Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009518.1 Hibiscus syriacus cultivar Beakdansim tig00115774_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: 52139
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.24
Found at i:706 original size:137 final size:140
Alignment explanation
Indices: 327--1296 Score: 981
Period size: 148 Copynumber: 6.8 Consensus size: 140
317 TAAGGAATTT
* * * * *
327 CGCCGAGCGCTTCAACATTAAGAGTTGG-AAGGGGGACAGAGTTCATGCCGAGCGCTTCCAGTGG
1 CGCCGAGCGCTTCAACGTTGAGAGTAGGCAGGGGGGACAGAGTTCATGCCGAGCGCTTCCAGAGG
* * * * *
391 GGAGTAGGCCGGATGACCTGATCTTACGCCGGGGCGCTCTAATGTATGGGGTAGGCAGGGT-AT-
66 GGAGTAGGCAGGATGACCTGATCTTACGCC-GAGCGCTCTAACGTGTGGAGTAGGCAGGGTGATG
* * *
454 TCCTATTTTCA
130 TCATAATATCA
* * * * *
465 CGCCGAGCGCTTCACCGTTAAGAGTTGG-AAGGGGGATAGAGTTCATGCCGAGCGCTTCC--AGG
1 CGCCGAGCGCTTCAACGTTGAGAGTAGGCAGGGGGGACAGAGTTCATGCCGAGCGCTTCCAGAGG
* * *
527 GGAGTAGGGAGGATGACTTGATCTTACGCCGGGCGCTCTAACGTGTGGAGTAGGCAGGGTG-T-T
66 GGAGTAGGCAGGATGACCTGATCTTACGCCGAGCGCTCTAACGTGTGGAGTAGGCAGGGTGATGT
590 -ATAATATCA
131 CATAATATCA
* *
599 CGCCGAGCACTTCAACGTTGAGAGTAGGCAGGGGGGACAGAGTACATGCCGAGCGCTTCCAGAGG
1 CGCCGAGCGCTTCAACGTTGAGAGTAGGCAGGGGGGACAGAGTTCATGCCGAGCGCTTCCAGAGG
* *
664 GGAGTAGGCAGGATGACCTGGTCTTACGCCGAGCGCTCTAACGTGTGGAGTAGGCCGGGTGAAAC
66 GGAGTAGGCAGGATGACCTGATCTTACGCCGAGCGCTCTAACGTGTGGAGTAGGCAGGGT-----
* *
729 AAGATGTGCCTTAATATTA
126 --GATGT--CATAATATCA
* *
748 CGCCGAGCACTTCAACGTTGAGAGTAGGCA-GGGGGACAGAGTACATGCCGAGCGCTTCCAGAGG
1 CGCCGAGCGCTTCAACGTTGAGAGTAGGCAGGGGGGACAGAGTTCATGCCGAGCGCTTCCAGAGG
* *
812 GGAGTAGGCAGGATGACCTGGTCTTACGCCGAGCGCTCTAACGTGTGGAGTAGGCCGGGTGAAAT
66 GGAGTAGGCAGGATGACCTGATCTTACGCCGAGCGCTCTAACGTGTGGAGTAGG-CAGG-G---T
* *
877 AAGATGTGCTTAATGTCA
126 --GATGT-CATAATATCA
* * * * *
895 CGCCGAGCGCTTCAACGTTGAGAGTAGGTAGAGGAGACAGAGTGCAT-CCGAGCGCTTCCAAAGG
1 CGCCGAGCGCTTCAACGTTGAGAGTAGGCAGGGGGGACAGAGTTCATGCCGAGCGCTTCCAGAGG
* * **
959 GGAGTAGGCAGGATGACCTGATCTTACGTCGAGCGCTCTAACGTATGGAGTAGGCAGGGTG-TCC
66 GGAGTAGGCAGGATGACCTGATCTTACGCCGAGCGCTCTAACGTGTGGAGTAGGCAGGGTGATGT
*
1023 CA-GAT-TCA
131 CATAATATCA
* * * ** * *
1031 CGCCGAGC-ATCTCAACG-TGTAGGGTAAGCAGGGTAGACAGAGTTCATGCCTAGCGCTTCTAGA
1 CGCCGAGCGCT-TCAACGTTG-AGAGTAGGCAGGGGGGACAGAGTTCATGCCGAGCGCTTCCAGA
*
1094 GGGGAGTAGGCAGGATGACCTGGTCTTACGCCGAGCGC-CTAACGTGTGGAGTAGGTC-GGGTGA
64 GGGGAGTAGGCAGGATGACCTGATCTTACGCCGAGCGCTCTAACGTGTGGAGTAGG-CAGGGTG-
* *
1157 AATATAATGCGCTTTAATATCA
127 ------ATG-TC-ATAATATCA
* * * * * **
1179 GGTCGAGCGCCTCAACGTGTGGGGGTAGGCAGGGTAGACAGAGTTCATGCCGAGCGCTTCCAGAG
1 CGCCGAGCGCTTCAACGT-TGAGAGTAGGCAGGGGGGACAGAGTTCATGCCGAGCGCTTCCAGAG
1244 GGGAGTAGGC-GGATGACCTGATCTTACGCCGAGCGCT-TAACGTGTGGAGTAGG
65 GGGAGTAGGCAGGATGACCTGATCTTACGCCGAGCGCTCTAACGTGTGGAGTAGG
1297 GTGAAATAAA
Statistics
Matches: 719, Mismatches: 71, Indels: 74
0.83 0.08 0.09
Matches are distributed among these distances:
134 30 0.04
135 60 0.08
136 88 0.12
137 109 0.15
138 57 0.08
139 1 0.00
140 1 0.00
142 1 0.00
144 2 0.00
145 3 0.00
146 4 0.01
147 105 0.15
148 164 0.23
149 90 0.13
150 3 0.00
153 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.35, T:0.21
Consensus pattern (140 bp):
CGCCGAGCGCTTCAACGTTGAGAGTAGGCAGGGGGGACAGAGTTCATGCCGAGCGCTTCCAGAGG
GGAGTAGGCAGGATGACCTGATCTTACGCCGAGCGCTCTAACGTGTGGAGTAGGCAGGGTGATGT
CATAATATCA
Found at i:1119 original size:432 final size:418
Alignment explanation
Indices: 327--1296 Score: 1250
Period size: 432 Copynumber: 2.3 Consensus size: 418
317 TAAGGAATTT
* * * * *
327 CGCCGAGCGCTTCAACATTAAGAGTTGGAAGGGGGACAGAGTTCATGCCGAGCGCTTCCAGTGGG
1 CGCCGAGCGCTTCAACGTTGAGAGTAGGCAGGGGGACAGAGTTCATGCCGAGCGCTTCCAGAGGG
* * * *
392 GAGTAGGCCGGATGACCTGATCTTACGCCGGGGCGCTCTAATGTATGGGGTAGGCAGGGTATTCC
66 GAGTAGG-CGGATGACCTGATCTTACGCC-GAGCGCTCTAACGTGTGGAGTAGGCAGGGTATTCC
* * * * * * *
457 TATTTTCACGCCGAGCGCTTCACCGTTAAGAGTTGGAAGGGGGATAGAGTTCATGCCGAGCGCTT
129 TAATGTCACGCCGAGCGCTTCAACGTTAAGAGTAGGAAGGGAGACAGAGTGCATGCCGAGCGCTT
