Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009489.1 Hibiscus syriacus cultivar Beakdansim tig00114597_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: 33343
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.22
Found at i:2538 original size:33 final size:31
Alignment explanation
Indices: 2501--2588 Score: 104
Period size: 31 Copynumber: 2.8 Consensus size: 31
2491 GCGTGAGCCC
*
2501 CGGTCACCATCGGCAATCCCAGGCGGGTGGCCT
1 CGGTCACCATCGGCAAACCCAGGC-GGT-GCCT
* ** *
2534 CGGTCACCATCGGCAAAACCATACGGTGTCT
1 CGGTCACCATCGGCAAACCCAGGCGGTGCCT
*
2565 CGGTCACCATCGGCAACCCCAGGC
1 CGGTCACCATCGGCAAACCCAGGC
2589 CATTGGTGAG
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
31 23 0.50
32 3 0.07
33 20 0.43
ACGTcount: A:0.20, C:0.38, G:0.27, T:0.15
Consensus pattern (31 bp):
CGGTCACCATCGGCAAACCCAGGCGGTGCCT
Found at i:2577 original size:64 final size:63
Alignment explanation
Indices: 2501--2748 Score: 177
Period size: 64 Copynumber: 3.8 Consensus size: 63
2491 GCGTGAGCCC
2501 CGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAAACCATACGGTGTCT
1 CGGTCACCATCGGCAA-CCCAGGCGGGTGGCCTCGGTCACCATCGGCAAAACCATACGGTGTCT
*** ** * * *
2565 CGGTCACCATCGGCAACCCCAGGCCATTGG--T-GAGGGA--GTGCCGCACAGAACCGAGCGT-T
1 CGGTCACCATCGGCAA-CCCAGGCGGGTGGCCTCG-GTCACCAT-CGGCA-A-AACC-A---TAC
2624 GGTGCGTGAGGCT
57 GGT--GT----CT
* *
2637 CGGTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCT
1 CGGTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAAACCATAC-GGTGTCT
* *
2701 CGGTCACCATCGGCAAACCCAGACGGGT-GTCTCGGTCACCATCGGCAA
1 CGGTCACCATCGGC-AACCCAGGCGGGTGGCCTCGGTCACCATCGGCAA
2749 CCCCCGACGG
Statistics
Matches: 141, Mismatches: 21, Indels: 44
0.68 0.10 0.21
Matches are distributed among these distances:
60 1 0.01
61 5 0.04
62 4 0.03
63 4 0.03
64 62 0.44
65 12 0.09
66 3 0.02
67 1 0.01
68 4 0.03
70 3 0.02
71 11 0.08
72 21 0.15
73 4 0.03
74 5 0.04
75 1 0.01
ACGTcount: A:0.20, C:0.33, G:0.31, T:0.15
Consensus pattern (63 bp):
CGGTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAAACCATACGGTGTCT
Found at i:2676 original size:32 final size:32
Alignment explanation
Indices: 2635--2767 Score: 205
Period size: 32 Copynumber: 4.2 Consensus size: 32
2625 GTGCGTGAGG
* *
2635 CTCGGTCACCATCGGC-AACCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
2667 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
2699 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* * *
2731 CTCGGTCACCATCGGCAACCCCCGACGGGTGG
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
2763 CTCGG
1 CTCGG
2768 CAACCCCAGG
Statistics
Matches: 95, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
32 83 0.87
33 12 0.13
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.14
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:2888 original size:31 final size:31
Alignment explanation
Indices: 2848--2945 Score: 92
Period size: 31 Copynumber: 3.1 Consensus size: 31
2838 GCAACCCCGA
2848 CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
1 CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
* * * ****
2879 CGGGGGCCTCGGTC-ACCATC-GGCAACCCCCG
1 CGGGTGCCTCGG-CAACC-CCAGGCCACGGGTG
2910 ACGGGTGCCTCGGCAACCCCAGGCCACGGGTG
1 -CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
2942 CGGG
1 CGGG
2946 AGTGCGCACA
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:2889 original size:62 final size:63
Alignment explanation
Indices: 2812--2945 Score: 252
Period size: 63 Copynumber: 2.1 Consensus size: 63
2802 AGCGAGAGTT
*
2812 GGGTGCGGGGTCCTCGGTCACCATCGGCAA-CCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
2874 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
2937 GGGTGCGGG
1 GGGTGCGGG
2946 AGTGCGCACA
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
62 29 0.41
