Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009556.1 Hibiscus syriacus cultivar Beakdansim tig00116502_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: 32128
ACGTcount: A:0.22, C:0.29, G:0.27, T:0.22
Found at i:274 original size:32 final size:32
Alignment explanation
Indices: 238--424 Score: 169
Period size: 32 Copynumber: 5.6 Consensus size: 32
228 TGGCCCGGGG
*
238 TTGCCGATGGTGACCGAGACACCCGTCTGGGT
1 TTGCCGATGGTGACCGAGACACCCGTCTGGGA
* *
270 TTGCCGATGGTGACCGAGGCCACCCG-CCGGGA
1 TTGCCGATGGTGACCGA-GACACCCGTCTGGGA
* * * * *
302 CTGCCGATGGTGACCGAGGCTCCCGCACCAATGGCCGGGG
1 TTGCCGATGGTGACCGAGACACCCG------T--CTGGGA
* *
342 TTACCGATGGTGACCGAGACACCCGTCTGGGT
1 TTGCCGATGGTGACCGAGACACCCGTCTGGGA
* *
374 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
1 TTGCCGATGGTGACCGA-GACACCCGTCTGGGA
407 TTGCCGATGGTGACCGAG
1 TTGCCGATGGTGACCGAG
425 GCTCACGCAC
Statistics
Matches: 127, Mismatches: 17, Indels: 22
0.77 0.10 0.13
Matches are distributed among these distances:
31 6 0.05
32 58 0.46
33 36 0.28
34 1 0.01
40 26 0.20
ACGTcount: A:0.16, C:0.31, G:0.36, T:0.17
Consensus pattern (32 bp):
TTGCCGATGGTGACCGAGACACCCGTCTGGGA
Found at i:340 original size:104 final size:106
Alignment explanation
Indices: 216--434 Score: 397
Period size: 104 Copynumber: 2.1 Consensus size: 106
206 CTGTGCGGCA
*
216 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
281 GACCGAGGCCACCCGCC-GGGACTGCCGATGGTGACCGAGG
66 GACCGAGGCCACCCGCCTGGGACTGCCGATGGTGACCGAGG
321 CTCCCGCACCAATGG-CCGGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
*
385 GACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGG
66 GACCGAGGCCACCCGCCTGGGACTGCCGATGGTGACCGAGG
*
426 CTCACGCAC
1 CTCCCGCAC
435 AAGCGGCCTG
Statistics
Matches: 110, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
104 65 0.59
105 45 0.41
ACGTcount: A:0.16, C:0.33, G:0.35, T:0.16
Consensus pattern (106 bp):
CTCCCGCACCAATGGCCCGGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
GACCGAGGCCACCCGCCTGGGACTGCCGATGGTGACCGAGG
Found at i:405 original size:33 final size:33
Alignment explanation
Indices: 345--426 Score: 130
Period size: 33 Copynumber: 2.5 Consensus size: 33
335 GCCGGGGTTA
* * *
345 CCGATGGTGACCGA-GACACCCGTCTGGGTTTG
1 CCGATGGTGACCGAGGCCACCCGCCTGGGATTG
377 CCGATGGTGACCGAGGCCACCCGCCTGGGATTG
1 CCGATGGTGACCGAGGCCACCCGCCTGGGATTG
410 CCGATGGTGACCGAGGC
1 CCGATGGTGACCGAGGC
427 TCACGCACAA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 14 0.30
33 32 0.70
ACGTcount: A:0.16, C:0.30, G:0.37, T:0.17
Consensus pattern (33 bp):
CCGATGGTGACCGAGGCCACCCGCCTGGGATTG
Found at i:580 original size:33 final size:33
Alignment explanation
Indices: 511--594 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
501 TGGCCCGGGG
* * *
511 TTGCCGATGGTGACCGA-GACACCCGTCTGGGT
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
*
543 TTGCCGATGGTGACCGAGGCCACCCGCCTTGGA
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
576 TTGCCGATGGTGA-CGAGGC
1 TTGCCGATGGTGACCGAGGC
595 TCACGCACAC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
32 23 0.49
33 24 0.51
ACGTcount: A:0.15, C:0.29, G:0.36, T:0.20
Consensus pattern (33 bp):
TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
Found at i:749 original size:33 final size:32
Alignment explanation
Indices: 682--760 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 32
672 GCCGGGGTTG
* * *
682 CCGATGGTGACCGA-G-ACCCGTCTGGGTTTG
1 CCGATGGTGACCGAGGCACCCGCCTGGGATTA
*
712 CCGATGGTGACCGAGGCCACCCGCCTTGGATTA
1 CCGATGGTGACCGAGG-CACCCGCCTGGGATTA
745 CCGATGGTGA-CGAGGC
