Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003864.1 Hibiscus syriacus cultivar Beakdansim tig00008314_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: 136667
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:3561 original size:54 final size:54
Alignment explanation
Indices: 3425--3584 Score: 234
Period size: 54 Copynumber: 3.0 Consensus size: 54
3415 TGATTGAGAA
* ** *
3425 ATCTGGGCAGAAGCCATAGGAAAGGATGAATGTG-TGTCAAATGCTTTACGAAC
1 ATCTGGGCAGAAGCCACAATAAAGAATGAATGTGTTGTCAAATGCTTTACGAAC
3478 ATCT-GGCAGAAGCCACAATAAAGAATGAATGTGTTGTCAAATGCTTTACGAAC
1 ATCTGGGCAGAAGCCACAATAAAGAATGAATGTGTTGTCAAATGCTTTACGAAC
* * **
3531 ATCTGGGCAGAAGCCACAATAAAAAATGAATGTGTTATCAAATATTTTACGAAC
1 ATCTGGGCAGAAGCCACAATAAAGAATGAATGTGTTGTCAAATGCTTTACGAAC
3585 CAGTTATTCT
Statistics
Matches: 97, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
52 25 0.26
53 27 0.28
54 45 0.46
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (54 bp):
ATCTGGGCAGAAGCCACAATAAAGAATGAATGTGTTGTCAAATGCTTTACGAAC
Found at i:4916 original size:44 final size:45
Alignment explanation
Indices: 4639--5167 Score: 758
Period size: 45 Copynumber: 12.0 Consensus size: 45
4629 TTTCCCACAT
*
4639 TGTAAGCCCTTCAGTGCAGGATG--TTCAAAACCTTCGGGTC-TC
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATC
* *
4681 TATAAGCCCTT-AGTGCAGGATGTTTTCAAAACCTTCGGGTCATC
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATC
* *
4725 TGTAATCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCTTC
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATC
* * * *
4770 TGTAAGCCCTTCAGTTCAGGATGTTTTCAAAGCCTCCGGGTCATC
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATC
* *
4815 TGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCAGGTCATC
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATC
*
4860 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTC-GGTCATC
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATC
*
4904 TGTAAGCCCTTCAGTGCAGGA-GTTTTCAAAACCTTCGGGTCATC
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATC
* * * *
4948 T-TAAGCCTTTCAGTGCAGGATGTTTTCAAAAGCTTTGGGTCAT-
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATC
4991 TAGTAAGCCCTTCAGT-CATGATGTTTTCAAAACCTTCGGGTCATC
1 T-GTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATC
* * *
5036 TGTAAGCCCTTCAGGGCA-GATG-TTTCAAAGCCTCCGGGTCATC
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATC
*
5079 TGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTC-GGTCATC
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATC
* *
5123 TGTAAGCTCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATC
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATC
5168 CATAAGACTT
Statistics
Matches: 436, Mismatches: 38, Indels: 23
0.88 0.08 0.05
Matches are distributed among these distances:
41 11 0.03
42 10 0.02
43 85 0.19
44 153 0.35
45 177 0.41
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (45 bp):
TGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATC
Found at i:4999 original size:132 final size:133
Alignment explanation
Indices: 4639--5167 Score: 770
Period size: 132 Copynumber: 4.0 Consensus size: 133
4629 TTTCCCACAT
* * * *
4639 TGTAAGCCCTTCAGTGCAGGATGTTCAAAACCTTCGGGTC-TCTATAAGCCCTT-AGTGCAGGAT
1 TGTAAGCCCTTCAGTGCAGGATTTTCAAAACCTCCGGGTCATCTGTAAGACCTTCAGTGCAGGAT
*
4702 GTTTTCAAAACCTTCGGGTCATCTGTAATCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
66 GTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
*
4767 TTC
131 ATC
* * *
4770 TGTAAGCCCTTCAGTTCAGGATGTTTTCAAAGCCTCCGGGTCATCTGTAAGACCTTCAGTGCATG
1 TGTAAGCCCTTCAGTGCAGGA--TTTTCAAAACCTCCGGGTCATCTGTAAGACCTTCAGTGCAGG
* *
4835 ATGTTTTCAAAACCTTCAGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTC-GG
64 ATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGG
4899 TCATC
129 TCATC
*
4904 TGTAAGCCCTTCAGTGCAGGAGTTTTCAAAACCTTCGGGTCATCT-TAAG-CCTTTCAGTGCAGG
1 TGTAAGCCCTTCAGTGCAGGA-TTTTCAAAACCTCCGGGTCATCTGTAAGACC-TTCAGTGCAGG
* *
4967 ATGTTTTCAAAAGCTTTGGGTCAT-TAGTAAGCCCTTCAGT-CATGATGTTTTCAAAACCTTCGG
64 ATGTTTTCAAAACCTTCGGGTCATCT-GTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGG
5030 GTCATC
128 GTCATC
* * *
5036 TGTAAGCCCTTCAGGGCA-GATGTTTCAAAGCCTCCGGGTCATCTGTAAGACCTTCAGTGCATGA
1 TGTAAGCCCTTCAGTGCAGGAT-TTTCAAAACCTCCGGGTCATCTGTAAGACCTTCAGTGCAGGA
* *
5100 TGTTTTCAAAACCTTC-GGTCATCTGTAAGCTCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGT
65 TGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
5164 CATC
130 CATC
5168 CATAAGACTT
Statistics
Matches: 359, Mismatches: 27, Indels: 23
0.88 0.07 0.06
Matches are distributed among these distances:
130 1 0.00
131 84 0.23
132 131 0.36
133 40 0.11
134 37 0.10
135 66 0.18
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (133 bp):
TGTAAGCCCTTCAGTGCAGGATTTTCAAAACCTCCGGGTCATCTGTAAGACCTTCAGTGCAGGAT
GTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
ATC
Found at i:5453 original size:3 final size:3
Alignment explanation
Indices: 5445--5500 Score: 73
Period size: 3 Copynumber: 19.3 Consensus size: 3
5435 TTAGTTTGTT
*
5445 TTA TTA TTA TT- TTA -TA TTA TTA TTA TTA TACA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
5488 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
5501 ATTTATTAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 6 0.13
3 39 0.83
4 2 0.04
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:5517 original size:27 final size:27
Alignment explanation
Indices: 5460--5518 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
5450 ATTATTTTAT
* *
5460 ATTATTATTATTATACATTATTATATT
1 ATTATTATTATTATACATTATTAAATA
*
5487 ATTATTATTATTATA-TTTATTAAATAA
1 ATTATTATTATTATACATTATTAAAT-A
5514 ATTAT
1 ATTAT
5519 AAAGCCCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (27 bp):
ATTATTATTATTATACATTATTAAATA
Found at i:6662 original size:28 final size:30
Alignment explanation
Indices: 6625--6696 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 30
6615 ATTTTAATAC
6625 TTTTATTTATTTTTAACTAC-A-AGTTTT-A
1 TTTTATTTATTTTTAA-TACTATAGTTTTAA
6653 TATTT-TTTATATTTTAATACTATAGTTTTAA
1 T-TTTATTTAT-TTTTAATACTATAGTTTTAA
6684 TTTTATTTATTTT
1 TTTTATTTATTTT
6697 AGTCACTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
28 9 0.24
29 10 0.26
30 12 0.32
31 7 0.18
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (30 bp):
TTTTATTTATTTTTAATACTATAGTTTTAA
Found at i:6668 original size:29 final size:29
Alignment explanation
Indices: 6588--6697 Score: 86
Period size: 29 Copynumber: 3.7 Consensus size: 29
6578 GTGCATTTGA
* *
6588 TTTTAATATTTTATAATTTAATCACTA-A-
1 TTTTAATTTTTTATATTTTAAT-ACTATAG
*
6616 TTTTAATACTTTTATTTATTTTTAACTAC-A-AG
1 TTTTAAT--TTTT-TATA-TTTTAA-TACTATAG
6648 TTTTATATTTTTTATATTTTAATACTATAG
1 TTTTA-ATTTTTTATATTTTAATACTATAG
6678 TTTTAATTTTATT-TATTTTA
1 TTTTAATTTT-TTATATTTTA
6698 GTCACTATTT
Statistics
Matches: 68, Mismatches: 4, Indels: 19
0.75 0.04 0.21
Matches are distributed among these distances:
28 10 0.15
29 19 0.28
30 15 0.22
31 9 0.13
32 12 0.18
33 3 0.04
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (29 bp):
TTTTAATTTTTTATATTTTAATACTATAG
Found at i:6705 original size:30 final size:29
Alignment explanation
Indices: 6616--6697 Score: 80