63 41 0.59
ACGTcount: A:0.13, C:0.39, G:0.37, T:0.10
Consensus pattern (63 bp):
GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
Found at i:3049 original size:31 final size:30
Alignment explanation
Indices: 2979--3108 Score: 152
Period size: 31 Copynumber: 4.2 Consensus size: 30
2969 GTGCGTGAGG
* * *
2979 CTCGGTCACCATCGGCAATCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCA-GAGGGT-GT
*
3011 CTCGGTCACCATTGGCAAAGCCAGAGGGTGT
1 CTCGGTCACCATCGGCAAA-CCAGAGGGTGT
3042 CTCGGTCACCATCGGCAAACCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCAGA-GGGTGT
* * *
3073 CTCGGTCACCATCGGCAACCCCGACGGGTGC
1 CTCGGTCACCATCGGCAAACCAGA-GGGTGT
3104 CTCGG
1 CTCGG
3109 CAACCCAGGC
Statistics
Matches: 88, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
30 5 0.06
31 58 0.66
32 22 0.25
33 3 0.03
ACGTcount: A:0.18, C:0.34, G:0.32, T:0.16
Consensus pattern (30 bp):
CTCGGTCACCATCGGCAAACCAGAGGGTGT
Found at i:3068 original size:155 final size:154
Alignment explanation
Indices: 2664--3077 Score: 503
Period size: 155 Copynumber: 2.7 Consensus size: 154
2654 CCAGGCGGGT
* * *
2664 GGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAAACCCAGACGGGT
1 GGCCTCGGTCACCATCGGC-AACCCAGACGGGTGCCTCGGTCACCATAGGCAAAGCCAGA-GGGT
*
2729 GTCTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGCAACCCCAGGCCACGGGTGCGGGAGT
64 GTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGT
* * *
2794 TCGGACAGAGCGAGAGTTGGGTGCGG
129 GCGCACAGACCGAGAGTTGGGTGCGG
* ** * * *** * *
2820 GGTCCTCGGTCACCATCGGCAACCCCGACGGGTGCCTCGG-CAACCCCAGGCCACGGGTGCGGGG
1 GG-CCTCGGTCACCATCGGCAACCCAGACGGGTGCCTCGGTC-ACCATAGGCAAAGCCAGAGGGT
*
2884 GCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGT
64 GTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGT
*
2949 GCGCACAGAACCGAGCGTT-GGTGCGTG
129 GCGCACAG-ACCGAGAGTTGGGTGCG-G
* * *
2976 AGG-CTCGGTCACCATCGGCAATCCAGGCGGGTGGCCTCGGTCACCATTGGCAAAGCCAGAGGGT
1 -GGCCTCGGTCACCATCGGCAACCCAGACGGGT-GCCTCGGTCACCATAGGCAAAGCCAGAGGGT
* * *
3040 GTCTCGGTCACCATCGGCAA-ACCAGACGGGTGTCTCGG
64 GTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
3078 TCACCATCGG
Statistics
Matches: 215, Mismatches: 36, Indels: 15
0.81 0.14 0.06
Matches are distributed among these distances:
155 120 0.56
156 75 0.35
157 20 0.09
ACGTcount: A:0.18, C:0.34, G:0.35, T:0.14
Consensus pattern (154 bp):
GGCCTCGGTCACCATCGGCAACCCAGACGGGTGCCTCGGTCACCATAGGCAAAGCCAGAGGGTGT
CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
GCACAGACCGAGAGTTGGGTGCGG
Found at i:11380 original size:31 final size:33
Alignment explanation
Indices: 11311--11390 Score: 103
Period size: 31 Copynumber: 2.5 Consensus size: 33
11301 TGCGTGAGCC
*
11311 CGGTCACCATCGGC-AATCACAGGCGGGTGGCCT
1 CGGTCACCATCGGCAAAACACA-GCGGGTGGCCT
* *
11344 CGGTCACCATCGGCAAAACCCA-CGGGT-GTCT
1 CGGTCACCATCGGCAAAACACAGCGGGTGGCCT
11375 CGGTCACCATCGGCAA
1 CGGTCACCATCGGCAA
11391 CCCCAGGCCA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
31 19 0.44
32 5 0.12
33 14 0.33
34 5 0.12
ACGTcount: A:0.21, C:0.35, G:0.29, T:0.15
Consensus pattern (33 bp):
CGGTCACCATCGGCAAAACACAGCGGGTGGCCT
Found at i:11515 original size:31 final size:30
Alignment explanation
Indices: 11445--11566 Score: 158
Period size: 32 Copynumber: 4.0 Consensus size: 30
11435 GTGCGTGAGG
* *
11445 CTCGGTCACCATCGGCAACCCAGGCGGGTGGC
1 CTCGGTCA-CATCGGCAACCCAGACGGGT-GT
11477 CTCGGTCACCATCGGCAACCCAGACGGGTGT
1 CTCGGTCA-CATCGGCAACCCAGACGGGTGT
11508 CTCGGT--CATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACATCGGC-AACCCAGACGGGTGT
*
11537 CTCGGTCACATCGGCAACCCCCGACGGGTG
1 CTCGGTCACATCGGCAA-CCCAGACGGGTG
11567 GTCGGCAACC
Statistics
Matches: 83, Mismatches: 3, Indels: 9
0.87 0.03 0.09
Matches are distributed among these distances:
28 7 0.08
29 21 0.25
30 2 0.02
