Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009361.1 Hibiscus syriacus cultivar Beakdansim tig00113184_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: 72482
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:1986 original size:35 final size:35
Alignment explanation
Indices: 1947--2056 Score: 102
Period size: 35 Copynumber: 3.1 Consensus size: 35
1937 AAAATTTATA
* *
1947 ATATTTTTATTGTAATTAAAATTATTATAAATTGT
1 ATATTTTAATTATAATTAAAATTATTATAAATTGT
* *
1982 ATATTTTAATTATAAATCTTTAAATTATTGT--ATTGT
1 ATATTTTAATTAT-AA--TTAAAATTATTATAAATTGT
*
2018 ATATTTTCGATTATAATTGAAAA-TATTATAAATT-T
1 ATATTTT-AATTATAATT-AAAATTATTATAAATTGT
2053 ATAT
1 ATAT
2057 AACTTTTGAA
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
34 7 0.11
35 19 0.31
36 19 0.31
37 5 0.08
38 11 0.18
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (35 bp):
ATATTTTAATTATAATTAAAATTATTATAAATTGT
Found at i:8013 original size:29 final size:29
Alignment explanation
Indices: 7980--8035 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
7970 TCCCAACACA
*
7980 TAGGTCGCCATGCCCTCCGGGCGACCTTG
1 TAGGTCGCCATGCACTCCGGGCGACCTTG
8009 TAGGTCGCCATGCACTCCGGGCGACCT
1 TAGGTCGCCATGCACTCCGGGCGACCT
8036 ACCCTCGCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.12, C:0.38, G:0.30, T:0.20
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCGGGCGACCTTG
Found at i:8077 original size:23 final size:23
Alignment explanation
Indices: 8051--8102 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
8041 CGCTCGAATT
8051 CCCTCGCATAGCTCGTTCGGATG
1 CCCTCGCATAGCTCGTTCGGATG
8074 CCCTCGCATAGCTCGTTCGGATG
1 CCCTCGCATAGCTCGTTCGGATG
*
8097 ACCTCG
1 CCCTCG
8103 GATACTTTCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.13, C:0.37, G:0.25, T:0.25
Consensus pattern (23 bp):
CCCTCGCATAGCTCGTTCGGATG
Found at i:8408 original size:25 final size:26
Alignment explanation
Indices: 8380--8431 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
8370 TCATTTTCAA
8380 TATATTATATA-ATAAAATAATTATT
1 TATATTATATATATAAAATAATTATT
8405 TATATTATATATATAAAATAATTATT
1 TATATTATATATATAAAATAATTATT
8431 T
1 T
8432 TTTAAAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
TATATTATATATATAAAATAATTATT
Found at i:17079 original size:23 final size:23
Alignment explanation
Indices: 17049--17100 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
17039 GTTTTCGATG
*
17049 ATTTTTTGGATT-AAAATCAAAT
1 ATTTTTTTGATTGAAAATCAAAT
* *
17071 ATTTTTTTGATTGAAAATTATAT
1 ATTTTTTTGATTGAAAATCAAAT
17094 ATTTTTT
1 ATTTTTT
17101 AAAATCAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (23 bp):
ATTTTTTTGATTGAAAATCAAAT
Found at i:17677 original size:29 final size:28
Alignment explanation
Indices: 17631--17685 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
17621 AGTAACGAAT
*
17631 AAACATTAGGCACCAAACTGAAAAAAAAA
1 AAACATTAGACACCAAACT-AAAAAAAAA
*
17660 AAACATTAGACACTAAACTAAAAAAA
1 AAACATTAGACACCAAACTAAAAAAA
17686 CGTCATACGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.64, C:0.16, G:0.07, T:0.13
Consensus pattern (28 bp):
AAACATTAGACACCAAACTAAAAAAAAA
Found at i:25875 original size:28 final size:28
Alignment explanation
Indices: 25843--25930 Score: 72
Period size: 29 Copynumber: 3.1 Consensus size: 28
25833 ATTTTTCATT
25843 TAAGTACTTAGATTATTTTTTATTAAAA
1 TAAGTACTTAGATTATTTTTTATTAAAA
* * *
25871 TAAGTACAT-GAAGTTTTTTTTTGTTAAAA
1 TAAGTACTTAG-A-TTATTTTTTATTAAAA
* * *
25900 T-AGATACTTAAAGTATTTTTATATCAAAA
1 TAAG-TACTTAGATTATTTTT-TATTAAAA
25929 TA
1 TA
25931 TGTATCTAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
27 1 0.02
28 17 0.38
29 27 0.60
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.47
