Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007600.1 Hibiscus syriacus cultivar Beakdansim tig00021985_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: 40135
ACGTcount: A:0.22, C:0.27, G:0.29, T:0.22
Found at i:4355 original size:31 final size:32
Alignment explanation
Indices: 4287--4365 Score: 106
Period size: 32 Copynumber: 2.5 Consensus size: 32
4277 GCGTGAGCCC
** *
4287 CGGTCACCATCGGCAATCCCAGGCGGTGGCCT
1 CGGTCACCATCGGCAAAACCAGACGGTGGCCT
* *
4319 CGGTCACCATCGGCAAAACCATACGGT-GTCT
1 CGGTCACCATCGGCAAAACCAGACGGTGGCCT
4350 CGGTCACCATCGGCAA
1 CGGTCACCATCGGCAA
4366 CCCCGGGCCA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 19 0.45
32 23 0.55
ACGTcount: A:0.22, C:0.35, G:0.27, T:0.16
Consensus pattern (32 bp):
CGGTCACCATCGGCAAAACCAGACGGTGGCCT
Found at i:4461 original size:32 final size:32
Alignment explanation
Indices: 4420--4544 Score: 189
Period size: 32 Copynumber: 3.9 Consensus size: 32
4410 GTGCGTGAGG
* *
4420 CTCGGTCACCATCGGC-AACCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
4452 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
*
4484 CTCGGTCACCGTCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* *
4516 CTCGGTCACCATCGGCAACCCCCGACGGG
1 CTCGGTCACCATCGGCAAACCCAGACGGG
4545 GGCTCGGCAA
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
32 74 0.86
33 12 0.14
ACGTcount: A:0.18, C:0.38, G:0.30, T:0.14
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:4673 original size:61 final size:63
Alignment explanation
Indices: 4597--4729 Score: 243
Period size: 61 Copynumber: 2.1 Consensus size: 63
4587 GCCGAGAGTT
*
4597 GGGTGCGGGGTCCTCGGTCACCATCGGC-AACCCCGACGGGTGCCTCGGC-ACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAAACCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
4658 GGGTGCGGGGGCCTCGGTCACCATCGGCAAACCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAAACCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
4721 GGGTGCGGG
1 GGGTGCGGG
4730 AGTGCCGCAC
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
61 27 0.39
62 21 0.30
63 21 0.30
ACGTcount: A:0.14, C:0.38, G:0.38, T:0.11
Consensus pattern (63 bp):
GGGTGCGGGGGCCTCGGTCACCATCGGCAAACCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
Found at i:4705 original size:93 final size:92
Alignment explanation
Indices: 4484--4706 Score: 211
Period size: 93 Copynumber: 2.4 Consensus size: 92
4474 AGACGGGTGT
* * *
4484 CTCGGTCACCGTCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGGGCT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATCGGCAACCCCCGACGGGGCCT
4549 CGGCAACCCAGGCCACGGGTGCGGGAG
66 CGGCAACCCAGGCCACGGGTGCGGGAG
* * * * * ***** *
4576 TTCCGGACA-GAGCCG-AGAGTTGGGTGCGGG-GTCCTCGGTCACCATCGGCAA-CCCCGACGGG
1 CT-CGGTCACCATCGGCA-AACCCAG-ACGGGTG-CCTCGGTCACCATCGGCAACCCCCGACGGG
* *
4637 TGCCTCGGCACCCCAGGCCACGGGTGCGGGGG
62 -GCCTCGGCAACCCAGGCCACGGGTGCGGGAG
*
4669 CCTCGGTCACCATCGGCAAACCCCGACGGGTGCCTCGG
1 -CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGG
4707 CAACCCCAGG
Statistics
Matches: 95, Mismatches: 27, Indels: 17
0.68 0.19 0.12
Matches are distributed among these distances:
91 1 0.01
92 16 0.17
93 70 0.74
94 7 0.07
95 1 0.01
ACGTcount: A:0.16, C:0.36, G:0.36, T:0.12
Consensus pattern (92 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATCGGCAACCCCCGACGGGGCCT
CGGCAACCCAGGCCACGGGTGCGGGAG
Found at i:4838 original size:32 final size:32
Alignment explanation
Indices: 4768--4896 Score: 181
Period size: 33 Copynumber: 4.0 Consensus size: 32
4758 GTGAGGCTCA
* *
4768 GTCACCATCGGCAATCCCAGGCGGGTGGCCTCG