* * * *
522 CCAGGGGAGTAGGGAGGATGACTTGATCTTACGCCGGGCGCTCTAACGTGTGGAGTAGGCAGGGT
194 CCAGGGGAGTAGGCAGGATGACCTGATCTTACGCCGAGCGCTCTAACGTATGGAGTAGGCAGGGT
* * * *
587 GTTATAATATCACGCCGAGCACTTCAACGTTGAGAGTAGGCAGGGGGGACAGAGTACATGCCGAG
259 GTCACAATATCACGCCGAGCACTTCAACGTTGAGAGTAAGCAGGGGAGACAGAGTACATGCCGAG
652 CGCTTCCAGAGGGGAGTAGGCAGGATGACCTGGTCTTACGCCGAGCGCTCTAACGTGTGGAGTAG
324 CGCTTCCAGAGGGGAGTAGGCAGGATGACCTGGTCTTACGCCGAGCGC-CTAACGTGTGGAGTAG
* *
717 GCCGGGTGAAACA-AGATGTGCCTTAATATTA
388 GCCGGGTGAAACATA-ATGCGCCTTAATATCA
* *
748 CGCCGAGCACTTCAACGTTGAGAGTAGGCAGGGGGACAGAGTACATGCCGAGCGCTTCCAGAGGG
1 CGCCGAGCGCTTCAACGTTGAGAGTAGGCAGGGGGACAGAGTTCATGCCGAGCGCTTCCAGAGGG
* *
813 GAGTAGGCAGGATGACCTGGTCTTACGCCGAGCGCTCTAACGTGTGGAGTAGGCCGGGTGAAATA
66 GAGTAGGC-GGATGACCTGATCTTACGCCGAGCGCTCTAACGTGTGGAGTAGG-CAGG-G---T-
* * *
878 AGATGTGCTTAATGTCACGCCGAGCGCTTCAACGTTGAGAGTAGGTAGAGGAGACAGAGTGCAT-
124 --AT-T-CCTAATGTCACGCCGAGCGCTTCAACGTTAAGAGTAGGAAG-GGAGACAGAGTGCATG
*
942 CCGAGCGCTTCCAAAGGGGAGTAGGCAGGATGACCTGATCTTACGTCGAGCGCTCTAACGTATGG
184 CCGAGCGCTTCC--AGGGGAGTAGGCAGGATGACCTGATCTTACGCCGAGCGCTCTAACGTATGG
* * *
1007 AGTAGGCAGGGTGTCCCAGAT-TCACGCCGAGCA-TCTCAACG-TGTAGGGTAAGCAGGGTAGAC
247 AGTAGGCAGGGTGTCACA-ATATCACGCCGAGCACT-TCAACGTTG-AGAGTAAGCAGGGGAGAC
* * *
1069 AGAGTTCATGCCTAGCGCTTCTAGAGGGGAGTAGGCAGGATGACCTGGTCTTACGCCGAGCGCCT
309 AGAGTACATGCCGAGCGCTTCCAGAGGGGAGTAGGCAGGATGACCTGGTCTTACGCCGAGCGCCT
* * *
1134 AACGTGTGGAGTAGGTCGGGTGAAATATAATGCGCTTTAATATCA
374 AACGTGTGGAGTAGGCCGGGTGAAACATAATGCGCCTTAATATCA
* * * * * *
1179 GGTCGAGCGCCTCAACGTGTGGGGGTAGGCAGGGTAGACAGAGTTCATGCCGAGCGCTTCCAGAG
1 CGCCGAGCGCTTCAACGT-TGAGAGTAGGCAGGG-GGACAGAGTTCATGCCGAGCGCTTCCAGAG
1244 GGGAGTAGGCGGATGACCTGATCTTACGCCGAGCGCT-TAACGTGTGGAGTAGG
64 GGGAGTAGGCGGATGACCTGATCTTACGCCGAGCGCTCTAACGTGTGGAGTAGG
1297 GTGAAATAAA
Statistics
Matches: 477, Mismatches: 52, Indels: 30
0.85 0.09 0.05
Matches are distributed among these distances:
420 21 0.04
421 87 0.18
422 1 0.00
425 1 0.00
428 2 0.00
429 1 0.00
430 46 0.10
431 85 0.18
432 193 0.40
433 40 0.08
ACGTcount: A:0.23, C:0.21, G:0.35, T:0.21
Consensus pattern (418 bp):
CGCCGAGCGCTTCAACGTTGAGAGTAGGCAGGGGGACAGAGTTCATGCCGAGCGCTTCCAGAGGG
GAGTAGGCGGATGACCTGATCTTACGCCGAGCGCTCTAACGTGTGGAGTAGGCAGGGTATTCCTA
ATGTCACGCCGAGCGCTTCAACGTTAAGAGTAGGAAGGGAGACAGAGTGCATGCCGAGCGCTTCC
AGGGGAGTAGGCAGGATGACCTGATCTTACGCCGAGCGCTCTAACGTATGGAGTAGGCAGGGTGT
CACAATATCACGCCGAGCACTTCAACGTTGAGAGTAAGCAGGGGAGACAGAGTACATGCCGAGCG
CTTCCAGAGGGGAGTAGGCAGGATGACCTGGTCTTACGCCGAGCGCCTAACGTGTGGAGTAGGCC
GGGTGAAACATAATGCGCCTTAATATCA
Found at i:1145 original size:45 final size:45
Alignment explanation
Indices: 959--1148 Score: 124
Period size: 46 Copynumber: 4.2 Consensus size: 45
949 CTTCCAAAGG
* * * *
959 GGAGTAGGCAGGATGACCTGATCTTACGTCGAGCGCTCTAACGTAT
1 GGAGTAGGCAGGATGACCAGAT-TCACGCCGAGCGCTCTAACGTGT
* * *
1005 GGAGTAGGCAGGGTGTCCCAGATTCACGCCGAGC-ATCTCAACGTGT
1 GGAGTAGGCAGGATG-ACCAGATTCACGCCGAGCGCTCT-AACGTGT
* * * *
1051 AGG-GTAAGCAGGGTAGA-CAGAGTTCATGCCTAGCGCTTCTAGA-G-G-
1 -GGAGTAGGCAGGAT-GACCAGA-TTCACGCCGAGCGC-TCTA-ACGTGT
* * *
1096 GGAGTAGGCAGGATGACCTGGTCTTACGCCGAGCGC-CTAACGTGT
1 GGAGTAGGCAGGATGACCAGAT-TCACGCCGAGCGCTCTAACGTGT
1141 GGAGTAGG
1 GGAGTAGG
1149 TCGGGTGAAA
Statistics
Matches: 111, Mismatches: 19, Indels: 29
0.70 0.12 0.18
Matches are distributed among these distances:
42 1 0.01
43 4 0.04
44 6 0.05
45 36 0.32
46 50 0.45
47 10 0.09
48 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.35, T:0.21
Consensus pattern (45 bp):
GGAGTAGGCAGGATGACCAGATTCACGCCGAGCGCTCTAACGTGT
Found at i:11918 original size:11 final size:11
Alignment explanation
Indices: 11902--11934 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
11892 CGATAATGTC
11902 TCGCCGGAGCA
1 TCGCCGGAGCA
*
11913 TCGCCGGAGCG
1 TCGCCGGAGCA
11924 TCGCCGGAGCA
1 TCGCCGGAGCA
11935 CCACGGGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.15, C:0.36, G:0.39, T:0.09
