Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000685.1 Hibiscus syriacus cultivar Beakdansim tig00001338_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: 141874
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:6548 original size:86 final size:86
Alignment explanation
Indices: 6256--6541 Score: 419
Period size: 86 Copynumber: 3.3 Consensus size: 86
6246 AGAACATCTC
* * * * * *
6256 ACATGACTTTCCTGTGAAAGGAAGTCATCCGAAGATAATCTCACCTGGTTCAGACCCGCAAAGGG
1 ACATGACTTTCCCGTGAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCGAAGGG
*
6321 GAACCACCTGAAGAATATACT
66 GAACCACCTGAAGAATATACA
* * * *
6342 ACATGACTTTCCCGTGAAGAGGATTCATCCAAAGATCATCTCACATGGTTCAGACCCTCGAAGGG
1 ACATGACTTTCCCGTGAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCGAAGGG
6407 GAACCACCTGAAGAATATACA
66 GAACCACCTGAAGAATATACA
* *
6428 ACATGACTTTCCTGTGAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTTAGACCCGCGAAGGG
1 ACATGACTTTCCCGTGAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCGAAGGG
*
6493 GAACCACCTGAAGAATATACC
66 GAACCACCTGAAGAATATACA
* * *
6514 ACTTGGCTTTCCCGTAAAGGGGAGTCAT
1 ACATGACTTTCCCGTGAAGGGGAGTCAT
6542 TTAAAGAATT
Statistics
Matches: 178, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 178 1.00
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (86 bp):
ACATGACTTTCCCGTGAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCGAAGGG
GAACCACCTGAAGAATATACA
Found at i:7864 original size:18 final size:18
Alignment explanation
Indices: 7841--7879 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
7831 TTTTAAATTA
*
7841 TTTATTTAATTATTTTCT
1 TTTATTTAATTATTATCT
*
7859 TTTATTTAATTCTTATCT
1 TTTATTTAATTATTATCT
7877 TTT
1 TTT
7880 TTTTTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:8047 original size:15 final size:14
Alignment explanation
Indices: 8030--8056 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8020 TCCCACTTCT
8030 TTTTTTTTATTTTG
1 TTTTTTTTATTTTG
8044 TTTTTTTTATTTT
1 TTTTTTTTATTTT
8057 ATCTTTTAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.00, G:0.04, T:0.89
Consensus pattern (14 bp):
TTTTTTTTATTTTG
Found at i:8208 original size:11 final size:11
Alignment explanation
Indices: 8181--8225 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
8171 CATTCTTTGA
8181 TTTATTTT-TT
1 TTTATTTTATT
*
8191 TTAATTTTATT
1 TTTATTTTATT
* *
8202 TTTATTTGATA
1 TTTATTTTATT
8213 TTTATTTTATT
1 TTTATTTTATT
8224 TT
1 TT
8226 ATAATCTAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
10 7 0.25
11 21 0.75
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:8220 original size:16 final size:16
Alignment explanation
Indices: 8180--8224 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
8170 TCATTCTTTG
*
8180 ATTTATTTTTTTTAAT
1 ATTTATTTTATTTAAT
*
8196 -TTTATTTTTATTTGAT
1 ATTTA-TTTTATTTAAT
8212 ATTTATTTTATTT
1 ATTTATTTTATTT
8225 TATAATCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 4 0.16
16 17 0.68
17 4 0.16
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (16 bp):
ATTTATTTTATTTAAT
Found at i:8221 original size:5 final size:5
Alignment explanation
Indices: 8181--8227 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
8171 CATTCTTTGA
*
8181 TTTAT TTT-T TTTAAT TTTATT TTTAT TTGAT ATTTAT TTTAT TTTAT
1 TTTAT TTTAT TTT-AT TTTA-T TTTAT TTTAT -TTTAT TTTAT TTTAT
8228 AATCTAACGT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
4 4 0.11
5 19 0.53
6 13 0.36
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:8671 original size:29 final size:29
Alignment explanation
Indices: 8587--8741 Score: 143
Period size: 30 Copynumber: 5.2 Consensus size: 29
8577 TTATATTTAC
**
8587 ATCTTAAAATAAAATATATATTTTAATT-TT
1 ATCTTAACCTAAAA-ATATATTTT-ATTCTT
* * * *
8617 ATATTAACTTATTAATTATATTTTATTCTT
1 ATCTTAACCTA-AAAATATATTTTATTCTT
*
8647 GTCTTAACCTAAAAATATATTTTATTCTT
1 ATCTTAACCTAAAAATATATTTTATTCTT
* * *
8676 ATTTTAA-CTTAAAATATATTTTAGTCTTT
1 ATCTTAACCTAAAAATATATTTTATTC-TT
* *
8705 ATCTTAACTTAAAAAATATATTGTATTCTT
1 ATCTTAACCT-AAAAATATATTTTATTCTT
8735 ATCTTAA
1 ATCTTAA
8742 TTTATTACAT
Statistics
Matches: 101, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
28 17 0.17
29 32 0.32
30 36 0.36
31 16 0.16
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (29 bp):
ATCTTAACCTAAAAATATATTTTATTCTT
Found at i:8770 original size:24 final size:24
Alignment explanation
Indices: 8738--8783 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
8728 TATTCTTATC
* *
8738 TTAATTTATTACATAAATTATAAA
1 TTAAATTATTAAATAAATTATAAA
*
8762 TTAAATTATTAAATATATTATA
1 TTAAATTATTAAATAAATTATA
8784 TTCTTACTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
TTAAATTATTAAATAAATTATAAA
Found at i:8825 original size:30 final size:31
Alignment explanation
Indices: 8762--8839 Score: 101
Period size: 30 Copynumber: 2.6 Consensus size: 31
8752 AAATTATAAA
*
8762 TTAAATTATTAAATATA-TTATATTCTTACT
1 TTAAATTATTAAATATATTTATATTATTACT
*
8792 TTAAATTATTAAATATATTTA-ATTATTATT
1 TTAAATTATTAAATATATTTATATTATTACT
*
8822 TTAACTTA--AAATATATTT
1 TTAAATTATTAAATATATTT
8840 TTTATTCTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 10 0.23
30 31 0.70
31 3 0.07
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (31 bp):
TTAAATTATTAAATATATTTATATTATTACT
Found at i:8868 original size:59 final size:59
Alignment explanation
Indices: 8587--8869 Score: 205
Period size: 59 Copynumber: 4.9 Consensus size: 59
8577 TTATATTTAC
** * * * *
8587 ATCTTAAAATAAAATATATATTTTAATT-TTATATTAACTTATTAATTATATTTTATTCTT
1 ATCTTAACTTAAAATATATATTTT-ATTCTTATCTTAACTTA-TAAATATATTTAATTATT
* * * *
8647 GTCTTAACCTAAAA-ATATATTTTATTCTTATTTTAACTTA-AAATATATTTTAGTCT-TT
1 ATCTTAACTTAAAATATATATTTTATTCTTATCTTAACTTATAAATATA-TTTAAT-TATT
* * * * *
8705 ATCTTAACTTAAAAAATATATTGTATTCTTATCTTAATTTATTACATAAATTATAA--ATT
1 ATCTTAACTTAAAATATATATTTTATTCTTATCTTAACTTA-TAAATATATT-TAATTATT
** * *
8764 AAATT-A-TT--AA-ATATATTATATTCTTA-CTTTAAATTATTAAATATATTTAATTATT
1 ATCTTAACTTAAAATATATATTTTATTCTTATC-TTAACTTA-TAAATATATTTAATTATT
* *
8819 ATTTTAACTTAAAATATATTTTTTATTCTTATCTTAACTTA-AAAGTATATT
1 ATCTTAACTTAAAATATATATTTTATTCTTATCTTAACTTATAAA-TATATT
8870 GCCATTTTAA
Statistics
Matches: 179, Mismatches: 26, Indels: 37
0.74 0.11 0.15
Matches are distributed among these distances:
53 4 0.02
54 31 0.17
55 8 0.04
56 1 0.01
57 10 0.06
58 25 0.14
59 58 0.32
60 34 0.19
61 8 0.04
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.52
Consensus pattern (59 bp):
ATCTTAACTTAAAATATATATTTTATTCTTATCTTAACTTATAAATATATTTAATTATT
Found at i:9035 original size:31 final size:29
Alignment explanation
Indices: 8990--9064 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 29
8980 CATAAAAGAA
*
8990 TAAATTATATTTTTAAATTTAAGATAAGATT
1 TAAA-TATATTTTTAAA-TTAAAATAAGATT
*
9021 TAAATATATGTTTTAAATTAAAATAAGCTT
1 TAAATATAT-TTTTAAATTAAAATAAGATT
* *
9051 AAAATGTATTTTTA
1 TAAATATATTTTTA
9065 GGTTACGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 5 0.13
30 23 0.59
31 11 0.28
ACGTcount: A:0.45, C:0.01, G:0.07, T:0.47
Consensus pattern (29 bp):
TAAATATATTTTTAAATTAAAATAAGATT
Found at i:10444 original size:17 final size:18
Alignment explanation
Indices: 10405--10453 Score: 73
Period size: 17 Copynumber: 2.8 Consensus size: 18
10395 TGTTTCTGAG
10405 GGAATTAGAATCTGTGAA
1 GGAATTAGAATCTGTGAA
* *
10423 GGAATTGGAATCTGT-CA
1 GGAATTAGAATCTGTGAA
10440 GGAATTAGAATCTG
1 GGAATTAGAATCTG
10454 AATCTGAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.29
Consensus pattern (18 bp):
GGAATTAGAATCTGTGAA
Found at i:13433 original size:20 final size:20
Alignment explanation
Indices: 13408--13461 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
13398 ATCCAAAGTG
13408 GGTAGTATCGATACTCTACT
1 GGTAGTATCGATACTCTACT
13428 GGTAGTATCGATACTCTACT
1 GGTAGTATCGATACTCTACT
* *
13448 TGTAGTATTGATAC
1 GGTAGTATCGATAC
13462 CCTAAGGTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (20 bp):
GGTAGTATCGATACTCTACT
Found at i:16745 original size:16 final size:16
Alignment explanation
Indices: 16724--16757 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
16714 TTACTATTCA
*
16724 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
16740 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
16756 CG
1 CG
16758 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:23730 original size:44 final size:43
Alignment explanation
Indices: 23680--23833 Score: 136
Period size: 44 Copynumber: 3.5 Consensus size: 43
23670 TACTTAAAAC
*
23680 TATTTAAACTAAAATACCTAAAACAAAGATAAGATAAAATATAA
1 TATTTAAA-TAAAATACCTAAAACAAAGATAAAATAAAATATAA
* * * * * *
23724 TATTTAAA-ACAATATCCTAAATCCTAA-TTAAAAT-AATTAAAA
1 TATTTAAATAAAATA-CCTAAA-ACAAAGATAAAATAAAATATAA
* *
23766 CTATTTAAATTAAAATACCTAAAATAAAGATAAAATATAATATAA
1 -TATTTAAA-TAAAATACCTAAAACAAAGATAAAATAAAATATAA
*
23811 TATTTAAA-ATAATATCCTAAAAC
1 TATTTAAATAAAATA-CCTAAAAC
23834 TTGAGTTTAA
Statistics
Matches: 85, Mismatches: 17, Indels: 17
0.71 0.14 0.14
Matches are distributed among these distances:
42 16 0.19
43 28 0.33
44 31 0.36
45 10 0.12
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.31
Consensus pattern (43 bp):
TATTTAAATAAAATACCTAAAACAAAGATAAAATAAAATATAA
Found at i:23780 original size:87 final size:87
Alignment explanation
Indices: 23655--23831 Score: 300
Period size: 87 Copynumber: 2.0 Consensus size: 87
23645 TTAAAGAAGA
* *
23655 AAATCCTAATTAAAATACTTAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAGATAAAAT
1 AAATCCTAATTAAAATAATTAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATAAAAT
23720 ATAATATTTAAAACAATATCCT
66 ATAATATTTAAAACAATATCCT
* * *
23742 AAATCCTAATTAAAATAATTAAAACTATTTAAATTAAAATACCTAAAATAAAGATAAAATATAAT
1 AAATCCTAATTAAAATAATTAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATAAAAT
*
23807 ATAATATTTAAAATAATATCCT
66 ATAATATTTAAAACAATATCCT
23829 AAA
1 AAA
23832 ACTTGAGTTT
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 84 1.00
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.31
Consensus pattern (87 bp):
AAATCCTAATTAAAATAATTAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATAAAAT
ATAATATTTAAAACAATATCCT
