Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004611.1 Hibiscus syriacus cultivar Beakdansim tig00010313_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: 77659
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:3974 original size:2 final size:2
Alignment explanation
Indices: 3881--3960 Score: 144
Period size: 2 Copynumber: 40.5 Consensus size: 2
3871 GATCGTAACC
*
3881 AT AT GT AT AT AT AT AT A- 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
3922 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3961 ATCGTATCAT
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
1 1 0.01
2 74 0.99
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6540 original size:18 final size:17
Alignment explanation
Indices: 6508--6541 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6498 TCATATTTAA
*
6508 AAATAAAACATGAAAAT
1 AAATAAAAAATGAAAAT
6525 AAATAATAAAATGAAAA
1 AAATAA-AAAATGAAAA
6542 CAAAAGAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.18
Consensus pattern (17 bp):
AAATAAAAAATGAAAAT
Found at i:10693 original size:17 final size:17
Alignment explanation
Indices: 10658--10693 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10648 ACTATGACTT
* *
10658 GAATTTTACGGGTATCC
1 GAATTTTACGAGTACCC
10675 GAATTTTACGAGTACCC
1 GAATTTTACGAGTACCC
10692 GA
1 GA
10694 TTACCGGGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (17 bp):
GAATTTTACGAGTACCC
Found at i:11976 original size:2 final size:2
Alignment explanation
Indices: 11960--12049 Score: 103
Period size: 2 Copynumber: 44.5 Consensus size: 2
11950 TTGAAATAAT
11960 TA TA -A TA TA -A 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
* * * *
12000 TA TA TA TA TA TA AA CTA TA GTT TA TA TT TA TA TA TA TA TA AA CTA
1 TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA
12045 TA TA T
1 TA TA T
12050 GAACTCTCCA
Statistics
Matches: 75, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
1 2 0.03
2 70 0.93
3 3 0.04
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (2 bp):
TA
Found at i:12561 original size:64 final size:63
Alignment explanation
Indices: 12484--12605 Score: 165
Period size: 64 Copynumber: 1.9 Consensus size: 63
12474 CTTTTACATT
*
12484 TTTATTTTATTTTAATTTTGATATGCTATTTTTGTTTG-TTCATAACTTGGTCACTTATTTACA
1 TTTATTTTATTTTAATTATGATATGCTATTTTTGTTTGATT-ATAACTTGGTCACTTATTTACA
* * * **
12547 TTTAGTTTTATTTTAATTATGATGTGTTGTTTTTGTTTGATTATATTTTGGTCACTTAT
1 TTTA-TTTTATTTTAATTATGATATGCTATTTTTGTTTGATTATAACTTGGTCACTTAT
12606 AAGTCTATTA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
63 4 0.08
64 45 0.88
65 2 0.04
ACGTcount: A:0.20, C:0.07, G:0.12, T:0.61
Consensus pattern (63 bp):
TTTATTTTATTTTAATTATGATATGCTATTTTTGTTTGATTATAACTTGGTCACTTATTTACA
Found at i:15016 original size:55 final size:55
Alignment explanation
Indices: 14946--15051 Score: 185
Period size: 55 Copynumber: 1.9 Consensus size: 55
14936 TTTATTGTAG
*
14946 ATGCCACTGCTTTTACATTTACTGCTTTTTCATTAATTTTCATAAATTTCAAAGC
1 ATGCCACTGCTTTTACATTTAATGCTTTTTCATTAATTTTCATAAATTTCAAAGC
* *
15001 ATGCTACTGCTTTTACATTTAATGCTTTTTGATTAATTTTCATAAATTTCA
1 ATGCCACTGCTTTTACATTTAATGCTTTTTCATTAATTTTCATAAATTTCA
15052 GCAAGCATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.27, C:0.17, G:0.08, T:0.48
Consensus pattern (55 bp):
ATGCCACTGCTTTTACATTTAATGCTTTTTCATTAATTTTCATAAATTTCAAAGC
Found at i:15208 original size:22 final size:21
Alignment explanation
Indices: 15160--15208 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
15150 TTTACCATTG
*
15160 ATTGGATTGGTATGAATGCTA
1 ATTGGATTGGTATAAATGCTA
* * *
15181 ACTGGACTTGGTCTAAATGCTT
1 ATTGGA-TTGGTATAAATGCTA
15203 ATTGGA
