Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001134.1 Hibiscus syriacus cultivar Beakdansim tig00002261_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: 206115
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 2 of 2
Found at i:170178 original size:18 final size:17
Alignment explanation
Indices: 170138--170179 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
170128 TTATACATAC
170138 ATTTT-TATATTTTTAT
1 ATTTTATATATTTTTAT
*
170154 ATATTTATATATTTTTTTT
1 AT-TTTATATA-TTTTTAT
170173 ATTTTAT
1 ATTTTAT
170180 TTATACTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 2 0.09
17 3 0.14
18 9 0.41
19 8 0.36
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTTTATATATTTTTAT
Found at i:170195 original size:22 final size:22
Alignment explanation
Indices: 170155--170199 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
170145 TATTTTTATA
*
170155 TATTTATATATTTTTTTTATTT
1 TATTTATATATTTTATTTATTT
170177 TATTTATACTA-TTTATTTATTT
1 TATTTATA-TATTTTATTTATTT
170199 T
1 T
170200 CATTATGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (22 bp):
TATTTATATATTTTATTTATTT
Found at i:171519 original size:19 final size:19
Alignment explanation
Indices: 171495--171531 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
171485 ACCTTACTAA
171495 CTCTTTTCATTTT-TTTCCT
1 CTCTTTT-ATTTTATTTCCT
171514 CTCTTTTATTTTATTTCC
1 CTCTTTTATTTTATTTCC
171532 ATCATCTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (19 bp):
CTCTTTTATTTTATTTCCT
Found at i:174896 original size:8 final size:8
Alignment explanation
Indices: 174885--174945 Score: 52
Period size: 8 Copynumber: 7.6 Consensus size: 8
174875 CAAAAAGGGC
174885 AAAAAG-A
1 AAAAAGAA
174892 AAAAAGAA
1 AAAAAGAA
* *
174900 AAGAAGCA
1 AAAAAGAA
*
174908 AAAAAGGA
1 AAAAAGAA
*
174916 AAAAACAA
1 AAAAAGAA
* *
174924 AAGAACAA
1 AAAAAGAA
174932 AAAAAGAA
1 AAAAAGAA
174940 CAAAAA
1 -AAAAA
174946 TCGAAAGAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
7 6 0.14
8 32 0.74
9 5 0.12
ACGTcount: A:0.80, C:0.07, G:0.13, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:174917 original size:24 final size:22
Alignment explanation
Indices: 174885--174944 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 22
174875 CAAAAAGGGC
*
174885 AAAAAGAAAAAAGAAAAGAAGCA
1 AAAAAGAAAAAACAAAAGAA-CA
174908 AAAAAGGAAAAAACAAAAGAACAA
1 AAAAA-GAAAAAACAAAAGAAC-A
174932 AAAAAGAACAAAA
1 AAAAAGAA-AAAA
174945 ATCGAAAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
23 9 0.27
24 24 0.73
ACGTcount: A:0.80, C:0.07, G:0.13, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAAAACAAAAGAACA
Found at i:174918 original size:23 final size:23
Alignment explanation
Indices: 174885--174954 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 23
174875 CAAAAAGGGC
*
174885 AAAAAG-AAAAAAGAAAAGAAGCA
1 AAAAAGAAAAAAACAAAAGAA-CA
*
174908 AAAAAGGAAAAAACAAAAGAACAA
1 AAAAAGAAAAAAACAAAAGAAC-A
*
174932 AAAAAGAACAAAAATCGAAAGAA
1 AAAAAGAA-AAAAA-CAAAAGAA
174955 AAATGGACAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
23 7 0.17
24 21 0.52
25 5 0.12
26 7 0.17
ACGTcount: A:0.77, C:0.07, G:0.14, T:0.01
Consensus pattern (23 bp):
AAAAAGAAAAAAACAAAAGAACA
Found at i:175588 original size:22 final size:22
Alignment explanation
Indices: 175560--175614 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
175550 GCTACCCCAT
