Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003686.1 Hibiscus syriacus cultivar Beakdansim tig00007874_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: 101410
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Found at i:11097 original size:13 final size:13
Alignment explanation
Indices: 11070--11131 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
11060 CATGTAACCA
* *
11070 AAATTATATTTAT
1 AAATTATAATAAT
11083 AAATTATAATAAT
1 AAATTATAATAAT
*
11096 -AA-TA-AATAAA
1 AAATTATAATAAT
11106 AAATTATAATAAT
1 AAATTATAATAAT
*
11119 ATATTTATAATAA
1 A-AATTATAATAA
11132 AACTCCGATG
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
10 5 0.12
11 4 0.10
12 4 0.10
13 17 0.43
14 10 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATTATAATAAT
Found at i:15185 original size:12 final size:12
Alignment explanation
Indices: 15170--15202 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
15160 TGTATAAACT
*
15170 ACTTGATTTGAA
1 ACTTGATTCGAA
15182 ACTTGATTCGAA
1 ACTTGATTCGAA
15194 ACTTGATTC
1 ACTTGATTC
15203 CTGATTTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.39
Consensus pattern (12 bp):
ACTTGATTCGAA
Found at i:15627 original size:10 final size:10
Alignment explanation
Indices: 15612--15645 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
15602 TGCACAACAT
*
15612 TTTAGTTGTA
1 TTTAGTTGCA
15622 TTTAGTTGCA
1 TTTAGTTGCA
15632 TTTAGTTGCA
1 TTTAGTTGCA
15642 TTTA
1 TTTA
15646 AGTTATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.21, C:0.06, G:0.18, T:0.56
Consensus pattern (10 bp):
TTTAGTTGCA
Found at i:18563 original size:19 final size:20
Alignment explanation
Indices: 18524--18563 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
18514 TAACTTTTAA
*
18524 TGAATTTTAATATTTTATAT
1 TGAATTTTAATATTATATAT
18544 TGAATTTTAA-ATTATATAT
1 TGAATTTTAATATTATATAT
18563 T
1 T
18564 CGATTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
TGAATTTTAATATTATATAT
Found at i:20254 original size:14 final size:14
Alignment explanation
Indices: 20235--20261 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20225 AACAAAAGAA
20235 AAATAATTCATTTT
1 AAATAATTCATTTT
20249 AAATAATTCATTT
1 AAATAATTCATTT
20262 AGTTTAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATAATTCATTTT
Found at i:21379 original size:19 final size:20
Alignment explanation
Indices: 21340--21379 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
21330 TAAGTGTTAA
*
21340 TGAATTTTAAGATTTTATAT
1 TGAATTTTAAGATTATATAT
21360 TGAATTTTAA-ATTATATAT
1 TGAATTTTAAGATTATATAT
21379 T
1 T
21380 CGATTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
TGAATTTTAAGATTATATAT
Found at i:22515 original size:21 final size:20
Alignment explanation
Indices: 22487--22526 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
22477 CATTACAGGA
*
22487 ATTTATGGCCTCAAGAAAAG
1 ATTTATGGCCTCAACAAAAG
*
22507 ATTTCATGGCTTCAACAAAA
1 ATTT-ATGGCCTCAACAAAA
22527 ACGTTGATGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (20 bp):
ATTTATGGCCTCAACAAAAG
Found at i:36826 original size:21 final size:20
Alignment explanation
Indices: 36802--36852 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
36792 CATAGAGTTT
36802 GTTCACATTCACTTATTCAAA
1 GTTCACATTCACTTATTC-AA
*
36823 GTTCACATTCACTTGTTCAA
1 GTTCACATTCACTTATTCAA
36843 GATTCACATT
1 G-TTCACATT
36853 TCCTTATGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 3 0.11
21 25 0.89
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (20 bp):
GTTCACATTCACTTATTCAA
Found at i:37280 original size:19 final size:21
Alignment explanation
