Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013251.1 Kokia drynarioides strain JFW-HI SEQ_128271, 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: 539417
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 114 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:1998 original size:80 final size:80
Alignment explanation
Indices: 1859--2071 Score: 284
Period size: 80 Copynumber: 2.7 Consensus size: 80
1849 CAATTTAACT
** * * * * *
1859 AACTAGAGCTGGGCTCACTTTTACGGTTTATCCACTAGGTACTAGGTGTTAGGATTTGACGGATT
1 AACTAGAGCTGGGCTCACTTTTGTGGTTTATCCGCTAGGCACTAGGTGCTAGGACTTGACGGATA
1924 TTTGTTGGTTAAACC
66 TTTGTTGGTTAAACC
* *
1939 AACTAGAGCTGGGCTCACTTTTGTGGTTTATCCGCTAGGCAGTAGGTGCGAGGACTTGACGGATA
1 AACTAGAGCTGGGCTCACTTTTGTGGTTTATCCGCTAGGCACTAGGTGCTAGGACTTGACGGATA
*
2004 TTTGTTGGTTAATCC
66 TTTGTTGGTTAAACC
* * * * *
2019 AACTAGTGTTGGGCTCAC-TTCGTGGTTTATCTGCTAGGCATTAGGTGCTAGGA
1 AACTAGAGCTGGGCTCACTTTTGTGGTTTATCCGCTAGGCACTAGGTGCTAGGA
2072 TCATTGGTTT
Statistics
Matches: 117, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
79 31 0.26
80 86 0.74
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (80 bp):
AACTAGAGCTGGGCTCACTTTTGTGGTTTATCCGCTAGGCACTAGGTGCTAGGACTTGACGGATA
TTTGTTGGTTAAACC
Found at i:6833 original size:19 final size:19
Alignment explanation
Indices: 6809--6846 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6799 ACATCCCTTT
*
6809 TTTTTAAGTAGTTAATTAA
1 TTTTTAAGTAATTAATTAA
*
6828 TTTTTAATTAATTAATTAA
1 TTTTTAAGTAATTAATTAA
6847 GTTAGTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (19 bp):
TTTTTAAGTAATTAATTAA
Found at i:12143 original size:7 final size:7
Alignment explanation
Indices: 12131--12168 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
12121 CCATTCCTAA
12131 TCATCCC
1 TCATCCC
12138 TCATCCC
1 TCATCCC
12145 TCATCCC
1 TCATCCC
12152 TCATCCC
1 TCATCCC
12159 TCATCCC
1 TCATCCC
12166 TCA
1 TCA
12169 AACATTTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.16, C:0.55, G:0.00, T:0.29
Consensus pattern (7 bp):
TCATCCC
Found at i:19080 original size:16 final size:16
Alignment explanation
Indices: 19059--19090 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19049 AGATTAGCTA
19059 ACCTACTTCGTGAGTG
1 ACCTACTTCGTGAGTG
*
19075 ACCTACTTTGTGAGTG
1 ACCTACTTCGTGAGTG
19091 CACAAAAGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.34
Consensus pattern (16 bp):
ACCTACTTCGTGAGTG
Found at i:19994 original size:12 final size:12
Alignment explanation
Indices: 19977--20010 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
19967 AAACTTTGCC
*
19977 TTTATTTTCTAT
1 TTTATTTTATAT
*
19989 TTTATTTTATCT
1 TTTATTTTATAT
20001 TTTATTTTAT
1 TTTATTTTAT
20011 GCTTTCAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTATTTTATAT
Found at i:20006 original size:17 final size:17
Alignment explanation
Indices: 19977--20010 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
19967 AAACTTTGCC
19977 TTTATTTTCTATTTTAT
1 TTTATTTTCTATTTTAT
19994 TTTATCTTT-TATTTTAT
1 TTTAT-TTTCTATTTTAT
20011 GCTTTCAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTTCTATTTTAT
Found at i:21588 original size:80 final size:80
Alignment explanation
Indices: 21454--21608 Score: 222
Period size: 80 Copynumber: 1.9 Consensus size: 80
21444 ACTTGTGTCC
* *
21454 AAATCCGTCAATTCATGGCACCCAATACCTAGTAGATAAACCACGATAAATGAGCCCAACTCTAG
1 AAATCCGTCAATTCATAGCACCCAATACCTAGCAGATAAACCACGATAAATGAGCCCAACTCTAG
21519 TT-GAATTAACTAACG
66 TTAG-ATTAACTAACG
* * * * * *
21534 AAATCTGTCAATTCATAGCACCCAGTGCCTAGCGGATAAACCACGATAAGTGAGCCCAGCTCTAG
1 AAATCCGTCAATTCATAGCACCCAATACCTAGCAGATAAACCACGATAAATGAGCCCAACTCTAG
21599 TTAGATTAAC
66 TTAGATTAAC
21609 CAATAGTTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
80 65 0.98
81 1 0.02
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (80 bp):
AAATCCGTCAATTCATAGCACCCAATACCTAGCAGATAAACCACGATAAATGAGCCCAACTCTAG
TTAGATTAACTAACG
Found at i:22341 original size:18 final size:20
Alignment explanation
Indices: 22320--22357 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
22310 CTACAATTGG
22320 ATATAA-AATTAAT-TAATA
1 ATATAACAATTAATATAATA
22338 ATATAACTAATTAATATAAT
1 ATATAAC-AATTAATATAAT
22358 TAAAGTTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
ATATAACAATTAATATAATA
Found at i:24550 original size:12 final size:13
Alignment explanation
Indices: 24533--24561 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
24523 GGTGTTCTTC
24533 TTTTTTCTTTT-T
1 TTTTTTCTTTTCT
24545 TTTTTTCTTTTCT
1 TTTTTTCTTTTCT
24558 TTTT
1 TTTT
24562 GGTAGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTTTTCTTTTCT
Found at i:35343 original size:37 final size:37
Alignment explanation
Indices: 35282--35387 Score: 151
Period size: 37 Copynumber: 2.9 Consensus size: 37
35272 CTCAAGCCAT
* *
35282 ACATGGCATTACGCTATAATCGAGACGTAAGCAAATC
1 ACATAGCATTACGCTCTAATCGAGACGTAAGCAAATC
* *
35319 ACATAGCATTACGCTCTAACCGAGACGTAAGCAAATT
1 ACATAGCATTACGCTCTAATCGAGACGTAAGCAAATC
*
35356 AC-TAAGCATTATGCTCTAATCGAGACGTAAGC
1 ACAT-AGCATTACGCTCTAATCGAGACGTAAGC
35388 CTTCCATCGA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
36 1 0.02
37 61 0.98
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.23
Consensus pattern (37 bp):
ACATAGCATTACGCTCTAATCGAGACGTAAGCAAATC
Found at i:43186 original size:90 final size:90
Alignment explanation
Indices: 43091--43271 Score: 301
Period size: 90 Copynumber: 2.0 Consensus size: 90
43081 CATTGACTAC
* *
43091 TGCTAGATTTAATTGAATCTAAAGCATCCATGGATACTTTAGAATTCGTTAATCCAACTCAAAAA
1 TGCTAGATTTAATTGAATCTAAAGCATCCATGAATACTTTAGAACTCGTTAATCCAACTCAAAAA
*
43156 AAAAACTTTAAAAACTCT-GTTTTTT
66 AAAAACTTCAAAAACT-TAGTTTTTT
*
43181 TGCTAGATTTAATTGAATCTAAAGCGTCCATGAATACTTTAGAACTCGTTAATCCAACTCAAAAA
1 TGCTAGATTTAATTGAATCTAAAGCATCCATGAATACTTTAGAACTCGTTAATCCAACTCAAAAA
*
43246 AAAAACTTCAAGAACTTAGTTTTTT
66 AAAAACTTCAAAAACTTAGTTTTTT
43271 T
1 T
43272 TTTTTAATAA
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
89 1 0.01
90 84 0.99
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (90 bp):
TGCTAGATTTAATTGAATCTAAAGCATCCATGAATACTTTAGAACTCGTTAATCCAACTCAAAAA
AAAAACTTCAAAAACTTAGTTTTTT
Found at i:53771 original size:29 final size:29
Alignment explanation
Indices: 53682--53756 Score: 150
Period size: 29 Copynumber: 2.6 Consensus size: 29
53672 GGTATTTATC
53682 ATGTTATATTTATCAAGCATTATGTGCCG
1 ATGTTATATTTATCAAGCATTATGTGCCG
53711 ATGTTATATTTATCAAGCATTATGTGCCG
1 ATGTTATATTTATCAAGCATTATGTGCCG
53740 ATGTTATATTTATCAAG
1 ATGTTATATTTATCAAG
53757 TACTATGTAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (29 bp):
ATGTTATATTTATCAAGCATTATGTGCCG
Found at i:59801 original size:12 final size:12
Alignment explanation
Indices: 59765--59801 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
59755 TTGTTTGTTA
*
59765 TTATGATGAATG
1 TTATTATGAATG
*
59777 CTATTATGAATG
1 TTATTATGAATG
59789 TTATTATGAATG
1 TTATTATGAATG
59801 T
1 T
59802 AATTGAAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.46
Consensus pattern (12 bp):
TTATTATGAATG
Found at i:61929 original size:48 final size:48
Alignment explanation
Indices: 61875--61974 Score: 164
Period size: 48 Copynumber: 2.1 Consensus size: 48
61865 GTCAAAAAGG
** *
61875 CCTAGAAAGTACTTGTAATTGGATCCAATGTGAGAGAGGCCCAAAACC
1 CCTAGAAAGTACTCATAATTGGATCCAATGTGAGAGAGACCCAAAACC
*
61923 CCTAGAAAGTACTCATAATTGGATCCAATGTTAGAGAGACCCAAAACC
1 CCTAGAAAGTACTCATAATTGGATCCAATGTGAGAGAGACCCAAAACC
61971 CCTA
1 CCTA
61975 ATATTACATG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (48 bp):
CCTAGAAAGTACTCATAATTGGATCCAATGTGAGAGAGACCCAAAACC
Found at i:66548 original size:41 final size:41
Alignment explanation
Indices: 66484--66701 Score: 249
Period size: 41 Copynumber: 5.2 Consensus size: 41
66474 TCGAGTCATA
* *
66484 AGTCTTCCTTTAATCATATTCTCATTCTCATCTTGAGACATG
1 AGTCTTCC-TTAATCAAAATCTCATTCTCATCTTGAGACATG
* *
66526 AGTATTCCTTAATCAAAATCTCATTCTCATTTTGAGACATG
1 AGTCTTCCTTAATCAAAATCTCATTCTCATCTTGAGACATG
* * **
66567 AGTCTTCCTTATTCAGAATCTCATTCTCATCACGAGACATG
1 AGTCTTCCTTAATCAAAATCTCATTCTCATCTTGAGACATG
66608 AGTCTTCCTTAATCAAAATCTCATTCTCAT-TTCGAGACATG
1 AGTCTTCCTTAATCAAAATCTCATTCTCATCTT-GAGACATG
* ** * * ** *
66649 AGTCTTCCATTTATACAATTTCTCATGCTCAACCCGAGACTTG
1 AGTCTTCC-TTAAT-CAAAATCTCATTCTCATCTTGAGACATG
66692 AGTCTTCCTT
1 AGTCTTCCTT
66702 TTTATACAAA
Statistics
Matches: 150, Mismatches: 22, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
41 109 0.73
42 13 0.09
43 28 0.19
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.38
Consensus pattern (41 bp):
AGTCTTCCTTAATCAAAATCTCATTCTCATCTTGAGACATG
Found at i:66622 original size:82 final size:82
Alignment explanation
Indices: 66472--66701 Score: 300
Period size: 82 Copynumber: 2.8 Consensus size: 82
66462 CCTTATGCTC
* * * ** *
66472 TTTCGAGTCATAAGTCTTCCTTTAATCATATTCTCATTCTCATCTTGAGACATGAGTATTCCTTA
1 TTTCGAGACATGAGTCTTCCTTTATTCA-ATTCTCATTCTCATCACGAGACATGAGTCTTCCTTA
66537 ATCAAAATCTCATTCTCA
65 ATCAAAATCTCATTCTCA
* *
66555 TTTTGAGACATGAGTCTTCC-TTATTCAGAATCTCATTCTCATCACGAGACATGAGTCTTCCTTA