1 ATTGGA
15209 ATTCATCTGA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.27, C:0.10, G:0.27, T:0.37
Consensus pattern (21 bp):
ATTGGATTGGTATAAATGCTA
Found at i:15859 original size:19 final size:19
Alignment explanation
Indices: 15835--15871 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15825 AATAAATATA
* *
15835 TAAAGTTAATTTAGTAATT
1 TAAAGTAAATCTAGTAATT
15854 TAAAGTAAATCTAGTAAT
1 TAAAGTAAATCTAGTAAT
15872 ATAATGATGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.41
Consensus pattern (19 bp):
TAAAGTAAATCTAGTAATT
Found at i:16118 original size:16 final size:16
Alignment explanation
Indices: 16097--16130 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
16087 TTATAACTTA
*
16097 CAAGTTAGGTAAATAT
1 CAAGTTAAGTAAATAT
16113 CAAGTTAAGTAAATAT
1 CAAGTTAAGTAAATAT
16129 CA
1 CA
16131 GTGCAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.09, G:0.15, T:0.29
Consensus pattern (16 bp):
CAAGTTAAGTAAATAT
Found at i:17639 original size:25 final size:24
Alignment explanation
Indices: 17606--17652 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
17596 CAAACCCTAA
*
17606 TTCAGCCCGTTCATGTACAAGTGT
1 TTCAGCCCGTCCATGTACAAGTGT
*
17630 TTCAGGCCCGTCCATGTATAAGT
1 TTCA-GCCCGTCCATGTACAAGT
17653 ATAACATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (24 bp):
TTCAGCCCGTCCATGTACAAGTGT
Found at i:17775 original size:93 final size:92
Alignment explanation
Indices: 17597--17784 Score: 252
Period size: 93 Copynumber: 2.0 Consensus size: 92
17587 CAACCAAATC
* * * *
17597 AAACCCTAATTCAGCCCGTTCATGTACAAGTGTTTCAGGCCCGTCCATGTATAAGTATAACATGT
1 AAACCCCAATTCAACCCGTTCATGTACAAATATTTCAGGCCCGTCCATGTATAAGTATAACATGT
* * *
17662 TACTCGTCTTAGGATCCAAAATTTGAGG
66 GAC-CGTCTTAAGACCCAAAATTTGAGG
* **
17690 AAACCCCAATTCACACCCGTTCATGTACAAATATATTCAGGTCCGTCCATGTATAAGTATAGTAT
1 AAACCCCAATTCA-ACCCGTTCATGTACAAATAT-TTCAGGCCCGTCCATGTATAAGTATAACAT
17755 GTGA-CGTCTTAAGACCCAAAATTTGAGG
64 GTGACCGTCTTAAGACCCAAAATTTGAGG
17783 AA
1 AA
17785 TCCACATATA
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
93 36 0.43
94 17 0.20
95 30 0.36
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (92 bp):
AAACCCCAATTCAACCCGTTCATGTACAAATATTTCAGGCCCGTCCATGTATAAGTATAACATGT
GACCGTCTTAAGACCCAAAATTTGAGG
Found at i:21032 original size:15 final size:15
Alignment explanation
Indices: 21008--21077 Score: 122
Period size: 15 Copynumber: 4.7 Consensus size: 15
20998 CGAAGGAGTA
*
21008 GCATCGATACCAAGG
1 GCATCAATACCAAGG
21023 GCATCAATACCAAGG
1 GCATCAATACCAAGG
21038 GCATCAATACCAAGG
1 GCATCAATACCAAGG
21053 GCATCAATACCAAGG
1 GCATCAATACCAAGG
*
21068 GCATCGATAC
1 GCATCAATAC
21078 TAATGGACAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 53 1.00
ACGTcount: A:0.37, C:0.27, G:0.21, T:0.14
Consensus pattern (15 bp):
GCATCAATACCAAGG
Found at i:21821 original size:23 final size:23
Alignment explanation
Indices: 21791--21924 Score: 108
Period size: 23 Copynumber: 5.8 Consensus size: 23
21781 GAATTGAGGG
* *
21791 TTCTACGCGGTCCTTTGGGACAT
1 TTCTACGCGGCCCTTCGGGACAT
*
21814 TTCTACGCGGCCCTTCGAGACAT
1 TTCTACGCGGCCCTTCGGGACAT
* * *
21837 TTCTATGCGGCCCTTCGGGAAAA
1 TTCTACGCGGCCCTTCGGGACAT
* * * *
21860 TTCTATGTGGTCCTTCAGGACAT
1 TTCTACGCGGCCCTTCGGGACAT
* * *
21883 TTCTACGTGGCACTTCAGTG-CAT
1 TTCTACGCGGCCCTTC-GGGACAT
* *
21906 ATTCTACGCGACACTTCGG
1 -TTCTACGCGGCCCTTCGG
21925 TGTAATACTA
Statistics
Matches: 89, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
23 74 0.83
24 15 0.17
ACGTcount: A:0.18, C:0.28, G:0.23, T:0.31
Consensus pattern (23 bp):
TTCTACGCGGCCCTTCGGGACAT
Found at i:39676 original size:40 final size:40
Alignment explanation
