Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006574.1 Hibiscus syriacus cultivar Beakdansim tig00016107_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: 131530
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:505 original size:17 final size:17
Alignment explanation
Indices: 480--514 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
470 ACAATCATTC
*
480 TTTACATTCTTTATATT
1 TTTACATTCATTATATT
*
497 TTTAGATTCATTATATT
1 TTTACATTCATTATATT
514 T
1 T
515 CATTTATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.63
Consensus pattern (17 bp):
TTTACATTCATTATATT
Found at i:3891 original size:12 final size:11
Alignment explanation
Indices: 3874--3940 Score: 62
Period size: 12 Copynumber: 5.7 Consensus size: 11
3864 ATGCTTGAAG
3874 AAGAAAAAATAA
1 AAGAAAAAA-AA
3886 AAGAAAAGAAAA
1 AAGAAAA-AAAA
*
3898 AAAAAAGAAAAA
1 AAGAAA-AAAAA
** *
3910 AATTAAGAAAA
1 AAGAAAAAAAA
3921 AAGAAAAAAGAA
1 AAGAAAAAA-AA
3933 AAGAAAAA
1 AAGAAAAA
3941 TGTTGAAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
11 10 0.22
12 32 0.71
13 3 0.07
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:3901 original size:19 final size:18
Alignment explanation
Indices: 3874--3940 Score: 59
Period size: 19 Copynumber: 3.7 Consensus size: 18
3864 ATGCTTGAAG
* *
3874 AAGAAAA-AATAAAAGAA
1 AAGAAAAGAAAAAAAAAA
3891 AAGAAAA-AAAAAAGAAAA
1 AAGAAAAGAAAAAA-AAAA
*
3909 AA-ATTAAGAAAAAAGAAAA
1 AAGA-AAAGAAAAAA-AAAA
3928 AAGAAAAGAAAAA
1 AAGAAAAGAAAAA
3941 TGTTGAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
17 13 0.31
18 7 0.17
19 21 0.50
20 1 0.02
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (18 bp):
AAGAAAAGAAAAAAAAAA
Found at i:3923 original size:30 final size:29
Alignment explanation
Indices: 3871--3960 Score: 108
Period size: 30 Copynumber: 3.0 Consensus size: 29
3861 ATTATGCTTG
*
3871 AAGAAGAAAAAATAAAAGAAAAGAAAAAAAA
1 AAGAA-AAAAATTAAAA-AAAAGAAAAAAAA
3902 AAGAAAAAAATTAAGAAAAAAGAAAAAAGAA
1 AAGAAAAAAATTAA-AAAAAAGAAAAAA-AA
** *
3933 AAGAAAAATGTTGAAAAAAAGAAAAAAA
1 AAGAAAAAAATTAAAAAAAAGAAAAAAA
3961 TAGAAAAGGA
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
29 1 0.02
30 32 0.60
31 20 0.38
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (29 bp):
AAGAAAAAAATTAAAAAAAAGAAAAAAAA
Found at i:4337 original size:18 final size:18
Alignment explanation
Indices: 4314--4348 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
4304 CAAGTTTATC
4314 TTTTTGAAATTCAATTTA
1 TTTTTGAAATTCAATTTA
4332 TTTTTGAAATTCAATTT
1 TTTTTGAAATTCAATTT
4349 GTTTCACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (18 bp):
TTTTTGAAATTCAATTTA
Found at i:5769 original size:122 final size:122
Alignment explanation
Indices: 5619--6157 Score: 843
Period size: 122 Copynumber: 4.4 Consensus size: 122
5609 CATTCGATGA
* * * *
5619 ATCAAATTTTCCAAAGAAGTTTATAATGAGAATAACTTATCTGAAGAGGAAGAAGAAGTTCATAA
1 ATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAA
*
5684 TGAGAAGAGCTTGTTCAACCTTTTGTATGACTCTATCGCAGAAGGAGATAGATCAGC
66 TGAGAAGAGCTTGTTCAACCTTTTGTATGACTCTATCACAGAAGGAGATAGATCAGC
5741 ATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAA
1 ATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAA
* * *
5806 TGAGAAGAGCTTGTTCAACCTTTTGTATGACTCTATCGCAGAAGGATATAGATCATC
66 TGAGAAGAGCTTGTTCAACCTTTTGTATGACTCTATCACAGAAGGAGATAGATCAGC
*
5863 ATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTTATCAGAAGAGGAAGAAGAAGTTCATAA
1 ATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAA
*
5928 TGAGAAGAGCTTGTTCAACCTTTTGTATGACTCTATCACAGAAGGAGATAGATCAAC
66 TGAGAAGAGCTTGTTCAACCTTTTGTATGACTCTATCACAGAAGGAGATAGATCAGC
* * * *
5985 ATCAACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGA--AGGAAGAAGTTCATG
1 ATCAACTTTTCCAGAG-AAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
* * *
6048 ATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATATACCAGC
65 ATGAGAAGAGCTTGTTCAACCTTTTGTATGACTCTATCACAGAAGGAGATAGATCAGC
* * *
6106 ATCAACATTTT-CAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGAAGAAG
1 ATCAAC-TTTTCCAGAGA-AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAG
6158 GAGCAAAACT
Statistics
Matches: 390, Mismatches: 22, Indels: 10
0.92 0.05 0.02
Matches are distributed among these distances:
119 1 0.00
120 28 0.07
121 77 0.20
122 256 0.66
123 28 0.07
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (122 bp):
ATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAA
TGAGAAGAGCTTGTTCAACCTTTTGTATGACTCTATCACAGAAGGAGATAGATCAGC
Found at i:6404 original size:3 final size:3
Alignment explanation
Indices: 6398--6472 Score: 100
Period size: 3 Copynumber: 24.7 Consensus size: 3
6388 TTCATTTGAA
*
6398 TAT TAT T-T ATAT TTAT TAT TAT TAT AAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6444 TA- TAT TAT TATT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TA
6473 CTAAATAATT
Statistics
Matches: 65, Mismatches: 3, Indels: 8
0.86 0.04 0.11
Matches are distributed among these distances:
2 3 0.05
3 55 0.85
4 7 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:6483 original size:27 final size:26
Alignment explanation
Indices: 6399--6483 Score: 104
Period size: 27 Copynumber: 3.3 Consensus size: 26
6389 TCATTTGAAT
6399 ATTATTTA-TATTTATTATTATTAT-A
1 ATTATTTATTA-TTATTATTATTATAA
*
6424 ATTA-TTATTATTATTATTATTATATT
1 ATTATTTATTATTATTATTATTATA-A
6450 ATTATTTATTATTATTATTATTACTAA
1 ATTATTTATTATTATTATTATTA-TAA
*
6477 ATAATTT
1 ATTATTT
6484 TATTTACAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
24 16 0.31
25 6 0.12
26 4 0.08
27 24 0.46
28 2 0.04
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (26 bp):