Period size: 30 Copynumber: 2.7 Consensus size: 29
6606 TAATCACTAA
*
6616 TTTTAATACTTTTATTTATTTT-TAACTACAAG
1 TTTT-ATA-TTTTATTTATTTTAT-ACTA-TAG
6648 TTTTATATTTT-TTATATTTTAATACTATAG
1 TTTTATATTTTATT-TATTTT-ATACTATAG
6678 TTTTA-ATTTTATTTATTTTA
1 TTTTATATTTTATTTATTTTA
6698 GTCACTATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
28 1 0.02
29 13 0.29
30 19 0.42
31 7 0.16
32 5 0.11
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (29 bp):
TTTTATATTTTATTTATTTTATACTATAG
Found at i:6881 original size:15 final size:16
Alignment explanation
Indices: 6850--6882 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6840 AAATCCTATT
6850 TATAAATTTAATTTTA
1 TATAAATTTAATTTTA
*
6866 TATAAA-TTACTTTTA
1 TATAAATTTAATTTTA
6881 TA
1 TA
6883 AACATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TATAAATTTAATTTTA
Found at i:7773 original size:2 final size:2
Alignment explanation
Indices: 7766--7809 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
7756 TTCAAGTAAT
* *
7766 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA -A TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7807 TA T
1 TA T
7810 TTAATTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8319 original size:59 final size:59
Alignment explanation
Indices: 8225--8397 Score: 172
Period size: 59 Copynumber: 2.9 Consensus size: 59
8215 AGGGGATATT
* * * *
8225 ATTGGAAAGTTGAAAAGTTTTGGGACTAATTTAGAATAAGGGTCATAGTTTGAGGATGAA
1 ATTGGAATGTTCAAAAGTTTTGGGACCAAATTAGAATAAGGGTCATAGTTTG-GGATGAA
* * * *
8285 TTTGGAATGTTTAAAA-TTTTGGGACCAAATTAGAAT-GGGAGTCATAATTTGGGATGAA
1 ATTGGAATGTTCAAAAGTTTTGGGACCAAATTAGAATAAGG-GTCATAGTTTGGGATGAA
** * * * *
8343 ATTAAAATGCTCAAAAGTTTAT-TGACCAAATTAGAATAAGAGTAATAGTTTGGGA
1 ATTGGAATGTTCAAAAGTTT-TGGGACCAAATTAGAATAAGGGTCATAGTTTGGGA
8398 ATGTATGTTA
Statistics
Matches: 92, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
58 20 0.22
59 57 0.62
60 15 0.16
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.32
Consensus pattern (59 bp):
ATTGGAATGTTCAAAAGTTTTGGGACCAAATTAGAATAAGGGTCATAGTTTGGGATGAA
Found at i:11936 original size:2 final size:2
Alignment explanation
Indices: 11929--11965 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
11919 TGTTTTGTAT
11929 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11966 TTTAGGGTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15637 original size:21 final size:21
Alignment explanation
Indices: 15612--15660 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
15602 AAAATCTATT
* *
15612 TTTTAAGTGAAAGTGTTTTGA
1 TTTTAAGTGAAAGCGTTTTAA
15633 TTTTAAGTGAAAGCGTTTTAA
1 TTTTAAGTGAAAGCGTTTTAA
15654 TTTTAAG
1 TTTTAAG
15661 AAAGACTATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (21 bp):
TTTTAAGTGAAAGCGTTTTAA
Found at i:16841 original size:2 final size:2
Alignment explanation
Indices: 16834--16860 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
16824 TTAATTAGTA
16834 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 A
16861 ATTCTTCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18784 original size:131 final size:129
Alignment explanation
Indices: 18557--18873 Score: 332
Period size: 131 Copynumber: 2.4 Consensus size: 129
18547 AAATGTTCTT
* * * * *
18557 TCATGCCTTAAAACATTCATTTATTACTCCAA-GATAAATGAAGAGATATTACTATTTTGTCTTA
1 TCATACCTTAAAGCAATCATTTATTACTCCAACCA-AAATGAAGAGATA-TACTATTATGTCTTA
* * * * * * ** * * *
18621 AAATTCAATATTGATTTGAGTGTAAACGGTAATTTCTAATGT-TTTCCAATTGAGAATAAATGGC
64 AAAATCAATATTCATTCGAGAGAAAACAGTAATAACGAAT-TATTTCCAATCGAGAA-AAATGAC
18685 ATC
127 ATC
** * *
18688 TCATACCTTAAAGCAATCATTTATTGTTGCAATCAAAATGAAGAGATATCACTATTATGTCTTAA
1 TCATACCTTAAAGCAATCATTTATTACTCCAACCAAAATGAAGAGATAT-ACTATTATGTCTTAA
* *
18753 AAATCAATATTCATTCGAGAGAAAACAGTAATAACGAATTATTTCCAATCGAGAAAAATTACCTC
65 AAATCAATATTCATTCGAGAGAAAACAGTAATAACGAATTATTTCCAATCGAGAAAAATGACATC
* ** *
18818 TCATGCCTTAAAGCCGTCATTTATTACTCCAACCAAAATGAAAAGATGATACTATT
1 TCATACCTTAAAGCAATCATTTATTACTCCAACCAAAATGAAGAGAT-ATACTATT
18874 CTCTATATCA
Statistics
Matches: 153, Mismatches: 29, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
130 54 0.35
131 98 0.64
132 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.34
Consensus pattern (129 bp):
TCATACCTTAAAGCAATCATTTATTACTCCAACCAAAATGAAGAGATATACTATTATGTCTTAAA
AATCAATATTCATTCGAGAGAAAACAGTAATAACGAATTATTTCCAATCGAGAAAAATGACATC
Found at i:19999 original size:7 final size:7
Alignment explanation
Indices: 19987--20035 Score: 64
Period size: 7 Copynumber: 7.0 Consensus size: 7
19977 TTTACCTTCT
19987 TTTTTTA
1 TTTTTTA
19994 TTTTTTCA
1 TTTTTT-A
*
20002 TTTTTCA
1 TTTTTTA
20009 TTTTTTA
1 TTTTTTA
*
20016 TTTTTCA
1 TTTTTTA
20023 -TTTTTA
1 TTTTTTA
20029 TTTTTTA
1 TTTTTTA
20036 AAAAGAAACT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
6 5 0.14
7 25 0.69
8 6 0.17
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTTTA
Found at i:20012 original size:14 final size:13
Alignment explanation
Indices: 19995--20033 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 13
19985 CTTTTTTTAT
19995 TTTTTCATTTTTCA
1 TTTTT-ATTTTTCA
20009 TTTTTTATTTTTCA
1 -TTTTTATTTTTCA
20023 TTTTTATTTTT
1 TTTTTATTTTT
20034 TAAAAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 8 0.33
15 5 0.21
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTATTTTTCA
Found at i:20019 original size:21 final size:21
Alignment explanation
Indices: 19987--20035 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
19977 TTTACCTTCT
19987 TTTTTTATTTTTTCATTTTTCA
1 TTTTTTATTTTTTCATTTTT-A
20009 TTTTTTA-TTTTTCATTTTTA
1 TTTTTTATTTTTTCATTTTTA
20029 TTTTTTA
1 TTTTTTA
20036 AAAAGAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 8 0.30
21 12 0.44
22 7 0.26
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTTATTTTTTCATTTTTA
Found at i:20034 original size:8 final size:8
Alignment explanation
Indices: 19986--20027 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
19976 TTTTACCTTC
*
19986 TTTTTTTA
1 TTTTTTCA
19994 TTTTTTCA
1 TTTTTTCA
20002 -TTTTTCA
1 TTTTTTCA
20009 TTTTTT-A
1 TTTTTTCA
20016 -TTTTTCA
1 TTTTTTCA
20023 TTTTT
1 TTTTT
20028 ATTTTTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
6 5 0.17
7 9 0.30
8 16 0.53
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTTCA
Found at i:20034 original size:14 final size:14
Alignment explanation
Indices: 19987--20033 Score: 69
Period size: 15 Copynumber: 3.4 Consensus size: 14
19977 TTTACCTTCT
*
19987 TTTTTTATTTTTTCA
1 TTTTTCATTTTTT-A
20002 TTTTTCATTTTTTA
1 TTTTTCATTTTTTA
20016 TTTTTCA-TTTTTA
1 TTTTTCATTTTTTA
20029 TTTTT
1 TTTTT
20034 TAAAAAGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 11 0.35
14 8 0.26
15 12 0.39
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTCATTTTTTA
Found at i:21435 original size:133 final size:134
Alignment explanation
Indices: 21187--21616 Score: 474
Period size: 133 Copynumber: 3.2 Consensus size: 134
21177 TCGAGAAACA
* * * *
21187 TTGACTCATTCCACTGTTCTTCAGGGAAGA-TGAATCGAGGCAGACTTGTTCCATTTTTACTCAA
1 TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGACAGACTTGTTCCACTATTACTCAA
* * * * * * * *
21251 GGAATATCAAA-ATGGGAACAGAGGAATCTGTTTCACTACTTCTTGAGGGAAAATTAGATCTGGA
66 GGAATATCAAATCTTGAAAGAGAGGGATATGTTTCGCTTCTTCTTGAGGGAAAATTAGATCTGGA