Consensus pattern (11 bp):
TCGCCGGAGCA
Found at i:12384 original size:33 final size:33
Alignment explanation
Indices: 12321--12511 Score: 197
Period size: 33 Copynumber: 5.6 Consensus size: 33
12311 TGGCCCGGGG
* * *
12321 TTGCCGATGGTGACCGA-GACACCCGTCTGGGT
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
12353 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
* * * *
12386 CTGCCGATGGTGACCGAGGCTCCCGCACCAATGGCCCGGGG
1 TTGCCGATGGTGACCGAGG----C-CACC---CGCCTGGGA
* * * *
12427 TTACCGATGGTGACCGA-GACACCCGTCTGGGT
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
12459 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
12492 TTGCCGATGGTGACCGAGGC
1 TTGCCGATGGTGACCGAGGC
12512 TCACGCACAA
Statistics
Matches: 131, Mismatches: 18, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
32 38 0.29
33 62 0.47
35 4 0.03
37 1 0.01
38 4 0.03
40 1 0.01
41 21 0.16
ACGTcount: A:0.16, C:0.31, G:0.36, T:0.17
Consensus pattern (33 bp):
TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
Found at i:12438 original size:106 final size:106
Alignment explanation
Indices: 12299--12519 Score: 415
Period size: 106 Copynumber: 2.1 Consensus size: 106
12289 CTGTGCGGCA
*
12299 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
12364 GACCGAGGCCACCCGCCTGGGACTGCCGATGGTGACCGAGG
66 GACCGAGGCCACCCGCCTGGGACTGCCGATGGTGACCGAGG
12405 CTCCCGCACCAATGGCCCGGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
*
12470 GACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGG
66 GACCGAGGCCACCCGCCTGGGACTGCCGATGGTGACCGAGG
*
12511 CTCACGCAC
1 CTCCCGCAC
12520 AAGCGGCCTG
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 112 1.00
ACGTcount: A:0.16, C:0.33, G:0.34, T:0.16
Consensus pattern (106 bp):
CTCCCGCACCAATGGCCCGGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
GACCGAGGCCACCCGCCTGGGACTGCCGATGGTGACCGAGG
Found at i:12605 original size:169 final size:170
Alignment explanation
Indices: 12405--12985 Score: 1042
Period size: 169 Copynumber: 3.4 Consensus size: 170
12395 GTGACCGAGG
*
12405 CTCCCGCACCAATGGCCCGGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
* * *
12470 GACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGGCTCACGCACA-AGCGGCCTGATGG
66 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGG
*
12534 TGACCGAGACTCCCGCACCAACGCTCGGTTCTGTGCGGCA
131 TGACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
12574 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
12639 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGG
66 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGG
* *
12704 TGACCGAGGCTCCCGCACCAAAGCTCGGTACTGTGCGGCA
131 TGACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
12744 CTCCCGCACCAATGG-CCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
* *
12808 GACCGAGGCCACCCGCCTTGGATTACCGATGGTGACCGAGGCGCACGCACACGGGGGCCTGATGG
66 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGG
12873 TGA-CGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
131 TGACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
**
12912 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGTTTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
12977 GACCGAGGC
66 GACCGAGGC
12986 ACGCACACGT
Statistics
Matches: 397, Mismatches: 13, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
168 49 0.12
169 285 0.72
170 63 0.16
ACGTcount: A:0.16, C:0.33, G:0.34, T:0.17
Consensus pattern (170 bp):
CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGG
TGACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
Found at i:12665 original size:33 final size:33
Alignment explanation
Indices: 12596--12680 Score: 127
Period size: 33 Copynumber: 2.6 Consensus size: 33
12586 TGGCCCGGGG
* * *
12596 TTGCCGATGGTGACCGA-GACACCCGTCTGGGT
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
*
12628 TTGCCGATGGTGACCGAGGCCACCCGCCTTGGA
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