Consensus pattern (28 bp):
TAAGTACTTAGATTATTTTTTATTAAAA
Found at i:25913 original size:29 final size:29
Alignment explanation
Indices: 25858--25930 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
25848 ACTTAGATTA
* *
25858 TTTTTTATTAAAATAAGTACATGAAGTTT
1 TTTTTTATTAAAATAAGTACATAAAGTAT
* *
25887 TTTTTTGTTAAAAT-AGATACTTAAAGTAT
1 TTTTTTATTAAAATAAG-TACATAAAGTAT
* *
25916 TTTTATATCAAAATA
1 TTTTTTATTAAAATA
25931 TGTATCTAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
28 2 0.06
29 33 0.94
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (29 bp):
TTTTTTATTAAAATAAGTACATAAAGTAT
Found at i:32034 original size:36 final size:36
Alignment explanation
Indices: 31963--32035 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 36
31953 GTTGGAAAAT
* *
31963 ATTTATATATTTTCTTTAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAATTGAAAATCATAAA
31999 ATTTATATAATTTT-TTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTA-AAAATTGAAAATCATAAA
32035 A
1 A
32036 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 18 0.55
37 15 0.45
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (36 bp):
ATTTATATATTTTCTTTAAAAATTGAAAATCATAAA
Found at i:34954 original size:31 final size:31
Alignment explanation
Indices: 34918--34976 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
34908 AACTTAAAAG
* *
34918 AGTTTTGCAATATTGAAATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
34949 AGTTTTATAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
34977 CCATACAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.46
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:35028 original size:22 final size:22
Alignment explanation
Indices: 35000--35476 Score: 578
Period size: 22 Copynumber: 21.6 Consensus size: 22
34990 ATAATAATTT
*
35000 TTTTAAAATAAAACAATTCATA
1 TTTTAAAATAAATCAATTCATA
35022 TTTTAAAATAAATCAATAT-ATA
1 TTTTAAAATAAATCAAT-TCATA
*
35044 TTTAAAAATAAATCAA-TCTATA
1 TTTTAAAATAAATCAATTC-ATA
35066 TTTTAAAATAAATCAA-TCTATA
1 TTTTAAAATAAATCAATTC-ATA
***
35088 TTTTAAAATAAATTTTTTCATA
1 TTTTAAAATAAATCAATTCATA
*
35110 TTTTAAAATAAGTCAA-TCTATA
1 TTTTAAAATAAATCAATTC-ATA
***
35132 TTTTAAAATAAATTTTTTCATA
1 TTTTAAAATAAATCAATTCATA
*
35154 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
*
35176 TTTTTTAAAATAAATCAATCCATA
1 --TTTTAAAATAAATCAATTCATA
*
35200 TTTTAAAATAAAT-TATTCCATA
1 TTTTAAAATAAATCAATT-CATA
35222 TTTTAAAATAAATC-ATTCCATA
1 TTTTAAAATAAATCAATT-CATA
35244 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATTCATA
**
35266 TTTTAAAATAAAAT-TTTTCATA
1 TTTTAAAAT-AAATCAATTCATA
*
35288 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
*
35310 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
**
35332 TTTTAAAATAAAT-TTTTCCATA
1 TTTTAAAATAAATCAATT-CATA
*
35354 TTTTAAAATAAATCAATTTATA
1 TTTTAAAATAAATCAATTCATA
**
35376 TTTTAAAATAAAAT-TTTTCATA
1 TTTTAAAAT-AAATCAATTCATA
35398 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATTCATA
*
35420 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
35442 TTTTAAAATAAATCAA-TCTATA
1 TTTTAAAATAAATCAATTC-ATA
35464 TTTTAAAATAAAT
1 TTTTAAAATAAAT
35477 TTTAAAATAG
Statistics
Matches: 399, Mismatches: 38, Indels: 36
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.00
21 14 0.04
22 344 0.86
23 18 0.05
24 22 0.06
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTTAAAATAAATCAATTCATA
Found at i:38545 original size:20 final size:20
Alignment explanation
Indices: 38509--38546 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
38499 TTATTAAATA
*
38509 ATTTAAAATATTTTATTTTC
1 ATTTAAAATATTATATTTTC
38529 ATTTAAAA-ATATATATTT
1 ATTTAAAATAT-TATATTT