*
21315 AATG
131 GATG
* * * *
21319 TTGATTCATTCCATTGTTCTTTAGGGAAGATTGAATCGAGACAGACTTGTTCCACTGTTACTCAT
1 TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGACAGACTTGTTCCACTATTACTCAA
* * * *
21384 GGAATATCAAATCTTAAAAGAGAGGGATTTGTTTCGCTTCTTCATGAGGAAAAATTAGATCTGG-
66 GGAATATCAAATCTTGAAAGAGAGGGATATGTTTCGCTTCTTCTTGAGGGAAAATTAGATCTGGA
*
21448 GACG
131 GATG
* * * *
21452 TTGATTCATTCCGCTGTTCTTTATGGAAGATTGAATCGA-AGCAGACTTATTCCACTATTACTCA
1 TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGA-CAGACTTGTTCCACTATTACTCA
* * ** * * * * *
21516 GGGAAGATCAAATCTTGAAAGAGCTGGATATGTTCCGCTTCTTCTTGATGGAAAATCATATAT-G
65 AGGAATATCAAATCTTGAAAGAGAGGGATATGTTTCGCTTCTTCTTGAGGGAAAATTAGATCTGG
21580 AGGATG
130 A-GATG
* *
21586 TTGATTCATTCCATTGTTCCTCAGGGAAGAT
1 TTGATTCATTCCACTGTTCTTCAGGGAAGAT
21617 CAAATCTAAA
Statistics
Matches: 249, Mismatches: 44, Indels: 8
0.83 0.15 0.03
Matches are distributed among these distances:
132 29 0.12
133 150 0.60
134 70 0.28
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.33
Consensus pattern (134 bp):
TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGACAGACTTGTTCCACTATTACTCAA
GGAATATCAAATCTTGAAAGAGAGGGATATGTTTCGCTTCTTCTTGAGGGAAAATTAGATCTGGA
GATG
Found at i:22951 original size:29 final size:28
Alignment explanation
Indices: 22926--22981 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
22916 CCTGACCATT
*
22926 GACTGGTC-TAACCGTTGACTTTGACCA
1 GACTGATCATAACCGTTGACTTTGACCA
*
22953 GTCTGATCATTAACCGTTGACTTTGACCA
1 GACTGATCA-TAACCGTTGACTTTGACCA
22982 AAAAAATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 6 0.24
29 19 0.76
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (28 bp):
GACTGATCATAACCGTTGACTTTGACCA
Found at i:22990 original size:29 final size:29
Alignment explanation
Indices: 22934--22990 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
22924 TTGACTGGTC
*****
22934 TAACCGTTGACTTTGACCAGTCTGATCAT
1 TAACCGTTGACTTTGACCAAAAAAATCAT
22963 TAACCGTTGACTTTGACCAAAAAAATCA
1 TAACCGTTGACTTTGACCAAAAAAATCA
22991 AATTTTACTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (29 bp):
TAACCGTTGACTTTGACCAAAAAAATCAT
Found at i:26860 original size:17 final size:17
Alignment explanation
Indices: 26836--26883 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
26826 TTTTCAGTGT
*
26836 TTTAGTTTTTGATTCAA
1 TTTAGTTTTTGATTAAA
*
26853 TTTGGTTTTTTGATTAAA
1 TTTAG-TTTTTGATTAAA
*
26871 TTTAGTTTCTGAT
1 TTTAGTTTTTGAT
26884 GTATATTCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.21, C:0.04, G:0.15, T:0.60
Consensus pattern (17 bp):
TTTAGTTTTTGATTAAA
Found at i:26864 original size:18 final size:18
Alignment explanation
Indices: 26836--26878 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
26826 TTTTCAGTGT
*
26836 TTTAG-TTTTTGATTCAA
1 TTTAGTTTTTTGATTAAA
*
26853 TTTGGTTTTTTGATTAAA
1 TTTAGTTTTTTGATTAAA
26871 TTTAGTTT
1 TTTAGTTT
26879 CTGATGTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.21, C:0.02, G:0.14, T:0.63
Consensus pattern (18 bp):
TTTAGTTTTTTGATTAAA
Found at i:29585 original size:42 final size:42
Alignment explanation
Indices: 29523--29616 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 42
29513 TGGATGGCCT
* * *
29523 GAAGGTCTTA-TCATCTTGCTCGAAAGGCTTA-TAGATGACCC
1 GAAGGACTTACTCATCATGCTCGAAAGACTTACTA-ATGACCC
* *
29564 GAAGGATTTACTCATCATGCTCGAAAGACTTACTAATGTCCC
1 GAAGGACTTACTCATCATGCTCGAAAGACTTACTAATGACCC
29606 GAAGGACTTAC
1 GAAGGACTTAC
29617 CAATTTTAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
41 8 0.18
42 35 0.78
43 2 0.04
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (42 bp):
GAAGGACTTACTCATCATGCTCGAAAGACTTACTAATGACCC
Found at i:29844 original size:42 final size:42
Alignment explanation
Indices: 29765--29844 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
29755 CGAATGACTT
* * *
29765 ATCATCTTGCTCGAAAGACTTACAAATGACCCGAAGGATTTA
1 ATCATCATGCTAGAAAGACTTACAAATGACCCAAAGGATTTA
** *
29807 ATCATCATGCTAGAAAGACTTACTGATGGCCCAAAGGA
1 ATCATCATGCTAGAAAGACTTACAAATGACCCAAAGGA
29845 CTTACTAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (42 bp):
ATCATCATGCTAGAAAGACTTACAAATGACCCAAAGGATTTA
Found at i:29867 original size:233 final size:232
Alignment explanation
Indices: 29311--30042 Score: 792
Period size: 233 Copynumber: 3.1 Consensus size: 232
29301 AGGCTTATAG
* * * *
29311 ATGACTCGAAGGATTTACTCATCATCCTCA-AAATACTTA-TCGATGGCCCAAAGGACTAACAAA
1 ATGACCCGAAGGATTTACTCATCATGCT-AGAAAGACTTACT-GATGGCCCAAAGGACTTACAAA
*
29374 TTTTGGAAATAGTTTACTAGGTAAGAAGATTTGGAAATTATTTTCTTACTTTT-AAAAAATTTCA
64 TTTTGGAAATAGTTTACTAGGT----A-A--T--AAA--CTTTTCTTACTTTTCAAAAAA-TTCA
* * * * * *
29438 ATTCTCATATTAAAATGATAATAATTTTTTCTCATTTTTTGAGAAACATGTGAAAACTTCCTGCC
117 ATTTTAAAATTTAAATGA-AA-AA-TTTTTCTCATTTTTCGA-AAACATGTGAAAACATCCTGCC
* * * * * * *
29503 C-AAAGTCTTCTGGATGGCCTGAAGGTCTTATCATCTTGCTCGAAAGGCTTATAG
178 CGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTACAA
* * * * *
29557 ATGACCCGAAGGATTTACTCATCATGCTCGAAAGACTTACTAATGTCCCGAAGGACTTACCAATT
1 ATGACCCGAAGGATTTACTCATCATGCTAGAAAGACTTACTGATGGCCCAAAGGACTTACAAATT
29622 TTAGG-AATAGTTTACTAGGTAATAAACTTTTCTTACTTTTCAAAAAATTCAATTTTAAAATTTA
66 TT-GGAAATAGTTTACTAGGTAATAAACTTTTCTTACTTTTCAAAAAATTCAATTTTAAAATTTA
* * * *
29686 AATGAGAAATTTTTCTCATTTTTCGCAAGACATGTGAAAACATCCTGCCCGATGGTCTTATGGGT
130 AATGAAAAATTTTTCTCATTTTTCG-AAAACATGTGAAAACATCCTGCCCGAAGGTCTTATGGAT
*
29751 GGCCCGAATGACTTATCATCTTGCTCGAAAGACTTACAA
194 GGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTACAA
* *
29790 ATGACCCGAAGGATTTAATCATCATGCTAGAAAGACTTACTGATGGCCCAAAGGACTTACTAATT
1 ATGACCCGAAGGATTTACTCATCATGCTAGAAAGACTTACTGATGGCCCAAAGGACTTACAAATT
* * * *
29855 TTGGAAATAGTTTACTAGGTAAGAAACTTTCCTTACTTTTCAAAAAATTCAATTTTTAGATTTAA
66 TTGGAAATAGTTTACTAGGTAATAAACTTTTCTTACTTTTCAAAAAATTCAATTTTAAAATTTAA
* * * * *
29920 ATGATAAATTTTTCTCATTTTTCGAAAAACTTCTGAAAACATCCT-CCTTGAAGTTCTTATGGAT
131 ATGAAAAATTTTTCTCATTTTTCG-AAAACATGTGAAAACATCCTGCC-CGAAGGTCTTATGGAT
* * * * *
29984 TGCCCGAAGGATTTAATCATCATGCTCAAAAGACTTACTA
194 GGCCCGAAGGACTT-ATCATCTTGCTCGAAAGACTTACAA
* * *
30024 ATGGCCCAAAGGACTTACT
1 ATGACCCGAAGGATTTACT
30043 AAGTAAGAAA
Statistics
Matches: 420, Mismatches: 57, Indels: 30
0.83 0.11 0.06
Matches are distributed among these distances:
232 40 0.10
233 226 0.54
234 38 0.09
235 31 0.07
236 6 0.01
237 3 0.01
239 1 0.00
241 1 0.00
242 1 0.00
246 70 0.17
247 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (232 bp):
ATGACCCGAAGGATTTACTCATCATGCTAGAAAGACTTACTGATGGCCCAAAGGACTTACAAATT
TTGGAAATAGTTTACTAGGTAATAAACTTTTCTTACTTTTCAAAAAATTCAATTTTAAAATTTAA
ATGAAAAATTTTTCTCATTTTTCGAAAACATGTGAAAACATCCTGCCCGAAGGTCTTATGGATGG
CCCGAAGGACTTATCATCTTGCTCGAAAGACTTACAA
Found at i:36934 original size:129 final size:131
Alignment explanation
Indices: 36688--37022 Score: 415
Period size: 129 Copynumber: 2.6 Consensus size: 131
36678 ATATTTAATT
* * ** *
36688 ATTTCCAATCGAGTATAAATGACCTTTCATGCCTTAAAATAGTCATTTATTACTCCAATCGAAAT
1 ATTTCCAATCGAGAATAAATGACCTTTCATACCTTAAAGCAATCATTTATTACTCCAATCGAAAT
* * * * * *
36753 GAAGAAATATTACTATTTCATCTTAAAATTCAATATCGATTCGAGTGGAAACGGTAATATCTAAT
66 GAAGAGATATCACTATTTCATCTTAAAAATCAATATCGATTCGAGAGAAAACGGTAATATCGAAT
36818 G
131 G
* * * * *