12661 TTGCCGATGGTGACCGAGGC
1 TTGCCGATGGTGACCGAGGC
12681 TCACGCACAC
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
32 17 0.35
33 31 0.65
ACGTcount: A:0.15, C:0.29, G:0.35, T:0.20
Consensus pattern (33 bp):
TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
Found at i:12837 original size:33 final size:33
Alignment explanation
Indices: 12768--12849 Score: 112
Period size: 33 Copynumber: 2.5 Consensus size: 33
12758 GCCGGGGTTG
* * * *
12768 CCGATGGTGACCGA-GACACCCGTCTGGGTTTG
1 CCGATGGTGACCGAGGCCACCCGCCTGGGATTA
*
12800 CCGATGGTGACCGAGGCCACCCGCCTTGGATTA
1 CCGATGGTGACCGAGGCCACCCGCCTGGGATTA
12833 CCGATGGTGACCGAGGC
1 CCGATGGTGACCGAGGC
12850 GCACGCACAC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 14 0.32
33 30 0.68
ACGTcount: A:0.17, C:0.30, G:0.34, T:0.18
Consensus pattern (33 bp):
CCGATGGTGACCGAGGCCACCCGCCTGGGATTA
Found at i:20849 original size:11 final size:11
Alignment explanation
Indices: 20833--20865 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
20823 CGATAATGTC
20833 TCGCCGGAGCA
1 TCGCCGGAGCA
*
20844 TCGCCGGAGCG
1 TCGCCGGAGCA
20855 TCGCCGGAGCA
1 TCGCCGGAGCA
20866 CACCGGGACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.15, C:0.36, G:0.39, T:0.09
Consensus pattern (11 bp):
TCGCCGGAGCA
Found at i:21337 original size:32 final size:32
Alignment explanation
Indices: 21249--21432 Score: 153
Period size: 32 Copynumber: 5.6 Consensus size: 32
21239 ATGGCCGGGG
* * *
21249 TGCCGATGGTGACCGAGACACCCGTCTGGGTT
1 TGCCGATGGTGACCGAGGCACCCGCCTGGGAT
*
21281 TGCCGATGG-GACCGAGGCCACCCGCCTGGGAC
1 TGCCGATGGTGACCGAGG-CACCCGCCTGGGAT
* *
21313 TGCCGATGGTGACCGAGGCTCCCGCACCAATGGCCGGGGGT
1 TGCCGATGGTGACCGAGGCACCCG--CC--T-----GGGAT
* * * *
21354 TACCGATGGTGACCGAGACACCCGTCTGGGTT
1 TGCCGATGGTGACCGAGGCACCCGCCTGGGAT
21386 TGCCGATGGTGACCGAGG---CCGCCTGGGAT
1 TGCCGATGGTGACCGAGGCACCCGCCTGGGAT
21415 TGCCGATGGTGA-CGAGGC
1 TGCCGATGGTGACCGAGGC
21433 TCACGCACAA
Statistics
Matches: 124, Mismatches: 16, Indels: 27
0.74 0.10 0.16
Matches are distributed among these distances:
28 5 0.04
29 21 0.17
31 7 0.06
32 54 0.44
33 8 0.06
34 2 0.02
36 1 0.01
37 1 0.01
39 1 0.01
41 24 0.19
ACGTcount: A:0.16, C:0.30, G:0.38, T:0.17
Consensus pattern (32 bp):
TGCCGATGGTGACCGAGGCACCCGCCTGGGAT
Found at i:21376 original size:105 final size:99
Alignment explanation
Indices: 21228--21440 Score: 329
Period size: 105 Copynumber: 2.1 Consensus size: 99
21218 CTGTGCGGCA
*
21228 CTCCCGCACCAATGGCCGGGGTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGG-GA
1 CTCCCGCACCAATGGCCGGGGTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGA
21292 CCGAGGCCACCCGCCTGGGACTGCCGATGGTGACCGAGG
66 CCGAGG----CCGCCTGGGACTGCCGATGGTGA-CGAGG
21331 CTCCCGCACCAATGGCCGGGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCC-GGGG-TACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
*
21396 GACCGAGGCCGCCTGGGATTGCCGATGGTGACGAGG
64 GACCGAGGCCGCCTGGGACTGCCGATGGTGACGAGG
*
21432 CTCACGCAC
1 CTCCCGCAC
21441 AAGCGGCTGA
Statistics
Matches: 104, Mismatches: 3, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
101 13 0.12
102 22 0.21
103 17 0.16
104 4 0.04
105 40 0.38
106 8 0.08
ACGTcount: A:0.16, C:0.32, G:0.36, T:0.16
Consensus pattern (99 bp):
CTCCCGCACCAATGGCCGGGGTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGA
CCGAGGCCGCCTGGGACTGCCGATGGTGACGAGG
Found at i:21421 original size:29 final size:29
Alignment explanation
Indices: 21356--21432 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 29
21346 CCGGGGGTTA
* * *
21356 CCGATGGTGACCGAGACACCCGTCTGGGTTTG
1 CCGATGGTGACCGAG---GCCGCCTGGGATTG
21388 CCGATGGTGACCGAGGCCGCCTGGGATTG
1 CCGATGGTGACCGAGGCCGCCTGGGATTG
21417 CCGATGGTGA-CGAGGC
1 CCGATGGTGACCGAGGC
21433 TCACGCACAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 6 0.14
29 21 0.50
32 15 0.36
ACGTcount: A:0.16, C:0.27, G:0.39, T:0.18
Consensus pattern (29 bp):
CCGATGGTGACCGAGGCCGCCTGGGATTG