1 TTTCGAGACATGAGTCTTCCTTTATTCA-ATTCTCATTCTCATCACGAGACATGAGTCTTCCTTA
66619 ATCAAAATCTCATTCTCA
65 ATCAAAATCTCATTCTCA
* * * * *
66637 TTTCGAGACATGAGTCTTCCATTTATACAATTTCTCATGCTCAACCCGAGACTTGAGTCTTCCTT
1 TTTCGAGACATGAGTCTTCC-TTTATTCAA-TTCTCATTCTCATCACGAGACATGAGTCTTCCTT
66702 TTTATACAAA
Statistics
Matches: 128, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
82 75 0.59
83 18 0.14
84 35 0.27
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (82 bp):
TTTCGAGACATGAGTCTTCCTTTATTCAATTCTCATTCTCATCACGAGACATGAGTCTTCCTTAA
TCAAAATCTCATTCTCA
Found at i:70187 original size:47 final size:47
Alignment explanation
Indices: 70118--70209 Score: 184
Period size: 47 Copynumber: 2.0 Consensus size: 47
70108 GTCTTAGAGT
70118 AGATCAATATATCATCAATAAACACAACCATAAATCTTTCCAACTGA
1 AGATCAATATATCATCAATAAACACAACCATAAATCTTTCCAACTGA
70165 AGATCAATATATCATCAATAAACACAACCATAAATCTTTCCAACT
1 AGATCAATATATCATCAATAAACACAACCATAAATCTTTCCAACT
70210 AAGGCTGAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.47, C:0.24, G:0.03, T:0.26
Consensus pattern (47 bp):
AGATCAATATATCATCAATAAACACAACCATAAATCTTTCCAACTGA
Found at i:74232 original size:12 final size:13
Alignment explanation
Indices: 74209--74233 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
74199 CTTATTGGCT
74209 AATTTAAAAAAAC
1 AATTTAAAAAAAC
74222 AATTTAAAAAAA
1 AATTTAAAAAAA
74234 GAAGCGGACC
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:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
AATTTAAAAAAAC
Found at i:74893 original size:16 final size:17
Alignment explanation
Indices: 74849--74894 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
74839 TTTTTTAGAA
74849 ATTTGTTTT-CTTAGTC
1 ATTTGTTTTCCTTAGTC
* *
74865 ATTTTTATTTCCTTA-TT
1 ATTTGT-TTTCCTTAGTC
74882 ATTTGTTTTCCTT
1 ATTTGTTTTCCTT
74895 TTTAAGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 12 0.48
17 9 0.36
18 4 0.16
ACGTcount: A:0.13, C:0.13, G:0.07, T:0.67
Consensus pattern (17 bp):
ATTTGTTTTCCTTAGTC
Found at i:75320 original size:28 final size:30
Alignment explanation
Indices: 75288--75348 Score: 90
Period size: 28 Copynumber: 2.1 Consensus size: 30
75278 TCTGCCTCTT
75288 TGTTTTCAATTTTTTT-TGTG-AATGCTCG
1 TGTTTTCAATTTTTTTGTGTGTAATGCTCG
* *
75316 TGTTTTCTATTTTTTTGTGTGTATTGCTCG
1 TGTTTTCAATTTTTTTGTGTGTAATGCTCG
75346 TGT
1 TGT
75349 CCGCCATTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 15 0.52
29 4 0.14
30 10 0.34
ACGTcount: A:0.10, C:0.10, G:0.20, T:0.61
Consensus pattern (30 bp):
TGTTTTCAATTTTTTTGTGTGTAATGCTCG
Found at i:76069 original size:38 final size:38
Alignment explanation
Indices: 75969--76609 Score: 170
Period size: 38 Copynumber: 16.8 Consensus size: 38
75959 TAGGTGTTTT
* * * *
75969 AATCTGCCCCATGATCGGTGTAAGAGATTGGTGTGTCTTC
1 AATCTGTCCTATGATCGGGGTAAAAGATTGG-GTG-CTTC
* ***
76009 AATCTG-CCTTCTGATTAAGGTAAAAGATTGGGTGCTTC
1 AATCTGTCC-TATGATCGGGGTAAAAGATTGGGTGCTTC
* * *
76047 AATTTGTCCTATGATCGGGGTAAGAGATTGCGTGTCTTC
1 AATCTGTCCTATGATCGGGGTAAAAGATTGGGTG-CTTC
* * * ** *
76086 AATCTGCTCC-ATGATTGGAGTAAGAGATTGCCTATCTTC
1 AATCTG-TCCTATGATCGGGGTAAAAGATTGGGT-GCTTC
* * ** * *
76125 AATCTGCCCTCTGAT-----T-AGGGATTGGATTCTTC
1 AATCTGTCCTATGATCGGGGTAAAAGATTGGGTGCTTC
* **
76157 AATCTACTCC-ATGATC-GGGTAAAAGATTGTCTGTCTTC
1 AATCT-GTCCTATGATCGGGGTAAAAGATTGGGTG-CTTC
* ** * *
76195 AATCTGTCCTCTGATTAGGGTAAAAGATTGGATGCTTT
1 AATCTGTCCTATGATCGGGGTAAAAGATTGGGTGCTTC
* * *
76233 AATCT-ACCTCATGATCGAGGTAAATGATT-GGTGTCTTC
1 AATCTGTCCT-ATGATCGGGGTAAAAGATTGGGTG-CTTC
* * * * *
76271 AATCTGCTCC-ATGATTGGAGTAAGAGATTGCCCGT-CTTT
1 AATCTG-TCCTATGATCGGGGTAAAAGATTG--GGTGCTTC
* * * ** * *
76310 AATTTGCCCTCTGATTAGGGTAAAAGATTAGATGCTTC
1 AATCTGTCCTATGATCGGGGTAAAAGATTGGGTGCTTC
* * *
76348 AATCT-ACCTCATGATCGAGGTAAAAGATTAGTGTGTCTTC
1 AATCTGTCCT-ATGATCGGGGTAAAAGATT-GGGTG-CTTC
* *** * ** *
76388 AATCT-ACCT-TCGGATTAAGGTAAAATATTGAATACTTC
1 AATCTGTCCTAT--GATCGGGGTAAAAGATTGGGTGCTTC
* * * * ** *
76426 AATCTATCCCATGATCGAGGTAAGAGATTATGTATCTTC
1 AATCTGTCCTATGATCGGGGTAAAAGATTGGGT-GCTTC
* ** * *
76465 AATCTG-CCTCTGATTAGGGTAAAAGATTGTGTATCTTC
1 AATCTGTCCTATGATCGGGGTAAAAGATTGGGT-GCTTC
* * * * **** * ** *
76503 AATCAGGCTTCTGATTAATGTAAGAGATTGAATTCTTC
1 AATCTGTCCTATGATCGGGGTAAAAGATTGGGTGCTTC
*
76541 AATCTG-CCTCATGATCGGGGTAAAAGATTGGATGCTTC
1 AATCTGTCCT-ATGATCGGGGTAAAAGATTGGGTGCTTC
* * * *
76579 AATTTACTCC-ATGATCGGAGTAAGAGATTGG
1 AATCT-GTCCTATGATCGGGGTAAAAGATTGG
76610 TGGGTAGCTT
Statistics
Matches: 447, Mismatches: 118, Indels: 74
0.70 0.18 0.12
Matches are distributed among these distances:
32 14 0.03
33 10 0.02
34 1 0.00
36 1 0.00
37 22 0.05
38 218 0.49
39 123 0.28
40 56 0.13
41 2 0.00
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (38 bp):
AATCTGTCCTATGATCGGGGTAAAAGATTGGGTGCTTC
Found at i:76169 original size:71 final size:70
Alignment explanation
Indices: 76081--76214 Score: 205
Period size: 70 Copynumber: 1.9 Consensus size: 70
76071 AGATTGCGTG
* * *
76081 TCTTCAATCTGCTCCATGATTGGAGTAAGAGATTGCCTATCTTCAATCTGCCCTCTGATTAGGGA
1 TCTTCAATCTACTCCATGATCGG-GTAAAAGATTGCCTATCTTCAATCTGCCCTCTGATTAGGGA
76146 TTGGAT
65 TTGGAT
* * *
76152 TCTTCAATCTACTCCATGATCGGGTAAAAGATTGTCTGTCTTCAATCTGTCCTCTGATTAGGG
1 TCTTCAATCTACTCCATGATCGGGTAAAAGATTGCCTATCTTCAATCTGCCCTCTGATTAGGG
76215 TAAAAGATTG
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
70 36 0.63
71 21 0.37
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (70 bp):
TCTTCAATCTACTCCATGATCGGGTAAAAGATTGCCTATCTTCAATCTGCCCTCTGATTAGGGAT
TGGAT
Found at i:76286 original size:76 final size:76
Alignment explanation
Indices: 76027--76300 Score: 221
Period size: 76 Copynumber: 3.7 Consensus size: 76
76017 TTCTGATTAA
** * * * *
76027 GGTAAAAGATTGGGTG-CTTCAATTTGTCCTATGATCGGGGTAAGAGATTGCG-TGTCTTCAATC
1 GGTAAAAGATTGTCTGTCTTCAATCTGTCCTATGATTGGAGTAAAAGATTG-GATG-CTTCAATC
* *
76090 TGCTCCATGATTG
64 TACTCCATGATCG
* * * * * * *
76103 GAGTAAGAGATTGCCTATCTTCAATCTGCCCTCTGATT--AG----GGATTGGATTCTTCAATCT
1 G-GTAAAAGATTGTCTGTCTTCAATCTGTCCTATGATTGGAGTAAAAGATTGGATGCTTCAATCT
76162 ACTCCATGATCG
65 ACTCCATGATCG
* *
76174 GGTAAAAGATTGTCTGTCTTCAATCTGTCCTCTGATTAGG-GTAAAAGATTGGATGCTTTAATCT
1 GGTAAAAGATTGTCTGTCTTCAATCTGTCCTATGATT-GGAGTAAAAGATTGGATGCTTCAATCT
76238 AC-CTCATGATCG
65 ACTC-CATGATCG
* * *
76250 AGGTAAATGATTG-GTGTCTTCAATCTGCTCC-ATGATTGGAGTAAGAGATTG
1 -GGTAAAAGATTGTCTGTCTTCAATCTG-TCCTATGATTGGAGTAAAAGATTG
76301 CCCGTCTTTA
Statistics
Matches: 160, Mismatches: 24, Indels: 28
0.75 0.11 0.13
Matches are distributed among these distances:
70 32 0.20
71 21 0.13
72 7 0.04
75 3 0.02
76 56 0.35
77 25 0.16
78 16 0.10
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (76 bp):
GGTAAAAGATTGTCTGTCTTCAATCTGTCCTATGATTGGAGTAAAAGATTGGATGCTTCAATCTA
CTCCATGATCG
Found at i:76345 original size:115 final size:114
Alignment explanation
Indices: 76144--76394 Score: 360
Period size: 115 Copynumber: 2.2 Consensus size: 114
76134 TCTGATTAGG
* * *
76144 GATTGGAT-TCTTCAATCTACTCCATGATCGGGTAAAAGATTGTCTGTCTTCAATCTGTCCTCTG
1 GATTGG-TGTCTTCAATCTACTCCATGATCGGGTAAAAGATTGCCCGTCTTCAATCTGCCCTCTG
* * *
76208 ATTAGGGTAAAAGATTGGATGCTTTAATCTACCTCATGATCGAGGTAAAT
65 ATTAGGGTAAAAGATTAGATGCTTCAATCTACCTCATGATCGAGGTAAAA
* * * * *
76258 GATTGGTGTCTTCAATCTGCTCCATGATTGGAGTAAGAGATTGCCCGTCTTTAATTTGCCCTCTG
1 GATTGGTGTCTTCAATCTACTCCATGATCGG-GTAAAAGATTGCCCGTCTTCAATCTGCCCTCTG
76323 ATTAGGGTAAAAGATTAGATGCTTCAATCTACCTCATGATCGAGGTAAAA
65 ATTAGGGTAAAAGATTAGATGCTTCAATCTACCTCATGATCGAGGTAAAA
76373 GATTAGTGTGTCTTCAATCTAC
1 GATT-G-GTGTCTTCAATCTAC
76395 CTTCGGATTA
Statistics
Matches: 121, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
113 1 0.01
114 27 0.22
115 78 0.64
116 1 0.01
117 14 0.12
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.35
Consensus pattern (114 bp):
GATTGGTGTCTTCAATCTACTCCATGATCGGGTAAAAGATTGCCCGTCTTCAATCTGCCCTCTGA
TTAGGGTAAAAGATTAGATGCTTCAATCTACCTCATGATCGAGGTAAAA
Found at i:76607 original size:115 final size:113
Alignment explanation
Indices: 76190--76608 Score: 370
Period size: 115 Copynumber: 3.6 Consensus size: 113
76180 AGATTGTCTG
* * *
76190 TCTTCAATCTGTCCTCTGATTAGGGTAAAAGATTGGATGCTTTAATCTACCTCATGATCGAGGTA
1 TCTTCAATCTGCCCTCTGATCAGGGTAAAAGATTGGATGCTTCAATCTACCTCATGATCGAGGTA
* * * * ***
76255 AATGATTG-GTGTCTTCAATCTGCTCCATGATTGGAGTAAGAGATTGCCCG
66 AAAGATTGTGTGTCTTCAATCAGCTTC-TGATT-AAGTAAGAGATTG-AAT
* * * *
76305 TCTTTAATTTGCCCTCTGATTAGGGTAAAAGATTAGATGCTTCAATCTACCTCATGATCGAGGTA
1 TCTTCAATCTGCCCTCTGATCAGGGTAAAAGATTGGATGCTTCAATCTACCTCATGATCGAGGTA
* * * *
76370 AAAGATTAGTGTGTCTTCAATCTACCTTCGGATTAAGGTAAAATATTGAAT
66 AAAGATT-GTGTGTCTTCAATC-AGCTTCTGATTAA-GTAAGAGATTGAAT
* * * * * * *
76421 ACTTCAATCTATCCC-ATGATC-GAGGTAAGAGATTATGTAT-CTTCAATCTGCCTC-TGAT-TA
1 TCTTCAATCT-GCCCTCTGATCAG-GGTAAAAGA-T-TGGATGCTTCAATCTACCTCATGATCGA
*
76481 GGGTAAAAGATTGTGTATCTTCAATCAGGCTTCTGATTAATGTAAGAGATTGAAT
62 -GGTAAAAGATTGTGTGTCTTCAATCA-GCTTCTGATTAA-GTAAGAGATTGAAT
* *
76536 TCTTCAATCTG-CCTCATGATCGGGGTAAAAGATTGGATGCTTCAATTTA-CTCCATGATCG-GA