31 25 0.30
32 28 0.34
ACGTcount: A:0.18, C:0.36, G:0.31, T:0.15
Consensus pattern (30 bp):
CTCGGTCACATCGGCAACCCAGACGGGTGT
Found at i:11531 original size:29 final size:29
Alignment explanation
Indices: 11453--11566 Score: 140
Period size: 31 Copynumber: 3.8 Consensus size: 29
11443 GGCTCGGTCA
* *
11453 CCATCGGCAACCCAGGCGGGTGGCCTCGGT
1 CCATCGGCAACCCAGACGGGT-GTCTCGGT
11483 CACCATCGGCAACCCAGACGGGTGTCTCGGT
1 --CCATCGGCAACCCAGACGGGTGTCTCGGT
11514 -CATCGGCAAACCCAGACGGGTGTCTCGGT
1 CCATCGGC-AACCCAGACGGGTGTCTCGGT
*
11543 CACATCGGCAACCCCCGACGGGTG
1 C-CATCGGCAA-CCCAGACGGGTG
11567 GTCGGCAACC
Statistics
Matches: 75, Mismatches: 3, Indels: 9
0.86 0.03 0.10
Matches are distributed among these distances:
28 7 0.09
29 21 0.28
30 2 0.03
31 25 0.33
32 20 0.27
ACGTcount: A:0.18, C:0.36, G:0.32, T:0.14
Consensus pattern (29 bp):
CCATCGGCAACCCAGACGGGTGTCTCGGT
Found at i:11541 original size:60 final size:60
Alignment explanation
Indices: 11454--11566 Score: 167
Period size: 60 Copynumber: 1.9 Consensus size: 60
11444 GCTCGGTCAC
*
11454 CATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAA-CCCAGACGGGTGTCTCGGT
1 CATCGGCAACCCAGACGGGTGGCCTCGGTCA-CATCGGCAACCCCAGACGGGTGTCTCGGT
* *
11514 CATCGGCAAACCCAGACGGGT-GTCTCGGTCACATCGGCAACCCCCGACGGGTG
1 CATCGGC-AACCCAGACGGGTGGCCTCGGTCACATCGGCAACCCCAGACGGGTG
11567 GTCGGCAACC
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
59 9 0.19
60 27 0.56
61 12 0.25
ACGTcount: A:0.19, C:0.35, G:0.32, T:0.14
Consensus pattern (60 bp):
CATCGGCAACCCAGACGGGTGGCCTCGGTCACATCGGCAACCCCAGACGGGTGTCTCGGT
Found at i:11845 original size:31 final size:32
Alignment explanation
Indices: 11771--11899 Score: 158
Period size: 31 Copynumber: 4.2 Consensus size: 32
11761 GTGCGTGAGG
* * * *
11771 CTCGGTCACCATCGGCAATCCCAGGCGGGGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* *
11803 CTCGGTCACCATTGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
11835 CTC-GTCACCATCGGCAAACCCAGA-GGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
**
11865 CTCGGTCACCATCGGC-AACCCCCACGGGTG-
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
11895 CTCGG
1 CTCGG
11900 CAACCCCAGG
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
30 20 0.24
31 36 0.42
32 29 0.34
ACGTcount: A:0.19, C:0.36, G:0.30, T:0.16
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:11973 original size:91 final size:93
Alignment explanation
Indices: 11865--12044 Score: 242
Period size: 93 Copynumber: 2.0 Consensus size: 93
11855 CAGAGGGTGT
*
11865 CTCGGTCACCATCGGCAAC-CCCCACGGGTG-CTCGGCAACCCCAGGCCA-CGGGGCGGGAGTG-
1 CTCGGTCACCATCGGCAACACACCACGGGTGCCTCGGCAACCCCA-GCCATCGGGGC-GGAGTGC
* *
11926 CGCACAGAGCCGAGAGTTGGGTGCGGGGGC
64 CGCACAGAACCGAGAGCTGGGTGCGGGGGC
* * * *
11956 CTCGGTCACCATCGGCAACACACGACGGGTGCCTCGGCAACCCCAGTCATTGGTGCGGAGTGCCG
1 CTCGGTCACCATCGGCAACACACCACGGGTGCCTCGGCAACCCCAGCCATCGGGGCGGAGTGCCG
*
12021 CACAGAACCGAGCGCTGGGTGCGG
66 CACAGAACCGAGAGCTGGGTGCGG
12045 CTCGCACAGC
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
91 19 0.25
92 18 0.23
93 40 0.52
ACGTcount: A:0.18, C:0.34, G:0.37, T:0.12
Consensus pattern (93 bp):
CTCGGTCACCATCGGCAACACACCACGGGTGCCTCGGCAACCCCAGCCATCGGGGCGGAGTGCCG
CACAGAACCGAGAGCTGGGTGCGGGGGC
Found at i:16478 original size:175 final size:179
Alignment explanation
Indices: 16160--16513 Score: 646
Period size: 175 Copynumber: 2.0 Consensus size: 179
16150 CAAGTTGCGC
*
16160 CCCAAGCGTTTAGGCCGAGGGCACGTCTGCCTGGGTTGTCACGCATCGTTGCCCCCATCCGAACC
1 CCCAACCGTTTAGGCCGAGGGCACGTCTGCCTGGGTTGTCACGCATCGTTGCCCCCATCCGAACC
16225 AGAAACATAGGGTATCGGTCGAGGTGTGGGCGTAAATTGGCCTCCGTGCGTAAAACGCTCACGGT
66 AGAAACATAGGGTATCGGTCGAGGTGTGGGCGTAAATTGGCCTCCGTGCGTAAAACGCTCACGGT
16290 TGGTCTAAAATTGAGTACACGGCGTCACGCTGCCGCGACGATCGGTGGT
