Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001302.1 Hibiscus syriacus cultivar Beakdansim tig00002541_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: 51016
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Found at i:502 original size:11 final size:11
Alignment explanation
Indices: 480--511 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
470 TTAACATAAA
480 TATTATTAATAT
1 TATTA-TAATAT
492 TATTATAATAT
1 TATTATAATAT
503 TATTATAAT
1 TATTATAAT
512 TACAATTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTATAATAT
Found at i:557 original size:24 final size:22
Alignment explanation
Indices: 527--594 Score: 66
Period size: 27 Copynumber: 2.9 Consensus size: 22
517 TTAGGTAAAA
527 TAATAATCTAAAAATATAAACAT
1 TAATAAT-TAAAAATATAAACAT
*
550 TAATTAATTATATAATATACTAAATAT
1 TAA-TAATTA-A-AA-ATA-TAAACAT
577 TAATAATT-AAAATATAAA
1 TAATAATTAAAAATATAAA
595 GTAATAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
21 4 0.10
22 3 0.08
23 7 0.18
24 6 0.15
25 2 0.05
26 8 0.21
27 9 0.23
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
TAATAATTAAAAATATAAACAT
Found at i:573 original size:27 final size:24
Alignment explanation
Indices: 527--592 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 24
517 TTAGGTAAAA
527 TAATAATCTAAAA-ATA-TAAACAT
1 TAATAAT-TAAAATATACTAAACAT
*
550 TAATTAATTATATAATATACTAAATAT
1 TAA-TAATTA-A-AATATACTAAACAT
577 TAATAATTAAAATATA
1 TAATAATTAAAATATA
593 AAGTAATAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
23 5 0.14
24 11 0.30
25 3 0.08
26 9 0.24
27 9 0.24
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.38
Consensus pattern (24 bp):
TAATAATTAAAATATACTAAACAT
Found at i:11052 original size:19 final size:18
Alignment explanation
Indices: 11025--11061 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
11015 GTACGGATTA
11025 TGAAAATGAAATGTGAAAG
1 TGAAAATGAAA-GTGAAAG
*
11044 TGAATATGAAAGTGAAAG
1 TGAAAATGAAAGTGAAAG
11062 ATGGAAGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.51, C:0.00, G:0.27, T:0.22
Consensus pattern (18 bp):
TGAAAATGAAAGTGAAAG
Found at i:12077 original size:21 final size:22
Alignment explanation
Indices: 12053--12103 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
12043 ATGATGCTAG
12053 TATCGATACT-GATCCTGTCAA
1 TATCGATACTCGATCCTGTCAA
*
12074 TATCGATA-TCGATCCTGTCAG
1 TATCGATACTCGATCCTGTCAA
12095 TATCGATAC
1 TATCGATAC
12104 CGACCTTAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (22 bp):
TATCGATACTCGATCCTGTCAA
Found at i:13415 original size:24 final size:24
Alignment explanation
Indices: 13379--13436 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
13369 ATCTAGCTGG
*
13379 TCATCATGTACATCACCATGCACA
1 TCATCATGAACATCACCATGCACA
* **
13403 TCATGATGAACATCACTGTGCACA
1 TCATCATGAACATCACCATGCACA
* *
13427 TTATCCTGAA
1 TCATCATGAA
13437 TAGGATCTCG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.28
Consensus pattern (24 bp):
TCATCATGAACATCACCATGCACA
Found at i:16438 original size:29 final size:29
Alignment explanation
Indices: 16401--16484 Score: 141
Period size: 29 Copynumber: 2.9 Consensus size: 29
16391 CTACTTTTGC
* *
16401 ACCATATTTTAGGTTGCAACACATTTCCA
1 ACCACATTTTAAGTTGCAACACATTTCCA
16430 ACCACATTTTAAGTTGCAACACATTTCCA
1 ACCACATTTTAAGTTGCAACACATTTCCA
*
16459 ACCACATTTTAAGTTGCACCACATTT
1 ACCACATTTTAAGTTGCAACACATTT
16485 GCAAACTGTT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.33
Consensus pattern (29 bp):
ACCACATTTTAAGTTGCAACACATTTCCA
Found at i:16583 original size:17 final size:17