Indices: 39578--39810 Score: 312
Period size: 40 Copynumber: 5.9 Consensus size: 40
39568 ACTATAATGC
*
39578 TTACACATAAGGTCGTTG-CCACCATATGTACCGAAGTGC-
1 TTACACATAAGGTCG-TGCCCACCATATGCACCGAAGTGCA
*
39617 TTACACATAAGGTTGTGCCCACCATATGCACCGAAGTGCA
1 TTACACATAAGGTCGTGCCCACCATATGCACCGAAGTGCA
* * *
39657 TTACACATAAGGTCATGCCCA-CATATGCATCGAAGTACA
1 TTACACATAAGGTCGTGCCCACCATATGCACCGAAGTGCA
* * * * *
39696 TTACACATATGGTCATACCCACTATATGCACCGAGGTGCA
1 TTACACATAAGGTCGTGCCCACCATATGCACCGAAGTGCA
* *
39736 TTACACATAA-GTCCGTGCCCACTATATGCACCGACGTGCA
1 TTACACATAAGGT-CGTGCCCACCATATGCACCGAAGTGCA
39776 TTACACATAAGGTCGTGCCCACCATATGCACCGAA
1 TTACACATAAGGTCGTGCCCACCATATGCACCGAA
39811 TTGCTTAATC
Statistics
Matches: 171, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 71 0.42
40 96 0.56
41 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (40 bp):
TTACACATAAGGTCGTGCCCACCATATGCACCGAAGTGCA
Found at i:39717 original size:79 final size:79
Alignment explanation
Indices: 39578--39810 Score: 301
Period size: 79 Copynumber: 2.9 Consensus size: 79
39568 ACTATAATGC
* * *
39578 TTACACATAAGGTCGTTG-CCACCATATGTACCGAAGTGC-TTACACATAAGGTTGTGCCCACCA
1 TTACACATAAGGTC-ATGCCCA-CATATGCACCGAAGTGCATTACACATAAGGTCGTGCCCACCA
39641 TATGCACCGAAGTGCA
64 TATGCACCGAAGTGCA
* * * * * *
39657 TTACACATAAGGTCATGCCCACATATGCATCGAAGTACATTACACATATGGTCATACCCACTATA
1 TTACACATAAGGTCATGCCCACATATGCACCGAAGTGCATTACACATAAGGTCGTGCCCACCATA
*
39722 TGCACCGAGGTGCA
66 TGCACCGAAGTGCA
* *
39736 TTACACATAA-GTCCGTGCCCACTATATGCACCGACGTGCATTACACATAAGGTCGTGCCCACCA
1 TTACACATAAGGT-CATGCCCAC-ATATGCACCGAAGTGCATTACACATAAGGTCGTGCCCACCA
39800 TATGCACCGAA
64 TATGCACCGAA
39811 TTGCTTAATC
Statistics
Matches: 131, Mismatches: 19, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
78 18 0.14
79 69 0.53
80 44 0.34
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (79 bp):
TTACACATAAGGTCATGCCCACATATGCACCGAAGTGCATTACACATAAGGTCGTGCCCACCATA
TGCACCGAAGTGCA
Found at i:39992 original size:22 final size:23
Alignment explanation
Indices: 39959--40005 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
39949 AATACCCGAA
*
39959 ATATCATTCATGAAAAATATCAT
1 ATATCATTCATGAAAAACATCAT
*
39982 ATAT-ATTCATGATAAACATCAT
1 ATATCATTCATGAAAAACATCAT
40004 AT
1 AT
40006 GTAACGATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (23 bp):
ATATCATTCATGAAAAACATCAT
Found at i:41604 original size:18 final size:19
Alignment explanation
Indices: 41562--41610 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 19
41552 TGTTGAACAA
*
41562 TATCGATACTGATGCAATTAG
1 TATCGATACTGATG--ATGAG
41583 TATCGATACTGATG-TGAG
1 TATCGATACTGATGATGAG
41601 TATCGATACT
1 TATCGATACT
41611 AGGAGAAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 13 0.48
21 14 0.52
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (19 bp):
TATCGATACTGATGATGAG
Found at i:42128 original size:55 final size:55
Alignment explanation
Indices: 42047--42437 Score: 559
Period size: 55 Copynumber: 7.1 Consensus size: 55
42037 ATTACCAAAT
* *
42047 GGCACTATGGGTGC-AAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
*
42101 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * *
42156 GGCAATGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
*
42211 GGCACTATTTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* *
42266 GGCATTATGTGTGCAAAACTAAGAAATTTATAATAAGTTTATGAATTTCCGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * * ** *
42321 GCCACTTTGTGTGCAAAGCTAAGAAATTCATAATAAGTTTATGAATTTCATTATT
1 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * ** * * * * *
42376 GGCACTGTGTATGCAACCCCAAGTAATTCATAATAAGTTTGTGAATTACCGTATT