ATTATTTATTATTATTATTATTATAA
Found at i:7741 original size:2 final size:2
Alignment explanation
Indices: 7734--7794 Score: 104
Period size: 2 Copynumber: 30.5 Consensus size: 2
7724 TTATTGTTAT
7734 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
* *
7776 TA TA TA TA TT TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
7795 TTTTATATGT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:7896 original size:12 final size:12
Alignment explanation
Indices: 7881--7909 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
7871 CTATCTATAA
7881 ATTTTATAAATT
1 ATTTTATAAATT
7893 A-TTTATAAATT
1 ATTTTATAAATT
7904 ATTTTA
1 ATTTTA
7910 ATTATGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTTATAAATT
Found at i:10090 original size:17 final size:17
Alignment explanation
Indices: 10068--10102 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10058 GAGGTCTCCA
*
10068 ATTTTTATCCTATTATT
1 ATTTTTATCCAATTATT
*
10085 ATTTTTATTCAATTATT
1 ATTTTTATCCAATTATT
10102 A
1 A
10103 AATCAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTTTTATCCAATTATT
Found at i:10773 original size:15 final size:16
Alignment explanation
Indices: 10735--10775 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
10725 TTAGAGCCTC
*
10735 TGAATCATTCAGCATT
1 TGAATCATTCAGCACT
*
10751 TGAATCATTCAGCGCT
1 TGAATCATTCAGCACT
10767 T-AATCATTC
1 TGAATCATTC
10776 TGAAGTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (16 bp):
TGAATCATTCAGCACT
Found at i:10981 original size:30 final size:30
Alignment explanation
Indices: 10947--11010 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
10937 TACTAAAGTT
* *
10947 AATTAAATAAA-ATAATTAGTCTAGGGACTA
1 AATTAAAAAAACAT-ATAAGTCTAGGGACTA
*
10977 AATTAAAAAAACATATAAGTCTAGGGACTC
1 AATTAAAAAAACATATAAGTCTAGGGACTA
11007 AATT
1 AATT
11011 GAAACTAACC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.28
Consensus pattern (30 bp):
AATTAAAAAAACATATAAGTCTAGGGACTA
Found at i:39191 original size:20 final size:20
Alignment explanation
Indices: 39166--39320 Score: 152
Period size: 20 Copynumber: 7.7 Consensus size: 20
39156 AATTGGGAAA
39166 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
39186 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
39206 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
39226 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
39247 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
39267 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* * * *
39287 TTTGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
39307 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
39321 TTTCAAAGCG
Statistics
Matches: 114, Mismatches: 16, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
19 4 0.04
20 85 0.75
21 23 0.20
22 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:39248 original size:81 final size:82
Alignment explanation
Indices: 39163--39320 Score: 212
Period size: 81 Copynumber: 1.9 Consensus size: 82
39153 GCGAATTGGG
* * * * *
39163 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTGACTATCGCAATGCGATACTTAC-T-
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATA-ATACATA
39226 ATCGCAATGCGATAATAC
65 ATCGCAATGCGATAATAC
* * * *
39244 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTTGCAACGCGATAATACATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACATAA
39309 TCGCAATGCGAT
66 TCGCAATGCGAT
39321 TTTCAAAGCG
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
80 3 0.05
81 50 0.76
82 13 0.20
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (82 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACATAA
TCGCAATGCGATAATAC
Found at i:39251 original size:61 final size:61
Alignment explanation
Indices: 39186--39320 Score: 180
Period size: 61 Copynumber: 2.2 Consensus size: 61
39176 GATACTGACT
* * *
39186 ATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATACAAA
1 ATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACAAA
* * * * * * *
39247 ATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTTGCAACGCGATAATACATA
1 ATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACAAA
39308 ATCGCAATGCGAT
1 ATCGCAATGCGAT
39321 TTTCAAAGCG
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (61 bp):
ATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACAAA
Found at i:39848 original size:20 final size:20
Alignment explanation
Indices: 39794--39852 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
39784 GCAATTCTCT
**
39794 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
39814 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
39834 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
39853 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:40043 original size:25 final size:24
Alignment explanation
Indices: 39989--40043 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
39979 TGTTTATTAT
* *
39989 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
40013 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
40039 TGTTT
1 TGTTT
40044 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:41194 original size:18 final size:18
Alignment explanation
Indices: 41173--41217 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
41163 TCCACTTCGG
*
41173 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
41191 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
41209 GAGCCATCA
1 GAGCCATCA
41218 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:41747 original size:19 final size:20
Alignment explanation
Indices: 41693--41748 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