175560 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
175582 CAAACCTTTGAGCATCAAATGT
1 CAAACCTTTGAGCATCAAATGC
175604 CAAACCTTTGA
1 CAAACCTTTGA
175615 CCAAACACAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.25
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:176686 original size:106 final size:106
Alignment explanation
Indices: 176559--177827 Score: 2020
Period size: 106 Copynumber: 12.0 Consensus size: 106
176549 ATATCGTGCC
* * * * *
176559 ACTCGAGACAACACAAGTTCAACTTCACAACGAATGGACGGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
176624 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
176665 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
176730 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * **
176771 ACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
176836 AATTTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
176877 ACTCAAGACAACGCAAGTTCAAC-TCAATGACGAAGGGGCCGCTGGTTGTCAATAAACAACTTCC
1 ACTCCAGACAACGCAAGTTCAACTTC-ACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCC
* * *
176941 CAATTTCAGAGCCAATTTCAACTTCACAGCAAAAGAAATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
176983 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAGCAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
177048 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
177089 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTAGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
177154 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
177195 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
177260 AATTTCGGAGCCAATTTCAACTTCACAGCGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
177301 ACTCCAGACAACGCAAGTTCAACTTCACGAAGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
177366 AATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
177407 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
177472 AATTTCAGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
177513 ACTCCAGGCAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAAAAGTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
177578 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
177619 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
** * *
177684 AATTTTGGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
177725 ACTCGAGACAACACAATTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
177790 GATTCCAGATCCAATTTCAACTTCAC-GACGAAGGATAT
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATAT
177828 CCAATTACAG
Statistics
Matches: 1078, Mismatches: 82, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
105 2 0.00
106 1074 1.00
107 2 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:178621 original size:37 final size:37
Alignment explanation
Indices: 178531--178627 Score: 140
Period size: 37 Copynumber: 2.6 Consensus size: 37
178521 CATTTTCGTC
178531 CTACTATGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTATGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
178568 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTATGATTCAAACTCCTAAAAATAGGATAGAATT
* *
178605 CTACTATTATTTAAACTCCTAAA
1 CTACTATGATTCAAACTCCTAAA
178628 GATTGGATCC
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.32
Consensus pattern (37 bp):
CTACTATGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:179179 original size:21 final size:21
Alignment explanation