1 GTCACCATCGGCAAACCCAGACGGGT-GCCTCG
* *
4801 GTCACCATCGGCAAAGCCAGACGGGTGTCTCG
1 GTCACCATCGGCAAACCCAGACGGGTGCCTCG
*
4833 GTCACCATCGGCAAACCCCAGACGGGTGTCTCG
1 GTCACCATCGGCAAA-CCCAGACGGGTGCCTCG
4866 GTCACCATCGGC-AACCC-GACGGGTGCCTCG
1 GTCACCATCGGCAAACCCAGACGGGTGCCTCG
4896 G
1 G
4897 CAACCCCAGG
Statistics
Matches: 89, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
30 13 0.15
31 3 0.03
32 22 0.25
33 51 0.57
ACGTcount: A:0.19, C:0.36, G:0.31, T:0.15
Consensus pattern (32 bp):
GTCACCATCGGCAAACCCAGACGGGTGCCTCG
Found at i:4872 original size:65 final size:63
Alignment explanation
Indices: 4768--4896 Score: 179
Period size: 65 Copynumber: 2.0 Consensus size: 63
4758 GTGAGGCTCA
* * *
4768 GTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAAGCCAGACGGGTGTCTCG
1 GTCACCATCGGCAACCCCAGACGGGTGGCCTCGGTCACCATCGGC-AA-CCAGACGGGTGCCTCG
* *
4833 GTCACCATCGGCAAACCCCAGACGGGT-GTCTCGGTCACCATCGGCAACCCGACGGGTGCCTCG
1 GTCACCATCGGC-AACCCCAGACGGGTGGCCTCGGTCACCATCGGCAACCAGACGGGTGCCTCG
4896 G
1 G
4897 CAACCCCAGG
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
63 15 0.26
64 2 0.03
65 29 0.50
66 12 0.21
ACGTcount: A:0.19, C:0.36, G:0.31, T:0.15
Consensus pattern (63 bp):
GTCACCATCGGCAACCCCAGACGGGTGGCCTCGGTCACCATCGGCAACCAGACGGGTGCCTCG
Found at i:4960 original size:346 final size:345
Alignment explanation
Indices: 4359--5000 Score: 1128
Period size: 346 Copynumber: 1.9 Consensus size: 345
4349 TCGGTCACCA
* ** *
4359 TCGGCAACCCCGGGCCATTGGTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
1 TCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCA
4424 GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGG
66 GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGG
* *
4489 TCACCGTCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGGGCTCGGCA
131 TCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAA-CCCCGACGGGGCCTCGGCA
* * *
4554 ACCCAGGCCACGGGTGCGGGAGTTCCGGACAGAGCCGAGAGTTGGGTGCGGGGTCCTCGGTCACC
195 ACCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTCACC
4619 ATCGGCAAC-CCCGACGGGTGCCTCGGC-ACCCCAGGCCACGGGTGCGGGGGCCTCGGTCACCAT
260 ATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGGCCTCGGTCACCAT
4682 CGGCAAACCCCGACGGGTGCC
325 CGGCAAACCCCGACGGGTGCC
4703 TCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCA
1 TCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCA
*
4768 GTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAAGCCAGACGGGTGTCTCG
66 GTCACCATCGGCAA-CCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCG
4833 GTCACCATCGGCAAACCCCAGACGGGTGTCTCGGTCACCATCGGCAA-CCCGACGGGTGCCTCGG
130 GTCACCATCGGCAAA-CCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGACGGG-GCCTCGG
4897 CAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTC
193 CAA-CCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTC
4962 ACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAG
257 ACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAG
5001 CCATTGTGCG
Statistics
Matches: 282, Mismatches: 10, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
344 84 0.30
345 72 0.26
346 101 0.36
347 18 0.06
348 7 0.02
ACGTcount: A:0.17, C:0.35, G:0.35, T:0.13
Consensus pattern (345 bp):
TCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCA
GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGG
TCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGACGGGGCCTCGGCAA
CCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTCACCA
TCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGGCCTCGGTCACCATC
GGCAAACCCCGACGGGTGCC
Found at i:5050 original size:93 final size:93
Alignment explanation
Indices: 4862--5051 Score: 276
Period size: 93 Copynumber: 2.0 Consensus size: 93
4852 AGACGGGTGT
*
4862 CTCGGTCACCATCGGCAACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCG
1 CTCGGTCACCATCGGCAACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCA
* * **
4927 CACAGAGCCGAGAGTTGGGTGCGGGGGC
66 CACAGAACCGAGAGCTGGGTGCGGCAGC
**
4955 CTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCA-GCCA-TTGTGCGGGAGTGC
1 CTCGGTCACCATCGGC-A-ACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
*
5018 CACACAGAACCGAGCGCTGGGTGCGGCAGC
64 CACACAGAACCGAGAGCTGGGTGCGGCAGC
5048 CTCG
1 CTCG
5052 CACAGCGTCG
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
93 56 0.64
94 5 0.06
95 26 0.30
ACGTcount: A:0.17, C:0.35, G:0.36, T:0.12
Consensus pattern (93 bp):
CTCGGTCACCATCGGCAACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCA
CACAGAACCGAGAGCTGGGTGCGGCAGC
Found at i:13307 original size:32 final size:33
Alignment explanation
Indices: 13235--13315 Score: 110
Period size: 33 Copynumber: 2.5 Consensus size: 33
13225 GCGTGAGCCC
** *
13235 CGGTCACCATCGGCAATCCCAGGCGGGTGGCCT
1 CGGTCACCATCGGCAAAACCAGACGGGTGGCCT
* *
13268 CGGTCACCATCGGCAAAACCATACGGGT-GTCT
1 CGGTCACCATCGGCAAAACCAGACGGGTGGCCT
13300 CGGTCACCATCGGCAA
1 CGGTCACCATCGGCAA
13316 CCCCGGGCCA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 19 0.44
33 24 0.56
ACGTcount: A:0.21, C:0.35, G:0.28, T:0.16
Consensus pattern (33 bp):
CGGTCACCATCGGCAAAACCAGACGGGTGGCCT
Found at i:13411 original size:32 final size:32
Alignment explanation
Indices: 13370--13502 Score: 196
Period size: 32 Copynumber: 4.2 Consensus size: 32
13360 GTGCGTGAGG
* *
13370 CTCGGTCACCATCGGC-AACCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
13402 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
*
13434 CTCGGTCACCGTCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* * *
13466 CTCGGTCACCATCGGCAACCCCCGACGGGTGG
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
13498 CTCGG
1 CTCGG
13503 CAACCCCAGG
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
32 81 0.87
33 12 0.13
ACGTcount: A:0.17, C:0.37, G:0.32, T:0.14
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:13627 original size:31 final size:31
Alignment explanation
Indices: 13586--13683 Score: 92
Period size: 31 Copynumber: 3.1 Consensus size: 31
13576 CAACCCCCGA
13586 CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
1 CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
* * * ****
13617 CGGGGGCCTCGGTC-ACCATC-GGCAACCCCCG
1 CGGGTGCCTCGG-CAACC-CCAGGCCACGGGTG
13648 ACGGGTGCCTCGGCAACCCCAGGCCACGGGTG
1 -CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
13680 CGGG
1 CGGG
13684 AGTGCCGCAC
Statistics
Matches: 48, Mismatches: 14, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
31 26 0.54
32 22 0.46
ACGTcount: A:0.13, C:0.40, G:0.38, T:0.09
Consensus pattern (31 bp):
CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
Found at i:13648 original size:63 final size:63
Alignment explanation
Indices: 13549--13683 Score: 261
Period size: 63 Copynumber: 2.1 Consensus size: 63
13539 GCCGAGAGTT
*
13549 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
13612 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
13675 GGGTGCGGG
1 GGGTGCGGG
13684 AGTGCCGCAC
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 71 1.00
ACGTcount: A:0.13, C:0.39, G:0.37, T:0.10
Consensus pattern (63 bp):
GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