1 TCTTCAATCTGCCCTC-TGATCAGGGTAAAAGATTGGATGCTTCAATCTACCT-CATGATCGAG-
*
76598 GTAAGAGATTG
63 GTAAAAGATTG
76609 GTGGGTAGCT
Statistics
Matches: 244, Mismatches: 42, Indels: 36
0.76 0.13 0.11
Matches are distributed among these distances:
113 8 0.03
114 12 0.05
115 139 0.57
116 37 0.15
117 42 0.17
118 6 0.02
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (113 bp):
TCTTCAATCTGCCCTCTGATCAGGGTAAAAGATTGGATGCTTCAATCTACCTCATGATCGAGGTA
AAAGATTGTGTGTCTTCAATCAGCTTCTGATTAAGTAAGAGATTGAAT
Found at i:86334 original size:90 final size:90
Alignment explanation
Indices: 86176--86408 Score: 242
Period size: 90 Copynumber: 2.6 Consensus size: 90
86166 AATAAAATCA
* * * * * *
86176 GGTCAAGTTTGAATTTTTGGAAA-CTTCAAGGGTCAAATCTAAATTTTTGGAAAATTTAGAGGTC
1 GGTCAAATTTGAATTTTTAGAAAGTTTGAA-GGTCAATTCTAAATTTTTGGAAAATTTAGAAGTC
*
86240 AAATTAGAATTTTTGGAAAATTT-AGG
65 AAATTAGAATTTTTAGAAAATTTGA-G
* * * *
86266 GGTCAAATTTGAATTTTTAGAAAGTTTGAAGGTCAATTTTGAATTTTTGG-AAATTTTGATAGTT
1 GGTCAAATTTGAATTTTTAGAAAGTTTGAAGGTCAATTCTAAATTTTTGGAAAATTTAGA-AGTC
* *
86330 AAATTTGAATTTTTAGAAAGTTTGAG
65 AAATTAGAATTTTTAGAAAATTTGAG
*** *
86356 GGTCAAATACAAATTTTTAGAAAGTTTGAGGGTCCAATTC-AAATTTTT-GAAAA
1 GGTCAAATTTGAATTTTTAGAAAGTTTGAAGGT-CAATTCTAAATTTTTGGAAAA
86409 GCTCAATGGT
Statistics
Matches: 119, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
89 9 0.08
90 100 0.84
91 10 0.08
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.39
Consensus pattern (90 bp):
GGTCAAATTTGAATTTTTAGAAAGTTTGAAGGTCAATTCTAAATTTTTGGAAAATTTAGAAGTCA
AATTAGAATTTTTAGAAAATTTGAG
Found at i:86371 original size:30 final size:30
Alignment explanation
Indices: 86176--86407 Score: 175
Period size: 30 Copynumber: 7.8 Consensus size: 30
86166 AATAAAATCA
* * * * **
86176 GGTCAAGTTTGAATTTTTGGAAACTTCAAG
1 GGTCAAATTCGAATTTTTAGAAAGTTTGAG
* * *
86206 GGTCAAA-TCTAAATTTTTGGAAAATTT-AG
1 GGTCAAATTC-GAATTTTTAGAAAGTTTGAG
* * *
86235 AGGTCAAATTAGAATTTTTGGAAAATTT-AGG
1 -GGTCAAATTCGAATTTTTAGAAAGTTTGA-G
* *
86266 GGTCAAATTTGAATTTTTAGAAAGTTTGAA
1 GGTCAAATTCGAATTTTTAGAAAGTTTGAG
* * * * *
86296 GGTCAATTTTGAATTTTTGGAAATTTTGAT
1 GGTCAAATTCGAATTTTTAGAAAGTTTGAG
* * *
86326 AGTTAAATTTGAATTTTTAGAAAGTTTGAG
1 GGTCAAATTCGAATTTTTAGAAAGTTTGAG
* *
86356 GGTCAAATACAAATTTTTAGAAAGTTTGAG
1 GGTCAAATTCGAATTTTTAGAAAGTTTGAG
* *
86386 GGTCCAATTCAAATTTTT-GAAA
1 GGTCAAATTCGAATTTTTAGAAA
86408 AGCTCAATGG
Statistics
Matches: 169, Mismatches: 28, Indels: 11
0.81 0.13 0.05
Matches are distributed among these distances:
29 7 0.04
30 159 0.94
31 3 0.02
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.39
Consensus pattern (30 bp):
GGTCAAATTCGAATTTTTAGAAAGTTTGAG
Found at i:86401 original size:60 final size:59
Alignment explanation
Indices: 86186--86407 Score: 198
Period size: 60 Copynumber: 3.7 Consensus size: 59
86176 GGTCAAGTTT
* ** * * *
86186 GAATTTTTGGAAACTTCAAGGGTCAAATCTAAATTTTTGGAAAATTT-AGAGGTCAAATTA
1 GAATTTTTGGAAAATTTGAGGGTCAAATTTAAATTTTTAGAAAGTTTGAG-GGTCAAA-TA
* * * *
86246 GAATTTTTGGAAAATTT-AGGGGTCAAATTTGAATTTTTAGAAAGTTTGAAGGTCAATTTT
1 GAATTTTTGGAAAATTTGA-GGGTCAAATTTAAATTTTTAGAAAGTTTGAGGGTCAA-ATA
* ** * *
86306 GAATTTTTGGAAATTTTGATAGTTAAATTTGAATTTTTAGAAAGTTTGAGGGTCAAATA
1 GAATTTTTGGAAAATTTGAGGGTCAAATTTAAATTTTTAGAAAGTTTGAGGGTCAAATA
* * * * *
86365 CAAATTTTTAGAAAGTTTGAGGGTCCAATTCAAATTTTT-GAAA
1 -GAATTTTTGGAAAATTTGAGGGTCAAATTTAAATTTTTAGAAA
86408 AGCTCAATGG
Statistics
Matches: 132, Mismatches: 25, Indels: 11
0.79 0.15 0.07
Matches are distributed among these distances:
59 6 0.05
60 124 0.94
61 2 0.02
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.39
Consensus pattern (59 bp):
GAATTTTTGGAAAATTTGAGGGTCAAATTTAAATTTTTAGAAAGTTTGAGGGTCAAATA
Found at i:86421 original size:90 final size:90
Alignment explanation
Indices: 86240--86448 Score: 208
Period size: 90 Copynumber: 2.3 Consensus size: 90
86230 TTTAGAGGTC
* * ***
86240 AAATTAGAATTTTTGGAAAATTT-AGGGGTCAAATTTGAATTTTTAGAAAGTTTGAAGGTCAATT
1 AAATTTGAATTTTTGGAAAGTTTGA-GGGTCAAATACAAATTTTTAGAAAGTTTGAAGGTCAATT
** * ** **
86304 TTGAATTTTTGGAAATTTTGATAGTT
65 TCAAATTTTTGAAAAGCTCAATAGTT
* *
86330 AAATTTGAATTTTTAGAAAGTTTGAGGGTCAAATACAAATTTTTAGAAAGTTTGAGGGTCCAA-T
1 AAATTTGAATTTTTGGAAAGTTTGAGGGTCAAATACAAATTTTTAGAAAGTTTGAAGGT-CAATT
*
86394 TCAAATTTTTGAAAAGCTCAATGGTT
65 TCAAATTTTTGAAAAGCTCAATAGTT
** * *
86420 AAAAAT-AATTTTTGGATAGTTTGGGGGTC
1 AAATTTGAATTTTTGGAAAGTTTGAGGGTC
86449 GAAACATAGT
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
89 20 0.21
90 73 0.75
91 4 0.04
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.40
Consensus pattern (90 bp):
AAATTTGAATTTTTGGAAAGTTTGAGGGTCAAATACAAATTTTTAGAAAGTTTGAAGGTCAATTT
CAAATTTTTGAAAAGCTCAATAGTT
Found at i:86464 original size:30 final size:30
Alignment explanation
Indices: 86420--86521 Score: 143
Period size: 30 Copynumber: 3.4 Consensus size: 30
86410 CTCAATGGTT
86420 AAAA-ATAATTTTTGGATAGTTTGGGGGTC
1 AAAACATAATTTTTGGATAGTTTGGGGGTC
* * *
86449 GAAACATAGTTTTTGGATAGTTTGGTGGTC
1 AAAACATAATTTTTGGATAGTTTGGGGGTC
* *
86479 AAAACATAACTTTTGGATAGTTTGGGGATC
1 AAAACATAATTTTTGGATAGTTTGGGGGTC
*
86509 AAAAAATAATTTT
1 AAAACATAATTTT
86522 AAAATCAACC
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
29 3 0.05
30 59 0.95
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (30 bp):
AAAACATAATTTTTGGATAGTTTGGGGGTC
Found at i:88050 original size:39 final size:39
Alignment explanation
Indices: 87938--88366 Score: 294
Period size: 39 Copynumber: 10.8 Consensus size: 39
87928 TATAGCTTCA
87938 AGGGTAAAAGAT-TGGATTGT-TTCAATCTG-CCTCATGG-T
1 AGGGTAAAAGATCT-GA-TGTCTTCAATCTGCCCTC-TGGTT
* * * * *
87976 CGAAGTAAGAGATTTGATGGTCTTCAATCTACCCTCTGGTT
1 AG-GGTAAAAGATCTGAT-GTCTTCAATCTGCCCTCTGGTT
*
88017 AGGGTAAAAGATCTGATGTCTTCAATCGGCCCTCTGGTT
1 AGGGTAAAAGATCTGATGTCTTCAATCTGCCCTCTGGTT
* * *
88056 AAGGTAGAAGAT-TGAAT-TGCTTCAATCTGCCC-CATGGTC
1 AGGGTAAAAGATCTG-ATGT-CTTCAATCTGCCCTC-TGGTT
* * *
88095 GGGGTAAGAGATCGGATGATCTTCAATCTGCCCTCTGGTT
1 AGGGTAAAAGATCTGATG-TCTTCAATCTGCCCTCTGGTT
* * *
88135 AGGGTAAAAGAT-TGGAT-TGCTTTAATCTACCCTATGGTTT
1 AGGGTAAAAGATCT-GATGT-CTTCAATCTGCCCTCTGG-TT
* * * *
88175 GGGGGTTAAAAGATCAGATGATCTTCAATCTACCCTCTAGTT
1 -AGGG-TAAAAGATCTGATG-TCTTCAATCTGCCCTCTGGTT
* *
88217 AGGGTAAAAGAT-GGAT-TGCTTCAATCTGCTCC-ATGG-T
1 AGGGTAAAAGATCTGATGT-CTTCAATCTGC-CCTCTGGTT
* * *
88254 CGAGGTAAGAGATCGGATAGTCTTCAATCTGCCCTCTGGTT
1 AG-GGTAAAAGATCTGAT-GTCTTCAATCTGCCCTCTGGTT
* **
88295 AGGATAAAAGAT-TGGAT-TGCTTCAATCTGCCCAATGGTT
1 AGGGTAAAAGATCT-GATGT-CTTCAATCTGCCCTCTGGTT
* *
88334 GGGGTAAAAGATCAGATGGTCTTCAATCTGCCC
1 AGGGTAAAAGATCTGAT-GTCTTCAATCTGCCC
88367 CTTACATCTT
Statistics
Matches: 309, Mismatches: 48, Indels: 66
0.73 0.11 0.16
Matches are distributed among these distances:
37 3 0.01
38 29 0.09
39 127 0.41
40 103 0.33
41 18 0.06
42 13 0.04
43 15 0.05
44 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (39 bp):
AGGGTAAAAGATCTGATGTCTTCAATCTGCCCTCTGGTT
Found at i:88121 original size:79 final size:79
Alignment explanation
Indices: 87958--88366 Score: 436
Period size: 79 Copynumber: 5.2 Consensus size: 79
87948 ATTGGATTGT
* * * * * **
87958 TTCAATCTG-CCTCATGGTCGAA-GTAAGAGATTTGATGGTCTTCAATCTACCCTC-TGGTTAGG
1 TTCAATCTGCCCTC-TGGT-TAAGGTAAAAGATTGGATTG-CTTCAATCTGCCC-CATGGTCGGG
*
88020 GTAAAAGATCTGATG-TC
62 GTAAAAGATCAGATGATC
* * *
88037 TTCAATCGGCCCTCTGGTTAAGGTAGAAGATTGAATTGCTTCAATCTGCCCCATGGTCGGGGTAA
1 TTCAATCTGCCCTCTGGTTAAGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAA
* *
88102 GAGATCGGATGATC
66 AAGATCAGATGATC
* * * * *
88116 TTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTTAATCTACCCTATGGTTTGGGGGT
1 TTCAATCTGCCCTCTGGTTAAGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGG--TCGGGG-
88181 TAAAAGATCAGATGATC
63 TAAAAGATCAGATGATC
* * * * *
88198 TTCAATCTACCCTCTAGTTAGGGTAAAAGA-TGGATTGCTTCAATCTGCTCCATGGTCGAGGTAA
1 TTCAATCTGCCCTCTGGTTAAGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAA
* *
88262 GAGATCGGAT-AGTC
66 AAGATCAGATGA-TC
* *
88276 TTCAATCTGCCCTCTGGTT-AGGATAAAAGATTGGATTGCTTCAATCTGCCCAATGGTTGGGGTA
1 TTCAATCTGCCCTCTGGTTAAGG-TAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTA
*
88340 AAAGATCAGATGGTC
65 AAAGATCAGATGATC
88355 TTCAATCTGCCC
1 TTCAATCTGCCC
88367 CTTACATCTT
Statistics
Matches: 277, Mismatches: 42, Indels: 22
0.81 0.12 0.06
Matches are distributed among these distances:
77 4 0.01
78 70 0.25
79 130 0.47
80 4 0.01
81 26 0.09
82 43 0.16
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (79 bp):
TTCAATCTGCCCTCTGGTTAAGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAA
AAGATCAGATGATC
Found at i:88173 original size:118 final size:118
Alignment explanation
Indices: 87940--88173 Score: 310
Period size: 118 Copynumber: 2.0 Consensus size: 118
87930 TAGCTTCAAG
* * * ** *
87940 GGTAAAAGATTGGATTGTTTCAATCTGCCTCATGGTCGAAGTAAGAGATTTGATGGTCTTCAATC
1 GGTAAAAGATTGAATTGCTTCAATCTGCCCCATGGTCGAAGTAAGAGATCGGATGATCTTCAATC
* *
88005 TACCCTCTGGTTAGGGTAAAAGATCTGATGTCTTCAATCGGCCCTCTGGTTAA
66 TACCCTCTGGTTAGGGTAAAAGATCTGATGTCTTCAATCGACCCTATGGTTAA
