Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002805.1 Hibiscus syriacus cultivar Beakdansim tig00005774_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: 101547
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:3234 original size:16 final size:16
Alignment explanation
Indices: 3213--3243 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3203 ATCATTGAGT
*
3213 AAATATTCAATTCATA
1 AAATATTCAAATCATA
3229 AAATATTCAAATCAT
1 AAATATTCAAATCAT
3244 TTTTAAAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATATTCAAATCATA
Found at i:3446 original size:14 final size:14
Alignment explanation
Indices: 3427--3457 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
3417 CAAACATACT
3427 ATAGTTGAAAATCA
1 ATAGTTGAAAATCA
3441 ATAGTTGAAAATCA
1 ATAGTTGAAAATCA
3455 ATA
1 ATA
3458 CAAATTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.06, G:0.13, T:0.29
Consensus pattern (14 bp):
ATAGTTGAAAATCA
Found at i:4190 original size:20 final size:20
Alignment explanation
Indices: 4165--4205 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
4155 TCATTGTTTT
4165 CTTTCA-AATACTTGTCATAA
1 CTTTCACAATACTT-TCATAA
*
4185 CTTTCACATTACTTTCATAA
1 CTTTCACAATACTTTCATAA
4205 C
1 C
4206 CCAATGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.32, C:0.24, G:0.02, T:0.41
Consensus pattern (20 bp):
CTTTCACAATACTTTCATAA
Found at i:16921 original size:20 final size:19
Alignment explanation
Indices: 16878--16924 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
16868 GCTATCTTTG
* * *
16878 GTATCGATACTCAGGGTGA
1 GTATCGATACCCAAGGTCA
16897 GTATCGATACCCAAAGGTCA
1 GTATCGATACCC-AAGGTCA
16917 GTATCGAT
1 GTATCGAT
16925 TCCATAGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (19 bp):
GTATCGATACCCAAGGTCA
Found at i:21273 original size:21 final size:23
Alignment explanation
Indices: 21237--21279 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
21227 CTATGGGGGA
21237 AAATGAAGAAAGAAAAA-TAAAG
1 AAATGAAGAAAGAAAAAGTAAAG
*
21259 AAATG-AGAGAGAAAAAGTAAA
1 AAATGAAGAAAGAAAAAGTAAA
21280 AGTTAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.70, C:0.00, G:0.21, T:0.09
Consensus pattern (23 bp):
AAATGAAGAAAGAAAAAGTAAAG
Found at i:21280 original size:27 final size:26
Alignment explanation
Indices: 21250--21334 Score: 75
Period size: 27 Copynumber: 3.2 Consensus size: 26
21240 TGAAGAAAGA
21250 AAAATAAAGAAATGAGAGAGAAAAAG-T
1 AAAATAAA-AAATGAGA-AGAAAAAGCT
* *
21277 AAAAGTTAAAAATGAAATAGAAAAAGCT
1 AAAA-TAAAAAATGAGA-AGAAAAAGCT
* *
21305 AATAATAAAAGA-GAGAAGAAAAAGTT
1 AA-AATAAAAAATGAGAAGAAAAAGCT
21331 AAAA
1 AAAA
21335 AAATTGAGAG
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
25 2 0.04
26 11 0.23
27 22 0.46
28 11 0.23
29 2 0.04
ACGTcount: A:0.67, C:0.01, G:0.18, T:0.14
Consensus pattern (26 bp):
AAAATAAAAAATGAGAAGAAAAAGCT
Found at i:29516 original size:29 final size:29
Alignment explanation
Indices: 29479--29545 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
29469 CATTTTATTT
*
29479 TAATATTTGTTCTTATTTTATTTTATAAA
1 TAATTTTTGTTCTTATTTTATTTTATAAA
* *
29508 TAATTTTTGTTCTTATTTTCTTTTGTAAA
1 TAATTTTTGTTCTTATTTTATTTTATAAA
29537 TAATTTTTG
1 TAATTTTTG
29546 ATTTGATTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.25, C:0.04, G:0.06, T:0.64
Consensus pattern (29 bp):
TAATTTTTGTTCTTATTTTATTTTATAAA
Found at i:29554 original size:29 final size:29
Alignment explanation
Indices: 29479--29554 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
29469 CATTTTATTT
* *
29479 TAATATTTGTTCTTATTTTATTTTATAAA
1 TAATTTTTGTTCTGATTTTATTTTATAAA
* * *
29508 TAATTTTTGTTCTTATTTTCTTTTGTAAA
1 TAATTTTTGTTCTGATTTTATTTTATAAA
29537 TAATTTTTGATT-TGATTT
1 TAATTTTTG-TTCTGATTT
29555 GTAGGGACCA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 40 0.95
30 2 0.05
ACGTcount: A:0.25, C:0.04, G:0.07, T:0.64
Consensus pattern (29 bp):