1 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
42431 GGCACTA
1 GGCACTA
42438 CGTAAGCAAA
Statistics
Matches: 304, Mismatches: 32, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
54 12 0.04
55 292 0.96
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (55 bp):
GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
Found at i:42773 original size:46 final size:46
Alignment explanation
Indices: 42581--42766 Score: 309
Period size: 46 Copynumber: 4.0 Consensus size: 46
42571 GGCAAGTTAG
*
42581 ATGTATAACAGTGCATAATTGGCATGAAAGGATACCATAAAGGAAA
1 ATGTATAACAGTGCATAATTGGCATGAAAGGATACCATAAATGAAA
** * *
42627 ATGTATAACAGTATATAATTGGTATGAAAGGATGCCATAAATGAAA
1 ATGTATAACAGTGCATAATTGGCATGAAAGGATACCATAAATGAAA
42673 ATGTATAACAGTGCATAATTGGCATGAAAGGATACCATAAATGAAA
1 ATGTATAACAGTGCATAATTGGCATGAAAGGATACCATAAATGAAA
* *
42719 ATGTATAACAGTGCATAATTGGCATGAAAGGATGCCACAAATGAAA
1 ATGTATAACAGTGCATAATTGGCATGAAAGGATACCATAAATGAAA
42765 AT
1 AT
42767 ACATAACGGT
Statistics
Matches: 129, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 129 1.00
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.24
Consensus pattern (46 bp):
ATGTATAACAGTGCATAATTGGCATGAAAGGATACCATAAATGAAA
Found at i:49027 original size:40 final size:40
Alignment explanation
Indices: 48983--49151 Score: 214
Period size: 40 Copynumber: 4.2 Consensus size: 40
48973 AGTGCTTGCT
* * * * *
48983 CATAACGTCATGCCCACAATATGCACCAAAGAGCATTATA
1 CATAAGGTCGTGCCCACCATATGCACCAAAGTGCATTACA
* *
49023 CATAAGGTCGTGCCCACCATATGCATCGAAGTGCATTACA
1 CATAAGGTCGTGCCCACCATATGCACCAAAGTGCATTACA
* * * *
49063 TATAAGCTCGTGCCCACCATATGCACCGAAGTTCATTACA
1 CATAAGGTCGTGCCCACCATATGCACCAAAGTGCATTACA
*
49103 CATAAGGTTGTGCTCC-CCATATGCACCAAAGTGCATTACA
1 CATAAGGTCGTGC-CCACCATATGCACCAAAGTGCATTACA
49143 CATAAGGTC
1 CATAAGGTC
49152 ATGTTGAGTT
Statistics
Matches: 111, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 109 0.98
41 2 0.02
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.23
Consensus pattern (40 bp):
CATAAGGTCGTGCCCACCATATGCACCAAAGTGCATTACA
Found at i:49850 original size:19 final size:19
Alignment explanation
Indices: 49826--49878 Score: 106
Period size: 19 Copynumber: 2.8 Consensus size: 19
49816 ATAATACCTA
49826 GTGCATCGGTACACTTGGG
1 GTGCATCGGTACACTTGGG
49845 GTGCATCGGTACACTTGGG
1 GTGCATCGGTACACTTGGG
49864 GTGCATCGGTACACT
1 GTGCATCGGTACACT
49879 AATTACATTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.17, C:0.23, G:0.34, T:0.26
Consensus pattern (19 bp):
GTGCATCGGTACACTTGGG
Found at i:50697 original size:25 final size:26
Alignment explanation
Indices: 50659--50723 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
50649 ATCATTCAAA
*
50659 CAAACCAAAC-ATCCAAACT-ATATT
1 CAAAACAAACAATCCAAACTAATATT
50683 CAAAACAAACAATCCAAACTAAATATT
1 CAAAACAAACAATCCAAACT-AATATT
50710 CAAAATTCAAACAA
1 CAAAA--CAAACAA
50724 ACAAAGTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
24 9 0.26
25 9 0.26
27 10 0.29
29 7 0.20
ACGTcount: A:0.57, C:0.25, G:0.00, T:0.18
Consensus pattern (26 bp):
CAAAACAAACAATCCAAACTAATATT
Found at i:50720 original size:29 final size:28
Alignment explanation
Indices: 50664--50744 Score: 91
Period size: 29 Copynumber: 3.0 Consensus size: 28
50654 TCAAACAAAC
50664 CAAAC-ATCCAAACT--ATATTCAAAA-
1 CAAACAATCCAAACTAAATATTCAAAAT
50688 CAAACAATCCAAACTAAATATTCAAAATT
1 CAAACAATCCAAACTAAATATTCAAAA-T
* *
50717 CAAACAA-ACAAAGTTAAATATTCAAAAT
1 CAAACAATCCAAA-CTAAATATTCAAAAT
50745 GTTTAAACAC
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
24 5 0.10
25 9 0.18
27 10 0.20
28 5 0.10
29 20 0.41
ACGTcount: A:0.57, C:0.20, G:0.01, T:0.22