131 TGGTCTAAAATTGAGTACACGGCGTCACGCTGCCGCGACGATCGGTGGT
16339 CCCAACCG-TTAGGCCGAGGGCACGTCTGCCT-GG-TGTCAC-CATCGTTGCCCCCATCCGAACC
1 CCCAACCGTTTAGGCCGAGGGCACGTCTGCCTGGGTTGTCACGCATCGTTGCCCCCATCCGAACC
*
16400 AGAACCATAGGGTATCGGTCGAGGTGTGGGCGTAAATTGGCCTCCCGTGCGTAAAACGCTCACGG
66 AGAAACATAGGGTATCGGTCGAGGTGTGGGCGTAAATTGGCCT-CCGTGCGTAAAACGCTCACGG
16465 TTGGTCT-AAATTGAGTACACGGCGTCACGCTGCCGCGACGATCGGTGGT
130 TTGGTCTAAAATTGAGTACACGGCGTCACGCTGCCGCGACGATCGGTGGT
16514 AATGCCAACG
Statistics
Matches: 172, Mismatches: 2, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
175 106 0.62
176 34 0.20
177 2 0.01
178 23 0.13
179 7 0.04
ACGTcount: A:0.20, C:0.29, G:0.31, T:0.21
Consensus pattern (179 bp):
CCCAACCGTTTAGGCCGAGGGCACGTCTGCCTGGGTTGTCACGCATCGTTGCCCCCATCCGAACC
AGAAACATAGGGTATCGGTCGAGGTGTGGGCGTAAATTGGCCTCCGTGCGTAAAACGCTCACGGT
TGGTCTAAAATTGAGTACACGGCGTCACGCTGCCGCGACGATCGGTGGT
Found at i:20296 original size:31 final size:32
Alignment explanation
Indices: 20258--20342 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 32
20248 GCGTGAGCCC
*
20258 CGGTCACCATCGGCAATCCCAGGCGGG-GCCT
1 CGGTCACCATCGGCAAACCCAGGCGGGTGCCT
* ** *
20289 CGGTCACCATC-GCAAAACCATACGGGTGTCT
1 CGGTCACCATCGGCAAACCCAGGCGGGTGCCT
*
20320 C-GTCACCATCGGCAACCCCAGGC
1 CGGTCACCATCGGCAAACCCAGGC
20343 CATTGGTGAG
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
30 20 0.47
31 23 0.53
ACGTcount: A:0.21, C:0.39, G:0.26, T:0.14
Consensus pattern (32 bp):
CGGTCACCATCGGCAAACCCAGGCGGGTGCCT
Found at i:20421 original size:30 final size:32
Alignment explanation
Indices: 20385--20513 Score: 185
Period size: 32 Copynumber: 4.2 Consensus size: 32
20375 GTTGGTGAGG
* *
20385 CTCGGTCACCATC-GC-AACCCAGGCGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
20415 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
20447 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* * *
20479 CTCGGTC-CCATC-GCAACCCCCGACGGGTGG
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
20509 CTCGG
1 CTCGG
20514 CAACCCCAGC
Statistics
Matches: 92, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
30 33 0.36
31 7 0.08
32 52 0.57
ACGTcount: A:0.18, C:0.38, G:0.29, T:0.15
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:20453 original size:62 final size:62
Alignment explanation
Indices: 20383--20513 Score: 185
Period size: 62 Copynumber: 2.1 Consensus size: 62
20373 GCGTTGGTGA
*
20383 GGCTCGGTCACCATC-GC-AACCCAGGCGGGTGCCTCGGTCACCATCGGCAAACCCAGACGGGT
1 GGCTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTC-CCATC-GCAAACCCAGACGGGT
* * * *
20445 GTCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCCCATCGCAACCCCCGACGGGT
1 GGCTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCCCATCGCAAACCCAGACGGGT
20507 GGCTCGG
1 GGCTCGG
20514 CAACCCCAGC
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
62 34 0.56
63 7 0.11
64 20 0.33
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.15
Consensus pattern (62 bp):
GGCTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCCCATCGCAAACCCAGACGGGT
Found at i:20586 original size:156 final size:155
Alignment explanation
Indices: 20409--20822 Score: 449
Period size: 156 Copynumber: 2.7 Consensus size: 155
20399 CAACCCAGGC
*
20409 GGGTGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAAACCCAGACG
1 GGGT-CCTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATCGGCAAA-CCAGACG
*
20474 GGTGTCTCGGTC-CCATCGCAACCCCCGACGGGTGGCTCGGCAACCCCA-GCCACGGGTGCGGGA
64 GGTGTCTCGGTCACCATCGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC--GTGCGGGA
* * *
20537 GTTCCGGACAGAGCCGAGAGTTGGGTGCG-
127 GTGCCGCACAGAACCGAGAGTT-GGTGCGT
* * * * ** *
20566 GGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG-CAACC-CCAGGC-CACGGGTGC
1 GGGTCCTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTC-ACCATC-GGCAAACCAG-AC