TAATTTTTGTTCTGATTTTATTTTATAAA
Found at i:29851 original size:21 final size:21
Alignment explanation
Indices: 29826--29867 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
29816 TAACTTTTTC
29826 TTTTCTCTTTC-ATTATTAACT
1 TTTTCTCTTTCAATT-TTAACT
29847 TTTTCTCTTTCAATTTTAACT
1 TTTTCTCTTTCAATTTTAACT
29868 GTTACTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTCTCTTTCAATTTTAACT
Found at i:37165 original size:17 final size:17
Alignment explanation
Indices: 37143--37183 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
37133 ATAGGTGTTT
37143 TCTATCCTACTCTAGCG
1 TCTATCCTACTCTAGCG
37160 TCTATCCTACTCTAGCG
1 TCTATCCTACTCTAGCG
37177 TCTATCC
1 TCTATCC
37184 CTTTTAGTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.17, C:0.37, G:0.10, T:0.37
Consensus pattern (17 bp):
TCTATCCTACTCTAGCG
Found at i:38457 original size:20 final size:20
Alignment explanation
Indices: 38427--38500 Score: 112
Period size: 20 Copynumber: 3.7 Consensus size: 20
38417 TGTGTAAGGT
*
38427 AGTATCAATACTCTTGGATG
1 AGTATCGATACTCTTGGATG
* *
38447 TGTATCGATACTCTTGAATG
1 AGTATCGATACTCTTGGATG
38467 AGTATCGATACTCTTGGATG
1 AGTATCGATACTCTTGGATG
*
38487 AGCATCGATACTCT
1 AGTATCGATACTCT
38501 GGCGATAGGA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (20 bp):
AGTATCGATACTCTTGGATG
Found at i:47939 original size:20 final size:20
Alignment explanation
Indices: 47910--47963 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
47900 GGATAAACTA
* *
47910 GTATCCATATCGGATGACTG
1 GTATCCATATCAGAGGACTG
* *
47930 GTATCTATATCAGAGGGCTG
1 GTATCCATATCAGAGGACTG
*
47950 GTATCCATACCAGA
1 GTATCCATATCAGA
47964 TGAGTTAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (20 bp):
GTATCCATATCAGAGGACTG
Found at i:48001 original size:20 final size:20
Alignment explanation
Indices: 47976--48026 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
47966 AGTTAATAAA
*
47976 CATACCAAATATTGGGTATC
1 CATACCAAAGATTGGGTATC
*
47996 CATACCAAAGATTTGGTATC
1 CATACCAAAGATTGGGTATC
*
48016 AATACTCAAAG
1 CATAC-CAAAG
48027 TGGTTGAGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 22 0.81
21 5 0.19
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (20 bp):
CATACCAAAGATTGGGTATC
Found at i:49248 original size:20 final size:20
Alignment explanation
Indices: 49223--49298 Score: 116
Period size: 20 Copynumber: 3.8 Consensus size: 20
49213 GATAAACTAC
* *
49223 TATCCATATCAGAGGATTGG
1 TATCCATATCGGAGGACTGG
*
49243 TATCCATATCGAAGGACTGG
1 TATCCATATCGGAGGACTGG
*
49263 TATCCATATCGGAGGACTAG
1 TATCCATATCGGAGGACTGG
49283 TATCCATATCGGAGGA
1 TATCCATATCGGAGGA
49299 GTTGATAAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (20 bp):
TATCCATATCGGAGGACTGG
Found at i:49333 original size:20 final size:20
Alignment explanation
Indices: 49308--49358 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
49298 AGTTGATAAA
*
49308 CATACCAAATATTGGGTATC
1 CATACCAAAGATTGGGTATC
*
49328 CATACCAAAGATTTGGTATC
1 CATACCAAAGATTGGGTATC
*
49348 AATACTCAAAG
1 CATAC-CAAAG
49359 TGGTTGAGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 22 0.81
21 5 0.19
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (20 bp):
CATACCAAAGATTGGGTATC
Found at i:53648 original size:25 final size:25
Alignment explanation
Indices: 53620--53671 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
53610 TTATAGATGG
* *
53620 ATTTCTAAAATTTTAAGAGATAAAA
1 ATTTATAAAATTTTAAGAAATAAAA
*
53645 ATTTATAAAATTTTGAGAAATAAAA
1 ATTTATAAAATTTTAAGAAATAAAA
53670 AT
1 AT
53672 AAATTATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.37
Consensus pattern (25 bp):
ATTTATAAAATTTTAAGAAATAAAA
Found at i:54667 original size:51 final size:51
Alignment explanation
Indices: 54577--54687 Score: 134
Period size: 51 Copynumber: 2.2 Consensus size: 51
54567 CCTTTGCAGG
* * ** * *
54577 AAGGCGCGACCCATGCACCATGCCTTACGCTGATGTGGCGCCACG-TGGGGT