Found at i:13659 original size:95 final size:94
Alignment explanation
Indices: 13434--13660 Score: 235
Period size: 95 Copynumber: 2.4 Consensus size: 94
13424 AGACGGGTGT
* * *
13434 CTCGGTCACCGTCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCC
13499 TCGGCAACCCCAGGCCACGGGTGCGGGAG
66 TCGGCAACCCCAGGCCACGGGTGCGGGAG
* * * * * ***** *
13528 TTCCGGACA-GAGCCG-AGAGTTGGGTGCGGG-GTCCTCGGTCACCATCGGCAACCCCCGACGGG
1 CT-CGGTCACCATCGGCA-AACCCAG-ACGGGTG-CCTCGGTCACCATCGGCAACCCCCGACGGG
*
13590 TGCCTCGGCAACCCCAGGCCACGGGTGCGGGGG
62 TGCCTCGGCAACCCCAGGCCACGGGTGCGGGAG
* *
13623 CCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
1 -CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGG
13661 CAACCCCAGG
Statistics
Matches: 99, Mismatches: 26, Indels: 15
0.71 0.19 0.11
Matches are distributed among these distances:
93 1 0.01
94 6 0.06
95 84 0.85
96 7 0.07
97 1 0.01
ACGTcount: A:0.15, C:0.37, G:0.35, T:0.12
Consensus pattern (94 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCC
TCGGCAACCCCAGGCCACGGGTGCGGGAG
Found at i:13660 original size:158 final size:158
Alignment explanation
Indices: 13466--13755 Score: 460
Period size: 158 Copynumber: 1.8 Consensus size: 158
13456 AGACGGGTGT
* *
13466 CTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGCAACCCCAGGCCACGGGTGCGGGAGTTC
1 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
* * *
13531 CGGACAGAGCCGAGAGTTGGGTGCG-G-GGTCCTCGGTCACCATCGGCAACCCCCGACGGGT-GC
66 CGCACAGAACCGAGAGTT-GGTGCGTGAGG--CTCGGTCACCATCGGCAACCCCAGACGGGTGGC
13593 CTCGGCAACCCCAGGCCACGGGTGCGGGGGC
128 CTCGGCAACCCCAGGCCACGGGTGCGGGGGC
13624 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
1 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
* * *
13689 CGCACAGAACCGAGCGTTGGTGCGTGAGGCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTC
66 CGCACAGAACCGAGAGTTGGTGCGTGAGGCTCGGTCACCATCGGCAACCCCAGACGGGTGGCCTC
13754 GG
131 GG
13756 TCACCATCGG
Statistics
Matches: 121, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
157 33 0.27
158 86 0.71
159 2 0.02
ACGTcount: A:0.16, C:0.36, G:0.37, T:0.12
Consensus pattern (158 bp):
CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
CGCACAGAACCGAGAGTTGGTGCGTGAGGCTCGGTCACCATCGGCAACCCCAGACGGGTGGCCTC
GGCAACCCCAGGCCACGGGTGCGGGGGC
Found at i:13792 original size:32 final size:32
Alignment explanation
Indices: 13718--13851 Score: 196
Period size: 32 Copynumber: 4.2 Consensus size: 32
13708 GTGCGTGAGG
* *
13718 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GC
* *
13751 CTCGGTCACCATCGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
*
13783 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
* *
13815 CTCGGTCACCATCGGCAACCCCCGACGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
13847 CTCGG
1 CTCGG
13852 CAACCCCAGG
Statistics
Matches: 93, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
32 66 0.71
33 27 0.29
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.15
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGC
Found at i:13934 original size:95 final size:95
Alignment explanation
Indices: 13612--14000 Score: 374
Period size: 95 Copynumber: 4.1 Consensus size: 95
13602 CCCAGGCCAC
13612 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
*
13677 GTGCGGGAGTGCCGCACAGAACCGAGCG-T
66 GTGCGGGAGTGCCGCACAGAACCGAGAGCT
* * * * *
13706 TGGTGCGTGAGG-CTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTC-ACCATCGGCAA
1 GGGTGCG-GGGGCCTCGGTCACCATCGGCAACCCCCGACGGGT-GCCTCGG-CAACC--C--C-A
* ** * *
