Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006975.1 Hibiscus syriacus cultivar Beakdansim tig00017961_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: 73342
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:5188 original size:30 final size:30
Alignment explanation
Indices: 5154--5243 Score: 171
Period size: 30 Copynumber: 3.0 Consensus size: 30
5144 TGACAAAATA
*
5154 TTTTTCCTTCGTCAACTTGAACCTCCACTG
1 TTTTTCCTTTGTCAACTTGAACCTCCACTG
5184 TTTTTCCTTTGTCAACTTGAACCTCCACTG
1 TTTTTCCTTTGTCAACTTGAACCTCCACTG
5214 TTTTTCCTTTGTCAACTTGAACCTCCACTG
1 TTTTTCCTTTGTCAACTTGAACCTCCACTG
5244 ACTTTGTCCA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.17, C:0.31, G:0.10, T:0.42
Consensus pattern (30 bp):
TTTTTCCTTTGTCAACTTGAACCTCCACTG
Found at i:14336 original size:24 final size:24
Alignment explanation
Indices: 14309--14420 Score: 129
Period size: 24 Copynumber: 4.7 Consensus size: 24
14299 ATTTGAATTA
* * *
14309 TGATATGATATTTGACATAGATTC
1 TGATCTGATACTTGACATGGATTC
14333 TGATCTGATA-TCTGACATGGATTC
1 TGATCTGATACT-TGACATGGATTC
* *
14357 TGATCTGATACTTGACTTGGATTA
1 TGATCTGATACTTGACATGGATTC
*
14381 TGATCTGATACTTGATC-TGGATTT
1 TGATCTGATACTTGA-CATGGATTC
*
14405 TGATATGATACTTGAC
1 TGATCTGATACTTGAC
14421 CTGATTTATG
Statistics
Matches: 79, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
23 2 0.03
24 75 0.95
25 2 0.03
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (24 bp):
TGATCTGATACTTGACATGGATTC
Found at i:14437 original size:24 final size:25
Alignment explanation
Indices: 14306--14430 Score: 100
Period size: 24 Copynumber: 5.2 Consensus size: 25
14296 TAGATTTGAA
* * *
14306 TTATGATATGATATTTGACATAGA-
1 TTATGATATGATACTTGACCTGGAT
* * *
14330 TTCTGATCTGATA-TCTGACATGGA-
1 TTATGATATGATACT-TGACCTGGAT
* * *
14354 TTCTGATCTGATACTTGACTTGGA-
1 TTATGATATGATACTTGACCTGGAT
* *
14378 TTATGATCTGATACTTGATCTGGAT
1 TTATGATATGATACTTGACCTGGAT
14403 TT-TGATATGATACTTGACCT-GAT
1 TTATGATATGATACTTGACCTGGAT
14426 TTATG
1 TTATG
14431 TTTTGATTTT
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
23 6 0.07
24 79 0.90
25 3 0.03
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.42
Consensus pattern (25 bp):
TTATGATATGATACTTGACCTGGAT
Found at i:22768 original size:18 final size:18
Alignment explanation
Indices: 22719--22772 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
22709 CTATCATTTT
* *
22719 AAAATTATTATTATTTTTA
1 AAAAATATTA-TATTATTA
*
22738 AAATAAAACTTATATTATTA
1 AAA-AATA-TTATATTATTA
22758 AAAAATATTATATTA
1 AAAAATATTATATTA
22773 ATTATGAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
18 8 0.28
19 6 0.21
20 12 0.41
21 3 0.10
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
AAAAATATTATATTATTA
Found at i:27336 original size:21 final size:21
Alignment explanation
Indices: 27294--27336 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
27284 TTTTCGGGCT
* * *
27294 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
27315 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
27336 A
1 A
27337 CGAATATGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:27396 original size:66 final size:67
Alignment explanation
Indices: 27316--27466 Score: 234
Period size: 66 Copynumber: 2.3 Consensus size: 67
27306 ACCCATTCAA
* *
27316 GGGGAACCGATACCCCCTCAACGAATATG-ATTTCCAGAATGCTAGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAACCGATA-CCCCA
27380 -GG
65 GGG
*
27382 GGGGAACCGATACCCCCTCAACGGATATGAAATTCCAGAATGCTAGAGGGGAACCGATACCCCAG
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAACCGATACCCCA-
27447 GGG
65 GGG
*
27450 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
27467 ATGAGAAGAA
Statistics
Matches: 78, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
66 33 0.42
67 27 0.35
68 18 0.23
ACGTcount: A:0.29, C:0.28, G:0.28, T:0.15
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAACCGATACCCCAG
GG
Found at i:28136 original size:23 final size:23
Alignment explanation
Indices: 28070--28128 Score: 102
Period size: 22 Copynumber: 2.6 Consensus size: 23
28060 ATCATTATAT
*