Indices: 37230--37281 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
37220 CTACCCCCAA
*
37230 GTACCGATACTTCCTTTCAAGG
1 GTACCGATACCTCC-TTCAAGG
* *
37252 GTATCAATACCTCC-TCAA-G
1 GTACCGATACCTCCTTCAAGG
37271 GTACCGATACC
1 GTACCGATACC
37282 AAAATAGCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 10 0.40
20 4 0.16
22 11 0.44
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (21 bp):
GTACCGATACCTCCTTCAAGG
Found at i:37386 original size:42 final size:42
Alignment explanation
Indices: 37331--37434 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 42
37321 GATACCACCC
* *
37331 CTGGTATCAATACTACCCTTACAGCATCGATACCCAT-CACAA
1 CTGGTATCGATACTACCCTTACAACATCGATACCC-TCCACAA
* * *
37373 CTGGTATCGATACTACCCTCACAATATCGATACCCTCCTCAA
1 CTGGTATCGATACTACCCTTACAACATCGATACCCTCCACAA
37415 -TAGGTATCGATACTACCCTT
1 CT-GGTATCGATACTACCCTT
37435 GGAAAATACT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
41 2 0.04
42 52 0.96
ACGTcount: A:0.30, C:0.33, G:0.11, T:0.27
Consensus pattern (42 bp):
CTGGTATCGATACTACCCTTACAACATCGATACCCTCCACAA
Found at i:38365 original size:498 final size:498
Alignment explanation
Indices: 37428--38427 Score: 1856
Period size: 498 Copynumber: 2.0 Consensus size: 498
37418 GTATCGATAC
*
37428 TACCCTTGGAAAATACTCATATTTAACCCATGAAGTATTGGTATTATTCTAACGGTACCGATACT
1 TACCCTTGGAAAATACTCATATTTAACCCATGAAGTATTGGTACTATTCTAACGGTACCGATACT
37493 CAAAGCCCAAAATGGTCATTTTCACTTCGAAAATCAACCCAAAAACTTCCCAAATCTCTTATATT
66 CAAAGCCCAAAATGGTCATTTTCACTTCGAAAATCAACCCAAAAACTTCCCAAATCTCTTATATT
37558 CATCACCCTCAAGCTTTAAAACTCACCCTTATACCTCCACACCAATTAGTATTCATTTACTACTC
131 CATCACCCTCAAGCTTTAAAACTCACCCTTATACCTCCACACCAATTAGTATTCATTTACTACTC
*
37623 TTAATTATCCAAATTCCCGTTTTAATACTTGAATCTTAAAATCATACCAAAGTTTCAAAAATGTT
196 TTAATTATCCAAATTCCCATTTTAATACTTGAATCTTAAAATCATACCAAAGTTTCAAAAATGTT
* *
37688 CTTAACCAATTCCAACACCCCTGACTCTTAAGTTAGATCATTGACAAGTCAAATATCTCAACAAA
261 CTTAACCAAATCCAACACCCCTAACTCTTAAGTTAGATCATTGACAAGTCAAATATCTCAACAAA
** *
37753 ACTTCAAAAACTGTTTCATATAAAAATTTCATTTCAAAACCCATTTTATAAATCCATCTCTAATA
326 ACTTCAAAAACTACTCCATATAAAAATTTCATTTCAAAACCCATTTTATAAATCCATCTCTAATA
*
37818 CACTCATCTTGTTGTTTTAATCCTATATAAGCTTTCCTTAAGCTTATATAACACTCCTAGTTCCA
391 CACTCATCTTGTTGTTTTAATCCTATATAAGCTTTCCTTAAGCTTATATAACACCCCTAGTTCCA
*
37883 CTACCAAACCAAATATTAAAGGAAACCACAAAATTTATATTCT
456 CTACCAAACCAAATATTAAAGGAAACCACAAAATTCATATTCT
37926 TACCCTTGGAAAATACTCATATTTAACCCATGAAGTATTGGTACTATTCTAACGGTACCGATACT
1 TACCCTTGGAAAATACTCATATTTAACCCATGAAGTATTGGTACTATTCTAACGGTACCGATACT
* *
37991 CGAAGCCCAAAATGGTCATTTTCAGTTCGAAAATCAACCCAAAAACTTCCCAAATCTCTTATATT
66 CAAAGCCCAAAATGGTCATTTTCACTTCGAAAATCAACCCAAAAACTTCCCAAATCTCTTATATT
*
38056 CATCACCCTCAAGCTTTAAAACTCACCCTTATACTTCCACACCAATTAGTATTCATTTACTACTC
131 CATCACCCTCAAGCTTTAAAACTCACCCTTATACCTCCACACCAATTAGTATTCATTTACTACTC
*
38121 TTAATTATCCAAATTCCCATTTTAATACTTGAATCTTAAAATCATACCAAAGTTTCAAACATGTT
196 TTAATTATCCAAATTCCCATTTTAATACTTGAATCTTAAAATCATACCAAAGTTTCAAAAATGTT
* *
38186 CTTAATCAAATCCAACACCCCTAACTCTTAAGTTAGATCATTGACAAGTCGAATATCTCAACAAA
261 CTTAACCAAATCCAACACCCCTAACTCTTAAGTTAGATCATTGACAAGTCAAATATCTCAACAAA
*
38251 ACTTCAAAAACTACTCCATATAAAAATTTCATTTCAAAACCCATTTTATAAATTCATCTCTAATA
326 ACTTCAAAAACTACTCCATATAAAAATTTCATTTCAAAACCCATTTTATAAATCCATCTCTAATA
38316 CACTCATCTTGTTGTTTTAATCCTATATAAGCTTTCCTTAAGCTTATATAACACCCCTAGTTCCA
391 CACTCATCTTGTTGTTTTAATCCTATATAAGCTTTCCTTAAGCTTATATAACACCCCTAGTTCCA
38381 CTACCAAACCAAATATTAAAGGAAACCACAAAATTCATATTCT
456 CTACCAAACCAAATATTAAAGGAAACCACAAAATTCATATTCT
38424 TACC
1 TACC
38428 TTGTGGATGG
Statistics
