Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001105.1 Hibiscus syriacus cultivar Beakdansim tig00002187_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: 47151
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Found at i:5182 original size:39 final size:39
Alignment explanation
Indices: 5139--5217 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
5129 TTTATTTAAA
5139 TACAATAATATTTTCTTTTTCACCTTTTAATATGATTTT
1 TACAATAATATTTTCTTTTTCACCTTTTAATATGATTTT
** * *
5178 TACAATTTTATTTTCTTTTTCGCCTTTTAATCTGATTTT
1 TACAATAATATTTTCTTTTTCACCTTTTAATATGATTTT
5217 T
1 T
5218 TTATTTGTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.23, C:0.14, G:0.04, T:0.59
Consensus pattern (39 bp):
TACAATAATATTTTCTTTTTCACCTTTTAATATGATTTT
Found at i:5742 original size:16 final size:16
Alignment explanation
Indices: 5721--5757 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
5711 TTTTGTATAT
*
5721 TATATAATTTTTAAAA
1 TATATAAGTTTTAAAA
5737 TATAT-AGTTTTAAAA
1 TATATAAGTTTTAAAA
5752 TATATA
1 TATATA
5758 TAGTAAGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
TATATAAGTTTTAAAA
Found at i:5758 original size:17 final size:16
Alignment explanation
Indices: 5721--5761 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
5711 TTTTGTATAT
* *
5721 TATATAATTTTTAAAA
1 TATATAGTTTTAAAAA
5737 TATATAGTTTTAAAATA
1 TATATAGTTTTAAAA-A
5754 TATATAGT
1 TATATAGT
5762 AAGGGTTCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (16 bp):
TATATAGTTTTAAAAA
Found at i:6884 original size:6 final size:7
Alignment explanation
Indices: 6870--6902 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
6860 ATTCAGATGG
*
6870 AATTTTT
1 AATTTTA
6877 AATTTTA
1 AATTTTA
6884 AA-TTTA
1 AATTTTA
6890 AATTTTA
1 AATTTTA
6897 AATTTT
1 AATTTT
6903 GCAATTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
AATTTTA
Found at i:6895 original size:13 final size:13
Alignment explanation
Indices: 6877--6901 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6867 TGGAATTTTT
6877 AATTTTAAATTTA
1 AATTTTAAATTTA
6890 AATTTTAAATTT
1 AATTTTAAATTT
6902 TGCAATTAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AATTTTAAATTTA
Found at i:15434 original size:52 final size:48
Alignment explanation
Indices: 15351--15487 Score: 150
Period size: 47 Copynumber: 2.8 Consensus size: 48
15341 GATATTTCGC
* * *
15351 TTAGGGTGAAAACCTGAAAGGGTGCCCTAAATCGAAGAATCGAAAAAAATGT
1 TTAGAGTGAAAACCCGAAAGGGTGCTCTAAATCGAA-AA-C--AAAAAATGT
**
15403 TTAGAGTGAAAACCCGAAAGGGTGCTCTAAATCG-AAACAAAATGTGT
1 TTAGAGTGAAAACCCGAAAGGGTGCTCTAAATCGAAAACAAAAAATGT
* * **
15450 TTAAAGTGAAAACTCGAAAGGGCACTCTAAATCGAAAA
1 TTAGAGTGAAAACCCGAAAGGGTGCTCTAAATCGAAAA
15488 AGATAAAAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
47 37 0.49
48 3 0.04
49 1 0.01
50 2 0.03
51 1 0.01
52 31 0.41
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.20
Consensus pattern (48 bp):
TTAGAGTGAAAACCCGAAAGGGTGCTCTAAATCGAAAACAAAAAATGT
Found at i:17565 original size:15 final size:16
Alignment explanation
Indices: 17537--17573 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