Indices: 179155--179205 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
179145 TATATATATA
* *
179155 TTATTTTTTATCTATGTTTAC
1 TTATTTTCTATATATGTTTAC
* *
179176 TTATTTACTATATATTTTTAC
1 TTATTTTCTATATATGTTTAC
179197 TATATTTTC
1 T-TATTTTC
179206 CTAACGTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.65
Consensus pattern (21 bp):
TTATTTTCTATATATGTTTAC
Found at i:179398 original size:8 final size:8
Alignment explanation
Indices: 179352--179396 Score: 72
Period size: 8 Copynumber: 5.5 Consensus size: 8
179342 TTATACATAC
179352 ATTTTTAT
1 ATTTTTAT
179360 ATTTTTAT
1 ATTTTTAT
179368 ATTTTTAT
1 ATTTTTAT
*
179376 ATTTTTTT
1 ATTTTTAT
179384 ATTTTATAT
1 ATTTT-TAT
179393 ATTT
1 ATTT
179397 ATTTTCATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
8 28 0.82
9 6 0.18
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
ATTTTTAT
Found at i:181614 original size:21 final size:21
Alignment explanation
Indices: 181588--181631 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
181578 TAATATTTAA
181588 ATTAGTTTATTAGTTTAAATT
1 ATTAGTTTATTAGTTTAAATT
* *
181609 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTATTAGTTTAAATT
181630 AT
1 AT
181632 ATTATATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.57
Consensus pattern (21 bp):
ATTAGTTTATTAGTTTAAATT
Found at i:181703 original size:43 final size:47
Alignment explanation
Indices: 181607--181705 Score: 152
Period size: 47 Copynumber: 2.2 Consensus size: 47
181597 TTAGTTTAAA
*
181607 TTATTAGTTTGTTAGTTTAAGTTATATTATATAAAAAAAAATTTAGT
1 TTATTAGTTTGTTAGTTTAAGTTATATTATATAAAAAAAAATGTAGT
*
181654 TAATTAGTTTGTTAGTTTAAGTTATA-T-TAT-AAAAAAAA-GTAGT
1 TTATTAGTTTGTTAGTTTAAGTTATATTATATAAAAAAAAATGTAGT
181697 TTATTAGTT
1 TTATTAGTT
181706 GAAGTTATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
43 12 0.24
44 8 0.16
45 3 0.06
46 1 0.02
47 25 0.51
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (47 bp):
TTATTAGTTTGTTAGTTTAAGTTATATTATATAAAAAAAAATGTAGT
Found at i:181741 original size:37 final size:35
Alignment explanation
Indices: 181655--181742 Score: 122
Period size: 35 Copynumber: 2.5 Consensus size: 35
181645 AAATTTAGTT
*
181655 AATTAGTTTGTTAGTTTAAGTTATATTATAAAAAA
1 AATTAGTTTGTTAGTTGAAGTTATATTATAAAAAA
* * *
181690 AAGTAGTTTATTAGTTGAAGTTATATTTTAAAAAAA
1 AATTAGTTTGTTAGTTGAAGTTATATTAT-AAAAAA
181726 AATTAGTTTTGTTAGTT
1 AATTAG-TTTGTTAGTT
181743 TGATAATTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
35 25 0.56
36 11 0.24
37 9 0.20
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (35 bp):
AATTAGTTTGTTAGTTGAAGTTATATTATAAAAAA
Found at i:183709 original size:29 final size:28
Alignment explanation
Indices: 183676--183745 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 28
183666 GTCCTGAGTG
*
183676 TCAAAATGCCTATTGTGA-GTATAAAATTA
1 TCAAAATGCCT-TCGT-ATGTATAAAATTA
* *
183705 TCAAAATACCTTCGTATGTTTAAAATTA
1 TCAAAATGCCTTCGTATGTATAAAATTA
183733 TCAAAATAGCCTT
1 TCAAAAT-GCCTT
183746 ATGAGTGCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
27 1 0.03
28 20 0.57
29 14 0.40
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (28 bp):
TCAAAATGCCTTCGTATGTATAAAATTA
Found at i:184754 original size:21 final size:21
Alignment explanation
Indices: 184728--184767 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
184718 TTAGACAGGT
* *
184728 GGAATCTGTTCCCCTTGGGGG
1 GGAATCTGTACCCCCTGGGGG