* **
88058 GGTAGAAGATTGAATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGATCTTCAATC
1 GGTAAAAGATTGAATTGCTTCAATCTGCCCCATGGTCGAAGTAAGAGATCGGATGATCTTCAATC
* * *
88123 TGCCCTCTGGTTAGGGTAAAAGAT-TGGAT-TGCTTTAATCTACCCTATGGTT
66 TACCCTCTGGTTAGGGTAAAAGATCT-GATGT-CTTCAATCGACCCTATGGTT
88174 TGGGGGTTAA
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
117 2 0.02
118 98 0.98
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (118 bp):
GGTAAAAGATTGAATTGCTTCAATCTGCCCCATGGTCGAAGTAAGAGATCGGATGATCTTCAATC
TACCCTCTGGTTAGGGTAAAAGATCTGATGTCTTCAATCGACCCTATGGTTAA
Found at i:88242 original size:160 final size:157
Alignment explanation
Indices: 87997--88362 Score: 529
Period size: 160 Copynumber: 2.3 Consensus size: 157
87987 ATTTGATGGT
* * * ** *
87997 CTTCAATCTACCCTCTGGTTAGGGTAAAAGATCTGATGTCTTCAATCGGCCCTCTGGTTAAGGTA
1 CTTCAATCTACCCTATGGTTGGGGTAAAAGATCAGATGTCTTCAATCTACCCTCTAGTTAAGGTA
* *
88062 GAAGATTGAATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATCGGAT-GATCTTCAATCTGC
66 AAAGATTGAATTGCTTCAATCTGCCCCATGGTCGAGGTAAGAGATCGGATAG-TCTTCAATCTGC
*
88126 CCTCTGGTTAGGGTAAAAGATTGGATTG
130 CCTCTGGTTAGGATAAAAGATTGGATTG
* *
88154 CTTTAATCTACCCTATGGTTTGGGGGTTAAAAGATCAGATGATCTTCAATCTACCCTCTAGTTAG
1 CTTCAATCTACCCTATGG-TT-GGGG-TAAAAGATCAGATG-TCTTCAATCTACCCTCTAGTTAA
* *
88219 GGTAAAAGA-TGGATTGCTTCAATCTGCTCCATGGTCGAGGTAAGAGATCGGATAGTCTTCAATC
62 GGTAAAAGATTGAATTGCTTCAATCTGCCCCATGGTCGAGGTAAGAGATCGGATAGTCTTCAATC
88283 TGCCCTCTGGTTAGGATAAAAGATTGGATTG
127 TGCCCTCTGGTTAGGATAAAAGATTGGATTG
* *
88314 CTTCAATCTGCCCAATGGTTGGGGTAAAAGATCAGATGGTCTTCAATCT
1 CTTCAATCTACCCTATGGTTGGGGTAAAAGATCAGAT-GTCTTCAATCT
88363 GCCCCTTACA
Statistics
Matches: 187, Mismatches: 16, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
157 39 0.21
158 7 0.04
159 5 0.03
160 108 0.58
161 28 0.15
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (157 bp):
CTTCAATCTACCCTATGGTTGGGGTAAAAGATCAGATGTCTTCAATCTACCCTCTAGTTAAGGTA
AAAGATTGAATTGCTTCAATCTGCCCCATGGTCGAGGTAAGAGATCGGATAGTCTTCAATCTGCC
CTCTGGTTAGGATAAAAGATTGGATTG
Found at i:100021 original size:27 final size:30
Alignment explanation
Indices: 99982--100040 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 30
99972 AAGTATACAT
99982 AATAAAAACAATATACATA-ATACA-ATAA
1 AATAAAAACAATATACATATATACATATAA
100010 AATAAAAA-AATATACATATATACATATAA
1 AATAAAAACAATATACATATATACATATAA
100039 AA
1 AA
100041 GGGATTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
27 10 0.34
28 13 0.45
29 6 0.21
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (30 bp):
AATAAAAACAATATACATATATACATATAA
Found at i:100167 original size:30 final size:30
Alignment explanation
Indices: 100133--100343 Score: 212
Period size: 30 Copynumber: 7.1 Consensus size: 30
100123 TTAAAATCGA
* *
100133 GTCAAATTTGAATTTTTGGAAACTTCAGGG
1 GTCAAATTTAAATTTTTGGAAAGTTCAGGG
** * * *
100163 GTCAAATCAAAATTTTTGGAAAATTTAAGG
1 GTCAAATTTAAATTTTTGGAAAGTTCAGGG
* * *
100193 GTCAAA-TTAGAATTTTTAGAAAATTTAGGG
1 GTCAAATTTA-AATTTTTGGAAAGTTCAGGG
*
100223 GTCAAATTTAAATTTTTGGAAAGTTCAAGG
1 GTCAAATTTAAATTTTTGGAAAGTTCAGGG
* * *
100253 GTCAAATTCAAATTTTTGAAAAGTT-TGAGG
1 GTCAAATTTAAATTTTTGGAAAGTTCAG-GG
* * *
100283 GTCAAATTCAAATTTTTGG-AAGTTCAAGT
1 GTCAAATTTAAATTTTTGGAAAGTTCAGGG
* *
100312 GTCAAATTTAAATTTTTGAAAAGTTTAGGG
1 GTCAAATTTAAATTTTTGGAAAGTTCAGGG
100342 GT
1 GT
100344 TAAAAATAAT
Statistics
Matches: 149, Mismatches: 27, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
29 24 0.16
30 122 0.82
31 3 0.02
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.37
Consensus pattern (30 bp):
GTCAAATTTAAATTTTTGGAAAGTTCAGGG
Found at i:100206 original size:60 final size:58
Alignment explanation
Indices: 100133--100343 Score: 248
Period size: 60 Copynumber: 3.5 Consensus size: 58
100123 TTAAAATCGA
* * * * * *
100133 GTCAAATTTGAATTTTTGGAAACTTCAGGGGTCAAATCAAAATTTTTGGAAAATTTAAGG
1 GTCAAA-TTAAATTTTTGAAAAGTTTAGGGGTCAAATC-AAATTTTTGGAAAGTTCAAGG
*
100193 GTCAAATTAGAATTTTTAGAAAA-TTTAGGGGTCAAATTTAAATTTTTGGAAAGTTCAAGG
1 GTCAAATTA-AATTTTT-GAAAAGTTTAGGGGTCAAA-TCAAATTTTTGGAAAGTTCAAGG
*
100253 GTCAAATTCAAATTTTTGAAAAGTTT-GAGGGTCAAATTCAAATTTTTGG-AAGTTCAAGT
1 GTCAAATT-AAATTTTTGAAAAGTTTAG-GGGTCAAA-TCAAATTTTTGGAAAGTTCAAGG
100312 GTCAAATTTAAATTTTTGAAAAGTTTAGGGGT
1 GTCAAA-TTAAATTTTTGAAAAGTTTAGGGGT
100344 TAAAAATAAT
Statistics
Matches: 135, Mismatches: 8, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
59 44 0.33
60 85 0.63
61 6 0.04
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.37
Consensus pattern (58 bp):
GTCAAATTAAATTTTTGAAAAGTTTAGGGGTCAAATCAAATTTTTGGAAAGTTCAAGG
Found at i:100255 original size:90 final size:89
Alignment explanation
Indices: 100133--100336 Score: 261
Period size: 90 Copynumber: 2.3 Consensus size: 89
100123 TTAAAATCGA
* * *
100133 GTCAAATTTGAATTTTTGGAAACTTCAGGGGTCAAA-TCAAAATTTTTGGAAAA-TTTAAGGGTC
1 GTCAAATTTAAATTTTTGGAAAGTTCAAGGGTCAAATTC-AAATTTTT-GAAAAGTTTAAGGGTC
* *
100196 AAATT-AGAATTTTTAGAAAATTTAGGG
64 AAATTCA-AATTTTT-GAAAATTCAAGG
*
100223 GTCAAATTTAAATTTTTGGAAAGTTCAAGGGTCAAATTCAAATTTTTGAAAAGTTTGAGGGTCAA
1 GTCAAATTTAAATTTTTGGAAAGTTCAAGGGTCAAATTCAAATTTTTGAAAAGTTTAAGGGTCAA
* * *
100288 ATTCAAATTTTTGGAAGTTCAAGT
66 ATTCAAATTTTTGAAAATTCAAGG
*
100312 GTCAAATTTAAATTTTTGAAAAGTT
1 GTCAAATTTAAATTTTTGGAAAGTT
100337 TAGGGGTTAA
Statistics
Matches: 101, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
89 36 0.36
90 62 0.61
91 3 0.03
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (89 bp):
GTCAAATTTAAATTTTTGGAAAGTTCAAGGGTCAAATTCAAATTTTTGAAAAGTTTAAGGGTCAA
ATTCAAATTTTTGAAAATTCAAGG
Found at i:100354 original size:29 final size:30
Alignment explanation
Indices: 100322--100396 Score: 100
Period size: 30 Copynumber: 2.5 Consensus size: 30
100312 GTCAAATTTA
100322 AATTTTT-GAAAAGTTTAGGGGTT-AAAAAT
1 AATTTTTAG-AAAGTTTAGGGGTTGAAAAAT
* *
100351 AATTTTTAGATAGTTTAGGGGTTGAAACAT
1 AATTTTTAGAAAGTTTAGGGGTTGAAAAAT
*
100381 AATTTTTAGATAGTTT
1 AATTTTTAGAAAGTTT
100397 GGTGGTCAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
29 20 0.48
30 22 0.52
ACGTcount: A:0.36, C:0.01, G:0.20, T:0.43
Consensus pattern (30 bp):
AATTTTTAGAAAGTTTAGGGGTTGAAAAAT
Found at i:100385 original size:30 final size:29
Alignment explanation
Indices: 100333--100422 Score: 121
Period size: 30 Copynumber: 3.1 Consensus size: 29
100323 ATTTTTGAAA
*
100333 AGTTTAGGGGTTAAAAATAATTTTTAGAT
1 AGTTTAGGGGTTAAACATAATTTTTAGAT
100362 AGTTTAGGGGTTGAAACATAATTTTTAGAT
1 AGTTTAGGGGTT-AAACATAATTTTTAGAT
*
100392 AGTTT-GGTGGTCAAAACA-AATTTTTAGAT
1 AGTTTAGG-GGT-TAAACATAATTTTTAGAT
100421 AG
1 AG
100423 CTTGAGGGTA
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
29 27 0.48
30 29 0.52
ACGTcount: A:0.36, C:0.03, G:0.22, T:0.39
Consensus pattern (29 bp):
AGTTTAGGGGTTAAACATAATTTTTAGAT
Found at i:100414 original size:29 final size:30
Alignment explanation
Indices: 100333--100422 Score: 123
Period size: 29 Copynumber: 3.1 Consensus size: 30
100323 ATTTTTGAAA
*
100333 AGTTTAGGGGTTAAAA-ATAATTTTTAGAT
1 AGTTTAGGGGTCAAAACATAATTTTTAGAT
**
100362 AGTTTAGGGGTTGAAACATAATTTTTAGAT
1 AGTTTAGGGGTCAAAACATAATTTTTAGAT
100392 AGTTT-GGTGGTCAAAACA-AATTTTTAGAT
1 AGTTTAGG-GGTCAAAACATAATTTTTAGAT
100421 AG
1 AG
100423 CTTGAGGGTA
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
29 30 0.54
30 26 0.46
ACGTcount: A:0.36, C:0.03, G:0.22, T:0.39
Consensus pattern (30 bp):
AGTTTAGGGGTCAAAACATAATTTTTAGAT
Found at i:100436 original size:29 final size:29
Alignment explanation
Indices: 100351--100445 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 29
100341 GGTTAAAAAT
* ** *
100351 AATTTTTAGATAGTTTAGGGGTTGAAACAT
1 AATTTTTAGATAGTTGA-GGGTAAAAACAC
*
100381 AATTTTTAGATAGTTTG-GTGGTCAAAACA-
1 AATTTTTAGATAG-TTGAG-GGTAAAAACAC
*
100410 AATTTTTAGATAGCTTGAGGGTAAAAAAAC
1 AATTTTTAGATAG-TTGAGGGTAAAAACAC
100440 AATTTT
1 AATTTT
100446 AAAATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
29 25 0.45
30 28 0.51
31 2 0.04
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.38
Consensus pattern (29 bp):
AATTTTTAGATAGTTGAGGGTAAAAACAC
Found at i:104162 original size:69 final size:69
Alignment explanation
Indices: 104051--104189 Score: 242
Period size: 69 Copynumber: 2.0 Consensus size: 69
104041 GATTGGTAAG
*
104051 GAAGCTCATTCATGCTCACTGAAAGGTTGTCAAGGTATGGAATGATCTAGAACATGAGGTAGGCA
1 GAAGCTCATTCATGCTCACTGAAAGGCTGTCAAGGTATGGAATGATCTAGAACATGAGGTAGGCA
104116 AGAT
66 AGAT
* **
104120 GAAGCTCATTCATGCTTACTGAAAGGCTGTTGAGGTATGGAATGATCTAGAACATGAGGTAGGCA
1 GAAGCTCATTCATGCTCACTGAAAGGCTGTCAAGGTATGGAATGATCTAGAACATGAGGTAGGCA
104185 AGAT
66 AGAT
104189 G
1 G
104190 GATTGGCATA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (69 bp):
GAAGCTCATTCATGCTCACTGAAAGGCTGTCAAGGTATGGAATGATCTAGAACATGAGGTAGGCA
AGAT
Found at i:113181 original size:21 final size:21
Alignment explanation
Indices: 113157--113209 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
113147 TACCCTGCAC
* *
113157 TTCTACCGAAACATACATGGG
1 TTCTACCGAAACAAACACGGG
113178 TTCTACCGAAACAAACACGGG
1 TTCTACCGAAACAAACACGGG