17527 TAATATATAT
17537 TATATAATTTTTAAAA
1 TATATAATTTTTAAAA
*
17553 TATATAA-TTTTAATA
1 TATATAATTTTTAAAA
17568 TATATA
1 TATATA
17574 TATTATCCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TATATAATTTTTAAAA
Found at i:17576 original size:21 final size:21
Alignment explanation
Indices: 17525--17576 Score: 62
Period size: 16 Copynumber: 2.8 Consensus size: 21
17515 GTTTTGAAAA
17525 TTTAATATATAT-TATATAAT
1 TTTAATATATATATATATAAT
17545 TTT--TA-A-A-ATATATAAT
1 TTTAATATATATATATATAAT
17561 TTTAATATATATATAT
1 TTTAATATATATATAT
17577 TATCCTCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 11
0.70 0.00 0.30
Matches are distributed among these distances:
16 12 0.46
17 1 0.04
18 4 0.15
19 1 0.04
20 4 0.15
21 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTAATATATATATATATAAT
Found at i:20509 original size:8 final size:8
Alignment explanation
Indices: 20486--20522 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
20476 ACACTCCTAT
*
20486 TATATATA
1 TATATGTA
*
20494 TTTATGTA
1 TATATGTA
20502 TATATGTA
1 TATATGTA
20510 TATATGTA
1 TATATGTA
20518 TATAT
1 TATAT
20523 TACCAACAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (8 bp):
TATATGTA
Found at i:20803 original size:17 final size:17
Alignment explanation
Indices: 20781--20817 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
20771 AAGACCAATC
20781 ATATGATGATTGTAATG
1 ATATGATGATTGTAATG
20798 ATATGATGATTGTAATG
1 ATATGATGATTGTAATG
20815 ATA
1 ATA
20818 CATTTTATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.22, T:0.41
Consensus pattern (17 bp):
ATATGATGATTGTAATG
Found at i:21792 original size:77 final size:77
Alignment explanation
Indices: 21705--21851 Score: 192
Period size: 77 Copynumber: 1.9 Consensus size: 77
21695 ATATTGTAAG
* *
21705 TAAACATTAAAAAATGTAATTTTGG-TTA-AACTCTTTTAATGGATATTTAATTCAGAA-TAATT
1 TAAACATTAAAAAATGTAA-TTCGGATTATAACTC-CTTAATGGATATTTAATT-AGAATTAATT
21767 AAATAAGAGTATAAA
63 AAATAAGAGTATAAA
* * * *
21782 TAAACATTAAAGAGTGTAATTCGGATTATAAGTCCTTAATGGATATTTAATTTGAATTAATTAAA
1 TAAACATTAAAAAATGTAATTCGGATTATAACTCCTTAATGGATATTTAATTAGAATTAATTAAA
21847 TAAGA
66 TAAGA
21852 ATTTAATTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
76 7 0.11
77 50 0.82
78 4 0.07
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.37
Consensus pattern (77 bp):
TAAACATTAAAAAATGTAATTCGGATTATAACTCCTTAATGGATATTTAATTAGAATTAATTAAA
TAAGAGTATAAA
Found at i:30421 original size:54 final size:54
Alignment explanation
Indices: 30355--30538 Score: 262
Period size: 54 Copynumber: 3.4 Consensus size: 54
30345 TTTATTAAGA
* * *
30355 TGCACACGTAGTGCCTATACGGTCGTTCATCAACCTATGATGAATTCTGTGGGT
1 TGCACACATAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGT
* * *
30409 TGCACACATAGTGCATATACGATTGTTCATCAATATATGATGAATTAC-GTGGGT
1 TGCACACATAGTGCCTATACGGTTGTTCATCAACATATGATGAATT-CTGTGGGT
* * * *
30463 TGCACACATAGTGCCTGTATGGTTGTTCATCAACATATGATGGATTATGTGGGT
1 TGCACACATAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGT
30517 TGCACACATAGTGCCTATACGG
1 TGCACACATAGTGCCTATACGG
30539 AAATTCATAA
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