1 CCGATGGTGACCGAGGC
761 GCACGCACAC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 14 0.33
31 2 0.05
32 5 0.12
33 21 0.50
ACGTcount: A:0.16, C:0.29, G:0.35, T:0.19
Consensus pattern (32 bp):
CCGATGGTGACCGAGGCACCCGCCTGGGATTA
Found at i:768 original size:166 final size:168
Alignment explanation
Indices: 321--896 Score: 982
Period size: 169 Copynumber: 3.4 Consensus size: 168
311 GTGACCGAGG
*
321 CTCCCGCACCAATGG-CCGGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGA-ACCCGTCTGGGTTTGCCGATGGT
* * *
385 GACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGGCTCACGCACA-AGCGGCCTGATGG
65 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGA-CGAGGCTCACGCACACGGGGGCCTGATGG
*
449 TGACCGAGACTCCCGCACCAACGCTCGGTTCTGTGCGGCA
129 TGACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
489 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGA-ACCCGTCTGGGTTTGCCGATGGT
554 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACGAGGCTCACGCACACGGGGGCCTGATGGT
65 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACGAGGCTCACGCACACGGGGGCCTGATGGT
* *
619 GACCGAGGCTCCCGCACCAAAGCTCGGTACTGTGCGGCA
130 GACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
658 CTCCCGCACCAATGG-CCGGGGTTGCCGATGGTGACCGAG-ACCCGTCTGGGTTTGCCGATGGTG
1 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGAACCCGTCTGGGTTTGCCGATGGTG
* *
721 ACCGAGGCCACCCGCCTTGGATTACCGATGGTGACGAGGCGCACGCACACGGGGGCCTGATGGTG
66 ACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACGAGGCTCACGCACACGGGGGCCTGATGGTG
786 A-CGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
131 ACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
**
823 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGTTTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGA-ACCCGTCTGGGTTTGCCGATGGT
888 GACCGAGGC
65 GACCGAGGC
897 ACGCACACGT
Statistics
Matches: 390, Mismatches: 13, Indels: 10
0.94 0.03 0.02
Matches are distributed among these distances:
165 49 0.13
166 112 0.29
168 84 0.22
169 145 0.37
ACGTcount: A:0.16, C:0.33, G:0.34, T:0.17
Consensus pattern (168 bp):
CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGAACCCGTCTGGGTTTGCCGATGGTG
ACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACGAGGCTCACGCACACGGGGGCCTGATGGTG
ACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
Found at i:8820 original size:11 final size:11
Alignment explanation
Indices: 8804--8836 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
8794 CGATAATGTC
8804 TCGCCGGAGCA
1 TCGCCGGAGCA
*
8815 TCGCCGGAGCG
1 TCGCCGGAGCA
8826 TCGCCGGAGCA
1 TCGCCGGAGCA
8837 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:9290 original size:33 final size:33
Alignment explanation
Indices: 9227--9417 Score: 197
Period size: 33 Copynumber: 5.6 Consensus size: 33
9217 TGGCCCGGGG
* * *
9227 TTGCCGATGGTGACCGA-GACACCCGTCTGGGT
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
9259 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
* * * *
9292 CTGCCGATGGTGACCGAGGCTCCCGCACCAATGGCCCGGGG
1 TTGCCGATGGTGACCGAGG----C-CACC---CGCCTGGGA
* * * *
9333 TTACCGATGGTGACCGA-GACACCCGTCTGGGT
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
9365 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
9398 TTGCCGATGGTGACCGAGGC
1 TTGCCGATGGTGACCGAGGC
9418 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:9344 original size:106 final size:106
Alignment explanation
Indices: 9205--9425 Score: 415
Period size: 106 Copynumber: 2.1 Consensus size: 106
9195 CTGTGCGGCA
*
9205 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
