Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002823.1 Hibiscus syriacus cultivar Beakdansim tig00005805_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: 91473
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:6473 original size:41 final size:41
Alignment explanation
Indices: 6376--6476 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 41
6366 GTAAACAATT
* * * ** *
6376 TAAGTCCCTCGGGCCATCAGTAAGTCTTTCGAGCATGATGA
1 TAAGTCCTTCGGGTCATCAGTAAGCCTTTAAAGCAAGATGA
* *
6417 TGAAATCCTTCGGGTCATCTGTAAGCCTTTAAAGCAAGATGA
1 T-AAGTCCTTCGGGTCATCAGTAAGCCTTTAAAGCAAGATGA
6459 TAAGTCCTTCGGGTCATC
1 TAAGTCCTTCGGGTCATC
6477 CATAAGACCT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 17 0.34
42 33 0.66
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (41 bp):
TAAGTCCTTCGGGTCATCAGTAAGCCTTTAAAGCAAGATGA
Found at i:6618 original size:20 final size:20
Alignment explanation
Indices: 6593--6665 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
6583 CCGCACTTAG
6593 TAAGTCCTTCGGGCCATCAA
1 TAAGTCCTTCGGGCCATCAA
* * * *
6613 TAAGTCTTTTGAG-CATGATGA
1 TAAGTCCTTCGGGCCATCA--A
*
6634 TGAAGTCCTTCGGGCCATCAG
1 T-AAGTCCTTCGGGCCATCAA
*
6655 TAAGTCTTTCG
1 TAAGTCCTTCG
6666 AGCATGATGA
Statistics
Matches: 39, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
19 4 0.10
20 19 0.49
21 3 0.08
22 9 0.23
23 4 0.10
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (20 bp):
TAAGTCCTTCGGGCCATCAA
Found at i:6653 original size:42 final size:42
Alignment explanation
Indices: 6594--6685 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
6584 CGCACTTAGT
*
6594 AAGTCCTTCGGGCCATCAATAAGTCTTTTGAGCATGATGATG
1 AAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGATG
* *
6636 AAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATT
1 AAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGATG
*
6678 AAATCCTT
1 AAGTCCTT
6686 AGGGTAATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (42 bp):
AAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGATG
Found at i:6748 original size:80 final size:80
Alignment explanation
Indices: 6649--6865 Score: 328
Period size: 80 Copynumber: 2.7 Consensus size: 80
6639 TCCTTCGGGC
* *
6649 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTAGGGTAATTTGTAAGCCTTCACGGAAAA
1 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAAA
6714 GTAGTGAAGCAAAC-
66 GTAGTGAAGCAAACT
* * *
6728 CTATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGGAATTTGTAAGCCTTCACCGAAG
1 C-ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAA
*
6793 AGTAGTGAAGCAAATT
65 AGTAGTGAAGCAAACT
* * * *
6809 CATCAGTAAGTCTTTCGAGCATTATGATGAAATCCTTCGGGTTATTTGTAAGTCTTC
1 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTC
6866 TGAGCGAGAT
Statistics
Matches: 124, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
79 1 0.01
80 122 0.98
81 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (80 bp):
CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAAA
GTAGTGAAGCAAACT
Found at i:7333 original size:50 final size:53
Alignment explanation
Indices: 7279--7532 Score: 255
Period size: 53 Copynumber: 4.8 Consensus size: 53
7269 CACCAGAATG
* * * *
7279 TTGTTCGAGTTTTACTCCTTGAAGAAAGAGGGAG-G-A-CTGTAGGCAGAAGA
1 TTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAAGA
* * *
7329 TTGTTCGAGTTCTACACCCTGATGCAAGAGGGAGTGAACCCGTAGGCAGAAGA
1 TTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAAGA
* * *
7382 TTTTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCATAAGCAGAAGA
1 TTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAAGA
* * * * * ****
7435 TTATTCGAGTTTCAACTCCCTGAAGTAATAGGGAGCGAACCCATTTTTAGAAGA
1 TTGTTCGAG-TTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAAGA
* * *
7489 TTGTTCGAGTTCCTTAATCCCTGAA-CAAGAGGGATCAAACCCGT
1 TTGTTCGAGTT-C-TACTCCCTGAAGCAAGAGGGAGCGAACCCGT
7533 CATTTGAAGA
Statistics
Matches: 170, Mismatches: 28, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
50 29 0.17
51 1 0.01
52 1 0.01
53 70 0.41
54 60 0.35
55 9 0.05
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.25
Consensus pattern (53 bp):
TTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAAGA
Found at i:7496 original size:107 final size:103
Alignment explanation
Indices: 7279--7522 Score: 247
Period size: 107 Copynumber: 2.3 Consensus size: 103
7269 CACCAGAATG
* * * ** * * *
7279 TTGTTCGAGTTTTACTCCTTGAAGAAAGAGGGAGGACTGTAGGCAGAAGATTGTTCGAGTTCTAC
1 TTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGGACCATAAGCAGAAGATTATTCGAGTTCAAC
* * *
7344 ACCCTGATGCAAGAGGGAGTGAACCCGTAGGCAGAAGA
66 ACCCTGAAGCAAGAGGGAGCGAACCCATAGGCAGAAGA
*
7382 TTTTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCATAAGCAGAAGATTATTCGAGTTT
1 TTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAG-G-A-CCATAAGCAGAAGATTATTCGAG-TT
* * * ****
7447 CAACTCCCTGAAGTAATAGGGAGCGAACCCATTTTTAGAAGA
62 CAACACCCTGAAGCAAGAGGGAGCGAACCCATAGGCAGAAGA
*
7489 TTGTTCGAGTTCCTTAATCCCTGAA-CAAGAGGGA
1 TTGTTCGAGTT-C-TACTCCCTGAAGCAAGAGGGA
7523 TCAAACCCGT
Statistics
Matches: 114, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
103 30 0.26
104 1 0.01
105 1 0.01
106 19 0.17
107 43 0.38
108 10 0.09
109 10 0.09
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (103 bp):
TTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGGACCATAAGCAGAAGATTATTCGAGTTCAAC
ACCCTGAAGCAAGAGGGAGCGAACCCATAGGCAGAAGA
Found at i:13440 original size:153 final size:153
Alignment explanation
Indices: 12780--14273 Score: 2276
Period size: 154 Copynumber: 9.8 Consensus size: 153
12770 GGGTATGACA
* ** * *
12780 TTCACTGTATTTGGAACGAGACAAACACACAACATTATTAGG-AAAAAAGATATAAAAAAACAAC
1 TTCACTGTATTGGGAACGAGACAAACACACTCCATTATTAGGAAAAAAAGATATAAAAAAACTAT
12844 AGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAA-TCACTGTTAGG
66 AGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTGTTAGG
*
12908 GAAAAGATTACATTGTACAATTT
131 GAAAAGATTACATTGTACAAGTT
* *
12931 TTCACTGTATTGGAAACGAGACAAACACACTCCATTATTAGGAAAAAAACATATATAAAAAATCT
1 TTCACTGTATTGGGAACGAGACAAACACACTCCATTATTAGGAAAAAAAGATATA-AAAAAA-CT
* * * *
12996 ATAAACAAATTTAAGTTTCATGTATTGGGTTTGGATTGAAAATTC-TTAAAACAATTCACTGTTA
64 ATAGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTGTTA
13060 GGGAAAAGATTACATTGTACAAGTT
129 GGGAAAAGATTACATTGTACAAGTT
* *
13085 TTCACTGTATTGGAAACGAGACAAACACACTCCATTATTAGGAAAAAAACATATATAAAAAATCT
1 TTCACTGTATTGGGAACGAGACAAACACACTCCATTATTAGGAAAAAAAGATATA-AAAAAA-CT
* * * *
13150 ATAAACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAATTC-TTAAAACAATCCACTGTTA
64 ATAGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTGTTA
13214 GGGAAAAGATTACATTGTACAAGTT
129 GGGAAAAGATTACATTGTACAAGTT
* * * *
13239 TTC-CTTTATTGGTAACAAGACAAACACACTCCATTATTAGGGGAAAAAAAGATATAAAAATACT
1 TTCACTGTATTGGGAACGAGACAAACACACTCCATTATTA--GGAAAAAAAGATATAAAAAAACT
* *
13303 ATAGACTCATTTAAGATTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAAATTCACTGTT
64 ATAGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTT-AAAAAAATTCACTGTT
13368 AGGGAAAAGATTACATTGTACAAGTT