Matches: 486, Mismatches: 16, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
498 486 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (498 bp):
TACCCTTGGAAAATACTCATATTTAACCCATGAAGTATTGGTACTATTCTAACGGTACCGATACT
CAAAGCCCAAAATGGTCATTTTCACTTCGAAAATCAACCCAAAAACTTCCCAAATCTCTTATATT
CATCACCCTCAAGCTTTAAAACTCACCCTTATACCTCCACACCAATTAGTATTCATTTACTACTC
TTAATTATCCAAATTCCCATTTTAATACTTGAATCTTAAAATCATACCAAAGTTTCAAAAATGTT
CTTAACCAAATCCAACACCCCTAACTCTTAAGTTAGATCATTGACAAGTCAAATATCTCAACAAA
ACTTCAAAAACTACTCCATATAAAAATTTCATTTCAAAACCCATTTTATAAATCCATCTCTAATA
CACTCATCTTGTTGTTTTAATCCTATATAAGCTTTCCTTAAGCTTATATAACACCCCTAGTTCCA
CTACCAAACCAAATATTAAAGGAAACCACAAAATTCATATTCT
Found at i:45221 original size:21 final size:20
Alignment explanation
Indices: 45182--45231 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
45172 CATAAAGTTT
*
45182 GTTCACGTTCACATATTCAAA
1 GTTCACATTCACATATTC-AA
* *
45203 GTTCACATTCACTTGTTCAA
1 GTTCACATTCACATATTCAA
45223 GATTCACAT
1 G-TTCACAT
45232 ATCCTTATGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 3 0.12
21 22 0.88
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (20 bp):
GTTCACATTCACATATTCAA
Found at i:45721 original size:19 final size:19
Alignment explanation
Indices: 45697--45746 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
45687 CTTAATAAGG
45697 GTATCGATACCATCCCTT-A
1 GTATCGATACCA-CCCTTAA
*
45716 GTATCGATACTACCCTTACA
1 GTATCGATACCACCCTTA-A
45736 GTATCGATACC
1 GTATCGATACC
45747 CATCATAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 5 0.19
19 11 0.41
20 11 0.41
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (19 bp):
GTATCGATACCACCCTTAA
Found at i:45740 original size:20 final size:20
Alignment explanation
Indices: 45697--45788 Score: 80
Period size: 20 Copynumber: 4.5 Consensus size: 20
45687 CTTAATAAGG
*
45697 GTATCGATACCATCCCTT--A
1 GTATCGATACTA-CCCTTACA
45716 GTATCGATACTACCCTTACA
1 GTATCGATACTACCCTTACA
* * * *
45736 GTATCGATACCCATCATAACTA
1 GTATCGATA-CTACCCTTAC-A
*
45758 GTATCGATACTACCCTCACA
1 GTATCGATACTACCCTTACA
*
45778 GTGTCGATACT
1 GTATCGATACT
45789 CTCCTCAACG
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
18 5 0.08
19 11 0.19
20 21 0.36
21 12 0.20
22 10 0.17
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (20 bp):
GTATCGATACTACCCTTACA
Found at i:60249 original size:32 final size:32
Alignment explanation
Indices: 60212--60282 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
60202 AAATACAACT
*
60212 ATATGCTCCTAAATACATCTAAACGATCCTAC
1 ATATGCCCCTAAATACATCTAAACGATCCTAC
* *
60244 ATATGCCCCTAAATGCATCTAAATGATCCTAC
1 ATATGCCCCTAAATACATCTAAACGATCCTAC
60276 ATATGCC
1 ATATGCC
60283 TTAAGACGAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.35, C:0.28, G:0.08, T:0.28
Consensus pattern (32 bp):
ATATGCCCCTAAATACATCTAAACGATCCTAC
Found at i:63431 original size:14 final size:14
Alignment explanation
Indices: 63412--63438 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
63402 CTTTCCAAGA
63412 CGAGTTTTATCTTC
1 CGAGTTTTATCTTC
63426 CGAGTTTTATCTT
1 CGAGTTTTATCTT
63439 GCAAGTCTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.19, G:0.15, T:0.52
Consensus pattern (14 bp):
CGAGTTTTATCTTC
Found at i:83454 original size:21 final size:21
Alignment explanation
Indices: 83428--83472 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
83418 GTATCAAGGT
*
83428 CTTTGTGGAAGCCATGAAATC
1 CTTTGTCGAAGCCATGAAATC
* *
83449 CTTTGTCGAGGCCATGAATTC
1 CTTTGTCGAAGCCATGAAATC
83470 CTT
1 CTT
83473 CAATGATAAC
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:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (21 bp):