54 112 0.99
55 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.32
Consensus pattern (54 bp):
TGCACACATAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGT
Found at i:30546 original size:54 final size:54
Alignment explanation
Indices: 30355--30562 Score: 249
Period size: 54 Copynumber: 3.9 Consensus size: 54
30345 TTTATTAAGA
* * *
30355 TGCACACGTAGTGCCTATACGG-TCGTTCATCAACCTATGATGAATTCTGTGGGT
1 TGCACACATAGTGCCTATACGGAT-GTTCATCAACATATGATGAATTATGTGGGT
* * *
30409 TGCACACATAGTGCATATAC-GATTGTTCATCAATATATGATGAATTACGTGGGT
1 TGCACACATAGTGCCTATACGGA-TGTTCATCAACATATGATGAATTATGTGGGT
* * * *
30463 TGCACACATAGTGCCTGTATGGTTGTTCATCAACATATGATGGATTATGTGGGT
1 TGCACACATAGTGCCTATACGGATGTTCATCAACATATGATGAATTATGTGGGT
** * * *
30517 TGCACACATAGTGCCTATACGGAAATTCATAAACTTATTATGAATT
1 TGCACACATAGTGCCTATACGGATGTTCATCAACATATGATGAATT
30563 TCTTAGTTTA
Statistics
Matches: 129, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
53 1 0.01
54 126 0.98
55 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.33
Consensus pattern (54 bp):
TGCACACATAGTGCCTATACGGATGTTCATCAACATATGATGAATTATGTGGGT
Found at i:30560 original size:108 final size:108
Alignment explanation
Indices: 30355--30562 Score: 276
Period size: 108 Copynumber: 1.9 Consensus size: 108
30345 TTTATTAAGA
* * *
30355 TGCACACGTAGTGCCTATACGGTCGTTCATCAACCTATGATGAATTCTGTGGGTTGCACACATAG
1 TGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATGAATTATGTGGGTTGCACACATAG
** *
30420 TGCATATACGATTGTTCATCAATATATGATGAATTACGTGGGT
66 TGCATATACGATAATTCATAAATATATGATGAATTACGTGGGT
* * * *
30463 TGCACACATAGTGCCTGTATGGTTGTTCATCAACATATGATGGATTATGTGGGTTGCACACATAG
1 TGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATGAATTATGTGGGTTGCACACATAG
* *
30528 TGCCTATACGGA-AATTCATAAACT-TATTATGAATT
66 TGCATATAC-GATAATTCATAAA-TATATGATGAATT
30563 TCTTAGTTTA
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
108 83 0.97
109 3 0.03
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.33
Consensus pattern (108 bp):
TGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATGAATTATGTGGGTTGCACACATAG
TGCATATACGATAATTCATAAATATATGATGAATTACGTGGGT
Found at i:30912 original size:22 final size:20
Alignment explanation
Indices: 30880--30935 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
30870 TACCCCTACC
*
30880 ATGGTATCGATACTACTATATT
1 ATGGTACCGATACTAC--TATT
30902 ATGGTACCGATACT-CTATT
1 ATGGTACCGATACTACTATT
* *
30921 ACGGTACCAATACTA
1 ATGGTACCGATACTA
30936 TTTTATGCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 16 0.53
21 1 0.03
22 13 0.43
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (20 bp):
ATGGTACCGATACTACTATT
Found at i:30920 original size:19 final size:19
Alignment explanation
Indices: 30893--30936 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
30883 GTATCGATAC
* *
30893 TACTATATTATGGTACCGA
1 TACTATATTACGGTACCAA
*
30912 TACTCTATTACGGTACCAA
1 TACTATATTACGGTACCAA
30931 TACTAT
1 TACTAT
30937 TTTATGCATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.36
Consensus pattern (19 bp):
TACTATATTACGGTACCAA