1 AAGGCGCGGCCCATGCACCACGCCTTACGCTGACATGGCGACACGCT-GAGT
* *
54628 AAGGCGCGGCCCATGCACCACGCCTTATGTTGACATGGCGACACGCTGAGT
1 AAGGCGCGGCCCATGCACCACGCCTTACGCTGACATGGCGACACGCTGAGT
54679 AAGGCGCGG
1 AAGGCGCGG
54688 TGCATGGGTT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
51 50 0.98
52 1 0.02
ACGTcount: A:0.20, C:0.31, G:0.33, T:0.16
Consensus pattern (51 bp):
AAGGCGCGGCCCATGCACCACGCCTTACGCTGACATGGCGACACGCTGAGT
Found at i:54950 original size:29 final size:32
Alignment explanation
Indices: 54886--54962 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 32
54876 CTTCAAGGTA
* *
54886 TATTTTATTATATTTAATATTTTGTTAGTATTT
1 TATTTAATTAT-TTTAATATTTTGTTAATATTT
54919 TATTTAATTATTTT-A-ATTTTG-TAATATTT
1 TATTTAATTATTTTAATATTTTGTTAATATTT
54948 TATTTAATTAATTTT
1 TATTTAATT-ATTTT
54963 TTGTGCAGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
29 16 0.39
30 11 0.27
31 1 0.02
32 3 0.07
33 10 0.24
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (32 bp):
TATTTAATTATTTTAATATTTTGTTAATATTT
Found at i:61773 original size:181 final size:182
Alignment explanation
Indices: 61438--61910 Score: 705
Period size: 181 Copynumber: 2.6 Consensus size: 182
61428 GATTCAAATT
* * * * * **
61438 AAAAATGTGTCGATCCAAAACGATATAACATGTAAAACTATGACAAAACCGGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAATCGGTATCAAAATGATA
* * * * * *
61503 AAATCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* *
61568 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGAGTCGATACTTTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGAGTCGATACTTTAA
* *
61620 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAATCAGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAATCGGTATCAAAATGATA
* *
61685 AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** * *
61749 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGAGTCGATACTTTAA
* * *
61801 AAAAATATATTGATCCACAACGATATAACAGGTAAAAATATGATAAAATCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAATCGGTATCAAAATGATA
61866 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
61911 CGTAAGTACG
Statistics
Matches: 263, Mismatches: 28, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
181 168 0.64
182 95 0.36
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAATCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGAGTCGATACTTTAA
Found at i:61854 original size:20 final size:19
Alignment explanation
Indices: 61831--61877 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
61821 CGATATAACA
*
61831 GGTAAAAATATGATAAAATC
1 GGTAAAAA-ATGATAAAACC
*
61851 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
61871 GGTAAAA
1 GGTAAAA
61878 CGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:64121 original size:21 final size:21
Alignment explanation
Indices: 64097--64159 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
64087 GACAATCAAT
*
64097 AGTCGAAGAGAAACTTGATAG
1 AGTCGAAGAGAAACTTGAGAG
64118 AGTCGAAGAGAAACTTGAGAG
1 AGTCGAAGAGAAACTTGAGAG
* *
64139 AGTCGAAGATACACTTGAGAG
1 AGTCGAAGAGAAACTTGAGAG
64160 GCATAAGGGG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.41, C:0.11, G:0.30, T:0.17
Consensus pattern (21 bp):
AGTCGAAGAGAAACTTGAGAG
Found at i:64235 original size:33 final size:33
Alignment explanation
Indices: 64193--64258 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
64183 AAATAGATGG
*
64193 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
64226 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
64259 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:66065 original size:19 final size:19
Alignment explanation
Indices: 66041--66089 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
66031 AATGTAGGGT
66041 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
* *
66060 TAATTTTCTATACGATTTA
1 TAATTTTGTATAAGATTTA
66079 TAATTTTGTAT
1 TAATTTTGTAT