28070 GGCACTACGGTGCAATTCTAC-G
1 GGCACTTCGGTGCAATTCTACGG
28092 GGCACTTCGGTGCAATTCTACGG
1 GGCACTTCGGTGCAATTCTACGG
28115 GGCACTTCGGTGCA
1 GGCACTTCGGTGCA
28129 TTTATACGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
22 20 0.57
23 15 0.43
ACGTcount: A:0.19, C:0.27, G:0.31, T:0.24
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGG
Found at i:30936 original size:21 final size:21
Alignment explanation
Indices: 30910--30954 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
30900 GATTTCTGGG
* *
30910 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
30931 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
30952 CAA
1 CAA
30955 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:31594 original size:23 final size:24
Alignment explanation
Indices: 31551--31597 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
31541 ATATGGCATG
*
31551 TGATATGAAAGTGTATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
31575 TGATATGAAA-TATATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
31598 ACAGGTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (24 bp):
TGATATGAAAGTATATATGTGAAA
Found at i:31813 original size:31 final size:31
Alignment explanation
Indices: 31775--31930 Score: 224
Period size: 31 Copynumber: 5.0 Consensus size: 31
31765 AGGGTCGAGG
*
31775 GTTTACCTATGTTCTTCTGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
31806 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
31837 GATTACCTATGTTCTTCGGAACATACGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
31868 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
31899 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
31930 G
1 G
31931 GTCCTTCGGG
Statistics
Matches: 112, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
31 111 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:31929 original size:62 final size:62
Alignment explanation
Indices: 31777--31930 Score: 249
Period size: 62 Copynumber: 2.5 Consensus size: 62
31767 GGTCGAGGGT
*
31777 TTACCTATGTTCTTCTGG-ACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTC-GGAACATATGGACTGTTTACCTATGTCCTTCGGGACATATGGACTGA
*
31839 TTACCTATGTTCTTCGGAACATACGGACTGTTTACCTATGTCCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGAACATATGGACTGTTTACCTATGTCCTTCGGGACATATGGACTGA
*
31901 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGAA-CATATGGACTG
31931 GTCCTTCGGG
Statistics
Matches: 86, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
61 2 0.02
62 83 0.97
63 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (62 bp):
TTACCTATGTTCTTCGGAACATATGGACTGTTTACCTATGTCCTTCGGGACATATGGACTGA
Found at i:32667 original size:31 final size:31
Alignment explanation
Indices: 32629--32690 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
32619 TCGTATCCGG
32629 GTCGGATACGAGTTGGGGGTGTTACATTTAA
1 GTCGGATACGAGTTGGGGGTGTTACATTTAA
32660 GTCGGATACGAGTTGGGGGTGTTACATTTAA
1 GTCGGATACGAGTTGGGGGTGTTACATTTAA
32691 TGGTATCAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.10, G:0.35, T:0.32
Consensus pattern (31 bp):
GTCGGATACGAGTTGGGGGTGTTACATTTAA
Found at i:34812 original size:21 final size:21
Alignment explanation
Indices: 34786--34830 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
34776 GATTTCTGGG
* *
34786 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
34807 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
34828 CAA
1 CAA
34831 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:35472 original size:23 final size:24
Alignment explanation
Indices: 35429--35475 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
35419 ATATGGCATG
*
35429 TGATATGAAAGTGTATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
35453 TGATATGAAA-TATATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
35476 ACAGGTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (24 bp):
TGATATGAAAGTATATATGTGAAA
Found at i:35691 original size:31 final size:31
Alignment explanation
Indices: 35653--35808 Score: 224
Period size: 31 Copynumber: 5.0 Consensus size: 31
35643 AGGGTCGAGG