Found at i:24549 original size:2 final size:2
Alignment explanation
Indices: 24542--24572 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
24532 TTATCTTTAT
24542 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 T
24573 TAATTATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25466 original size:23 final size:24
Alignment explanation
Indices: 25413--25469 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
25403 TAAGTATTTT
**
25413 AAATTTTTAAAGAAATCAAATTGA
1 AAATTTTTAAAGAAATCAAATACA
*
25437 AAATTTTTAAA-AAATCAAATACT
1 AAATTTTTAAAGAAATCAAATACA
*
25460 AATTTTTTAA
1 AAATTTTTAA
25470 GGGTAAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 18 0.62
24 11 0.38
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.39
Consensus pattern (24 bp):
AAATTTTTAAAGAAATCAAATACA
Found at i:27017 original size:27 final size:27
Alignment explanation
Indices: 26977--27037 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
26967 CATGGCACAC
*
26977 TGTT-ATGCAGCACCCCATCCTCTACA
1 TGTTGATGCAACACCCCATCCTCTACA
* *
27003 TGTTGATGCAACACCTCATCCTCTACT
1 TGTTGATGCAACACCCCATCCTCTACA
27030 TGTTGATG
1 TGTTGATG
27038 AGCTGGTACT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.21, C:0.31, G:0.15, T:0.33
Consensus pattern (27 bp):
TGTTGATGCAACACCCCATCCTCTACA
Found at i:37656 original size:2 final size:2
Alignment explanation
Indices: 37649--37737 Score: 178
Period size: 2 Copynumber: 44.5 Consensus size: 2
37639 TTTGTAGAAC
37649 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
37691 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
37733 TA TA T
1 TA TA T
37738 TTAAGTTTCA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 87 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:39877 original size:26 final size:26
Alignment explanation
Indices: 39848--39898 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
39838 GATTTGATCA
39848 TGTTAACATCCATTGAACTTTGACGT
1 TGTTAACATCCATTGAACTTTGACGT
39874 TGTTAACATCCATTGAACTTTGACG
1 TGTTAACATCCATTGAACTTTGACG
39899 CAAACTAGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (26 bp):
TGTTAACATCCATTGAACTTTGACGT
Found at i:42153 original size:35 final size:35
Alignment explanation
Indices: 42108--42247 Score: 183
Period size: 36 Copynumber: 3.9 Consensus size: 35
42098 AGATGAACAA
*
42108 TTGAACCGAAAGTGTTGATGCTTCCTTTCGTTCAC
1 TTGAATCGAAAGTGTTGATGCTTCCTTTCGTTCAC
* *
42143 TTGAATCGAAAGTGTCGATGCTTCCTTTCGTTCTTC
1 TTGAATCGAAAGTGTTGATGCTTCCTTTCGTTC-AC
*
42179 TTGAGTCGAAAGTGTTGATGCTT-CTTTCCGTTCAC
1 TTGAATCGAAAGTGTTGATGCTTCCTTT-CGTTCAC
* * *
42214 TTTGAATCGAAAGTGCTAATACTTCCTTTCGTTC
1 -TTGAATCGAAAGTGTTGATGCTTCCTTTCGTTC
42248 TTCTTATTCA
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
35 36 0.40
36 51 0.56
37 4 0.04
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.40
Consensus pattern (35 bp):
TTGAATCGAAAGTGTTGATGCTTCCTTTCGTTCAC
Found at i:42247 original size:72 final size:71
Alignment explanation
Indices: 42114--42252 Score: 219
Period size: 72 Copynumber: 1.9 Consensus size: 71
42104 ACAATTGAAC
* *
42114 CGAAAGTGTTGATGCTTCCTTTCGTTCACTTGAATCGAAAGTGTCGATGCTTCCTTTCGTTCTTC
1 CGAAAGTGTTGATGCTTCCTTTCGTTCACTTGAATCGAAAGTGTCAATACTTCCTTTCGTTCTTC
42179 TTGAGT
66 TTGAGT
42185 CGAAAGTGTTGATGCTT-CTTTCCGTTCACTTTGAATCGAAAGTG-CTAATACTTCCTTTCGTTC
1 CGAAAGTGTTGATGCTTCCTTT-CGTTCAC-TTGAATCGAAAGTGTC-AATACTTCCTTTCGTTC
42248 TTCTT
63 TTCTT
42253 ATTCACCTTC
Statistics
Matches: 63, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
70 4 0.06
71 25 0.40
72 34 0.54
ACGTcount: A:0.18, C:0.22, G:0.19, T:0.42
Consensus pattern (71 bp):
CGAAAGTGTTGATGCTTCCTTTCGTTCACTTGAATCGAAAGTGTCAATACTTCCTTTCGTTCTTC
TTGAGT
Found at i:47737 original size:13 final size:12
Alignment explanation
Indices: 47717--47751 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
47707 GCTTAATCGG
47717 AAAAAAAAATAA
1 AAAAAAAAATAA
*
47729 AAGAAAAAATAA
1 AAAAAAAAATAA
*
47741 AAATAAAAATA
1 AAAAAAAAATA
47752 TAACGGAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (12 bp):
AAAAAAAAATAA
Found at i:52858 original size:3 final size:3
Alignment explanation
Indices: 52850--52883 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
52840 AATTGAGTAA
52850 AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
52884 AAAAAAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:52889 original size:12 final size:12
Alignment explanation
Indices: 52848--52902 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 12
52838 AAAATTGAGT
*
52848 AAAATAATAATA
1 AAAATAATAAAA
*
52860 ATAATAATAATAA
1 AAAATAATAA-AA
52873 TAAAATAATAAAAA
1 -AAAATAAT-AAAA
52887 AAAATATATAAAA
1 AAAATA-ATAAAA
52900 AAA
1 AAA
52903 CAAAACCATG
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
12 9 0.25
13 14 0.39
14 11 0.31
15 2 0.06
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAATAATAAAA
Found at i:52899 original size:9 final size:8
Alignment explanation
Indices: 52847--52885 Score: 60
Period size: 9 Copynumber: 4.6 Consensus size: 8
52837 TAAAATTGAG
52847 TAAAATAA
1 TAAAATAA
52855 TAATAATAA
1 TAA-AATAA
52864 TAATAATAA
1 TAA-AATAA
52873 TAAAATAA
1 TAAAATAA
52881 TAAAA
1 TAAAA
52886 AAAAATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 13 0.43
9 17 0.57
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (8 bp):
TAAAATAA
Found at i:53737 original size:3 final size:3
Alignment explanation
Indices: 53697--53776 Score: 60
Period size: 3 Copynumber: 26.7 Consensus size: 3
53687 ACATGCAAAA
* * * *
53697 AAT AA- AAT AAAT AA- AAT AAA AAT ATT AAT ATT ATT AAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
53741 AAT AAT AAT AAAT AAAT ATAT AAT -AT AAT AA- AAT AA
1 AAT AAT AAT -AAT -AAT A-AT AAT AAT AAT AAT AAT AA
53777 AATGTTTTTG
Statistics
Matches: 64, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
2 8 0.12
3 43 0.67
4 13 0.20
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:55126 original size:3 final size:3
Alignment explanation
Indices: 55089--55164 Score: 54
Period size: 3 Copynumber: 25.7 Consensus size: 3
55079 GCCTGCAAAA
* * *
55089 AAT AA- AAT AA- AA- AAT AA- AAA AAT ATT AAT ATT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
55133 AAT AATT AATT AATT AAT ATAT AAT -AT AAT AA
1 AAT AA-T AA-T AA-T AAT A-AT AAT AAT AAT AA
55165 AATGTTTTTG
Statistics
Matches: 62, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
2 10 0.16
3 38 0.61
4 14 0.23
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:55803 original size:32 final size:32
Alignment explanation
Indices: 55767--55853 Score: 174
Period size: 32 Copynumber: 2.7 Consensus size: 32
55757 GGTGTTACAG
55767 ATGACCCCTTCGTCGTGAAGTTGTATATGTAT
1 ATGACCCCTTCGTCGTGAAGTTGTATATGTAT
55799 ATGACCCCTTCGTCGTGAAGTTGTATATGTAT
1 ATGACCCCTTCGTCGTGAAGTTGTATATGTAT
55831 ATGACCCCTTCGTCGTGAAGTTG
1 ATGACCCCTTCGTCGTGAAGTTG
55854 AGCCTGAGAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 55 1.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (32 bp):
ATGACCCCTTCGTCGTGAAGTTGTATATGTAT
Found at i:56099 original size:106 final size:106
Alignment explanation
Indices: 55914--56118 Score: 286
Period size: 106 Copynumber: 1.9 Consensus size: 106
55904 GTATTGCTCT
* * * *
55914 GAGTCCAATATCCTCCGTCGTGAAGTTTAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGACAG
1 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGACTCTGAAACTGGGAAATTGTTTGTTGACAA
*
55979 TCAGCCGCCCCTTCGCTGAGAAGTTGAACTTGTGCTATCTC
66 CCAGCCGCCCCTTCGCTGAGAAGTTGAACTTGTGCTATCTC
* * * *
56020 GAGTCTAATATCCTTCG-CTGTGAAGTTGAAATTGACTCTGAAATTGGGAAGTTGTTTGTTGACA
1 GAGTCCAATATCCTCCGTC-GTGAAGTTGAAATTGACTCTGAAACTGGGAAATTGTTTGTTGACA
* * *
56084 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG
65 ACCAGCCGCCCCTTCGCTGAGAAGTTGAACTTGTG
56119 TTGTCTTGAG
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
105 1 0.01
106 85 0.99
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (106 bp):
GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGACTCTGAAACTGGGAAATTGTTTGTTGACAA
CCAGCCGCCCCTTCGCTGAGAAGTTGAACTTGTGCTATCTC
Found at i:56316 original size:106 final size:105
Alignment explanation
Indices: 56191--56515 Score: 521
Period size: 106 Copynumber: 3.1 Consensus size: 105
56181 GCTGTATTGC
* *
56191 TCCGAGTCCAATATCCTTCG-TCGTGAAGTTGAAATTGGTTCTGGAACTGGAAAATTGTTTGTTG
1 TCCGAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGTTCTGGAATTGGGAAATTGTTTGTTG
56255 ACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
65 ACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
* *
56296 TCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTG
1 TC-CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGGAATTGGGAAATTGTTTGTTG
**
56361 ACAACCAACCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
65 ACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
56402 TCCTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTT-T-GAAGTTGGGAAATTGTTTGT
1 TCC-GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGG-TTCTGGAA-TTGGGAAATTGTTTGT
56465 TGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
63 TGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
56508 TCCCGAGT
1 T-CCGAGT
56516 GGCACGATAT
Statistics
Matches: 204, Mismatches: 10, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
105 5 0.02
106 195 0.96
107 4 0.02
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (105 bp):
TCCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGGAATTGGGAAATTGTTTGTTGA
CAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
Found at i:56357 original size:280 final size:280
Alignment explanation
Indices: 55850--56409 Score: 924
Period size: 280 Copynumber: 2.0 Consensus size: 280
55840 TCGTCGTGAA
* *
55850 GTTGAGCCTGAGAATTGGATATCCTTCGTCGAGAAGTTGAAATCCAAGTAAGTTGTATTGCTCTG
1 GTTGAGCCTGAGAATTGGATATCCTTCGTCGAGAAGTTGAAATCCAAGTAAGCTGTATTGCTCCG
* * **
55915 AGTCCAATATCCTCCGTCGTGAAGTTTAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGACAGT
66 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACTGGAAAATTGTTTGTTGACAAC
*
55980 CAGCCGCCCCTTCGCTGAGAAGTTGAACTTGTGCTATCTCGAGTCTAATATCCTTCGCTGTGAAG