* *
20628 GGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGTGCGGGA
63 GGGTGTCTCGGTCACCATC-GCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGTGCGGGA
*
20693 GTGCCGCACAGAACCGAGCGTTGGTGCGT
127 GTGCCGCACAGAACCGAGAGTTGGTGCGT
* *
20722 GAGG--CTCGGTCACCATCGGCAATCCCAG-CGGGTGGCCTCGGTCACCAT-TGCAAAGCCAGAC
1 G-GGTCCTCGGTCACCATCGGCAAACCCAGACGGGT-GCCTCGGTCACCATCGGCAAA-CCAGAC
* *
20783 GGGTGTCTC-GTCACCATCGTCAA-ACCC-ACGGGTGTCTCGG
63 GGGTGTCTCGGTCACCATCG-CAACCCCCGACGGGTGCCTCGG
20823 TCACCATCGG
Statistics
Matches: 216, Mismatches: 27, Indels: 33
0.78 0.10 0.12
Matches are distributed among these distances:
152 12 0.06
153 4 0.02
154 21 0.10
155 62 0.29
156 76 0.35
157 36 0.17
158 5 0.02
ACGTcount: A:0.17, C:0.36, G:0.33, T:0.14
Consensus pattern (155 bp):
GGGTCCTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATCGGCAAACCAGACGGG
TGTCTCGGTCACCATCGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGTGCGGGAGTGC
CGCACAGAACCGAGAGTTGGTGCGT
Found at i:20658 original size:63 final size:63
Alignment explanation
Indices: 20559--20685 Score: 245
Period size: 63 Copynumber: 2.0 Consensus size: 63
20549 GCCGAGAGTT
*
20559 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
20622 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
20685 G
1 G
20686 TGCGGGAGTG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.14, C:0.41, G:0.35, T:0.10
Consensus pattern (63 bp):
GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
Found at i:20767 original size:32 final size:32
Alignment explanation
Indices: 20726--20853 Score: 140
Period size: 32 Copynumber: 4.1 Consensus size: 32
20716 GTGCGTGAGG
*
20726 CTCGGTCACCATCGGCAATCCCAG-CGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GC
* * *
20758 CTCGGTCACCAT-TGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
* *
20789 CTC-GTCACCATCGTCAAACCC--ACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
* *
20818 CTCGGTCACCATCGGCAACCCCCGACGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
20850 CTCG
1 CTCG
20854 TCAACCCCAG
Statistics
Matches: 81, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
29 11 0.14
30 24 0.30
31 18 0.22
32 28 0.35
ACGTcount: A:0.18, C:0.38, G:0.27, T:0.17
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGC
Found at i:20846 original size:61 final size:62
Alignment explanation
Indices: 20730--20856 Score: 159
Period size: 61 Copynumber: 2.1 Consensus size: 62
20720 GTGAGGCTCG
* * * *
20730 GTCACCATCGGCAATCCCAGCGGGTGGCCTCGGTCACCATTGCAAAGCCAGACGGGTGTCTC
1 GTCACCATCGGCAAACCCAGCGGGTGGCCTCGGTCACCATGGCAAACCCAGACGGGTGCCTC
* * * *
20792 GTCACCATCGTCAAACCCA-CGGGT-GTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTC
1 GTCACCATCGGCAAACCCAGCGGGTGGCCTCGGTCACCAT-GGCAAACCCAGACGGGTGCCTC
20853 GTCA
1 GTCA
20857 ACCCCAGGCC
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
60 13 0.23
61 26 0.46
62 17 0.30
ACGTcount: A:0.19, C:0.37, G:0.27, T:0.17
Consensus pattern (62 bp):
GTCACCATCGGCAAACCCAGCGGGTGGCCTCGGTCACCATGGCAAACCCAGACGGGTGCCTC
Found at i:20861 original size:341 final size:336
Alignment explanation
Indices: 20328--20970 Score: 1001
Period size: 341 Copynumber: 1.9 Consensus size: 336
20318 CTCGTCACCA
*
20328 TCGGCAACCCCAGGCCATTGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGAGGCTCGGTCA
1 TCGGCAACCCCAGGCCA-TCGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGAGGCTCGGTCA
20393 CCATCGCAACCCAGGCGGGTGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCA
65 CCATCGCAACCCAGGCGGGTGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCA
*
20458 TCGGCAAACCCAGACGGGTGTCTCGGTCCCATCGCAACCCCCGACGGGTGGCTCGGCAACCCCA-
130 TCGGCAAACCCA-ACGGGTGTCTCGGTCCCATCGCAACCCCCGACGGGTGCCTCGGCAACCCCAG
* *