41683 TAGTTTACTT
* *
41693 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
41713 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
*
41733 TCGCAATGC-GAAATGA
1 TCGCAACGCGGAAATGA
41749 AAATTGCAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 6 0.19
20 25 0.81
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:41801 original size:32 final size:33
Alignment explanation
Indices: 41732--41822 Score: 141
Period size: 32 Copynumber: 2.8 Consensus size: 33
41722 GGAAATGGCT
*
41732 ATCGCAATGCGAAATGAAAATTGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
41765 ATCGCAATGCGAAATG-AAATCGCAA-GAACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACG-ACAAA
*
41797 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
41823 TGCGATTTGT
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
31 1 0.02
32 28 0.52
33 25 0.46
ACGTcount: A:0.48, C:0.20, G:0.19, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:41858 original size:14 final size:14
Alignment explanation
Indices: 41839--41896 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
41829 TTGTGTTTCG
41839 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
41853 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
41869 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
41885 CGTTGCGATTTT
1 CGTTGCGATTTT
41897 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:41877 original size:32 final size:33
Alignment explanation
Indices: 41834--41912 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
41824 GCGATTTGTG
*
41834 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
41866 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
41899 TTTCGCATTACGAT
1 TTTCGCATTGCGAT
41913 AGCCATTTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 26 0.59
33 18 0.41
ACGTcount: A:0.13, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:41919 original size:19 final size:20
Alignment explanation
Indices: 41897--41940 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
41887 TTGCGATTTT
41897 CATTT-CGCATTACGATAGC
1 CATTTCCGCATTACGATAGC
* *
41916 CATTTCCGCATTGCGATAGT
1 CATTTCCGCATTACGATAGC
41936 CATTT
1 CATTT
41941 TCGCGTTGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (20 bp):
CATTTCCGCATTACGATAGC
Found at i:43843 original size:14 final size:14
Alignment explanation
Indices: 43824--43859 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
43814 ATTGTTTAAT
43824 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
43838 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
43852 TGATTTGT
1 TGATTTGT
43860 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:44041 original size:19 final size:19
Alignment explanation
Indices: 43996--44063 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
43986 GTCGCAACGA
*
43996 GAAAATCACAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
44015 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
44034 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
44048 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
44064 TTTTCATTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 29 0.64
ACGTcount: A:0.49, C:0.18, G:0.21, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:44107 original size:20 final size:20
Alignment explanation
Indices: 44082--44157 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
44072 TCGCATTGCG
*
44082 ATTTTCTAGTTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
* ***
44102 ATTTTCGCGTTGCGATTTTTC
1 ATTTTCGAGTTGCGA-TAGCC
*
44123 A-TTTCGAATTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
*
44142 ATTTTCGCGTTGCGAT
1 ATTTTCGAGTTGCGAT
44158 TTCCCCGTTG
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
19 3 0.07
20 36 0.86
21 3 0.07
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.42
Consensus pattern (20 bp):
ATTTTCGAGTTGCGATAGCC
Found at i:44115 original size:34 final size:34
Alignment explanation
Indices: 44070--44173 Score: 109
Period size: 40 Copynumber: 2.9 Consensus size: 34
44060 GCGATTTTCA
*
44070 TTTCGCATTGCGATTTTCTAGTTGCGATAGCCAT
1 TTTCGCGTTGCGATTTTCTAGTTGCGATAGCCAT
*
44104 TTTCGCGTTGCGATTTTTCATTTCGAATTGCGATAGCCAT
1 TTTCGCGTTGCGA-TTTTC---T--AGTTGCGATAGCCAT
* **
44144 TTTCGCGTTGCGATTTCCCCGTTGCGATAG
1 TTTCGCGTTGCGATTTTCTAGTTGCGATAG
44174 TCAAATGAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
34 21 0.36
35 5 0.09
38 1 0.02
39 4 0.07
40 27 0.47
ACGTcount: A:0.15, C:0.22, G:0.22, T:0.40
Consensus pattern (34 bp):
TTTCGCGTTGCGATTTTCTAGTTGCGATAGCCAT
Found at i:44396 original size:20 final size:20
Alignment explanation
Indices: 44371--44462 Score: 67
Period size: 20 Copynumber: 4.5 Consensus size: 20
44361 TTGAAGATGA
44371 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
*** *
44391 TTGCGAAAGTCAAAATCTCG
1 TTGCGATTTTCAGAATCTCG
* **
44411 TTGCGATTTTGTATTATCTCG
1 TTGCGATTTT-CAGAATCTCG
** * * *
44432 TTGCGATAGTCAGTATCGCA
1 TTGCGATTTTCAGAATCTCG
44452 TTGCGATTTTC
1 TTGCGATTTTC
44463 CAAATTCGCA
Statistics
Matches: 53, Mismatches: 18, Indels: 2
0.73 0.25 0.03
Matches are distributed among these distances:
20 38 0.72
21 15 0.28
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:44473 original size:21 final size:20
Alignment explanation
Indices: 44447--44498 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
44437 ATAGTCAGTA
*
44447 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGA-TTTACAAAT
* **
44468 TCGCATTGGGATTTACTTAT
1 TCGCATTGCGATTTACAAAT
44488 TCGCATTGCGA
1 TCGCATTGCGA
44499 ATTAGGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACAAAT
Found at i:44714 original size:12 final size:12
Alignment explanation
Indices: 44695--44728 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
44685 CTCTCCGGCG
44695 ACATCCGTTCCT
1 ACATCCGTTCCT
*
44707 ATATCCGTTCCT
1 ACATCCGTTCCT
44719 ACATCC-TTCC
1 ACATCCGTTCC
44729 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:45310 original size:24 final size:24
Alignment explanation
Indices: 45283--45336 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
45273 GTATTCGAAA
*
45283 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
45307 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
45331 TTTGAT
1 TTTGAT
45337 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:45528 original size:12 final size:12
Alignment explanation
Indices: 45511--45535 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45501 ATATAATCCT
45511 GAAGAAGAAAAA
1 GAAGAAGAAAAA
45523 GAAGAAGAAAAA
1 GAAGAAGAAAAA
45535 G
1 G
45536 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:47849 original size:19 final size:19
Alignment explanation
Indices: 47827--47957 Score: 85
Period size: 19 Copynumber: 7.7 Consensus size: 19
47817 GGAAATTACT
*
47827 ATCGCAATGCGAAATAAAA
1 ATCGCAATGCGAAATGAAA
*
47846 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
47860 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
47879 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
47893 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
47912 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
47926 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
47945 ATCGCAACGCGAA
1 ATCGCAATGCGAA
47958 TTTAATTTCG
Statistics
Matches: 83, Mismatches: 14, Indels: 30
0.65 0.11 0.24
Matches are distributed among these distances:
14 26 0.31
15 3 0.04
16 6 0.07
17 6 0.07
18 3 0.04
19 39 0.47
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:47869 original size:33 final size:33
Alignment explanation
Indices: 47827--47953 Score: 193
Period size: 33 Copynumber: 3.8 Consensus size: 33
47817 GGAAATTACT
*
47827 ATCGCAATGCGAAATAAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
47860 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
47892 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
47926 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
47954 CGAATTTAAT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
32 1 0.01
33 82 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:47934 original size:66 final size:66
Alignment explanation
Indices: 47828--47960 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
47818 GAAATTACTA
*
47828 TCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
47893 T
66 T
* *
47894 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
47959 T
66 T
47960 T
1 T
47961 AATTTCGCGT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:47985 original size:14 final size:14
Alignment explanation
Indices: 47968--48024 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
47958 TTTAATTTCG
47968 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
47982 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
48001 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
48015 CATTGCGATT
1 CGTTGCGATT
48025 TTCATTTCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:48004 original size:33 final size:33
Alignment explanation
Indices: 47953--48042 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
47943 AAATCGCAAC
* * *
47953 GCGAATTTAATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCATT
47986 GCGATTTTCATTTCGCGTTGCGATTCTCTCATT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCATT
*
48019 GCGATTTTCATTTCGCATTGCGAT
1 GCGATTTTCATTTCGCGTTGCGAT
48043 AGTACTTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.43
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATTCTCTCATT
Found at i:48006 original size:19 final size:19
Alignment explanation
Indices: 47984--48042 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
47974 GATTCTCTCG
*
47984 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
*
48003 TTGCGA--TTC---TCTCA
1 TTGCGATTTTCATTTCGCA
48017 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
48036 TTGCGAT
1 TTGCGAT
48043 AGTACTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 9 0.28
16 3 0.09
17 3 0.09
19 17 0.53
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:48170 original size:14 final size:14
Alignment explanation
Indices: 48149--48185 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
48139 CATCAATTAA
48149 ACAAATCAACTTTT
1 ACAAATCAACTTTT
* *
48163 ATAAATCACCTTTT
1 ACAAATCAACTTTT
48177 ACAAATCAA
1 ACAAATCAA
48186 TTAAACAATC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:49585 original size:21 final size:21
Alignment explanation
Indices: 49561--49676 Score: 56
Period size: 21 Copynumber: 5.5 Consensus size: 21
49551 GTGGGAGGGA
49561 CCTCTTCAACGATGACAGTGG
1 CCTCTTCAACGATGACAGTGG
* * ** *
49582 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTCAACGATGACAGTGG
* * * * *
49603 ACTC-TCGAGGAATGATAGGGG
1 CCTCTTCAACG-ATGACAGTGG
*
49624 CCTCTTCAACGAT-AGGAGTGG
1 CCTCTTCAACGATGA-CAGTGG
* * **
49645 ACTCTTGAGGGATGACAGTGG
1 CCTCTTCAACGATGACAGTGG
*
49666 CCTCTTGAACG
1 CCTCTTCAACG
49677 GTGGGAGGGG
Statistics
Matches: 66, Mismatches: 25, Indels: 8
0.67 0.25 0.08
Matches are distributed among these distances:
20 4 0.06
21 57 0.86
22 5 0.08
ACGTcount: A:0.22, C:0.22, G:0.34, T:0.22
Consensus pattern (21 bp):
CCTCTTCAACGATGACAGTGG
Found at i:49600 original size:42 final size:41
Alignment explanation
Indices: 49541--49746 Score: 164