Consensus pattern (28 bp):
CAAACAATCCAAACTAAATATTCAAAAT
Found at i:52754 original size:44 final size:44
Alignment explanation
Indices: 52671--52781 Score: 138
Period size: 44 Copynumber: 2.5 Consensus size: 44
52661 TGTATTTGTG
* * *
52671 CACTG-CATAGTGTATCAATGCATATTCAAGGAATACATCGGTG
1 CACTGTCATAGTGTATCGATGCATATTCAAAGAATACATCGGTA
* *
52714 CATCT-TGATAGTGTATCGATGCATATTCAAA-AGATGCATCGGTA
1 CA-CTGTCATAGTGTATCGATGCATATTCAAAGA-ATACATCGGTA
52758 CACTGTCATAGTGTATCGATGCAT
1 CACTGTCATAGTGTATCGATGCAT
52782 TGTGCATAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
43 5 0.09
44 53 0.91
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (44 bp):
CACTGTCATAGTGTATCGATGCATATTCAAAGAATACATCGGTA
Found at i:55202 original size:24 final size:24
Alignment explanation
Indices: 55175--55224 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
55165 TGGTGGTTGA
*
55175 TTTAATGGT-TGTTTGAACTTTATT
1 TTTAATGGTATATTT-AACTTTATT
*
55199 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAACTTTATT
55223 TT
1 TT
55225 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.24, C:0.02, G:0.14, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTTAACTTTATT
Found at i:60339 original size:65 final size:64
Alignment explanation
Indices: 60230--60384 Score: 197
Period size: 65 Copynumber: 2.4 Consensus size: 64
60220 ACAATTGGGG
* * * *
60230 TGCATCGGTACACT-AATTACATTCGATGTTTCAAAAGATCCAGGAGTGTATCGATGCATGCTCT
1 TGCATCGGTACA-TAAAATGCATTCGATGTTTCAAAAAATCCAGGAGTGCATCGATGCATGCT-T
60294 A
64 A
* * *
60295 TGCATCGGTACATAAAATGCATTCGATGTTTTAATAAAAT-CAGGAGTGCATCGATGCATGGTTG
1 TGCATCGGTACATAAAATGCATTCGATGTTTCAA-AAAATCCAGGAGTGCATCGATGCATGCTTA
*
60359 TGCATCGGTACAAAAAATGCATTCGA
1 TGCATCGGTACATAAAATGCATTCGA
60385 ATTAGGGTGT
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
64 27 0.34
65 49 0.61
66 4 0.05
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (64 bp):
TGCATCGGTACATAAAATGCATTCGATGTTTCAAAAAATCCAGGAGTGCATCGATGCATGCTTA
Found at i:65452 original size:20 final size:20
Alignment explanation
Indices: 65427--65681 Score: 189
Period size: 20 Copynumber: 12.7 Consensus size: 20
65417 GATTTTCCAT
* *
65427 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGTA
* **
65447 AATCGCAACGCGAACATATA
1 AATCGCAACGCGAATACGTA
*
65467 AATCGCAACGCG-ATTC-TGA
1 AATCGCAACGCGAATACGT-A
* ** * *
65486 CTATCGCAACTAGTATCCGTA
1 -AATCGCAACGCGAATACGTA
65507 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACGT-A
* *
65528 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
**
65548 AATCGCAACAAGAATACGTA
1 AATCGCAACGCGAATACGTA
*
65568 AATCGTAACGC--ATATCTGTA
1 AATCGCAACGCGAATA-C-GTA
*
65588 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGTA
* ** *
65608 AATCGCAATGCTTATCCGTA
1 AATCGCAACGCGAATACGTA
65628 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACGT-A
* *
65649 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
65669 AATCGCAACGCGA
1 AATCGCAACGCGA
65682 TTTTTAAAGC
Statistics
Matches: 184, Mismatches: 37, Indels: 28
0.74 0.15 0.11
Matches are distributed among these distances:
18 4 0.02
19 3 0.02
20 135 0.73
21 38 0.21
22 4 0.02
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATACGTA
Found at i:65563 original size:121 final size:120
Alignment explanation
Indices: 65427--65677 Score: 323
Period size: 121 Copynumber: 2.1 Consensus size: 120
65417 GATTTTCCAT
** * * * *
65427 AATCGCAACGCGAATATGAAAATCGCAACGCGA-A-CATATAAATCGCAACGCG-ATTC-TGACT
1 AATCGCAACAAGAATACGAAAATCGCAACGC-ATATC-TATAAATCGCAACGAGAATACGT-A-A
65488 ATCGCAACTAG-TATCCGTAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTA
62 ATCGCAA-T-GCTATCCGTAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTA
* * *
65548 AATCGCAACAAGAATACGTAAATCGTAACGCATATCTGTAAATCGCAACGAGAATACGTAAATCG
1 AATCGCAACAAGAATACGAAAATCGCAACGCATATCTATAAATCGCAACGAGAATACGTAAATCG
65613 CAATGCTTATCCGTAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTA
66 CAATGC-TATCCGTAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTA
65669 AATCGCAAC
1 AATCGCAAC
65678 GCGATTTTTA
Statistics
Matches: 115, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
119 1 0.01
120 2 0.02
121 106 0.92
122 5 0.04
123 1 0.01
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.20
Consensus pattern (120 bp):
AATCGCAACAAGAATACGAAAATCGCAACGCATATCTATAAATCGCAACGAGAATACGTAAATCG
CAATGCTATCCGTAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTA
Found at i:65589 original size:40 final size:41
Alignment explanation
Indices: 65488--65678 Score: 278
Period size: 40 Copynumber: 4.7 Consensus size: 41
65478 GATTCTGACT
**
65488 ATCGCAACTAGTATCCGTAAATCGCAACGACAATACGTAAA
1 ATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAA
* *
65529 ATCGCAACGCGTATCCGTAAATCGCAACAAGAATACGT-AA
1 ATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAA
* * * *
65569 ATCGTAACGCATATCTGTAAATCGCAACGAGAATACGT-AA
1 ATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAA
* *
65609 ATCGCAATGCTTATCCGTAAATCGCAACGACAATACGTAAA
1 ATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAA
65650 ATCGCAACGCGTATCCGTAAATCGCAACG
1 ATCGCAACGCGTATCCGTAAATCGCAACG
65679 CGATTTTTAA
Statistics
Matches: 134, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 71 0.53
41 63 0.47
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAA
Found at i:66263 original size:20 final size:20
Alignment explanation
Indices: 66238--66305 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
66228 TTCTAAACTT
66238 AAAATCGCAACATGAAAATG
1 AAAATCGCAACATGAAAATG
66258 AAAATCGCAACATGAAAATG
1 AAAATCGCAACATGAAAATG
** *
66278 ACTATCACAACGA-GAGAAATG
1 AAAATCGCAAC-ATGA-AAATG
66299 AAAATCG
1 AAAATCG
66306 TAACGAGAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
20 30 0.75
21 10 0.25
ACGTcount: A:0.53, C:0.16, G:0.16, T:0.15
Consensus pattern (20 bp):
AAAATCGCAACATGAAAATG
Found at i:66330 original size:33 final size:33
Alignment explanation
Indices: 66293--66373 Score: 108
Period size: 33 Copynumber: 2.5 Consensus size: 33
66283 CACAACGAGA
*
66293 GAAATGAAAATCGTAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
66326 GAAATGAAAATGGCAACGAGATAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* **
66359 AAAACCAAAATCGCA
1 GAAATGAAAATCGCA
66374 TTGCGATTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.48, C:0.20, G:0.21, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:66451 original size:51 final size:52
Alignment explanation
Indices: 66369--66484 Score: 162
Period size: 51 Copynumber: 2.2 Consensus size: 52
66359 AAAACCAAAA
* * **
66369 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATTTCGCGTTACGATTCTCTCGTTGCGATAATAATT
* *
66421 TCGCGTTGCG-TTTTCATTTCGCGTTACGATTCTTTCGTTGCGATAATCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTACGATTCTCTCGTTGCGATAATAATT
66472 TCCGCGTTGCGAT
1 T-CGCGTTGCGAT
66485 AGTCATTCTC
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
51 37 0.66
52 18 0.32
53 1 0.02
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.44
Consensus pattern (52 bp):
TCGCGTTGCGATTTTCATTTCGCGTTACGATTCTCTCGTTGCGATAATAATT
Found at i:66510 original size:20 final size:19
Alignment explanation
Indices: 66369--66513 Score: 114
Period size: 20 Copynumber: 8.1 Consensus size: 19
66359 AAAACCAAAA
*
