Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000124.1 Hibiscus syriacus cultivar Beakdansim tig00000223_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: 81885
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Found at i:2502 original size:22 final size:21
Alignment explanation
Indices: 2474--2552 Score: 95
Period size: 22 Copynumber: 3.7 Consensus size: 21
2464 TACCCTAACA
2474 GTGCATCGATGCATCCTTGAAT
1 GTGCATCGATGCA-CCTTGAAT
* * *
2496 GTGCATCGATACACCATGAAG
1 GTGCATCGATGCACCTTGAAT
* *
2517 GTGCACCAATGCACCCTTGAAT
1 GTGCATCGATGCA-CCTTGAAT
2539 GTGCATCGATGCAC
1 GTGCATCGATGCAC
2553 AAGGCCAGCA
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
21 17 0.37
22 29 0.63
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (21 bp):
GTGCATCGATGCACCTTGAAT
Found at i:4101 original size:21 final size:21
Alignment explanation
Indices: 4060--4102 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4050 AAACTCCGGT
*
4060 TAGCTCTTCACGAGCTGCTCC
1 TAGCTCTTCACGAGCTCCTCC
* *
4081 TAGCTCTTCTCGTGCTCCTCC
1 TAGCTCTTCACGAGCTCCTCC
4102 T
1 T
4103 TCTCCTCCGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.40, G:0.16, T:0.35
Consensus pattern (21 bp):
TAGCTCTTCACGAGCTCCTCC
Found at i:17341 original size:42 final size:42
Alignment explanation
Indices: 17282--17401 Score: 161
Period size: 42 Copynumber: 2.9 Consensus size: 42
17272 GAAGCATTAG
* * *
17282 GTGGTGATGAATGTGAAGAAGATGGAATTGCAGTAGTGCTAT
1 GTGGTGATGAATGTGAAGGAGATGGAATAGCAGTAGTACTAT
* * * *
17324 GTGGTGAAGAATGTGAAGGAGATGGAATAGTAGTAATATTAT
1 GTGGTGATGAATGTGAAGGAGATGGAATAGCAGTAGTACTAT
17366 GTGGTGATGAATGT-AATGGAGATGGAATAGCAGTAG
1 GTGGTGATGAATGTGAA-GGAGATGGAATAGCAGTAG
17402 AGTGATGAGG
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
41 2 0.03
42 65 0.97
ACGTcount: A:0.34, C:0.03, G:0.36, T:0.28
Consensus pattern (42 bp):
GTGGTGATGAATGTGAAGGAGATGGAATAGCAGTAGTACTAT
Found at i:17414 original size:42 final size:41
Alignment explanation
Indices: 17282--17416 Score: 155
Period size: 42 Copynumber: 3.2 Consensus size: 41
17272 GAAGCATTAG
* * *
17282 GTGGTGATGAATGTGAAGAAGATGGAATTGCAGTAGTGCTAT
1 GTGGTGATGAATGTGAAGGAGATGGAATAGCAGTAGAG-TAT
* * * *
17324 GTGGTGAAGAATGTGAAGGAGATGGAATAGTAGTAATATTAT
1 GTGGTGATGAATGTGAAGGAGATGGAATAGCAGT-AGAGTAT
17366 GTGGTGATGAATGT-AATGGAGATGGAATAGCAGTAGAGTGAT
1 GTGGTGATGAATGTGAA-GGAGATGGAATAGCAGTAGAGT-AT
*
17408 GAGGTGATG
1 GTGGTGATG
17417 TGGACAAAAC
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
41 5 0.06
42 72 0.92
43 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.37, T:0.27
Consensus pattern (41 bp):
GTGGTGATGAATGTGAAGGAGATGGAATAGCAGTAGAGTAT
Found at i:18665 original size:21 final size:21
Alignment explanation
Indices: 18623--18667 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
18613 GTAGCTAATC
*
18623 GTTTGAGTTGGTTAGAAGTCT
1 GTTTGAGTTGGTTAGAACTCT
* **
18644 GTTTGAGTTTGTTAGGCCTCT
1 GTTTGAGTTGGTTAGAACTCT
18665 GTT
1 GTT
18668 GGGTTATATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.13, C:0.09, G:0.31, T:0.47
Consensus pattern (21 bp):
GTTTGAGTTGGTTAGAACTCT
Found at i:19083 original size:6 final size:6
Alignment explanation
Indices: 19044--19082 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
19034 TATATGAAAC
*
19044 GAGCTT GAGCTT GAGCTT GAGCTT GAGCTT GAGTTT GAG
1 GAGCTT GAGCTT GAGCTT GAGCTT GAGCTT GAGCTT GAG
19083 TATATAAATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.18, C:0.13, G:0.36, T:0.33
Consensus pattern (6 bp):
GAGCTT
Found at i:30629 original size:23 final size:24
Alignment explanation