CTTTGTCGAAGCCATGAAATC
Found at i:86567 original size:24 final size:24
Alignment explanation
Indices: 86532--86580 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
86522 AGTCTTCCAG
* *
86532 ATGATGTGTAAAACATCTATATAC
1 ATGATGTATAAAACATATATATAC
*
86556 ATGATGTATAAAACATATATGTAC
1 ATGATGTATAAAACATATATATAC
86580 A
1 A
86581 ATGTCATGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (24 bp):
ATGATGTATAAAACATATATATAC
Found at i:95098 original size:21 final size:20
Alignment explanation
Indices: 95065--95111 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
95055 TAATTATTAA
95065 AATATTTAAAAT-ATATTTATT
1 AATATTTAAAATAATA-TT-TT
**
95086 AATATTTCTAATAATATTTT
1 AATATTTAAAATAATATTTT
95106 AATATT
1 AATATT
95112 ATAATAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 8 0.35
21 12 0.52
22 3 0.13
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
AATATTTAAAATAATATTTT
Found at i:95100 original size:12 final size:11
Alignment explanation
Indices: 95061--95109 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
95051 ATATTAATTA
95061 TTAA-AATA-T
1 TTAATAATATT
95070 TTAA-AATATAT
1 TTAATAATAT-T
*
95081 TTATTAATATT
1 TTAATAATATT
95092 TCTAATAATATT
1 T-TAATAATATT
95104 TTAATA
1 TTAATA
95110 TTATAATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 8 0.24
11 11 0.32
12 15 0.44
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (11 bp):
TTAATAATATT
Found at i:95319 original size:23 final size:23
Alignment explanation
Indices: 95293--95337 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
95283 AATAATATTT
95293 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
95316 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
95338 TATGACACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:95470 original size:28 final size:28
Alignment explanation
Indices: 95439--95494 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
95429 TTATAAAAAT
*
95439 ATATTTTAATAATAAATAA-ATTATTTTA
1 ATATTTTAAAAAT-AATAATATTATTTTA
*
95467 ATATTTTAAAAATAATAATATTGTTTTA
1 ATATTTTAAAAATAATAATATTATTTTA
95495 TAATAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (28 bp):
ATATTTTAAAAATAATAATATTATTTTA
Found at i:95479 original size:20 final size:20
Alignment explanation
Indices: 95432--95480 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
95422 AATAAAATTA
95432 TAAAAATATATTTTAATAAT
1 TAAAAATATATTTTAATAAT
* *
95452 AAATAAAT-TATTTTAATATTT
1 TAA-AAATATATTTTAATA-AT
95473 TAAAAATA
1 TAAAAATA
95481 ATAATATTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TAAAAATATATTTTAATAAT
Found at i:95510 original size:22 final size:20
Alignment explanation
Indices: 95470--95507 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
95460 TATTTTAATA
95470 TTTTAAAAATAATAATATTG
1 TTTTAAAAATAATAATATTG
*
95490 TTTT-ATAATAATAATATT
1 TTTTAAAAATAATAATATT
95508 ATTTATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
TTTTAAAAATAATAATATTG
Found at i:98466 original size:12 final size:11
Alignment explanation
Indices: 98449--98473 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
98439 AATATAGTAT
98449 TTAAAAAATTA
1 TTAAAAAATTA
98460 TTAAAAAATTA
1 TTAAAAAATTA
98471 TTA
1 TTA
98474 TATTATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TTAAAAAATTA
Found at i:98878 original size:2 final size:2
Alignment explanation
Indices: 98871--98903 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
98861 TTTTTCTTTA
98871 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
98904 TTTATTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Done.