38547 AATGTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTAAAATATTATATTTTC
Found at i:45068 original size:33 final size:35
Alignment explanation
Indices: 45001--45082 Score: 123
Period size: 33 Copynumber: 2.4 Consensus size: 35
44991 TGTCATGCAT
* * *
45001 ATTAATTAATCTAATCTAAGAAAATCATATATATA
1 ATTAAATAATTTAATCTAAGAAAATCATAAATATA
45036 ATTAAATAATTTAATCT-A-AAAATCATAAATATA
1 ATTAAATAATTTAATCTAAGAAAATCATAAATATA
45069 ATTAAATAATTTAA
1 ATTAAATAATTTAA
45083 ATTTTATCTT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
33 28 0.64
34 1 0.02
35 15 0.34
ACGTcount: A:0.55, C:0.06, G:0.01, T:0.38
Consensus pattern (35 bp):
ATTAAATAATTTAATCTAAGAAAATCATAAATATA
Found at i:45578 original size:23 final size:22
Alignment explanation
Indices: 45552--45597 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
45542 AGTAAACGAA
45552 TAAT-TTTAACTTTTAAAATAATT
1 TAATATTTAA-TTTTAAAA-AATT
45575 TAATAATTTAATTTTAAAAAATT
1 TAAT-ATTTAATTTTAAAAAATT
45598 CAAAATATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 8 0.38
24 8 0.38
25 5 0.24
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TAATATTTAATTTTAAAAAATT
Found at i:45604 original size:25 final size:26
Alignment explanation
Indices: 45550--45597 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
45540 CCAGTAAACG
*
45550 AATAATTTTAACTTTTAAAATAATTT
1 AATAATTTTAACTTTTAAAATAATTA
45576 AATAA-TTTAA-TTTTAAAA-AATT
1 AATAATTTTAACTTTTAAAATAATT
45598 CAAAATATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 4 0.18
24 8 0.36
25 5 0.23
26 5 0.23
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
AATAATTTTAACTTTTAAAATAATTA
Found at i:45610 original size:25 final size:25
Alignment explanation
Indices: 45556--45602 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
45546 AACGAATAAT
* *
45556 TTTAACTTTTAAAATAATTTAATAA
1 TTTAACTTTTAAAATAATTCAAAAA
45581 TTTAA-TTTTAAAA-AATTCAAAA
1 TTTAACTTTTAAAATAATTCAAAA
45603 TATCTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 8 0.40
25 5 0.25
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (25 bp):
TTTAACTTTTAAAATAATTCAAAAA
Found at i:46102 original size:103 final size:103
Alignment explanation
Indices: 45972--46179 Score: 389
Period size: 103 Copynumber: 2.0 Consensus size: 103
45962 AGGGTCAACC
*
45972 GGAATGGCTTTGAATCAGCCTCTCCAAGTTGAGAATAGCAGAATGACCACAATAGCTGCAAAATG
1 GGAATGGCTTTGAATCAGCCTCGCCAAGTTGAGAATAGCAGAATGACCACAATAGCTGCAAAATG
*
46037 ACAAAATGAAATGGAAGTAATAAACCAAATCAGATAGG
66 AAAAAATGAAATGGAAGTAATAAACCAAATCAGATAGG
*
46075 GGAATGGCTTTGAATCAGCCTCGCCAAGTTGAGAATAGCAGAATGACCACAGTAGCTGCAAAATG
1 GGAATGGCTTTGAATCAGCCTCGCCAAGTTGAGAATAGCAGAATGACCACAATAGCTGCAAAATG
46140 AAAAAATGAAATGGAAGTAATAAACCAAATCAGATAGG
66 AAAAAATGAAATGGAAGTAATAAACCAAATCAGATAGG
46178 GG
1 GG
46180 CAACACTAAG
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 102 1.00
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (103 bp):
GGAATGGCTTTGAATCAGCCTCGCCAAGTTGAGAATAGCAGAATGACCACAATAGCTGCAAAATG
AAAAAATGAAATGGAAGTAATAAACCAAATCAGATAGG
Found at i:57036 original size:30 final size:30
Alignment explanation
Indices: 56994--57097 Score: 97
Period size: 29 Copynumber: 3.5 Consensus size: 30
56984 ATAAAATAAT
* *
56994 TAAATTAT-AATTTAATTCTTAAAATTTACA
1 TAAACTATCAATTTAA-TCTTAAATTTTACA
* *
57024 TAAA-TATCAATTTGATCTTAAATTTTATA
1 TAAACTATCAATTTAATCTTAAATTTTACA
* *
57053 TAAAAT-TCTAATTTAATCTCTAAATTTTAGA
1 TAAACTATC-AATTTAATCT-TAAATTTTACA
*
57084 TAAACTATTAATTT
1 TAAACTATCAATTT
57098 GACTTTTAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
29 21 0.34
30 20 0.32
31 20 0.32
32 1 0.02
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (30 bp):
TAAACTATCAATTTAATCTTAAATTTTACA