Found at i:33473 original size:24 final size:24
Alignment explanation
Indices: 33446--33511 Score: 98
Period size: 24 Copynumber: 2.8 Consensus size: 24
33436 TCTACGCGAT
33446 ACTTTATGTGCAATTCTACGTGGC
1 ACTTTATGTGCAATTCTACGTGGC
*
33470 ACTTTATGTGCAATTCTATGTGGC
1 ACTTTATGTGCAATTCTACGTGGC
*
33494 A-TTACATGTGCAATTCTA
1 ACTT-TATGTGCAATTCTA
33512 TGCGACACTA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
23 2 0.05
24 37 0.95
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (24 bp):
ACTTTATGTGCAATTCTACGTGGC
Found at i:33491 original size:12 final size:12
Alignment explanation
Indices: 33450--33513 Score: 62
Period size: 12 Copynumber: 5.3 Consensus size: 12
33440 CGCGATACTT
33450 TATGTGCAATTC
1 TATGTGCAATTC
* *
33462 TACGTGGCACTT-
1 TATGT-GCAATTC
33474 TATGTGCAATTC
1 TATGTGCAATTC
33486 TATGTGGC-ATTAC
1 TATGT-GCAATT-C
33499 -ATGTGCAATTC
1 TATGTGCAATTC
33510 TATG
1 TATG
33514 CGACACTATT
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
11 8 0.19
12 26 0.62
13 8 0.19
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.39
Consensus pattern (12 bp):
TATGTGCAATTC
Found at i:35852 original size:13 final size:12
Alignment explanation
Indices: 35834--35879 Score: 56
Period size: 13 Copynumber: 3.6 Consensus size: 12
35824 ACTTGAATAA
*
35834 TGACTTGGACTGT
1 TGACTTTGA-TGT
35847 TGACTTTGATAGT
1 TGACTTTGAT-GT
35860 TGACTTTGATCGT
1 TGACTTTGAT-GT
35873 TGACTTT
1 TGACTTT
35880 TTTCTAAGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 1 0.03
13 29 0.97
ACGTcount: A:0.17, C:0.13, G:0.24, T:0.46
Consensus pattern (12 bp):
TGACTTTGATGT
Found at i:37608 original size:23 final size:23
Alignment explanation
Indices: 37556--37632 Score: 109
Period size: 23 Copynumber: 3.2 Consensus size: 23
37546 AAATATTAAA
*
37556 TAATTAAATTAATTTTAATCATTAAT
1 TAATT-AATTAATTTTGAT-A-TAAT
37582 TAATTAATTAATTTTGATATAAT
1 TAATTAATTAATTTTGATATAAT
*
37605 TAATTAATTAATTTTGATAAAAT
1 TAATTAATTAATTTTGATATAAT
37628 TAATT
1 TAATT
37633 TTTCTATAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
23 31 0.63
24 1 0.02
25 12 0.24
26 5 0.10
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (23 bp):
TAATTAATTAATTTTGATATAAT
Found at i:37632 original size:4 final size:4
Alignment explanation
Indices: 37540--37617 Score: 60
Period size: 4 Copynumber: 20.5 Consensus size: 4
37530 ATTCATATAC
* * *
37540 TTAA TTAA AT-A TTAA ATAA TTAAA TTAA TT-- TTAA -TCA TTAA TTAA
1 TTAA TTAA TTAA TTAA TTAA TT-AA TTAA TTAA TTAA TTAA TTAA TTAA
*
37585 TTAA TTAA TT-- TTGA TATAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA T-TAA TTAA TTAA TTAA TT
37618 TTGATAAAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
2 4 0.07
3 4 0.07
4 44 0.75
5 7 0.12
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (4 bp):
TTAA
Found at i:38970 original size:7 final size:7
Alignment explanation
Indices: 38960--39114 Score: 76
Period size: 7 Copynumber: 21.9 Consensus size: 7
38950 ATTTATATTA
38960 TATATAT
1 TATATAT
38967 TATAGTAT
1 TATA-TAT
38975 T-TATAT
1 TATATAT
*
38981 TTTATAT
1 TATATAT
*
38988 TATATAG
1 TATATAT
38995 TATATTAT