Indices: 30603--30647 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
30593 AATATGATCA
30603 AAGAAAATAAAA-ATTGAGAGATT
1 AAGAAAATAAAAGATTGAGAGATT
* *
30626 AAGATAATAAAAGATTTAGAGA
1 AAGAAAATAAAAGATTGAGAGA
30648 AGAAAGGGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.60, C:0.00, G:0.18, T:0.22
Consensus pattern (24 bp):
AAGAAAATAAAAGATTGAGAGATT
Found at i:34498 original size:6 final size:6
Alignment explanation
Indices: 34487--34516 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
34477 ATGCGTCTCT
34487 CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA
1 CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA
34517 ATTTTAGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.67, G:0.00, T:0.17
Consensus pattern (6 bp):
CCTCCA
Found at i:35141 original size:35 final size:35
Alignment explanation
Indices: 35099--35168 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
35089 AAGATTTCCA
*
35099 AATATTATTCATTATAAACCTAAAATA-TATTAAAT
1 AATATTATTCATTATAAA-ATAAAATATTATTAAAT
* * *
35134 AATATTATTTATTTTAAAATATAATATTATTAAAT
1 AATATTATTCATTATAAAATAAAATATTATTAAAT
35169 TTAAAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 6 0.20
35 24 0.80
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (35 bp):
AATATTATTCATTATAAAATAAAATATTATTAAAT
Found at i:35158 original size:22 final size:22
Alignment explanation
Indices: 35132--35186 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
35122 AATATATTAA
* *
35132 ATAATATTATTTATTTTAAAAT
1 ATAATATTATTAAATTTAAAAT
35154 ATAATATTATTAAATTTAAAAT
1 ATAATATTATTAAATTTAAAAT
*
35176 ATTATAGTTAT
1 ATAATA-TTAT
35187 GATTTAGTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 25 0.86
23 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
ATAATATTATTAAATTTAAAAT
Found at i:36723 original size:6 final size:6
Alignment explanation
Indices: 36712--36745 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
36702 GAAGACACGT
36712 ACGACC ACGACC ACGACC ACGACC -CGACC -CGACC
1 ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC
36746 CACCCGACCC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.36
6 18 0.64
ACGTcount: A:0.29, C:0.53, G:0.18, T:0.00
Consensus pattern (6 bp):
ACGACC
Found at i:36741 original size:5 final size:5
Alignment explanation
Indices: 36713--36762 Score: 66
Period size: 5 Copynumber: 9.6 Consensus size: 5
36703 AAGACACGTA
36713 CGACC ACGACC ACGACC ACGACC CGACC CGACC C-ACC CGACC CGACC
1 CGACC -CGACC -CGACC -CGACC CGACC CGACC CGACC CGACC CGACC
36760 CGA
1 CGA
36763 GACGGCGGCG
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.09
5 22 0.51
6 17 0.40
ACGTcount: A:0.26, C:0.56, G:0.18, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:36752 original size:14 final size:15
Alignment explanation
Indices: 36713--36762 Score: 66
Period size: 14 Copynumber: 3.2 Consensus size: 15
36703 AAGACACGTA
36713 CGACCACGACCACGACC
1 CGACC-CGACC-CGACC
36730 ACGACCCGACCCGACC
1 -CGACCCGACCCGACC
36746 C-ACCCGACCCGACC
1 CGACCCGACCCGACC
36760 CGA
1 CGA
36763 GACGGCGGCG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 14 0.45
15 2 0.06
16 5 0.16
17 5 0.16
18 5 0.16
ACGTcount: A:0.26, C:0.56, G:0.18, T:0.00
Consensus pattern (15 bp):
CGACCCGACCCGACC
Found at i:36945 original size:20 final size:19
Alignment explanation
Indices: 36920--36989 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 19
36910 ACTGTACACT
36920 ATCGCAACGCGAAATGGATA
1 ATCGCAACGCGAAATGGA-A
** **
36940 ATCGCAACGCGATTTTCAA
1 ATCGCAACGCGAAATGGAA
36959 CTATCGCAACGCGAAATGGAAA
1 --ATCGCAACGCGAAATGG-AA
36981 ATCGCAACG
1 ATCGCAACG
36990 ATACTGTAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 1 0.03