9270 GACCGAGGCCACCCGCCTGGGACTGCCGATGGTGACCGAGG
66 GACCGAGGCCACCCGCCTGGGACTGCCGATGGTGACCGAGG
9311 CTCCCGCACCAATGGCCCGGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
*
9376 GACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGG
66 GACCGAGGCCACCCGCCTGGGACTGCCGATGGTGACCGAGG
*
9417 CTCACGCAC
1 CTCCCGCAC
9426 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:9511 original size:169 final size:170
Alignment explanation
Indices: 9311--9892 Score: 1051
Period size: 169 Copynumber: 3.4 Consensus size: 170
9301 GTGACCGAGG
*
9311 CTCCCGCACCAATGGCCCGGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
* * *
9376 GACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGGCTCACGCACA-AGCGGCCTGATGG
66 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGG
*
9440 TGACCGAGACTCCCGCACCAACGCTCGGTTCTGTGCGGCA
131 TGACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
9480 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
9545 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGG
66 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGG
* *
9610 TGACCGAGGCTCCCGCACCAAAGCTCGGTACTGTGCGGCA
131 TGACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
9650 CTCCCGCACCAATGG-CCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
* *
9714 GACCGAGGCCACCCGCCTTGGATTACCGATGGTGACCGAGGCGCACGCACACGGGGGCCTGATGG
66 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGG
9779 TGACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
131 TGACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
**
9819 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGTTTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
9884 GACCGAGGC
66 GACCGAGGC
9893 ACGCACACGT
Statistics
Matches: 398, Mismatches: 13, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
169 279 0.70
170 119 0.30
ACGTcount: A:0.16, C:0.33, G:0.34, T:0.17
Consensus pattern (170 bp):
CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGG
TGACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
Found at i:9571 original size:33 final size:33
Alignment explanation
Indices: 9502--9586 Score: 127
Period size: 33 Copynumber: 2.6 Consensus size: 33
9492 TGGCCCGGGG
* * *
9502 TTGCCGATGGTGACCGA-GACACCCGTCTGGGT
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
*
9534 TTGCCGATGGTGACCGAGGCCACCCGCCTTGGA
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
9567 TTGCCGATGGTGACCGAGGC
1 TTGCCGATGGTGACCGAGGC
9587 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:9743 original size:33 final size:33
Alignment explanation
Indices: 9674--9755 Score: 112
Period size: 33 Copynumber: 2.5 Consensus size: 33
9664 GCCGGGGTTG
* * * *
9674 CCGATGGTGACCGA-GACACCCGTCTGGGTTTG
1 CCGATGGTGACCGAGGCCACCCGCCTGGGATTA
*
9706 CCGATGGTGACCGAGGCCACCCGCCTTGGATTA
1 CCGATGGTGACCGAGGCCACCCGCCTGGGATTA
9739 CCGATGGTGACCGAGGC
1 CCGATGGTGACCGAGGC
9756 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:17831 original size:11 final size:11
Alignment explanation
Indices: 17815--17847 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
17805 CGATAATGTC
17815 TCGCCGGAGCA
1 TCGCCGGAGCA
*
17826 TCGCCGGAGCG
1 TCGCCGGAGCA
17837 TCGCCGGAGCA
1 TCGCCGGAGCA
17848 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:18301 original size:33 final size:33
Alignment explanation
Indices: 18238--18428 Score: 197
Period size: 33 Copynumber: 5.6 Consensus size: 33
18228 TGGCCCGGGG
* * *
18238 TTGCCGATGGTGACCGA-GACACCCGTCTGGGT
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
18270 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