128 AGGGAAAAGATTACATTGTACAAGTT
13394 TTCACTGTATTGGGAA-GAAGACAAACACACTCCATTATTAGGAAAAAAAGATATAAAAAAA-TA
1 TTCACTGTATTGGGAACG-AGACAAACACACTCCATTATTAGGAAAAAAAGATATAAAAAAACTA
* * *
13457 TAGACACTTTTAAGTTT-ATGTATTGGGTTTTGATTGAAAACTCTTT-AAAAAATCCACTGTTAG
65 TAGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTGTTAG
*
13520 GGAAAAGATTACATTATACAAGTT
130 GGAAAAGATTACATTGTACAAGTT
* * *
13544 TTCATTGTATTGGGAAGGAGACAAACACACTCCATTATTAGG-AAAAAAGATAAAAAAAAAACTA
1 TTCACTGTATTGGGAACGAGACAAACACACTCCATTATTAGGAAAAAAAGAT-ATAAAAAAACTA
*
13608 TAGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTT-AAAATATTCACTGTTAG
65 TAGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTGTTAG
*
13672 GGAAAAGTTTACATTGTACAAGTT
130 GGAAAAGATTACATTGTACAAGTT
*
13696 TTCATTGTATTGGGAACGAGACAAACACACTCCATTATTAGGAAAAAAAGATATAAAAAAACTAT
1 TTCACTGTATTGGGAACGAGACAAACACACTCCATTATTAGGAAAAAAAGATATAAAAAAACTAT
* *
13761 AGACACGTTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTATTAGG
66 AGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTGTTAGG
13826 GAAAAGATTACATTGTACAAGTT
131 GAAAAGATTACATTGTACAAGTT
* *
13849 TTCACTGTATTGGGAACAAGACAAACACACTCCATTATTAGGAAAAAAAATATATAAAAAAAACT
1 TTCACTGTATTGGGAACGAGACAAACACACTCCATTATTAGG-AAAAAAAGATAT-AAAAAAACT
* * * *
13914 ATAGACACTTTTAAGTTTCATGTACTGGGTTTCGATTGAAAACTCTTT-AAAAAATTCAGTGTTA
64 ATAGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTGTTA
13978 GGGAAAAGATTACATTGTACAAGTT
129 GGGAAAAGATTACATTGTACAAGTT
* * *
14003 TTCACTGTATTGGGAACGAGACAAACACACTCCATTAATAAGAAAAAAATATATAAAAAAAACTA
1 TTCACTGTATTGGGAACGAGACAAACACACTCCATTATTAGGAAAAAAAGATAT-AAAAAAACTA
* * * *
14068 TAGAGACTTTTAAGTTTCATGTATTGGGTTTGGATTGGAAACTCTTTAAAAAAAAATT-ACTATT
65 TAGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTT--AAAAAAATTCACTGTT
14132 AGGGAAAAGATTACATTGTACAAGTT
128 AGGGAAAAGATTACATTGTACAAGTT
* * *
14158 TTCAGTGTATTGGGAACAAGACAAACACATTCCATTATTAGGAAAAAAAGATATAAAAAAACTAT
1 TTCACTGTATTGGGAACGAGACAAACACACTCCATTATTAGGAAAAAAAGATATAAAAAAACTAT
* * *
14223 AGATACGTTTAAGTTTCATGTATTGGGTTTGGATTAAAAACTCTTTAAAAA
66 AGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAA
14274 TGGCAATGAA
Statistics
Matches: 1246, Mismatches: 76, Indels: 41
0.91 0.06 0.03
Matches are distributed among these distances:
149 9 0.01
150 86 0.07
151 57 0.05
152 207 0.17
153 259 0.21
154 399 0.32
155 189 0.15
156 40 0.03
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (153 bp):
TTCACTGTATTGGGAACGAGACAAACACACTCCATTATTAGGAAAAAAAGATATAAAAAAACTAT
AGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTGTTAGG
GAAAAGATTACATTGTACAAGTT
Found at i:22718 original size:19 final size:19
Alignment explanation
Indices: 22694--22734 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
22684 CTTTCTCCGG
22694 TTCTGTCTCTC-TCTTTTTT
1 TTCTGTCTC-CGTCTTTTTT
*
22713 TTCTGTCTCCGTTTTTTTT
1 TTCTGTCTCCGTCTTTTTT
22732 TTC
1 TTC
22735 AGGTTGGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.00, C:0.24, G:0.07, T:0.68
Consensus pattern (19 bp):
TTCTGTCTCCGTCTTTTTT
Found at i:22727 original size:17 final size:17
Alignment explanation
Indices: 22659--22731 Score: 62
Period size: 17 Copynumber: 4.5 Consensus size: 17
22649 TTTAGTAGTT
*
22659 TTTTTTTTCTTTCTCTG
1 TTTTTTTTCTTTCTCCG
*
22676 TTTTTTTCCTTTCTCCG
1 TTTTTTTTCTTTCTCCG
* * * *
22693 -GTTCTGTCTCTCT-C-
1 TTTTTTTTCTTTCTCCG
*
22707 TTTTTTTTCTGTCTCCG
1 TTTTTTTTCTTTCTCCG
22724 TTTTTTTT
1 TTTTTTTT
22732 TTCAGGTTGG
Statistics
Matches: 42, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