36819 GTTTCCAATCGAGAATGAATGACCTCTCATATCTTAAAGCAATCATTTA-T-CTCCAATCAAAAT
1 ATTTCCAATCGAGAATAAATGACCTTTCATACCTTAAAGCAATCATTTATTACTCCAATCGAAAT
** *
36882 GAAGAGATATCACTATTTTGTCTTAAAAATCAATATTGA-TCAGAGAGAAAACGGTAATATCGAA
66 GAAGAGATATCACTATTTCATCTTAAAAATCAATATCGATTC-GAGAGAAAACGGTAATATCGAA
*
36946 TT
130 TG
* * * *
36948 ATTTCCTATCGAGAATAAATAACTTTTCATACCTTAAAGCAATCATTTATTACTCCAACCGAAAT
1 ATTTCCAATCGAGAATAAATGACCTTTCATACCTTAAAGCAATCATTTATTACTCCAATCGAAAT
*
37013 GAAAAGATAT
66 GAAGAGATAT
37023 TATTATTCTC
Statistics
Matches: 171, Mismatches: 30, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
128 2 0.01
129 107 0.63
130 2 0.01
131 60 0.35
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.33
Consensus pattern (131 bp):
ATTTCCAATCGAGAATAAATGACCTTTCATACCTTAAAGCAATCATTTATTACTCCAATCGAAAT
GAAGAGATATCACTATTTCATCTTAAAAATCAATATCGATTCGAGAGAAAACGGTAATATCGAAT
G
Found at i:37348 original size:27 final size:27
Alignment explanation
Indices: 37310--37423 Score: 219
Period size: 27 Copynumber: 4.2 Consensus size: 27
37300 AATAGGATAT
37310 ACTTTCGTTTTAAATTTATCGAAAGTA
1 ACTTTCGTTTTAAATTTATCGAAAGTA
37337 ACTTTCGTTTTAAATTTATCGAAAGTA
1 ACTTTCGTTTTAAATTTATCGAAAGTA
*
37364 ACTTTCATTTTAAATTTATCGAAAGTA
1 ACTTTCGTTTTAAATTTATCGAAAGTA
37391 ACTTTCGTTTTAAATTTATCGAAAGTA
1 ACTTTCGTTTTAAATTTATCGAAAGTA
37418 ACTTTC
1 ACTTTC
37424 TTATACTTTA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 85 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (27 bp):
ACTTTCGTTTTAAATTTATCGAAAGTA
Found at i:39143 original size:3 final size:3
Alignment explanation
Indices: 39135--39171 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
39125 TAACCTGAAA
39135 AAT AAT AAT AAT AAT AAT AAT AA- ATAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT A
39172 TTATTAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 1 0.03
3 30 0.94
4 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:39815 original size:5 final size:5
Alignment explanation
Indices: 39805--39830 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
39795 TGACTTAGAA
39805 ACCCG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACCCG ACCCG A
39831 AATAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.58, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:40197 original size:29 final size:29
Alignment explanation
Indices: 40161--40225 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
40151 TATATGGCCT
*
40161 ATAT-CCCCTTTAGTGTATTTATAATACA
1 ATATGCCCCTTTAATGTATTTATAATACA
* *
40189 ATATGCCCCTTTAATTTATTTATAGTACA
1 ATATGCCCCTTTAATGTATTTATAATACA
*
40218 ATTTGCCC
1 ATATGCCC
40226 TTAAATAGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 4 0.12
29 28 0.88
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.43
Consensus pattern (29 bp):
ATATGCCCCTTTAATGTATTTATAATACA
Found at i:40836 original size:60 final size:60
Alignment explanation
Indices: 40752--40923 Score: 184
Period size: 60 Copynumber: 2.9 Consensus size: 60
40742 TATTGGAATG
* * * * *
40752 TTCAAAAGTTTGGAGACTAATTTAGAATAAGGGTCATAGTTTGAGGATGAATTTAGAATT
1 TTCAAAAGTTTGGGGACCAATTTAGAATAAGAGTCATAGTTTGAGGATGAATTTAAAATA
* * * * *
40812 TTTAAAAGTGTGGGGACCAATTTAGAATGAGAATCATAGTTT-AGGTATGAAATTAAAATA
1 TTCAAAAGTTTGGGGACCAATTTAGAATAAGAGTCATAGTTTGAGG-ATGAATTTAAAATA
* * * * * *
40872 TTCAAAAGTTTAGGAATCAAATTGGAATAAGAGTCATAGTTTGGGGATGAAT
1 TTCAAAAGTTTGGGGACCAATTTAGAATAAGAGTCATAGTTTGAGGATGAAT
40924 GTTACAGTTA
Statistics
Matches: 89, Mismatches: 21, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
59 3 0.03
60 84 0.94
61 2 0.02
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.33
Consensus pattern (60 bp):
TTCAAAAGTTTGGGGACCAATTTAGAATAAGAGTCATAGTTTGAGGATGAATTTAAAATA
Found at i:41578 original size:7 final size:6
Alignment explanation
Indices: 41540--41577 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
41530 CACTCTTCTC
*
41540 TTCTTT TTCTTT TTCTTT TTCTTT TTCCTT TTCTTT TT
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TT
41578 TAATAAGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTCTTT
Found at i:46354 original size:2 final size:2
Alignment explanation
Indices: 46347--46389 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
46337 TGTATGTATG
46347 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
46389 T
1 T
46390 CATTTTATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:47361 original size:2 final size:2
Alignment explanation
Indices: 47356--47400 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
47346 CTTTGACTTT
47356 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
47398 TA T
1 TA T
47401 TAGGCCGGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:47916 original size:17 final size:18
Alignment explanation
Indices: 47894--47927 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
47884 ATTTTCATAG
47894 CCCATTTTT-ATATTTTT
1 CCCATTTTTAATATTTTT
47911 CCCATTTTTAATATTTT
1 CCCATTTTTAATATTTT
47928 AATTATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.21, C:0.18, G:0.00, T:0.62
Consensus pattern (18 bp):
CCCATTTTTAATATTTTT
Found at i:47962 original size:24 final size:24
Alignment explanation
Indices: 47915--47985 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
47905 ATTTTTCCCA
*
47915 TTTTT-AATATTTT--A-ATTATA
1 TTTTTAAATATTTTGAATATTATT
*
47935 TTTTTATATA-TTTGAATATT-TAT
1 TTTTTAAATATTTTGAATATTAT-T
*
47958 TTTTTAAATATTTTTAATATTATT
1 TTTTTAAATATTTTGAATATTATT
47982 TTTT
1 TTTT
47986 CAAGATGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
20 8 0.20
21 3 0.08
22 2 0.05
23 12 0.30
24 14 0.35
25 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (24 bp):
TTTTTAAATATTTTGAATATTATT
Found at i:47968 original size:23 final size:23
Alignment explanation
Indices: 47915--47985 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
47905 ATTTTTCCCA
47915 TTTTT-AATATTTT--A-ATTAT
1 TTTTTAAATATTTTGAATATTAT
*
47934 ATTTTTATATA-TTTGAATATTTAT
1 -TTTTTAAATATTTTGAATA-TTAT
*
47958 TTTTTAAATATTTTTAATATTAT
1 TTTTTAAATATTTTGAATATTAT
47981 TTTTT
1 TTTTT
47986 CAAGATGAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
20 8 0.19
21 3 0.07
22 1 0.02
23 19 0.45
24 11 0.26
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (23 bp):
TTTTTAAATATTTTGAATATTAT
Found at i:49304 original size:24 final size:24
Alignment explanation
Indices: 49253--49306 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
49243 GTATTCGAAA
*
49253 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
49277 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
49301 TTTGAT
1 TTTGAT
49307 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:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:57614 original size:21 final size:21
Alignment explanation
Indices: 57588--57627 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
57578 CCCCCTTTGA
*
57588 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
57609 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
57628 TGGGGTTCTG
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:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:61188 original size:18 final size:18
Alignment explanation
Indices: 61148--61188 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
