Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001160.1 Hibiscus syriacus cultivar Beakdansim tig00002315_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: 77460
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Found at i:2977 original size:25 final size:24
Alignment explanation
Indices: 2934--2982 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
2924 GTTTTCGCCC
2934 TTAAATTTTATAAATTTATTCTCTT
1 TTAAATTTTATAAATTTA-TCTCTT
2959 TTAAATTTTTATAAA-TTATCTCTT
1 TTAAA-TTTTATAAATTTATCTCTT
2983 AACATAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 6 0.26
25 8 0.35
26 9 0.39
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (24 bp):
TTAAATTTTATAAATTTATCTCTT
Found at i:14229 original size:24 final size:24
Alignment explanation
Indices: 14202--14256 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
14192 AGATATTAGT
14202 GATTAATTAAAAATATATATACAA
1 GATTAATTAAAAATATATATACAA
14226 GATTAATTAAAAATATATATACAA
1 GATTAATTAAAAATATATATACAA
14250 GATTAAT
1 GATTAAT
14257 ATATCCTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (24 bp):
GATTAATTAAAAATATATATACAA
Found at i:17140 original size:223 final size:225
Alignment explanation
Indices: 16748--17191 Score: 797
Period size: 223 Copynumber: 2.0 Consensus size: 225
16738 TCATGGTGGA
16748 TTTTTGTATCGGTTAGGATCATTATCGGATATATATTGTAAAATTATCTCAACCAATTTATTACT
1 TTTTTGTATCGGTTAGGATCATTATCGGA-ATATATTGTAAAATTATCTCAACCAATTTATTACT
*
16813 TTTAAAATTTTACTGGGAAAACGAAAACTTACTCAAATATTAATGACTATTATGTAGTTCACTCT
65 TTTAAAATTTTACTGGGAAAACGAAAACTTACTCAAATATTAATGACCATTATGTAGTTCACTCT
16878 TTTCAATTTTATATATTCATTGTGCTACGTCAATAATCCGTTAAAAGTATGACTATTAACCCTTA
130 TTTCAATTTTATATATTCATTGTGCTACGTCAATAATCCGTTAAAAGTATGACTATTAACCCTTA
16943 GTAACCTATCTTAATTAAATAAAAATATGGTT
195 GTAACCTATC-TAATTAAATAAAAATATGGTT
16975 TTTTTGTATCGGTTAGGATCATTATCGG-ATATATTGT-AAATTATCTCAACCAATTTATTAC-T
1 TTTTTGTATCGGTTAGGATCATTATCGGAATATATTGTAAAATTATCTCAACCAATTTATTACTT
* *
17037 TTGAAA-TTTACTGGGAAAACGAAAACTTACTCAAATATTAATGACCATTTATGTAGTTCACTTT
66 TTAAAATTTTACTGGGAAAACGAAAACTTACTCAAATATTAATGACCA-TTATGTAGTTCACTCT
*
17101 TTTCAATTTTATATATTCATTGTGCTACGTCAATAATCCGTTAAAAGTCTGACTATTAACCCTTA
130 TTTCAATTTTATATATTCATTGTGCTACGTCAATAATCCGTTAAAAGTATGACTATTAACCCTTA
17166 GTAACCTATCTAATTAAATAAAAATA
195 GTAACCTATCTAATTAAATAAAAATA
17192 AAAATGATCA
Statistics
Matches: 212, Mismatches: 4, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
222 56 0.26
223 95 0.45
224 24 0.11
225 9 0.04
227 28 0.13
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (225 bp):
TTTTTGTATCGGTTAGGATCATTATCGGAATATATTGTAAAATTATCTCAACCAATTTATTACTT
TTAAAATTTTACTGGGAAAACGAAAACTTACTCAAATATTAATGACCATTATGTAGTTCACTCTT
TTCAATTTTATATATTCATTGTGCTACGTCAATAATCCGTTAAAAGTATGACTATTAACCCTTAG
TAACCTATCTAATTAAATAAAAATATGGTT
Found at i:21036 original size:21 final size:21
Alignment explanation
Indices: 21012--21052 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
21002 TCGTGAACAG
21012 TGCTACAGTGCATCGATGCAT
1 TGCTACAGTGCATCGATGCAT
21033 TGCTACAGTGCATCGATGCA
1 TGCTACAGTGCATCGATGCA
21053 CAAAAATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (21 bp):
TGCTACAGTGCATCGATGCAT
Found at i:21678 original size:18 final size:18
Alignment explanation
Indices: 21655--21709 Score: 110
Period size: 18 Copynumber: 3.1 Consensus size: 18
21645 ACAGAATATT
21655 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
21673 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
21691 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
21709 T
1 T
21710 ATAACCCTCG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.27, C:0.33, G:0.22, T:0.18
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:23058 original size:158 final size:158
Alignment explanation
Indices: 22770--23082 Score: 590
Period size: 158 Copynumber: 2.0 Consensus size: 158
22760 TAACTTTCAG
22770 GTAATATTTTCAAATAAATCATTAAACTATTCAACTATTCTACTTTTATCACTAAATTCTGAAAT
