Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007901.1 Hibiscus syriacus cultivar Beakdansim tig00110292_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: 70604
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:28 original size:13 final size:13
Alignment explanation
Indices: 10--55 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
1 TCAACGGGT
*
10 CGGGTCGGGTCAA
1 CGGGTCGAGTCAA
23 CGGGTCGAGTCAA
1 CGGGTCGAGTCAA
*
36 CGGGTCGAGTAAA
1 CGGGTCGAGTCAA
49 CGGGTCG
1 CGGGTCG
56 GGTCGGGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.20, C:0.22, G:0.43, T:0.15
Consensus pattern (13 bp):
CGGGTCGAGTCAA
Found at i:2935 original size:58 final size:58
Alignment explanation
Indices: 2814--2953 Score: 160
Period size: 58 Copynumber: 2.4 Consensus size: 58
2804 GTTATTAAAT
* * * * **
2814 TTTTGAATATTTTAATTTTATCTCCAAACTATCACTCTCATTCTAAATTAGTCCTTAAC
1 TTTTGAATATTCTAATTTCATC-CCAAACTATAACTCTCATTCTAAATTAATCCCAAAC
* *
2873 -TTTGAAAATTCTAATTTCATCCCTAAACTATAACTCTCTTTCT-AATTAATCCCAAAC
1 TTTTGAATATTCTAATTTCATCCC-AAACTATAACTCTCATTCTAAATTAATCCCAAAC
2930 TTTTGAATATTAC-AATTTCATCCC
1 TTTTGAATATT-CTAATTTCATCCC
2954 CAAATTCATC
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
57 13 0.19
58 55 0.80
59 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.43
Consensus pattern (58 bp):
TTTTGAATATTCTAATTTCATCCCAAACTATAACTCTCATTCTAAATTAATCCCAAAC
Found at i:3256 original size:59 final size:60
Alignment explanation
Indices: 3119--3256 Score: 149
Period size: 59 Copynumber: 2.3 Consensus size: 60
3109 GTTTGGATAC
* * *
3119 CAATTTAGAATGAAGGTCATGATTTAGGGATGAAATTGAATATTCAAAACTTTTAGGACT
1 CAATTTAGAATAAAGGTCATGATTTAGGGATGAAATTCAATATTCAAAACGTTTAGGACT
* * * **
3179 -ATTTTAGAATGATA-GTCATGATTTAGGGAT-AAATTTCAATATTTAAAA-GTTTAGGGGT
1 CAATTTAGAAT-AAAGGTCATGATTTAGGGATGAAA-TTCAATATTCAAAACGTTTAGGACT
*
3237 CAATTTAAAATAAAGGTCAT
1 CAATTTAGAATAAAGGTCAT
3257 ACTTTAAAGA
Statistics
Matches: 63, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
58 12 0.19
59 50 0.79
60 1 0.02
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.36
Consensus pattern (60 bp):
CAATTTAGAATAAAGGTCATGATTTAGGGATGAAATTCAATATTCAAAACGTTTAGGACT
Found at i:17133 original size:2 final size:2
Alignment explanation
Indices: 17126--17180 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
17116 ATCTAACTCG
17126 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17168 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
17181 GTTATATTAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22240 original size:17 final size:18
Alignment explanation
Indices: 22207--22240 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22197 GTTGATTCAT
*
22207 ACTGTTTAAACAACTTTA
1 ACTGCTTAAACAACTTTA
22225 ACTGCTTAAA-AACTTT
1 ACTGCTTAAACAACTTT
22241 GAATGTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.38
Consensus pattern (18 bp):
ACTGCTTAAACAACTTTA
Found at i:27123 original size:20 final size:20
Alignment explanation
Indices: 27077--27126 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
27067 CCACCGAAAA
27077 TAAAAAAAAGGGATACAAAT
1 TAAAAAAAAGGGATACAAAT
** **
27097 TTTAAAAAAGGGATACGGAT
1 TAAAAAAAAGGGATACAAAT
27117 TAAAAAAAAG
1 TAAAAAAAAG
27127 ATAAAGGTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.60, C:0.04, G:0.18, T:0.18
Consensus pattern (20 bp):
TAAAAAAAAGGGATACAAAT
Found at i:35737 original size:19 final size:20
Alignment explanation
Indices: 35693--35741 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
35683 CCACCGAAAA
35693 TAAAAAAAGGGATACAAATT
1 TAAAAAAAGGGATACAAATT
* **