66090 GTGAATATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:66666 original size:200 final size:200
Alignment explanation
Indices: 66323--67082 Score: 1305
Period size: 200 Copynumber: 3.8 Consensus size: 200
66313 AATTTACAAT
*
66323 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
66388 CGAAACCCAAAAGTATAATGTATTAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * *
66453 ATGAGAGAATAGGTTTAAATAAAGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTAGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
66518 AATGA
196 AATGA
* *
66523 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGCGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
66588 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATATCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66653 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
66718 AATGA
196 AATGA
66723 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAT-AACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
66787 CGAAACCCATAAG--TAATGTAATAGGTAATTTTTCAATCTAACC-GTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
66849 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
66914 AATGA
196 AATGA
*
66919 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
66984 CGAAACCCAAAAGTATAATGTATTAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGATTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * *
67049 ATGGGAGAATTGGTATATAAT-ATGTATCGACACT
131 ATGAGAGAATAGGTCTA-AATAATGTATCGACACT
67083 GTTTAATGTT
Statistics
Matches: 532, Mismatches: 23, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
196 145 0.27
197 47 0.09
199 47 0.09
200 290 0.55
201 3 0.01
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:67076 original size:396 final size:399
Alignment explanation
Indices: 66323--67082 Score: 1303
Period size: 396 Copynumber: 1.9 Consensus size: 399
66313 AATTTACAAT
*
66323 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
66388 CGAAACCCAAAAGTATAATGTATTAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAG-ATAATGTAATAGGTAATTTTTCAATCTAATCCGTACAAGTATACCGGTTTT
*
66453 ATGAGAGAATAGGTTTAAATAAAGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTAGTCCAG
130 ATGAGAGAATAGGTCTAAATAAAGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTAGTCCAG
*
66518 AATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGCGTCGATCCGATA
195 AATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGCGTCGATCCCATA
* *
66583 AACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATATCG
260 AACATCGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCG
* *
66648 GTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGG
325 ATTTTATGAGAGAATAGGTATAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGG
66713 TCCAGAATGA
390 TCCAGAATGA
66723 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAT-AACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
66787 CGAAACCCATAAG-TAATGTAATAGGTAATTTTTCAATCTAA-CCGTACAAGTATACCGGTTTTA
66 CGAAACCCAAAAGATAATGTAATAGGTAATTTTTCAATCTAATCCGTACAAGTATACCGGTTTTA
* * *
66850 TGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGA
131 TGAGAGAATAGGTCTAAATAAAGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTAGTCCAGA
* *
66915 ATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAA
196 ATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGCGTCGATCCCATAA
* *
66980 ACATCGAAACCCAAAAGTATAATGTATTAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGA
261 ACATCGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGA
* *
67045 TTTTATGGGAGAATTGGTATATAAT-ATGTATCGACACT
326 TTTTATGAGAGAATAGGTATA-AATAATGTATCGACACT
67083 GTTTAATGTT
Statistics
Matches: 340, Mismatches: 19, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
396 235 0.69
397 30 0.09
399 17 0.05
400 58 0.17
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (399 bp):
ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCAAAAGATAATGTAATAGGTAATTTTTCAATCTAATCCGTACAAGTATACCGGTTTTA
TGAGAGAATAGGTCTAAATAAAGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTAGTCCAGA
ATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGCGTCGATCCCATAA
ACATCGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGA
TTTTATGAGAGAATAGGTATAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGT
CCAGAATGA
Found at i:68532 original size:6 final size:6
Alignment explanation
Indices: 68521--68584 Score: 65
Period size: 6 Copynumber: 10.7 Consensus size: 6
68511 CAAGCGGTCA
* * * * *
68521 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGAAG ATGACG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* *
68569 ATGATG ATGATG ATGA
1 ATGAAG ATGAAG ATGA
68585 TCCAAACAAG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.22
Consensus pattern (6 bp):
ATGAAG
Found at i:68570 original size:3 final size:3
Alignment explanation
Indices: 68538--68585 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
68528 TGAAGCTGAC
* * * *
68538 GAT GAA GAT GAC GAT GAA GAT GAC GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
68586 CCAAACAAGT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.38, C:0.04, G:0.33, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:68585 original size:12 final size:12
Alignment explanation
Indices: 68521--68584 Score: 83
Period size: 12 Copynumber: 5.3 Consensus size: 12
68511 CAAGCGGTCA
*
68521 ATGAAGATGAAG
1 ATGACGATGAAG
*
68533 CTGACGATGAAG
1 ATGACGATGAAG
68545 ATGACGATGAAG
1 ATGACGATGAAG
*
68557 ATGACGATGATG
1 ATGACGATGAAG
* *
68569 ATGATGATGATG
1 ATGACGATGAAG
68581 ATGA
1 ATGA
68585 TCCAAACAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 47 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.22
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:69577 original size:183 final size:183
Alignment explanation
Indices: 69027--69614 Score: 959
Period size: 182 Copynumber: 3.2 Consensus size: 183
69017 CAAAGTTTTC
* * *
69027 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAACGTATCGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* * * * *
69092 CAAACAGTATCG--ATTGAAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAA
66 CAAAAAGTGTCGACATT---TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
* *
69155 TATAATCGGTATAAATATATCGATTTTATGAGTGAATAGGTCTACAACCTATATCG
128 TATAACCGGTATAAATATATCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
69211 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
*
69276 CAAAAAGTGTCGACATTTACACATC-GAAACCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
69340 AACCGGTATAAATATATC-AGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATATCGA-TTTTATGAGCGAATAGGTCTACAACCTATATCG
* * *
69393 ACATTTTTTAATATTGTGTCGGTACTTTATGTCCAAAATGGAAGAAAAATATGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
69458 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
* *
69523 AACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACTTATATCG
131 AACCGGTATAAATATATCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
*
69576 ACACTTTTTAATATTGTTTCGGTACTTTATGTCCAGAAT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
69615 TATAATGTAC
Statistics
Matches: 379, Mismatches: 20, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
181 1 0.00
182 173 0.46
183 129 0.34
184 73 0.19
186 3 0.01
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATATCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:69701 original size:120 final size:120
Alignment explanation
Indices: 69488--69734 Score: 431
Period size: 120 Copynumber: 2.1 Consensus size: 120
69478 ACATCGGAAC
69488 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
* *
69553 GAATAGGTCTACAACTTATATCGACACTTTTTAATATTGTTTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
* * * *