1 GTAATATTTTCAAATAAATCATTAAACTATTCAACTATTCTACTTTTATCACTAAATTCTGAAAT
22835 TTTACAATTTAGTCACTAAATCGGTATTGAGGATATTACAGATACACCTCAAGAGTAAAATCTGG
66 TTTACAATTTAGTCACTAAATCGGTATTGAGGATATTACAGATACACCTCAAGAGTAAAATCTGG
*
22900 GAAGATGTTCAAAGTGTACCGATACATT
131 GAAGATGTTCAAAGTGTAACGATACATT
*
22928 GTAATATTTTCAAATAAATCATTGAACTATTCAACTATTCTACTTTTATCACTAAATTCTGAAAT
1 GTAATATTTTCAAATAAATCATTAAACTATTCAACTATTCTACTTTTATCACTAAATTCTGAAAT
* *
22993 TTTATAATTTAGTCACTAAATCGGTATTGAGGATGTTACAGATACACCTCAAGAGTAAAATCTGG
66 TTTACAATTTAGTCACTAAATCGGTATTGAGGATATTACAGATACACCTCAAGAGTAAAATCTGG
23058 GAAGATGTTCAAAGTGTAACGATAC
131 GAAGATGTTCAAAGTGTAACGATAC
23083 CCCATTGAAC
Statistics
Matches: 151, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
158 151 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (158 bp):
GTAATATTTTCAAATAAATCATTAAACTATTCAACTATTCTACTTTTATCACTAAATTCTGAAAT
TTTACAATTTAGTCACTAAATCGGTATTGAGGATATTACAGATACACCTCAAGAGTAAAATCTGG
GAAGATGTTCAAAGTGTAACGATACATT
Found at i:26290 original size:16 final size:16
Alignment explanation
Indices: 26266--26297 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
26256 ACTATCATCT
26266 CAAAACCCAAAATTTC
1 CAAAACCCAAAATTTC
*
26282 CAAATCCCAAAATTTC
1 CAAAACCCAAAATTTC
26298 AATCTATAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (16 bp):
CAAAACCCAAAATTTC
Found at i:27407 original size:10 final size:9
Alignment explanation
Indices: 27392--27470 Score: 77
Period size: 10 Copynumber: 8.3 Consensus size: 9
27382 TCGGTTTTCA
27392 ACCGGTTCTG
1 ACCGGTT-TG
27402 ACCGGTTTG
1 ACCGGTTTG
* *
27411 ACCGATTTCA
1 ACCGGTTT-G
*
27421 ACCGGTTCG
1 ACCGGTTTG
27430 AACCGGTTTG
1 -ACCGGTTTG
*
27440 ACCGGTCTG
1 ACCGGTTTG
27449 AACCGGTTTG
1 -ACCGGTTTG
*
27459 ACCGGTCTG
1 ACCGGTTTG
27468 ACC
1 ACC
27471 CGACCCGACC
Statistics
Matches: 57, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
9 28 0.49
10 29 0.51
ACGTcount: A:0.16, C:0.29, G:0.28, T:0.27
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:27423 original size:29 final size:29
Alignment explanation
Indices: 27387--27470 Score: 109
Period size: 29 Copynumber: 2.9 Consensus size: 29
27377 TTTAATCGGT
27387 TTTCAACCGGTTCTGACCGGTTTGACCGA
1 TTTCAACCGGTTCTGACCGGTTTGACCGA
*
27416 TTTCAACCGGTTC-GAACCGGTTTGACCGG
1 TTTCAACCGGTTCTG-ACCGGTTTGACCGA
* * *
27445 TCTGAACCGGTT-TGACCGGTCTGACC
1 TTTCAACCGGTTCTGACCGGTTTGACC
27471 CGACCCGACC
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
28 12 0.24
29 37 0.76
ACGTcount: A:0.17, C:0.29, G:0.26, T:0.29
Consensus pattern (29 bp):
TTTCAACCGGTTCTGACCGGTTTGACCGA
Found at i:27465 original size:19 final size:19
Alignment explanation
Indices: 27391--27468 Score: 88
Period size: 19 Copynumber: 4.1 Consensus size: 19
27381 ATCGGTTTTC
*
27391 AACCGGTTCTGACCGGTTTG
1 AACCGGTT-TGACCGGTCTG
* *
27411 -ACCGATTTCAACCGGT-TCG
1 AACCGGTTT-GACCGGTCT-G
27430 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
27449 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
27468 A
1 A
27469 CCCGACCCGA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
18 2 0.04
19 40 0.80
20 8 0.16
ACGTcount: A:0.18, C:0.27, G:0.28, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:27477 original size:5 final size:5
Alignment explanation
Indices: 27467--27495 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
27457 TGACCGGTCT
27467 GACCC GACCC GACCC GACCC GACCC GACC
1 GACCC GACCC GACCC GACCC GACCC GACC
27496 GTTGACCGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.59, G:0.21, T:0.00
Consensus pattern (5 bp):
GACCC
Found at i:27504 original size:7 final size:7
Alignment explanation
Indices: 27492--27522 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
27482 GACCCGACCC
27492 GACCGTT
1 GACCGTT
27499 GACCGTT
1 GACCGTT
27506 GACCGTT
1 GACCGTT
27513 GACCGTT
1 GACCGTT
27520 GAC
1 GAC
27523 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:34791 original size:17 final size:17
Alignment explanation