Found at i:21551 original size:30 final size:32
Alignment explanation
Indices: 21517--21594 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 32
21507 GCCGGGGTTG
* *
21517 CGATGGTGACGA-GACA-CCGTCTGGGTTTGC
1 CGATGGTGACGAGGACACCCGCCTGGGATTGC
* *
21547 CGATGGTGACCGAGGCCACCCGCCTTGGATTGC
1 CGATGGTGA-CGAGGACACCCGCCTGGGATTGC
21580 CGATGGTGACCGAGG
1 CGATGGTGA-CGAGG
21595 CTCACGCACA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
30 9 0.22
31 3 0.07
32 3 0.07
33 26 0.63
ACGTcount: A:0.17, C:0.27, G:0.37, T:0.19
Consensus pattern (32 bp):
CGATGGTGACGAGGACACCCGCCTGGGATTGC
Found at i:21667 original size:166 final size:168
Alignment explanation
Indices: 21331--21890 Score: 887
Period size: 166 Copynumber: 3.4 Consensus size: 168
21321 GTGACCGAGG
*
21331 CTCCCGCACCAATGGCCGGGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCC-GGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
* * *
21396 GACCGAGG----CCGCCTGGGATTGCCGATGGTGA-CGAGGCTCACGCACA-AGCGG-CTGATGG
65 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGG
*
21454 TGACGAGACTCCCGCACCAACGCTCGGTTCTGTGCGGCA
130 TGACGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
21493 CTCCCGCACCAATGGCCGGGGTTG-CGATGGTGA-CGAGACA-CCGTCTGGGTTTGCCGATGGTG
1 CTCCCGCACCAATGGCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTG
21555 ACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGGT
66 ACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGGT
* *
21620 GACCGAGGCTCCCGCACCAAAGCTCGGTACTGTGCGGCA
131 GA-CGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
*
21659 CTCCCGCACCAATGGTCGGGG-TGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTG
1 CTCCCGCACCAATGGCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTG
* *
21723 A-CGAGGCCACCCG-CTTGGATTACCGATGGTGACCGAGGCGCACGCACACGGGGGCCTGATGGT
66 ACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGGT
21786 GACGAGGCTCCCGCACCAACGCTC-GTTCTGTGCGGCA
131 GACGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
**
21823 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGTTTTTGCCGATGGT
1 CTCCCGCACCAATGG-CCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
21888 GAC
65 GAC
21891 GAGCACGCAC
Statistics
Matches: 369, Mismatches: 15, Indels: 23
0.91 0.04 0.06
Matches are distributed among these distances:
158 29 0.08
159 7 0.02
160 9 0.02
161 6 0.02
162 39 0.11
163 15 0.04
164 30 0.08
165 38 0.10
166 154 0.42
167 19 0.05
168 23 0.06
ACGTcount: A:0.17, C:0.31, G:0.34, T:0.18
Consensus pattern (168 bp):
CTCCCGCACCAATGGCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTG
ACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGGT
GACGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
Found at i:21760 original size:32 final size:33
Alignment explanation
Indices: 21682--21761 Score: 103
Period size: 32 Copynumber: 2.5 Consensus size: 33
21672 GGTCGGGGTG
* * *
21682 CCGATGGTGACCGA-GACACCCGTCTGGGTTTG
1 CCGATGGTGACCGAGGCCACCCGTCTGGGATTA
*
21714 CCGATGGTGA-CGAGGCCACCCG-CTTGGATTA
1 CCGATGGTGACCGAGGCCACCCGTCTGGGATTA
21745 CCGATGGTGACCGAGGC
1 CCGATGGTGACCGAGGC
21762 GCACGCACAC
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
31 19 0.45
32 23 0.55
ACGTcount: A:0.17, C:0.29, G:0.35, T:0.19
Consensus pattern (33 bp):
CCGATGGTGACCGAGGCCACCCGTCTGGGATTA
Found at i:29714 original size:11 final size:11
Alignment explanation
Indices: 29698--29730 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
29688 CGATAATGTC
29698 TCGCCGGAGCA
1 TCGCCGGAGCA
*
29709 TCGCCGGAGCG
1 TCGCCGGAGCA
29720 TCGCCGGAGCA
1 TCGCCGGAGCA
29731 CCACCGGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.15, C:0.36, G:0.39, T:0.09
Consensus pattern (11 bp):
TCGCCGGAGCA
Found at i:30164 original size:32 final size:31
Alignment explanation
Indices: 30128--30308 Score: 146
Period size: 32 Copynumber: 5.4 Consensus size: 31
30118 GCCGATGGTG
* *
30128 TGGTGACCGAGACACCCGTCTGGGTTTGCCGA