69608 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
*
69673 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
69728 CCAGAAT
1 CCAGAAT
69735 GGAAAAAAAA
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (120 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:73143 original size:87 final size:87
Alignment explanation
Indices: 73039--73288 Score: 455
Period size: 87 Copynumber: 2.9 Consensus size: 87
73029 AAATAGGTCA
* *
73039 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
73104 CCCGTTAAATACCTATTTTATT
66 CCCGTTAAATACCTATTTTATT
*
73126 ATATAAGCGCTATCTATTACATTATATAAGCGTTATCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
*
73191 TCCGTTAAATACCTATTTTATT
66 CCCGTTAAATACCTATTTTATT
73213 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
*
73278 CCAGTTAAATA
66 CCCGTTAAATA
73289 ATATAACATA
Statistics
Matches: 156, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 156 1.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (87 bp):
ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
CCCGTTAAATACCTATTTTATT
Found at i:73173 original size:23 final size:23
Alignment explanation
Indices: 73123--73167 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
73113 TACCTATTTT
*
73123 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTATCTAATAC
*
73146 ATTATATAAGCGTTATCTAATA
1 ATTATATAAGCGCTATCTAATA
73168 TGTTATTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (23 bp):
ATTATATAAGCGCTATCTAATAC
Found at i:73260 original size:23 final size:23
Alignment explanation
Indices: 73210--73254 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
73200 TACCTATTTT
* *
73210 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
73233 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
73255 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:75378 original size:2 final size:2
Alignment explanation
Indices: 75365--75401 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
75355 TATCCTCATC
75365 AT AT AGT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
75402 GCAGATGAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:76959 original size:15 final size:17
Alignment explanation
Indices: 76929--76960 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
76919 AGATTTGAAA
76929 AAGTTAATTCATATTTT
1 AAGTTAATTCATATTTT
76946 AAGTT-ATT-ATATTTT
1 AAGTTAATTCATATTTT
76961 GGATCATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.56
Consensus pattern (17 bp):
AAGTTAATTCATATTTT
Found at i:78045 original size:22 final size:22
Alignment explanation
Indices: 77998--78063 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 22
77988 AAGTCCAGGT
* * *
77998 AATTTAAGTCTAAATT-ATATTC
1 AATTTAAGTATAATTTAAT-TTA
78020 AATTTAAGTATAATTTAATTTA
1 AATTTAAGTATAATTTAATTTA
* *
78042 AA-TTAAATATGATTTCAATTTA
1 AATTTAAGTATAATTT-AATTTA
78064 GTTTGAGTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 11 0.30
22 24 0.65
23 2 0.05
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.47
Consensus pattern (22 bp):
AATTTAAGTATAATTTAATTTA
Found at i:83575 original size:42 final size:42
Alignment explanation
Indices: 83516--83616 Score: 186
Period size: 42 Copynumber: 2.4 Consensus size: 42
83506 TCTGAGCTAT
*
83516 GTGTACCGATGCATCAAGGATAAATCCTAGAAATTGATCAAG
1 GTGTATCGATGCATCAAGGATAAATCCTAGAAATTGATCAAG
83558 GTGTATCGATGCATCAAGGATAAATCCTAGAAATTGATCAAG
1 GTGTATCGATGCATCAAGGATAAATCCTAGAAATTGATCAAG
83600 GTGTATCGATGCA-CAAG
1 GTGTATCGATGCATCAAG
83617 AAGTGCATCG
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
41 4 0.07
42 54 0.93
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.25
Consensus pattern (42 bp):
GTGTATCGATGCATCAAGGATAAATCCTAGAAATTGATCAAG
Found at i:83672 original size:64 final size:64
Alignment explanation
Indices: 83600--83721 Score: 201
Period size: 64 Copynumber: 1.9 Consensus size: 64