61138 AAGTAAAAGG
61148 CAATCAAAATCGCAATCA
1 CAATCAAAATCGCAATCA
*
61166 AAATCAAAATC-CTAATCA
1 CAATCAAAATCGC-AATCA
61184 CAATC
1 CAATC
61189 GCCTTCACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.51, C:0.27, G:0.02, T:0.20
Consensus pattern (18 bp):
CAATCAAAATCGCAATCA
Found at i:61384 original size:20 final size:20
Alignment explanation
Indices: 61361--61470 Score: 175
Period size: 20 Copynumber: 5.5 Consensus size: 20
61351 TTCATTTCAA
*
61361 TATCACAACGCGAATTTGAC
1 TATCGCAACGCGAATTTGAC
*
61381 TATCGTAACGCGAATTTGAC
1 TATCGCAACGCGAATTTGAC
61401 TATCGCAACGCGAATTTGAC
1 TATCGCAACGCGAATTTGAC
*
61421 TATCGCAACGCGAATTTGAT
1 TATCGCAACGCGAATTTGAC
* *
61441 TATCGCAACGGGAATTTAAC
1 TATCGCAACGCGAATTTGAC
61461 TATCGCAACG
1 TATCGCAACG
61471 AGAAAAGCGC
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 83 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (20 bp):
TATCGCAACGCGAATTTGAC
Found at i:61541 original size:20 final size:21
Alignment explanation
Indices: 61516--61558 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
61506 GCGAATTGAC
*
61516 TTTCGCGTTACGATTTTG-GT
1 TTTCGCATTACGATTTTGAGT
*
61536 TTTCGCATTGCGATTTTGAGT
1 TTTCGCATTACGATTTTGAGT
61557 TT
1 TT
61559 AGCGTTGCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.12, C:0.14, G:0.23, T:0.51
Consensus pattern (21 bp):
TTTCGCATTACGATTTTGAGT
Found at i:61566 original size:20 final size:20
Alignment explanation
Indices: 61520--61568 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
61510 ATTGACTTTC
* *
61520 GCGTTACGATTTTGGTTTTC
1 GCGTTGCGATTTTGGTTTTA
*
61540 GCATTGCGATTTTGAG-TTTA
1 GCGTTGCGATTTTG-GTTTTA
61560 GCGTTGCGA
1 GCGTTGCGA
61569 AAGTGTACCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.14, C:0.14, G:0.29, T:0.43
Consensus pattern (20 bp):
GCGTTGCGATTTTGGTTTTA
Found at i:61707 original size:14 final size:14
Alignment explanation
Indices: 61688--61724 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
61678 CATCAATTAA
61688 ACAAATCAACTTTT
1 ACAAATCAACTTTT
61702 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
61716 ACGAATCAA
1 ACAAATCAA
61725 TTAAACAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.22, G:0.03, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:63138 original size:21 final size:21
Alignment explanation
Indices: 63109--63212 Score: 84
Period size: 21 Copynumber: 5.0 Consensus size: 21
63099 GAATGGTGGG
* *
63109 AGAGACCTCTTCAACGATGAT
1 AGAGGCCTCTTGAACGATGAT
* * * **
63130 AGGGGCCTCTTTAACGGTGGG
1 AGAGGCCTCTTGAACGATGAT
* * **
63151 AGGGGACTCTTGAGGGATGAT
1 AGAGGCCTCTTGAACGATGAT
*
63172 AAAGGCCTCTTGAACGAT-AT
1 AGAGGCCTCTTGAACGATGAT
63192 GAGAGGCCTCTTGAACGATGA
1 -AGAGGCCTCTTGAACGATGA
63213 CAGGTGAGTC
Statistics
Matches: 62, Mismatches: 19, Indels: 3
0.74 0.23 0.04
Matches are distributed among these distances:
20 2 0.03
21 59 0.95
22 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (21 bp):
AGAGGCCTCTTGAACGATGAT
Found at i:63212 original size:42 final size:42
Alignment explanation
Indices: 63107--63212 Score: 104
Period size: 42 Copynumber: 2.5 Consensus size: 42
63097 TTGAATGGTG
* * ** * * *
63107 GGAGAGACCTCTTCAACGATGATAGGGGCCTCTTTAACGGTG
1 GGAGAGGCCTCTTGAACGATGATAAAGGCCTCTTGAACGATA
* * **
63149 GGAGGGGACTCTTGAGGGATGATAAAGGCCTCTTGAACGATA
1 GGAGAGGCCTCTTGAACGATGATAAAGGCCTCTTGAACGATA
*
63191 TGAGAGGCCTCTTGAACGATGA
1 GGAGAGGCCTCTTGAACGATGA
63213 CAGGTGAGTC
Statistics
Matches: 48, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.26, C:0.18, G:0.33, T:0.23
Consensus pattern (42 bp):
GGAGAGGCCTCTTGAACGATGATAAAGGCCTCTTGAACGATA
Found at i:63721 original size:20 final size:20
Alignment explanation
Indices: 63693--63735 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
63683 ATAGTTTCTA
63693 AAACGTAAAATTGCAACACG
1 AAACGTAAAATTGCAACACG
* *
63713 AAACTTAAAATTGCAACGCG
1 AAACGTAAAATTGCAACACG
63733 AAA
1 AAA
63736 ATGATTATCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.19, G:0.14, T:0.16
Consensus pattern (20 bp):
AAACGTAAAATTGCAACACG
Found at i:63910 original size:20 final size:20
Alignment explanation
Indices: 63865--63913 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
63855 GCGATTATCC
*
63865 CGTTACGATAGTCAAATTTG
1 CGTTGCGATAGTCAAATTTG
* *
63885 CTTTGCGATAGTC-ATTTTCG
1 CGTTGCGATAGTCAAATTT-G
63905 CGTTGCGAT
1 CGTTGCGAT
63914 TTTAAGTTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.39
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTTG
Found at i:63923 original size:20 final size:20
Alignment explanation
Indices: 63900--63949 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
63890 CGATAGTCAT
*
63900 TTTCGCGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
63920 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
*
63940 CTTCGTGTTG
1 TTTCGTGTTG
63950 TGACTATTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.12, C:0.14, G:0.26, T:0.48
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:65866 original size:20 final size:20
Alignment explanation
Indices: 65843--65893 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
65833 TCTGAAACTT
65843 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
65863 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
**
65883 ACTATCGCAAC
1 AAAATCGCAAC
65894 GCAAATTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.51, C:0.24, G:0.14, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:66634 original size:21 final size:21
Alignment explanation
Indices: 66610--66656 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
66600 TATTCGCATT
*
66610 GCGATTTTCTAAAATCGCAAC
1 GCGATTTTCGAAAATCGCAAC
* * *
66631 GCGAATTTGGAAAATCGCAAT
1 GCGATTTTCGAAAATCGCAAC
66652 GCGAT
1 GCGAT
66657 AGTCAAAATC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (21 bp):
GCGATTTTCGAAAATCGCAAC
Found at i:66676 original size:41 final size:41
Alignment explanation
Indices: 66569--66684 Score: 108
Period size: 41 Copynumber: 2.8 Consensus size: 41
66559 ATTATCGTGT
* ** * * *
66569 TGCGATAGTCAGAATCGCGTTGCG-ATTTACATATTCGCAT
1 TGCGATAGTCAAAATCGCGTTGCGAATTTGGAAAATCGCAA
** ***
66609 TGCGATTTTCTAAAATCGCAACGCGAATTTGGAAAATCGCAA
1 TGCGATAGTC-AAAATCGCGTTGCGAATTTGGAAAATCGCAA
*
66651 TGCGATAGTCAAAATCGCGTTGCGAATCTGGAAA
1 TGCGATAGTCAAAATCGCGTTGCGAATTTGGAAA
66685 CTAAATCTGG
Statistics
Matches: 57, Mismatches: 17, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
40 8 0.14
41 30 0.53
42 19 0.33
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (41 bp):
TGCGATAGTCAAAATCGCGTTGCGAATTTGGAAAATCGCAA
Found at i:66693 original size:13 final size:13
Alignment explanation
Indices: 66675--66701 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
66665 TCGCGTTGCG
66675 AATCTGGAAACTA
1 AATCTGGAAACTA
66688 AATCTGGAAACTA
1 AATCTGGAAACTA
66701 A
1 A
66702 TTTGCGATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (13 bp):
AATCTGGAAACTA
Found at i:66728 original size:20 final size:19
Alignment explanation
Indices: 66703--66748 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
66693 GGAAACTAAT
* *
66703 TTGCGATACTCGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
*
66723 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
66742 TTGCGAT