13769 AGCCAGACGGGTGTCTCG-GT-CAC-CATCGGCAAACCCAGA-C-
58 GGCC--ACGGGTG-CGGGAGTGC-CGCA-CAG--AACCGAGAGCT
*
13809 GGGT------GTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
* *
13868 GTGCGGGAGTGCCGCACAGAGCCGAGAGTT
66 GTGCGGGAGTGCCGCACAGAACCGAGAGCT
* * **
13898 GGGTGCGGGGGCCTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTG
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
*
13963 GTGCGGGAGTGCCGCACAGAACCGAGCGCT
66 GTGCGGGAGTGCCGCACAGAACCGAGAGCT
13993 GGGTGCGG
1 GGGTGCGG
14001 CAGCCTCGCA
Statistics
Matches: 236, Mismatches: 30, Indels: 57
0.73 0.09 0.18
Matches are distributed among these distances:
87 6 0.03
88 2 0.01
89 16 0.07
90 3 0.01
91 4 0.02
92 1 0.00
94 34 0.14
95 99 0.42
96 12 0.05
97 28 0.12
99 1 0.00
100 4 0.02
101 3 0.01
102 12 0.05
103 5 0.02
104 6 0.03
ACGTcount: A:0.17, C:0.34, G:0.36, T:0.13
Consensus pattern (95 bp):
GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
GTGCGGGAGTGCCGCACAGAACCGAGAGCT
Found at i:13947 original size:349 final size:348
Alignment explanation
Indices: 13309--13969 Score: 1196
Period size: 349 Copynumber: 1.9 Consensus size: 348
13299 TCGGTCACCA
* **
13309 TCGGCAACCCCGGGCCATTGGTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
1 TCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
13374 GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGG
66 GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGG
* *
13439 TCACCGTCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGC
131 TCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGC
* * *
13504 AACCCCAGGCCACGGGTGCGGGAGTTCCGGACAGAGCCGAGAGTTGGGTGCGGGGTCCTCGGTCA
196 AACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTCA
*
13569 CCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGGCCTCGGTCACC
261 CCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGGCCTCGGTCACC
13634 ATCGGCAACCCCCGACGGGTGCC
326 ATCGGCAACCCCCGACGGGTGCC
13657 TCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
1 TCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
*
13722 GTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAAGCCAGACGGGTGTCTCG
66 GTCACCATCGGCAA-CCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCG
13787 GTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
130 GTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
13852 CAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTC
195 CAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTC
* **
13917 ACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTGGTGCGGG
260 ACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGG
13970 AGTGCCGCAC
Statistics
Matches: 299, Mismatches: 13, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
348 76 0.25
349 223 0.75
ACGTcount: A:0.17, C:0.35, G:0.35, T:0.13
Consensus pattern (348 bp):
TCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGG
TCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGC
AACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTCA
CCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGGCCTCGGTCACC
ATCGGCAACCCCCGACGGGTGCC
Found at i:27828 original size:63 final size:62
Alignment explanation
Indices: 27753--27998 Score: 164
Period size: 63 Copynumber: 3.8 Consensus size: 62
27743 GCGTGAGCCC
27753 CGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAAAATACGGGTGTCT
1 CGGTCACCATCGGCAA-CCCAGGCGGGTGGCCTCGGTCACCATCGGCAAAAATACGGGTGTCT
* *** * **
27816 CGGTCACCATCGGCAACCC---C--G-GGCCATTGGTGCGGGAGTGCCGCACAGAACCGAGCGTT
1 CGGTCACCATCGGCAACCCAGGCGGGTGGCC-TCGGT-CACCA-T-CGGCA-A-AA-ATA-CG--