131 CAGCCGCCCCTTCGCTGAGAAGTTGAACTTGTGCTATCTCGAGTCCAATATCCTTCGCTGTGAAG
* *
56045 TTGAAATTGACTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTT
196 TTGAAATTGACTCTGAAATTGGGAAATTGTTTGTTGACAACCAACCGTCCCTTCGTTGTGAAGTT
*
56110 GAACTTGTGTTGTCTTGAGT
261 GAACTTGTGTTGTCCTGAGT
*
56130 GTTGAGCCTG-GTAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGTAAGCTGTATTGCTCC
1 GTTGAGCCTGAG-AATTGGATATCCTTCGTCGAGAAGTTGAAATCCAAGTAAGCTGTATTGCTCC
* *
56194 GAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGTTCTGGAACTGGAAAATTGTTTGTTGACAA
65 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACTGGAAAATTGTTTGTTGACAA
* * * * * *
56259 CCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAA
130 CCAGCCGCCCCTTCGCTGAGAAGTTGAACTTGTGCTATCTCGAGTCCAATATCCTTCGCTGTGAA
*
56324 GTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAACCGTCCCTTCGTTGTGAAGT
195 GTTGAAATTGACTCTGAAATTGGGAAATTGTTTGTTGACAACCAACCGTCCCTTCGTTGTGAAGT
56389 TGAACTTGTGTTGTCCTGAGT
260 TGAACTTGTGTTGTCCTGAGT
56410 CCAATATCCT
Statistics
Matches: 259, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
279 1 0.00
280 258 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (280 bp):
GTTGAGCCTGAGAATTGGATATCCTTCGTCGAGAAGTTGAAATCCAAGTAAGCTGTATTGCTCCG
AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACTGGAAAATTGTTTGTTGACAAC
CAGCCGCCCCTTCGCTGAGAAGTTGAACTTGTGCTATCTCGAGTCCAATATCCTTCGCTGTGAAG
TTGAAATTGACTCTGAAATTGGGAAATTGTTTGTTGACAACCAACCGTCCCTTCGTTGTGAAGTT
GAACTTGTGTTGTCCTGAGT
Found at i:57285 original size:38 final size:39
Alignment explanation
Indices: 57233--57350 Score: 125
Period size: 38 Copynumber: 3.1 Consensus size: 39
57223 AAATTTGAAG
* *
57233 ATTTTGGGTTTCAAGAGTAATTGTCTCAAGGGAGACAAA
1 ATTTTGGGTTTCAAGAGAAATTGTCTCAAGAGAGACAAA
* *
57272 ATTTTTGG-TTCAAGGGAAATTGTCTCAAGAGAGACAAA
1 ATTTTGGGTTTCAAGAGAAATTGTCTCAAGAGAGACAAA
* * * * * *
57310 A-CTT-AGTTCCAAAAGAAACTGTCTCAAGAGAGACGAA
1 ATTTTGGGTTTCAAGAGAAATTGTCTCAAGAGAGACAAA
57347 ATTT
1 ATTT
57351 GTTTTAAGAA
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
36 1 0.02
37 28 0.43
38 29 0.45
39 7 0.11
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (39 bp):
ATTTTGGGTTTCAAGAGAAATTGTCTCAAGAGAGACAAA
Found at i:57817 original size:18 final size:18
Alignment explanation
Indices: 57790--57825 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
57780 TGTTGAATCC
*
57790 CCAAAGATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
57808 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
57826 TTGATGTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.33, G:0.08, T:0.17
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:58895 original size:17 final size:18
Alignment explanation
Indices: 58865--58950 Score: 52
Period size: 17 Copynumber: 4.7 Consensus size: 18
58855 TTTGCATGTG
*
58865 TTTTTTGTCCCTTT-TTTT
1 TTTTTTGT-TCTTTCTTTT
58883 TTTTTTGTTCTTTCCTTTT
1 TTTTTTGTTCTTT-CTTTT
* *
58902 TCCTTTTGTTC-TTGTTTT
1 T-TTTTTGTTCTTTCTTTT
* * *
58920 TCTTTT-CTCTTTGTTTT
1 TTTTTTGTTCTTTCTTTT
58937 TTCCTTTTGTTCTT
1 TT--TTTTGTTCTT
58951 GATTCTCTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
16 2 0.04
17 17 0.31
18 13 0.24
19 11 0.20
20 12 0.22
ACGTcount: A:0.00, C:0.17, G:0.07, T:0.76
Consensus pattern (18 bp):
TTTTTTGTTCTTTCTTTT
Found at i:58931 original size:36 final size:36
Alignment explanation
Indices: 58891--58967 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
58881 TTTTTTTTGT
* *
58891 TCTTTCCTTTTTCCTTTTGTTCTTGTTTTTCTTTTC
1 TCTTTCCTTTTTCCTTTTGTTCTTGATTCTCTTTTC
** *
58927 TCTTTGTTTTTTCCTTTTGTTCTTGATTCTCTTTTT
1 TCTTTCCTTTTTCCTTTTGTTCTTGATTCTCTTTTC
58963 TCTTT
1 TCTTT
58968 TTGTTCTGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.01, C:0.19, G:0.06, T:0.73
Consensus pattern (36 bp):
TCTTTCCTTTTTCCTTTTGTTCTTGATTCTCTTTTC
Found at i:61969 original size:9 final size:10
Alignment explanation
Indices: 61953--62054 Score: 53
Period size: 9 Copynumber: 10.7 Consensus size: 10
61943 AATATAACAT
61953 TAAT-AATAA
1 TAATAAATAA
61962 -AATAAATAGAA
1 TAATAAAT--AA
61973 TAGATAAATGAA
1 TA-ATAAAT-AA
*
61985 GAATAAATAA
1 TAATAAATAA
* *
61995 -AATTGAGTAA
1 TAA-TAAATAA
62005 -AAT-AATAA
1 TAATAAATAA
*
62013 TAAT-GATAA
1 TAATAAATAA
62022 TAAT-AATAA
1 TAATAAATAA
62031 TAAT-AATAA
1 TAATAAATAA
62040 TAATAAA-AA
1 TAATAAATAA
62049 T-ATAAA
1 TAATAAA
62055 AAAATATTAA
Statistics
Matches: 79, Mismatches: 6, Indels: 17
0.77 0.06 0.17
Matches are distributed among these distances:
8 12 0.15
9 37 0.47
10 11 0.14
11 8 0.10
12 5 0.06
13 6 0.08
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (10 bp):
TAATAAATAA
Found at i:62013 original size:3 final size:3
Alignment explanation
Indices: 62005--62050 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
61995 AATTGAGTAA
* *
62005 AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAA AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
62051 TAAAAAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:62874 original size:13 final size:13
Alignment explanation
Indices: 62856--62880 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62846 TTAGGGCCTG
62856 AAAAAAATAAAAT
1 AAAAAAATAAAAT
62869 AAAAAAATAAAA
1 AAAAAAATAAAA
62881 AAATATTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAAATAAAAT
Found at i:62899 original size:3 final size:3
Alignment explanation
Indices: 62861--62939 Score: 69
Period size: 3 Copynumber: 27.3 Consensus size: 3
62851 GCCTGAAAAA
* * * *
62861 AAT AA- AAT AA- AAA AAT AA- AAA AAT ATT AAT ATT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
62906 AAT AAT AAT AAT AAAT ATAT AAT -AT AAT AA- AAT A
1 AAT AAT AAT AAT -AAT A-AT AAT AAT AAT AAT AAT A
62940 TTTTTGTAGA
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
2 10 0.16
3 47 0.75
4 6 0.10
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:67053 original size:15 final size:15
Alignment explanation
Indices: 67033--67126 Score: 66
Period size: 15 Copynumber: 7.0 Consensus size: 15
67023 TATAATTGAT
*
67033 TTAATTTTTTTAATA
1 TTAATTTTTTAAATA
67048 TTAATTTTTTAAATA
1 TTAATTTTTTAAATA
67063 --AA----TTAAATA
1 TTAATTTTTTAAATA
67072 TTAATTTTTT-AATA
1 TTAATTTTTTAAATA
* * *
67086 TT-ATATTATAGATA
1 TTAATTTTTTAAATA
67100 TTAA--TTTT-AATA
1 TTAATTTTTTAAATA
*
67112 TTAACTTTTTAAATA
1 TTAATTTTTTAAATA
67127 AATTAAATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 22
0.69 0.07 0.24
Matches are distributed among these distances:
9 7 0.11
11 2 0.03
12 7 0.11
13 10 0.16
14 15 0.24
15 21 0.34
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (15 bp):
TTAATTTTTTAAATA
Found at i:67093 original size:26 final size:27
Alignment explanation
Indices: 67043--67115 Score: 93
Period size: 26 Copynumber: 2.9 Consensus size: 27
67033 TTAATTTTTT
67043 TAATATTAATTTTTTAA-A-TAAATTA
1 TAATATTAATTTTTTAATATTAAATTA
*
67068 -AATATTAATTTTTTAATATTATATTA
1 TAATATTAATTTTTTAATATTAAATTA
67094 TAGATATTAA--TTTTAATATTAA
1 TA-ATATTAATTTTTTAATATTAA
67116 CTTTTTAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
24 16 0.38
25 1 0.02
26 17 0.40
27 1 0.02
28 7 0.17
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (27 bp):
TAATATTAATTTTTTAATATTAAATTA
Found at i:67112 original size:40 final size:37
Alignment explanation
Indices: 67068--67151 Score: 107
Period size: 40 Copynumber: 2.2 Consensus size: 37
67058 AAATAAATTA
* *
67068 AATATTAATTTTTTAATATTATATTATAGATATTAA-TTTT
1 AATATTAACTTTTTAA-A-TAAATTA-A-ATATTAATTTTT
67108 AATATTAACTTTTTAAATAAATTAAATATTAATTTTT
1 AATATTAACTTTTTAAATAAATTAAATATTAATTTTT
67145 AATATTA
1 AATATTA
67152 TATTATAGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
36 7 0.17
37 12 0.29
38 6 0.15
39 1 0.02
40 15 0.37
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (37 bp):
AATATTAACTTTTTAAATAAATTAAATATTAATTTTT
Found at i:67113 original size:64 final size:64
Alignment explanation
Indices: 67040--67172 Score: 241
Period size: 64 Copynumber: 2.1 Consensus size: 64
67030 GATTTAATTT
*
67040 TTTTAATATTAATTTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATA-TTAA
1 TTTTAATATTAACTTTTTAAATAAATTAAATATTAA-TTTTTAATATTATATTATAGATATTTAA
67104 TTTTAATATTAACTTTTTAAATAAATTAAATATTAATTTTTAATATTATATTATAGATATTTAA
1 TTTTAATATTAACTTTTTAAATAAATTAAATATTAATTTTTAATATTATATTATAGATATTTAA
67168 TTTTA
1 TTTTA
67173 TATCATATAA
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
63 23 0.34
64 44 0.66
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.55
Consensus pattern (64 bp):
TTTTAATATTAACTTTTTAAATAAATTAAATATTAATTTTTAATATTATATTATAGATATTTAA
Found at i:67168 original size:21 final size:20
Alignment explanation
Indices: 67079--67175 Score: 56
Period size: 21 Copynumber: 4.7 Consensus size: 20
67069 ATATTAATTT
67079 TTTAATATTATATTATAGATA
1 TTTAATATTATATTATA-ATA
* * *
67100 -TTAATTTTAATATTA-ACTT
1 TTTAATATT-ATATTATAATA
* *
67119 TTTAAATAAATTA-AATATTAATT
1 TTT-AAT--ATTATATTA-TAATA
67142 TTTAATATTATATTATAGATA
1 TTTAATATTATATTATA-ATA
*
67163 TTTAATTTTATAT
1 TTTAATATTATAT
67176 CATATAAATT
Statistics
Matches: 58, Mismatches: 9, Indels: 18
0.68 0.11 0.21
Matches are distributed among these distances:
19 1 0.02
20 16 0.28
21 29 0.50
22 4 0.07
23 8 0.14
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (20 bp):
TTTAATATTATATTATAATA
Found at i:67897 original size:31 final size:31
Alignment explanation
Indices: 67840--67898 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
67830 AGTTGTATGG
*
67840 ATTATTTAAATTTCAGTATTATAAAACTAAA
1 ATTATTTAAATTTCAGTATTACAAAACTAAA
*
67871 ATTATTTAAATTTCAGTATTGCAAAACT
1 ATTATTTAAATTTCAGTATTACAAAACT
67899 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATTTCAGTATTACAAAACTAAA
Found at i:68508 original size:16 final size:15
Alignment explanation
Indices: 68484--68556 Score: 71
Period size: 16 Copynumber: 4.9 Consensus size: 15
68474 ATAAATATTA
68484 TAATAATTAATAATAT
1 TAATAATTAA-AATAT
* *
68500 TAATTATTAAATATAA
1 TAATAATTAAA-ATAT
68516 TAATAATTAAAATAT
1 TAATAATTAAAATAT
*
68531 TAA-AAAT-AAATA-
1 TAATAATTAAAATAT
*
68543 TAGTAATTAAAATA
1 TAATAATTAAAATA