1 TATA-TAT
39003 TA-A-AT
1 TATATAT
*
39008 AATAT-T
1 TATATAT
*
39014 TATATTT
1 TATATAT
39021 TATAT-T
1 TATATAT
39027 TATATAT
1 TATATAT
39034 AGTATATAT
1 --TATATAT
*
39043 TACATTAT
1 TATA-TAT
39051 TAT-TAGT
1 TATATA-T
39058 T-TATAT
1 TATATAT
39064 TATATAT
1 TATATAT
39071 ATAATATAT
1 -T-ATATAT
*
39080 GT-TATAG
1 -TATATAT
*
39087 TATACGA-
1 TATA-TAT
39094 TATATAGT
1 TATATA-T
*
39102 TTTATAT
1 TATATAT
39109 TATATA
1 TATATA
39115 ATACAATATT
Statistics
Matches: 116, Mismatches: 13, Indels: 38
0.69 0.08 0.23
Matches are distributed among these distances:
5 3 0.03
6 23 0.20
7 56 0.48
8 20 0.17
9 14 0.12
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.54
Consensus pattern (7 bp):
TATATAT
Found at i:38978 original size:38 final size:36
Alignment explanation
Indices: 38926--39085 Score: 130
Period size: 38 Copynumber: 4.2 Consensus size: 36
38916 TGTTTAGTAT
*
38926 TATA-TATAAT-TTTATATTATGTGTATTTATATTATA
1 TATATTATAATATTTATATT-T-TATATTTATATTATA
* *
38962 TATATTATAGTATTTATATTTTATATTATATAGTATA
1 TATATTATAATATTTATATTTTATATT-TATATTATA
38999 T-TATTAAATAATATTTATATTTTATATTTATATATAGTA
1 TATATT--ATAATATTTATATTTTATATTTATAT-TA-TA
* * *
39038 TATATTACATTA-TTATTAGTTTATATTATATATATAATA
1 TATATTATAATATTTA-TATTTTATATT-TATAT-T-ATA
*
39077 TATGTTATA
1 TATATTATA
39086 GTATACGATA
Statistics
Matches: 103, Mismatches: 10, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
36 13 0.13
37 22 0.21
38 44 0.43
39 19 0.18
40 5 0.05
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (36 bp):
TATATTATAATATTTATATTTTATATTTATATTATA
Found at i:38990 original size:45 final size:45
Alignment explanation
Indices: 38934--39052 Score: 118
Period size: 45 Copynumber: 2.6 Consensus size: 45
38924 ATTATATATA
* * *
38934 ATTTTATATTATGT-GTATTTATATTATAT-ATA-TTATAGTATTTAT
1 ATTTTATATTATATAGTATAT-TATTAAATAATATTTATA-T-TTTAT
38979 ATTTTATATTATATAGTATATTATTAAATAATATTTATATTTTAT
1 ATTTTATATTATATAGTATATTATTAAATAATATTTATATTTTAT
* *
39024 ATTTATATATAGTATATATTACATTATTA
1 ATTT-TATAT--TATATAGTATATTATTA
39053 TTAGTTTATA
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
45 29 0.46
46 14 0.22
47 5 0.08
48 15 0.24
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (45 bp):
ATTTTATATTATATAGTATATTATTAAATAATATTTATATTTTAT
Found at i:39040 original size:76 final size:73
Alignment explanation
Indices: 38923--39078 Score: 183
Period size: 76 Copynumber: 2.1 Consensus size: 73
38913 TTATGTTTAG
* * * *
38923 TATTATATATAATTTTATATTATGTGTATTTATATTATATATATTATAGTATT-TATATTTTATA
1 TATTATAAATAATTTTATATTATGTATATTTATATTATATATATTACAGTATTAT-TAGTTTATA
38987 TTATATAGTA
65 TTATATA-TA
*
38997 TATTATTAAATAATATTTATATT-T-TATATTTATATATAGTATATATTACATTATTATTAGTTT
1 TATTA-TAAATAAT-TTTATATTATGTATATTTATAT-TA-TATATATTACAGTATTATTAGTTT
39060 ATATTATATATA
62 ATATTATATATA
*
39072 TAATATA
1 TATTATA
39079 TGTTATAGTA
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
74 17 0.24
75 16 0.23
76 37 0.52
77 1 0.01
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (73 bp):
TATTATAAATAATTTTATATTATGTATATTTATATTATATATATTACAGTATTATTAGTTTATAT
TATATATA
Done.