27875 GGTGCGTGAGGCT
56 GGT--GT----CT
* *
27888 CGGTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCAGACGGGTGTCT
1 CGGTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAA-AATACGGGTGTCT
* * *
27951 CGGTCACCGTCGGCAAACCCAGACGGGT-GTCTCGGTCACCATCGGCAA
1 CGGTCACCATCGGC-AACCCAGGCGGGTGGCCTCGGTCACCATCGGCAA
27999 CCCCGACGGC
Statistics
Matches: 142, Mismatches: 17, Indels: 48
0.69 0.08 0.23
Matches are distributed among these distances:
56 4 0.03
57 5 0.04
58 2 0.01
59 2 0.01
60 4 0.03
61 1 0.01
62 5 0.04
63 51 0.36
64 14 0.10
66 3 0.02
67 2 0.01
68 2 0.01
69 3 0.02
71 2 0.01
72 24 0.17
73 1 0.01
74 4 0.03
75 2 0.01
76 2 0.01
77 5 0.04
78 4 0.03
ACGTcount: A:0.19, C:0.33, G:0.33, T:0.15
Consensus pattern (62 bp):
CGGTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAAAATACGGGTGTCT
Found at i:27927 original size:32 final size:31
Alignment explanation
Indices: 27886--28007 Score: 181
Period size: 32 Copynumber: 3.9 Consensus size: 31
27876 GTGCGTGAGG
* *
27886 CTCGGTCACCATCGGCAACCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAACCCAGACGGGT-GT
*
27918 CTCGGTCACCATCGGCAAACCAGACGGGTGT
1 CTCGGTCACCATCGGCAACCCAGACGGGTGT
*
27949 CTCGGTCACCGTCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGC-AACCCAGACGGGTGT
*
27981 CTCGGTCACCATCGGCAACCCCGACGG
1 CTCGGTCACCATCGGCAACCCAGACGG
28008 CAACCCCAGG
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
31 26 0.32
32 56 0.68
ACGTcount: A:0.19, C:0.37, G:0.30, T:0.14
Consensus pattern (31 bp):
CTCGGTCACCATCGGCAACCCAGACGGGTGT
Found at i:28007 original size:63 final size:63
Alignment explanation
Indices: 27886--28007 Score: 183
Period size: 63 Copynumber: 1.9 Consensus size: 63
27876 GTGCGTGAGG
*
27886 CTCGGTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCAGACGGGTGT
1 CTCGGTCACCATCGGCAACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCAGACGGGTGT
* * * *
27949 CTCGGTCACCGTCGGCAAACCCAGACGGGT-GTCTCGGTCACCATCGGCAACCCCGACGG
1 CTCGGTCACCATCGGC-AACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCAGACGG
28008 CAACCCCAGG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
63 41 0.77
64 12 0.23
ACGTcount: A:0.19, C:0.37, G:0.30, T:0.14
Consensus pattern (63 bp):
CTCGGTCACCATCGGCAACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCAGACGGGTGT
Found at i:28153 original size:63 final size:63
Alignment explanation
Indices: 28054--28184 Score: 253
Period size: 63 Copynumber: 2.1 Consensus size: 63
28044 GCCGAGAGTT
*
28054 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
28117 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
28180 GGGTG
1 GGGTG
28185 TGGGAGTGCC
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.14, C:0.40, G:0.36, T:0.11
Consensus pattern (63 bp):
GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
Found at i:28297 original size:32 final size:32
Alignment explanation
Indices: 28223--28356 Score: 196
Period size: 32 Copynumber: 4.2 Consensus size: 32
28213 GTGCGTGAGG
* *
28223 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GC
* *
28256 CTCGGTCACCATCGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
*
28288 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
* *
28320 CTCGGTCACCATCGGCAACCCCCGACGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
28352 CTCGG
1 CTCGG
28357 CAACCCCAGG
Statistics
Matches: 93, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
32 66 0.71
33 27 0.29
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.15
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGC
Found at i:28439 original size:95 final size:95
Alignment explanation
Indices: 28117--28505 Score: 365
Period size: 95 Copynumber: 4.1 Consensus size: 95
28107 CCCAGGCCAC
28117 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
* *
28182 GTGTGGGAGTGCCGCACAGAACCGAGCG-T
66 GTGCGGGAGTGCCGCACAGAACCGAGAGCT
* * * * *
28211 TGGTGCGTGAGG-CTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTC-ACCATCGGCAA
1 GGGTGCG-GGGGCCTCGGTCACCATCGGCAACCCCCGACGGGT-GCCTCGG-CAACC--C--C-A
* ** * *
28274 AGCCAGACGGGTGTCTCG-GT-CAC-CATCGGCAAACCCAGA-C-
58 GGCC--ACGGGTG-CGGGAGTGC-CGCA-CAG--AACCGAGAGCT
*
28314 GGGT------GTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
* *
28373 GTGCGGGAGTGCCGCACAGAGCCGAGAGTT
66 GTGCGGGAGTGCCGCACAGAACCGAGAGCT
* * **
28403 GGGTGCGGGGGCCTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTG
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
*
28468 GTGCGGGAGTGCCGCACAGAACCGAGCGCT
66 GTGCGGGAGTGCCGCACAGAACCGAGAGCT
28498 GGGTGCGG
1 GGGTGCGG
28506 CAGCCTCGCA
Statistics
Matches: 235, Mismatches: 31, Indels: 57
0.73 0.10 0.18
Matches are distributed among these distances:
87 6 0.03
88 2 0.01
89 16 0.07
90 3 0.01
91 4 0.02
92 1 0.00
94 34 0.14
95 99 0.42
96 12 0.05
97 28 0.12
99 1 0.00
100 4 0.02
101 3 0.01
102 12 0.05
103 4 0.02
104 6 0.03
ACGTcount: A:0.17, C:0.34, G:0.36, T:0.13
Consensus pattern (95 bp):
GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
GTGCGGGAGTGCCGCACAGAACCGAGAGCT
Found at i:36733 original size:30 final size:29
Alignment explanation
Indices: 36697--36781 Score: 98
Period size: 32 Copynumber: 2.8 Consensus size: 29
36687 GCGTGAGCCC
*
36697 CGGTCACCATCGGCAATCCAGGGGTGGCCT
1 CGGTCACCATCGGCAAACCAGGGGT-GCCT
* *
36727 CGGTCACCATCGGCAAAACCATACGGGTGTCT
1 CGGTCACCATCGGC-AAACC--AGGGGTGCCT
*
36759 CGGTCACCATCGGCAACCCAGGG
1 CGGTCACCATCGGCAAACCAGGG
36782 CCATTGGTGC
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
29 3 0.06
30 14 0.30
31 8 0.17
32 17 0.36
33 5 0.11
ACGTcount: A:0.21, C:0.34, G:0.29, T:0.15
Consensus pattern (29 bp):
CGGTCACCATCGGCAAACCAGGGGTGCCT
Found at i:36954 original size:32 final size:32
Alignment explanation
Indices: 36829--36941 Score: 176
Period size: 32 Copynumber: 3.6 Consensus size: 32
36819 GTGCGTGAGG
* *
36829 CTCGGTCACCATCGGC-AA-CCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
36860 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
*
36892 CTCGGTCACCGTCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
36924 CTCGGTCACCATCGGCAA
1 CTCGGTCACCATCGGCAA
36942 CCCCCGGAGG
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
31 16 0.21
32 51 0.67
33 9 0.12
ACGTcount: A:0.19, C:0.35, G:0.30, T:0.15
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:36960 original size:32 final size:32
Alignment explanation
Indices: 36827--36960 Score: 175
Period size: 32 Copynumber: 4.2 Consensus size: 32
36817 TGGTGCGTGA
*
36827 GGCTCGGTCACCATCGGC-AA-CCAGGCGGGT
1 GGCTCGGTCACCATCGGCAAACCCAGACGGGT
36857 GGCCTCGGTCACCATCGGCAAACCCAGACGGGT
1 GG-CTCGGTCACCATCGGCAAACCCAGACGGGT
* *
36890 GTCTCGGTCACCGTCGGCAAACCCAGACGGGT
1 GGCTCGGTCACCATCGGCAAACCCAGACGGGT
* * *
36922 GTCTCGGTCACCATCGGCAACCCCCGGA-GGGT
1 GGCTCGGTCACCATCGGCAA-ACCCAGACGGGT
36954 GGCTCGG
1 GGCTCGG
36961 CAACCCCAGG
Statistics
Matches: 93, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
30 2 0.02
31 16 0.17
32 60 0.65
33 15 0.16
ACGTcount: A:0.17, C:0.35, G:0.34, T:0.14
Consensus pattern (32 bp):
GGCTCGGTCACCATCGGCAAACCCAGACGGGT
Found at i:36963 original size:22 final size:22