68557 GATATTTTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
12 2 0.04
13 8 0.17
14 8 0.17
15 7 0.15
16 22 0.47
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (15 bp):
TAATAATTAAAATAT
Found at i:68549 original size:27 final size:24
Alignment explanation
Indices: 68476--68556 Score: 76
Period size: 24 Copynumber: 3.2 Consensus size: 24
68466 AACAACAAAT
68476 AAATATTATAATAATTAATAAT-ATT-
1 AAATATTA-AA-AA-TAATAATAATTA
* *
68501 AATTATTAAATATAATAATAATTA
1 AAATATTAAAAATAATAATAATTA
68525 AAATATTAAAAATAAATATAGTAATTA
1 AAATATTAAAAAT-AATA-A-TAATTA
68552 AAATA
1 AAATA
68557 GATATTTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
22 7 0.15
23 4 0.09
24 13 0.28
25 11 0.23
26 1 0.02
27 11 0.23
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (24 bp):
AAATATTAAAAATAATAATAATTA
Found at i:72343 original size:20 final size:19
Alignment explanation
Indices: 72297--72345 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
72287 ATTAAATACA
*
72297 AAAAAATAAAACTAACAAT
1 AAAAAATAAAACTAAAAAT
72316 AAATAAATAAATACTAAAAAT
1 AAA-AAATAAA-ACTAAAAAT
*
72337 ACAAAATAA
1 AAAAAATAA
72346 TATTAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 3 0.12
20 13 0.50
21 10 0.38
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.18
Consensus pattern (19 bp):
AAAAAATAAAACTAAAAAT
Found at i:72696 original size:21 final size:18
Alignment explanation
Indices: 72670--72708 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 18
72660 TTCAAAATAT
72670 ATTATAATTATAATATTATTA
1 ATTAT-ATT-TAATA-TATTA
72691 ATTATATTTAATATATTA
1 ATTATATTTAATATATTA
72709 TACATATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 3 0.17
21 5 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTATATTTAATATATTA
Found at i:72800 original size:16 final size:16
Alignment explanation
Indices: 72781--72864 Score: 66
Period size: 16 Copynumber: 5.3 Consensus size: 16
72771 ATCTATTTTA
*
72781 ATTACTATATTTATTT
1 ATTATTATATTTATTT
* *
72797 ATTAGTATATTTTAATT
1 ATTATTATA-TTTATTT
* *
72814 ATTTATTATATTTAATA
1 A-TTATTATATTTATTT
*
72831 ATTA--ATA-TTATTA
1 ATTATTATATTTATTT
*
72844 ATTATTATGTTTATTT
1 ATTATTATATTTATTT
72860 ATTAT
1 ATTAT
72865 ATTTATATGT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
13 9 0.16
14 3 0.05
15 2 0.04
16 21 0.38
17 14 0.25
18 7 0.12
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.61
Consensus pattern (16 bp):
ATTATTATATTTATTT
Found at i:72870 original size:13 final size:13
Alignment explanation
Indices: 72786--72870 Score: 56
Period size: 13 Copynumber: 6.7 Consensus size: 13
72776 TTTTAATTAC
72786 TATATTTATTTAT
1 TATATTTATTTAT
72799 TAGTA--TA-TT-T
1 TA-TATTTATTTAT
72809 TA-A-TTATTTAT
1 TATATTTATTTAT
* *
72820 TATATTTAATAAT
1 TATATTTATTTAT
*
72833 TAATATTATTAATTAT
1 T-ATA-T-TTATTTAT
*
72849 TATGTTTATTTAT
1 TATATTTATTTAT
72862 TATATTTAT
1 TATATTTAT
72871 ATGTTATTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
8 1 0.02
9 2 0.04
10 5 0.09
11 5 0.09
12 3 0.05
13 24 0.42
14 6 0.11
15 3 0.05
16 8 0.14
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (13 bp):
TATATTTATTTAT
Found at i:75146 original size:193 final size:193
Alignment explanation
Indices: 74928--75337 Score: 448
Period size: 195 Copynumber: 2.1 Consensus size: 193
74918 TAATTCATTG
* * * *
74928 TATATGTGACGAAA-AGAAAATTGTCACATTGATAGTAACGTAGTAT-ATCGTCACCTAATAGTA
1 TATATGTGACGAAAGAG-ATATTGTCACATTGATAGTAACATAATATAAT-GTCACCTAATAATA
* *
74991 GCATGAATGACA-TTTATATATAACGTCACTATATAATTAATAATCAATGACAACTAATTATGTC
64 GCATGAATG-CAGTTTATACATAACGTCACTATATAATTAATAATCAATGACAACTAATTACGTC
** * * * **
75055 ACTAAATTATGTAAAATTTTGTTATTGATGATTTATATCGTCACGGATAATACATTAAAATCAAC
128 ACTAAATTAAATAAAATTTAGTTATTGATAATTCATATCGTCACAAATAATACATTAAAATCAAC
75120 C
193 C
** * *
75121 TATATGTGACGAAAGAGATATTGTCACATTTTTAGTGACATAATATAAAATGTTACCTAATAATA
1 TATATGTGACGAAAGAGATATTGTCACATTGATAGTAACATAATAT--AATGTCACCTAATAATA
** * * * * * * ** *
75186 TTATGAATGCAGTTTTTGCATAACGTCACTTTATAATTTATATTCTATGACAGTTAGTTACGTCA
64 GCATGAATGCAGTTTATACATAACGTCACTATATAATTAATAATCAATGACAACTAATTACGTCA
* * * * **
75251 CTAAATTAAATAAGATTTAGTTATTGGTAATTCATATTGTCACAAATAATGCATTAAAATCAATT
129 CTAAATTAAATAAAATTTAGTTATTGATAATTCATATCGTCACAAATAATACATTAAAATCAACC
75316 TATATGTGACGAAAGAGATATT
1 TATATGTGACGAAAGAGATATT
75338 ATAGCAAAAC
Statistics
Matches: 178, Mismatches: 34, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
193 37 0.21
194 4 0.02
195 135 0.76
196 2 0.01
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.36
Consensus pattern (193 bp):
TATATGTGACGAAAGAGATATTGTCACATTGATAGTAACATAATATAATGTCACCTAATAATAGC
ATGAATGCAGTTTATACATAACGTCACTATATAATTAATAATCAATGACAACTAATTACGTCACT
AAATTAAATAAAATTTAGTTATTGATAATTCATATCGTCACAAATAATACATTAAAATCAACC
Found at i:77170 original size:102 final size:105
Alignment explanation
Indices: 77058--77270 Score: 267
Period size: 104 Copynumber: 2.0 Consensus size: 105
77048 AAGGTGATTA
* * * *
77058 ATTTTTCATTTAGGGTGAATA-TTATATAAA-AGATGTAGAAGGATGAG-TATTTTTGAATGATT
1 ATTTTTCATTTA-GGTGAATATTTATAAAAATAGATATAAAAGAATGAGATA-TTTTGAATGATT
77120 CT-CAGAAGACACGATGTAT-TTATTTAAATT-ATTTTTTTTT
64 CTCCAGAA-ACACGATGTATATTATTTAAATTAATTTTTTTTT
* * * * *
77160 ATTTTTCATTTATGTTATTATTTATAAAAATAGTTATAAAAGAATTAGATGATTTTGAATGATTC
1 ATTTTTCATTTAGGTGAATATTTATAAAAATAGATATAAAAGAATGAGAT-ATTTTGAATGATTC
77225 TCCAGAAACACGATGTATATTATTTAAATTAATTTTTTTTT
65 TCCAGAAACACGATGTATATTATTTAAATTAATTTTTTTTT
77266 ATTTT
1 ATTTT
77271 AAAATCAAAT
Statistics
Matches: 95, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
101 5 0.05
102 20 0.21
103 12 0.13
104 26 0.27
105 17 0.18
106 15 0.16
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.47
Consensus pattern (105 bp):
ATTTTTCATTTAGGTGAATATTTATAAAAATAGATATAAAAGAATGAGATATTTTGAATGATTCT
CCAGAAACACGATGTATATTATTTAAATTAATTTTTTTTT
Found at i:77291 original size:50 final size:52
Alignment explanation
Indices: 77237--77341 Score: 169
Period size: 55 Copynumber: 2.0 Consensus size: 52
77227 CAGAAACACG
77237 ATGTATATTATTTAAATT-A-ATTTTTTTTTATTTTAAAATCAAATCGAATT
1 ATGTATATTATTTAAATTAATATTTTTTTTTATTTTAAAATCAAATCGAATT
77287 ATGTATATTATTTAAATTAAAAATATTTTTTTTTATTTTAAAATCAAATCGAATT
1 ATGTATATTATTTAAATT---AATATTTTTTTTTATTTTAAAATCAAATCGAATT
77342 TTAGATGACA
Statistics
Matches: 50, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
50 18 0.36
54 1 0.02
55 31 0.62
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (52 bp):
ATGTATATTATTTAAATTAATATTTTTTTTTATTTTAAAATCAAATCGAATT
Found at i:80255 original size:21 final size:20
Alignment explanation
Indices: 80169--80326 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
80159 AAATGACCAA
**
80169 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
80188 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
80208 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
80228 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
80249 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
80270 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
80290 CCAAAATCGCAACGCAAATAT
1 -CAAAATCGCAACGCGATTTT
*
80311 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
80327 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 40 0.39
21 46 0.45
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:80336 original size:20 final size:20
Alignment explanation
Indices: 80313--80486 Score: 208
Period size: 20 Copynumber: 8.7 Consensus size: 20
80303 GCAAATATGA
* *
80313 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
80333 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* *
80353 AAATCGCAACGTGTATCCAT
1 AAATCGCAACGCGTATCCGT
**
80373 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
80393 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
80413 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
80433 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
80453 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
80474 AAATCGCAACGCG
1 AAATCGCAACGCG
80487 ATATTTAAAG
Statistics
Matches: 130, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
19 1 0.01
20 111 0.85
21 17 0.13
22 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:80342 original size:40 final size:40
Alignment explanation
Indices: 80293--80486 Score: 113
Period size: 40 Copynumber: 4.8 Consensus size: 40
80283 CGATTTTCCA
*
80293 AAATCGCAACGCAAATATGAAAATCGCAACGCG-AACACAT
1 AAATCGCAACGCAAATACGAAAATCGCAACGCGTAAC-CAT
** * * * *
80333 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCAT
1 AAATCGCAACGCAAATACGAAAATCGCAACGCGTAACCAT
** ** * * * *
80373 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCAAATACGAAAATCGCAACGCGTAACCAT
* ** * * * *
80413 ATATCGCAACGCGTATCCGTAAATCGCAACG-ATAATACAT
1 AAATCGCAACGCAAATACGAAAATCGCAACGCGTAA-CCAT
** * *
80453 AAAATCGCAACGCGTATCCGTAAATCGCAACGCG
1 -AAATCGCAACGCAAATACGAAAATCGCAACGCG
80487 ATATTTAAAG
Statistics
Matches: 128, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 2 0.02
40 94 0.73
41 32 0.25
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.19
Consensus pattern (40 bp):
AAATCGCAACGCAAATACGAAAATCGCAACGCGTAACCAT
Found at i:80377 original size:60 final size:60
Alignment explanation
Indices: 80313--80486 Score: 240
Period size: 60 Copynumber: 2.9 Consensus size: 60
80303 GCAAATATGA
* *
80313 AAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCAT
1 AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCAT
* *** * * *
80373 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCAT
**
80433 AAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCG
1 AAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTAAATCGCAACGCG
80487 ATATTTAAAG
Statistics
Matches: 96, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
60 65 0.68
61 31 0.32
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCAT
Found at i:80931 original size:32 final size:33
Alignment explanation
Indices: 80868--80937 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
80858 TTCACTTAGA
*
80868 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
80901 TTTCATTTCGCGTTGCTATTCTCTCG-TGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