1 TGGTGACCGAGGC-CCCGTCTGGGATTGCCGA
* * *
30160 TGGTGACCGAGGCCACGCCTGGGACTGCCGA
1 TGGTGACCGAGGCCCCGTCTGGGATTGCCGA
* * *
30191 TGGTGACCGAGGCTCCCGCACCAATGGCCCGGGGTTACCGA
1 TGGTGACCGAGGC-CCCG------T---CTGGGATTGCCGA
* *
30232 TGGTGACCGAGACACCCGTCTGGGTTTGCCGA
1 TGGTGACCGAGGC-CCCGTCTGGGATTGCCGA
*
30264 TGGTGACCGAGGCCACCGCCTGGGATTGCCGA
1 TGGTGACCGAGGCC-CCGTCTGGGATTGCCGA
30296 TGGTGACCGAGGC
1 TGGTGACCGAGGC
30309 TCACGCACAA
Statistics
Matches: 119, Mismatches: 19, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
31 28 0.24
32 65 0.55
35 1 0.01
41 25 0.21
ACGTcount: A:0.16, C:0.30, G:0.36, T:0.17
Consensus pattern (31 bp):
TGGTGACCGAGGCCCCGTCTGGGATTGCCGA
Found at i:30261 original size:104 final size:106
Alignment explanation
Indices: 30097--30316 Score: 363
Period size: 104 Copynumber: 2.1 Consensus size: 106
30087 CTGTGCGGCA
*
30097 CCGCACCAATGGCCCGGGGTTGCCGATGGTGTGGTGACCGAGACACCCGTCTGGGTTTGCCGATG
1 CCGCACCAATGGCCCGGGGTTACCGA----GTGGTGACCGAGACACCCGTCTGGGTTTGCCGATG
30162 GTGACCGAGGCCA-CGCCTGGGACTGCCGATGGTGACCGAGGCTC
62 GTGACCGAGGCCACCGCCTGGGACTGCCGATGGTGACCGAGGCTC
30206 CCGCACCAATGGCCCGGGGTTACCGA-TGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGCACCAATGGCCCGGGGTTACCGAGTGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGA
*
30270 CCGAGGCCACCGCCTGGGATTGCCGATGGTGACCGAGGCTC
66 CCGAGGCCACCGCCTGGGACTGCCGATGGTGACCGAGGCTC
*
30311 ACGCAC
1 CCGCAC
30317 AAGGGCCTGA
Statistics
Matches: 107, Mismatches: 3, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
104 47 0.44
105 35 0.33
109 25 0.23
ACGTcount: A:0.16, C:0.31, G:0.36, T:0.17
Consensus pattern (106 bp):
CCGCACCAATGGCCCGGGGTTACCGAGTGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGA
CCGAGGCCACCGCCTGGGACTGCCGATGGTGACCGAGGCTC
Found at i:30302 original size:136 final size:131
Alignment explanation
Indices: 30048--30479 Score: 421
Period size: 136 Copynumber: 3.2 Consensus size: 131
30038 AGTCGGGGGT
* * **
30048 TGCCGATGGTGACCGAGGCTCCCGCACCAACGCCCGGTTCTGTGCGGCAC-CGCACCAATGGCCC
1 TGCCGATGGTGACCGAGGCTCCCGCACCAACGCCCGGTTCCGTGCGGCACTC-CAGCAACCGCCC
30112 GGGGTTGCCGATGGTGTGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGGCCACG
65 GGGGTTGCCGA-----TGGTGACCGAGACA-CCGTCTGGGTTTGCCGATGGTGACCGAGGCCACG
30177 CCTGGGAC
124 CCTGGGAC
* * *
30185 TGCCGATGGTGACCGAGGCTCCCGCACCAATGGCCCGGGGTTACCGATG-GTG-AC-CGAGACAC
1 TGCCGATGGTGACCGAGGCTCCCGCACCAA-CGCCC--GGTT-CCG-TGCG-GCACTCCAG-CAA
* * * * * *
30247 CCGTCTGGGTTTGCCGATGGTGACCGAGGCCACCGCCTGGGATTGCCGATGGTGACCGAGGCTCA
59 CCGCCCGGGGTTGCCGATGGTGACCGA-GACACCGTCTGGGTTTGCCGATGGTGACCGAGGC-CA
*
30312 CGCACAAGGG-C
122 CGC-C-TGGGAC
* * * * * **
30323 --CTGATGGTGACCGAGACTCCCGCACCAACGCTCGGTTCTGTGCGGCACTCCCGCAATGGCCCG
1 TGCCGATGGTGACCGAGGCTCCCGCACCAACGCCCGGTTCCGTGCGGCACTCCAGCAACCGCCCG
30386 GGGTTGCCGATGGTGACCGAGACA-CGTCTGGGTTTGCCGATGGTGACCGAGGCCACCCGCCTGG
66 GGGTTGCCGATGGTGACCGAGACACCGTCTGGGTTTGCCGATGGTGACCGAGGCCA--CGCCTGG
*
30450 GAT
129 GAC
*
30453 TGCCGATGGTGACCGAGGCTCACGCAC
1 TGCCGATGGTGACCGAGGCTCCCGCAC
30480 ACGGGGGCCT
Statistics
Matches: 241, Mismatches: 35, Indels: 43
0.76 0.11 0.13
Matches are distributed among these distances:
129 5 0.02
130 28 0.12
131 9 0.04
132 51 0.21
133 6 0.02
135 3 0.01
136 64 0.27
137 38 0.16
138 6 0.02
139 3 0.01
140 5 0.02
141 20 0.08
142 3 0.01
ACGTcount: A:0.16, C:0.32, G:0.35, T:0.17
Consensus pattern (131 bp):
TGCCGATGGTGACCGAGGCTCCCGCACCAACGCCCGGTTCCGTGCGGCACTCCAGCAACCGCCCG
GGGTTGCCGATGGTGACCGAGACACCGTCTGGGTTTGCCGATGGTGACCGAGGCCACGCCTGGGA
C
Found at i:30456 original size:33 final size:32
Alignment explanation
Indices: 30389--30477 Score: 119
Period size: 33 Copynumber: 2.8 Consensus size: 32
30379 TGGCCCGGGG
* *
30389 TTGCCGATGGTGACCGA-G-ACACGTCTGGGT
1 TTGCCGATGGTGACCGAGGCACACGCCTGGGA
*
30419 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
1 TTGCCGATGGTGACCGAGG-CACACGCCTGGGA
*
30452 TTGCCGATGGTGACCGAGGCTCACGC
1 TTGCCGATGGTGACCGAGGCACACGC