113199 TTCTACCGAAA
1 TTCTACCGAAA
113210 TAAGTATGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (21 bp):
TTCTACCGAAACAAACACGGG
Found at i:113842 original size:51 final size:51
Alignment explanation
Indices: 113781--113957 Score: 266
Period size: 51 Copynumber: 3.5 Consensus size: 51
113771 CTATAAACTT
* * *
113781 ACGATGACACTTAGTCATCAGACCTTTAATCCATATAGGATTCATTTATTC
1 ACGATGACACTTAGTCATCAGACCATTAATCCATAAAGGATTCATTTACTC
* *
113832 ACGATGACACTTAGTCATCGGACCGTTAATCCATAAAGGATTCATTTACTC
1 ACGATGACACTTAGTCATCAGACCATTAATCCATAAAGGATTCATTTACTC
*
113883 ACGATGACACTTAGTCATC-GAACCATTAATCCATAAAGGATTCATTCACTC
1 ACGATGACACTTAGTCATCAG-ACCATTAATCCATAAAGGATTCATTTACTC
* *
113934 ACAATGACACTTAGTCATTAGACC
1 ACGATGACACTTAGTCATCAGACC
113958 CTTTCGTTTA
Statistics
Matches: 116, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
50 1 0.01
51 114 0.98
52 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (51 bp):
ACGATGACACTTAGTCATCAGACCATTAATCCATAAAGGATTCATTTACTC
Found at i:116180 original size:42 final size:43
Alignment explanation
Indices: 116023--116245 Score: 213
Period size: 43 Copynumber: 5.3 Consensus size: 43
116013 GAAGACTAGT
** ***
116023 AATGGAAGACTCGTGTCTCGAAATGAGCATGAGATTATAAATA
1 AATGGAAGACTCGTGTCTCGGGATGAGCATGAGATTATGTTTA
* * * ** *
116066 AATGGAAGACTCATGTTTTGGGATGAATATGAGATTATGTATA
1 AATGGAAGACTCGTGTCTCGGGATGAGCATGAGATTATGTTTA
* *
116109 AATGGAAGACTCGTGTCTTGGGATAAGCATGAGATTATGTTTA
1 AATGGAAGACTCGTGTCTCGGGATGAGCATGAGATTATGTTTA
* *
116152 AA-GGAAAACTCGTGTCTCGGGATGAGCATGAGATTAAGTTTA
1 AATGGAAGACTCGTGTCTCGGGATGAGCATGAGATTATGTTTA
* ** *
116194 AA-AGAAGACTTATGTCTCGGTA-GAGCAT-ATGATT-TGTTTAA
1 AATGGAAGACTCGTGTCTCGGGATGAGCATGA-GATTATGTTT-A
*
116235 AAAGGAAGACT
1 AATGGAAGACT
116246 TATGACTCGG
Statistics
Matches: 151, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
40 5 0.03
41 13 0.09
42 60 0.40
43 73 0.48
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.30
Consensus pattern (43 bp):
AATGGAAGACTCGTGTCTCGGGATGAGCATGAGATTATGTTTA
Found at i:118859 original size:87 final size:87
Alignment explanation
Indices: 118713--118888 Score: 352
Period size: 87 Copynumber: 2.0 Consensus size: 87
118703 GTGTATGAGA
118713 TTCGCCATTGTGGCTTCAATCTACCCCCTCTACAGCTTTAGCTGTATGAGATTCACCATTGCGAC
1 TTCGCCATTGTGGCTTCAATCTACCCCCTCTACAGCTTTAGCTGTATGAGATTCACCATTGCGAC
118778 TTCAATCCGTCCCTTTACAGCT
66 TTCAATCCGTCCCTTTACAGCT
118800 TTCGCCATTGTGGCTTCAATCTACCCCCTCTACAGCTTTAGCTGTATGAGATTCACCATTGCGAC
1 TTCGCCATTGTGGCTTCAATCTACCCCCTCTACAGCTTTAGCTGTATGAGATTCACCATTGCGAC
118865 TTCAATCCGTCCCTTTACAGCT
66 TTCAATCCGTCCCTTTACAGCT
118887 TT
1 TT
118889 AAGGGTATAG
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 89 1.00
ACGTcount: A:0.19, C:0.32, G:0.15, T:0.34
Consensus pattern (87 bp):
TTCGCCATTGTGGCTTCAATCTACCCCCTCTACAGCTTTAGCTGTATGAGATTCACCATTGCGAC
TTCAATCCGTCCCTTTACAGCT
Found at i:125109 original size:62 final size:61
Alignment explanation
Indices: 125007--125233 Score: 272
Period size: 62 Copynumber: 3.8 Consensus size: 61
124997 ACATCTGATA
* * * * * * *
125007 ACTCATGATGGCACAGAGTCGTTGGACCTTAAATCTGTAATAGGATTCATTTCCCATTTAAT
1 ACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCATTT-CCATTTAAT
*
125069 ACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCATTTCTCATTCAAT
1 ACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCATTTC-CATTTAAT
*
125131 ACTCACGATGACATAAAGTCATCGGACCTTTAATCCGTAATAGGATTCA--T--A--T-AT
1 ACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCATTTCCATTTAAT
* * *
125185 -CTCACGATGACATAGATTCATCGGACCTTTAATCCGTAATAGGATTCAT
1 ACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
125234 ATACTCACGA
Statistics
Matches: 151, Mismatches: 12, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
53 46 0.30
54 2 0.01
57 1 0.01
60 1 0.01
61 1 0.01
62 100 0.66
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (61 bp):
ACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCATTTCCATTTAAT
Found at i:125265 original size:52 final size:52
Alignment explanation
Indices: 125124--125266 Score: 225
Period size: 53 Copynumber: 2.8 Consensus size: 52
125114 TTCATTTCTC
*
125124 ATTCA-ATACTCACGATGACATAAAGTCATCGGACCTTTAATCCGTAATAGG
1 ATTCATATACTCACGATGACATAGAGTCATCGGACCTTTAATCCGTAATAGG
*
125175 ATTCATATATCTCACGATGACATAGATTCATCGGACCTTTAATCCGTAATAGG
1 ATTCATATA-CTCACGATGACATAGAGTCATCGGACCTTTAATCCGTAATAGG
* * *
125228 ATTCATATACTCACGATAACACAGAGTCATCGAACCTTT
1 ATTCATATACTCACGATGACATAGAGTCATCGGACCTTT
125267 TTGCATTTAC
Statistics
Matches: 84, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
51 5 0.06
52 29 0.35
53 50 0.60
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.29
Consensus pattern (52 bp):
ATTCATATACTCACGATGACATAGAGTCATCGGACCTTTAATCCGTAATAGG
Found at i:126049 original size:11 final size:11
Alignment explanation
Indices: 126033--126062 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
126023 TTCGATTTAG
126033 AGGAAGAAGAA
1 AGGAAGAAGAA
126044 AGGAAGAAGAA
1 AGGAAGAAGAA
*
126055 ATGAAGAA
1 AGGAAGAA
126063 AAATGATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.03
Consensus pattern (11 bp):
AGGAAGAAGAA
Found at i:127357 original size:18 final size:18
Alignment explanation
Indices: 127334--127376 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
127324 TTAGGGTGTT
*
127334 TTATTTTTTAAATTTTAA
1 TTATTTTTTAAATTTAAA
*
127352 TTATTTTTTAAGTTTAAA
1 TTATTTTTTAAATTTAAA
*
127370 ATATTTT
1 TTATTTT
127377 GCTGATGTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TTATTTTTTAAATTTAAA
Found at i:127784 original size:28 final size:28
Alignment explanation
Indices: 127744--127801 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
127734 AATTAACTAG
127744 TCTCCACCCTAGTACGATCTTCCAATCT
1 TCTCCACCCTAGTACGATCTTCCAATCT
*
127772 TCTCCACCCTAGTACGATCTTCCGATCT
1 TCTCCACCCTAGTACGATCTTCCAATCT
127800 TC
1 TC
127802 CACTAACATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.19, C:0.40, G:0.09, T:0.33
Consensus pattern (28 bp):
TCTCCACCCTAGTACGATCTTCCAATCT
Found at i:132137 original size:21 final size:21
Alignment explanation
Indices: 132111--132153 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
132101 ACATTTTCTA
* *
132111 AAGTTAAAAGTCAAAATCATT
1 AAGTTAAAAGACAAAACCATT
132132 AAGTTAAAAGACAAAACCATT
1 AAGTTAAAAGACAAAACCATT
132153 A
1 A
132154 TATTGTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.12, G:0.09, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGACAAAACCATT
Found at i:135592 original size:164 final size:164
Alignment explanation
Indices: 135318--135645 Score: 638
Period size: 164 Copynumber: 2.0 Consensus size: 164
135308 GCTATCTTAA
135318 GTGTATGAAAAATTCCAATGTTATTAATCTCTCTGGGAATTTGCTTCAAAATGGAGATATTGCAT
1 GTGTATGAAAAATTCCAATGTTATTAATCTCTCTGGGAATTTGCTTCAAAATGGAGATATTGCAT
*
135383 ATTATAGCCATTCCCATTCAAAGCCTAACCCTTGATTTTTGGATTCTCAATTTCCCACATTTCTT
66 ATTATAGCCATTCCCATTCAAAGCCTAACCCTTGATTTATGGATTCTCAATTTCCCACATTTCTT
135448 CCATGTGTTTTTGTGTAACAGTGTCTAATTGAAG
131 CCATGTGTTTTTGTGTAACAGTGTCTAATTGAAG
135482 GTGTATGAAAAATTCCAATGTTATTAATCTCTCTGGGAATTTGCTTCAAAATGGAGATATTGCAT
1 GTGTATGAAAAATTCCAATGTTATTAATCTCTCTGGGAATTTGCTTCAAAATGGAGATATTGCAT
135547 ATTATAGCCATTCCCATTCAAAGCCTAACCCTTGATTTATGGATTCTCAATTTCCCACATTTCTT
66 ATTATAGCCATTCCCATTCAAAGCCTAACCCTTGATTTATGGATTCTCAATTTCCCACATTTCTT
*
135612 CCATGTGTTTTTGTGTAATAGTGTCTAATTGAAG
131 CCATGTGTTTTTGTGTAACAGTGTCTAATTGAAG
135646 ACCCATACTT
Statistics
Matches: 162, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
164 162 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (164 bp):
GTGTATGAAAAATTCCAATGTTATTAATCTCTCTGGGAATTTGCTTCAAAATGGAGATATTGCAT
ATTATAGCCATTCCCATTCAAAGCCTAACCCTTGATTTATGGATTCTCAATTTCCCACATTTCTT
CCATGTGTTTTTGTGTAACAGTGTCTAATTGAAG
Found at i:136679 original size:21 final size:21
Alignment explanation
Indices: 136653--136704 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
136643 TGAGACAATA
*
136653 CTACCGATACAAGT-ATGACTT
1 CTACCGATACAAGTCATG-CCT
* *
136674 CTACCGAAACATGTCATGCCT
1 CTACCGATACAAGTCATGCCT
136695 CTACCGATAC
1 CTACCGATAC
136705 TAAAAACTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.25
Consensus pattern (21 bp):
CTACCGATACAAGTCATGCCT
Found at i:137435 original size:52 final size:52
Alignment explanation
Indices: 137371--137665 Score: 428
Period size: 52 Copynumber: 5.7 Consensus size: 52
137361 ATTCCATTTA
* * * * * * *
137371 ATACTCATGATGACACATTGTCATCGAACCTCTTAATCCGTGAAGGAATCAT
1 ATACTCACGATGACACATAGTCATCGGACCTTTTAATCCATAAAGGATTCAT
* * *
137423 ATACTCACGATGACACATAATCATCGGACATTTTAATCCATAAAGGATTCGT
1 ATACTCACGATGACACATAGTCATCGGACCTTTTAATCCATAAAGGATTCAT
* *
137475 ATACTCATGATGACACATAGTCATCGAACCTTTTAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTTTTAATCCATAAAGGATTCAT
* *
137527 ATATTCACGATGACATATAGTCATCGGACCTTTTAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTTTTAATCCATAAAGGATTCAT
* *
137579 ATATTCACGATGACACATAGTTATCGGACCTTTTTAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACC-TTTTAATCCATAAAGGATTCAT