Found at i:57096 original size:31 final size:30
Alignment explanation
Indices: 57001--57097 Score: 92
Period size: 31 Copynumber: 3.2 Consensus size: 30
56991 AATTAAATTA
*
57001 TAATTTAAT-TCTTAAAATTTACATAAATAT
1 TAATTTAATCTC-TAAATTTTACATAAATAT
* * *
57031 CAATTTGATCT-TAAATTTTATATAAA-ATT
1 TAATTTAATCTCTAAATTTTACATAAATA-T
*
57060 CTAATTTAATCTCTAAATTTTAGATAAACTAT
1 -TAATTTAATCTCTAAATTTTACATAAA-TAT
57092 TAATTT
1 TAATTT
57098 GACTTTTAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
28 1 0.02
29 14 0.26
30 16 0.30
31 21 0.39
32 1 0.02
33 1 0.02
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.47
Consensus pattern (30 bp):
TAATTTAATCTCTAAATTTTACATAAATAT
Found at i:57108 original size:31 final size:29
Alignment explanation
Indices: 57001--57108 Score: 83
Period size: 31 Copynumber: 3.6 Consensus size: 29
56991 AATTAAATTA
* *
57001 TAATTTAATTCTTAAAATTTACATAAATAT
1 TAATTTGATT-TTAAATTTTACATAAATAT
* * *
57031 CAATTTGATCTTAAATTTTATATAAA-ATT
1 TAATTTGATTTTAAATTTTACATAAATA-T
* * *
57060 CTAATTTAATCTCTAAATTTTAGATAAACTAT
1 -TAATTTGAT-TTTAAATTTTACATAAA-TAT
57092 TAATTTGACTTTTAAAT
1 TAATTTGA-TTTTAAAT
57109 CTAGTCAAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 11
0.72 0.14 0.13
Matches are distributed among these distances:
28 1 0.02
29 15 0.25
30 14 0.23
31 27 0.45
32 2 0.03
33 1 0.02
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (29 bp):
TAATTTGATTTTAAATTTTACATAAATAT
Found at i:58283 original size:30 final size:30
Alignment explanation
Indices: 58249--58316 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
58239 TTATTTCAAA
*
58249 GATAAAATTACCACTTAAACTTTAAGTAAG
1 GATAAAATTACCACTTAAACTTTAAATAAG
*
58279 GATAAAATTTCCACTTAAACTTTAAATAAG
1 GATAAAATTACCACTTAAACTTTAAATAAG
*
58309 GGTAAAAT
1 GATAAAAT
58317 ATATTAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (30 bp):
GATAAAATTACCACTTAAACTTTAAATAAG
Found at i:58472 original size:2 final size:2
Alignment explanation
Indices: 58465--58544 Score: 126
Period size: 2 Copynumber: 40.5 Consensus size: 2
58455 TTTAATAATT
58465 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
58507 TA TA TA TA TA TA TA TA T- TA TG TA TG TA AA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
58545 TTTATTTTTT
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
1 1 0.01
2 70 0.99
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:60696 original size:21 final size:20
Alignment explanation
Indices: 60648--60699 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
60638 TCCACCCTTG
*
60648 AGTATCGATACCCAACGAAT
1 AGTATCGATACCCAACGAAC
* *
60668 AATATCGATACCCAATGAAC
1 AGTATCGATACCCAACGAAC
60688 ATGTATCGATAC
1 A-GTATCGATAC
60700 TCCTAGCCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (20 bp):
AGTATCGATACCCAACGAAC
Found at i:64677 original size:21 final size:19
Alignment explanation
Indices: 64648--64689 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
64638 AAATGGAAAA
64648 AAATCTTAATATATTATTAAT
1 AAATCTT-A-ATATTATTAAT
*
64669 AAATGTTAATATTATTAAT
1 AAATCTTAATATTATTAAT
64688 AA
1 AA
64690 TTTATTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 1 0.05
21 6 0.30
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (19 bp):
AAATCTTAATATTATTAAT
Found at i:71156 original size:23 final size:23
Alignment explanation
Indices: 71115--71160 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
71105 TTTGATTTAG
*
71115 TAAAATAGTGTCGACTGATTCAA
1 TAAAATAGTGTCGAATGATTCAA
71138 TAAAATAGTG-CTGAATGATTCAA
1 TAAAATAGTGTC-GAATGATTCAA
71161 CACAGAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.30
Consensus pattern (23 bp):
TAAAATAGTGTCGAATGATTCAA
Done.