15 10 0.24
16 9 0.21
17 23 0.55
ACGTcount: A:0.00, C:0.23, G:0.08, T:0.68
Consensus pattern (17 bp):
TTTTTTTTCTTTCTCCG
Found at i:23163 original size:17 final size:15
Alignment explanation
Indices: 23142--23175 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
23132 GGTCTGTAAT
23142 TATTTA-TT-ATATA
1 TATTTATTTAATATA
23155 TATTTATTTAATATA
1 TATTTATTTAATATA
23170 TATTTA
1 TATTTA
23176 ATAATAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 2 0.11
15 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TATTTATTTAATATA
Found at i:23182 original size:3 final size:3
Alignment explanation
Indices: 23174--23232 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
23164 AATATATATT
23174 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23222 TAA TAA TAA TA
1 TAA TAA TAA TA
23233 TGGATAAAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:23738 original size:117 final size:116
Alignment explanation
Indices: 23458--23887 Score: 573
Period size: 117 Copynumber: 3.7 Consensus size: 116
23448 TAGAATTATG
* * *
23458 CAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTT-CTTCTTCATATGAGGAGTTCTTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
* * * * *
23522 TCATTATGAACTTTCTCTGG-AA-GAAATAATCCATCCAGTGATGAATTCAGA-
66 TCATTATGAACTTTC-CTGGCAATG--TTGATCCATCAAATGATGAATTCAAAC
* * * *
23573 TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
23638 TCATTATGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
66 TCATTATGAACT-TTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
* * *
23690 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTTTTCCTTCTTCAGATGATGAGTTCTTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
* *
23755 TCATTATGAACTCTACCTGGCAATGTTGATCCATAAAATGATGAATTCAAAC
66 TCATTATGAACT-TTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
* * ***
23807 CAAAAAATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTTTTCAT-ATGAGTTCTT
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC-TTCAGATGATGAGTTCTT
23871 CTCATTATGAACTTTCC
65 CTCATTATGAACTTTCC
23888 GCTGGGGATG
Statistics
Matches: 282, Mismatches: 27, Indels: 11
0.88 0.08 0.03
Matches are distributed among these distances:
115 37 0.13
116 61 0.22
117 179 0.63
118 5 0.02
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (116 bp):
CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
TCATTATGAACTTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
Found at i:23967 original size:95 final size:93
Alignment explanation
Indices: 23861--24039 Score: 259
Period size: 94 Copynumber: 1.9 Consensus size: 93
23851 TCTTTTTCAT
** * * * *
23861 ATGAGTTCTTCTCATTATGAACTTTCCGCTGGGGATGATGCTCCATCAAGTAATGGATTCATGTA
1 ATGAGTTCTTCTCATTATGAACTTT-CGCTGGAAAAGATGATCCATCAAATAATGGATTCAAGTA
23926 AAAGGTTTGAACAAATTCTTCCTTCTTTAG
65 AAAGG-TTGAACAAATTCTTCCTTCTTTAG
* * *
23956 ATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAAGTAA
1 ATGAGTTCTTCTCATTATGAACTTTCGCTGGAAAAGATGATCCATCAAATAATGGATTCAAGTAA
24021 AAGGTTGAACAAATTCTTC
66 AAGGTTGAACAAATTCTTC
24040 TCATTATGAA
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
93 15 0.20
94 35 0.47
95 25 0.33
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (93 bp):
ATGAGTTCTTCTCATTATGAACTTTCGCTGGAAAAGATGATCCATCAAATAATGGATTCAAGTAA
AAGGTTGAACAAATTCTTCCTTCTTTAG
Found at i:24061 original size:113 final size:113
Alignment explanation
Indices: 23941--24151 Score: 395
Period size: 113 Copynumber: 1.9 Consensus size: 113
23931 TTTGAACAAA
* *