35713 TTAAAAAAGGGATACGGATT
1 TAAAAAAAGGGATACAAATT
*
35733 AAAAAAAAG
1 TAAAAAAAG
35742 ATAAAGGTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.59, C:0.04, G:0.18, T:0.18
Consensus pattern (20 bp):
TAAAAAAAGGGATACAAATT
Found at i:36074 original size:18 final size:19
Alignment explanation
Indices: 36053--36094 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
36043 AAATATACAT
36053 ATAAATAAAATAA-AACAA
1 ATAAATAAAATAATAACAA
*
36071 ATAAATGAAATAATAACAA
1 ATAAATAAAATAATAACAA
*
36090 TTAAA
1 ATAAA
36095 ACTTAAATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.21
Consensus pattern (19 bp):
ATAAATAAAATAATAACAA
Found at i:41411 original size:22 final size:23
Alignment explanation
Indices: 41373--41418 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
41363 AAGAAATAAT
41373 ATATTATTTATTATAAAA-ATTA
1 ATATTATTTATTATAAAATATTA
*
41395 ATATTA-TTATTTTTAAAATATTA
1 ATATTATTTA-TTATAAAATATTA
41418 A
1 A
41419 AATAATTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 3 0.14
22 13 0.62
23 5 0.24
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATATTATTTATTATAAAATATTA
Found at i:41654 original size:19 final size:19
Alignment explanation
Indices: 41586--41666 Score: 64
Period size: 19 Copynumber: 4.3 Consensus size: 19
41576 TAAAATATCT
41586 TTATTAA-AATATTATTAGA
1 TTATTAATAATATTATTA-A
41605 TTATTATATTAATATTA--AA
1 TTATTA-A-TAATATTATTAA
* *
41624 TATATAAATAATATTATTCA
1 T-TATTAATAATATTATTAA
*
41644 TTATTAATAAT-TTAATAA
1 TTATTAATAATATTATTAA
41662 -TATTA
1 TTATTA
41667 TTTCTATGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
17 5 0.10
18 13 0.25
19 18 0.35
20 8 0.16
22 7 0.14
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (19 bp):
TTATTAATAATATTATTAA
Found at i:41768 original size:23 final size:21
Alignment explanation
Indices: 41729--41823 Score: 75
Period size: 23 Copynumber: 4.1 Consensus size: 21
41719 TATTAAAATA
41729 AAAATATAATATCTTATATTATT
1 AAAATATAATA--TTATATTATT
* *
41752 ATAATATAATTGATTATAATATT
1 AAAATATAA-T-ATTATATTATT
41775 AAAAAATATAATATTATATTATT
1 --AAAATATAATATTATATTATT
*
41798 AGAAATATTAATAAATATATT-TT
1 A-AAATA-TAAT-ATTATATTATT
41821 AAA
1 AAA
41824 TATTTTAATA
Statistics
Matches: 60, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
21 1 0.02
22 7 0.12
23 34 0.57
24 9 0.15
25 9 0.15
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (21 bp):
AAAATATAATATTATATTATT
Found at i:55011 original size:58 final size:60
Alignment explanation
Indices: 54901--55024 Score: 139
Period size: 58 Copynumber: 2.1 Consensus size: 60
54891 TAGAATGAAG
* ** *
54901 GTCATAGTTTGGGGATGGAATTAAAATATTCAAAAATTTGATGACTAATTTAAAAT-G-A
1 GTCATAGCTTGGGGATGGAATTAAAATATTCAAAAATTAAATGACCAATTTAAAATAGAA
* * *
54959 GTCATAGCTTGGGGAT-GATATTAAAATGTTTACAAAATTAAAT-ACCATTTTAAAATAGAA
1 GTCATAGCTTGGGGATGGA-ATTAAAATATTCA-AAAATTAAATGACCAATTTAAAATAGAA
55019 GTCATA
1 GTCATA
55025 ATTTGAGACT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
57 2 0.04
58 37 0.67
59 9 0.16
60 7 0.13
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.34
Consensus pattern (60 bp):
GTCATAGCTTGGGGATGGAATTAAAATATTCAAAAATTAAATGACCAATTTAAAATAGAA
Found at i:60733 original size:3 final size:3
Alignment explanation
Indices: 60725--60881 Score: 225
Period size: 3 Copynumber: 53.7 Consensus size: 3
60715 TTAATATATT
*
60725 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
60773 TAA TAA -GA TAA TAGA TAA TAG TAA TAA TAA TAA T-A TAA TAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
60817 TAA TAA TAA TAA T-A TGA TAA T-A TAA TAA TAA TAA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