20522 GCCACGGGTGCGGGAGTTCCGGACAGAGCCGAGAGTTGGGTGCGGGGTCCTCGGTCACCATCGGC
194 GCCAC-GGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGG-CCTCGGTCACCATCGGC
*
20587 AACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGGCCTCGGTCACCATCGGCAA
257 AACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGGCCTCGGTCACCATCGGCAA
20652 CCCCCGACGGGTGCC
322 CCCCCGACGGGTGCC
*
20667 TCGGCAACCCCAGGCCA-CGTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCGG
1 TCGGCAACCCCAGGCCATCGTGAGGGAGTGCCGCACAGAACCGAGCG-T--TG-GTGAGGCTCGG
* *
20731 TCACCATCGGCAATCCCA-GCGGGTGGCCTCGGTCACCAT-TGCAAAGCCAGACGGGTGTCTC-G
62 TCACCATC-GCAA-CCCAGGCGGGT-GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGG
* *
20793 TCACCATCGTCAAACCC-ACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGTCA
124 TCACCATCGGCAAACCCAACGGGTGTCTCGGTC-CCATC-GCAACCCCCGACGGGTGCCTCGGCA
20857 ACCCCAGGCCACGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGCCTCGGTCACCA
187 ACCCCAGGCCACGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGCCTCGGTCACCA
* * **
20922 TCGGCAACACCCGACTGGTGCCTCGGCAACCCCAGTCCATTGGTGCGGG
252 TCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGG
20971 AGTGCCGCAC
Statistics
Matches: 280, Mismatches: 14, Indels: 19
0.89 0.04 0.06
Matches are distributed among these distances:
337 27 0.10
338 1 0.00
339 32 0.11
340 63 0.22
341 104 0.37
342 35 0.12
343 18 0.06
ACGTcount: A:0.18, C:0.35, G:0.33, T:0.14
Consensus pattern (336 bp):
TCGGCAACCCCAGGCCATCGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGAGGCTCGGTCAC
CATCGCAACCCAGGCGGGTGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCAT
CGGCAAACCCAACGGGTGTCTCGGTCCCATCGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGC
CACGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGCCTCGGTCACCATCGGCAACA
CCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGGCCTCGGTCACCATCGGCAACCCC
CGACGGGTGCC
Found at i:29260 original size:30 final size:31
Alignment explanation
Indices: 29193--29314 Score: 176
Period size: 32 Copynumber: 3.9 Consensus size: 31
29183 GTGCGTGAGG
* *
29193 CTCGGTCACCATCGGC-AACCCAGGCGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGG-GGT
29224 CTCGGTCACCATCGGCAAACCCAGAC-GGGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGGT
29254 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGG-GT
* *
29286 CTCGGTCACCATCGGCAACCCCCGACGGG
1 CTCGGTCACCATCGGCAAACCCAGACGGG
29315 TGGCTCGGCA
Statistics
Matches: 84, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
30 28 0.33
31 19 0.23
32 37 0.44
ACGTcount: A:0.20, C:0.39, G:0.29, T:0.13
Consensus pattern (31 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGGT
Found at i:29296 original size:62 final size:61
Alignment explanation
Indices: 29193--29315 Score: 185
Period size: 62 Copynumber: 2.0 Consensus size: 61
29183 GTGCGTGAGG
*
29193 CTCGGTCACCATCGGCAACCCAGGCGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
1 CTCGGTCACCATCGGCAACCCAGACGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
* * *
29254 CTCGGTCACCATCGGCAAACCCAGACGG-GTGTCTCGGTCACCATCGGCAACCCCCGACGGGT
1 CTCGGTCACCATCGGC-AACCCAGACGGTG-GCCTCGGTCACCATCGGCAAACCCAGACGGGT
29316 GGCTCGGCAA
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
61 17 0.30
62 39 0.70
ACGTcount: A:0.20, C:0.38, G:0.28, T:0.14
Consensus pattern (61 bp):
CTCGGTCACCATCGGCAACCCAGACGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
Found at i:29458 original size:62 final size:62
Alignment explanation
Indices: 29367--29499 Score: 241
Period size: 62 Copynumber: 2.1 Consensus size: 62
29357 GCCGAGAGTT
*
29367 GGGTGCGGGGTCCTCGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCA-GCCAC
1 GGGTGCGGGGGCCTCGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