23941 TTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAAT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAACTGATCCATCAAAT
24006 GATGGATTCAAGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
66 GATGGATTCAAGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
24054 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAACTGATCCATCAAAT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAACTGATCCATCAAAT
*
24119 GATGGATTCAGGTAAAAGGTTGAACAAATTCTT
66 GATGGATTCAAGTAAAAGGTTGAACAAATTCTT
24152 ACTTCTTTAG
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
113 95 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.37
Consensus pattern (113 bp):
TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAACTGATCCATCAAAT
GATGGATTCAAGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
Found at i:24178 original size:206 final size:210
Alignment explanation
Indices: 23743--24209 Score: 633
Period size: 206 Copynumber: 2.2 Consensus size: 210
23733 TTCTTCAGAT
* * * * *
23743 GATGAGTTCTTCTCATTATGAACTCTAC-CTGGCAATGTTGATCCATAAAATGATGAATTCAAAC
1 GATGAGTTCTTCTCATTATGAACT-TTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAAAC
* * *
23807 CAAAAAATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTTTTCATATGAGTTCTTC
65 CAAAAAATTGAACAAATTCTTCTCATTATGAACTTCTTCTTC--TCTTCTTCAGATGAGTTCTTC
* ** * * *
23872 TCATTATGAACTTTCCGCTGGGGATGATGCTCCATCAAGTAATGGATTCATGTAAAAGGTTTGAA
128 TCATTATGAACTTTCCGCTGGGAAAAATGATCCATCAAATAATGGATTCAGGTAAAAGGTTTGAA
*
23937 CAAATTCTTCCTTCTTTA
193 CAAATTCTTACTTCTTTA
* * **
23955 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTC-AAGT
1 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAAACC
**
24019 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC-CTTCTTCAGATGAGTTCTTCTCA
66 AAAAAATTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTCTTCTTCAGATGAGTTCTTCTCA
* *
24083 TTATGAACTTT-CTCT-GGAAAAACTGATCCATCAAATGATGGATTCAGGTAAAAGG-TTGAACA
131 TTATGAACTTTCCGCTGGGAAAAA-TGATCCATCAAATAATGGATTCAGGTAAAAGGTTTGAACA
24145 AATTCTTACTTCTTTA
195 AATTCTTACTTCTTTA
24161 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAGAA-ATGATCCATCAA
1 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAA-AAGATGATCCATCAA
24210 GTGGATTCGA
Statistics
Matches: 229, Mismatches: 23, Indels: 12
0.87 0.09 0.05
Matches are distributed among these distances:
206 71 0.31
207 33 0.14
208 32 0.14
211 42 0.18
212 51 0.22
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (210 bp):
GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAAACC
AAAAAATTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTCCGCTGGGAAAAATGATCCATCAAATAATGGATTCAGGTAAAAGGTTTGAACAA
ATTCTTACTTCTTTA
Found at i:25167 original size:82 final size:82
Alignment explanation
Indices: 24952--25499 Score: 942
Period size: 82 Copynumber: 6.7 Consensus size: 82
24942 CCTACTGAAT
** *
24952 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCGAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAACTCAA
25017 TGATTGGTTCTG-CCAAAC
66 TGATT-GTTCTGTCC-AAC
*
25035 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-ACAAATTCATCTTCTAAACTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACACATTCATCTTCTAAACTCA
25099 ATGATTGTTCTGTCCAAC
65 ATGATTGTTCTGTCCAAC
** *
25117 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCGAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAACTCAA
25182 TGATTGTTCTGTCCAAC
66 TGATTGTTCTGTCCAAC
*
25199 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-ACAAATTCATCTTCTAAACTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACACATTCATCTTCTAAACTCA
25263 ATGATTGTTCTGTCCAAC
65 ATGATTGTTCTGTCCAAC
*
25281 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-ACAAATTCATCTTCTAAACTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACACATTCATCTTCTAAACTCA
25345 ATGATTGTTCTGTCCAAC
65 ATGATTGTTCTGTCCAAC
25363 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAACTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAACTCAA
25428 TGATTGTTCTGTCCAAC
66 TGATTGTTCTGTCCAAC
25445 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTT
25500 TCATTTAATT
Statistics
Matches: 447, Mismatches: 13, Indels: 11
0.95 0.03 0.02
Matches are distributed among these distances:
81 4 0.01
82 374 0.84
83 67 0.15
84 2 0.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.27
Consensus pattern (82 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAACTCAA
TGATTGTTCTGTCCAAC
Found at i:26302 original size:16 final size:18
Alignment explanation
Indices: 26262--26307 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
26252 ATCATAGAAG
*
26262 AATAAATTGAATTTCCCAA
1 AATAAATTGAATCTCCC-A
26281 AATAAATTGAATCT-CC-
1 AATAAATTGAATCTCCCA
26297 AATAAATTGAA
1 AATAAATTGAA
26308 CTTGAAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 11 0.42
18 2 0.08
19 13 0.50
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (18 bp):
AATAAATTGAATCTCCCA
Found at i:38050 original size:19 final size:20
Alignment explanation
Indices: 38019--38060 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
38009 TTTATTATAT
*
38019 ATATTTATGAATA-CATAAA
1 ATATTTATGAATATAATAAA
38038 ATATTTAAT-AATATAATAAA
1 ATATTT-ATGAATATAATAAA
38058 ATA
1 ATA
38061 AAAATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
ATATTTATGAATATAATAAA
Found at i:38991 original size:19 final size:19
Alignment explanation
Indices: 38967--39007 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
38957 CTTTCTCCGG
38967 TTCTGTCTCTC-TCTTTTTT
1 TTCTGTCTC-CGTCTTTTTT
*
38986 TTCTGTCTCCGTTTTTTTT
1 TTCTGTCTCCGTCTTTTTT
39005 TTC
1 TTC
39008 AGGTTGGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.00, C:0.24, G:0.07, T:0.68
Consensus pattern (19 bp):
TTCTGTCTCCGTCTTTTTT
Found at i:39465 original size:17 final size:15
Alignment explanation
Indices: 39422--39462 Score: 68
Period size: 14 Copynumber: 2.9 Consensus size: 15
39412 GGTCTGTAAT
39422 TATTTATTT-ATATA
1 TATTTATTTAATATA
39436 TATTTATTTAATATA
1 TATTTATTTAATATA
39451 TATTTA-TTAATA
1 TATTTATTTAATA
39463 ATAATAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTTATTTAATATA
Found at i:39466 original size:3 final size:3
Alignment explanation
Indices: 39458--39525 Score: 118
Period size: 3 Copynumber: 22.7 Consensus size: 3
39448 ATATATTTAT
*
39458 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
39506 TAA TAA TAA TAA TAA AAA TA
1 TAA TAA TAA TAA TAA TAA TA
39526 TGGATAAAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:41214 original size:22 final size:22
Alignment explanation
Indices: 41186--41244 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
41176 AAATCAGTCG
*
41186 TTTGTAACTCATGCAATAAAAC
1 TTTGTAACTCTTGCAATAAAAC
* *
41208 TTTGTAACTCTTGCAGTAAAGC
1 TTTGTAACTCTTGCAATAAAAC
41230 TTTGTAACTCTTGCA
1 TTTGTAACTCTTGCA
41245 TTTATTCTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.37
Consensus pattern (22 bp):
TTTGTAACTCTTGCAATAAAAC
Found at i:49732 original size:92 final size:92
Alignment explanation
Indices: 49624--49807 Score: 368
Period size: 92 Copynumber: 2.0 Consensus size: 92