20 23 0.59
21 13 0.33
22 2 0.05
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.17
Consensus pattern (19 bp):
ATCGCAACGCGAAATGGAA
Found at i:36966 original size:21 final size:21
Alignment explanation
Indices: 36940--37034 Score: 77
Period size: 21 Copynumber: 4.6 Consensus size: 21
36930 GAAATGGATA
36940 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
** ** *
36961 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGATTTTCAACT
** * *
36981 ATCGCAACGATACTGT-AGACT
1 ATCGCAACGCGATTTTCA-ACT
*
37002 ATCGCAACACGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
37023 ATCGCAACGCGA
1 ATCGCAACGCGA
37035 AATGCAGCGC
Statistics
Matches: 53, Mismatches: 18, Indels: 6
0.69 0.23 0.08
Matches are distributed among these distances:
19 1 0.02
20 11 0.21
21 40 0.75
22 1 0.02
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:37003 original size:41 final size:40
Alignment explanation
Indices: 36908--37009 Score: 132
Period size: 41 Copynumber: 2.5 Consensus size: 40
36898 CAAAGAAAAT
*
36908 ATACTGTACACTATCGCAACGCGAAATGGATAATCGCAACG
1 ATACTGTA-ACTATCGCAACGCGAAATGGAAAATCGCAACG
** * *
36949 CGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACG
1 ATACTGT-AACTATCGCAACGCGAAATGGAAAATCGCAACG
36990 ATACTGTAGACTATCGCAAC
1 ATACTGTA-ACTATCGCAAC
37010 ACGATTTTCA
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
40 1 0.02
41 48 0.96
42 1 0.02
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.21
Consensus pattern (40 bp):
ATACTGTAACTATCGCAACGCGAAATGGAAAATCGCAACG
Found at i:44450 original size:10 final size:10
Alignment explanation
Indices: 44426--44483 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
44416 CTTTTTTAAA
* *
44426 AAAAATAAAG
1 AAAAATCAAT
44436 AAAAATTCAAT
1 AAAAA-TCAAT
*
44447 AAAAATGAATT
1 AAAAATCAA-T
*
44458 AAAAATGAAT
1 AAAAATCAAT
*
44468 AAAATTCAAT
1 AAAAATCAAT
44478 AAAAAT
1 AAAAAT
44484 ATAATGTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
10 22 0.55
11 18 0.45
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.22
Consensus pattern (10 bp):
AAAAATCAAT
Found at i:44840 original size:11 final size:10
Alignment explanation
Indices: 44816--44861 Score: 56
Period size: 11 Copynumber: 4.4 Consensus size: 10
44806 ATTTTTTTAA
* *
44816 AAAAATAAAG
1 AAAAATGAAT
44826 AAAAATGCAAT
1 AAAAATG-AAT
44837 AAAAATGAATT
1 AAAAATGAA-T
44848 AAAAATGAAT
1 AAAAATGAAT
44858 AAAA
1 AAAA
44862 TTCAACAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 13 0.41
11 19 0.59
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.17
Consensus pattern (10 bp):
AAAAATGAAT
Found at i:44841 original size:21 final size:21
Alignment explanation
Indices: 44816--44861 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
44806 ATTTTTTTAA
44816 AAAAAT-AAAGAAAAATGCAAT
1 AAAAATGAAAGAAAAATG-AAT
**
44837 AAAAATGAATTAAAAATGAAT
1 AAAAATGAAAGAAAAATGAAT
44858 AAAA
1 AAAA
44862 TTCAACAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.17
Consensus pattern (21 bp):
AAAAATGAAAGAAAAATGAAT
Found at i:50958 original size:37 final size:37
Alignment explanation
Indices: 50905--51009 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
50895 CCTTTTCGTC
* *
50905 CTACTAGGATTCAAACTCCTAAAAATTGGATATAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
50942 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
50979 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
51010 CCATAAGCAC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:51514 original size:62 final size:63
Alignment explanation
Indices: 51431--51588 Score: 169