184749 GGAATCTGTACCCCCTGGG
1 GGAATCTGTACCCCCTGGG
184768 CAATCTGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.28, G:0.35, T:0.25
Consensus pattern (21 bp):
GGAATCTGTACCCCCTGGGGG
Found at i:186267 original size:19 final size:20
Alignment explanation
Indices: 186224--186271 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
186214 TCTAAATCAT
*
186224 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
186244 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
186263 TTTTCAAAA
1 TTTTCAAAA
186272 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:189235 original size:32 final size:32
Alignment explanation
Indices: 189194--189257 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
189184 ACATTCTAAC
189194 TCCATTCAAAGATAACAGATTATAAAATAATT
1 TCCATTCAAAGATAACAGATTATAAAATAATT
189226 TCCATTCAAAGATAACAGATTATAAAATAATT
1 TCCATTCAAAGATAACAGATTATAAAATAATT
189258 ATATTTAGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.31
Consensus pattern (32 bp):
TCCATTCAAAGATAACAGATTATAAAATAATT
Found at i:189480 original size:21 final size:21
Alignment explanation
Indices: 189450--189544 Score: 104
Period size: 21 Copynumber: 4.6 Consensus size: 21
189440 GATTTACATA
*
189450 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
189471 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* ** *
189492 TTCGCGGTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
189513 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
189532 TTCGCATTGCGAT
1 TTCGCGTTGCGAT
189545 TTATTCCAAG
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
19 14 0.24
21 45 0.76
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:189733 original size:72 final size:73
Alignment explanation
Indices: 189552--189738 Score: 220
Period size: 73 Copynumber: 2.6 Consensus size: 73
189542 GATTTATTCC
* * * *
189552 AAGTATCAATACCTTTTCAC-AAGTATCGATATTTTCGAATTTAAAAAAAAACATGAAAAATGAG
1 AAGTATCAATACTTTTTCTCAAAGTATCGATACTTTCGAA-TTAAAAAAAAACATAAAAAATGAG
189616 AAGACTGCA
65 AAGACTGCA
* * ** *
189625 AAGTTTTAATACTTTTT-TCACAAACATC-AGTACTTTCGAATTAAAAAAATACATAAAAAATGA
1 AAGTATCAATACTTTTTCTCA-AAGTATCGA-TACTTTCGAATTAAAAAAAAACATAAAAAATGA
* *
189688 GAAGGCTGTA
64 GAAGACTGCA
189698 AAGTATCAAT-CTTTTTCTCAAAGTATCGATACTTTCGAATT
1 AAGTATCAATACTTTTTCTCAAAGTATCGATACTTTCGAATT
189739 TTATATAACA
Statistics
Matches: 94, Mismatches: 15, Indels: 11
0.78 0.12 0.09
Matches are distributed among these distances:
72 24 0.26
73 56 0.60
74 14 0.15
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (73 bp):
AAGTATCAATACTTTTTCTCAAAGTATCGATACTTTCGAATTAAAAAAAAACATAAAAAATGAGA
AGACTGCA
Found at i:190478 original size:217 final size:215
Alignment explanation
Indices: 189980--190647 Score: 779
Period size: 217 Copynumber: 3.1 Consensus size: 215
189970 TTTTTAATCG
* * * * ** *
189980 GTTACCTTATAAGTAGGAGTAACATTTACGGTTGCGTCTTGTTTTGTTTTTTGCCAGTTATCTTA
1 GTTACCTTATAAGTAGGAGTAACGTTAACGGTTGCGCCTTG--TTATTTTTAACCA-TTACCTTA
* * * * *
190045 TAAGTAGGAGTAACATTAACGGTTGCGCATTGTTA-TTTTCAACTGATTACTTTATAAGTAGTAG
63 TAAGTAGGAGTAACGTTAACGGTTGTGCCTTGTTATTTTTAAAC-GATTACCTTATAAGTAGTAG
* * * *
190109 TAACGTTTACGGTTGTGCCTTGTT-TTTTTAACCGGTAACCTTATAAGTAGTAGGAGTAACCTTA
127 TAACGTTTAC-GTTGTGCCTTGTTATTTTCAACCGGTTACCTTAT-A--AGTAGGAGTAACGTTT
* *
190173 ACGGTTGCACCTTG-TTATTTTTAACCA
188 ACGGTTGCACCTTGTTTTTTTTTAACAA
* * **