83590 ATTGATCAAG
*
83600 GTGTATCGATGCACAAGAAGTGCATCGATGCACTCT-TTTAAAATAAAAACATCGAATGCCATCA
1 GTGTATCGATGCACAAGAAGTGCATCGATGCAC-CTGCTTAAAATAAAAACATCGAATGCCATCA
* *
83664 GTGTATCGATGCACAAGTAGTGCATCGATGCACCTGCTTAAAATACAAACATCGAATG
1 GTGTATCGATGCACAAGAAGTGCATCGATGCACCTGCTTAAAATAAAAACATCGAATG
83722 GGATTTATGC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
63 2 0.04
64 52 0.96
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (64 bp):
GTGTATCGATGCACAAGAAGTGCATCGATGCACCTGCTTAAAATAAAAACATCGAATGCCATCA
Found at i:83738 original size:64 final size:63
Alignment explanation
Indices: 83606--83761 Score: 181
Period size: 64 Copynumber: 2.4 Consensus size: 63
83596 CAAGGTGTAT
* * * *
83606 CGATGCACAAGAAGTGCATCGATGCACTCTTTTAAAATAAAAACATCGAATGCCATCAGTGTAT
1 CGATGCACAAGTAGTGCATCGATGCAC-CTCTTAAAATAAAAACATCGAATGCCATCAGTGCAC
* ** *
83670 CGATGCACAAGTAGTGCATCGATGCACCTGCTTAAAATACAAACATCGAATGGGATTTA-TGCAC
1 CGATGCACAAGTAGTGCATCGATGCACCT-CTTAAAATAAAAACATCGAATGCCA-TCAGTGCAC
*
83734 CGATGCA-TAGATAGTGCATCGATGCACC
1 CGATGCACAAG-TAGTGCATCGATGCACC
83762 CGTCAAGGGA
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
63 4 0.05
64 74 0.93
65 2 0.03
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (63 bp):
CGATGCACAAGTAGTGCATCGATGCACCTCTTAAAATAAAAACATCGAATGCCATCAGTGCAC
Found at i:86972 original size:21 final size:21
Alignment explanation
Indices: 86947--86994 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
86937 CCTAATATTG
86947 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
86968 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
*
86989 TAATGT
1 CAATGT
86995 TTGAAAATTA
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:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (21 bp):
CAATGTCAAAATTAGGTGCAA
Found at i:91613 original size:21 final size:21
Alignment explanation
Indices: 91588--91635 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
91578 CCTAATATTG
91588 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
91609 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
*
91630 TAATGT
1 CAATGT
91636 TTGAAAATTA
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:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (21 bp):
CAATGTCAAAATTAGGTGCAA
Found at i:94092 original size:14 final size:14
Alignment explanation
Indices: 94073--94100 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
94063 CGATTATATA
94073 TTCATTTATGTTCG
1 TTCATTTATGTTCG
94087 TTCATTTATGTTCG
1 TTCATTTATGTTCG
94101 AACAGAGGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.57
Consensus pattern (14 bp):
TTCATTTATGTTCG
Found at i:94386 original size:23 final size:22
Alignment explanation
Indices: 94359--94427 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 22
94349 TGTGTTCGTG
94359 TTGTTCGTTTATGTTCATTTAT
1 TTGTTCGTTTATGTTCATTTAT
*
94381 TATGTTCGTTTATGTTCATTTGT
1 T-TGTTCGTTTATGTTCATTTAT
* *
94404 TTGTATTCGTTTACGTTCGTTTAT
1 TTG--TTCGTTTATGTTCATTTAT
94428 CATTTAAATG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.08
23 21 0.52
24 16 0.40
ACGTcount: A:0.13, C:0.10, G:0.16, T:0.61
Consensus pattern (22 bp):
TTGTTCGTTTATGTTCATTTAT
Found at i:94516 original size:16 final size:16
Alignment explanation
Indices: 94491--94521 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
94481 AAAAAAAATT
*
94491 TGTTCGTTTATGTTCA
1 TGTTCATTTATGTTCA
94507 TGTTCATTTATGTTC
1 TGTTCATTTATGTTC
94522 GTTTATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.13, G:0.16, T:0.58
Consensus pattern (16 bp):
TGTTCATTTATGTTCA
Found at i:94645 original size:2 final size:2
Alignment explanation
Indices: 94640--94683 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
94630 CTCTCTCTCT
94640 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
94682 TA
1 TA
94684 ATTCTTTTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.