Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001068.1 Hibiscus syriacus cultivar Beakdansim tig00002115_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: 90142
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:9679 original size:28 final size:28
Alignment explanation
Indices: 9632--9697 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
9622 CCAAAGAAGC
9632 CAACCTGAAACACATTACCTC-CTCAAAT
1 CAACCTGAAACACATTACCTCTC-CAAAT
9660 -AGACCTGAAACAC-TTGACCTCTCCAAAT
1 CA-ACCTGAAACACATT-ACCTCTCCAAAT
9688 CAACCTGAAA
1 CAACCTGAAA
9698 TACTCCACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
27 3 0.09
28 29 0.85
29 2 0.06
ACGTcount: A:0.39, C:0.33, G:0.08, T:0.20
Consensus pattern (28 bp):
CAACCTGAAACACATTACCTCTCCAAAT
Found at i:11608 original size:20 final size:20
Alignment explanation
Indices: 11570--11609 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11560 AAAGTTTCTC
*
11570 ATTGAATAAAAAATGAAATA
1 ATTGAATAAAAAATAAAATA
11590 ATTGAA-AAAAATATAAAATA
1 ATTGAATAAAAA-ATAAAATA
11610 TAAATAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (20 bp):
ATTGAATAAAAAATAAAATA
Found at i:15546 original size:21 final size:21
Alignment explanation
Indices: 15517--15564 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
15507 TGATACCGTG
*
15517 TGAATAGTAGTATCGATACCA
1 TGAACAGTAGTATCGATACCA
15538 TGAACAGTAGTATCGATACCA
1 TGAACAGTAGTATCGATACCA
15559 TGAACA
1 TGAACA
15565 ATACCGATGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.25
Consensus pattern (21 bp):
TGAACAGTAGTATCGATACCA
Found at i:18989 original size:21 final size:21
Alignment explanation
Indices: 18964--19035 Score: 117
Period size: 21 Copynumber: 3.4 Consensus size: 21
18954 CGATACTGTG
*
18964 TGAACAGTAGTATCAATACCG
1 TGAACAGTAGTATCAATACCA
18985 TGAACAGTAGTATCAATACCA
1 TGAACAGTAGTATCAATACCA
* *
19006 TGAACAGCAGTATCGATACCA
1 TGAACAGTAGTATCAATACCA
19027 TGAACAGTA
1 TGAACAGTA
19036 CAAATGCTCA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.22
Consensus pattern (21 bp):
TGAACAGTAGTATCAATACCA
Found at i:19900 original size:15 final size:15
Alignment explanation
Indices: 19876--19906 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19866 ATTGCCTATT
*
19876 ACATTGAAGATTCAC
1 ACATTCAAGATTCAC
19891 ACATTCAAGATTCAC
1 ACATTCAAGATTCAC
19906 A
1 A
19907 ACCAGTCAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.26
Consensus pattern (15 bp):
ACATTCAAGATTCAC
Found at i:22448 original size:21 final size:23
Alignment explanation
Indices: 22407--22458 Score: 72
Period size: 21 Copynumber: 2.3 Consensus size: 23
22397 ATTGTATGAA
*
22407 TATTATCGATTATGTATGAACAG
1 TATTATCGATTATGCATGAACAG
22430 TATTATCGA-TAT-CATGAACAG
1 TATTATCGATTATGCATGAACAG
*
22451 TAGTATCG
1 TATTATCG
22459 TTACCATGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 15 0.56
22 3 0.11
23 9 0.33
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.37
Consensus pattern (23 bp):
TATTATCGATTATGCATGAACAG
Found at i:22466 original size:21 final size:21
Alignment explanation
Indices: 22422--22466 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
22412 TCGATTATGT
* *
22422 ATGAACAGTATTATCGATATC
1 ATGAACAGTAGTATCGATACC
*
22443 ATGAACAGTAGTATCGTTACC
1 ATGAACAGTAGTATCGATACC
22464 ATG
1 ATG
22467 GACATTATCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.31