*
137632 ATACTCACGATGACATATAGTCATCGGACCTTTT
1 ATACTCACGATGACACATAGTCATCGGACCTTTT
137666 TTATTTACGG
Statistics
Matches: 218, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
52 169 0.78
53 49 0.22
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTTTTAATCCATAAAGGATTCAT
Found at i:140862 original size:12 final size:13
Alignment explanation
Indices: 140836--140868 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
140826 CACAAAACAG
140836 AAATGAAAATAAC
1 AAATGAAAATAAC
140849 AAATGAAAAT-AC
1 AAATGAAAATAAC
*
140861 AAAGGAAA
1 AAATGAAA
140869 TTAAAACTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.70, C:0.06, G:0.12, T:0.12
Consensus pattern (13 bp):
AAATGAAAATAAC
Found at i:143450 original size:28 final size:29
Alignment explanation
Indices: 143419--143492 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 29
143409 AAATATTTAT
*
143419 AAAAATAAAAAAATAAT-TATACATTACA
1 AAAAATAAAAAAATAATATATAAATTACA
**
143447 AAAAATAAAAAGAA-AATAATATAAATTTTA
1 AAAAATAAAAA-AATAAT-ATATAAATTACA
143477 AAAAATATAAAAAATA
1 AAAAATA-AAAAAATA
143493 TTCAAAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
28 14 0.37
29 2 0.05
30 17 0.45
31 5 0.13
ACGTcount: A:0.72, C:0.03, G:0.01, T:0.24
Consensus pattern (29 bp):
AAAAATAAAAAAATAATATATAAATTACA
Found at i:143482 original size:30 final size:32
Alignment explanation
Indices: 143428--143488 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 32
143418 TAAAAATAAA
*
143428 AAAATAATTATACATTACAAAAAATA-AAAAG
1 AAAATAATTATAAATTACAAAAAATATAAAAG
**
143459 AAAATAA-TATAAATTTTAAAAAATATAAAA
1 AAAATAATTATAAATTACAAAAAATATAAAA
143489 AATATTCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (32 bp):
AAAATAATTATAAATTACAAAAAATATAAAAG
Found at i:143519 original size:19 final size:19
Alignment explanation
Indices: 143408--143504 Score: 56
Period size: 19 Copynumber: 4.9 Consensus size: 19
143398 TAAAAATTTT
143408 AAAATATTTATAAAAATA-AA
1 AAAATA-TTA-AAAAATATAA
* * * *
143428 AAAATAATTATACATTACAA
1 AAAAT-ATTAAAAAATATAA
*
143448 AAAATA--AAAAGAAAATAA
1 AAAATATTAAAA-AATATAA
*
143466 TATAAATTTTAAAAAATATAA
1 -A-AAATATTAAAAAATATAA
*
143487 AAAATATTCAAAAATATA
1 AAAATATTAAAAAATATA
143505 TCGAAAATTA
Statistics
Matches: 58, Mismatches: 12, Indels: 15
0.68 0.14 0.18
Matches are distributed among these distances:
17 2 0.03
18 4 0.07
19 21 0.36
20 20 0.34
21 7 0.12
22 4 0.07
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (19 bp):
AAAATATTAAAAAATATAA
Found at i:143597 original size:12 final size:12
Alignment explanation
Indices: 143580--143604 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
143570 CTTTTAAAAA
143580 ATAAAAATAGTT
1 ATAAAAATAGTT
143592 ATAAAAATAGTT
1 ATAAAAATAGTT
143604 A
1 A
143605 AATTTATAGA
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:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
ATAAAAATAGTT
Found at i:146360 original size:23 final size:23
Alignment explanation
Indices: 146329--146393 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
146319 TATTGACTCA
*
146329 TTTATATGTTCATGAACATATTCG
1 TTTA-ATGTTCGTGAACATATTCG
* *
146353 TTTAATGTTTGTGAACATGTTCG
1 TTTAATGTTCGTGAACATATTCG
*
146376 TTTAATGCTCGTGAACAT
1 TTTAATGTTCGTGAACAT
146394 GTTTGTGAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 32 0.89
24 4 0.11
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.45
Consensus pattern (23 bp):
TTTAATGTTCGTGAACATATTCG
Found at i:147791 original size:16 final size:16
Alignment explanation
Indices: 147738--147801 Score: 53
Period size: 16 Copynumber: 4.0 Consensus size: 16
147728 CGTGGTTTTC
147738 TTAAAGTTT-TAAAATT
1 TTAAA-TTTATAAAATT
**
147754 TT-AATTTA-AATTTT
1 TTAAATTTATAAAATT
147768 TTATAATTTATAAAATT
1 TTA-AATTTATAAAATT
*
147785 TTAAATTAATAATAATT
1 TTAAATTTATAA-AATT
147802 AAGTTACACT
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
14 9 0.24
15 2 0.05
16 16 0.42
17 11 0.29
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TTAAATTTATAAAATT
Found at i:147871 original size:15 final size:16
Alignment explanation
Indices: 147851--147884 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
147841 AATCGGTTAA
147851 AAATTATAAAAAT-AT
1 AAATTATAAAAATAAT
*
147866 AAATTATTAAAATAAT
1 AAATTATAAAAATAAT
147882 AAA
1 AAA
147885 ATTACATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTATAAAAATAAT
Found at i:148990 original size:28 final size:30
Alignment explanation
Indices: 148941--149003 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 30
148931 ATTAGTAACG
*
148941 ATAAAATTGTACTTTAACCC-TTAAAAATA
1 ATAAAATTGTAATTTAACCCTTTAAAAATA
* *
148970 ATAAAATT-TAATTTAATCCTTTAAAAATT
1 ATAAAATTGTAATTTAACCCTTTAAAAATA
148999 ATAAA
1 ATAAA
149004 TATATAGACT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 9 0.30
29 21 0.70
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.38
Consensus pattern (30 bp):
ATAAAATTGTAATTTAACCCTTTAAAAATA
Found at i:150673 original size:84 final size:78
Alignment explanation
Indices: 150532--150754 Score: 261
Period size: 78 Copynumber: 2.8 Consensus size: 78
150522 ATAAAGATAC
* * * * * *
150532 GACGAGATCATTATTCATTCGGATAATCTTGAGAGTTTTATATTTAATT-ATGAGAATAAGATTG
1 GACGAGATCATCATTCATTCGGATGATCTCGAGAATGTTATATTTATTTGA-GAGAATAAGA-T-
*
150596 AAAGTTTAAAAAGCA-TTCTA
63 ----TTCAAAAAGCACTT-TA
*
150616 GACGAGATCATCATTCATTCAGATGATCTCGAGAATGTTATATTTATTTGAGAGAATAAGATTTC
1 GACGAGATCATCATTCATTCGGATGATCTCGAGAATGTTATATTTATTTGAGAGAATAAGATTTC
150681 AAAAAGCACTTTA
66 AAAAAGCACTTTA
** *
150694 GATAAGATCATCATTCATTCGGATGATCTCGAGAATGTTATATTTATTTGCGAGAATAAGA
1 GACGAGATCATCATTCATTCGGATGATCTCGAGAATGTTATATTTATTTGAGAGAATAAGA
150755 CTGCAGATTC
Statistics
Matches: 125, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
78 69 0.55
79 2 0.02
83 1 0.01
84 52 0.42
85 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (78 bp):
GACGAGATCATCATTCATTCGGATGATCTCGAGAATGTTATATTTATTTGAGAGAATAAGATTTC
AAAAAGCACTTTA
Found at i:151110 original size:29 final size:29
Alignment explanation
Indices: 151078--151188 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 29
151068 TAAACTTAAA
151078 AATTATTCAAATAGTATAAAAATTTATAG
1 AATTATTCAAATAGTATAAAAATTTATAG
* * * *
151107 AATTA-T-AAAAATTTTATAAATTATATAG
1 AATTATTCAAATAGTATAAAAATT-TATAG
* * * *
151135 AAATTATTGAAAT-G-ATAAAAAGTAATAA
1 -AATTATTCAAATAGTATAAAAATTTATAG
* **
151163 AATTATTCAGATTTTAT-AAAATTTAT
1 AATTATTCAAATAGTATAAAAATTTAT
151189 TAAAATTTTA
Statistics
Matches: 60, Mismatches: 16, Indels: 13
0.67 0.18 0.15
Matches are distributed among these distances:
27 22 0.37
28 16 0.27
29 18 0.30
30 1 0.02
31 3 0.05
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (29 bp):
AATTATTCAAATAGTATAAAAATTTATAG
Found at i:151115 original size:18 final size:18
Alignment explanation
Indices: 151092--151131 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
151082 ATTCAAATAG
151092 TATAAAAA-TTTATAGAAT
1 TATAAAAATTTTATA-AAT
151110 TATAAAAATTTTATAAAT
1 TATAAAAATTTTATAAAT
151128 TATA
1 TATA
151132 TAGAAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
TATAAAAATTTTATAAAT
Found at i:151117 original size:19 final size:18
Alignment explanation
Indices: 151095--151131 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
151085 CAAATAGTAT
151095 AAAAATTTATAGAATTATA
1 AAAAATTTATA-AATTATA
*
151114 AAAATTTTATAAATTATA
1 AAAAATTTATAAATTATA
151132 TAGAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
AAAAATTTATAAATTATA
Found at i:151196 original size:20 final size:20
Alignment explanation
Indices: 151159--151225 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
151149 ATAAAAAGTA
* *
151159 ATAAAA-TTATTCAGATTTT
1 ATAAAATTTATTAAAATTTT
151178 ATAAAATTTATTAAAATTTT
1 ATAAAATTTATTAAAATTTT
** **
151198 ATTAAAAGCTATTAAAAAGTT
1 A-TAAAATTTATTAAAATTTT
151219 ATAAAAT
1 ATAAAAT
151226 AATTATAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
19 6 0.15
20 17 0.44
21 16 0.41
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (20 bp):
ATAAAATTTATTAAAATTTT
Found at i:151198 original size:11 final size:11
Alignment explanation
Indices: 151173--151204 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
151163 AATTATTCAG
151173 ATTTTA-TAAA
1 ATTTTATTAAA
151183 A-TTTATTAAA
1 ATTTTATTAAA
151193 ATTTTATTAAA
1 ATTTTATTAAA
151204 A
1 A
151205 GCTATTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 4 0.20
10 6 0.30
11 10 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
ATTTTATTAAA
Found at i:151210 original size:21 final size:20
Alignment explanation
Indices: 151173--151224 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
151163 AATTATTCAG
**
151173 ATTTTATAAAATTTATTAAA
1 ATTTTATAAAAGCTATTAAA
151193 ATTTTATTAAAAGCTATTAAA
1 ATTTTA-TAAAAGCTATTAAA
**
151214 AAGTTATAAAA
1 ATTTTATAAAA
151225 TAATTATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (20 bp):
ATTTTATAAAAGCTATTAAA
Found at i:151815 original size:11 final size:11
Alignment explanation
Indices: 151799--151855 Score: 71