Period size: 64 Copynumber: 2.5 Consensus size: 63
51421 CATTATATAA
* * *
51431 ATATATATACGTATGTTTTTTTAAATGATTTTCAATT-G-ATTTTTTTACACTATATATTATTAT
1 ATATATATACATATATTTTTTTAAAT-ATTTTCAATTGGTATTTTTTAACACTATAT-TTATTAT
* ** * * *
51494 -TATATATACATATATATTTTTATTTATATTCATTTGGTTATTTTTTAATACTATATTTATTAT
1 ATATATATACATATATTTTTTTAAATATTTTCAATTGG-TATTTTTTAACACTATATTTATTAT
*
51557 ATATATATATATATACTTTTTTTAAATATTTT
1 ATATATATACATATA-TTTTTTTAAATATTTT
51589 ACTTATAAGC
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
61 8 0.11
62 21 0.28
63 7 0.09
64 28 0.37
65 12 0.16
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (63 bp):
ATATATATACATATATTTTTTTAAATATTTTCAATTGGTATTTTTTAACACTATATTTATTAT
Found at i:51852 original size:4 final size:4
Alignment explanation
Indices: 51839--51889 Score: 50
Period size: 4 Copynumber: 12.2 Consensus size: 4
51829 TATATATTAA
* *
51839 TATT TCATT TATT TATT TATT TATT CT-TT TATTT TATT TTTT TACT TATT
1 TATT T-ATT TATT TATT TATT TATT -TATT TA-TT TATT TATT TATT TATT
51889 T
1 T
51890 TTATTCTTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
3 1 0.03
4 29 0.74
5 9 0.23
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:51890 original size:12 final size:12
Alignment explanation
Indices: 51847--51906 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
51837 AATATTTCAT
* *
51847 TTATTTATTTAT
1 TTATTTTTTTAC
* *
51859 TTATTCTTTTATT
1 TTATTTTTTTA-C
51872 TTATTTTTTTAC
1 TTATTTTTTTAC
51884 TTATTTTTATT-C
1 TTATTTTT-TTAC
51896 TTCATTTTTTT
1 TT-ATTTTTTT
51907 CATTTATTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
12 22 0.54
13 19 0.46
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (12 bp):
TTATTTTTTTAC
Found at i:52735 original size:23 final size:23
Alignment explanation
Indices: 52707--52753 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
52697 TATATGTATA
52707 TATTTAATTAT-ATTTTATTT-ATT
1 TATTT-ATTATAATTTT-TTTCATT
52730 TATTTATTATAATTTTTTTCATT
1 TATTTATTATAATTTTTTTCATT
52753 T
1 T
52754 TTCTTTGCGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (23 bp):
TATTTATTATAATTTTTTTCATT
Found at i:52822 original size:30 final size:31
Alignment explanation
Indices: 52764--52851 Score: 87
Period size: 30 Copynumber: 2.9 Consensus size: 31
52754 TTCTTTGCGT
52764 TATATTATATTATTTTCCTATTAT-TATATATA-
1 TATATTATATTATTTT--T-TTATCTATATATAC
*
52796 TATATTATATTATTTTTTTATCTATATTTAC
1 TATATTATATTATTTTTTTATCTATATATAC
*
52827 T-TATT-TAATATGTTTTTTA-CTATAT
1 TATATTATATTAT-TTTTTTATCTATAT
52852 TTTCCTAACG
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
29 15 0.29
30 19 0.37
31 1 0.02
32 16 0.31
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (31 bp):
TATATTATATTATTTTTTTATCTATATATAC
Found at i:52982 original size:51 final size:49
Alignment explanation
Indices: 52924--53057 Score: 119
Period size: 51 Copynumber: 2.6 Consensus size: 49
52914 TTTTAGTTAA
52924 TATTATATGTATATTTATTTTTCATTTATTTATTATTACTATTTAGTATTT
1 TATTATAT-TATATTTATTTTTCATTTATTTA-TATTACTATTTAGTATTT
** * * * *
52975 TATTATATTATACATACATTTTCATATT-TTTATATTATTTTTTATTATTT
1 TATTATATTATATTTA-TTTTTCAT-TTATTTATATTACTATTTAGTATTT
*
53025 TATTTATACTATTTATTTATTTTT-ATTATATTT
1 TA-TTATA-T-TATATTTATTTTTCATT-TATTT
53058 TTAGTTTCTT
Statistics
Matches: 66, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
50 24 0.36
51 27 0.41
52 10 0.15
53 5 0.08
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.66
Consensus pattern (49 bp):
TATTATATTATATTTATTTTTCATTTATTTATATTACTATTTAGTATTT
Found at i:55999 original size:149 final size:149
Alignment explanation
Indices: 55805--56108 Score: 574