80933 TTTCA
1 TTTCA
80938 AGTAGTATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 11 0.32
33 23 0.68
ACGTcount: A:0.11, C:0.23, G:0.19, T:0.47
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:81088 original size:33 final size:33
Alignment explanation
Indices: 81045--81111 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
81035 AATCGCATGA
* **
81045 AACGATAGAATCGCAACGCGAAATGAAAATCGC
1 AACGAGAGAATCGCAACGCGAAACCAAAATCGC
81078 AACGAGAGAATCGCAACGCGAAACCAAAATCGC
1 AACGAGAGAATCGCAACGCGAAACCAAAATCGC
81111 A
1 A
81112 TTGCGATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.46, C:0.24, G:0.21, T:0.09
Consensus pattern (33 bp):
AACGAGAGAATCGCAACGCGAAACCAAAATCGC
Found at i:81129 original size:19 final size:19
Alignment explanation
Indices: 81107--81204 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
81097 GAAACCAAAA
*
81107 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
81126 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
81140 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
81159 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
81173 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
81192 TCGCGTTGCGATT
1 TCGCGTTGCGATT
81205 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.23, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:81148 original size:14 final size:14
Alignment explanation
Indices: 81129--81218 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
81119 TTTCATTTCG
81129 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
81143 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
81162 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
81176 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
81195 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
81209 CGTTGCGATT
1 CGTTGCGATT
81219 TTCATTTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 1 0.02
16 5 0.08
17 5 0.08
18 1 0.02
19 20 0.32
ACGTcount: A:0.09, C:0.24, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:81154 original size:33 final size:33
Alignment explanation
Indices: 81112--81226 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
81102 CAAAATCGCA
81112 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
81145 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
81178 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
81211 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
81227 AACCAAAAGA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:83156 original size:17 final size:17
Alignment explanation
Indices: 83126--83158 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
83116 GTTGCTGCCA
83126 ATTCTGTTAAACTGTGT
1 ATTCTGTTAAACTGTGT
83143 ATTCT-TTAACACTGTG
1 ATTCTGTTAA-ACTGTG
83159 AAATAGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.45
Consensus pattern (17 bp):
ATTCTGTTAAACTGTGT
Found at i:83172 original size:93 final size:93
Alignment explanation
Indices: 82917--83292 Score: 711
Period size: 92 Copynumber: 4.1 Consensus size: 93
82907 TAGATTGCTT
*
82917 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
82982 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
83010 AGT-AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
83074 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
83102 AGTAAATTTGTTCGGTTGCTGCCAATTCTGTTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
83167 TTTGTCTTTGGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTT-GTTTTGTCTTTTGGTTGAA
83196 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
83261 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
83288 AGTAA
1 AGTAA
83293 TGCAATCCAT
Statistics
Matches: 278, Mismatches: 3, Indels: 5
0.97 0.01 0.02
Matches are distributed among these distances:
92 97 0.35
93 89 0.32
94 92 0.33
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:83380 original size:19 final size:19
Alignment explanation
Indices: 83340--83468 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
83330 TAGTTTACTT
* *
83340 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
*
83360 TCACAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
83379 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
83398 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
83412 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
83431 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
83445 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
83464 TCGCA
1 TCGCA
83469 TTGCGATTTT
Statistics
Matches: 88, Mismatches: 11, Indels: 21
0.73 0.09 0.17
Matches are distributed among these distances:
14 19 0.22
15 2 0.02
16 4 0.05
17 4 0.05
18 2 0.02
19 45 0.51
20 12 0.14
ACGTcount: A:0.47, C:0.29, G:0.16, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:83419 original size:33 final size:32
Alignment explanation
Indices: 83376--83468 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
83366 CGCGAAACCA
**
83376 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
83408 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
83441 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
83469 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:83466 original size:52 final size:52
Alignment explanation
Indices: 83340--83468 Score: 131
Period size: 52 Copynumber: 2.5 Consensus size: 52
83330 TAGTTTACTT
** *
83340 TCGCAACACGAAACTTAAAATCACAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
83392 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
83445 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
83469 TTGCGATTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 41 0.67
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.47, C:0.29, G:0.16, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:83486 original size:19 final size:18
Alignment explanation
Indices: 83464--83580 Score: 108
Period size: 19 Copynumber: 6.8 Consensus size: 18
83454 GAAACCAAAA
83464 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGATTTTCATT
83483 TCGCTTGCGA--TTC-TT
1 TCGCTTGCGATTTTCATT
83498 TCG-TTGCGA-TTTCATT
1 TCGCTTGCGATTTTCATT
*
83514 TCGCATTGCGA--TTC-TG
1 TCGC-TTGCGATTTTCATT
83530 TCG-TTGCGATTTTCATT
1 TCGCTTGCGATTTTCATT
**
83547 TCGCGTTGCGATTTTGGTT
1 TCGC-TTGCGATTTTCATT
83566 TCGCGTTGCGATTTT
1 TCGC-TTGCGATTTT
83581 AAGTTTCGTG
Statistics
Matches: 85, Mismatches: 4, Indels: 18
0.79 0.04 0.17
Matches are distributed among these distances:
14 12 0.14
15 8 0.09
16 15 0.18
17 7 0.08
18 12 0.14
19 31 0.36
ACGTcount: A:0.10, C:0.21, G:0.22, T:0.47
Consensus pattern (18 bp):
TCGCTTGCGATTTTCATT
Found at i:83506 original size:14 final size:15
Alignment explanation
Indices: 83481--83559 Score: 72
Period size: 14 Copynumber: 4.9 Consensus size: 15
83471 GCGATTTTCA
83481 TTTCGCTTGCGATTC
1 TTTCGCTTGCGATTC
83496 TTTCG-TTGCGATTTC
1 TTTCGCTTGCGA-TTC
83511 ATTTCGCATTGCGATTC
1 -TTTCGC-TTGCGATTC
*
83528 TGTCG-TTGCGATTTTC
1 TTTCGCTTGCGA--TTC
83544 ATTTCGCGTTGCGATT
1 -TTTCGC-TTGCGATT
83560 TTGGTTTCGC
Statistics
Matches: 53, Mismatches: 2, Indels: 16
0.75 0.03 0.23
Matches are distributed among these distances:
14 12 0.23
15 8 0.15
16 12 0.23
17 9 0.17
18 6 0.11
19 6 0.11
ACGTcount: A:0.10, C:0.22, G:0.22, T:0.47
Consensus pattern (15 bp):
TTTCGCTTGCGATTC
Found at i:83549 original size:33 final size:32
Alignment explanation
Indices: 83469--83559 Score: 148
Period size: 32 Copynumber: 2.8 Consensus size: 32
83459 CAAAATCGCA
*
83469 TTGCGATTTTCATTTCGCTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCTTGCGATTCTGTCG
83501 TTGCGA-TTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGC-TTGCGATTCTGTCG
83533 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGC-TTGCGATT
83560 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
31 11 0.20
32 25 0.45
33 19 0.35
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (32 bp):
TTGCGATTTTCATTTCGCTTGCGATTCTGTCG
Found at i:83588 original size:20 final size:19
Alignment explanation
Indices: 83531--83596 Score: 89
Period size: 19 Copynumber: 3.4 Consensus size: 19
83521 GCGATTCTGT
83531 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATTTT-AGTTTCG
*
83550 CGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTTAGTTTCG
83569 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTT-AGTTTCG
*
83589 TGTTGCGA
1 CGTTGCGA
83597 AAGTAAACTA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
19 29 0.69
20 13 0.31
ACGTcount: A:0.11, C:0.17, G:0.27, T:0.45
Consensus pattern (19 bp):
CGTTGCGATTTTAGTTTCG
Found at i:85536 original size:14 final size:14
Alignment explanation
Indices: 85517--85552 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
85507 ATTGTTTAAT
85517 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
85531 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
85545 TGATTTGT
1 TGATTTGT
85553 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:85675 original size:19 final size:19
Alignment explanation
Indices: 85659--85775 Score: 181
Period size: 19 Copynumber: 6.4 Consensus size: 19
85649 AAAAATGACT
85659 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
85678 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
85697 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
85716 ATCGCAA--CG--A-GACA
1 ATCGCAATGCGAAATGAAA
85730 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
85749 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
85769 ATCGCAA
1 ATCGCAA
85776 CGAGAGAATT
Statistics
Matches: 90, Mismatches: 2, Indels: 11
0.87 0.02 0.11
Matches are distributed among these distances:
14 10 0.11
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 58 0.64
20 16 0.18
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:85738 original size:33 final size:36
Alignment explanation
Indices: 85659--85775 Score: 159
Period size: 33 Copynumber: 3.2 Consensus size: 36
85649 AAAAATGACT
85659 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAA
*
85697 ATCGCAATGCGAAATGAAAATCGCAA-CG-A-GACA