Period size: 11 Copynumber: 5.2 Consensus size: 11
151789 AAATTTTATA
151799 TTTTCTATAAT
1 TTTTCTATAAT
*
151810 TTTTCTATATT
1 TTTTCTATAAT
151821 TTTTCCTATAAT
1 TTTT-CTATAAT
*
151833 TTTT-AATAAT
1 TTTTCTATAAT
*
151843 TTTTCTATCAT
1 TTTTCTATAAT
151854 TT
1 TT
151856 CTAAAAAGCA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
10 9 0.23
11 20 0.51
12 10 0.26
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTTCTATAAT
Found at i:153896 original size:30 final size:30
Alignment explanation
Indices: 153833--153897 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
153823 AATAGTTTAT
* * *
153833 ATTTTTATAATTTTTAAAAGATTAAATCGA
1 ATTTTTATAATTTTTAAAAAATAAAATAGA
* *
153863 ATTTTTATTATTTTTAAAAAATAAAATATA
1 ATTTTTATAATTTTTAAAAAATAAAATAGA
153893 ATTTT
1 ATTTT
153898 ATTTTTATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.51
Consensus pattern (30 bp):
ATTTTTATAATTTTTAAAAAATAAAATAGA
Found at i:153898 original size:29 final size:29
Alignment explanation
Indices: 153830--153908 Score: 79
Period size: 30 Copynumber: 2.7 Consensus size: 29
153820 TTGAATAGTT
* * * *
153830 TATATTTTTATAATTTTTAAAAGATTAAA
1 TATAATTTTATTATTTTTAAAAAATAAAA
**
153859 TCGAATTTTTATTATTTTTAAAAAATAAAA
1 TATAA-TTTTATTATTTTTAAAAAATAAAA
153889 TATAATTTTATT-TTTATTAA
1 TATAATTTTATTATTT-TTAA
153909 TTTAAAATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
28 3 0.08
29 13 0.32
30 24 0.60
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (29 bp):
TATAATTTTATTATTTTTAAAAAATAAAA
Found at i:154395 original size:9 final size:9
Alignment explanation
Indices: 154381--154406 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
154371 TTTAAACTTT
154381 AAAAATATA
1 AAAAATATA
154390 AAAAATATA
1 AAAAATATA
154399 AAAAATAT
1 AAAAATAT
154407 TTTTAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AAAAATATA
Found at i:160930 original size:30 final size:29
Alignment explanation
Indices: 160850--160960 Score: 107
Period size: 29 Copynumber: 3.8 Consensus size: 29
160840 TGATAATCTG
*
160850 TGTGGCAGGTCGTGTGGGTCACAAGG-TCA
1 TGTGGCAGGTCGTGTGGGTCACATGGCT-A
* * * *
160879 TGTGGTAAGCCATGTGGGTCACATGGCTA
1 TGTGGCAGGTCGTGTGGGTCACATGGCTA
* * *
160908 AGTGGCAGGTCGTGTGGGGTCACATGACCA
1 TGTGGCAGGTCGTGT-GGGTCACATGGCTA
* *
160938 TGTGGTAGGTCGTGTAGGTCACA
1 TGTGGCAGGTCGTGTGGGTCACA
160961 CGACTGTGTG
Statistics
Matches: 65, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
29 39 0.60
30 26 0.40
ACGTcount: A:0.19, C:0.17, G:0.39, T:0.25
Consensus pattern (29 bp):
TGTGGCAGGTCGTGTGGGTCACATGGCTA
Found at i:160970 original size:29 final size:30
Alignment explanation
Indices: 160850--160974 Score: 85
Period size: 29 Copynumber: 4.3 Consensus size: 30
160840 TGATAATCTG
* * **
160850 TGTGGCAGGTCGTGTG-GGTCACAAGGTCA
1 TGTGGTAGGTCGTGTGAGGTCACACGACCA
* * * * * *
160879 TGTGGTAAGCCATGTG-GGTCACATGGCTA
1 TGTGGTAGGTCGTGTGAGGTCACACGACCA
* * * *
160908 AGTGGCAGGTCGTGTGGGGTCACATGACCA
1 TGTGGTAGGTCGTGTGAGGTCACACGACCA
**
160938 TGTGGTAGGTCGTGT-AGGTCACACGACTG
1 TGTGGTAGGTCGTGTGAGGTCACACGACCA
160967 TGTGGTAG
1 TGTGGTAG
160975 ATCGAATGGG
Statistics
Matches: 75, Mismatches: 20, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
29 51 0.68
30 24 0.32
ACGTcount: A:0.18, C:0.17, G:0.39, T:0.26
Consensus pattern (30 bp):
TGTGGTAGGTCGTGTGAGGTCACACGACCA
Found at i:161586 original size:22 final size:22
Alignment explanation
Indices: 161561--161605 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
161551 TGCAACTTAG
161561 AATACTAACTCCATTTAATCTT
1 AATACTAACTCCATTTAATCTT
* *
161583 AATACTAACTTCGTTTAATCTT
1 AATACTAACTCCATTTAATCTT
161605 A
1 A
161606 CACGTTCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.42
Consensus pattern (22 bp):
AATACTAACTCCATTTAATCTT
Found at i:166615 original size:51 final size:52
Alignment explanation
Indices: 166499--166632 Score: 225
Period size: 51 Copynumber: 2.6 Consensus size: 52
166489 AAATGCAAAA
* *
166499 AGGTCTGATGATTATGTGTCATCATGAGTATATGAATCCTTTACGGATTACG
1 AGGTCTGATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTAAG
*
166551 AGGTCTAATGACTATGTGTCATCATGAGTATATGAATCC-TTACGGATTAAG
1 AGGTCTGATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTAAG
*
166602 AGGTCCGATGACTATGTGTCATCATGAGTAT
1 AGGTCTGATGACTATGTGTCATCATGAGTAT
166633 TAAATTGAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
51 40 0.52
52 37 0.48
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.34
Consensus pattern (52 bp):
AGGTCTGATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTAAG
Found at i:170658 original size:17 final size:17
Alignment explanation
Indices: 170636--170669 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
170626 GTCGTTGCAA
170636 TTAA-TTTTACTTAATTT
1 TTAATTTTTAC-TAATTT
170653 TTAATTTTTACTAATTT
1 TTAATTTTTACTAATTT
170670 GTTATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (17 bp):
TTAATTTTTACTAATTT
Found at i:170692 original size:21 final size:21
Alignment explanation
Indices: 170657--170701 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
170647 TAATTTTTAA
170657 TTTTTACTAATTTGTTATTATT
1 TTTTTACTAATTTGTT-TTATT
* *
170679 TTTTTTCTAA-TTGTTTTCTT
1 TTTTTACTAATTTGTTTTATT
170699 TTT
1 TTT
170702 CAAATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 5 0.24
22 9 0.43
ACGTcount: A:0.16, C:0.07, G:0.04, T:0.73
Consensus pattern (21 bp):
TTTTTACTAATTTGTTTTATT
Found at i:176680 original size:24 final size:26
Alignment explanation
Indices: 176644--176691 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
176634 AGCATGGCTA
*
176644 AAACTCGTGCTTCCAAAAACACTCTT
1 AAACTCGTGCTTCAAAAAACACTCTT
176670 AAAC-CGT-CTTCAAAAAACACTC
1 AAACTCGTGCTTCAAAAAACACTC
176692 CGACCACCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 14 0.67
25 3 0.14
26 4 0.19
ACGTcount: A:0.40, C:0.31, G:0.06, T:0.23
Consensus pattern (26 bp):
AAACTCGTGCTTCAAAAAACACTCTT
Found at i:191146 original size:24 final size:23
Alignment explanation
Indices: 191072--191146 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 23
191062 TTTGGTGGCA
* * *
191072 TTTTGATTGGCCTTTTTGGCATAC
1 TTTTAATTGG-CTTTGTGGCGTAC
* * *
191096 TTCTAATTAGCTTTTGTGGCGCA-
1 TTTTAATTGGC-TTTGTGGCGTAC
191119 TTTTAATTGGTCTTTGTGGCGTAC
1 TTTTAATTGG-CTTTGTGGCGTAC
191143 TTTT
1 TTTT
191147 GCTTAGCCTT
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
23 19 0.49
24 20 0.51
ACGTcount: A:0.13, C:0.15, G:0.21, T:0.51
Consensus pattern (23 bp):
TTTTAATTGGCTTTGTGGCGTAC
Found at i:191153 original size:47 final size:47
Alignment explanation
Indices: 191069--191160 Score: 112
Period size: 47 Copynumber: 2.0 Consensus size: 47
191059 TGCTTTGGTG
* * *
191069 GCATTTTGATTGGCCTTTTTGGCATACTTCTAATTAGCTTTTGTGGC
1 GCATTTTAATTGGCCTTTGTGGCATACTTCTAATTAGCCTTTGTGGC
* * * **
191116 GCATTTTAATTGGTCTTTGTGGCGTACTTTTGCTTAGCCTTTGTG
1 GCATTTTAATTGGCCTTTGTGGCATACTTCTAATTAGCCTTTGTG
191161 ATGCATTCTG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 37 1.00
ACGTcount: A:0.13, C:0.16, G:0.23, T:0.48
Consensus pattern (47 bp):
GCATTTTAATTGGCCTTTGTGGCATACTTCTAATTAGCCTTTGTGGC
Found at i:191180 original size:23 final size:24
Alignment explanation
Indices: 191149--191206 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
191139 GTACTTTTGC
* * *
191149 TTAGCCTTTGTGA-TGCATTCTGT
1 TTAGTCTTTGTGAGCGCATTCTAT
191172 TTAGTCTTTGT-AGCGCATTCTAT
1 TTAGTCTTTGTGAGCGCATTCTAT
*
191195 TTGGTCTTTGTG
1 TTAGTCTTTGTG
191207 GCGTAATTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 1 0.03
23 28 0.97
ACGTcount: A:0.12, C:0.16, G:0.22, T:0.50
Consensus pattern (24 bp):
TTAGTCTTTGTGAGCGCATTCTAT
Found at i:191252 original size:70 final size:69
Alignment explanation
Indices: 191102--191252 Score: 180
Period size: 70 Copynumber: 2.2 Consensus size: 69
191092 ATACTTCTAA
* * * * *
191102 TTAGCTTTTGTGGCGCATTTTAATTGGTCTTTGTGGCGTACTTTTGCTTAGCCTTTGTGATGCAT
1 TTAGTTTTTGTAGCGCATTCTAATTGGTCTTTGTGGCGTACATTTGCTTAGCCTTAGTGA-GCAT
191167 TCTGT
65 TCTGT
* *
191172 TTAGTCTTTGTAGCGCATTCTATTTGGTCTTTGTGGCGTA-ATTTGCTTAGCCTTAGTG-GCATA
1 TTAGTTTTTGTAGCGCATTCTAATTGGTCTTTGTGGCGTACATTTGCTTAGCCTTAGTGAGCAT-
191235 CTCTGT
65 -TCTGT
*
191241 ATTTGTTTTTGT
1 -TTAGTTTTTGT
191253 GTAGGATCTG
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
67 4 0.06
69 21 0.30
70 44 0.64
ACGTcount: A:0.13, C:0.15, G:0.23, T:0.49
Consensus pattern (69 bp):
TTAGTTTTTGTAGCGCATTCTAATTGGTCTTTGTGGCGTACATTTGCTTAGCCTTAGTGAGCATT
CTGT
Found at i:191661 original size:122 final size:122
Alignment explanation
Indices: 191444--191681 Score: 377
Period size: 122 Copynumber: 2.0 Consensus size: 122
191434 TGTTTATGAC
*
191444 TAGTCTAAGTGCTCACTAGACTATGTTTGTTTACGATATGTAAGGGTGAAATCTGAGCCATCTGG
1 TAGTCTAAGTGCTCACTAGACTATGTTTGTTTACGATATGTAAGGATGAAATCTGAGCCATCTGG
* *
191509 AATTCTGTAAGAAGATTTAGAACGGTGTATCAATAGTATGAGTTTGATGCGGGATAA
66 AATTCTATAAGAAGATTTAGAACGATGTATCAATAGTATGAGTTTGATGCGGGATAA
* * * *
191566 TAGTCTAAGTGCTCGCTAGACTGTGTTTGTTTACGATATGTAAGGATGAAATCTGAGTCATTTGG
1 TAGTCTAAGTGCTCACTAGACTATGTTTGTTTACGATATGTAAGGATGAAATCTGAGCCATCTGG