60862 TAA TAT TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
60882 TGGATAAAAA
Statistics
Matches: 139, Mismatches: 9, Indels: 12
0.87 0.06 0.08
Matches are distributed among these distances:
2 9 0.06
3 127 0.91
4 3 0.02
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:61401 original size:113 final size:113
Alignment explanation
Indices: 61200--61825 Score: 1106
Period size: 113 Copynumber: 5.6 Consensus size: 113
61190 TTATGCCAAA
* * * *
61200 GTTGAACAAGTTCTTCTTATTATGAAACTTCTTCTTTCTTTTTCAGATGAGTTCTTCTCATTATG
1 GTTGAACAAATTCTTCTCATTATG-AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
* * * *
61265 AAC-TTCTCCGGAAAAGATAATCCATCAATTGATGGATTCAGGTAAAAG
65 AACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGTAAAAG
61313 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
61378 ACTTTCTCTGGAAAAGATGATCCATCAAGTGATG-ATTCAGGTAAAAG
66 ACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGTAAAAG
*
61425 GTTGAACAAATTC-T-TCATTA-GAACTTCTTCTTCCTTCTTCAGATGA-TTCTCCTCATTATGA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
61486 ACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGTAAAAG
66 ACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGTAAAAG
61534 GTTGAACAAATTCTTCTCATTATGAAC-T-TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
61597 ACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGTAAAAG
66 ACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGTAAAAG
61645 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
61710 ACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGTAAAAG
66 ACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGTAAAAG
61758 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
61823 ACT
66 ACT
61826 CTACCTGGCA
Statistics
Matches: 496, Mismatches: 9, Indels: 16
0.95 0.02 0.03
Matches are distributed among these distances:
108 48 0.10
109 52 0.10
110 26 0.05
111 97 0.20
112 72 0.15
113 201 0.41
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.38
Consensus pattern (113 bp):
GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
ACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGTAAAAG
Found at i:61642 original size:332 final size:339
Alignment explanation
Indices: 61200--61825 Score: 1106
Period size: 332 Copynumber: 1.9 Consensus size: 339
61190 TTATGCCAAA
* * * *
61200 GTTGAACAAGTTCTTCTTATTATGAAACTTCTTCTTTCTTTTTCAGATGAGTTCTTCTCATTATG
1 GTTGAACAAATTCTTCTCATTATGAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
* *
61265 AACTTCTCCGGAAAAGATAATCCATCAATTGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCT
66 AACTTCTCCGGAAAAGATAATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCT
61330 CATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGA
131 CATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGA
61395 TGATCCATCAAGTGATG-ATTCAGGTAAAAGGTTGAACAAATTC-T-TCATTA-GAACTTCTTCT
196 TGATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
61456 TCCTTCTTCAGATGA-TTCTCCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATG
261 TCCTTCTTCAGATGAGTTCTCCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATG
61520 AATTCAGGTAAAAG
326 AATTCAGGTAAAAG
61534 GTTGAACAAATTCTTCTCATTATG-AAC-T-TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
1 GTTGAACAAATTCTTCTCATTATGAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
* *
61596 AACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTC
66 AAC-TTCTCCGGAAAAGATAATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTC
61661 TCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAG
130 TCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAG
61726 ATGATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTC
195 ATGATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTC
*
61791 TTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
260 TTCCTTCTTCAGATGAGTTCTCCTCATTATGAACT
61826 CTACCTGGCA
Statistics
Matches: 277, Mismatches: 9, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
331 35 0.13
332 141 0.51
333 29 0.10
334 23 0.08
335 6 0.02
336 26 0.09
337 17 0.06
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.38
Consensus pattern (339 bp):
GTTGAACAAATTCTTCTCATTATGAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
AACTTCTCCGGAAAAGATAATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCT
CATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGA
TGATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
TCCTTCTTCAGATGAGTTCTCCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATG
AATTCAGGTAAAAG
Found at i:62623 original size:82 final size:82
Alignment explanation
Indices: 62413--62798 Score: 603
Period size: 82 Copynumber: 4.7 Consensus size: 82
62403 ACTTCCTCAA
* * * *
62413 ATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGC
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGA
*
62478 TTGGTTCTGTTAAACCAG
66 TT-GTTCTGTCAAACCAG
* * *
62496 GTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTCTAAATTCAATGA
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGA
62561 TTGTTCTG-CTAAACCAG
66 TTGTTCTGTC-AAACCAG
62578 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGA
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGA
*
62643 TTGTTCTGTCCAACCAG
66 TTGTTCTGTCAAACCAG
* *
62660 ATCAGATAACTCAAAGAACACTTCCGGAAGATGCTATTGACAAATTCATCTTCTAAACTCAATGA
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGA
*
62725 TTGTTCTGTCCAACCAG
66 TTGTTCTGTCAAACCAG
* *
62742 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCTATTTTCTA
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTC-ATCTTCTA
62799 GTTAATGTTT
Statistics
Matches: 283, Mismatches: 16, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
82 207 0.73
83 69 0.24
84 7 0.02
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (82 bp):
ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGA
TTGTTCTGTCAAACCAG
Found at i:63555 original size:18 final size:18
Alignment explanation
Indices: 63532--63579 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
63522 AATTCAATAT
*
63532 AAAAATAAATTGAATTTC
1 AAAAATAAATTGAATCTC
63550 AAAAATAAATTGAATCTC
1 AAAAATAAATTGAATCTC
63568 --AAATAAATTGAA
1 AAAAATAAATTGAA
63580 CTTGAAATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 12 0.41
18 17 0.59
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (18 bp):
AAAAATAAATTGAATCTC
Found at i:63927 original size:16 final size:16
Alignment explanation
Indices: 63908--63939 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
63898 CCTTGACCCC
63908 CTTTCTTTTTCTTTTT
1 CTTTCTTTTTCTTTTT
*
63924 CTTTTTTTTTCTTTTT
1 CTTTCTTTTTCTTTTT
63940 TTTTATTCTC
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
CTTTCTTTTTCTTTTT
Found at i:63938 original size:9 final size:10
Alignment explanation
Indices: 63909--63943 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
63899 CTTGACCCCC
63909 TTTCTTTTTCTT
1 TTTC-TTTT-TT
63921 TTTCTTTTTT
1 TTTCTTTTTT
63931 TTTCTTTTTT
1 TTTCTTTTTT
63941 TTT
1 TTT
63944 ATTCTCTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 15 0.65
11 4 0.17
12 4 0.17
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (10 bp):
TTTCTTTTTT
Done.