*
35653 GTTTACCTATGTTCTTCTGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
35684 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
35715 GATTACCTATGTTCTTCGGAACATACGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
35746 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
35777 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
35808 G
1 G
35809 GTCCTTCGGG
Statistics
Matches: 112, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
31 111 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:35807 original size:62 final size:62
Alignment explanation
Indices: 35655--35808 Score: 249
Period size: 62 Copynumber: 2.5 Consensus size: 62
35645 GGTCGAGGGT
*
35655 TTACCTATGTTCTTCTGG-ACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTC-GGAACATATGGACTGTTTACCTATGTCCTTCGGGACATATGGACTGA
*
35717 TTACCTATGTTCTTCGGAACATACGGACTGTTTACCTATGTCCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGAACATATGGACTGTTTACCTATGTCCTTCGGGACATATGGACTGA
*
35779 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGAA-CATATGGACTG
35809 GTCCTTCGGG
Statistics
Matches: 86, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
61 2 0.02
62 83 0.97
63 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (62 bp):
TTACCTATGTTCTTCGGAACATATGGACTGTTTACCTATGTCCTTCGGGACATATGGACTGA
Found at i:40490 original size:21 final size:21
Alignment explanation
Indices: 40448--40490 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
40438 TTTTCGGGCT
* * *
40448 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
40469 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
40490 A
1 A
40491 CGAATATGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:40550 original size:66 final size:67
Alignment explanation
Indices: 40470--40618 Score: 232
Period size: 66 Copynumber: 2.3 Consensus size: 67
40460 ACCCATTCAA
* *
40470 GGGGAACCGATACCCCCTCAACGAATATG-ATTTCCAGAATGCTAGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAACCGATA-CCCCA
40534 -GG
65 GGG
*
40536 GGGGAACCGATA-CCCCTCAACGGATATGAAATTCCAGAATGCTAGAGGGGAACCGATACCCCAG
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAACCGATACCCCAG
40600 GG
66 GG
*
40602 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
40619 ATGAGAAGAA
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
65 20 0.26
66 52 0.68
67 4 0.05
ACGTcount: A:0.30, C:0.28, G:0.28, T:0.15
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAACCGATACCCCAG
GG
Found at i:41288 original size:23 final size:23
Alignment explanation
Indices: 41222--41280 Score: 102
Period size: 22 Copynumber: 2.6 Consensus size: 23
41212 ATCATTATAT
*
41222 GGCACTACGGTGCAATTCTAC-G
1 GGCACTTCGGTGCAATTCTACGG
41244 GGCACTTCGGTGCAATTCTACGG
1 GGCACTTCGGTGCAATTCTACGG
41267 GGCACTTCGGTGCA
1 GGCACTTCGGTGCA
41281 TTTATACGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
22 20 0.57
23 15 0.43
ACGTcount: A:0.19, C:0.27, G:0.31, T:0.24
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGG
Found at i:43573 original size:23 final size:24
Alignment explanation
Indices: 43547--43591 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
43537 AGCATACCCA
*
43547 AAACCATGAAT-AGCAGTGTTACC
1 AAACCATGAATCAACAGTGTTACC
43570 AAACCATGAATCAACAGTGTTA
1 AAACCATGAATCAACAGTGTTA
43592 TAAAAAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (24 bp):
AAACCATGAATCAACAGTGTTACC
Found at i:44809 original size:16 final size:19
Alignment explanation
Indices: 44790--44825 Score: 51
Period size: 16 Copynumber: 2.1 Consensus size: 19
44780 TTTCTAATTT
44790 TTTAAA-ATT-TA-AATAG
1 TTTAAATATTATATAATAG
44806 TTTAAATATTATATAATAG
1 TTTAAATATTATATAATAG
44825 T
1 T
44826 ATATTAGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
16 6 0.35
17 3 0.18
18 2 0.12
19 6 0.35
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (19 bp):
TTTAAATATTATATAATAG
Found at i:49889 original size:18 final size:17
Alignment explanation
Indices: 49868--49906 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
49858 AGGTAATTGA
49868 AATCTGTGAAGGAATTAG