1 TTGCGAT
66749 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:66738 original size:19 final size:19
Alignment explanation
Indices: 66714--66750 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
66704 TGCGATACTC
*
66714 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
66733 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
66751 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:67618 original size:29 final size:29
Alignment explanation
Indices: 67568--67671 Score: 95
Period size: 29 Copynumber: 3.6 Consensus size: 29
67558 TCACAGAATT
* *
67568 GAGAATAAAACAAATATTCCTTTTAGAAA
1 GAGAATAAAACAATTATCCCTTTTAGAAA
* *
67597 GAGAATAAAACAATTATCCCTTCTGGAAA
1 GAGAATAAAACAATTATCCCTTTTAGAAA
* * * *
67626 AACAATAAAATAATTA-CACC-TTTAGACA
1 GAGAATAAAACAATTATC-CCTTTTAGAAA
*
67654 GATAATAAAACAAATTAT
1 GAGAATAAAAC-AATTAT
67672 AGTTCTAATA
Statistics
Matches: 59, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
28 14 0.24
29 45 0.76
ACGTcount: A:0.52, C:0.13, G:0.09, T:0.26
Consensus pattern (29 bp):
GAGAATAAAACAATTATCCCTTTTAGAAA
Found at i:67791 original size:59 final size:59
Alignment explanation
Indices: 67699--67840 Score: 259
Period size: 59 Copynumber: 2.4 Consensus size: 59
67689 ACAAGTCCAT
*
67699 TTTTTATAGGGTTGGTAGAAGTGTGAAAGCGTGCTGCTGAGGGGTTGGTAGTTGTCAGC
1 TTTTTATAGGGTTGGTAGAAGTGTGAAAGCGTGCTGCTGAGGGGTGGGTAGTTGTCAGC
*
67758 TTTTTATAGGATTGGTAGAAGTGTGAAAGCGTGCTGCTGAGGGGTGGGTAGTTGTCAGC
1 TTTTTATAGGGTTGGTAGAAGTGTGAAAGCGTGCTGCTGAGGGGTGGGTAGTTGTCAGC
67817 TTTTTATAGGGTTGGTA-AAGTGTG
1 TTTTTATAGGGTTGGTAGAAGTGTG
67841 CCATAATAAA
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
58 7 0.09
59 73 0.91
ACGTcount: A:0.20, C:0.07, G:0.38, T:0.35
Consensus pattern (59 bp):
TTTTTATAGGGTTGGTAGAAGTGTGAAAGCGTGCTGCTGAGGGGTGGGTAGTTGTCAGC
Found at i:71375 original size:3 final size:3
Alignment explanation
Indices: 71362--71405 Score: 52
Period size: 3 Copynumber: 14.0 Consensus size: 3
71352 TATGGGTTTG
* *
71362 TAA TAAA TAA TAA TAA TAA TAA TATT TTA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
71406 CATATCATAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
3 31 0.89
4 4 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:72054 original size:11 final size:10
Alignment explanation
Indices: 72037--72125 Score: 63
Period size: 10 Copynumber: 8.4 Consensus size: 10
72027 GAATTTATTA
72037 TTTTTCTTTT
1 TTTTTCTTTT
*
72047 TCTTTTCTGGTT
1 T-TTTTCT-TTT
* *
72059 TCTTTCATTT
1 TTTTTCTTTT
72069 TTTTTCATTTT
1 TTTTTC-TTTT
* *
72080 TTTCTCATTT
1 TTTTTCTTTT
72090 TTTTTCTTTT
1 TTTTTCTTTT
72100 TTCCTTT-TTTT
1 TT--TTTCTTTT
*
72111 CTATTTCTTTT
1 -TTTTTCTTTT
72122 TTTT
1 TTTT
72126 CAACACCATA
Statistics
Matches: 60, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
10 27 0.45
11 26 0.43
12 7 0.12
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.79
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:72087 original size:21 final size:20
Alignment explanation
Indices: 72063--72124 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
72053 CTGGTTTCTT
72063 TCATTTTTTTTCATTTTTTTC
1 TCATTTTTTTTC-TTTTTTTC
*
72084 TCATTTTTTTTCTTTTTTCC
1 TCATTTTTTTTCTTTTTTTC
**
72104 TTTTTTTCTATTTCTTTTTTT
1 TCATTTT-T-TTTCTTTTTTT
72125 TCAACACCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 12 0.34
21 13 0.37
22 10 0.29
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (20 bp):
TCATTTTTTTTCTTTTTTTC
Found at i:72100 original size:28 final size:28
Alignment explanation
Indices: 72068--72122 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
72058 TTCTTTCATT
72068 TTTTTTCATTTTTTTCTCATTT-TTTTTC
1 TTTTTTCATTTTTTTCT-ATTTCTTTTTC
*
72096 TTTTTTCCTTTTTTTCTATTTCTTTTT
1 TTTTTTCATTTTTTTCTATTTCTTTTT
72123 TTTCAACACC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 4 0.16
28 21 0.84
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (28 bp):
TTTTTTCATTTTTTTCTATTTCTTTTTC
Found at i:72110 original size:10 final size:10
Alignment explanation
Indices: 72061--72101 Score: 66
Period size: 10 Copynumber: 4.1 Consensus size: 10
72051 TTCTGGTTTC
72061 TTTCATTTTT
1 TTTCATTTTT
72071 TTTCATTTTT
1 TTTCATTTTT
72081 TTCTCATTTTT
1 TT-TCATTTTT
72092 TTTC-TTTTT
1 TTTCATTTTT
72101 T
1 T
72102 CCTTTTTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
9 6 0.20
10 14 0.47
11 10 0.33
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTCATTTTT
Found at i:72117 original size:15 final size:16
Alignment explanation
Indices: 72088--72126 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
72078 TTTTTCTCAT
*
72088 TTTTTTTCTTTTTTCC
1 TTTTTTTCTTATTTCC
*
72104 TTTTTTTC-TATTTCT
1 TTTTTTTCTTATTTCC
72119 TTTTTTTC
1 TTTTTTTC
72127 AACACCATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTTTCTTATTTCC
Found at i:72991 original size:236 final size:238
Alignment explanation
Indices: 72171--72980 Score: 1144
Period size: 236 Copynumber: 3.4 Consensus size: 238
72161 ACAGATTCCC
* * * * * *
72171 CGAAGGACTTATCATCTTACTCGAAAGGCTTTTAGATGATCCGAAGGATTTAGGCATCATGCTCG
1 CGAATGACTTATCATCTTTCTCGAAAGACTTATAGATGACCCGAAGGATTTAAGCATCATGCTCG
* * *
72236 AAAGACTTACTGATGGCTCGAAGGACTTAATAAGTAAGAAACTTTGGAAATTGTTTT-TTACTTT
66 AAAGACTT--TGATGGCCCGAAGGACTTACTAAGTAAGAAACTTTGGAAATCGTTTTCTTAC-TT
* *
72300 TTAAAAAAAAATCAATTTTTAGAAAAGATTTAAATGAGAAACTTTGGAAACCACTTTCTCATTTT
128 TT-AAAAAAAATCAATTTTTAGAAAAGATTTAAATGATAAACTTTGGAAATCACTTTCTCATTTT
* * * * * *
72365 TCAAAAATCATATGAAAACATCTTACCCAAAGGTCTTATGGATGGCC
192 TCAAAAATCATTTGAAAACATCATGCCCAAAGGTCTTGTTGATGGCA
** * * * *** *
72412 CGAA-GAACTTATCATCTCCCTCAAAAGGCTTATAGATAATTTGAAGGATTTAAACATCATGCTC
1 CGAATG-ACTTATCATCTTTCTCGAAAGACTTATAGATGACCCGAAGGATTTAAGCATCATGCTC
* * *
72476 GAAAGACTTATTTATGGCCCAAAGGACTTACTAAGTAGGAAACTTTGGAAATCGTTTTCTTACTT
65 GAAAGAC-T-TTGATGGCCCGAAGGACTTACTAAGTAAGAAACTTTGGAAATCGTTTTCTTACTT
*
72541 TTCAAAAAAATCAATTTTTAGAAAAGATTTAAATGATAAACTTTGGAAATCACTTTCTCATTTTT
128 TTAAAAAAAATCAATTTTTAGAAAAGATTTAAATGATAAACTTTGGAAATCACTTTCTCATTTTT
* *
72606 CGAAAATCATTTGAAAACATCATGCCCAAAGGTCTTGTTGATGGTA
193 CAAAAATCATTTGAAAACATCATGCCCAAAGGTCTTGTTGATGGCA
* * * *
72652 CGAATGACTTATTATCTTTCTCGAAATACTTATAGATGACCAGAAGGATTTAAGCATCATACTCG
1 CGAATGACTTATCATCTTTCTCGAAAGACTTATAGATGACCCGAAGGATTTAAGCATCATGCTCG
* *
72717 AAAGAC-TTGATGGCCCGAGGGACTTACTAAGTAAGAAACTTTTGAAATCGTTTTCTTAC-TTTA
66 AAAGACTTTGATGGCCCGAAGGACTTACTAAGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTA
*
72780 AAAAAAATCAATTTTCAGAAAAGATTTAAATGATAAACTTTGGAAATCACTTTCTCATTTTTCAA
131 AAAAAAATCAATTTTTAGAAAAGATTTAAATGATAAACTTTGGAAATCACTTTCTCATTTTTCAA
72845 AAATCATTTGAAAACATCATGCCCAAAGGTCTTGTTGATGGCA
196 AAATCATTTGAAAACATCATGCCCAAAGGTCTTGTTGATGGCA
* *
72888 CGAATGACTTATTATCTTTCTCGAAATACTTATAGATGACCCGAAGGATTTAAGCATCATGCTCG
1 CGAATGACTTATCATCTTTCTCGAAAGACTTATAGATGACCCGAAGGATTTAAGCATCATGCTCG
*
72953 AAAGAC-TTGATGGCCCGAGGGACTTACT
66 AAAGACTTTGATGGCCCGAAGGACTTACT
72981 CATCAAGAAA
Statistics
Matches: 515, Mismatches: 49, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
236 199 0.39
237 48 0.09
240 156 0.30
241 106 0.21
242 5 0.01
243 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (238 bp):
CGAATGACTTATCATCTTTCTCGAAAGACTTATAGATGACCCGAAGGATTTAAGCATCATGCTCG