Consensus pattern (21 bp):
ATGAACAGTAGTATCGATACC
Found at i:22579 original size:21 final size:21
Alignment explanation
Indices: 22522--22579 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
22512 TGATACTGCT
*
22522 ACAATAGTATCGACACAGTGA
1 ACAATAGTATCGATACAGTGA
* *
22543 ACAATAGTATCCATACCGTGA
1 ACAATAGTATCGATACAGTGA
22564 ACAATAGTATCGATAC
1 ACAATAGTATCGATAC
22580 TATCAAGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (21 bp):
ACAATAGTATCGATACAGTGA
Found at i:23984 original size:16 final size:17
Alignment explanation
Indices: 23963--23995 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
23953 TGAGTTGATG
23963 GTGAAG-GAAGAAAAAT
1 GTGAAGAGAAGAAAAAT
23979 GTGAAGAGAAGAAAAAT
1 GTGAAGAGAAGAAAAAT
23996 AAGAATAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.58, C:0.00, G:0.30, T:0.12
Consensus pattern (17 bp):
GTGAAGAGAAGAAAAAT
Found at i:25244 original size:19 final size:19
Alignment explanation
Indices: 25222--25265 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
25212 AATTTAGAAG
*
25222 TGAATAA-AAAATTATTTTA
1 TGAATAATAAAA-TATTGTA
*
25241 TGAATAATAACATATTGTA
1 TGAATAATAAAATATTGTA
25260 TGAATA
1 TGAATA
25266 GTACCGATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (19 bp):
TGAATAATAAAATATTGTA
Found at i:25305 original size:21 final size:21
Alignment explanation
Indices: 25280--25330 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
25270 CGATAATGTG
25280 TGAACAGTAGTATCAATACCA
1 TGAACAGTAGTATCAATACCA
*
25301 TGAACAGTAGTATCGATACCA
1 TGAACAGTAGTATCAATACCA
25322 TGAACAGTA
1 TGAACAGTA
25331 CAAATGCTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (21 bp):
TGAACAGTAGTATCAATACCA
Found at i:39636 original size:44 final size:44
Alignment explanation
Indices: 39585--39673 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
39575 CAATAGAACA
* *
39585 CGATGTCCAAGAGTTTTCATTCCTTACCTGAACAATATTAGTTG
1 CGATGTCCAAGAGTTTGCATTCCTTACATGAACAATATTAGTTG
*
39629 CGATGTCCAAGAGTTTGCCTTCCTTACATGAACAATATTAGTTG
1 CGATGTCCAAGAGTTTGCATTCCTTACATGAACAATATTAGTTG
39673 C
1 C
39674 CTCGACAACG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (44 bp):
CGATGTCCAAGAGTTTGCATTCCTTACATGAACAATATTAGTTG
Found at i:54812 original size:15 final size:15
Alignment explanation
Indices: 54794--54835 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
54784 TGACCATTTG
54794 GTATCAATACTACGA
1 GTATCAATACTACGA
54809 GTATCAATACTACGA
1 GTATCAATACTACGA
* *
54824 GTTTCGATACTA
1 GTATCAATACTA
54836 ATTACTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (15 bp):
GTATCAATACTACGA
Found at i:60913 original size:20 final size:21
Alignment explanation
Indices: 60877--60915 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
60867 GGGGTCTGAG
60877 TATCGATACTGGGATGAATAA
1 TATCGATACTGGGATGAATAA
*
60898 TATCGATA-TTGGATGAAT
1 TATCGATACTGGGATGAAT
60916 TATGGCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.33
Consensus pattern (21 bp):
TATCGATACTGGGATGAATAA
Found at i:64245 original size:14 final size:14
Alignment explanation
Indices: 64196--64245 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
64186 ATGGATGAAT
64196 AAATAATTATTAAA
1 AAATAATTATTAAA
*
64210 TAATAA-TATTAAA
1 AAATAATTATTAAA
* *
64223 ATAGAATTATTAAA
1 AAATAATTATTAAA
*
64237 AAATTATTA