1 AATCTGT-AAGGAATTAG
* *
49886 AATCTGTCAGGAATTGG
1 AATCTGTAAGGAATTAG
49903 AATC
1 AATC
49907 CAATTCCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.28
Consensus pattern (17 bp):
AATCTGTAAGGAATTAG
Found at i:50765 original size:259 final size:256
Alignment explanation
Indices: 50252--50980 Score: 1016
Period size: 259 Copynumber: 2.9 Consensus size: 256
50242 ATAAAGTTTT
50252 ACCCGACCCGAATATATGAATTAGAAACCCTAC-C-CGACCCGAAATAAT-AAAAAAATATTTTT
1 ACCCGACCCGAATATATGAATTAGAAACCC-ACACTCGACCCGAAATAATAAAAAAAATATTTTT
* * * * *
50314 ATTTAATAAAAACAATAACTTAATTGGAAAAAATTATTTATAGAGGGGTATTATTATAATTATTC
65 ATTCAATAAAAACAATGACTTAATT-G-AAAAATTATATATAGAGGGGTATTATTGTAATTATTA
* *
50379 CTAAATATATAAGGTAGAATTATATATTTTTCGGGTC--G--GGTATTTTTCACCCTAAACCCG-
128 CTAAATATATAAGATAAAATTATATATTTTTCGGGTCGGGTCGGTATTTTTCACCCTAAACCCGA
* *
50439 ACCCGACCCGAATATCACACTTAAAAAAAACCGACCTGACCCGACCAAAATAAAGTTTCATCCG
193 ACCCGACCCGAATATCACACTTTAAAAAAACCGACCTGACCCGACCAAAATAAAGTTTCACCCG
*
50503 ACCCGACCCGAATATATGAATTAGAAACCCGACCCGACTCGACCCAAAATAATAAAAAAAATATT
1 ACCCGACCCGAATATATGAATTAGAAACCC-A--C-ACTCGACCCGAAATAATAAAAAAAATATT
50568 TTTATTCAATAAAAACAATGAC-T-ATTGAAAAATTATATATAGAGGGGTATTATTGTAATTATT
62 TTTATTCAATAAAAACAATGACTTAATTGAAAAATTATATATAGAGGGGTATTATTGTAATTATT
*
50631 TCTAAATATATAAGATAAAATTATATATTTATTCGGGTCGGGTCAGGTATTTTTCACCCTAAACC
127 ACTAAATATATAAGATAAAATTATATATTT-TTCGGGTCGGGTC-GGTATTTTTCACCCTAAACC
*
50696 CGAACCCGACCCAAATATCACACTTTAAAAAAACCGACC-GACCCGACCAAAATAAAGTTTCACC
190 CGAACCCGACCCGAATATCACACTTTAAAAAAACCGACCTGACCCGACCAAAATAAAGTTTCACC
50760 CG
255 CG
*
50762 ACCCGACCCGAATATATGAATTAG--A---A-ACTCGACCCGAAATAATAAAAAAATTATTTTTA
1 ACCCGACCCGAATATATGAATTAGAAACCCACACTCGACCCGAAATAATAAAAAAAATATTTTTA
** *
50821 TTCAATAAAAACAATGACTTAATCAAAAAAATTATATATAGAGGGATATTATTGTAATTATTACT
66 TTCAATAAAAACAATGACTTAAT-TGAAAAATTATATATAGAGGGGTATTATTGTAATTATTACT
* * * *
50886 AAATATATAAGCTAAAATTATATATTTTT----TTGGGTCGGGTATTTTTAACCCTAAACCTGAA
130 AAATATATAAGATAAAATTATATATTTTTCGGGTCGGGTC-GGTATTTTTCACCCTAAACCCGAA
*
50947 CCCGACTCGAATATCACAC-TTAAAAAAACCGACC
194 CCCGACCCGAATATCACACTTTAAAAAAACCGACC
50981 AGGCCCAAAC
Statistics
Matches: 437, Mismatches: 25, Indels: 37
0.88 0.05 0.07
Matches are distributed among these distances:
246 15 0.03
247 45 0.10
249 49 0.11
250 1 0.00
251 35 0.08
252 63 0.14
253 63 0.14
254 9 0.02
255 4 0.01
256 15 0.03
257 32 0.07
259 72 0.16
260 34 0.08
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (256 bp):
ACCCGACCCGAATATATGAATTAGAAACCCACACTCGACCCGAAATAATAAAAAAAATATTTTTA
TTCAATAAAAACAATGACTTAATTGAAAAATTATATATAGAGGGGTATTATTGTAATTATTACTA
AATATATAAGATAAAATTATATATTTTTCGGGTCGGGTCGGTATTTTTCACCCTAAACCCGAACC
CGACCCGAATATCACACTTTAAAAAAACCGACCTGACCCGACCAAAATAAAGTTTCACCCG
Found at i:56056 original size:20 final size:20
Alignment explanation
Indices: 56031--56072 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
56021 TCCTATTCAT
56031 TGGTAATCTTTTATTCCCAC
1 TGGTAATCTTTTATTCCCAC
56051 TGGTAATCTTTTATTCCCAC
1 TGGTAATCTTTTATTCCCAC
56071 TG
1 TG
56073 AAATCTTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.24, G:0.12, T:0.45
Consensus pattern (20 bp):
TGGTAATCTTTTATTCCCAC
Found at i:56079 original size:19 final size:20
Alignment explanation
Indices: 56035--56079 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
56025 ATTCATTGGT
*
56035 AATCTTTTATTCCCACTGGT
1 AATCTTTTATTCCCACTGGA
56055 AATCTTTTATTCCCACT-GA
1 AATCTTTTATTCCCACTGGA
56074 AATCTT
1 AATCTT
56080 ACATTCCGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.24, C:0.24, G:0.07, T:0.44
Consensus pattern (20 bp):
AATCTTTTATTCCCACTGGA
Found at i:56085 original size:19 final size:20
Alignment explanation
Indices: 56043--56086 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
56033 GTAATCTTTT
* **
56043 ATTCCCACTGGTAATCTTTT
1 ATTCCCACTGGAAATCTTAC
56063 ATTCCCACT-GAAATCTTAC
1 ATTCCCACTGGAAATCTTAC
56082 ATTCC
1 ATTCC
56087 GTGAACCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.25, C:0.30, G:0.07, T:0.39
Consensus pattern (20 bp):
ATTCCCACTGGAAATCTTAC
Done.