Period size: 149 Copynumber: 2.0 Consensus size: 149
55795 GGGTAGAGGG
*
55805 TCTACGCGGTTCTTTGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTGAGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
55870 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
55935 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
55954 TCTACGCGGTTCTTT-AGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACA
1 TCTACGCGGTTCTTTGA-GACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACA
56018 TACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
65 TACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
56083 ATATGGCACTACGGTGCAAT
130 ATATGGCACTACGGTGCAAT
56103 TCTACG
1 TCTACG
56109 GGGCACTTCG
Statistics
Matches: 152, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
148 1 0.01
149 151 0.99
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (149 bp):
TCTACGCGGTTCTTTGAGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:56131 original size:23 final size:23
Alignment explanation
Indices: 56087--56131 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
56077 ATCATTATAT
*
56087 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
56110 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
56132 AGCTGTGGTG
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:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:62274 original size:149 final size:149
Alignment explanation
Indices: 62081--62384 Score: 581
Period size: 149 Copynumber: 2.0 Consensus size: 149
62071 GGGTAGAGGG
* *
62081 TCTACGCGGTTCTTTGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
62146 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
62211 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
62230 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
62295 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
62360 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
62379 TCTACG
1 TCTACG
62385 GGGCACTTCG
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 152 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.36
Consensus pattern (149 bp):
TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:62407 original size:23 final size:23
Alignment explanation
Indices: 62363--62407 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
62353 ATCATTATAT
*
62363 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
62386 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
62408 AGCTGTGGTG
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:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:65649 original size:16 final size:15
Alignment explanation
Indices: 65619--65658 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
65609 AGCAAAAAGC
65619 AAAGAAAAAAGAGAA
1 AAAGAAAAAAGAGAA
65634 ACAAGAACAAAA-AGAA
1 A-AAGAA-AAAAGAGAA
65650 AAAGAAAAA
1 AAAGAAAAA
65659 GGGACAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 3 0.13
15 6 0.26
16 10 0.43
17 4 0.17
ACGTcount: A:0.80, C:0.05, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAGAGAA
Found at i:66503 original size:22 final size:22
Alignment explanation
Indices: 66429--66505 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
66419 GCTACCCCAT
*
66429 CAAACCGTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
66451 CAAACCTATGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
66473 CAAACCTTTGAGCATAAAATGC
1 CAAACCTTTGAGCATCAAATGC
66495 CAAACCTTTGA
1 CAAACCTTTGA
66506 CCAAACATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.39, C:0.26, G:0.14, T:0.21
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:67431 original size:106 final size:106