Alignment explanation
Indices: 16545--16583 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
16535 TTTGTACGAT
16545 ATTTTAGGTTGCAACCC
1 ATTTTAGGTTGCAACCC
* * *
16562 CTTTTATGTTGCAACTC
1 ATTTTAGGTTGCAACCC
16579 ATTTT
1 ATTTT
16584 TAAGGTGATG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.46
Consensus pattern (17 bp):
ATTTTAGGTTGCAACCC
Found at i:22774 original size:24 final size:23
Alignment explanation
Indices: 22748--22830 Score: 76
Period size: 24 Copynumber: 3.5 Consensus size: 23
22738 AGCTCAATCG
*
22748 AAGCTCGAGACTCGAGCTCGATTG
1 AAGCTCGA-ACTCGAGCTCGATTC
* ** *
22772 AAGATCGATTTTGAGCTCGAATTC
1 AAGCTCGAACTCGAGCTCG-ATTC
* * *
22796 AAACTCGAATTTGAGCTCGATTC
1 AAGCTCGAACTCGAGCTCGATTC
22819 AAGCTCGAACTC
1 AAGCTCGAACTC
22831 AAACTCAAAT
Statistics
Matches: 47, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
23 21 0.45
24 26 0.55
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (23 bp):
AAGCTCGAACTCGAGCTCGATTC
Found at i:22791 original size:23 final size:23
Alignment explanation
Indices: 22761--22827 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 23
22751 CTCGAGACTC
* *
22761 GAGCTCGATTGAAGATCGATTTT
1 GAGCTCGATTCAAGATCGAATTT
22784 GAGCTCGAATTCAA-ACTCGAATTT
1 GAGCTCG-ATTCAAGA-TCGAATTT
*
22808 GAGCTCGATTCAAGCTCGAA
1 GAGCTCGATTCAAGATCGAA
22828 CTCAAACTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
23 19 0.50
24 19 0.50
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (23 bp):
GAGCTCGATTCAAGATCGAATTT
Found at i:22802 original size:12 final size:12
Alignment explanation
Indices: 22787--22846 Score: 50
Period size: 12 Copynumber: 5.1 Consensus size: 12
22777 CGATTTTGAG
22787 CTCGAATTCAAA
1 CTCGAATTCAAA
** *
22799 CTCGAATTTGAG
1 CTCGAATTCAAA
*
22811 CTCG-ATTCAAG
1 CTCGAATTCAAA
*
22822 CTCGAACTCAAA
1 CTCGAATTCAAA
* *
22834 CTCAAATTTAAA
1 CTCGAATTCAAA
22846 C
1 C
22847 CTACAAAAAT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
11 9 0.24
12 28 0.76
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.27
Consensus pattern (12 bp):
CTCGAATTCAAA
Found at i:24346 original size:17 final size:17
Alignment explanation
Indices: 24324--24356 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
24314 TTTGTGTTCC
24324 TTCAATT-TGTACTTGTT
1 TTCAATTGTGT-CTTGTT
24341 TTCAATTGTGTCTTGT
1 TTCAATTGTGTCTTGT
24357 AATTTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (17 bp):
TTCAATTGTGTCTTGTT
Found at i:24669 original size:7 final size:7
Alignment explanation
Indices: 24659--24742 Score: 109
Period size: 7 Copynumber: 12.1 Consensus size: 7
24649 TTCAAACCTC
24659 AAACCCT
1 AAACCCT
24666 AAACCCT
1 AAACCCT
*
24673 AAACCCC
1 AAACCCT
*
24680 AAACACT
1 AAACCCT
24687 AAACCCT
1 AAACCCT
24694 AAAACCCT
1 -AAACCCT
* *
24702 AAAACAT
1 AAACCCT
24709 AAACCCT
1 AAACCCT
24716 AAACCCT
1 AAACCCT
24723 AAA--CT
1 AAACCCT
24728 AAACCCT
1 AAACCCT
24735 AAACCCT
1 AAACCCT
24742 A
1 A
24743 TCACATATTT
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
5 5 0.08
7 54 0.82
8 7 0.11
ACGTcount: A:0.49, C:0.38, G:0.00, T:0.13
Consensus pattern (7 bp):
AAACCCT
Found at i:24832 original size:14 final size:14
Alignment explanation
Indices: 24813--24842 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
24803 TATAATTATC
*
24813 AATAATGTATTTTT
1 AATAATGTAATTTT
24827 AATAATGTAATTTT
1 AATAATGTAATTTT
24841 AA
1 AA
24843 AAAATCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
AATAATGTAATTTT
Found at i:25499 original size:20 final size:20
Alignment explanation