66369 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
66388 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
66402 TCTCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
66421 TCGCGTTGCG-TTTTCATT
1 TCGCGTTGCGATTTTCATT
*
66439 TCGCGTTACGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
**
66455 T--CGTTGCGATAATCATT
1 TCGCGTTGCGATTTTCATT
**
66472 TCCGCGTTGCGATAGTCATT
1 T-CGCGTTGCGATTTTCATT
*
66492 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
66512 TC
1 TC
66514 AACCAAAAGA
Statistics
Matches: 101, Mismatches: 12, Indels: 26
0.73 0.09 0.19
Matches are distributed among these distances:
14 17 0.17
16 7 0.07
17 9 0.09
18 16 0.16
19 21 0.21
20 30 0.30
21 1 0.01
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:66636 original size:20 final size:20
Alignment explanation
Indices: 66611--66651 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
66601 GTGTAGTTTT
66611 TTGGTATATCTAACTTGGTA
1 TTGGTATATCTAACTTGGTA
66631 TTGGTATATCTAACTTGGTA
1 TTGGTATATCTAACTTGGTA
66651 T
1 T
66652 GTTTATTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.10, G:0.20, T:0.46
Consensus pattern (20 bp):
TTGGTATATCTAACTTGGTA
Found at i:68445 original size:42 final size:42
Alignment explanation
Indices: 68399--68487 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 42
68389 CCTATCGTTT
*
68399 AAGAGGCCCCTATCATTCCTCG-AGA-GTCCCTTCCCACCATTC
1 AAGAGGCCACTATCA-TCCTCGAAGAGGTCCC-TCCCACCATTC
* * * *
68441 AAGAGGCCATTGTCATCGTTGAAGAGGTCCCTCCCACCATTC
1 AAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCACCATTC
68483 AAGAG
1 AAGAG
68488 CCCGATTCAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
41 4 0.10
42 31 0.77
43 5 0.12
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.22
Consensus pattern (42 bp):
AAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCACCATTC
Found at i:69978 original size:19 final size:19
Alignment explanation
Indices: 69956--70014 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
69946 AAAAATTACT
69956 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
69975 ATCGCAA--C--AA-GAGA
1 ATCGCAATGCGAAATGAAA
69989 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
70008 ATCGCAA
1 ATCGCAA
70015 CGACAAAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 10 0.30
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 17 0.52
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:70049 original size:33 final size:33
Alignment explanation
Indices: 69956--70049 Score: 127
Period size: 33 Copynumber: 2.8 Consensus size: 33
69946 AAAAATTACT
* * *
69956 ATCGCAATGCGAAATGAAAATCGCAACAAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
69989 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
70022 ATCGCAACGCGAAACT-ATAATCGCAACG
1 ATCGCAATGCGAAA-TGAAAATCGCAACG
70050 CGAAACTAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 54 0.98
34 1 0.02
ACGTcount: A:0.46, C:0.22, G:0.19, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:70064 original size:19 final size:19
Alignment explanation
Indices: 70021--70057 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
70011 GCAACGACAA
70021 AATCGCAACGCGAAACTAT
1 AATCGCAACGCGAAACTAT
70040 AATCGCAACGCGAAACTA
1 AATCGCAACGCGAAACTA
70058 AATTCGCGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.27, G:0.16, T:0.14
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAT
Found at i:70124 original size:19 final size:19
Alignment explanation
Indices: 70099--70216 Score: 104
Period size: 19 Copynumber: 6.4 Consensus size: 19
70089 GATTCCCTCG
70099 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* * *
70118 ATGCGA--TTC-TCT-G-G