Indices: 34765--34824 Score: 84
Period size: 17 Copynumber: 3.3 Consensus size: 17
34755 TTGACCGGTC
34765 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
34782 TGACCTGACCGACCCGACCGT
1 TGA-C---CCGACCCGACCGT
34803 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
34820 TGACC
1 TGACC
34825 GTTGACCGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
17 21 0.54
18 1 0.03
20 1 0.03
21 16 0.41
ACGTcount: A:0.18, C:0.45, G:0.23, T:0.13
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:34824 original size:12 final size:12
Alignment explanation
Indices: 34771--34812 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
34761 GGTCTGACCC
34771 GACCCGACCGTT
1 GACCCGACCGTT
*
34783 GACCTGACC---
1 GACCCGACCGTT
34792 GACCCGACCGTT
1 GACCCGACCGTT
34804 GACCCGACC
1 GACCCGACC
34813 CGACCGTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
9 8 0.32
12 17 0.68
ACGTcount: A:0.19, C:0.45, G:0.24, T:0.12
Consensus pattern (12 bp):
GACCCGACCGTT
Found at i:36768 original size:17 final size:19
Alignment explanation
Indices: 36732--36773 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
36722 TAATTTTATA
*
36732 ATAAAATAATAGTGTTTTC
1 ATAAAATAATAGTATTTTC
36751 ATAAAAT-ATAG-ATTTTC
1 ATAAAATAATAGTATTTTC
36768 AGTAAA
1 A-TAAA
36774 GAAGTTGTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 8 0.38
19 7 0.33
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.38
Consensus pattern (19 bp):
ATAAAATAATAGTATTTTC
Found at i:39983 original size:22 final size:23
Alignment explanation
Indices: 39942--39987 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
39932 AAAGTTTTGC
*
39942 TAACATGAGCTGTGAGCATTTCT
1 TAACATGAGCTGAGAGCATTTCT
39965 TAACATGAGCT-AGAGCATTTCT
1 TAACATGAGCTGAGAGCATTTCT
39987 T
1 T
39988 GTAAACTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (23 bp):
TAACATGAGCTGAGAGCATTTCT
Found at i:56453 original size:48 final size:45
Alignment explanation
Indices: 56334--56480 Score: 195
Period size: 48 Copynumber: 3.1 Consensus size: 45
56324 ATTTATTTTC
* *
56334 ATTTTTCGAATAAATGCTTGCGAACTAGATATCATGCGGTTAGGTTT
1 ATTTTTCGAA-CAA-GCATGCGAACTAGATATCATGCGGTTAGGTTT
*
56381 ATTTTTCGAACAAGCATGCGAACTAGATATCATGCGGTTATGTTT
1 ATTTTTCGAACAAGCATGCGAACTAGATATCATGCGGTTAGGTTT
*
56426 ATTTTTTTTTGAACAAGCATGCGAACTAGATATCATGCGGTTAGGATTT
1 A---TTTTTCGAACAAGCATGCGAACTAGATATCATGCGGTTAGG-TTT
*
56475 CTTTTT
1 ATTTTT
56481 GTGGATAACA
Statistics
Matches: 90, Mismatches: 6, Indels: 9
0.86 0.06 0.09
Matches are distributed among these distances:
45 31 0.34
46 7 0.08
47 10 0.11
48 39 0.43
49 3 0.03
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (45 bp):
ATTTTTCGAACAAGCATGCGAACTAGATATCATGCGGTTAGGTTT
Found at i:60199 original size:36 final size:36
Alignment explanation
Indices: 60159--60235 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 36
60149 TTCCCGTCCT
*
60159 CAAGGAGCAGGGCCATCAACACAAAATGATAATAGA
1 CAAGGAGCAGGGCCATCAACACAAAATGACAATAGA
* *
60195 CAAGGAGCAGGGTCGTCAACACAAAATGACAATAGA
1 CAAGGAGCAGGGCCATCAACACAAAATGACAATAGA
60231 CAAGG
1 CAAGG
60236 GGCAAGGGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.45, C:0.19, G:0.25, T:0.10
Consensus pattern (36 bp):
CAAGGAGCAGGGCCATCAACACAAAATGACAATAGA
Found at i:65060 original size:55 final size:51
Alignment explanation
Indices: 64815--65118 Score: 509
Period size: 51 Copynumber: 5.9 Consensus size: 51
64805 AAACTCGTTT
*
64815 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGTGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
64866 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
64917 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
*
64968 GTTGAAGATTGAGTCCTATACTCTTTGAAGGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
* *
65019 GTTGAAGATTGTTTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTT
1 GTTGAAGA----TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
* * *