Indices: 25474--25513 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
25464 AAATCATTGT
*
25474 TTATAG-ATGAATTTTAAATA
1 TTATAGAAT-AATTTGAAATA
25494 TTATAGAATAATTTGAAATA
1 TTATAGAATAATTTGAAATA
25514 AAATCAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (20 bp):
TTATAGAATAATTTGAAATA
Found at i:26549 original size:2 final size:2
Alignment explanation
Indices: 26542--26576 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
26532 TTGATCTGTG
26542 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26577 CATTTAGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:27089 original size:15 final size:15
Alignment explanation
Indices: 27069--27100 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
27059 CATTCGACCC
*
27069 ATCATGTATTCGTAT
1 ATCATGTATACGTAT
27084 ATCATGTATACGTAT
1 ATCATGTATACGTAT
27099 AT
1 AT
27101 ACTTGTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (15 bp):
ATCATGTATACGTAT
Found at i:27690 original size:77 final size:77
Alignment explanation
Indices: 27594--27761 Score: 246
Period size: 77 Copynumber: 2.2 Consensus size: 77
27584 ATATAACAGG
* **
27594 TTGCACCTAAAATGTTATAAACTGTAAGAAAATAAGTTATAAACAGTAAATATTATGAATATTAT
1 TTGCACCTAAAATGATATAAACAATAAGAAAATAAGTTATAAACAGTAAATATTATGAATATTAT
*
27659 TAATAATTTAGA
66 TAACAATTTAGA
* * * *
27671 TTGCGCCTAAAATGATATAAACAATAAGAAAATAAGTTATAAACGGTGAATGTTATGAATATTAT
1 TTGCACCTAAAATGATATAAACAATAAGAAAATAAGTTATAAACAGTAAATATTATGAATATTAT
*
27736 TAACATTTTAGA
66 TAACAATTTAGA
*
27748 TTGCTCCTAAAATG
1 TTGCACCTAAAATG
27762 TTATTAGAGT
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
77 81 1.00
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.34
Consensus pattern (77 bp):
TTGCACCTAAAATGATATAAACAATAAGAAAATAAGTTATAAACAGTAAATATTATGAATATTAT
TAACAATTTAGA
Found at i:28964 original size:59 final size:59
Alignment explanation
Indices: 28872--28994 Score: 228
Period size: 59 Copynumber: 2.1 Consensus size: 59
28862 GGTAGCATTA
*
28872 GTACCCTTATGGGGAGTATCGATACTCAACCCTTGGTATCGATACTCCCATGAGTATTG
1 GTACCCTTATGGGGAGTATCGATACTCAACCCTTGGTATCGATACTCCCATGAGTATCG
*
28931 GTACCCTTATGGGGAGTATCGATACTCAACCCTTGGTATCGATACTCCTATGAGTATCG
1 GTACCCTTATGGGGAGTATCGATACTCAACCCTTGGTATCGATACTCCCATGAGTATCG
28990 GTACC
1 GTACC
28995 AAAATTGGCC
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (59 bp):
GTACCCTTATGGGGAGTATCGATACTCAACCCTTGGTATCGATACTCCCATGAGTATCG
Found at i:29158 original size:26 final size:26
Alignment explanation
Indices: 29129--29193 Score: 121
Period size: 26 Copynumber: 2.5 Consensus size: 26
29119 TGCATAAGAA
29129 CGATATTGGTACTGTTCGTCCAGTAT
1 CGATATTGGTACTGTTCGTCCAGTAT
29155 CGATATTGGTACTGTTCGTCCAGTAT
1 CGATATTGGTACTGTTCGTCCAGTAT
*
29181 CGATACTGGTACT
1 CGATATTGGTACT
29194 AAAAATGCCC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (26 bp):
CGATATTGGTACTGTTCGTCCAGTAT
Found at i:30462 original size:186 final size:187
Alignment explanation
Indices: 30051--30481 Score: 598
Period size: 186 Copynumber: 2.3 Consensus size: 187
30041 GGCGTTACAC
* * * *
30051 CTATAATGAATACGGTTACGCCCAAGAATGTCATGGTTCACTAAGAAAGTAGGTTGTGATTTGGA
1 CTATAATAAATACAGTTAC-CCCAAGAATGTCATGGTTCACTAAGAAAGTAGGTTGCGATCTGGA
* *
30116 ATCTTAATATTTTTATTAACAAAATGGGATGTGCCTAAAATGTTACCAGAGTTCAAGCTGATGGA
65 ATATTAATATTTTTATTAACAAAATGGGATGTGCCTAAAATGTTACCAGAGTTCAAGCTGATGAA
** * *
30181 GTTTTAGATTTTTCCCACGATAACAAACTTAGTTAAAAGTAGAAAATGTTATGAATAG
130 GCCTTAGATTTTTCCCACGATAACAAACTAAGTTAAAAGTAGAAAATATTATGAATAG
*** * *
30239 CTATAATAAATGTTGTTTCCCTCAAGAATGCCATGGTTCACTAAGAAAGTAGGTT-CGATCTGGA