AAAGACTTTGATGGCCCGAAGGACTTACTAAGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTA
AAAAAAATCAATTTTTAGAAAAGATTTAAATGATAAACTTTGGAAATCACTTTCTCATTTTTCAA
AAATCATTTGAAAACATCATGCCCAAAGGTCTTGTTGATGGCA
Found at i:73130 original size:56 final size:56
Alignment explanation
Indices: 72980--73139 Score: 160
Period size: 56 Copynumber: 2.8 Consensus size: 56
72970 AGGGACTTAC
* * * * * * *
72980 TCATCAAGAAACCCTTGAAAATCAAGATTAGTTTCCTAAAAAATTTTATTTAAAGTTA
1 TCATCAAGAAACCCTTGAAAATTAGGCTTAGTTT-CTTAAAAA-TTAATTGAAAGTAA
* ** *
73038 TCATCAAGAAACCCCT-ACAAATTAGGCTTAACTTCTTAAAAATTAATTGGAAGTAA
1 TCATCAAGAAACCCTTGA-AAATTAGGCTTAGTTTCTTAAAAATTAATTGAAAGTAA
* *
73094 TCATTAAGAAACCCTTGAAAATTAGGCTTAGTTTCTTTAAAGATTA
1 TCATCAAGAAACCCTTGAAAATTAGGCTTAGTTTC-TTAAAAATTA
73140 TCATGTCAAG
Statistics
Matches: 83, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
56 39 0.47
57 18 0.22
58 26 0.31
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (56 bp):
TCATCAAGAAACCCTTGAAAATTAGGCTTAGTTTCTTAAAAATTAATTGAAAGTAA
Found at i:73288 original size:44 final size:44
Alignment explanation
Indices: 73197--73288 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
73187 CATTTAAAAC
* * * *
73197 TCATCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTGAAAGT
1 TCATCAAGAAACTTCCAAAAATCAGACATAGCTTCTTTCAAAGT
73241 TCATCAAGAAACTTCCAAAAATC-GAACATAGCTTCTTTCATAA-T
1 TCATCAAGAAACTTCCAAAAATCAG-ACATAGCTTCTTTCA-AAGT
73285 TCAT
1 TCAT
73289 TTGAAAACAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 39 0.93
45 2 0.05
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (44 bp):
TCATCAAGAAACTTCCAAAAATCAGACATAGCTTCTTTCAAAGT
Found at i:73371 original size:62 final size:61
Alignment explanation
Indices: 73282--73404 Score: 176
Period size: 62 Copynumber: 2.0 Consensus size: 61
73272 CTTCTTTCAT
73282 AATTCATTTGAAAACATAATGTAAAGAAACCTCTGAAAA-TCAAACCTAGTTTCTTTTAAAAA
1 AATTCATTTGAAAACATAATGTAAAGAAACCTCTGAAAAGT-AAACCTAGTTTC-TTTAAAAA
* * * * *
73344 AATTCTTTTGAAAACATCATGTCAAGAAACCTCTGAAAAGTAGACTTAGTTTCTTTAAAAA
1 AATTCATTTGAAAACATAATGTAAAGAAACCTCTGAAAAGTAAACCTAGTTTCTTTAAAAA
73405 CTCATATCGA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
61 8 0.15
62 46 0.84
63 1 0.02
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.32
Consensus pattern (61 bp):
AATTCATTTGAAAACATAATGTAAAGAAACCTCTGAAAAGTAAACCTAGTTTCTTTAAAAA
Found at i:74392 original size:43 final size:43
Alignment explanation
Indices: 74327--74412 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
74317 AGAAAGTGTT
*
74327 AGAAAATCTATCCTCCAGTCCTTCTGATCTCTCAGACTATTTA
1 AGAAAATCTATCCTCCAATCCTTCTGATCTCTCAGACTATTTA
*
74370 AGAAAATCTATCCTCTAATCCTTCTGATCTCTCAGACTATTTA
1 AGAAAATCTATCCTCCAATCCTTCTGATCTCTCAGACTATTTA
74413 CTTTCAAGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.36
Consensus pattern (43 bp):
AGAAAATCTATCCTCCAATCCTTCTGATCTCTCAGACTATTTA
Found at i:80315 original size:3 final size:3
Alignment explanation
Indices: 80302--80348 Score: 67
Period size: 3 Copynumber: 15.0 Consensus size: 3
80292 TATGGGTTTG
*
80302 TAA TAAA TAA TAA TAA TAA TTTA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
80349 ATAACATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
3 35 0.88
4 5 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:84427 original size:9 final size:9
Alignment explanation
Indices: 84413--84451 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
84403 ATTATTACTT
84413 AAAATATTA
1 AAAATATTA
*
84422 AAAATATAA
1 AAAATATTA
*
84431 AAAATATCA
1 AAAATATTA
84440 AATAATATTA
1 AA-AATATTA
84450 AA
1 AA
84452 GAGTCAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAATATTA
Found at i:99255 original size:253 final size:249
Alignment explanation
Indices: 98665--99256 Score: 574
Period size: 256 Copynumber: 2.3 Consensus size: 249
98655 ATGTTGTTTT
*
98665 CATTCCTCCTGGTTTTGATATTTCAACCGA-CCCCACCCAACAGCAACAATAGGCAACTAAACTA
1 CATTCCTCCTGGTTTTGATGTTTCAACCGATCCCCACCC-A-A-CAACAATAGGCAACTAAAC--
* * ** * *
98729 AATGAGTTGGTAATGAAA---TCT--TTTGCTAGTATTTAATTTATATTCTTGCACCTGATTATA
61 -A--AGTTGGTAATGAAATTGTTTGCTTTGCTAGAATAAAATTTATATGCCTGCACCTGATTATA
* * * * *
98789 TCGACTTTCTGGGATGAACTTACAAATGCAATTTGATAATGAAATGATGAAGTGCAGAGGTCTAA
123 TCGACGTTCTGGGATGAACTTACAAATGCAATTAGATAAAGAAATGATGAACTGCAGAGATCTAA
* * * * * * * *
98854 TGTGCATTCTTTCATATGACAGCTTGTCGGTAATTAAAATCTTTGGTTTGTTTCTATTCCTC
188 TGTCCATTCATTCATACGACAACTTGTAGGTAATTAAAACCTTTAGTTTGTTTCTATTCATC
* * * *
98916 CATTCCTCGTGGTTTTGATGTTTCAACCAATCCCTACCCAACAACAACAGTAGGCAACTAAACGA
1 CATTCCTCCTGGTTTTGATGTTTCAACCGATCCCCACCCAACAAC-A-A-TAGGCAACTAAACAA
* * * *
98981 GCTGATAATG-ATTTCGTTTGCTTTGCTAGAATAAAATTTATATGCCTGCACCCTGTTTATATCG
63 GTTGGTAATGAAATT-GTTTGCTTTGCTAGAATAAAATTTATATGCCTGCA-CCTGATTATATCG
* * * *
99045 AGGTTCTGGGATGAACTTACATGTTAA-GCAATATAGATAAAGAAATGTTGAACTGCATAGATTT
126 ACGTTCTGGGATGAACTTACA----AATGCAAT-TAGATAAAGAAATGATGAACTGCAGAGATCT
* * * * * *
99109 AATGTCCGTTCATTCATACGACAATTTGTATGTAA-TGAAACCTTTAGTTAT-TTTTTATTCATT
186 AATGTCCATTCATTCATACGACAACTTGTAGGTAATTAAAACCTTTAGTT-TGTTTCTATTCATC
* * *
99172 GATTCCTCTTGGTTTTGATGTTTCAACCGATCCCCGCCCAACAACAATAGGCAACTAAACAAGTT
1 CATTCCTCCTGGTTTTGATGTTTCAACCGATCCCCACCCAACAACAATAGGCAACTAAACAAGTT
99237 GGTAATGAAATTGTTTGCTT
66 GGTAATGAAATTGTTTGCTT
99257 GTATGCTTTC
Statistics
Matches: 276, Mismatches: 47, Indels: 34
0.77 0.13 0.10
Matches are distributed among these distances:
246 1 0.00
247 9 0.03
249 4 0.01
250 4 0.01
251 29 0.11
252 44 0.16
253 61 0.22
254 4 0.01
255 1 0.00
256 65 0.24
257 54 0.20
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (249 bp):
CATTCCTCCTGGTTTTGATGTTTCAACCGATCCCCACCCAACAACAATAGGCAACTAAACAAGTT
GGTAATGAAATTGTTTGCTTTGCTAGAATAAAATTTATATGCCTGCACCTGATTATATCGACGTT
CTGGGATGAACTTACAAATGCAATTAGATAAAGAAATGATGAACTGCAGAGATCTAATGTCCATT
CATTCATACGACAACTTGTAGGTAATTAAAACCTTTAGTTTGTTTCTATTCATC
Found at i:100243 original size:21 final size:21
Alignment explanation
Indices: 100217--100257 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
100207 TTTAGTGGTC
*
100217 TGATTGAT-AAAATTAAAAGAT
1 TGATTG-TCAAAATGAAAAGAT
100238 TGATTGTCAAAATGAAAAGA
1 TGATTGTCAAAATGAAAAGA
100258 AGTAATAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.51, C:0.02, G:0.17, T:0.29
Consensus pattern (21 bp):
TGATTGTCAAAATGAAAAGAT
Found at i:101508 original size:15 final size:15
Alignment explanation
Indices: 101482--101519 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
101472 GAAACCACCT
*
101482 TTCTTCTTCTTC-TC
1 TTCTTCTCCTTCATC
101496 TTCCTTCTCCTTCATC
1 TT-CTTCTCCTTCATC
101512 TTCTTCTC
1 TTCTTCTC
101520 TCTCGCGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 15 0.71
16 4 0.19
ACGTcount: A:0.03, C:0.39, G:0.00, T:0.58
Consensus pattern (15 bp):
TTCTTCTCCTTCATC
Found at i:107357 original size:65 final size:65
Alignment explanation
Indices: 107253--107397 Score: 272
Period size: 65 Copynumber: 2.2 Consensus size: 65
107243 AACGAATTTC
107253 AGAAAATATTTGAATTAACAATCAAAACTATTTTTCTTGGCTCCAAAACATTAAACGATAGTTTT
1 AGAAAATATTTGAATTAACAATCAAAACTATTTTTCTTGGCTCCAAAACATTAAACGATAGTTTT
*
107318 AGAAAATATTTGAATTAACAATCAAAACTATTTTTCTTGGCTCCAAAATATTAAACGATAGTTTT
1 AGAAAATATTTGAATTAACAATCAAAACTATTTTTCTTGGCTCCAAAACATTAAACGATAGTTTT