1 ATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAA
85730 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA-GC-G-AATGAAA
85769 ATCGCAA
1 ATCGCAA
85776 CGAGAGAATT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
33 29 0.41
34 1 0.01
35 1 0.01
36 3 0.04
38 27 0.38
39 10 0.14
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (36 bp):
ATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAA
Found at i:85807 original size:53 final size:53
Alignment explanation
Indices: 85677--85793 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
85667 GCGAAATGAA
85677 AATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAC
1 AATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAC
*
85729 AATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAC
*
85782 AATTGCAATGCG
1 AATCGCAATGCG
85794 TTTATAATTT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 30 0.48
53 32 0.52
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (53 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAC
Found at i:85837 original size:33 final size:33
Alignment explanation
Indices: 85800--85951 Score: 150
Period size: 33 Copynumber: 4.5 Consensus size: 33
85790 TGCGTTTATA
85800 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
85833 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TC
* * * * *
85873 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
85904 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
85937 A-TTCGCATTGCGATT
1 ATTTCGCATTGCGATT
85952 TTCATTTCGC
Statistics
Matches: 96, Mismatches: 12, Indels: 23
0.73 0.09 0.18
Matches are distributed among these distances:
31 9 0.09
32 19 0.20
33 37 0.39
35 5 0.05
36 4 0.04
37 2 0.02
38 8 0.08
39 3 0.03
40 9 0.09
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
Found at i:85846 original size:19 final size:19
Alignment explanation
Indices: 85822--86037 Score: 231
Period size: 19 Copynumber: 12.4 Consensus size: 19
85812 GATTCTCTCG
85822 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
85841 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
85860 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
85874 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
85893 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
85912 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
85926 TTGCGATTTTCA-TTCGCA
1 TTGCGATTTTCATTTCGCA
85944 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
85963 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
*
85977 TTGCAATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
85997 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
*
86011 TTGGGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
86030 TTGCGATT
1 TTGCGATT
86038 CTCTCGTTGC
Statistics
Matches: 165, Mismatches: 10, Indels: 44
0.75 0.05 0.20
Matches are distributed among these distances:
14 28 0.17
16 26 0.16
17 16 0.10
18 15 0.09
19 69 0.42
20 11 0.07
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:85857 original size:52 final size:52
Alignment explanation
Indices: 85800--86009 Score: 395
Period size: 52 Copynumber: 4.0 Consensus size: 52
85790 TGCGTTTATA
85800 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
85852 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
85904 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCA-TTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
85955 ATTTCGCATTGCGATTCTCTCGTTGCAATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
86008 AT
1 AT
86010 GTTGGGATTT
Statistics
Matches: 155, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
51 50 0.32
52 88 0.57
53 17 0.11
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:86059 original size:33 final size:33
Alignment explanation
Indices: 85841--86051 Score: 232
Period size: 33 Copynumber: 6.2 Consensus size: 33
85831 TCATTTCGCA
85841 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
85874 TTGCGATTTTCATTTCGCATTGCGATT-T-TCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
* * * * *
85905 TTTCGCA-TTGCGATTCTCTCGTTGCGATTTTCATTCG
1 TTGCG-ATTTTC-ATT-TCGCATTGCGATTCTC--TCG
85942 CATTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 --TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
* *
85977 TTGCAATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
86011 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
86044 TTGCGATT
1 TTGCGATT
86052 GTAATTTCCG
Statistics
Matches: 148, Mismatches: 17, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
31 9 0.06
32 6 0.04
33 74 0.50
34 29 0.20
35 4 0.03
37 15 0.10
38 4 0.03
39 7 0.05
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:88306 original size:12 final size:12
Alignment explanation
Indices: 88289--88313 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
88279 TCTTCGGGGA
88289 CTTTTTCTTCTT
1 CTTTTTCTTCTT
88301 CTTTTTCTTCTT
1 CTTTTTCTTCTT
88313 C
1 C
88314 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:89241 original size:20 final size:20
Alignment explanation
Indices: 89213--89442 Score: 230
Period size: 20 Copynumber: 11.5 Consensus size: 20
89203 AAATTTCAGT
* * *
89213 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
89233 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
89253 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
89273 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
89293 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
89313 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
89333 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
89353 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
89373 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
89393 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
**
89413 GTTGCGATTTTA-ATATTCGC
1 GTTGCGA-TTTACGGATTCGC
89433 GTTGCGATTT
1 GTTGCGATTT
89443 TGGAAAATCG
Statistics
Matches: 183, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
19 3 0.02
20 175 0.96
21 5 0.03
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:89443 original size:20 final size:20
Alignment explanation
Indices: 89409--89506 Score: 83
Period size: 21 Copynumber: 4.8 Consensus size: 20
89399 ATTTATGTGT
*
89409 TCGCGTTGCGATTTTAATAT
1 TCGCGTTGCGATTTTAATAA
89429 TCGCGTTGCGATTTTGGAA-AA
1 TCGCGTTGCGATTTT--AATAA
** *
89450 TCGCAATGCGAATTTGTACT-A
1 TCGCGTTGCG-ATTT-TAATAA
* *
89471 TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTT-AATAA
89492 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
89507 GGAAACTGAT
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
19 1 0.02
20 20 0.32
21 35 0.56
22 6 0.10
23 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTAATAA
Found at i:89502 original size:42 final size:43
Alignment explanation
Indices: 89409--89507 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 43
89399 ATTTATGTGT
* *
89409 TCGCGTTGCG-ATTT-TAATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTAATATTCGCATTGCGATTTTGCAAAA
** *
89450 TCGCAATGCGAATTTGTACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTAATATTCGCATTGCGATTTTGCAA-AA
*
89492 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
89508 GAAACTGATT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
41 10 0.21
42 33 0.70
43 4 0.09
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTAATATTCGCATTGCGATTTTGCAAAA
Found at i:102575 original size:21 final size:21
Alignment explanation
Indices: 102549--102641 Score: 63
Period size: 22 Copynumber: 4.5 Consensus size: 21
102539 ATTTTGCTTG
*
102549 AAGAAA-AAATGAAGAAGAAAA
1 AAGAAAGAAAAGAAG-AGAAAA
102570 AAGAAAGAAAAGAAGAGAAAA
1 AAGAAAGAAAAGAAGAGAAAA
* *
102591 AA-AAGGAAAATGGAAAATGAAAA
1 AAGAAAGAAAA--GAAGA-GAAAA
* *
102614 AA-ATA-AAAA-AA-ATAAAA
1 AAGAAAGAAAAGAAGAGAAAA
102631 AAGAAAGAAAA
1 AAGAAAGAAAA
102642 AAGGGGATTC
Statistics
Matches: 59, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
17 6 0.10
18 3 0.05
19 6 0.10
20 7 0.12
21 14 0.24
22 15 0.25
23 8 0.14
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.05
Consensus pattern (21 bp):
AAGAAAGAAAAGAAGAGAAAA
Found at i:102584 original size:19 final size:20
Alignment explanation
Indices: 102560--102600 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
102550 AGAAAAAATG
102560 AAGAAGA-AAAAAGAAA-GAA
1 AAGAAGAGAAAAA-AAAGGAA
102579 AAGAAGAGAAAAAAAAGGAA
1 AAGAAGAGAAAAAAAAGGAA
102599 AA
1 AA
102601 TGGAAAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (20 bp):
AAGAAGAGAAAAAAAAGGAA
Found at i:102593 original size:22 final size:21
Alignment explanation
Indices: 102549--102592 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
102539 ATTTTGCTTG
*
102549 AAGAAAAAATGAAGAAGAAAA
1 AAGAAAAAAAGAAGAAGAAAA
102570 AAGAAAGAAAAGAAG-AGAAAA
1 AAGAAA-AAAAGAAGAAGAAAA
102591 AA
1 AA
102593 AAGGAAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.02
Consensus pattern (21 bp):
AAGAAAAAAAGAAGAAGAAAA
Found at i:106209 original size:63 final size:63
Alignment explanation
Indices: 106133--106252 Score: 154
Period size: 63 Copynumber: 1.9 Consensus size: 63
106123 TATTTGTTAC
*
106133 CTATTTAACTTTGAATA-TTAAAGAT-AATTATATCCTTTACAATATTTCAAATTAAAATAATAT
1 CTATTTAACTTTGAATAGTAAAAGATGAATT-TAT-CTTTACAATATTTCAAATTAAAATAATAT
* * * **
106196 CTATTTAAGTTTGAATAGTAAAAGGTGACTTTATCTTTTGAATATTTCAAATTAAAA
1 CTATTTAACTTTGAATAGTAAAAGATGAATTTATCTTTACAATATTTCAAATTAAAA
106253 GATATTATTA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
63 37 0.76
64 9 0.18
65 3 0.06
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (63 bp):
CTATTTAACTTTGAATAGTAAAAGATGAATTTATCTTTACAATATTTCAAATTAAAATAATAT
Found at i:106264 original size:34 final size:34
Alignment explanation
Indices: 106226--106292 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
106216 AAAGGTGACT
*
106226 TTATCT-TTTGAATATTTCAA-ATTAAAAGATATTA
1 TTATCTGTTT-AA-ATTTCAATATCAAAAGATATTA
*
106260 TTATCTGTTTAAATTTGAATATCAAAAGATATT
1 TTATCTGTTTAAATTTCAATATCAAAAGATATT
106293 TAGTTAGAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 6 0.21
34 20 0.69
35 3 0.10
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.46