1 AAATAATTA
64246 CATAAATTTA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
13 10 0.36
14 18 0.64
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (14 bp):
AAATAATTATTAAA
Found at i:64430 original size:2 final size:2
Alignment explanation
Indices: 64423--64482 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
64413 TGTCATTAAA
64423 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
64465 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
64483 GTTAGTAGTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64772 original size:29 final size:29
Alignment explanation
Indices: 64706--64777 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
64696 TTTATTGAAT
* *
64706 TTTTTTAGCTAAGTTCAATGGGTTGAGTAA
1 TTTTTTAG-AAAGTTCAATGGGTTAAGTAA
* * *
64736 TTCTTTTAGAAAGTTTAATGGTTTAATTAA
1 TT-TTTTAGAAAGTTCAATGGGTTAAGTAA
64766 TTTTTTAGAAAG
1 TTTTTTAGAAAG
64778 AATTAAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 10 0.28
30 20 0.56
31 6 0.17
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (29 bp):
TTTTTTAGAAAGTTCAATGGGTTAAGTAA
Found at i:65201 original size:42 final size:42
Alignment explanation
Indices: 65155--65238 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
65145 ATATTTTCTA
65155 AAAAAATAAAAATAACATATATTTTATTAAACCAAACGTATT
1 AAAAAATAAAAATAACATATATTTTATTAAACCAAACGTATT
* * *
65197 AAAAAATTAAAATAACATATATTTTCTTAAACTAAACGTATT
1 AAAAAATAAAAATAACATATATTTTATTAAACCAAACGTATT
65239 TTTATTTTCT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (42 bp):
AAAAAATAAAAATAACATATATTTTATTAAACCAAACGTATT
Found at i:71971 original size:23 final size:23
Alignment explanation
Indices: 71919--71971 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
71909 TGACATATTT
* *
71919 TGCCTTTATGGCATGTTTATCTT
1 TGCCTTTATGGAATGTTTATCTC
* *
71942 TGCCTTTGTGGAATGTTTTTCTC
1 TGCCTTTATGGAATGTTTATCTC
*
71965 TGTCTTT
1 TGCCTTT
71972 TGGTAACTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.09, C:0.17, G:0.19, T:0.55
Consensus pattern (23 bp):
TGCCTTTATGGAATGTTTATCTC
Found at i:72957 original size:14 final size:14
Alignment explanation
Indices: 72938--72972 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
72928 AATGATCATG
*
72938 GAAGGGGGAAGAGA
1 GAAGGGGAAAGAGA
72952 GAAGGGGAAAGAGA
1 GAAGGGGAAAGAGA
*
72966 AAAGGGG
1 GAAGGGG
72973 TTGCTCTGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (14 bp):
GAAGGGGAAAGAGA
Found at i:73740 original size:23 final size:23
Alignment explanation
Indices: 73690--73740 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
73680 GTTTGTGTTC
** * *
73690 ATTCATTTAGCATTCGTGAATAT
1 ATTCATTTAGCATTAATAAACAT
*
73713 GTTCATTTAGCATTAATAAACAT
1 ATTCATTTAGCATTAATAAACAT
73736 ATTCA
1 ATTCA
73741 ATTGGTGTTC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (23 bp):
ATTCATTTAGCATTAATAAACAT
Found at i:76901 original size:15 final size:16
Alignment explanation
Indices: 76883--76912 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
76873 AACAAATTTA
76883 ATTTTTAAAA-ATATG
1 ATTTTTAAAAGATATG
76898 ATTTTTAAAAGATAT
1 ATTTTTAAAAGATAT
76913 CATCTCGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (16 bp):
ATTTTTAAAAGATATG
Found at i:77763 original size:131 final size:131
Alignment explanation
Indices: 77374--77770 Score: 544