30478 ACACGGGGGC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
30 17 0.33
31 1 0.02
32 5 0.10
33 28 0.55
ACGTcount: A:0.16, C:0.29, G:0.36, T:0.19
Consensus pattern (32 bp):
TTGCCGATGGTGACCGAGGCACACGCCTGGGA
Found at i:30629 original size:33 final size:33
Alignment explanation
Indices: 30560--30641 Score: 112
Period size: 33 Copynumber: 2.5 Consensus size: 33
30550 CCCGGGGTTG
* * * *
30560 CCGATGGTGACCGA-GACACCCGTCTGGGTTTG
1 CCGATGGTGACCGAGGCCACCCGCCTGGGATTA
*
30592 CCGATGGTGACCGAGGCCACCCGCCTTGGATTA
1 CCGATGGTGACCGAGGCCACCCGCCTGGGATTA
30625 CCGATGGTGACCGAGGC
1 CCGATGGTGACCGAGGC
30642 GCACGCACAC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 14 0.32
33 30 0.68
ACGTcount: A:0.17, C:0.30, G:0.34, T:0.18
Consensus pattern (33 bp):
CCGATGGTGACCGAGGCCACCCGCCTGGGATTA
Found at i:30649 original size:170 final size:170
Alignment explanation
Indices: 30203--30772 Score: 985
Period size: 170 Copynumber: 3.4 Consensus size: 170
30193 GTGACCGAGG
*
30203 CTCCCGCACCAATGGCCCGGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
*
30268 GACCGAGGCCA-CCGCCTGGGATTGCCGATGGTGACCGAGGCTCACGCACA--AGGGCCTGATGG
66 GACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGG
*
30330 TGACCGAGACTCCCGCACCAACGCTCGGTTCTGTGCGGCA
131 TGACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
30370 CTCCCG---CAATGGCCCGGGGTTGCCGATGGTGACCGAGACA--CGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
30430 GACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGG
66 GACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGG
* *
30495 TGACCGAGGCTCCCGCACCAAAGCTCGGTACTGTGCGGCA
131 TGACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
30535 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
* * *
30600 GACCGAGGCCACCCGCCTTGGATTACCGATGGTGACCGAGGCGCACGCACACGGGGGCCTGATGG
66 GACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGG
*
30665 TGAACGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
131 TGACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
**
30705 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGTTTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
30770 GAC
66 GAC
30773 GACACACACG
Statistics
Matches: 382, Mismatches: 13, Indels: 13
0.94 0.03 0.03
Matches are distributed among these distances:
162 31 0.08
163 39 0.10
164 33 0.09
165 54 0.14
167 6 0.02
168 34 0.09
170 185 0.48
ACGTcount: A:0.16, C:0.32, G:0.34, T:0.17
Consensus pattern (170 bp):
CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
GACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGG
TGACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
Found at i:43204 original size:11 final size:11
Alignment explanation
Indices: 43188--43220 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
43178 CGATAATGTC
43188 TCGCCGGAGCA
1 TCGCCGGAGCA
*
43199 TCGCCGGAGCG
1 TCGCCGGAGCA
43210 TCGCCGGAGCA
1 TCGCCGGAGCA
43221 CCACCGGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.15, C:0.36, G:0.39, T:0.09
Consensus pattern (11 bp):
TCGCCGGAGCA
Found at i:43669 original size:33 final size:33
Alignment explanation
Indices: 43606--43789 Score: 164
Period size: 33 Copynumber: 5.6 Consensus size: 33
43596 ATGGCCCGGG
* * *
43606 TTGCCGATGGTGACCGA-GACACCCGTCTGGGT
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
43638 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
* * **
43671 CTGCCGATGGTGACCGAGG-C-TCCGCAC--CAA
1 TTGCCGATGGTGACCGAGGCCACCCGC-CTGGGA
* ** * * *
43701 TGGCCCGGGGGCCGTGACCGA-GACACCCGTCTGGGT
1 TTG-CC-GATG--GTGACCGAGGCCACCCGCCTGGGA
43737 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
43770 TTGCCGATGGTGACCGAGGC
1 TTGCCGATGGTGACCGAGGC
43790 TCACGCACAA
Statistics
Matches: 119, Mismatches: 22, Indels: 21
0.73 0.14 0.13
Matches are distributed among these distances:
30 2 0.02
31 6 0.05
32 29 0.24
33 63 0.53
34 12 0.10
35 5 0.04
36 2 0.02
ACGTcount: A:0.15, C:0.32, G:0.36, T:0.16
Consensus pattern (33 bp):
TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
Found at i:43736 original size:99 final size:101
Alignment explanation
Indices: 43588--43797 Score: 352
Period size: 99 Copynumber: 2.1 Consensus size: 101
43578 TGCGGCACTC
*
43588 CCGCACCAATGGCCCGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACC
1 CCGCACCAATGGCCCGGGTGGCC---GGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACC
43653 GAGGCCACCCGCCTGGGACTGCCGATGGTGACCGAGGCT
63 GAGGCCACCCGCCTGGGACTGCCGATGGTGACCGAGGCT
43692 CCGCACCAATGGCCCGGG-GGCC-GTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAG
1 CCGCACCAATGGCCCGGGTGGCCGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAG
*
43755 GCCACCCGCCTGGGATTGCCGATGGTGACCGAGGCT
66 GCCACCCGCCTGGGACTGCCGATGGTGACCGAGGCT
43791 CACGCAC
1 C-CGCAC
43798 AAGCGGCTGA
Statistics
Matches: 103, Mismatches: 2, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
99 77 0.75
100 5 0.05
103 3 0.03
104 18 0.17
ACGTcount: A:0.16, C:0.34, G:0.35, T:0.15
Consensus pattern (101 bp):
CCGCACCAATGGCCCGGGTGGCCGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAG
GCCACCCGCCTGGGACTGCCGATGGTGACCGAGGCT
Found at i:43899 original size:167 final size:168
Alignment explanation
Indices: 43690--44251 Score: 881
Period size: 167 Copynumber: 3.4 Consensus size: 168
43680 GTGACCGAGG
43690 CTCCGCACCAATGGCCCGGGG--GCC----GTGACCGAGACACCCGTCTGGGTTTGCCGATGGTG
1 CTCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTG
* * *
43749 ACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGGCTCACGCACA-AGCGG-CTGATGGT
66 ACCGAGGCCACCCGCCTTGGATT-CCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGGT
*
43812 GACCGAGACTCCCGCACCAACGCTCGGTTCTGTGCGGCA
130 GACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
43851 CTCCCGCACCAATGGCCCGGGGTTG-CGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CT-CCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
43915 GACCGAGGCCACCCG-CTTGGATT--GATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGGT
65 GACCGAGGCCACCCGCCTTGGATTCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGGT
* *
43977 GACCGAGGCTCCCGCACCAAAGCTCGGTACTGTGCGGCA
130 GACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
44016 CTCCGCACCAATGG-CCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTG-CGATGGTG
1 CTCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTG
*
44079 ACCGAGGCCACCCGCCTTGGATTACCGATGGTGACCGAGGCGCACGCACACGGGGGCCTGATGGT
66 ACCGAGGCCACCCGCCTTGGATT-CCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGGT
*
44144 GAACGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
130 GACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
**
44183 CT---CACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGTTTTTGCCGATGGTG
1 CTCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTG
44245 A-CGAGGC
66 ACCGAGGC
44252 ACGCACGTGG
Statistics
Matches: 373, Mismatches: 12, Indels: 28
0.90 0.03 0.07
Matches are distributed among these distances:
161 2 0.01
162 19 0.05
163 56 0.15
164 64 0.17
165 91 0.24
166 16 0.04
167 125 0.34
ACGTcount: A:0.17, C:0.32, G:0.34, T:0.17
Consensus pattern (168 bp):
CTCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTG
ACCGAGGCCACCCGCCTTGGATTCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGGTG
ACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
Found at i:44113 original size:33 final size:32
Alignment explanation
Indices: 44039--44119 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 32
44029 GCCGGGGTTG
* * * *
44039 CCGATGGTGACCGA-GACACCCGTCTGGGTTT
1 CCGATGGTGACCGAGGCCACCCGCCTGGATTA
*
44070 GCGATGGTGACCGAGGCCACCCGCCTTGGATTA
1 CCGATGGTGACCGAGGCCACCCGCC-TGGATTA
44103 CCGATGGTGACCGAGGC
1 CCGATGGTGACCGAGGC
44120 GCACGCACAC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 13 0.31
32 8 0.19
33 21 0.50
ACGTcount: A:0.17, C:0.30, G:0.35, T:0.19
Consensus pattern (32 bp):
CCGATGGTGACCGAGGCCACCCGCCTGGATTA
Done.