Consensus pattern (34 bp):
TTATCTGTTTAAATTTCAATATCAAAAGATATTA
Found at i:111812 original size:2 final size:2
Alignment explanation
Indices: 111805--111831 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
111795 ATTTTCCTTA
111805 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
111832 CTCAAAAATT
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:113194 original size:17 final size:17
Alignment explanation
Indices: 113169--113202 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
113159 TTAATTAAAA
*
113169 CATGTTTGGGTAGATAT
1 CATGATTGGGTAGATAT
113186 CATGATTGGGTAGATAT
1 CATGATTGGGTAGATAT
113203 TATATTCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.29, T:0.38
Consensus pattern (17 bp):
CATGATTGGGTAGATAT
Found at i:115358 original size:19 final size:18
Alignment explanation
Indices: 115334--115369 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
115324 AAGGAATTCA
*
115334 AGAATTTATTGACAAATGG
1 AGAATTAATTGA-AAATGG
115353 AGAATTAATTGAAAATG
1 AGAATTAATTGAAAATG
115370 TGATAAACGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.31
Consensus pattern (18 bp):
AGAATTAATTGAAAATGG
Found at i:116496 original size:18 final size:17
Alignment explanation
Indices: 116470--116503 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
116460 AAGTAAGAAG
*
116470 AAGAGAAAAAGGAAAAAA
1 AAGA-AAAAAAGAAAAAA
116488 AAGAAAAAAAGAAAAA
1 AAGAAAAAAAGAAAAA
116504 GATGGATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAGAAAAAA
Found at i:116963 original size:1 final size:1
Alignment explanation
Indices: 116957--117067 Score: 51
Period size: 1 Copynumber: 111.0 Consensus size: 1
116947 ATCCATCAAG
* * * * * * * * * * *
116957 AAAAAAAAGAGAAAAAAAAGAAAAGAAAAGAAAGAAAAGAAAAAGAAAAAGAAAAGAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * *
117022 GAGAAAGAAAAGAAAAGAAAAAAAAGAAAAAAGAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
117068 GAGAAAAGAA
Statistics
Matches: 72, Mismatches: 38, Indels: 0
0.65 0.35 0.00
Matches are distributed among these distances:
1 72 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (1 bp):
A
Found at i:116982 original size:5 final size:5
Alignment explanation
Indices: 116954--117079 Score: 150
Period size: 5 Copynumber: 24.4 Consensus size: 5
116944 CTCATCCATC
*
116954 AAGAA AA-AA AAGAGA AAAAA AAGAA AAGAA AAG-A AAGAA AAGAAA AAGAAA
1 AAGAA AAGAA AAGA-A AAGAA AAGAA AAGAA AAGAA AAGAA AAG-AA AAG-AA
117005 AAGAA AAGAA AAGAA AAGAGA AAGAA AAGAA AAGAA AA-AA AAGAAAA
1 AAGAA AAGAA AAGAA AAGA-A AAGAA AAGAA AAGAA AAGAA AAG--AA
*
117052 AAGAA AAGAA AAAAA AGAGAA AAGAA AA
1 AAGAA AAGAA AAGAA A-AGAA AAGAA AA
117080 TAAATTGAAT
Statistics
Matches: 108, Mismatches: 4, Indels: 18
0.83 0.03 0.14
Matches are distributed among these distances:
4 12 0.11
5 67 0.62
6 24 0.22
7 5 0.05
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:116982 original size:16 final size:15
Alignment explanation
Indices: 116957--117079 Score: 142
Period size: 16 Copynumber: 7.9 Consensus size: 15
116947 ATCCATCAAG
116957 AAAA-AAAAGAGAAAA
1 AAAAGAAAAGA-AAAA
116972 AAAAGAAAAG-AAAA
1 AAAAGAAAAGAAAAA
*
116986 GAAAGAAAAGAAAAAGA
1 AAAAGAAAAG-AAAA-A
*
117003 AAAAGAAAAGAAAAG
1 AAAAGAAAAGAAAAA
*
117018 AAAAGAGAAAGAAAAG
1 AAAAGA-AAAGAAAAA
*
117034 AAAAGAAAAAAAAGAA
1 AAAAGAAAAGAAA-AA
117050 AAAAGAAAAGAAAAA
1 AAAAGAAAAGAAAAA
117065 AAAGAGAAAAGAAAA
1 AAA-AGAAAAGAAAA
117080 TAAATTGAAT
Statistics
Matches: 95, Mismatches: 6, Indels: 13
0.83 0.05 0.11
Matches are distributed among these distances:
14 13 0.14
15 21 0.22
16 51 0.54
17 10 0.11
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAGAAAAA
Found at i:116987 original size:21 final size:21
Alignment explanation
Indices: 116954--117079 Score: 170
Period size: 21 Copynumber: 6.1 Consensus size: 21
116944 CTCATCCATC
116954 AAGAAAAAAAAGAGAAAA-AA
1 AAGAAAAAAAAGAGAAAAGAA
*
116974 AAGAAAAGAAA-AG-AAAGAA
1 AAGAAAAAAAAGAGAAAAGAA
*
116993 AAGAAAAAGAAAAAGAAAAGAA
1 AAGAAAAA-AAAGAGAAAAGAA
*
117015 AAGAAAAGAGAA-AGAAAAGAA
1 AAGAAAA-AAAAGAGAAAAGAA
*
117036 AAGAAAAAAAAGAAAAAAGAA
1 AAGAAAAAAAAGAGAAAAGAA
117057 AAGAAAAAAAAGAGAAAAGAA
1 AAGAAAAAAAAGAGAAAAGAA
117078 AA
1 AA
117080 TAAATTGAAT
Statistics
Matches: 94, Mismatches: 6, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.03
19 11 0.12
20 16 0.17
21 48 0.51
22 15 0.16
23 1 0.01
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (21 bp):
AAGAAAAAAAAGAGAAAAGAA
Found at i:117975 original size:82 final size:80
Alignment explanation
Indices: 117820--118015 Score: 223
Period size: 82 Copynumber: 2.4 Consensus size: 80
117810 ACCAAAATGT
* * * *
117820 TGGGGCATCTTGAATGCTCACATTAGCATGAAAAATGTTGGGTCATTTTGAAGGCCAATTTCAGA
1 TGGGGCATCTTGAAAGCTCACATCAGCAAGAAAAATATTGGGTCATTTTGAAGGCCAATTTCAGA
*
117885 TAAAAATGATCCATG
66 CAAAAATGATCCATG
* * * * *
117900 TGGGGCATTTTGAAAGCTCATATCAGCAAGAAGCAAATATTGAGG-CATTTTGTAGGCCCATTTT
1 TGGGGCATCTTGAAAGCTCACATCAGCAAGAA--AAATATTG-GGTCATTTTGAAGGCCAATTTC
*
117964 AGACAGAAATGATCCATG
63 AGACAAAAATGATCCATG
* * * *
117982 TGAGGTATCTTGAAGGCTCACATCAGCATGAAAA
1 TGGGGCATCTTGAAAGCTCACATCAGCAAGAAAA
118016 GACAGAAGTA
Statistics
Matches: 96, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
80 29 0.30
82 65 0.68
83 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (80 bp):
TGGGGCATCTTGAAAGCTCACATCAGCAAGAAAAATATTGGGTCATTTTGAAGGCCAATTTCAGA
CAAAAATGATCCATG
Found at i:118043 original size:51 final size:51
Alignment explanation
Indices: 117964--118067 Score: 154
Period size: 51 Copynumber: 2.0 Consensus size: 51
117954 GGCCCATTTT
* * *
117964 AGACAGAAATGATCCATGTGAGGTATCTTGAAGGCTCACATCAGCATGAAA
1 AGACAGAAATAATCCATGTGAGGCATCTTGAAGGCTCACACCAGCATGAAA
* * *
118015 AGACAGAAGTAATCCATGTGGGGCATCTTGAAGGCTCACACCAGTATGAAA
1 AGACAGAAATAATCCATGTGAGGCATCTTGAAGGCTCACACCAGCATGAAA
118066 AG
1 AG
118068 GTTGGGATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (51 bp):
AGACAGAAATAATCCATGTGAGGCATCTTGAAGGCTCACACCAGCATGAAA
Found at i:119860 original size:130 final size:130
Alignment explanation
Indices: 119626--119954 Score: 552
Period size: 130 Copynumber: 2.5 Consensus size: 130
119616 GTTTTTCTGA
* * * *
119626 CCATCCATAAGACCTTCAGTGTAGGATGTTTTCAAATGAGATTTTAGAAACTAAGTCTTCGGGGG
1 CCATCCATAAGACCTCCAGTGCATGATGTTTTCAAATGAGATTTTAGAAACTAAGCCTTCGGGGG
* * *
119691 TTTTTTGATTTTATATCCTCTGGGTTATCTGTAAGCCTTCCGAGCAAGATGATAAGACCTCCGAG
66 TTTCTTGATTTTAAATCCTCTGGGTCATCTGTAAGCCTTCCGAGCAAGATGATAAGACCTCCG-G
119756 T
130 T
119757 -CATCCATAAGACCTCCAGTGCATGATGTTTTCAAATGAGATTTTAGAAACTAAGCCTTCGGGGG
1 CCATCCATAAGACCTCCAGTGCATGATGTTTTCAAATGAGATTTTAGAAACTAAGCCTTCGGGGG
119821 TTTCTTGATTTTAAATCCTCTGGGTCATCTGTAAGCCTTCCGAGCAAGATGATAAGACCTCCGGT
66 TTTCTTGATTTTAAATCCTCTGGGTCATCTGTAAGCCTTCCGAGCAAGATGATAAGACCTCCGGT
* * *
119886 CCATCCATAAGACCTCTAGTGCATGATGTTTTCAAATGATATTTTAGAAATTAAGCCTTCGGGGG
1 CCATCCATAAGACCTCCAGTGCATGATGTTTTCAAATGAGATTTTAGAAACTAAGCCTTCGGGGG
119951 TTTC
66 TTTC
119955 CTAATTATCT
Statistics
Matches: 187, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
129 2 0.01
130 185 0.99
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (130 bp):
CCATCCATAAGACCTCCAGTGCATGATGTTTTCAAATGAGATTTTAGAAACTAAGCCTTCGGGGG
TTTCTTGATTTTAAATCCTCTGGGTCATCTGTAAGCCTTCCGAGCAAGATGATAAGACCTCCGGT
Found at i:120093 original size:215 final size:216
Alignment explanation
Indices: 119823--120320 Score: 657
Period size: 214 Copynumber: 2.3 Consensus size: 216
119813 TTCGGGGGTT
*
119823 TCTTGATTTTAAATCCTCTGGGTCATCTGTAAGCCTTCCGAGCAAGATGATAAGACCTCCGGTCC
1 TCTTGATTTTAAATCTTC-GGGTCATCTGTAAGCCTTCCGAGCAAGATGATAAGACCTCCGG-CC
* * * *
119888 ATCCATAAGACCTCTAGTGCATGATGTTTTCAAATGATATTTTAGAAATTAAGCC-TTCGGGGGT
64 ATCCATAAGACCTCTAGTGCATGATGTTTTCAAATGAGATTTTAAAAACTAAGCCTTTCAGGGGT
* * *
119952 TTCCTAATTATCTCAAAAGAGTTGTTAAAGGAAGCTAAGCCTTACAAAGGGGC-TCCTTTACAAC
129 TTCCTAATTATCTC-AAAGAGTTGTTAAAGAAAGCTAAGCCTT-CAAA-GAGCTTCCTTGACAAC
* *
120016 TAAGAAAC-TA-T-ACCTTT-AGGGG
191 CAAGAAACTTACTGACCTTTAAAGGG
*
120038 TCTTGATTTTAAATCTTTCGGGTCATCTGTAAGCCTTCCGAGCAAGATGATAAGACCTCTGGCCA
1 TCTTGATTTTAAATC-TTCGGGTCATCTGTAAGCCTTCCGAGCAAGATGATAAGACCTCCGGCCA
* * *
120103 TCTATAAGACCTCTAGTGCATGATTTTTTTAAATGAGATTTTAAAAACTAAGCCTTTCAGGGGTT
65 TCCATAAGACCTCTAGTGCATGATGTTTTCAAATGAGATTTTAAAAACTAAGCCTTTCAGGGGTT
* **
120168 TCTTAATTATCTCAAAGAGTTGTTAAAGAAAGCTAAGCCTTTTAAGAGCTTCCTTGACAACCAAG
130 TCCTAATTATCTCAAAGAGTTGTTAAAGAAAGCTAAGCCTTCAAAGAGCTTCCTTGACAACCAAG
** **
120233 AAACTTAGCTTGATTTTTAAAAGTT
195 AAACTTA-C-TGACCTTT-AAAGGG
*
120258 TCTTGATGTTTAAATCCTCCGGGTCATCTGTAAGCCTTCCGAGCAAGATGATAAGACCTCCGG
1 TCTTGAT-TTTAAAT-CTTCGGGTCATCTGTAAGCCTTCCGAGCAAGATGATAAGACCTCCGG
120321 GCAGAATGTT
Statistics
Matches: 248, Mismatches: 23, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
212 3 0.01
213 19 0.08
214 80 0.32
215 78 0.31
216 2 0.01
217 1 0.00
218 4 0.02
220 9 0.04
221 51 0.21
222 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (216 bp):
TCTTGATTTTAAATCTTCGGGTCATCTGTAAGCCTTCCGAGCAAGATGATAAGACCTCCGGCCAT
CCATAAGACCTCTAGTGCATGATGTTTTCAAATGAGATTTTAAAAACTAAGCCTTTCAGGGGTTT
CCTAATTATCTCAAAGAGTTGTTAAAGAAAGCTAAGCCTTCAAAGAGCTTCCTTGACAACCAAGA
AACTTACTGACCTTTAAAGGG
Found at i:121772 original size:14 final size:16
Alignment explanation
Indices: 121749--121780 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
121739 TTTATTTTGG
121749 TTTAAGTATTT-TATT
1 TTTAAGTATTTATATT
121764 TTTAA-TATTTATATT
1 TTTAAGTATTTATATT
121779 TT
1 TT
121781 AGTCACACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
TTTAAGTATTTATATT
Found at i:126280 original size:92 final size:91
Alignment explanation
Indices: 126124--126303 Score: 265
Period size: 92 Copynumber: 2.0 Consensus size: 91
126114 TCAAGCTAAG
*
126124 GTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCTTCATCGGATGAGTTCTTCTCATTATGAA
1 GTTGAACAAGTTATCCTCATTATGAACTTCTTCTCCTTCATCGGATGAGTTCTTCTCATTATGAA
*
126189 CTCTCCA-TTGAAATGTTGATCCAAA
66 CTCTCCATTTAAAATGTTGATCCAAA
* * * *
126214 GTTGAACAAGTTCTCCCTCATTGTGAACTTCTTCTTCC-TCTGTTGGATGAGTTCTTCTCATTAT
1 GTTGAACAAGTTAT-CCTCATTATGAACTTCTTC-TCCTTC-ATCGGATGAGTTCTTCTCATTAT