Period size: 131 Copynumber: 3.0 Consensus size: 131
77364 TAAATTTTAA
* * * * *
77374 GAGAGAAAACGACAATACCTAATTATTTCCAATTGAGAATAAATGACATCTCATGCCTTAAAGTA
1 GAGAGAAAACGATAATAACTAATTATTTCTAATCGAGAATAAATGACATCTCATGCCTTAAAGCA
* * * * *
77439 GTCATTTATTACTCCAATCAAAATGAAGAGATATCACTATTTCGTCCTAAAATTCAATATTGATT
66 GTCATTTATTACTCCAATCGAAATGAAGAAATATTACTATTTCATCCTAAAATTCAATATTAATT
77504 C
131 C
* *
77505 GAGAGAAAACGATAATAACTAACTATTT-TCAATCAAGAATAAATGACATCTCATGCCTTAAAGC
1 GAGAGAAAACGATAATAACTAATTATTTCT-AATCGAGAATAAATGACATCTCATGCCTTAAAGC
* * * *
77569 AGGTCATTTATCACTCCAATCGAAATTAAGATATATTACTATTACATCCTAAAATTCAATATTAA
65 A-GTCATTTATTACTCCAATCGAAATGAAGAAATATTACTATTTCATCCTAAAATTCAATATTAA
77634 TTC
129 TTC
* * ** *
77637 GAGAGAAAACGATAATATCTAATTATTTCTAATCGAGAATAAATCACCGCTCACGCCTTAAAGCA
1 GAGAGAAAACGATAATAACTAATTATTTCTAATCGAGAATAAATGACATCTCATGCCTTAAAGCA
* * * *
77702 TTTATTTATTACTACAATCGAAATGAAAAAATATTACTATTTCATCCTAAAATTCAATATTAATT
66 GTCATTTATTACTCCAATCGAAATGAAGAAATATTACTATTTCATCCTAAAATTCAATATTAATT
77767 C
131 C
77768 GAG
1 GAG
77771 TGTTATTTAT
Statistics
Matches: 233, Mismatches: 30, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
131 118 0.51
132 114 0.49
133 1 0.00
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.31
Consensus pattern (131 bp):
GAGAGAAAACGATAATAACTAATTATTTCTAATCGAGAATAAATGACATCTCATGCCTTAAAGCA
GTCATTTATTACTCCAATCGAAATGAAGAAATATTACTATTTCATCCTAAAATTCAATATTAATT
C
Found at i:80215 original size:135 final size:133
Alignment explanation
Indices: 79961--80411 Score: 412
Period size: 135 Copynumber: 3.4 Consensus size: 133
79951 TTCAGGGTAG
* ** *
79961 ATTGAATCAAGGCAGACTTGTTCCACTG-CACCTTAGGGAAGATCAAATCT-GAAAAAAGGGATA
1 ATTGAATCGAGGCAGACTTGTTCCACTGTTTCATTAGGGAAGATCAAATCTGGAAAAAAGGGATA
* * * * *
80024 TGCTTCACTGCTTCTTCAGGGAAAATTAGATCTGAAAATGTTGATTTATTCTACTGTTCTTCAAG
66 TGCTCCACTACTCCTTCAGGGAAAATCAGATCTGAAAA-GTTGATTTATACTACTGTTCTTCAAG
80089 GAAT
130 GAAT
* * * * **
80093 ATTGAATCGTGGCAGACTTGTTCCACTGTTTCTTTAAGGAAGATCAAATATGGACAAAGGGGGAT
1 ATTGAATCGAGGCAGACTTGTTCCACTGTTTCATTAGGGAAGATCAAATCTGGA-AAAAAGGGAT
* * *
80158 ATGCTCCACTACTCCTTTAGGGTAGATCAGATCTAGAAACA-TTGATTTAATAC-ACTGTTCTTC
65 ATGCTCCACTACTCCTTCAGGGAAAATCAGATCT-GAAA-AGTTGATTT-ATACTACTGTTCTTC
80221 AAGGAAT
127 AAGGAAT
* * * *
80228 ATTGAATCGAGGTAAACTTGTTCCACTGTTT-ATCAGGGAAGATCAAATCTGGAAAAACAAGGAA
1 ATTGAATCGAGGCAGACTTGTTCCACTGTTTCATTAGGGAAGATCAAATCTGG-AAAA-AAGGGA
* * * ** * * * * * * *
80292 TCTGTTTCACTGTTTCTTCAGGGAACATCAGTTATGGAAATGTTGATTTATTCCACTGTTCTTC-
64 TATGCTCCACTACTCCTTCAGGGAAAATCAGATCT-GAAAAGTTGATTTATACTACTGTTCTTCA
*
80356 AGAAAAT
128 AG-GAAT
* * * *
80363 ATTGAATAGAGGTAGACTTGTACCACTGCTTC-TTCAGGGAAGATCAAAT
1 ATTGAATCGAGGCAGACTTGTTCCACTGTTTCATT-AGGGAAGATCAAAT
80412 ATGAGAATTA
Statistics
Matches: 259, Mismatches: 47, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
132 26 0.10
133 17 0.07
134 27 0.10
135 167 0.64
136 21 0.08
137 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.31
Consensus pattern (133 bp):
ATTGAATCGAGGCAGACTTGTTCCACTGTTTCATTAGGGAAGATCAAATCTGGAAAAAAGGGATA
TGCTCCACTACTCCTTCAGGGAAAATCAGATCTGAAAAGTTGATTTATACTACTGTTCTTCAAGG
AAT
Found at i:83208 original size:59 final size:59
Alignment explanation
Indices: 82996--83499 Score: 748
Period size: 59 Copynumber: 8.6 Consensus size: 59