*
107383 AGAAAATATTAGAAT
1 AGAAAATATTTGAAT
107398 CATGCAAATA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
65 78 1.00
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (65 bp):
AGAAAATATTTGAATTAACAATCAAAACTATTTTTCTTGGCTCCAAAACATTAAACGATAGTTTT
Found at i:107877 original size:16 final size:18
Alignment explanation
Indices: 107856--107893 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
107846 TTAATTGAAA
107856 ATATTAAATATT-TA-AT
1 ATATTAAATATTATATAT
107872 ATATTAAATATTATATAT
1 ATATTAAATATTATATAT
107890 ATAT
1 ATAT
107894 ATTTTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 12 0.60
17 2 0.10
18 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATATTAAATATTATATAT
Found at i:107882 original size:23 final size:22
Alignment explanation
Indices: 107854--107902 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
107844 AATTAATTGA
*
107854 AAATATTAAATATTTAATATATT
1 AAATATTAAATATAT-ATATATT
* *
107877 AAATATTATATATATATATTTT
1 AAATATTAAATATATATATATT
107899 AAAT
1 AAAT
107903 TCTAACCAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AAATATTAAATATATATATATT
Found at i:113379 original size:20 final size:19
Alignment explanation
Indices: 113345--113387 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
113335 AAAACCAGAA
*
113345 CCCTAGGGGGTATCGATTC
1 CCCTAGGGGGAATCGATTC
*
113364 CCCTATGGGGGAATCGGTTC
1 CCCTA-GGGGGAATCGATTC
113384 CCCT
1 CCCT
113388 TCAAAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.14, C:0.30, G:0.30, T:0.26
Consensus pattern (19 bp):
CCCTAGGGGGAATCGATTC
Found at i:113400 original size:23 final size:23
Alignment explanation
Indices: 113371--113414 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
113361 TTCCCCTATG
113371 GGGGAATCGGTTCCCCTTCAAAA
1 GGGGAATCGGTTCCCCTTCAAAA
*
113394 GGGGAATCGGTTCTCCTTCAA
1 GGGGAATCGGTTCCCCTTCAA
113415 GGGGGTATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.25
Consensus pattern (23 bp):
GGGGAATCGGTTCCCCTTCAAAA
Found at i:113418 original size:21 final size:22
Alignment explanation
Indices: 113371--113424 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
113361 TTCCCCTATG
113371 GGGGAATCGGTTCCCCTTCAAAA
1 GGGGAATCGGTTCCCCTTC-AAA
* *
113394 GGGGAATCGGTTCTCCTTCAAG
1 GGGGAATCGGTTCCCCTTCAAA
*
113416 GGGGTATCG
1 GGGGAATCG
113425 ATCCCCTCTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.20, C:0.22, G:0.33, T:0.24
Consensus pattern (22 bp):
GGGGAATCGGTTCCCCTTCAAA
Found at i:117260 original size:21 final size:22
Alignment explanation
Indices: 117236--117278 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
117226 GAGTTTATTT
117236 TCATTTTTCA-ATTTT-GAAACA
1 TCATTTTT-ATATTTTAGAAACA
117257 TCATTTTTATATTTTAGAAACA
1 TCATTTTTATATTTTAGAAACA
117279 ATTTCTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 1 0.05
21 13 0.65
22 6 0.30
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.49
Consensus pattern (22 bp):
TCATTTTTATATTTTAGAAACA
Found at i:120194 original size:23 final size:23
Alignment explanation
Indices: 120168--120252 Score: 70
Period size: 23 Copynumber: 3.7 Consensus size: 23
120158 ACCCGACGGA
120168 TGCATCGATGCATATTCAAGGAG
1 TGCATCGATGCATATTCAAGGAG
* *
120191 TGCATC-AGTGCATCTTC-ATGA-
1 TGCATCGA-TGCATATTCAAGGAG
* *
120212 TGTATCGATGCACATTCAAAGG-G
1 TGCATCGATGCATATTC-AAGGAG
120235 ATGCATCGATGCACTATT
1 -TGCATCGATGCA-TATT
120253 TAGTGTATCG
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
21 12 0.26
22 5 0.11
23 16 0.34
24 11 0.23
25 3 0.06
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (23 bp):
TGCATCGATGCATATTCAAGGAG
Found at i:122282 original size:12 final size:12
Alignment explanation
Indices: 122265--122289 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
122255 TGATGATAGT
122265 TGTCCAACGTCA
1 TGTCCAACGTCA
122277 TGTCCAACGTCA
1 TGTCCAACGTCA
122289 T
1 T
122290 TTATCTTTAT
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:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (12 bp):
TGTCCAACGTCA
Found at i:126120 original size:65 final size:65
Alignment explanation
Indices: 126046--126191 Score: 161
Period size: 65 Copynumber: 2.2 Consensus size: 65
126036 AAAATAGCCT
** ** * *
126046 GAGTGCATCGGTGCATTGAATGCATTCGATGTTTCTATTT-GTTCAAGAGTGCATCGATGCATAG
1 GAGTGCATCGGTGCATAAAATGCATTCGA-AATTCAATTTAATT-AAGAGTGCATCGATGCATAG
126110 A-
64 AC
* * * *
126111 GAGTGCATCGGTACACAAAATGCATTCGAAATTCAATTTAATTGAGAGTGCATCGATGCATGGAC
1 GAGTGCATCGGTGCATAAAATGCATTCGAAATTCAATTTAATTAAGAGTGCATCGATGCATAGAC
*
126176 TAGTGCATCGGTGCAT
1 GAGTGCATCGGTGCAT
126192 CTCTTTTAAA
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
64 26 0.39
65 40 0.61
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (65 bp):
GAGTGCATCGGTGCATAAAATGCATTCGAAATTCAATTTAATTAAGAGTGCATCGATGCATAGAC
Found at i:128919 original size:15 final size:15
Alignment explanation
Indices: 128899--128943 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
128889 ATTGACGTAA
128899 TTTAAAAAATATATT
1 TTTAAAAAATATATT
*
128914 TTTAAAAAAATAAATT
1 TTT-AAAAAATATATT
**
128930 TAAAAAAAATATAT
1 TTTAAAAAATATAT
128944 AAACACAACA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TTTAAAAAATATATT
Found at i:128931 original size:14 final size:14
Alignment explanation
Indices: 128897--128937 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
128887 ATATTGACGT
128897 AATTTAAAAAATATA
1 AATTTAAAAAA-ATA
**
128912 TTTTTAAAAAAATA
1 AATTTAAAAAAATA
128926 AATTTAAAAAAA
1 AATTTAAAAAAA
128938 ATATATAAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTTAAAAAAATA
Found at i:130347 original size:18 final size:17
Alignment explanation
Indices: 130324--130406 Score: 71
Period size: 18 Copynumber: 4.6 Consensus size: 17
130314 ACATATTATT
130324 TTTTTGTTATTTTTTTTA
1 TTTTT-TTATTTTTTTTA
130342 TTTTTGGTT-TTTTTTTTA
1 TTTTT--TTATTTTTTTTA
130360 TTTTTTTACTTTCTTTTGTTA
1 TTTTTTTA--TT-TTTT-TTA
* *
130381 TTTTCTT-TTCTTTTTA
1 TTTTTTTATTTTTTTTA
130397 TTTTTTTATT
1 TTTTTTTATT
130407 CTATCTTTTA
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
16 11 0.20
17 5 0.09
18 21 0.38
19 5 0.09
20 4 0.07
21 9 0.16
ACGTcount: A:0.08, C:0.05, G:0.05, T:0.82
Consensus pattern (17 bp):
TTTTTTTATTTTTTTTA
Found at i:130408 original size:22 final size:22
Alignment explanation
Indices: 130352--130428 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
130342 TTTTTGGTTT
*
130352 TTTTTTTATTTTTTTACTTTCTT-
1 TTTTTTTATTCTTTT-CTTT-TTA
*
130375 TTGTTATT-TTCTTTTCTTTTTA
1 TT-TTTTTATTCTTTTCTTTTTA
*
130397 TTTTTTTATTC-TATCTTTTATA
1 TTTTTTTATTCTTTTCTTTT-TA
130419 TTTTTTTATT
1 TTTTTTTATT
130429 GTACTTTCTA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
21 13 0.28
22 21 0.46
23 8 0.17
24 4 0.09
ACGTcount: A:0.12, C:0.08, G:0.01, T:0.79
Consensus pattern (22 bp):
TTTTTTTATTCTTTTCTTTTTA
Found at i:130558 original size:17 final size:17
Alignment explanation
Indices: 130536--130574 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
130526 TAAACATACT
130536 AATAATTAAATATTGTG
1 AATAATTAAATATTGTG
130553 AATAATTAAATATTGTG
1 AATAATTAAATATTGTG
130570 AATAA
1 AATAA
130575 AGTAGAGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.38
Consensus pattern (17 bp):
AATAATTAAATATTGTG
Done.