Period size: 42 Copynumber: 4.9 Consensus size: 41
49531 GTGAATCGGG
** *
49541 CTCTTGAATAGTGGGAGGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGA-CTCTTCAAGGATGACAGTGGC
* * *
49583 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGACAGTGGC
* * * * *
49625 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGTGGC
1 CTCTTGAACGGTGGGAG-GGACTCTTCAAGGATGACAGTGGC
* * *
49667 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGACAGTGGC
* * * * *
49709 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAG
1 CTCTTGAACGGTGGGAG-GGACTCTTCAAGGATGACAG
49747 GCGAGTCGGG
Statistics
Matches: 127, Mismatches: 29, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
41 9 0.07
42 107 0.84
43 11 0.09
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGACTCTTCAAGGATGACAGTGGC
Found at i:49682 original size:84 final size:84
Alignment explanation
Indices: 49571--49746 Score: 352
Period size: 84 Copynumber: 2.1 Consensus size: 84
49561 CCTCTTCAAC
49571 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
49636 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
49655 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
49720 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
49739 GATGACAG
1 GATGACAG
49747 GCGAGTCGGG
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 92 1.00
ACGTcount: A:0.23, C:0.18, G:0.38, T:0.21
Consensus pattern (84 bp):
GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
TAGGAGTGGACTCTTGAGG
Found at i:49691 original size:21 final size:21
Alignment explanation
Indices: 49583--49691 Score: 53
Period size: 21 Copynumber: 5.2 Consensus size: 21
49573 TGACAGTGGC
49583 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
* ** *
49604 CTCTCG-A-GGAATGATAGGGGC
1 CTCTTGAACGG--TGGGAGGGGA
* * * *
49625 CTCTTCAACGATAGGAGTGGA
1 CTCTTGAACGGTGGGAGGGGA
* ** * *
49646 CTCTTG-AGGGATGACAGTGGC
1 CTCTTGAACGG-TGGGAGGGGA
49667 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
49688 CTCT
1 CTCT
49692 CGAGGAATGA
Statistics
Matches: 58, Mismatches: 24, Indels: 12
0.62 0.26 0.13
Matches are distributed among these distances:
19 2 0.03
20 3 0.05
21 48 0.83
22 4 0.07
23 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.39, T:0.22
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:50141 original size:91 final size:90
Alignment explanation
Indices: 49965--50149 Score: 284
Period size: 91 Copynumber: 2.0 Consensus size: 90
49955 ATTTCAAACT
49965 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAAT--A-AGTTTAGC
50030 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
*
50058 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAATTTCACAGTGTTAATA-AAT-AGTTTAGC
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAA-AGAATAAGTTTAGC
*
50121 AGTATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
50149 T
1 T
50150 AAGCAATCTA
Statistics
Matches: 87, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
91 36 0.41
93 19 0.22
95 31 0.36
96 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.23
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:51917 original size:33 final size:33
Alignment explanation
Indices: 51860--51958 Score: 153
Period size: 33 Copynumber: 3.0 Consensus size: 33
51850 ACGAGATAAT
*
51860 GAGAATCGTAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
51894 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
51927 GAGAATCGCAACGCGAAATGAAAATCGCAACG
1 GAGAATCGCAACGCGAAATGACTATCGCAACG
51959 CGAAATGAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
33 47 0.78
34 13 0.22
ACGTcount: A:0.39, C:0.22, G:0.26, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:51952 original size:19 final size:19
Alignment explanation
Indices: 51835--51976 Score: 106
Period size: 19 Copynumber: 7.9 Consensus size: 19
51825 ATCTTTGGTT
*
51835 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
* *
51854 GATAATGAGAATCGTAACGC
1 GA-AATGAAAATCGCAACGC
**
51874 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
51892 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
51908 GAAATGACTATCGCGA--C
1 GAAATGAAAATCGCAACGC
*
51925 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
51941 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
51960 GAAATGAAAATCGCAAC
1 GAAATGAAAATCGCAAC
51977 ACGATTTTGG
Statistics
Matches: 96, Mismatches: 15, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
14 17 0.18
15 2 0.02
16 4 0.04
17 3 0.03
18 3 0.03
19 40 0.42
20 25 0.26
21 2 0.02
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:52000 original size:19 final size:19
Alignment explanation
Indices: 51978--52020 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
51968 AATCGCAACA
*
51978 CGATTTTGGTTTCGCGTTG
1 CGATTTTGATTTCGCGTTG
*
51997 CGATTTTTATTTCGCGTTG
1 CGATTTTGATTTCGCGTTG
52016 CGATT
1 CGATT
52021 CTCTAGTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.09, C:0.16, G:0.26, T:0.49
Consensus pattern (19 bp):
CGATTTTGATTTCGCGTTG
Found at i:52598 original size:20 final size:20
Alignment explanation
Indices: 52570--52622 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
52560 GCGCTATGTA
*
52570 AATCGCGTTGCGAAAGTCAG
1 AATCACGTTGCGAAAGTCAG
52590 AATCACGTTGCGAAAGTCAG
1 AATCACGTTGCGAAAGTCAG
* *
52610 TATCTCGTTGCGA
1 AATCACGTTGCGA
52623 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (20 bp):
AATCACGTTGCGAAAGTCAG
Found at i:52653 original size:41 final size:40
Alignment explanation
Indices: 52597--52681 Score: 98
Period size: 41 Copynumber: 2.1 Consensus size: 40
52587 CAGAATCACG
* * * ** *
52597 TTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATTATCGCA
1 TTGCGAAAGTAAGTATCGCATTGCGATAGT-TAGTATCGCA
*
52638 TTGCGATAGTAAGTATCGCATTGCGATAGTTAGTATCGCA
1 TTGCGAAAGTAAGTATCGCATTGCGATAGTTAGTATCGCA
52678 TTGC
1 TTGC
52682 AATTTTCCCA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
40 13 0.35
41 24 0.65
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (40 bp):
TTGCGAAAGTAAGTATCGCATTGCGATAGTTAGTATCGCA
Found at i:52656 original size:20 final size:20
Alignment explanation
Indices: 52631--52681 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
52621 GATTTTGTAT
52631 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
52651 TATCGCATTGCGATAGTTAG
1 TATCGCATTGCGATAGTAAG
52671 TATCGCATTGC
1 TATCGCATTGC
52682 AATTTTCCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:52795 original size:21 final size:21
Alignment explanation
Indices: 52755--52795 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
52745 ACTGTAGACC
**
52755 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
52776 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
52796 GCGAATTAGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:54546 original size:131 final size:131
Alignment explanation
Indices: 54312--54569 Score: 392
Period size: 131 Copynumber: 2.0 Consensus size: 131
54302 AATAATTTTT
*
54312 TATATTATAATATTAGTCTATTTAAAACGTGTTTTAAGTTTTAATTTCTTTTAAATAGGGCCTCC
1 TATATTAAAATATTAGTCTATTTAAAACGTGTTTTAAGTTTTAATTTCTTTTAAATAGGGCCTCC
** * **
54377 AGAAAGTGATGATTATGATTTAAAATTAAAATTCAATCTGTGTGGGACCCTTAATAAAAAAAATC
66 AGAAAGTGATGATTACAATCTAAAATTAAAATTCAATCTGTGTGGGACCCCCAATAAAAAAAATC
54442 A
131 A
* * *
54443 TATATTAAAATATTGGTCTATTTAAAACGTGTTTTAAGTTTTAATTT-TTTTAAGTGAGGTCCTC
1 TATATTAAAATATTAGTCTATTTAAAACGTGTTTTAAGTTTTAATTTCTTTTAAAT-AGGGCCTC
* * *
54507 CGGAAAGTGATGCTTACAATCTAAAATTAAAATTCAATCTGTGTGGGCCCCCCAATAAAAAAA
65 CAGAAAGTGATGATTACAATCTAAAATTAAAATTCAATCTGTGTGGGACCCCCAATAAAAAAA
54570 TATCTCACTA
Statistics
Matches: 114, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
130 7 0.06
131 107 0.94
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.38
Consensus pattern (131 bp):
TATATTAAAATATTAGTCTATTTAAAACGTGTTTTAAGTTTTAATTTCTTTTAAATAGGGCCTCC
AGAAAGTGATGATTACAATCTAAAATTAAAATTCAATCTGTGTGGGACCCCCAATAAAAAAAATC
A
Found at i:62985 original size:38 final size:39
Alignment explanation
Indices: 62844--63015 Score: 238
Period size: 39 Copynumber: 4.4 Consensus size: 39
62834 AAACTGCAAC
*
62844 AGAGCTTGACCTTTTGCGACGTTTGTAAAAAAACACTAT
1 AGAGCTTGACCTTTTGCGACGTTTGTAAAAAACCACTAT
*
62883 AGAGCTTGACCTTTTGCGACGTTTGTAAAAAACGACTAT
1 AGAGCTTGACCTTTTGCGACGTTTGTAAAAAACCACTAT
62922 AGAGCTTGACCTTTTGCGACGTTTGT-AAAAACCACTAT
1 AGAGCTTGACCTTTTGCGACGTTTGTAAAAAACCACTAT
** * * *
62960 AGAGCTTGACCTTTCACGGCATTTGTAAAACAACGCCACTGT
1 AGAGCTTGACCTTTTGCGACGTTTGTAAAA-AA--CCACTAT
*
63002 AAAGCTTGACCTTT
1 AGAGCTTGACCTTT
63016 CCCTGTGTTT
Statistics
Matches: 120, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
38 33 0.28
39 66 0.55
40 2 0.02
42 19 0.16
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (39 bp):
AGAGCTTGACCTTTTGCGACGTTTGTAAAAAACCACTAT
Found at i:63074 original size:43 final size:43
Alignment explanation
Indices: 63027--63133 Score: 108
Period size: 44 Copynumber: 2.5 Consensus size: 43
63017 CCTGTGTTTA
*
63027 TAAGAAAAACGCCGCTATAGA-TCTTCATCTTTCACAGCGATTG
1 TAAGAAAAACGCCGCTATAGAGT-TTCACCTTTCACAGCGATTG
* * * * * *
63070 TAAGAAAAAACGCTGCTATAAAGTTTGACCTTTTACGGCGTTTG
1 TAAG-AAAAACGCCGCTATAGAGTTTCACCTTTCACAGCGATTG
* *
63114 TAAGAAAAATGCCACTATAG
1 TAAGAAAAACGCCGCTATAG
63134 TTTAGAGCTT
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
43 16 0.31
44 34 0.67
45 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (43 bp):
TAAGAAAAACGCCGCTATAGAGTTTCACCTTTCACAGCGATTG
Found at i:64240 original size:21 final size:20
Alignment explanation
Indices: 64205--64267 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
64195 TTGGTATAGG
*
64205 TATTAACCCTTCAGTATCGA
1 TATTGACCCTTCAGTATCGA
64225 TATTGACCCTTTCAGTATCGA
1 TATTGACCC-TTCAGTATCGA
* * *
64246 TACTGACCCATGAGTATCGA
1 TATTGACCCTTCAGTATCGA
64266 TA
1 TA
64268 CATACTGATG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
20 19 0.50
21 19 0.50
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (20 bp):
TATTGACCCTTCAGTATCGA
Found at i:64268 original size:20 final size:21
Alignment explanation
Indices: 64210--64268 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
64200 ATAGGTATTA
*
64210 ACCCT-TCAGTATCGATATTG
1 ACCCTATCAGTATCGATACTG
*
64230 ACCCTTTCAGTATCGATACTG
1 ACCCTATCAGTATCGATACTG
*
64251 ACCC-ATGAGTATCGATAC
1 ACCCTATCAGTATCGATAC
64269 ATACTGATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
20 17 0.49
21 18 0.51
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (21 bp):
ACCCTATCAGTATCGATACTG
Found at i:65354 original size:108 final size:109
Alignment explanation
Indices: 65157--65360 Score: 347
Period size: 108 Copynumber: 1.9 Consensus size: 109
65147 TAAGGGTTTA
*
65157 TTTTGAAGTTCTAAAATTGAGGATTAAGGCTCTTACCTTTGTAAAACCAGATTGGTGAAGAAAGC
1 TTTTGAAGTTCTAAAATTGAGGATTAAGGCTCTTACCTTTGTAAAACCAGATTGGTGAAGAAAGA
* * *
65222 TAATAAAGTTTCCACCTTTTTCTAATTTACCAAGGAAATGCTTG
66 TAATAAAGTTTCCACATTTCTCTAAGTTACCAAGGAAATGCTTG
* *
65266 TTTTGAATTTCTAAAGTTGA-GATTAAGGCTCTTACCTTTGTAAAACCAGATTGGTGAAGAAAGA
1 TTTTGAAGTTCTAAAATTGAGGATTAAGGCTCTTACCTTTGTAAAACCAGATTGGTGAAGAAAGA
65330 TAATAAAGTTTCCACATTTCTCTAAGTTACC
66 TAATAAAGTTTCCACATTTCTCTAAGTTACC
65361 TAGAAAGAAT
Statistics
Matches: 89, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
108 71 0.80
109 18 0.20