29428 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTC-GTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
29491 GGGTGCGGG
1 GGGTGCGGG
29500 TGCCGCACAG
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
61 14 0.20
62 41 0.59
63 14 0.20
ACGTcount: A:0.14, C:0.40, G:0.36, T:0.11
Consensus pattern (62 bp):
GGGTGCGGGGGCCTCGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
Found at i:29601 original size:31 final size:30
Alignment explanation
Indices: 29532--29639 Score: 114
Period size: 30 Copynumber: 3.6 Consensus size: 30
29522 GTGCGTGAGG
* * *
29532 CTCGGTCACCATC-GCAATCCCAGGCGGTGGC
1 CTCGGTCACCATCGGCAA-ACCAGACGGT-GT
*
29563 CTC-GTCACCATTGGCAAAGCCAGACGGTGT
1 CTCGGTCACCATCGGCAAA-CCAGACGGTGT
*
29593 CTCGGTCACCATCGGCAAACC-CACGGGTGT
1 CTCGGTCACCATCGGCAAACCAGAC-GGTGT
29623 CTCGGTCACCATCGGCA
1 CTCGGTCACCATCGGCA
29640 CCCCCGACGG
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
29 2 0.03
30 36 0.54
31 29 0.43
ACGTcount: A:0.19, C:0.36, G:0.27, T:0.18
Consensus pattern (30 bp):
CTCGGTCACCATCGGCAAACCAGACGGTGT
Found at i:29614 original size:154 final size:154
Alignment explanation
Indices: 29216--29627 Score: 441
Period size: 154 Copynumber: 2.7 Consensus size: 154
29206 GGCAACCCAG
* *
29216 GCGGTGGCCTCGGTCACCATCGGCAAACCCAGAC-GGGTCTCGGTCACCATCGGCAAACCCAGAC
1 GCGG-GGCCTCGGTCACCATCGGCAAACCCAGACGGGGCCTC-GTCACCATCGGCAAAGCCAGAC
*
29280 GGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGCAACCCCAGGCCACGGGCGGGA
64 GGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGCGGGA
* * *
29345 GTTCCGGACAGAGCCGAGAGTTGGGT
129 GTGCCGCACAGAACCGAGAGTTGGGT
* * * * * * * ***
29371 GCGGGGTCCTC-GTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACC-CCAGCCACGGGTG-
1 GCGGGG-CCTCGGTCACCATCGGCAAACCCAGACGGG-GCCTCGTC-ACCATCGGCAAAGCCAGA
* * *
29433 CGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCG
63 CGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGCG-G
*
29498 G-GTGCCGCACAGAACCGAGCGTT-GGT
127 GAGTGCCGCACAGAACCGAGAGTTGGGT
* * *
29524 GCGTGAGG-CTCGGTCACCATC-GCAATCCCAGGCGGTGGCCTCGTCACCATTGGCAAAGCCAGA
1 GCG-G-GGCCTCGGTCACCATCGGCAAACCCAGACGG-GGCCTCGTCACCATCGGCAAAGCCAGA
* *
29587 C-GGTGTCTCGGTCACCATCGGCAA-ACCC-ACGGGTGTCTCGG
63 CGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
29628 TCACCATCGG
Statistics
Matches: 210, Mismatches: 36, Indels: 26
0.77 0.13 0.10
Matches are distributed among these distances:
151 12 0.06
152 6 0.03
153 53 0.25
154 111 0.53
155 21 0.10
156 7 0.03
ACGTcount: A:0.17, C:0.36, G:0.33, T:0.13
Consensus pattern (154 bp):
GCGGGGCCTCGGTCACCATCGGCAAACCCAGACGGGGCCTCGTCACCATCGGCAAAGCCAGACGG
GTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGCGGGAGT
GCCGCACAGAACCGAGAGTTGGGT
Found at i:29624 original size:30 final size:31
Alignment explanation
Indices: 29532--29658 Score: 120
Period size: 31 Copynumber: 4.2 Consensus size: 31
29522 GTGCGTGAGG
* *
29532 CTCGGTCACCATC-GCAATCCCAGGCGGTGGC
1 CTCGGTCACCATCGGCAAACCCACGCGGT-GC
* * *
29563 CTC-GTCACCATTGGCAAAGCCA-GACGGTGT
1 CTCGGTCACCATCGGCAAACCCACG-CGGTGC
*
29593 CTCGGTCACCATCGGCAAACCCACG-GGTGT
1 CTCGGTCACCATCGGCAAACCCACGCGGTGC
**
29623 CTCGGTCACCATCGGCACCCCCGACG-GGTGC
1 CTCGGTCACCATCGGCAAACCC-ACGCGGTGC
29654 CTCGG
1 CTCGG
29659 CAACCCCAGG
Statistics
Matches: 82, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
30 38 0.46
31 43 0.52
32 1 0.01
ACGTcount: A:0.17, C:0.38, G:0.28, T:0.17
Consensus pattern (31 bp):
CTCGGTCACCATCGGCAAACCCACGCGGTGC
Found at i:29658 original size:61 final size:61
Alignment explanation
Indices: 29532--29658 Score: 134
Period size: 61 Copynumber: 2.1 Consensus size: 61
29522 GTGCGTGAGG
* * * * *
29532 CTCGGTCACCATCGCAATCCCAGGCGGTGGCCTCGTCACCATTGGCAAAGCCAGACGGTGT
1 CTCGGTCACCATCGCAAACCCACGCGGTGGCCTCGTCACCATCGGCAAACCCAGACGGTGC
* * *