49614 GATGGCTGAA
49624 ACTATCCATTGTGTTAATAATTCTTCTTCTATTAGCTAGTTAAGAGGTTAAGAAATAGGCACCTT
1 ACTATCCATTGTGTTAATAATTCTTCTTCTATTAGCTAGTTAAGAGGTTAAGAAATAGGCACCTT
49689 GTAGCAAACGATGATATCGGGTTATCG
66 GTAGCAAACGATGATATCGGGTTATCG
49716 ACTATCCATTGTGTTAATAATTCTTCTTCTATTAGCTAGTTAAGAGGTTAAGAAATAGGCACCTT
1 ACTATCCATTGTGTTAATAATTCTTCTTCTATTAGCTAGTTAAGAGGTTAAGAAATAGGCACCTT
49781 GTAGCAAACGATGATATCGGGTTATCG
66 GTAGCAAACGATGATATCGGGTTATCG
49808 GTATGAATGA
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (92 bp):
ACTATCCATTGTGTTAATAATTCTTCTTCTATTAGCTAGTTAAGAGGTTAAGAAATAGGCACCTT
GTAGCAAACGATGATATCGGGTTATCG
Found at i:50073 original size:13 final size:13
Alignment explanation
Indices: 50055--50086 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
50045 GTCATAAATC
*
50055 TATGACGCGCATT
1 TATGACGCGCATG
50068 TATGACGCGCATG
1 TATGACGCGCATG
50081 TATGAC
1 TATGAC
50087 TTACATTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (13 bp):
TATGACGCGCATG
Found at i:50236 original size:85 final size:85
Alignment explanation
Indices: 50065--50362 Score: 485
Period size: 85 Copynumber: 3.5 Consensus size: 85
50055 TATGACGCGC
* *
50065 ATTTATGACGCGCATGTATGACTTACATTGCACGTCATTGAAG-CCCCGTCATAAATTAAGATGA
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAAGATGA
50129 CACACATTTGTGCGTCATAA
66 CACACATTTGTGCGTCATAA
*
50149 ATTTATGACACGCATGTATGACTTACATTGTGCGTCATTGAAGCCCCCGTCATAAATTAAGATGA
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAAGATGA
50214 CACACATTTGTGCGTCATAA
66 CACACATTTGTGCGTCATAA
*
50234 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATCT--GCTT
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAAT-TAAG-AT
* *
50297 GACATACATTTGTGTGTCATAA
64 GACACACATTTGTGCGTCATAA
* *
50319 ATTTATGACACGCATATATGACTTACATTGCGTGTCATTGAAGC
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGC
50363 ACACATCATT
Statistics
Matches: 202, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
84 41 0.20
85 160 0.79
86 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (85 bp):
ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAAGATGA
CACACATTTGTGCGTCATAA
Found at i:50426 original size:2 final size:2
Alignment explanation
Indices: 50419--50453 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
50409 TTTCGGAAAT
50419 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
50454 TGTAGATTGA
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
Found at i:61916 original size:22 final size:22
Alignment explanation
Indices: 61873--61918 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
61863 ACTAATGACT
* *
61873 AAATTTAATTAAAAATTAATTG
1 AAATTAAATTAAAAAATAATTG
61895 AAATTAAATTAATAAAAT-ATTG
1 AAATTAAATTAA-AAAATAATTG
61917 AA
1 AA
61919 TATTGAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (22 bp):
AAATTAAATTAAAAAATAATTG
Found at i:62046 original size:16 final size:17
Alignment explanation
Indices: 62009--62055 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
61999 ATTTCTGAGA
*
62009 GAATTAGAATCTTTTAAG
1 GAATTAGAATC-TGTAAG
62027 GAATTAGAATCTGT-AG
1 GAATTAGAATCTGTAAG
*
62043 GAATTGGAATCTG
1 GAATTAGAATCTG
62056 AATCTGAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 14 0.52
17 2 0.07
18 11 0.41
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.34
Consensus pattern (17 bp):
GAATTAGAATCTGTAAG
Found at i:65814 original size:38 final size:35
Alignment explanation
Indices: 65759--65874 Score: 123
Period size: 33 Copynumber: 3.3 Consensus size: 35