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (109 bp):
TTTTGAAGTTCTAAAATTGAGGATTAAGGCTCTTACCTTTGTAAAACCAGATTGGTGAAGAAAGA
TAATAAAGTTTCCACATTTCTCTAAGTTACCAAGGAAATGCTTG
Found at i:67002 original size:23 final size:22
Alignment explanation
Indices: 66966--67011 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
66956 ATCACGTCTC
*
66966 ATAACTTACATCATGTACATATA
1 ATAACTTACATCATAT-CATATA
66989 ATAACTTATC-TCATATCATATA
1 ATAACTTA-CATCATATCATATA
67011 A
1 A
67012 CTTATGGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 13 0.62
24 1 0.05
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.37
Consensus pattern (22 bp):
ATAACTTACATCATATCATATA
Found at i:68696 original size:13 final size:13
Alignment explanation
Indices: 68678--68711 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
68668 TATGACAAGT
68678 CAAATTCAAATTC
1 CAAATTCAAATTC
*
68691 CAAATTCAACTTC
1 CAAATTCAAATTC
68704 CAAATTCA
1 CAAATTCA
68712 TTTAAGCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.29
Consensus pattern (13 bp):
CAAATTCAAATTC
Found at i:71920 original size:23 final size:23
Alignment explanation
Indices: 71894--71962 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
71884 CACCACAGCT
*
71894 CGTATAAATGCACCGAAGTGCTA
1 CGTATAAATGCACCGAAGTGCCA
* * * *
71917 CGTAGAATTGCACCGTAGTGCCG
1 CGTATAAATGCACCGAAGTGCCA
71940 CGTATAAATGCACCGAAGTGCCA
1 CGTATAAATGCACCGAAGTGCCA
71963 TATAAGATGT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (23 bp):
CGTATAAATGCACCGAAGTGCCA
Found at i:78052 original size:23 final size:23
Alignment explanation
Indices: 78026--78078 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
78016 CACTGAAGTG
*
78026 CCACATAATTTTGTCCCAAAGGA
1 CCACATAAGTTTGTCCCAAAGGA
* * **
78049 CCACATAGGTTTGTCTCGGAGGA
1 CCACATAAGTTTGTCCCAAAGGA
78072 CCACATA
1 CCACATA
78079 GAACCCTCGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (23 bp):
CCACATAAGTTTGTCCCAAAGGA
Found at i:86329 original size:12 final size:13
Alignment explanation
Indices: 86304--86336 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
86294 AATTCCGTTA
*
86304 TATTTTTTATTTT
1 TATTTTTTACTTT
86317 TATTTTTT-CTTT
1 TATTTTTTACTTT
86329 TATTTTTT
1 TATTTTTT
86337 TCCCGATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (13 bp):
TATTTTTTACTTT
Found at i:100539 original size:18 final size:18
Alignment explanation
Indices: 100473--100538 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 18
100463 TAATGAGAAC
100473 AAGATTGATAATTATAAT-
1 AAGATT-ATAATTATAATA
*
100491 AAGATTAGTAATGATAATGTA
1 AAGATTA-TAATTATAA--TA
*
100512 AATGA-TATATTTATAATA
1 AA-GATTATAATTATAATA
100530 AAGATTATA
1 AAGATTATA
100539 TGTGTGCATG
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
17 3 0.08
18 22 0.56
20 8 0.21
21 4 0.10
22 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (18 bp):
AAGATTATAATTATAATA
Found at i:103024 original size:19 final size:19
Alignment explanation
Indices: 102994--103063 Score: 122
Period size: 19 Copynumber: 3.7 Consensus size: 19
102984 AATGTAATTT
*
102994 GTGTATCAATACATAGTTA
1 GTGTATCGATACATAGTTA
*
103013 GTATATCGATACATAGTTA
1 GTGTATCGATACATAGTTA
103032 GTGTATCGATACATAGTTA
1 GTGTATCGATACATAGTTA
103051 GTGTATCGATACA
1 GTGTATCGATACA
103064 CGCGTTAATG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (19 bp):
GTGTATCGATACATAGTTA
Found at i:103428 original size:5 final size:5
Alignment explanation
Indices: 103418--103487 Score: 133
Period size: 5 Copynumber: 14.2 Consensus size: 5
103408 TATAAGTTAC
103418 ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT
1 ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT
103468 ATGTT ATGTT ATG-T ATGTT A
1 ATGTT ATGTT ATGTT ATGTT A
103488 AATGTGTTAT
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.06
5 60 0.94
ACGTcount: A:0.21, C:0.00, G:0.20, T:0.59
Consensus pattern (5 bp):
ATGTT
Found at i:103871 original size:21 final size:21
Alignment explanation
Indices: 103838--103877 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
103828 TTCTACGTGG
*
103838 TCCTTCGGGACATATATGTAA
1 TCCTTCGGAACATATATGTAA
*
103859 TCCTTTGGAACATATATGT
1 TCCTTCGGAACATATATGT
103878 GGTACTTCGG
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:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
TCCTTCGGAACATATATGTAA
Found at i:104007 original size:24 final size:23
Alignment explanation
Indices: 103962--104007 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
103952 TTTTATATGT
*
103962 GGTCCTTCGGGACATTTCTACGC
1 GGTCCTTCGGGAAATTTCTACGC
*
103985 GGTCCTTCGGGATAATTTTTACG
1 GGTCCTTCGGGA-AATTTCTACG
104008 TGCCCCTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.15, C:0.24, G:0.26, T:0.35
Consensus pattern (23 bp):
GGTCCTTCGGGAAATTTCTACGC
Found at i:104794 original size:2 final size:2
Alignment explanation
Indices: 104735--104775 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
104725 AGTTATGTGA
104735 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
104776 GTAGGATATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:104873 original size:18 final size:18
Alignment explanation
Indices: 104852--104886 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
104842 TAATGAGAAC
*
104852 AAGATTAATAATTATAAG
1 AAGATTAATAATAATAAG
104870 AAGATTAATAATAATAA
1 AAGATTAATAATAATAA
104887 TGTAAATGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (18 bp):
AAGATTAATAATAATAAG
Found at i:115213 original size:17 final size:17
Alignment explanation
Indices: 115200--115252 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
115190 TAATATATGG
115200 TTTTTGAAAATATATAA
1 TTTTTGAAAATATATAA