1 TTGCGATTTTCATTTCGCA
* *
70132 TTGTGATTTTTATTTCGCA
1 TTGCGATTTTCATTTCGCA
**
70151 TTGCGATAGTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
*
70171 TTGCGATTTT-AGTTTCGCT
1 TTGCGATTTTCA-TTTCGCA
70190 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
70209 TTGCGATT
1 TTGCGATT
70217 CTCTCGTTGC
Statistics
Matches: 75, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
14 4 0.05
15 1 0.01
16 4 0.05
17 5 0.07
18 1 0.01
19 44 0.59
20 16 0.21
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:70156 original size:33 final size:33
Alignment explanation
Indices: 70064--70157 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 33
70054 ACTAAATTCG
* * *
70064 CGTTGCAATTTTCATTTCGCTTTACGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
* *
70097 CGTTGCGATTTTCATTTCGCAATGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
* * *
70130 GGTTGTGATTTTTATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
70158 AGTCATTTCC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:70194 original size:39 final size:37
Alignment explanation
Indices: 70139--70216 Score: 111
Period size: 39 Copynumber: 2.1 Consensus size: 37
70129 TGGTTGTGAT
70139 TTTTATTTCGCATTGCGATAGTCATTTCCGCATTGCGA
1 TTTTATTTCGCATTGCGATAGTCATTT-CGCATTGCGA
* **
70177 TTTTAGTTTCGCTTTGCGATTTTCATTTCGCATTGCGA
1 TTTTA-TTTCGCATTGCGATAGTCATTTCGCATTGCGA
70215 TT
1 TT
70217 CTCTCGTTGC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 17 0.47
39 19 0.53
ACGTcount: A:0.15, C:0.19, G:0.18, T:0.47
Consensus pattern (37 bp):
TTTTATTTCGCATTGCGATAGTCATTTCGCATTGCGA
Found at i:73696 original size:20 final size:20
Alignment explanation
Indices: 73673--73713 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
73663 CGATTTACTA
73673 AAATCGCAACACGATTACGT
1 AAATCGCAACACGATTACGT
**
73693 AAATCGCAATGCGATTACGT
1 AAATCGCAACACGATTACGT
73713 A
1 A
73714 TTCGCGTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (20 bp):
AAATCGCAACACGATTACGT
Found at i:73724 original size:19 final size:20
Alignment explanation
Indices: 73702--73759 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
73692 TAAATCGCAA
73702 TGCGA-TTACGTATTCGCGT
1 TGCGATTTACGTATTCGCGT
* ** *
73721 TGCGATTTTCCAAATTTGCGT
1 TGCGA-TTTACGTATTCGCGT
73742 TGCGATTTACGTATTCGC
1 TGCGATTTACGTATTCGC
73760 ATTGTGAATT
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
19 5 0.17
20 9 0.31
21 15 0.52
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.40
Consensus pattern (20 bp):
TGCGATTTACGTATTCGCGT
Found at i:73780 original size:21 final size:21
Alignment explanation
Indices: 73756--73829 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
73746 ATTTACGTAT
*
73756 TCGCATTGTGAATTTGGAAAA
1 TCGCATTGCGAATTTGGAAAA
73777 TCGCATTGCGAATTTGGAAAA
1 TCGCATTGCGAATTTGGAAAA
**
73798 TCGCAACGCGAATTTGGAAAA
1 TCGCATTGCGAATTTGGAAAA
*
73819 TCGCAATGCGA
1 TCGCATTGCGA
73830 TAGTCAGAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (21 bp):
TCGCATTGCGAATTTGGAAAA
Found at i:73786 original size:41 final size:40
Alignment explanation
Indices: 73693--73787 Score: 100
Period size: 41 Copynumber: 2.4 Consensus size: 40
73683 ACGATTACGT
* * *
73693 AAATCGCAATGCGATTACGTATTCGCGTTGCGATTTTCCA
1 AAATCGCATTGCGATTACGTATTCGCATTGCGAATTTCCA
* * * * **
73733 AATTTGCGTTGCGATTTACGTATTCGCATTGTGAATTTGGA
1 AAATCGCATTGCGA-TTACGTATTCGCATTGCGAATTTCCA
73774 AAATCGCATTGCGA
1 AAATCGCATTGCGA
73788 ATTTGGAAAA
Statistics
Matches: 42, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
40 10 0.24
41 32 0.76
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (40 bp):
AAATCGCATTGCGATTACGTATTCGCATTGCGAATTTCCA
Done.