Alignment explanation
Indices: 67274--68329 Score: 1522
Period size: 106 Copynumber: 10.0 Consensus size: 106
67264 ATATCGTGCC
* * * *
67274 ACTCAAGACAACACAAGTTCAACTTCACAATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
67339 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
67380 ACTCCAGAAAACGCAAGTTCAACTTCGCGACGAAGGGACCGCCGGTTGTCAATAAACAATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
*
67445 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
67486 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
67551 AATTTCAGAGCCAATTTCAACTTCACAACGAA-GATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
67591 ACTCTAGACAACACAAGTTCAACTTCACGACGAAGGGACCCCTGGTTGTCAACAAACAATTTC-C
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
* * *
67655 AAATTTCAGAGCCAATTTTAAATTCACAGCGAAGGATATTGG
66 -AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
67697 ACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
*
67762 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
67803 ACTCCAGACAAGGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
*
67868 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
67909 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACAATTTC-C
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
*
67973 AAATTTCAGAGCCAATTTCAACTTCACAACGTAGGATATTGG
66 -AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
68015 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
* * *
68080 AATTTCAGAGCCAATTTCAACTTCTCAGCGAAGGATCTTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
68121 AC-CCAAGACAACACAAGCTCAACTTCACGACGAAGGGGCCGCTGATTGTCAA-AAA-AA--T-T
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
* *
68180 C-A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * * *
68220 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
** * * *
68285 GGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
68326 ACTC
1 ACTC
68330 AAAACAATGC
Statistics
Matches: 860, Mismatches: 76, Indels: 28
0.89 0.08 0.03
Matches are distributed among these distances:
99 79 0.09
100 5 0.01
101 3 0.00
102 1 0.00
103 1 0.00
104 4 0.00
105 101 0.12
106 664 0.77
107 2 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:68102 original size:529 final size:523
Alignment explanation
Indices: 67287--68329 Score: 1660
Period size: 529 Copynumber: 2.0 Consensus size: 523
67277 CAAGACAACA
*
67287 CAAGTTCAACTTCACAATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
1 CAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
*
67352 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGAAAACGCAAGTTCAACTTCGCGACGAAGGG
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGAAAACGCAAGTTCAACTTCACGACGAAGGG
*
67417 ACCGCCGGTTGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
131 ACCGCCGGTTGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATA
*
67482 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACAACT
196 TTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACAACT
* * * *
67547 TCTCAATTTCAGAGCCAATTTCAACTTCACAACGAA-GATATTGGACTCTAGACAACACAAGTTC
261 TCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACCCAAGACAACACAAGCTC
* *
67611 AACTTCACGACGAAGGGACCCCTGGTTGTCAACAAACAATTTCCAAATTTCAGAGCCAATTTTAA
326 AACTTCACGACGAAGGGACCCCTGATTGTCAA-AAA-AA-TT-C--A-TTCAGAGCCAATTTCAA
* **
67676 ATTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTG
384 ATTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTG
* *
67741 GTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCAC-AGCGAAGGATATTGGAC