1 CTATAATAAATACAGTTACCC-CAAGAATGTCATGGTTCACTAAGAAAGTAGGTTGCGATCTGGA
* * *
30303 ATATTAATATTTTTATTATCAAAAT-GGATTGTGCCTAAAATGTTACTAGAGTTTAAGCTGATGA
65 ATATTAATATTTTTATTAACAAAATGGGA-TGTGCCTAAAATGTTACCAGAGTTCAAGCTGATGA
* *
30367 AGCCTTAGA-TTTTCCCACGATAACAAACTAAGTTAAAAGTTGAAAATATTATGAATAT
129 AGCCTTAGATTTTTCCCACGATAACAAACTAAGTTAAAAGTAGAAAATATTATGAATAG
* * *
30425 TTATAATAAATACAGTTGCACCCAAGAATGTCATGGTTCATTAAGAAAGTAGGTTGC
1 CTATAATAAATACAGTTAC-CCCAAGAATGTCATGGTTCACTAAGAAAGTAGGTTGC
30482 ATAACAAAAA
Statistics
Matches: 213, Mismatches: 26, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
186 93 0.44
187 74 0.35
188 46 0.22
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (187 bp):
CTATAATAAATACAGTTACCCCAAGAATGTCATGGTTCACTAAGAAAGTAGGTTGCGATCTGGAA
TATTAATATTTTTATTAACAAAATGGGATGTGCCTAAAATGTTACCAGAGTTCAAGCTGATGAAG
CCTTAGATTTTTCCCACGATAACAAACTAAGTTAAAAGTAGAAAATATTATGAATAG
Found at i:30523 original size:20 final size:20
Alignment explanation
Indices: 30498--30554 Score: 105
Period size: 20 Copynumber: 2.8 Consensus size: 20
30488 AAAAAATTCG
30498 AAAGTATTGATATTTGTGGA
1 AAAGTATTGATATTTGTGGA
30518 AAAGTATTGATATTTGTGGA
1 AAAGTATTGATATTTGTGGA
30538 AAAGTATTGATACTTTG
1 AAAGTATTGATA-TTTG
30555 CAACCTTTCC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 32 0.89
21 4 0.11
ACGTcount: A:0.35, C:0.02, G:0.23, T:0.40
Consensus pattern (20 bp):
AAAGTATTGATATTTGTGGA
Found at i:32770 original size:21 final size:20
Alignment explanation
Indices: 32744--32791 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 20
32734 CGAAAAGTCG
*
32744 ATATCGATATTGTTGATATCT
1 ATATCGATA-AGTTGATATCT
32765 ATATCGGATAAGTTGATATCT
1 ATATC-GATAAGTTGATATCT
32786 ATATCG
1 ATATCG
32792 GATGAACTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 1 0.04
21 20 0.80
22 4 0.16
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (20 bp):
ATATCGATAAGTTGATATCT
Found at i:32792 original size:21 final size:21
Alignment explanation
Indices: 32755--32794 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
32745 TATCGATATT
32755 GTTGATATCTATATCGGATAA
1 GTTGATATCTATATCGGATAA
32776 GTTGATATCTATATCGGAT
1 GTTGATATCTATATCGGAT
32795 GAACTGGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (21 bp):
GTTGATATCTATATCGGATAA
Found at i:37307 original size:19 final size:19
Alignment explanation
Indices: 37273--37309 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
37263 GAATTTTAAT
*
37273 ATTATATATTTAATTCAAA
1 ATTATATATTCAATTCAAA
*
37292 ATTATATATTCGATTCAA
1 ATTATATATTCAATTCAA
37310 TTATTCGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (19 bp):
ATTATATATTCAATTCAAA
Found at i:43419 original size:17 final size:18
Alignment explanation
Indices: 43381--43419 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
43371 AATTAAAAAA
43381 ATGTTTTTGATTTGAAAT
1 ATGTTTTTGATTTGAAAT
*
43399 -TGTTTTTGATTT-AATT
1 ATGTTTTTGATTTGAAAT
43415 ATGTT
1 ATGTT
43420 ATTTTCATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (18 bp):
ATGTTTTTGATTTGAAAT
Found at i:46013 original size:28 final size:29
Alignment explanation
Indices: 45982--46037 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
45972 AAGCACAAAC
45982 TCAAGTTTGAGC-ATTCAAGCCAAATTCA
1 TCAAGTTTGAGCAATTCAAGCCAAATTCA
46010 TCAAGTTTGAGCAATTCAAGCCAAATTC
1 TCAAGTTTGAGCAATTCAAGCCAAATTC
46038 CTTTCAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 12 0.44
29 15 0.56
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (29 bp):
TCAAGTTTGAGCAATTCAAGCCAAATTCA
Done.