190200 TTTACCTTATAAGTAGGAGTAACGTTAACGGTTGCGGCTTGTTATTTTTAATCGGTTACCTTATA
1 GTTACCTTATAAGTAGGAGTAACGTTAACGGTTGCGCCTTGTTATTTTTAA-CCATTACCTTATA
* * *
190265 AGGAGTAGTAACGTTAACGGTTGTGCCTTGTTATTTTTAAACGATTACCTTATAAGTAGGAGTAA
65 AGTAGGAGTAACGTTAACGGTTGTGCCTTGTTATTTTTAAACGATTACCTTATAAGTAGTAGTAA
* * *
190330 CGTTTACAGTCGTGCCTTGTTATTTTCAATCGATTACCTTATAAGTAGGAGTAACGTTTACGGTT
130 CGTTTAC-GTTGTGCCTTGTTATTTTCAACCGGTTACCTTATAAGTAGGAGTAACGTTTACGGTT
190395 GCACCTTGTTTTTTTTTAACAA
194 GCACCTTGTTTTTTTTTAACAA
*
190417 GTAACCTTATAAGTAGGAGTAACGTTAACGGTTGCGCCTTGTTATTTTTAACCTATTACCTTATA
1 GTTACCTTATAAGTAGGAGTAACGTTAACGGTTGCGCCTTGTTATTTTTAACC-ATTACCTTATA
* * * * * *
190482 TGTAGGAGTAACGTCAACGGTTATGCCTTGTTATTTTTAATC-AGTTACCTTATAAGAAATAGTA
65 AGTAGGAGTAACGTTAACGGTTGTGCCTTGTTATTTTTAAACGA-TTACCTTATAAGTAGTAGTA
* ** * *
190546 ACGTTAACGATTGCACCTTGTTATTTTCTACCGGTTACCTTATAAGTAGGAGTAACGTTTACGAT
129 ACGTTTACG-TTGTGCCTTGTTATTTTCAACCGGTTACCTTATAAGTAGGAGTAACGTTTACGGT
** **
190611 AACACCTTGTTTTGTTTTT-ACTG
193 TGCACCTTGTTTT-TTTTTAACAA
190634 GTTACCTTATAAGT
1 GTTACCTTATAAGT
190648 TGCACCTTGT
Statistics
Matches: 385, Mismatches: 55, Indels: 19
0.84 0.12 0.04
Matches are distributed among these distances:
216 31 0.08
217 203 0.53
218 90 0.23
219 24 0.06
220 37 0.10
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (215 bp):
GTTACCTTATAAGTAGGAGTAACGTTAACGGTTGCGCCTTGTTATTTTTAACCATTACCTTATAA
GTAGGAGTAACGTTAACGGTTGTGCCTTGTTATTTTTAAACGATTACCTTATAAGTAGTAGTAAC
GTTTACGTTGTGCCTTGTTATTTTCAACCGGTTACCTTATAAGTAGGAGTAACGTTTACGGTTGC
ACCTTGTTTTTTTTTAACAA
Found at i:190495 original size:271 final size:270
Alignment explanation
Indices: 189963--190607 Score: 839
Period size: 271 Copynumber: 2.4 Consensus size: 270
189953 TTGGTTGTGT
* * * * * *
189963 CTTGTTATTTTTAATCGGTTACCTTATAAGTAGGAGTAACATTTACGGTTGCGTCTTGTTTTGTT
1 CTTGTTATTTTTAATCGGTTACCTTATAAGAAGTAGTAACGTTAACGGTTGCGCCTTG--TTATT
** * * * * * *
190028 TTTTGCCAGTTATCTTATAAGTAGGAGTAACATTAACGGTTGCGCATTGTTATTTTCAACTGATT
64 TTTAACGA-TTACCTTATAAGTAGGAGTAACGTTTACAGTCGCGCATTGTTATTTTCAACTGATT
* * ** **
190093 ACTTTATAAGTAGTAGTAACGTTTACGGTTGTGCCTTGTTTTTTTAACCGGTAACCTTATAAGTA
128 ACCTTATAAGTAGGAGTAACGTTTACGGTTGCACCTTGTTTTTTTAACAAGTAACCTTATAAG-A
190158 GTAGGAGTAACCTTAACGGTTGCACCTTGTTATTTTTAACCATTTACCTTATAAGTAGGAGTAAC
192 GTAGGAGTAACCTTAACGGTTGCACCTTGTTATTTTTAACCATTTACCTTATAAGTAGGAGTAAC
* * *
190223 GTTAACGGTTGCGG
257 GTCAACGGTTACGC
* *
190237 CTTGTTATTTTTAATCGGTTACCTTATAAGGAGTAGTAACGTTAACGGTTGTGCCTTGTTATTTT
1 CTTGTTATTTTTAATCGGTTACCTTATAAGAAGTAGTAACGTTAACGGTTGCGCCTTGTTATTTT
* *
190302 TAAACGATTACCTTATAAGTAGGAGTAACGTTTACAGTCGTGCCTTGTTATTTTCAA-TCGATTA
66 T-AACGATTACCTTATAAGTAGGAGTAACGTTTACAGTCGCGCATTGTTATTTTCAACT-GATTA
190366 CCTTATAAGTAGGAGTAACGTTTACGGTTGCACCTTGTTTTTTTTTAACAAGTAACCTTAT-A-A
129 CCTTATAAGTAGGAGTAACGTTTACGGTTGCACCTTG--TTTTTTTAACAAGTAACCTTATAAGA
* * *
190429 GTAGGAGTAACGTTAACGGTTGCGCCTTGTTATTTTTAACC-TATTACCTTATATGTAGGAGTAA
192 GTAGGAGTAACCTTAACGGTTGCACCTTGTTATTTTTAACCAT-TTACCTTATAAGTAGGAGTAA
*
190493 CGTCAACGGTTATGC
256 CGTCAACGGTTACGC
* * * *
190508 CTTGTTATTTTTAATCAGTTACCTTATAAGAAATAGTAACGTTAACGATTGCACCTTGTTATTTT
1 CTTGTTATTTTTAATCGGTTACCTTATAAGAAGTAGTAACGTTAACGGTTGCGCCTTGTTATTTT
* *
190573 CTACCGGTTACCTTATAAGTAGGAGTAACGTTTAC
66 -TAACGATTACCTTATAAGTAGGAGTAACGTTTAC
190608 GATAACACCT
Statistics
Matches: 327, Mismatches: 38, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