449 GTTGTCAACAAACAACTTCCCAATTCCAGAGCCAATTTCAACTTCACGA-CGAAGGATATTGGAC
67805 TCCAGACAAGG
513 TCCAGACAAGG
* *
67816 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTTAGAGCCA
1 CAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
* *
67881 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGG
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGAAAACGCAAGTTCAACTTCACGACGAAGGG
* *
67946 ACCGCTGGTTGTCAATAAACAATTTC-CAAATTTCAGAGCCAATTTCAACTTCACAACGTAGGAT
131 ACCGCCGGTTGTCAATAAACAATTTCTC-AATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
*
68010 ATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAAC
195 ATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACAAC
* * *
68075 TTCCCAATTTCAGAGCCAATTTCAACTTCTCAGCGAAGGATCTTGGACCCAAGACAACACAAGCT
260 TTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACCCAAGACAACACAAGCT
* * * *
68140 CAACTTCACGACGAAGGGGCCGCTGATTGTCAAAAAAATTCATTCAGAGTCAATTTCAACTTCAC
325 CAACTTCACGACGAAGGGACCCCTGATTGTCAAAAAAATTCATTCAGAGCCAATTTCAAATTCAC
* *
68205 AGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTC
390 AGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTC
* * ** *
68270 AACAAATAATTTCCCGGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGGACTC
455 AACAAACAACTTCCCAATTCCAGAGCCAATTTCAACTTCACGACGAAGGATATTGGACTC
68330 AAAACAATGC
Statistics
Matches: 475, Mismatches: 36, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
523 131 0.28
524 2 0.00
526 1 0.00
527 2 0.00
528 3 0.01
529 283 0.60
530 53 0.11
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (523 bp):
CAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGAAAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCCGGTTGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATA
TTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACAACT
TCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACCCAAGACAACACAAGCTC
AACTTCACGACGAAGGGACCCCTGATTGTCAAAAAAATTCATTCAGAGCCAATTTCAAATTCACA
GCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCA
ACAAACAACTTCCCAATTCCAGAGCCAATTTCAACTTCACGACGAAGGATATTGGACTCCAGACA
AGG
Found at i:69563 original size:23 final size:23
Alignment explanation
Indices: 69535--69581 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
69525 TGTATATATA
69535 TATTTAATTAT-ATTTTATTT-ATT
1 TATTT-ATTATAATTTT-TTTCATT
69558 TATTTATTATAATTTTTTTCATT
1 TATTTATTATAATTTTTTTCATT
69581 T
1 T
69582 TTCTTTGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (23 bp):
TATTTATTATAATTTTTTTCATT
Found at i:69835 original size:24 final size:25
Alignment explanation
Indices: 69807--69869 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 25
69797 ATTTAGTATT
69807 TTATTATATTATACATACAT-TTTTA
1 TTATT-TATTATACATACATATTTTA
* *
69832 -TATTT-TTATATATATATATTTTA
1 TTATTTATTATACATACATATTTTA
69855 TTATTTTATTTATAC
1 TTA-TTTA-TTATAC
69870 TATTTATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
22 10 0.33
23 6 0.20
24 6 0.20
25 3 0.10
27 5 0.17
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (25 bp):
TTATTTATTATACATACATATTTTA
Found at i:69868 original size:21 final size:21
Alignment explanation
Indices: 69763--69896 Score: 70
Period size: 21 Copynumber: 6.4 Consensus size: 21
69753 ATATTATATG
69763 TATA-TTTATT-TTTTATTTA
1 TATATTTTATTATTTTATTTA
* *
69782 T-T-TATTATTATTACTATTTA
1 TATATTTTATTATT-TTATTTA
* * **
69802 -GTATTTTATTATATTATACA
1 TATATTTTATTATTTTATTTA
*
69822 TACATTTT-TATATTTTTATATATA
1 TATATTTTAT-TA-TTTTAT-T-TA
69846 TATATTTTATTATTTTATTTA
1 TATATTTTATTATTTTATTTA
69867 TACTA-TTTATTTATTTTCA-TTA
1 TA-TATTTTA-TTATTTT-ATTTA
69889 TAT-TTTTA
1 TATATTTTA
69897 GTTTCTTTGC
Statistics