Alignment explanation
Indices: 36935--36977 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
36925 TCGGTCACCA
*
36935 TCGGCAACCCCCGGAGGGTGGC
1 TCGGCAACCCCAGGAGGGTGGC
*
36957 TCGGCAACCCCAGGCGGGTGG
1 TCGGCAACCCCAGGAGGGTGG
36978 GGAGTTGGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.35, G:0.42, T:0.09
Consensus pattern (22 bp):
TCGGCAACCCCAGGAGGGTGGC
Found at i:37095 original size:60 final size:61
Alignment explanation
Indices: 37002--37131 Score: 228
Period size: 60 Copynumber: 2.1 Consensus size: 61
36992 GCCGAGAGTT
*
37002 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG-AACCCAGG-CAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAA-CCCCGACGGGTGCCTCGGCAACCCAGGCCAC
37062 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCGACGGGTGCCTCGGCAACCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCGACGGGTGCCTCGGCAACCCAGGCCAC
37123 GGGTGCGGG
1 GGGTGCGGG
37132 AGTGCGCACA
Statistics
Matches: 67, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
59 18 0.27
60 37 0.55
61 12 0.18
ACGTcount: A:0.14, C:0.37, G:0.38, T:0.11
Consensus pattern (61 bp):
GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCGACGGGTGCCTCGGCAACCCAGGCCAC
Found at i:37238 original size:65 final size:63
Alignment explanation
Indices: 37165--37297 Score: 194
Period size: 65 Copynumber: 2.1 Consensus size: 63
37155 GTGCGTGAGG
* * * *
37165 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GCCTCGGTCACCATCGGC-AACCCAGACGGGTGC
* *
37230 CTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGACGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATCGGCAACCCAGACGGGTGC
37293 CTCGG
1 CTCGG
37298 CAACCCCAGG
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
63 17 0.27
64 17 0.27
65 28 0.45
ACGTcount: A:0.18, C:0.36, G:0.31, T:0.15
Consensus pattern (63 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATCGGCAACCCAGACGGGTGC
Found at i:37239 original size:32 final size:32
Alignment explanation
Indices: 37165--37297 Score: 196
Period size: 32 Copynumber: 4.2 Consensus size: 32
37155 GTGCGTGAGG
* *
37165 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GC
* *
37198 CTCGGTCACCATCGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
*
37230 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
*
37262 CTCGGTCACCATCGGC-AACCCCGACGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
37293 CTCGG
1 CTCGG
37298 CAACCCCAGG
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
31 18 0.19
32 48 0.52
33 27 0.29
ACGTcount: A:0.18, C:0.36, G:0.31, T:0.15
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGC
Found at i:37431 original size:92 final size:93
Alignment explanation
Indices: 37262--37443 Score: 287
Period size: 92 Copynumber: 2.0 Consensus size: 93
37252 AGACGGGTGT
37262 CTCGGTCACCATCGGCAACCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCC
1 CTCGGTCACCATCGGCAACCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCC
* *
37327 GCACAGAGCCGAGAGTTGGGTGCGGGGG
66 GCACAGAACCGAGAGCTGGGTGCGGGGG
* **
37355 CTCGGTCACCATCGGCAACACCCGACGGGTG-CTCGGCAA-CCCAGTCCATTGGTGCGGGAGTGC
1 CTCGGTCACCATCGGCAAC-CCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
*
37418 CGCACAGAACCGAGCGCTGGGTGCGG
65 CGCACAGAACCGAGAGCTGGGTGCGG
37444 CAGCCTCGCA
Statistics
Matches: 82, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
92 44 0.54
93 27 0.33
94 11 0.13
ACGTcount: A:0.17, C:0.34, G:0.37, T:0.12
Consensus pattern (93 bp):
CTCGGTCACCATCGGCAACCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCC
GCACAGAACCGAGAGCTGGGTGCGGGGG
Done.