65074 ATTGAAGATCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGAC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGAC
65119 TCGTTTTATG
Statistics
Matches: 241, Mismatches: 8, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
51 194 0.80
55 47 0.20
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (51 bp):
GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
Found at i:65094 original size:106 final size:106
Alignment explanation
Indices: 64823--65286 Score: 528
Period size: 106 Copynumber: 4.4 Consensus size: 106
64813 TTGTTGAAGA
* * * *
64823 TTGAGTCCTATACTCTCTGAAGGAATAGGGAGTGGACAAGTTCGTTGAAGATTGAGTCCTATACT
1 TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTCATTGAAGATCGAGTCCTATACT
64888 CTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGA----
66 CTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATTGT
* * *
64925 TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATTGAGTCCTATACT
1 TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTCATTGAAGATCGAGTCCTATACT
*
64990 CTTTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATTGT
66 CTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATTGT
* *
65031 TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTATTGAAGATCGAGTCTTATACT
1 TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTCATTGAAGATCGAGTCCTATACT
** *
65096 CTCTGAAGGAATAGGGAGCGGACTCGTT-TTATGAAGATTGT
66 CTCTGAAGGAATAGGGAGCGGACAAGTTCGT-TGAAGATTGT
* * * ** * *
65137 TCGAGTTCTATACTCCCTGAACGG-ATAGGGAGCAAACCCGTTC-TATGAAGATTGTTCGAGTTC
1 TTGAGTCCTATACTCTCTGAA-GGAATAGGGAGCGGACACGTTCAT-TGAAGA----TCGAGTCC
* * ** **
65200 TATACTCCCTGAATGAATAGGGAGCGGACCCGTTTATTGAAGATTGT
60 TATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATTGT
* ** * * *
65247 TCGAGTTTTATACTCCCTGAATGAATAGGGAGCAGACACG
1 TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACG
65287 CCATTTGAAG
Statistics
Matches: 321, Mismatches: 28, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
102 100 0.31
105 2 0.01
106 134 0.42
107 2 0.01
109 1 0.00
110 81 0.25
111 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (106 bp):
TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTCATTGAAGATCGAGTCCTATACT
CTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATTGT
Found at i:65124 original size:51 final size:51
Alignment explanation
Indices: 64810--65286 Score: 492
Period size: 51 Copynumber: 9.0 Consensus size: 51
64800 GAAGCAAACT
*
64810 CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGTGGACA
1 CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* *
64861 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
1 CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* *
64912 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
1 CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* * *
64963 AGTTCGTTGAAGATTGAGTCCTATACTCTTTGAAGGAATAGGGAGCGGACA
1 CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* *
65014 AGTTCGTTGAAGATTGTTTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
1 CGTTTGTTGAAGA----TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* * * *
65069 CGTTTATTGAAGATCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACT
1 CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* * ** *
65120 CGTTT-TATGAAGATTGTTCGAGTTCTATACTCCCTGAACGG-ATAGGGAGCAAACC
1 CGTTTGT-TGAAGA---TT-GAGTCCTATACTCTCTGAA-GGAATAGGGAGCGGACA
* * * * *
65175 CGTTCT-ATGAAGATTGTTCGAGTTCTATACTCCCTGAATGAATAGGGAGCGGACC
1 CGTT-TGTTGAAGA---TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* ** * * *
65230 CGTTTATTGAAGATTGTTCGAGTTTTATACTCCCTGAATGAATAGGGAGCAGACA
1 CGTTTGTTGAAGA---TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
65285 CG
1 CG
65287 CCATTTGAAG
Statistics
Matches: 387, Mismatches: 26, Indels: 22
0.89 0.06 0.05
Matches are distributed among these distances:
50 1 0.00
51 208 0.54
54 3 0.01
55 172 0.44
56 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (51 bp):
CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
Done.