Matches: 87, Mismatches: 13, Indels: 28
0.68 0.10 0.22
Matches are distributed among these distances:
18 6 0.07
19 3 0.03
20 12 0.14
21 28 0.32
22 20 0.23
23 7 0.08
24 10 0.11
25 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.66
Consensus pattern (21 bp):
TATATTTTATTATTTTATTTA
Found at i:69891 original size:45 final size:45
Alignment explanation
Indices: 69776--69891 Score: 112
Period size: 45 Copynumber: 2.5 Consensus size: 45
69766 ATTTATTTTT
69776 TATTTATTTATTATTATTACTATTTAGTATTTTATTATATTATACATAC
1 TATTTATTTATT-TTATTA-TA--TAGTATTTTATTATATTATACATAC
* **
69825 -ATTT-TTATATTTTTATATATATA-TATTTTATTATTTTATTTATAC
1 TATTTATT-TA-TTTTAT-TATATAGTATTTTATTATATTATACATAC
69870 TATTTATTTATTTTCATTATAT
1 TATTTATTTATTTT-ATTATAT
69892 TTTTAGTTTC
Statistics
Matches: 58, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
45 28 0.48
46 10 0.17
47 4 0.07
48 12 0.21
49 4 0.07
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (45 bp):
TATTTATTTATTTTATTATATAGTATTTTATTATATTATACATAC
Found at i:74506 original size:21 final size:21
Alignment explanation
Indices: 74482--74521 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
74472 CCGTTCTCCC
*
74482 CAAAGCTTTCATCTTTCTCTT
1 CAAAGCTTCCATCTTTCTCTT
*
74503 CAAAGCTTCCATTTTTCTC
1 CAAAGCTTCCATCTTTCTC
74522 AACCAAACGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.30, G:0.05, T:0.45
Consensus pattern (21 bp):
CAAAGCTTCCATCTTTCTCTT
Found at i:79384 original size:221 final size:214
Alignment explanation
Indices: 78985--79408 Score: 619
Period size: 221 Copynumber: 1.9 Consensus size: 214
78975 ATATCTCCTT
*
78985 TTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGTTAATATT
1 TTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATCTTTAGTTAATATT
* *
79050 GTTAAATTAAATAATATTTTATAAAATATCAAAAAATCAAATAAATTTTTGTGTAAATGAATTAT
66 GTTAAATTAAATAATATTTTATAAAATATCAAAAAATCAAATAAAATTTTGTGTAAATAAATTAT
79115 TAAATTAATATTGTAGGTGGAAAATGAAACACTATTAAAAAAAAATTGAAACATAAATTACATAA
131 TAAATTAATATTGTAGGTGGAAAATGAAACACTATT-AAAAAAAATTGAAACATAAATTACATAA
79180 CTTTCAAAAAAGTATATATCA
195 CTTT-AAAAAAGTATATATCA
*
79201 TTTAT-AAAGTGTCCATACTTA-TTCACTGTTGAAAACATATATTATTA-TAT-TTTGGTTAATA
1 TTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATAT-TTATTATTATCTTTAGTTAATA
79262 TTGTTAAATTTAAATTCTAAATATATTTATAAAATATCAAAACAATCAAATAAAATTTTGTGTAA
64 TTGTTAAA-TTAAA---T-AATAT-TTTATAAAATATCAAAA-AATCAAATAAAATTTTGTGTAA
*
79327 ATTAAATTATTAAATTAA-ATTGTAGGTTGGAAAACATG-AACACTATT-AAATAAATTGAAACA
122 A-TAAATTATTAAATTAATATTGTAGG-TGG-AAA-ATGAAACACTATTAAAAAAAATTGAAACA
79389 TAAATTACATAACTTTAAAA
183 TAAATTACATAACTTTAAAA
79409 GCGGTTATAA
Statistics
Matches: 190, Mismatches: 5, Indels: 22
0.88 0.02 0.10
Matches are distributed among these distances:
214 25 0.13
215 34 0.18
216 11 0.06
218 1 0.01
219 5 0.03
220 21 0.11
221 60 0.32
222 18 0.09
223 12 0.06
224 3 0.02
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (214 bp):
TTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATCTTTAGTTAATATT
GTTAAATTAAATAATATTTTATAAAATATCAAAAAATCAAATAAAATTTTGTGTAAATAAATTAT
TAAATTAATATTGTAGGTGGAAAATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAAC
TTTAAAAAAGTATATATCA
Found at i:79668 original size:20 final size:20
Alignment explanation
Indices: 79643--79680 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
79633 TAACAGGTAA
79643 AAAATGATAAAACCGGTATC
1 AAAATGATAAAACCGGTATC
79663 AAAATGATAAAACCGGTA
1 AAAATGATAAAACCGGTA
79681 AAATGATACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.53, C:0.13, G:0.16, T:0.18
Consensus pattern (20 bp):
AAAATGATAAAACCGGTATC
Done.