* * * *
18303 CTGCCGATGGTGACCGAGGCTCCCGCACCAATGGCCCGGGG
1 TTGCCGATGGTGACCGAGG----C-CACC---CGCCTGGGA
* * * *
18344 TTACCGATGGTGACCGA-GACACCCGTCTGGGT
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
18376 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
18409 TTGCCGATGGTGACCGAGGC
1 TTGCCGATGGTGACCGAGGC
18429 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:18355 original size:106 final size:106
Alignment explanation
Indices: 18216--18436 Score: 415
Period size: 106 Copynumber: 2.1 Consensus size: 106
18206 CTGTGCGGCA
*
18216 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
18281 GACCGAGGCCACCCGCCTGGGACTGCCGATGGTGACCGAGG
66 GACCGAGGCCACCCGCCTGGGACTGCCGATGGTGACCGAGG
18322 CTCCCGCACCAATGGCCCGGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
*
18387 GACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGG
66 GACCGAGGCCACCCGCCTGGGACTGCCGATGGTGACCGAGG
*
18428 CTCACGCAC
1 CTCCCGCAC
18437 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:18522 original size:169 final size:170
Alignment explanation
Indices: 18322--18903 Score: 1051
Period size: 169 Copynumber: 3.4 Consensus size: 170
18312 GTGACCGAGG
*
18322 CTCCCGCACCAATGGCCCGGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
* * *
18387 GACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGGCTCACGCACA-AGCGGCCTGATGG
66 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGG
*
18451 TGACCGAGACTCCCGCACCAACGCTCGGTTCTGTGCGGCA
131 TGACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
18491 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
18556 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGG
66 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGG
* *
18621 TGACCGAGGCTCCCGCACCAAAGCTCGGTACTGTGCGGCA
131 TGACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
18661 CTCCCGCACCAATGG-CCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
* *
18725 GACCGAGGCCACCCGCCTTGGATTACCGATGGTGACCGAGGCGCACGCACACGGGGGCCTGATGG
66 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGG
18790 TGACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
131 TGACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
**
18830 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGTTTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
18895 GACCGAGGC
66 GACCGAGGC
18904 ACGCACACGT
Statistics
Matches: 398, Mismatches: 13, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
169 279 0.70
170 119 0.30
ACGTcount: A:0.16, C:0.33, G:0.34, T:0.17
Consensus pattern (170 bp):
CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGG
TGACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
Found at i:18582 original size:33 final size:33
Alignment explanation
Indices: 18513--18597 Score: 127
Period size: 33 Copynumber: 2.6 Consensus size: 33
18503 TGGCCCGGGG
* * *
18513 TTGCCGATGGTGACCGA-GACACCCGTCTGGGT
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
*
18545 TTGCCGATGGTGACCGAGGCCACCCGCCTTGGA
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
18578 TTGCCGATGGTGACCGAGGC
1 TTGCCGATGGTGACCGAGGC
18598 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:18754 original size:33 final size:33
Alignment explanation
Indices: 18685--18766 Score: 112
Period size: 33 Copynumber: 2.5 Consensus size: 33
18675 GCCGGGGTTG
* * * *
18685 CCGATGGTGACCGA-GACACCCGTCTGGGTTTG
1 CCGATGGTGACCGAGGCCACCCGCCTGGGATTA
*
18717 CCGATGGTGACCGAGGCCACCCGCCTTGGATTA
1 CCGATGGTGACCGAGGCCACCCGCCTGGGATTA
18750 CCGATGGTGACCGAGGC
1 CCGATGGTGACCGAGGC