270 1 0.00
271 162 0.50
272 89 0.27
273 3 0.01
274 72 0.22
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (270 bp):
CTTGTTATTTTTAATCGGTTACCTTATAAGAAGTAGTAACGTTAACGGTTGCGCCTTGTTATTTT
TAACGATTACCTTATAAGTAGGAGTAACGTTTACAGTCGCGCATTGTTATTTTCAACTGATTACC
TTATAAGTAGGAGTAACGTTTACGGTTGCACCTTGTTTTTTTAACAAGTAACCTTATAAGAGTAG
GAGTAACCTTAACGGTTGCACCTTGTTATTTTTAACCATTTACCTTATAAGTAGGAGTAACGTCA
ACGGTTACGC
Found at i:190610 original size:54 final size:54
Alignment explanation
Indices: 189963--190647 Score: 708
Period size: 54 Copynumber: 12.6 Consensus size: 54
189953 TTGGTTGTGT
* * * *
189963 CTTGTTATTTTTAATCGGTTACCTTATAAGTAGGAGTAACATTTACGGTTGCGT
1 CTTGTTATTTTTAACCGGTTACCTTATAAGTAGGAGTAACGTTAACGGTTGCGC
* ** * * *
190017 CTTGTTTTGTTTTTTGCCAGTTATCTTATAAGTAGGAGTAACATTAACGGTTGCGC
1 CTTG--TTATTTTTAACCGGTTACCTTATAAGTAGGAGTAACGTTAACGGTTGCGC
* * * * * * * *
190073 ATTGTTATTTTCAACTGATTACTTTATAAGTAGTAGTAACGTTTACGGTTGTGC
1 CTTGTTATTTTTAACCGGTTACCTTATAAGTAGGAGTAACGTTAACGGTTGCGC
* * *
190127 CTTGTT-TTTTTAACCGGTAACCTTATAAGTAGTAGGAGTAACCTTAACGGTTGCAC
1 CTTGTTATTTTTAACCGGTTACCTTAT-A--AGTAGGAGTAACGTTAACGGTTGCGC
** *
190183 CTTGTTATTTTTAACCATTTACCTTATAAGTAGGAGTAACGTTAACGGTTGCGG
1 CTTGTTATTTTTAACCGGTTACCTTATAAGTAGGAGTAACGTTAACGGTTGCGC
* * * *
190237 CTTGTTATTTTTAATCGGTTACCTTATAAGGAGTAGTAACGTTAACGGTTGTGC
1 CTTGTTATTTTTAACCGGTTACCTTATAAGTAGGAGTAACGTTAACGGTTGCGC
* * * * * *
190291 CTTGTTATTTTTAAACGATTACCTTATAAGTAGGAGTAACGTTTACAGTCGTGC
1 CTTGTTATTTTTAACCGGTTACCTTATAAGTAGGAGTAACGTTAACGGTTGCGC
* * * * *
190345 CTTGTTATTTTCAATCGATTACCTTATAAGTAGGAGTAACGTTTACGGTTGCAC
1 CTTGTTATTTTTAACCGGTTACCTTATAAGTAGGAGTAACGTTAACGGTTGCGC
* ** *
190399 CTTGTTTTTTTTTAACAAGTAACCTTATAAGTAGGAGTAACGTTAACGGTTGCGC
1 CTTG-TTATTTTTAACCGGTTACCTTATAAGTAGGAGTAACGTTAACGGTTGCGC
** * * **
190454 CTTGTTATTTTTAACCTATTACCTTATATGTAGGAGTAACGTCAACGGTTATGC
1 CTTGTTATTTTTAACCGGTTACCTTATAAGTAGGAGTAACGTTAACGGTTGCGC
* * * ** * *
190508 CTTGTTATTTTTAATCAGTTACCTTATAAGAAATAGTAACGTTAACGATTGCAC
1 CTTGTTATTTTTAACCGGTTACCTTATAAGTAGGAGTAACGTTAACGGTTGCGC
* * ** *
190562 CTTGTTATTTTCT-ACCGGTTACCTTATAAGTAGGAGTAACGTTTACGATAACAC
1 CTTGTTATTTT-TAACCGGTTACCTTATAAGTAGGAGTAACGTTAACGGTTGCGC
* * *
190616 CTTGTTTTGTTTTTACTGGTTACCTTATAAGT
1 CTTGTTAT-TTTTAACCGGTTACCTTATAAGT
190648 TGCACCTTGT
Statistics
Matches: 522, Mismatches: 99, Indels: 19
0.82 0.15 0.03
Matches are distributed among these distances:
53 15 0.03
54 351 0.67
55 66 0.13
56 73 0.14
57 17 0.03
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.41
Consensus pattern (54 bp):
CTTGTTATTTTTAACCGGTTACCTTATAAGTAGGAGTAACGTTAACGGTTGCGC
Found at i:190711 original size:91 final size:92
Alignment explanation
Indices: 190556--190738 Score: 289
Period size: 91 Copynumber: 2.0 Consensus size: 92
190546 ACGTTAACGA
* *
190556 TTGCACCTTGTTATTTTCTACCGGTTACCTTATAAGTAGGAGTAACGTTTACGATAACACCTTGT
1 TTGCACCTTGTTATTTTCAACCGGTTACCTTATAAGTAGGAGTAACGATTACGATAACACCTTGT
190621 TTTG-TTTTTACTGGTTACCTTATAAG
66 TTTGTTTTTTACTGGTTACCTTATAAG
* * *
190647 TTGCACCTTGTTATTTTCAACCGGTTACCTTATAAGTAGGAGTAAC-ATTACCGGTTACTCCTTG
1 TTGCACCTTGTTATTTTCAACCGGTTACCTTATAAGTAGGAGTAACGATTA-CGATAACACCTTG
*
190711 TTTTGTTTTTTATTGGTTACCTTATAAG
65 TTTTGTTTTTTACTGGTTACCTTATAAG
190739 AGGGAGTAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
90 3 0.04
91 60 0.71
92 21 0.25