29593 CTCGGTCACCATCGGCAAACCCACG-GGT-GTCTCGGTCACCATCGGC-ACCCCCGACGGGTGC
1 CTCGGTCACCATC-GCAAACCCACGCGGTGGCCTC-GTCACCATCGGCAAACCCAGAC-GGTGC
29654 CTCGG
1 CTCGG
29659 CAACCCCAGG
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
60 10 0.18
61 36 0.65
62 9 0.16
ACGTcount: A:0.17, C:0.38, G:0.28, T:0.17
Consensus pattern (61 bp):
CTCGGTCACCATCGCAAACCCACGCGGTGGCCTCGTCACCATCGGCAAACCCAGACGGTGC
Found at i:29753 original size:337 final size:339
Alignment explanation
Indices: 29137--29774 Score: 1049
Period size: 337 Copynumber: 1.9 Consensus size: 339
29127 GGTCACCATC
** *
29137 GCAACCCCAGGCCATTGGTGAGGGAGTGCCGCACAGAACCGCGTTGGTGCGTGAGGCTCGGTCAC
1 GCAACCCCAGGCCACGGGTGACGGAGTGCCGCACAGAACCGCGTTGGTGCGTGAGGCTCGGTCAC
29202 CATCGGCAACCCAGGCGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTCTCGGTCACCATC
66 CATCGGCAACCCAGGCGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTCTCGGTCACCATC
*
29267 GGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGCAACCCCAG
131 GGCAAACCCA-ACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAG
* * *
29332 GCCACGGGCGGGAGTTCCGGACAGAGCCGAGAGTTGGGTGCGGGGTCCTCGTCACCATCGGCAAC
195 GCCACGGGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGTCACCATCGGCAAC
*
29397 CCCCGACGGGTGCCTCGGCAACCCCAG-CCACGGGTGCGGGGGCCTCGGTCACCATCGGCAACCC
260 ACCCGACGGGTGCCTCGGCAACCCCAGTCCACGGGTGCGGGGGCCTCGGTCACCATCGGCAACCC
29461 CCGACGGGTGCCTCG
325 CCGACGGGTGCCTCG
29476 GCAACCCCAGGCCACGGGTG-CGG-GTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCGGTC
1 GCAACCCCAGGCCACGGGTGACGGAGTGCCGCACAGAACC--GCGTTGGTGCGTGAGGCTCGGTC
* *
29539 ACCATC-GCAATCCCAGGCGGTGGCCTC-GTCACCATTGGCAAAGCCAGACGGTGTCTCGGTCAC
64 ACCATCGGCAA-CCCAGGCGGTGGCCTCGGTCACCATCGGCAAACCCAGACGG-GTCTCGGTCAC
29602 CATCGGCAAACCC-ACGGGTGTCTCGGTCACCATCGGC-ACCCCCGACGGGTGCCTCGGCAACCC
127 CATCGGCAAACCCAACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCC
29665 CAGGCCACGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTCACCATCG
192 CAGGCCACGG-GCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTC-GTCACCATCG
**
29730 GCAACACCCGAC-GGTGCCTCGGCAACCCCAGTCCATTGGTGCGGG
255 GCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCACGGGTGCGGG
29775 AGTGCCGCAC
Statistics
Matches: 280, Mismatches: 12, Indels: 15
0.91 0.04 0.05
Matches are distributed among these distances:
336 35 0.12
337 98 0.35
338 60 0.21
339 87 0.31
ACGTcount: A:0.17, C:0.36, G:0.34, T:0.13
Consensus pattern (339 bp):
GCAACCCCAGGCCACGGGTGACGGAGTGCCGCACAGAACCGCGTTGGTGCGTGAGGCTCGGTCAC
CATCGGCAACCCAGGCGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTCTCGGTCACCATC
GGCAAACCCAACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGG
CCACGGGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGTCACCATCGGCAACA
CCCGACGGGTGCCTCGGCAACCCCAGTCCACGGGTGCGGGGGCCTCGGTCACCATCGGCAACCCC
CGACGGGTGCCTCG
Found at i:29801 original size:94 final size:93
Alignment explanation
Indices: 29623--29805 Score: 287
Period size: 94 Copynumber: 2.0 Consensus size: 93
29613 CCACGGGTGT
*
29623 CTCGGTCACCATCGGCACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGTGCGGGAGTGCCG
1 CTCGGTCACCATCGGCACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGTGCGGGAGTGCCG
* *
29688 CACAGAGCCGAGAGTTGGGTGCGGGGGC
66 CACAGAACCGAGAGCTGGGTGCGGGGGC
* *
29716 CTCGGTCACCATCGGCAACACCCGAC-GGTGCCTCGGCAACCCCAGTCCATTGGTGCGGGAGTGC
1 CTCGGTCACCATCGGC-ACACCCGACGGGTGCCTCGGCAACCCCAGGCCA-CGGTGCGGGAGTGC
*
29780 CGCACAGAACCGAGCGCTGGGTGCGG
64 CGCACAGAACCGAGAGCTGGGTGCGG
29806 CAGCCTCGCA
Statistics
Matches: 82, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
93 38 0.46
94 44 0.54
ACGTcount: A:0.16, C:0.36, G:0.36, T:0.12
Consensus pattern (93 bp):
CTCGGTCACCATCGGCACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGTGCGGGAGTGCCG
CACAGAACCGAGAGCTGGGTGCGGGGGC
Done.