18767 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:31495 original size:11 final size:11
Alignment explanation
Indices: 31479--31511 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
31469 CGATAATGTC
31479 TCGCCGGAGCA
1 TCGCCGGAGCA
*
31490 TCGCCGGAGCG
1 TCGCCGGAGCA
31501 TCGCCGGAGCA
1 TCGCCGGAGCA
31512 CCACCGGAAC
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:31939 original size:102 final size:101
Alignment explanation
Indices: 31809--32061 Score: 287
Period size: 102 Copynumber: 2.5 Consensus size: 101
31799 CCTGGGGTTG
* * * * * * **
31809 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGCTCCCGCAC-CAAC-CCCGGTTCTGTG
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGGCACCCGC-CGCAACTCCCGATGCTGAC
*
31872 CGGCACTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGA
65 CGG--CTCCCGCACCAATGGCCC-GGGTTACCGATGGTGA
** * *
31912 CCGAGACA-CCGTCTGGGTTTGCCGATGGTGACCGAGGCCACCCGCCTGGGACTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGG-CACCCGCC-GCAACTCCCGATGCTGA
31976 CCGGCTCCCGCACCAATGGCCCGGGTTACCGATGGTGA
64 CCGGCTCCCGCACCAATGGCCCGGGTTACCGATGGTGA
*
32014 CCGAGACACCCCTCTGGGTTTTGCCGATGGTGACCGAGGCCACCCGCC
1 CCGAGACACCCGTCTGGG-TTTGCCGATGGTGACCGAGG-CACCCGCC
32062 TGGGATTGCC
Statistics
Matches: 130, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
102 51 0.39
103 39 0.30
104 31 0.24
105 9 0.07
ACGTcount: A:0.15, C:0.36, G:0.34, T:0.16
Consensus pattern (101 bp):
CCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGGCACCCGCCGCAACTCCCGATGCTGACC
GGCTCCCGCACCAATGGCCCGGGTTACCGATGGTGA
Found at i:31968 original size:33 final size:33
Alignment explanation
Indices: 31899--32086 Score: 163
Period size: 33 Copynumber: 5.6 Consensus size: 33
31889 TGGCCCGGGG
* * *
31899 TTGCCGATGGTGACCGA-GACA-CCGTCTGGGT
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
31930 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
* * * *
31963 CTGCCGATGGTGACCG-GCTCCCGCACCAATGGCCCGGG-
1 TTGCCGATGGTGACCGAG---GC-CACC---CGCCTGGGA
* * *
32001 TTACCGATGGTGACCGA-GACACCC-CTCTGGGTT
1 TTGCCGATGGTGACCGAGGCCACCCGC-CTGGG-A
32034 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
32067 TTGCCGATGGTGACCGAGGC
1 TTGCCGATGGTGACCGAGGC
32087 TCACGCACAA
Statistics
Matches: 126, Mismatches: 16, Indels: 28
0.74 0.09 0.16
Matches are distributed among these distances:
30 1 0.01
31 21 0.17
32 4 0.03
33 59 0.47
34 15 0.12
35 2 0.02
36 4 0.03
38 14 0.11
39 6 0.05
ACGTcount: A:0.15, C:0.32, G:0.35, T:0.18
Consensus pattern (33 bp):
TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
Found at i:32062 original size:104 final size:103
Alignment explanation
Indices: 31877--32082 Score: 360
Period size: 104 Copynumber: 2.0 Consensus size: 103
31867 CTGTGCGGCA
* *
31877 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCGTCTGGGTTTGCCGATGGTG
1 CTCCCGCACCAATGGCCCGGGGTTACCGATGGTGACCGAGACACCCTCTGGGTTTGCCGATGGTG
31942 ACCGAGGCCACCCGCCTGGGACTGCCGATGGTGACCGG
66 ACCGAGGCCACCCGCCTGGGACTGCCGATGGTGACCGG
31980 CTCCCGCACCAATGGCCC-GGGTTACCGATGGTGACCGAGACACCCCTCTGGGTTTTGCCGATGG
1 CTCCCGCACCAATGGCCCGGGGTTACCGATGGTGACCGAGACA-CCCTCTGGG-TTTGCCGATGG
*
32044 TGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCG
64 TGACCGAGGCCACCCGCCTGGGACTGCCGATGGTGACCG
32083 AGGCTCACGC
Statistics
Matches: 98, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
102 23 0.23
103 26 0.27
104 49 0.50
ACGTcount: A:0.15, C:0.33, G:0.34, T:0.17
Consensus pattern (103 bp):
CTCCCGCACCAATGGCCCGGGGTTACCGATGGTGACCGAGACACCCTCTGGGTTTGCCGATGGTG
ACCGAGGCCACCCGCCTGGGACTGCCGATGGTGACCGG
Done.