 Copynumber: 2.8 Consensus size: 32
1058014 GCGACCTACC
*
1058024 CTCGCTCGGTTG-CTCGGATTCCCTCGCATAG
1 CTCGCTCGGTTGCCTCGGATGCCCTCGCATAG
1058055 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
1 CTCGCTCGGTTG-CCTCGGATGCCCTCGCATAG
* * *
1058088 CTCGTTCGGATGGCCTCGGATGCTCTCG
1 CTCGCTCGG-TTGCCTCGGATGCCCTCG
1058116 GATGGCCTCG
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
31 12 0.22
33 40 0.74
34 2 0.04
ACGTcount: A:0.09, C:0.36, G:0.28, T:0.27
Consensus pattern (32 bp):
CTCGCTCGGTTGCCTCGGATGCCCTCGCATAG
Found at i:1058116 original size:43 final size:40
Alignment explanation
Indices: 1058059--1058146 Score: 104
Period size: 43 Copynumber: 2.1 Consensus size: 40
1058049 GCATAGCTCG
* *
1058059 CTCGGTTGCCCTCGGATGCCCTCGCATAGCTCGTTCGGATGGC
1 CTCGGATGCCCTCGGATGCCCTCGCAT-GCT--TTCAGATGGC
* * *
1058102 CTCGGATGCTCTCGGATGGCCTCGGATGCTTTCAGATGGC
1 CTCGGATGCCCTCGGATGCCCTCGCATGCTTTCAGATGGC
1058142 CTCGG
1 CTCGG
1058147 TCGGATGGCC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
40 14 0.35
42 3 0.08
43 23 0.57
ACGTcount: A:0.10, C:0.32, G:0.32, T:0.26
Consensus pattern (40 bp):
CTCGGATGCCCTCGGATGCCCTCGCATGCTTTCAGATGGC
Found at i:1058118 original size:20 final size:20
Alignment explanation
Indices: 1058059--1058146 Score: 95
Period size: 20 Copynumber: 4.2 Consensus size: 20
1058049 GCATAGCTCG
* * *
1058059 CTCGGTTGCCCTCGGATGCC
1 CTCGGATGCTCTCGGATGGC
*
1058079 CTCGCATAGCTCGTTCGGATGGC
1 CTCGGAT-GCTC--TCGGATGGC
1058102 CTCGGATGCTCTCGGATGGC
1 CTCGGATGCTCTCGGATGGC
* *
1058122 CTCGGATGCTTTCAGATGGC
1 CTCGGATGCTCTCGGATGGC
1058142 CTCGG
1 CTCGG
1058147 TCGGATGGCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
20 37 0.64
21 3 0.05
22 4 0.07
23 14 0.24
ACGTcount: A:0.10, C:0.32, G:0.32, T:0.26
Consensus pattern (20 bp):
CTCGGATGCTCTCGGATGGC
Found at i:1060645 original size:3 final size:3
Alignment explanation
Indices: 1060637--1060661 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1060627 TTAATTAAGC
1060637 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
1060662 ATACATGAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1066042 original size:44 final size:43
Alignment explanation
Indices: 1065961--1066044 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
1065951 ACTCTCACAA
* * *
1065961 TCACAAACTTTTTATCTTTTTTCCCCTTGTCTCACTTTCAAAT
1 TCACAAACTTTTTATCTTTTTTCCCCTAGCCTAACTTTCAAAT
*
1066004 TCACAAACTTTTTATCTTTTTTTCCC-AGCCTGAAACTTTCA
1 TCACAAACTTTTTATCTTTTTTCCCCTAGCCT--AACTTTCA
1066045 CATCCCTCAC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 3 0.09
43 25 0.71
44 7 0.20
ACGTcount: A:0.23, C:0.27, G:0.04, T:0.46
Consensus pattern (43 bp):
TCACAAACTTTTTATCTTTTTTCCCCTAGCCTAACTTTCAAAT
Found at i:1068168 original size:2 final size:2
Alignment explanation
Indices: 1068161--1068196 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1068151 TAAACCGGCA
1068161 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
1068197 GTATGTATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1068387 original size:21 final size:21
Alignment explanation
Indices: 1068361--1068428 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
1068351 GGCACGAGAT
1068361 GGGATTGAAAATGGGGAATTA
1 GGGATTGAAAATGGGGAATTA
* *
1068382 GGGATT-AAGGCAT-GAG-A-T-
1 GGGATTGAA--AATGGGGAATTA
1068400 GGGATTGAAAATGGGGAATTA
1 GGGATTGAAAATGGGGAATTA
1068421 GGGATTGA
1 GGGATTGA
1068429 GGCACGGGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
17 2 0.06
18 8 0.22
19 4 0.11
20 4 0.11
21 16 0.44
22 2 0.06
ACGTcount: A:0.35, C:0.01, G:0.40, T:0.24
Consensus pattern (21 bp):
GGGATTGAAAATGGGGAATTA
Found at i:1068399 original size:39 final size:39
Alignment explanation
Indices: 1068340--1068434 Score: 172
Period size: 39 Copynumber: 2.4 Consensus size: 39
1068330 AAGTCAAGGG
1068340 TTAGGGATTGAGGCACGAGATGGGATTGAAAATGGGGAA
1 TTAGGGATTGAGGCACGAGATGGGATTGAAAATGGGGAA
* *
1068379 TTAGGGATTAAGGCATGAGATGGGATTGAAAATGGGGAA
1 TTAGGGATTGAGGCACGAGATGGGATTGAAAATGGGGAA
1068418 TTAGGGATTGAGGCACG
1 TTAGGGATTGAGGCACG
1068435 GGAAGGGGGA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.33, C:0.05, G:0.40, T:0.22