126278 GAACTCTCCATTTAAAATGTTGATCC
63 GAACTCTCCATTTAAAATGTTGATCC
126304 CTCGAGAGAG
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
90 13 0.16
91 19 0.24
92 34 0.43
93 14 0.17
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.40
Consensus pattern (91 bp):
GTTGAACAAGTTATCCTCATTATGAACTTCTTCTCCTTCATCGGATGAGTTCTTCTCATTATGAA
CTCTCCATTTAAAATGTTGATCCAAA
Found at i:126552 original size:105 final size:105
Alignment explanation
Indices: 126364--126647 Score: 442
Period size: 105 Copynumber: 2.7 Consensus size: 105
126354 TAATAAGCTA
* * *
126364 TTCTCTTTATGAACTTCTTCTCCCTCTATCGGATGAGTTTTTCTCATTATGAACTCTCCATTCGA
1 TTCTCATTATGAACTTCTTCTCCCTC-ATCGGATGAGTTCTTCTCATTATGAACTCTCCATTTGA
* *
126429 AATGTTGATCCCTTGAGTGAGGTATTGGGTTGAAGAAGTTC
65 AATGTTGATCCCTCGAGTGAGGTATTGGGTTGAACAAGTTC
* * * *
126470 TTCTCATTATGAACTTTTTCTCCCTCATCGAATAAGTTCTTCTCATTATGAACTCTCCGTTTGAA
1 TTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCATTTGAA
*
126535 ATGTTGATCCCTCGAGTGAGGTGTTGGGTTGAACAAGTTC
66 ATGTTGATCCCTCGAGTGAGGTATTGGGTTGAACAAGTTC
* *
126575 TTCTCATTATGAACTTCTTCTCCCTCATTGGACGAGTTCTTCTCATTATGAACTCTCCATTTGAA
1 TTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCATTTGAA
*
126640 TTGTTGAT
66 ATGTTGAT
126648 TGGTTTATCT
Statistics
Matches: 161, Mismatches: 17, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
105 137 0.85
106 24 0.15
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.41
Consensus pattern (105 bp):
TTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCATTTGAA
ATGTTGATCCCTCGAGTGAGGTATTGGGTTGAACAAGTTC
Found at i:128729 original size:10 final size:10
Alignment explanation
Indices: 128714--128791 Score: 56
Period size: 10 Copynumber: 7.6 Consensus size: 10
128704 TCAAAAAAAA
128714 TCTTTTCTTT
1 TCTTTTCTTT
128724 TCTTTTCTTT
1 TCTTTTCTTT
*
128734 T-TTTCTCTCT
1 TCTTT-TCTTT
128744 T-TTTTCTTT
1 TCTTTTCTTT
128753 TCTTCCCTT-TTT
1 TCTT---TTCTTT
128765 TCTTTT-TTT
1 TCTTTTCTTT
*
128774 GTGTTTTCTTCT
1 -TCTTTTCTT-T
128786 TCTTTT
1 TCTTTT
128792 TCCTCTTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
9 13 0.23
10 26 0.46
11 7 0.12
12 8 0.14
13 2 0.04
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.77
Consensus pattern (10 bp):
TCTTTTCTTT
Found at i:128739 original size:8 final size:8
Alignment explanation
Indices: 128721--128827 Score: 72
Period size: 8 Copynumber: 12.5 Consensus size: 8
128711 AAATCTTTTC
128721 TTTTCTTT
1 TTTTCTTT
*
128729 TCTT-TTT
1 TTTTCTTT
*
128736 TTCTCTCTT
1 TTTTCT-TT
128745 TTTTCTTT
1 TTTTCTTT
* *
128753 TCTTCCCTT
1 T-TTTCTTT
128762 TTTTCTTT
1 TTTTCTTT
*
128770 TTTTGTGTT
1 TTTTCT-TT
128779 TTCTTCTTCT
1 TT-TTCTT-T
128789 TTTTCCTCTT
1 TTTT-CT-TT
128799 TTTTCTTT
1 TTTTCTTT
*
128807 TTATCTTT
1 TTTTCTTT
*
128815 TTATCTTAT
1 TTTTCTT-T
128824 TTTT
1 TTTT
128828 TTCTATTTTT
Statistics
Matches: 78, Mismatches: 12, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
7 5 0.06
8 33 0.42
9 26 0.33
10 13 0.17
11 1 0.01
ACGTcount: A:0.03, C:0.19, G:0.02, T:0.77
Consensus pattern (8 bp):
TTTTCTTT
Found at i:128744 original size:17 final size:17
Alignment explanation
Indices: 128716--128858 Score: 94
Period size: 17 Copynumber: 8.1 Consensus size: 17
128706 AAAAAAAATC
*
128716 TTTTCTTTTCTTTTCTTTT
1 TTTTCTCTT-TTTTC-TTT
128735 TTTCTCTCTTTTTTCTTT
1 TTT-TCTCTTTTTTCTTT
* *
128753 TCTTCCCTTTTTTCTTT
1 TTTTCTCTTTTTTCTTT
* *
128770 TTTTGTGTTTTCTTCTTCT
1 TTTTCTCTTTT-TTCTT-T
128789 TTTTCCTCTTTTTTCTTT
1 TTTT-CTCTTTTTTCTTT
* *
128807 TTATCT-TTTTATCTTAT
1 TTTTCTCTTTTTTCTT-T
* *
128824 TTTTTTC-TATTT-TTT
1 TTTTCTCTTTTTTCTTT
* *
128839 TTCTCTCATTTTTTATTT
1 TTTTCTC-TTTTTTCTTT
128857 TT
1 TT
128859 ATTTTTATTT
Statistics
Matches: 97, Mismatches: 18, Indels: 19
0.72 0.13 0.14
Matches are distributed among these distances:
15 6 0.06
16 10 0.10
17 34 0.35
18 19 0.20
19 18 0.19
20 10 0.10
ACGTcount: A:0.04, C:0.17, G:0.01, T:0.77
Consensus pattern (17 bp):
TTTTCTCTTTTTTCTTT
Found at i:128750 original size:19 final size:18
Alignment explanation
Indices: 128726--128808 Score: 98
Period size: 19 Copynumber: 4.6 Consensus size: 18
128716 TTTTCTTTTC
128726 TTTTCTTTTTTTCTCTCTT
1 TTTTCTTTTTTTC-CTCTT
*
128745 TTTTCTTTTCTTCC-CTT
1 TTTTCTTTTTTTCCTCTT
* *
128762 TTTTCTTTTTTT-GTGTT
1 TTTTCTTTTTTTCCTCTT
128779 TTCTTCTTCTTTTTCCTCTT
1 TT-TTCTT-TTTTTCCTCTT
128799 TTTTCTTTTT
1 TTTTCTTTTT
128809 ATCTTTTTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
17 18 0.33
18 9 0.17
19 22 0.41
20 5 0.09
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.77
Consensus pattern (18 bp):
TTTTCTTTTTTTCCTCTT
Found at i:128763 original size:27 final size:26
Alignment explanation
Indices: 128721--128807 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 26
128711 AAATCTTTTC
128721 TTTTCTTTTCTT--TTTTTCTCTCTT
1 TTTTCTTTTCTTCCTTTTTCTCTCTT
*
128745 TTTTCTTTTCTTCCCTTTTT-TCTTTT
1 TTTTCTTTTCTT-CCTTTTTCTCTCTT
*
128771 TTTGTGTTTTCTTCTTCTTTTTC-CTCTT
1 TTT-TCTTTTCTTC--CTTTTTCTCTCTT
128799 TTTTCTTTT
1 TTTTCTTTT
128808 TATCTTTTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
24 12 0.23
26 9 0.17
27 18 0.35
28 13 0.25
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (26 bp):
TTTTCTTTTCTTCCTTTTTCTCTCTT
Found at i:128773 original size:36 final size:37
Alignment explanation
Indices: 128726--128816 Score: 107
Period size: 36 Copynumber: 2.5 Consensus size: 37
128716 TTTTCTTTTC
*
128726 TTTTCTTTTTTTCTCTCTTTTTTCTT-TTCTTCC-CTT
1 TTTTCTTTTTTTCTCT-TTTCTTCTTCTTCTTCCTCTT
* * *
128762 TTTTCTTTTTTTGTGTTTTCTTCTTCTTTTTCCTCTT
1 TTTTCTTTTTTTCTCTTTTCTTCTTCTTCTTCCTCTT
*
128799 TTTTCTTTTTATCT-TTTT
1 TTTTCTTTTTTTCTCTTTT
128817 ATCTTATTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
35 8 0.17
36 24 0.51
37 15 0.32
ACGTcount: A:0.01, C:0.20, G:0.02, T:0.77
Consensus pattern (37 bp):
TTTTCTTTTTTTCTCTTTTCTTCTTCTTCTTCCTCTT
Found at i:128821 original size:23 final size:24
Alignment explanation
Indices: 128777--128852 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
128767 TTTTTTTGTG
* *
128777 TTTTCTTCT-TCTTTTTCCTCTT-
1 TTTTTTTCTATCTTTTTCATCTTA
*
128799 TTTTCTTTTTATCTTTTT-ATCTTA
1 TTTT-TTTCTATCTTTTTCATCTTA
* *
128823 TTTTTTTCTATTTTTTTTC-TCTCA
1 TTTTTTTCTA-TCTTTTTCATCTTA
128847 TTTTTT
1 TTTTTT
128853 ATTTTTATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 4 0.09
23 12 0.28
24 27 0.63
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTTTTCTATCTTTTTCATCTTA
Found at i:128827 original size:35 final size:32
Alignment explanation
Indices: 128741--128827 Score: 84
Period size: 35 Copynumber: 2.5 Consensus size: 32
128731 TTTTTTTCTC
* *
128741 TCTTTTTTCTTTTCTTCCCTTTTTTCTTTTTTTG
1 TCTTTTTTCTTTTTTTCCCTTTTTTC--TTTTTA
*
128775 TGTTTTCTTCTTCTTTTTCCTCTTTTTTCTTTTTA
1 TCTTTT-TTCTT-TTTTTCC-CTTTTTTCTTTTTA
128810 TCTTTTTATCTTATTTTT
1 TCTTTTT-TCTT-TTTTT
128828 TTCTATTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
34 6 0.14
35 24 0.55
36 6 0.14
37 8 0.18
ACGTcount: A:0.03, C:0.18, G:0.02, T:0.76
Consensus pattern (32 bp):
TCTTTTTTCTTTTTTTCCCTTTTTTCTTTTTA
Found at i:128829 original size:37 final size:36
Alignment explanation
Indices: 128726--128838 Score: 95
Period size: 36 Copynumber: 3.1 Consensus size: 36
128716 TTTTCTTTTC
* * * * *
128726 TTTTCTTTTTTTCTCTCTTTTTTCTTTTCTTCC-CTT
1 TTTTCTTTTTATCTGT-TTTCTTATTTTTTTCCTCTT
* * *
128762 TTTTCTTTTTTTGTGTTTTCTTCTTCTTTTTCCTCTT
1 TTTTCTTTTTATCTGTTTTCTTATT-TTTTTCCTCTT
* *
128799 TTTTCTTTTTATCTTTTTATCTTATTTTTTT-CTATT
1 TTTTCTTTTTATCTGTTT-TCTTATTTTTTTCCTCTT
128835 TTTT
1 TTTT
128839 TTCTCTCATT
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
35 8 0.12
36 28 0.43
37 23 0.35
38 6 0.09
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (36 bp):
TTTTCTTTTTATCTGTTTTCTTATTTTTTTCCTCTT
Found at i:128839 original size:13 final size:13
Alignment explanation
Indices: 128797--128872 Score: 59
Period size: 13 Copynumber: 5.6 Consensus size: 13
128787 CTTTTTCCTC
128797 TTTTTTCT-TTTT
1 TTTTTTCTATTTT
*
128809 ATCTTTT-TATCTTAT
1 -TTTTTTCTAT-TT-T
128824 TTTTTTCTATTTT
1 TTTTTTCTATTTT
*
128837 TTTTCTCTCATTTT
1 TTTTTTCT-ATTTT
128851 TTATTTT-TATTTT
1 TT-TTTTCTATTTT
128864 TATTTTTCT
1 T-TTTTTCT
128873 CATCTTTAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
12 1 0.02
13 24 0.47
14 19 0.37
15 7 0.14
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTTCTATTTT
Found at i:132259 original size:2 final size:2
Alignment explanation
Indices: 132252--132281 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
132242 TTTATGATTT
132252 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
132282 AGTTTAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:140865 original size:26 final size:26
Alignment explanation
Indices: 140819--140882 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
140809 TGGTTGTTTT
*
140819 TTTGTC-TCTGTTCTATATGTTCCTC
1 TTTGTCTTCTATTCTATATGTTCCTC
* *
140844 TTTGTCTTCTATTCTCTCTGTTCCTC
1 TTTGTCTTCTATTCTATATGTTCCTC
* *
140870 TCTGTCTTATATT
1 TTTGTCTTCTATT
140883 TTCTTCTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
25 6 0.18
26 27 0.82
ACGTcount: A:0.08, C:0.25, G:0.09, T:0.58
Consensus pattern (26 bp):
TTTGTCTTCTATTCTATATGTTCCTC
Found at i:140911 original size:24 final size:26
Alignment explanation
Indices: 140836--140911 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 26
140826 CTGTTCTATA
*
140836 TGTTCCTCTTTGTCTTCTATTCTC-TC
1 TGTT-CTCTCTGTCTTCTATTCTCTTC
* *
140862 TGTTCCTCTCTGTCTTATATTTTCTTC
1 TGTT-CTCTCTGTCTTCTATTCTCTTC
*
140889 T-TT-TCTCTGTCTTCTGTTCTCTT
1 TGTTCTCTCTGTCTTCTATTCTCTT
140912 GCATGTGGCG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
24 17 0.40
26 23 0.53
27 3 0.07
ACGTcount: A:0.04, C:0.28, G:0.08, T:0.61
Consensus pattern (26 bp):
TGTTCTCTCTGTCTTCTATTCTCTTC
Found at i:141487 original size:3 final size:3
Alignment explanation
Indices: 141422--141469 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
141412 AATTATTTTT
141422 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
141470 GGATAAAAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Done.