65749 AAACTCGAAC
* *
65759 CCGACCCGAATAGCACACTTAAAAAAACCTGATCCGAT
1 CCGACCCGAATATCACACTTAAAAAAACCCGA-CC--T
*
65797 CCGACCCGAATATCACACTTACAAAAACCCGACCT
1 CCGACCCGAATATCACACTTAAAAAAACCCGACCT
* * *
65832 --GACCCGAATATCAAACTTTAAAAAACCAGA-C-
1 CCGACCCGAATATCACACTTAAAAAAACCCGACCT
65863 CCGACCCGAATA
1 CCGACCCGAATA
65875 CCAAAAGATT
Statistics
Matches: 69, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
32 1 0.01
33 36 0.52
35 1 0.01
37 2 0.03
38 29 0.42
ACGTcount: A:0.41, C:0.34, G:0.11, T:0.15
Consensus pattern (35 bp):
CCGACCCGAATATCACACTTAAAAAAACCCGACCT
Found at i:76856 original size:19 final size:19
Alignment explanation
Indices: 76832--76883 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
76822 TCATTCAAAA
*
76832 AATATTATTTT-ATTTATTT
1 AATATTATTTTAATAT-TTT
* *
76851 AATATTAATATAATATTTT
1 AATATTATTTTAATATTTT
76870 AATATTATTTTAAT
1 AATATTATTTTAAT
76884 GAAAATATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 24 0.89
20 3 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
AATATTATTTTAATATTTT
Found at i:77004 original size:26 final size:26
Alignment explanation
Indices: 76967--77017 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
76957 TATATTATAA
* *
76967 TAATATATTATATTATATTTTTAATT
1 TAATATATTATAATAAATTTTTAATT
76993 TAATA-ATGTATAATAAATTTTTAAT
1 TAATATAT-TATAATAAATTTTTAAT
77018 ATAGTTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (26 bp):
TAATATATTATAATAAATTTTTAATT
Found at i:77131 original size:19 final size:19
Alignment explanation
Indices: 77077--77122 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
77067 TAATAGTGAA
*
77077 TAATATTAAT-TTATACATT
1 TAATATTAATATAATA-ATT
77096 TAATATTAATATAATAATT
1 TAATATTAATATAATAATT
77115 TAATATTA
1 TAATATTA
77123 TGTTAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TAATATTAATATAATAATT
Found at i:77423 original size:15 final size:15
Alignment explanation
Indices: 77403--77451 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
77393 AATGTAATTT
*
77403 ATTTTACTTAAAACA
1 ATTTTACGTAAAACA
* **
77418 ATTTTAGGTAATTC-
1 ATTTTACGTAAAACA
77432 ATTTTACGTAAAACA
1 ATTTTACGTAAAACA
77447 ATTTT
1 ATTTT
77452 CAAGTGTTTC
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (15 bp):
ATTTTACGTAAAACA
Found at i:77465 original size:30 final size:30
Alignment explanation
Indices: 77396--77503 Score: 119
Period size: 30 Copynumber: 3.6 Consensus size: 30
77386 TTTTTTAAAT
* * *
77396 GTAATTTATTTTACTTAAAACAATTTT-AG
1 GTAATTCATTTTACGTAAAACAATTTTCAA
77425 GTAATTCATTTTACGTAAAACAATTTTCAA
1 GTAATTCATTTTACGTAAAACAATTTTCAA
** * * *
77455 GTGTTTCATTTTAAGTAAAAGAGTTTTCAA
1 GTAATTCATTTTACGTAAAACAATTTTCAA
* *
77485 GTAATTCACTTCACGTAAA
1 GTAATTCATTTTACGTAAA
77504 TTAATTTACA
Statistics
Matches: 65, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
29 25 0.38
30 40 0.62
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.42
Consensus pattern (30 bp):
GTAATTCATTTTACGTAAAACAATTTTCAA
Found at i:83062 original size:34 final size:34
Alignment explanation
Indices: 83017--83083 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
83007 AATAGGAATT
*
83017 ACAACTTCTCTC-GATCTAACAAGGAGAAAACAATG
1 ACAACTTCTCTCTGA--TAAAAAGGAGAAAACAATG
83052 ACAA-TTCTCTCTTGATAAAAAGGAGAAAACAA
1 ACAACTTCTCTC-TGATAAAAAGGAGAAAACAA
83084 CTCTCAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 23 0.79
35 4 0.14
36 2 0.07
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.21
Consensus pattern (34 bp):
ACAACTTCTCTCTGATAAAAAGGAGAAAACAATG
Done.