115217 TTTTTGAAAATATATATA
1 TTTTTGAAAATATATA-A
* *
115235 GTTTTGAAAACATATAA
1 TTTTTGAAAATATATAA
115252 T
1 T
115253 ATATATGGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
17 17 0.53
18 15 0.47
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (17 bp):
TTTTTGAAAATATATAA
Found at i:115332 original size:20 final size:19
Alignment explanation
Indices: 115307--115371 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 19
115297 ATATATATAA
*
115307 TTTTTGAAAATATATTATTG
1 TTTTTGAAAACATATTA-TG
115327 TTTTTGAAAACATA--A--
1 TTTTTGAAAACATATTATG
115342 TTTTTGAAAACATATTATAG
1 TTTTTGAAAACATATTAT-G
115362 TTTTTGAAAA
1 TTTTTGAAAA
115372 TATAATGTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
15 14 0.36
17 1 0.03
18 1 0.03
20 23 0.59
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.48
Consensus pattern (19 bp):
TTTTTGAAAACATATTATG
Found at i:115343 original size:35 final size:35
Alignment explanation
Indices: 115303--115377 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
115293 TATAATATAT
* *
115303 ATAATTTTTGAAAATATATTATTGTTTTTGAAAAC
1 ATAATTTTTGAAAACATATTATAGTTTTTGAAAAC
*
115338 ATAATTTTTGAAAACATATTATAGTTTTTGAAAAT
1 ATAATTTTTGAAAACATATTATAGTTTTTGAAAAC
115373 ATAAT
1 ATAAT
115378 GTATATTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.47
Consensus pattern (35 bp):
ATAATTTTTGAAAACATATTATAGTTTTTGAAAAC
Found at i:115347 original size:15 final size:15
Alignment explanation
Indices: 115327--115355 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
115317 TATATTATTG
115327 TTTTTGAAAACATAA
1 TTTTTGAAAACATAA
115342 TTTTTGAAAACATA
1 TTTTTGAAAACATA
115356 TTATAGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (15 bp):
TTTTTGAAAACATAA
Found at i:117157 original size:18 final size:16
Alignment explanation
Indices: 117116--117160 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 16
117106 GAGTAAGAAT
117116 TTTTATTTTATTTTCA
1 TTTTATTTTATTTTCA
*
117132 TTATTATTTTGATTTTGA
1 TT-TTATTTT-ATTTTCA
117150 TTTCTATTTTA
1 TTT-TATTTTA
117161 CTAACTTATC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 2 0.08
17 9 0.36
18 14 0.56
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.71
Consensus pattern (16 bp):
TTTTATTTTATTTTCA
Found at i:127125 original size:13 final size:13
Alignment explanation
Indices: 127107--127135 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
127097 TTAAATATCA
127107 AAATAAAAAGAAG
1 AAATAAAAAGAAG
127120 AAATAAAAAGAAG
1 AAATAAAAAGAAG
127133 AAA
1 AAA
127136 ATCAAGCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (13 bp):
AAATAAAAAGAAG
Found at i:128245 original size:22 final size:20
Alignment explanation
Indices: 128220--128288 Score: 56
Period size: 22 Copynumber: 3.5 Consensus size: 20
128210 CAAAAAATGT
128220 ATATAATATATGGTTTTTGAAA
1 ATAT-ATATAT-GTTTTTGAAA
128242 ATATATA-A--TTTTT-AAA
1 ATATATATATGTTTTTGAAA
*
128258 ATATATATATATAGTTTTGAAA
1 ATATATATATGT--TTTTGAAA
*
128280 ACATATATA
1 ATATATATA
128289 ATATATATGG
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
16 10 0.25
17 6 0.15
19 1 0.03
20 1 0.03
21 7 0.17
22 15 0.38
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.45
Consensus pattern (20 bp):
ATATATATATGTTTTTGAAA
Found at i:128258 original size:16 final size:17
Alignment explanation
Indices: 128233--128264 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
128223 TAATATATGG
128233 TTTTTGAAAATATATAA
1 TTTTTGAAAATATATAA
128250 TTTTT-AAAATATATA
1 TTTTTGAAAATATATA
128265 TATATAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTTTGAAAATATATAA
Found at i:128267 original size:20 final size:22
Alignment explanation
Indices: 128242--128293 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
128232 GTTTTTGAAA
* * *
128242 ATATATAATTTTTAAAATATAT
1 ATATATAGTTTTGAAAACATAT
128264 ATATATAGTTTTGAAAACATAT
1 ATATATAGTTTTGAAAACATAT
128286 ATAATATA
1 AT-ATATA
128294 TATGGCTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (22 bp):
ATATATAGTTTTGAAAACATAT
Found at i:128369 original size:20 final size:20
Alignment explanation
Indices: 128338--128402 Score: 114
Period size: 20 Copynumber: 3.3 Consensus size: 20
128328 AAACATATAT
128338 AATATA-TATAGTTTTTGAA
1 AATATATTATAGTTTTTGAA
128357 AATATATTATAGTTTTTGAA
1 AATATATTATAGTTTTTGAA
*
128377 AACATATTATAGTTTTTGAA
1 AATATATTATAGTTTTTGAA
128397 AATATA
1 AATATA
128403 ATGTATATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
19 6 0.14
20 37 0.86
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (20 bp):
AATATATTATAGTTTTTGAA
Found at i:129650 original size:15 final size:16
Alignment explanation
Indices: 129632--129666 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
129622 AAATTATTAT
129632 TTTTTATTTT-TTTCA
1 TTTTTATTTTATTTCA
*
129647 TTTTTATTTTATTTTA
1 TTTTTATTTTATTTCA
129663 TTTT
1 TTTT
129667 ATTATTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTATTTTATTTCA
Found at i:130398 original size:2 final size:2
Alignment explanation
Indices: 130391--130523 Score: 125
Period size: 2 Copynumber: 67.5 Consensus size: 2
130381 ATTTATATTA
130391 AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* ** * * **
130432 AT TT AT AT CCG GT GA- ACT -T AT AT AT -T TT ACT -T CC AT AT AT
1 AT AT AT AT -AT AT -AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT
130472 AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
130513 AT AT AT AT AT A
1 AT AT AT AT AT A
130524 ATAGATGCAT
Statistics
Matches: 110, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
1 6 0.05
2 103 0.94
3 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Done.