ACGTcount: A:0.22, C:0.17, G:0.16, T:0.44
Consensus pattern (92 bp):
TTGCACCTTGTTATTTTCAACCGGTTACCTTATAAGTAGGAGTAACGATTACGATAACACCTTGT
TTTGTTTTTTACTGGTTACCTTATAAG
Found at i:191370 original size:108 final size:106
Alignment explanation
Indices: 191188--191511 Score: 382
Period size: 108 Copynumber: 3.0 Consensus size: 106
191178 ACATTACAAG
** *
191188 TAATTAACTTATTTTGTTATAATGAGATTGTTTAAGGCTCCATCAGCTTAAACTTTAGTAACATT
1 TAATTAACTTATTTTGTTATCGTGAGATT-TCTAAGGCT-CATCAGCTTAAACTTTAGTAACATT
*
191253 TTAGTCGCAACTTAAT-ATGTTAATAATATTTATAACAAAATAAA
64 TTAGGCGCAAC--AATAATGTTAATAATATTTATAACAAAATAAA
* *
191297 TAATTAACTTATTTCGTTATCGTGAGATTTCTAAGGTCTCATCAGCTTAAACTTTGGTAACATTT
1 TAATTAACTTATTTTGTTATCGTGAGATTTCTAAGG-CTCATCAGCTTAAACTTTAGTAACATTT
* *
191362 TAGGCGCAACAGGTAATGTTAATAATATTTATAACAAAATAAG
65 TAGGCGCAACA-ATAATGTTAATAATATTTATAACAAAATAAA
* * * * ** * * *
191405 TAATTGACTTATTTTGTTATCGT-AGAATTTCTATGACCCCTATCAATTTAAATTTTACTTACAT
1 TAATTAACTTATTTTGTTATCGTGAG-ATTTCTAAG-GCTC-ATCAGCTTAAACTTTAGTAACAT
*
191469 TTTAGGCGCAACCGATAATGTTAATAATATTTATAACAAAATA
63 TTTAGGCGCAA-CAATAATGTTAATAATATTTATAACAAAATA
191512 TGTCACACCC
Statistics
Matches: 187, Mismatches: 21, Indels: 14
0.84 0.09 0.06
Matches are distributed among these distances:
106 1 0.01
107 3 0.02
108 98 0.52
109 84 0.45
110 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (106 bp):
TAATTAACTTATTTTGTTATCGTGAGATTTCTAAGGCTCATCAGCTTAAACTTTAGTAACATTTT
AGGCGCAACAATAATGTTAATAATATTTATAACAAAATAAA
Found at i:193630 original size:17 final size:18
Alignment explanation
Indices: 193595--193631 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
193585 GGATTAATAA
193595 ATCTGAAAAGACATATTG
1 ATCTGAAAAGACATATTG
193613 ATCTGATAAA-AC-TATTG
1 ATCTGA-AAAGACATATTG
193630 AT
1 AT
193632 GTGCATAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 8 0.44
19 3 0.17
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (18 bp):
ATCTGAAAAGACATATTG
Found at i:201413 original size:43 final size:42
Alignment explanation
Indices: 201360--201717 Score: 271
Period size: 43 Copynumber: 8.3 Consensus size: 42
201350 CATTTGTATC
* *
201360 CAAAAACGCCGCTATAGGTCTGACTTTTTACGGCGTTTGTGTT
1 CAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTT-TGTT
* * *
201403 CAAAAACGCCGTTATAGGTCTGACATTTTGCGGCGTTTGTGTC
1 CAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTT-TGTT
* * * *
201446 CAAAAACGTCACTATAGGTCTGACCTTTTACGGC-ATTTGTT
1 CAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTTGTT
* *
201487 CTAAAAACGCCAG-TATAGGTCTTATCTTTTGCGGCG-TTTGTAT
1 C-AAAAACGCC-GCTATAGGTCTGACCTTTTGCGGCGTTTTGT-T
* * * *
201530 CCAAAAATGCTGCTATAGATCTGACCTTTTGCGGTGTTTT-TT
1 -CAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTTGTT
* ** * * *
201572 CTAGAAACGCCGCTATATATCATAACTTTTTGCGGCGTTTAT-TC
1 C-AAAAACGCCGCTATAGGTC-TGACCTTTTGCGGCGTTT-TGTT
* *
201616 CAAAAACGCCGCTATAGATATCGACCTTTTGCGGCG-TTTGTT
1 CAAAAACGCCGCTATAGGTCT-GACCTTTTGCGGCGTTTTGTT
* * * *
201658 CAAAAAATGCCG-TAATAGATATTGACCTATTGCGGCGTTTTTTGTT
1 C-AAAAACGCCGCT-ATAGGT-CTGACCTTTTGCGGCG--TTTTGTT
**
201704 CTCAAACGCCGCTA
1 CAAAAACGCCGCTA
201718 ACTTTAGCGG
Statistics
Matches: 254, Mismatches: 42, Indels: 36
0.77 0.13 0.11
Matches are distributed among these distances:
41 6 0.02
42 57 0.22
43 167 0.66
44 8 0.03
45 8 0.03
46 8 0.03
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (42 bp):
CAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTTGTT
Found at i:201533 original size:85 final size:85
Alignment explanation
Indices: 201346--201669 Score: 341
Period size: 85 Copynumber: 3.8 Consensus size: 85
201336 AAGGTAATTA
* * *
201346 GCGGCATTTGTATCCAAAAACGCCGCTATAGGTCTGACTTTTTACGGCGTTTGTGT-TCAAAAAC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTACGGCGTTTGT-TCT-AAAAAC
* *
201410 GCCGTTATAGGTCTGACATTTT
64 GCCGCTATAGGTCTTACATTTT
* * * * *
201432 GCGGCGTTTGTGTCCAAAAACGTCACTATAGGTCTGACCTTTTACGGCATTTGTTCTAAAAACGC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTACGGCGTTTGTTCTAAAAACGC
201497 CAG-TATAGGTCTTATC-TTTT
66 C-GCTATAGGTCTTA-CATTTT
* * * * * *
201517 GCGGCGTTTGTATCCAAAAATGCTGCTATAGATCTGACCTTTTGCGGTGTTTTTTCTAGAAACGC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTACGGCGTTTGTTCTAAAAACGC
** * *
201582 CGCTATATATCATAACTTTTT
66 CGCTATAGGTC-TTACATTTT
* * * * *
201603 GCGGCGTTTAT-TCCAAAAACGCCGCTATAGATATCGACCTTTTGCGGCGTTTGTTCAAAAAATG
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCT-GACCTTTTACGGCGTTTGTTCTAAAAACG
201667 CCG
65 CCG
201670 TAATAGATAT
Statistics
Matches: 201, Mismatches: 30, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
84 1 0.00
85 106 0.53
86 94 0.47
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (85 bp):
GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTACGGCGTTTGTTCTAAAAACGC
CGCTATAGGTCTTACATTTT
Found at i:201621 original size:128 final size:124
Alignment explanation
Indices: 201347--201700 Score: 332
Period size: 128 Copynumber: 2.8 Consensus size: 124
201337 AGGTAATTAG
* * * *
201347 CGGCATTTGTATCCAAAAACGCCGCTATAGGTCTGACTTTTTACGGCGTTTGTGTTCAAAAACGC
1 CGGCATTTAT-TCCAAAAACGCCGCTATAGGTCTGAC-TTTTGCGGCGTTTGT-TCCAAAAATGC
* * * * * *
201412 CGTTATAGGTCTGACATTTTGCGGCGTTTGTGTCCAAAAACGTCACTATAGGTCTGACCTTTTA
63 CG-TATAGATCTGACCTTTTGCGGCGTTT-TTTCCAAAAACGCCACTATAGATCTAACCTTTTA
* * *
201476 CGGCATTTGTTCTAAAAACGCCAG-TATAGGTCTTATCTTTTGCGGCGTTTGTATCCAAAAATGC
1 CGGCATTTATTCCAAAAACGCC-GCTATAGGTCTGA-CTTTTGCGGCGTTTGT-TCCAAAAATGC
* * * * * * * *
201540 TGCTATAGATCTGACCTTTTGCGGTGTTTTTTCTAGAAACGCCGCTATATATCATAACTTTTTG
63 CG-TATAGATCTGACCTTTTGCGGCGTTTTTTCCAAAAACGCCACTATAGATC-TAACCTTTTA
* * * *
201604 CGGCGTTTATTCCAAAAACGCCGCTATAGATATCGACCTTTTGCGGCGTTTGTTCAAAAAATGCC
1 CGGCATTTATTCCAAAAACGCCGCTATAGGTCT-GA-CTTTTGCGGCGTTTGTTCCAAAAATGCC
* *
201669 GTAATAGATATTGACCTATTGCGGCGTTTTTT
64 GT-ATAGAT-CTGACCTTTTGCGGCGTTTTTT
201701 GTTCTCAAAC
Statistics
Matches: 185, Mismatches: 33, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
127 19 0.10
128 118 0.64
129 48 0.26
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (124 bp):
CGGCATTTATTCCAAAAACGCCGCTATAGGTCTGACTTTTGCGGCGTTTGTTCCAAAAATGCCGT
ATAGATCTGACCTTTTGCGGCGTTTTTTCCAAAAACGCCACTATAGATCTAACCTTTTA
Found at i:204368 original size:2 final size:2
Alignment explanation
Indices: 204361--204462 Score: 188
Period size: 2 Copynumber: 51.0 Consensus size: 2
204351 AGATATTATG
204361 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
204403 AT AT AT AT AT AT AT AT AT AT AT A- 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
204444 AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT -AT AT
204463 CTGATTATTA
Statistics
Matches: 98, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.01
2 95 0.97
3 2 0.02
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.