82986 TTCCCATACA
* * *
82996 GAAATTCATACACTTACTATGAATT-TTTAATCATTTTAGCACAC-AAGGTG-CCTAATATG
1 GAAATTCATACACTTAGTATGAATTCCTT-ATCATGTTAGCACACGAA-GTGCCCT-ATATG
* * ** *
83055 GAAATT-ATACACTTAGTATGAATTCCTTAGCATTTTAGCACATAAAGTGTCCTATATG
1 GAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCTATATG
83113 GAAATTCA-ACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCTATATG
1 GAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCTATATG
*
83171 GAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTTCCCTATATG
1 GAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCTATATG
* *
83230 GAAATTCATACAATTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCTTATATG
1 GAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCTATATG
* * *
83289 GAAATTCATACACTTAGCATGGATTCTTTATCATGTTAGCACACGAAGTGCCCTATATG
1 GAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCTATATG
* * *
83348 GAAATTCATACATTTAGTATGAATTCCTTATCATGTTAGCACATGAAGTGTCCTATATG
1 GAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCTATATG
* * * *
83407 GAAATTCAAACACTTAGTATGCATTCCTTATCATGTTAGTACACGAAGTGCCCTATATA
1 GAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCTATATG
*
83466 GAAATTCATACACTTAGTACGAATTCCTTATCAT
1 GAAATTCATACACTTAGTATGAATTCCTTATCAT
83500 TTGGTAATCA
Statistics
Matches: 406, Mismatches: 34, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
58 97 0.24
59 309 0.76
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.34
Consensus pattern (59 bp):
GAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCTATATG
Found at i:83859 original size:22 final size:20
Alignment explanation
Indices: 83817--83869 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
83807 TGGCACTTCA
83817 GTATCGATACCCCTACCATG
1 GTATCGATACCCCTACCATG
* *
83837 GTATCGATACTACTCTACTATG
1 GTATCGATAC--CCCTACCATG
*
83859 GTATTGATACC
1 GTATCGATACC
83870 TCTTTCCGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 11 0.39
22 17 0.61
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (20 bp):
GTATCGATACCCCTACCATG
Found at i:84108 original size:95 final size:94
Alignment explanation
Indices: 83817--84133 Score: 415
Period size: 95 Copynumber: 3.4 Consensus size: 94
83807 TGGCACTTCA
* * * **
83817 GTATCGATACCCCTACCATGGTATCGATACTACTCTACTATGGTATTGATACCTCTTTCCGGTAT
1 GTATCGATACCCTTACCATGGTATCGATACTACTATACTATGGTACTGATACC-CCCTCCGGTAT
* **
83882 CGATACCAAAATTAGCTTCGATGTGGCTTG
65 CGATACCAAAATTAGATTCGATGTTACTTG
**
83912 GTATCGATACCCTTACCATGGTATCGATACTACTATACTAT-GTACTGATACCCCCTTTGGTATC
1 GTATCGATACCCTTACCATGGTATCGATACTACTATACTATGGTACTGATACCCCCTCCGGTATC
*
83976 GATACCAAAATTA-AGTTCGATGTTACCTG
66 GATACCAAAATTAGA-TTCGATGTTACTTG
* * *
84005 GTATCGATACCCTTACCATGGTATCAATATTACCT-TACTATGGTACCGATACCCCCTACCGGTA
1 GTATCGATACCCTTACCATGGTATCGATACTA-CTATACTATGGTACTGATACCCCCT-CCGGTA
* * *
84069 TCCATAACAAAATTAGATTCGATGTTTCTTG
64 TCGATACCAAAATTAGATTCGATGTTACTTG
*
84100 GTATCGATACCCTTACCATGGTATCGACACTACT
1 GTATCGATACCCTTACCATGGTATCGATACTACT
84134 CAGTAACTTT
Statistics
Matches: 194, Mismatches: 23, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
93 68 0.35
94 28 0.14
95 97 0.50
96 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (94 bp):
GTATCGATACCCTTACCATGGTATCGATACTACTATACTATGGTACTGATACCCCCTCCGGTATC
GATACCAAAATTAGATTCGATGTTACTTG
Done.