Consensus pattern (39 bp):
TTAGGGATTGAGGCACGAGATGGGATTGAAAATGGGGAA
Found at i:1073586 original size:39 final size:39
Alignment explanation
Indices: 1073543--1073630 Score: 158
Period size: 39 Copynumber: 2.3 Consensus size: 39
1073533 CAAGGGTTAG
*
1073543 GGATTGAGGCACGAGATGGGATTGAAAATGGGGAATTAA
1 GGATTGAGGCACGAGAAGGGATTGAAAATGGGGAATTAA
*
1073582 GGATTGAGGCATGAGAAGGGATTGAAAATGGGGAATTAA
1 GGATTGAGGCACGAGAAGGGATTGAAAATGGGGAATTAA
1073621 GGATTGAGGC
1 GGATTGAGGC
1073631 CTGAGTCTTC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.35, C:0.05, G:0.40, T:0.20
Consensus pattern (39 bp):
GGATTGAGGCACGAGAAGGGATTGAAAATGGGGAATTAA
Found at i:1073587 original size:21 final size:21
Alignment explanation
Indices: 1073561--1073627 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
1073551 GCACGAGATG
1073561 GGATTGAAAATGGGGAATTAA
1 GGATTGAAAATGGGGAATTAA
** * *
1073582 GGATTGAGGCAT-GAG-A--AG
1 GGATTGA-AAATGGGGAATTAA
1073600 GGATTGAAAATGGGGAATTAA
1 GGATTGAAAATGGGGAATTAA
1073621 GGATTGA
1 GGATTGA
1073628 GGCCTGAGTC
Statistics
Matches: 33, Mismatches: 8, Indels: 10
0.65 0.16 0.20
Matches are distributed among these distances:
17 2 0.06
18 10 0.30
19 1 0.03
20 1 0.03
21 17 0.52
22 2 0.06
ACGTcount: A:0.39, C:0.01, G:0.37, T:0.22
Consensus pattern (21 bp):
GGATTGAAAATGGGGAATTAA
Found at i:1074131 original size:20 final size:20
Alignment explanation
Indices: 1074106--1074144 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1074096 TAAATTAAAT
*
1074106 ATTAGATAGGATCAATTTTA
1 ATTAGATAGAATCAATTTTA
*
1074126 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAATTTT
1074145 TATTCTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.41
Consensus pattern (20 bp):
ATTAGATAGAATCAATTTTA
Found at i:1074196 original size:20 final size:20
Alignment explanation
Indices: 1074158--1074196 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1074148 TCTATTAGTT
* *
1074158 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCAGTTTTA
*
1074178 ATTAGATAGAATTAGTTTT
1 ATTAGATAGAATCAGTTTT
1074197 TTATTCTATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.46
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:1074221 original size:53 final size:52
Alignment explanation
Indices: 1074105--1074254 Score: 257
Period size: 53 Copynumber: 2.9 Consensus size: 52
1074095 CTAAATTAAA
*
1074105 TATTAGATAGGATCAATTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
*
1074157 TATTAGATAGGATCATTTTTAATTAGATAGAATTAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAG-TTTTTATTCTATTAGT
*
1074210 TATTAGATAGGATCATTTTTAATTAGATATAATCA-TTTTTATTCT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCT
1074255 GTTGCTAATT
Statistics
Matches: 93, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
51 10 0.11
52 34 0.37
53 49 0.53
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.49
Consensus pattern (52 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
Found at i:1074236 original size:20 final size:20
Alignment explanation
Indices: 1074211--1074250 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1074201 TCTATTAGTT
*
1074211 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCATTTTTA
*
1074231 ATTAGATATAATCATTTTTA
1 ATTAGATAGAATCATTTTTA
1074251 TTCTGTTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:1078753 original size:20 final size:20
Alignment explanation
Indices: 1078728--1078766 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1078718 TAAATTAAAT
* *
1078728 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAATTTTA
1078748 ATTAGATAGAATCAATTTT
1 ATTAGATAGAATCAATTTT
1078767 TATTCTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.41
Consensus pattern (20 bp):
ATTAGATAGAATCAATTTTA
Found at i:1078804 original size:19 final size:19
Alignment explanation
Indices: 1078780--1078816 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1078770 TCTATTAGTT
*
1078780 ATTAGATAGGATCATTTTA
1 ATTAGATAGAATCATTTTA
1078799 ATTAGATAGAATCATTTT
1 ATTAGATAGAATCATTTT
1078817 TTATTAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (19 bp):
ATTAGATAGAATCATTTTA
Done.