* ** *
191631 AATTTTATAAGAAGATTTAGAGTGATGTATCAGTAGTATGAGTTTGATGCG
66 AATTCTATAAGAAGATTTAGAACGATGTATCAATAGTATGAGTTTGATGCG
191682 AGATTGGTTC
Statistics
Matches: 105, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
122 105 1.00
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.35
Consensus pattern (122 bp):
TAGTCTAAGTGCTCACTAGACTATGTTTGTTTACGATATGTAAGGATGAAATCTGAGCCATCTGG
AATTCTATAAGAAGATTTAGAACGATGTATCAATAGTATGAGTTTGATGCGGGATAA
Found at i:210973 original size:32 final size:31
Alignment explanation
Indices: 210900--210996 Score: 119
Period size: 32 Copynumber: 3.2 Consensus size: 31
210890 GAATTTTATG
210900 TTTTTTTTAATTTGGTATTTAAA--T-ATTT
1 TTTTTTTTAATTTGGTATTTAAATTTGATTT
* * *
210928 TTTTATTTAAATTTGATACTTAAATTTGATTT
1 TTTT-TTTTAATTTGGTATTTAAATTTGATTT
*
210960 TTTTTTCTTAATTTGGTATTTAAATTTGATAT
1 TTTTTT-TTAATTTGGTATTTAAATTTGATTT
210992 TTTTT
1 TTTTT
210997 AAGTTGATAC
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
28 4 0.07
29 16 0.28
31 3 0.05
32 34 0.60
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (31 bp):
TTTTTTTTAATTTGGTATTTAAATTTGATTT
Found at i:211307 original size:60 final size:61
Alignment explanation
Indices: 211234--211407 Score: 223
Period size: 60 Copynumber: 2.9 Consensus size: 61
211224 AATTGATTCT
** * *
211234 AAAAAAACCTTAGGTATCAAATTAAGGAAAAA-TGACAAGTTCAAGTACCAGATTAGGTTA
1 AAAAAAAGTTTAGGTATCAAATTAAGGAAAAAGTGACAAGTTCAAGTACCAAATTAGGTCA
211294 AAAAAAAGTTTAGGTATCAAATTAA-GAAAAAGTGTA-AAGTTC-AGATACCAAATTAGGTCA
1 AAAAAAAGTTTAGGTATCAAATTAAGGAAAAAGTG-ACAAGTTCAAG-TACCAAATTAGGTCA
* * *
211354 AAAAAGAAGTTTAAGTATCAAATT-AGGAAAAAGTGTCAAGTTCAAGTACTAAAT
1 AAAAA-AAGTTTAGGTATCAAATTAAGGAAAAAGTGACAAGTTCAAGTACCAAAT
211408 GTTATATTAA
Statistics
Matches: 100, Mismatches: 7, Indels: 13
0.83 0.06 0.11
Matches are distributed among these distances:
59 8 0.08
60 50 0.50
61 40 0.40
62 2 0.02
ACGTcount: A:0.49, C:0.09, G:0.17, T:0.25
Consensus pattern (61 bp):
AAAAAAAGTTTAGGTATCAAATTAAGGAAAAAGTGACAAGTTCAAGTACCAAATTAGGTCA
Found at i:211384 original size:61 final size:60
Alignment explanation
Indices: 211247--211407 Score: 211
Period size: 61 Copynumber: 2.7 Consensus size: 60
211237 AAAACCTTAG
* * *
211247 GTATCAAATTAAGGAAAAA-TG-ACAAGTTCAAGTACCAGATTAGGTTAAAAAAAAGTTTAG
1 GTATCAAATT-AGGAAAAAGTGTA-AAGTTCAAGTACCAAATTAGGTCAAAAAAAAGTTTAA
*
211307 GTATCAAATTAAGAAAAAGTGTAAAGTTC-AGATACCAAATTAGGTCAAAAAAGAAGTTTAA
1 GTATCAAATTAGGAAAAAGTGTAAAGTTCAAG-TACCAAATTAGGTCAAAAAA-AAGTTTAA
* *
211368 GTATCAAATTAGGAAAAAGTGTCAAGTTCAAGTACTAAAT
1 GTATCAAATTAGGAAAAAGTGTAAAGTTCAAGTACCAAAT
211408 GTTATATTAA
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
59 9 0.10
60 36 0.40
61 42 0.47
62 2 0.02
ACGTcount: A:0.48, C:0.09, G:0.17, T:0.25
Consensus pattern (60 bp):
GTATCAAATTAGGAAAAAGTGTAAAGTTCAAGTACCAAATTAGGTCAAAAAAAAGTTTAA
Found at i:211401 original size:31 final size:29
Alignment explanation
Indices: 211247--211401 Score: 102
Period size: 31 Copynumber: 5.1 Consensus size: 29
211237 AAAACCTTAG
211247 GTATCAAATTAAGGAAAAATGACAAGTTCAA
1 GTATCAAATT-AGGAAAAATGA-AAGTTCAA
* * * *
211278 GTACCAGATTAGGTTAAAAA--AAAGTTTAG
1 GTATCAAATTAGG--AAAAATGAAAGTTCAA
*
211307 GTATCAAATTAAGAAAAAGTGTAAAGTTC-A
1 GTATCAAATTAGGAAAAA-TG-AAAGTTCAA
* * *
211337 GATACCAAATTAGGTCAAAAAAG-AAGTTTAA
1 G-TATCAAATTAGG--AAAAATGAAAGTTCAA
*
211368 GTATCAAATTAGGAAAAAGTGTCAAGTTCAA
1 GTATCAAATTAGGAAAAA-TG-AAAGTTCAA
211399 GTA
1 GTA
211402 CTAAATGTTA
Statistics
Matches: 95, Mismatches: 16, Indels: 26
0.69 0.12 0.19
Matches are distributed among these distances:
27 5 0.05
28 5 0.05
29 17 0.18
30 21 0.22
31 36 0.38
32 6 0.06
33 5 0.05
ACGTcount: A:0.48, C:0.08, G:0.18, T:0.25
Consensus pattern (29 bp):
GTATCAAATTAGGAAAAATGAAAGTTCAA
Found at i:212865 original size:21 final size:21
Alignment explanation
Indices: 212828--212867 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
212818 GTAAGGTAAC
*
212828 AATTGAATTAATTATTAATCG
1 AATTGAATTAATAATTAATCG
212849 AATTGCAATT-ATAATTAAT
1 AATTG-AATTAATAATTAAT
212868 GGACACAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (21 bp):
AATTGAATTAATAATTAATCG
Found at i:214108 original size:68 final size:68
Alignment explanation
Indices: 213999--214309 Score: 274
Period size: 68 Copynumber: 4.6 Consensus size: 68
213989 ATATGTGAAC
* *
213999 TCCATATGTTGCCATAGCCGAGCTATGATCTTACATATTATGAACCCATGTTTAATGTCCTTGAG
1 TCCATATGTTGCCATAGTCGAGCTATGATCTTACACATTATGAACCCATGTTTAATGTCCTTGAG
214064 GAA
66 GAA
** * * * *
214067 TCCATATGTTTTCATAGTCGAGCTATGATTTTACACATTATGAACTCATGTTTAATGTTCTAGCA
1 TCCATATGTTGCCATAGTCGAGCTATGATCTTACACATTATGAACCCATGTTTAATGTCCTTG-A
*
214132 -GAC
65 GGAA
* * * * * *
214135 TCCATATGTTGCCATAATTGAGCTATGGTCTTACACGTTATGAATCCATGTTTAATATCC-TG-G
1 TCCATATGTTGCCATAGTCGAGCTATGATCTTACACATTATGAACCCATGTTTAATGTCCTTGAG
214198 GAGA
66 GA-A
** * * * *
214202 CTCCATATGTTATCATA-TCTGAGCTATGGTCTCACACATTATAAAACCATGTTTAATGT-CTTG
1 -TCCATATGTTGCCATAGTC-GAGCTATGATCTTACACATTATGAACCCATGTTTAATGTCCTT-
* *
214265 GAAGAC
63 GAGGAA
* ** * *
214271 TCCAT-TGGATGCCATAGTTAAGCTACGGTCTTACACATT
1 TCCATAT-GTTGCCATAGTCGAGCTATGATCTTACACATT
214310 TACCCCACTA
Statistics
Matches: 194, Mismatches: 39, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
66 2 0.01
67 4 0.02
68 183 0.94
69 3 0.02
70 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.36
Consensus pattern (68 bp):
TCCATATGTTGCCATAGTCGAGCTATGATCTTACACATTATGAACCCATGTTTAATGTCCTTGAG
GAA
Found at i:214241 original size:136 final size:136
Alignment explanation
Indices: 213997--214309 Score: 368
Period size: 136 Copynumber: 2.3 Consensus size: 136
213987 CGATATGTGA
** * * *
213997 ACTCCATATGTTGCCATAGCCGAGCTATGATCTTACATATTATGAACCCATGTTTAATGTCCTTG
1 ACTCCATATGTTGCCATAGTTGAGCTATGGTCTTACACATTATGAACCCATGTTTAATATCCTTG
* * * *
214062 AGGAATCCATATGTTTTCATAGTCGAGCTATGATTTTACACATTAT-GAACTCATGTTTAATGT-
66 AGGAATCCATATGTTATCATAGTCGAGCTATGATCTCACACATTATAAAAC-CATGTTTAATGTC
*
214125 TCTAGCAG
130 T-TAGAAG
* * *
214133 ACTCCATATGTTGCCATAATTGAGCTATGGTCTTACACGTTATGAATCCATGTTTAATATCC-TG
1 ACTCCATATGTTGCCATAGTTGAGCTATGGTCTTACACATTATGAACCCATGTTTAATATCCTTG
*
214197 -GGAGACTCCATATGTTATCATA-TCTGAGCTATGGTCTCACACATTATAAAACCATGTTTAATG
66 AGGA-A-TCCATATGTTATCATAGTC-GAGCTATGATCTCACACATTATAAAACCATGTTTAATG
*
214260 TCTTGGAAG
128 TCTTAGAAG
* * *
214269 ACTCCAT-TGGATGCCATAGTTAAGCTACGGTCTTACACATT
1 ACTCCATAT-GTTGCCATAGTTGAGCTATGGTCTTACACATT
214310 TACCCCACTA
Statistics
Matches: 151, Mismatches: 20, Indels: 12
0.83 0.11 0.07
Matches are distributed among these distances:
134 3 0.02
135 6 0.04
136 138 0.91
137 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (136 bp):
ACTCCATATGTTGCCATAGTTGAGCTATGGTCTTACACATTATGAACCCATGTTTAATATCCTTG
AGGAATCCATATGTTATCATAGTCGAGCTATGATCTCACACATTATAAAACCATGTTTAATGTCT
TAGAAG
Found at i:223546 original size:146 final size:143
Alignment explanation
Indices: 223301--223642 Score: 402
Period size: 146 Copynumber: 2.3 Consensus size: 143
223291 TAGTCGAATT
* * * *
223301 AACCGACGATATGAA-AATGAGCCTAGTTCTAGTTGGATATACCAACAATGTTTTGCGCCAAGCG
1 AACCGACGATGT-AATAATGAGCC-AGCTCTAGTTGGATAAACCAACAATATTTTGCGCCAAGCG
*
223365 ATAGTCAAATAACCGACGATATGTGTGCCCAACACTAGTCAGATAAATTGATGAAGGTTGCGCCC
64 ATAGTCAAATAACCGACGATATGTGTGCCCAACACTAGTCAGATAAACTGATGAAGGTTGCGCCC
* * *
223430 AGCGTTATTCAA-ATA
129 AACGCTAGT-AAGATA
* * *
223445 AACCGACGATGTCAATAATGAGCTCAGCTCTAGTTGGATAAAGCAACAATATTTTGCGCCCAGCT
1 AACCGACGATGT-AATAATGAGC-CAGCTCTAGTTGGATAAACCAACAATATTTTGCGCCAAGCG
* * * *
223510 CTAGT-AGGATTAACCGACGGTATGTGTGCCCAACACTATTCAGATAAACTGATGAAGGTTGCGC
64 ATAGTCA--AATAACCGACGATATGTGTGCCCAACACTAGTCAGATAAACTGATGAAGGTTGCGC
*
223574 CTAACGCTAGTAAGATA
127 CCAACGCTAGTAAGATA
* * * *
223591 AACTGACGATGTAATTAGTGAGCCTGACTCTAATTGGATAAACCAACAATAT
1 AACCGACGATGTAA-TAATGAGCCAG-CTCTAGTTGGATAAACCAACAATAT
223643 ATAATTATTT
Statistics
Matches: 169, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
144 14 0.08
145 51 0.30
146 104 0.62
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (143 bp):
AACCGACGATGTAATAATGAGCCAGCTCTAGTTGGATAAACCAACAATATTTTGCGCCAAGCGAT
AGTCAAATAACCGACGATATGTGTGCCCAACACTAGTCAGATAAACTGATGAAGGTTGCGCCCAA
CGCTAGTAAGATA
Found at i:224964 original size:19 final size:19
Alignment explanation
Indices: 224923--224968 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
224913 TTGACATTTA
* *
224923 ATTTATTAATTTTTTGTTT
1 ATTTATTTATTTTTTGTTC
224942 ATTTATTTATTTATTTG-TC
1 ATTTATTTATTT-TTTGTTC
224961 ATTTATTT
1 ATTTATTT
224969 TCATGCCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTATTTATTTTTTGTTC
Found at i:225069 original size:104 final size:104
Alignment explanation
Indices: 224887--225077 Score: 253
Period size: 104 Copynumber: 1.8 Consensus size: 104
224877 TGCTTTTTTA
224887 TTATTATTTATATTTAATTGTTTATTTTGACATTTAATTTATTAATTTTTTGTTTATTTATTTAT
1 TTATTATTTATATTTAATTGTTTATTTTGACATTTAATTTATTAATTTTTTGTTTATTTATTTAT
*
224952 TTATTTGTCATTTATTTTCATGCCTAATCTCAATTATTT
66 TTAGTTGTCATTTATTTTCATGCCTAATCTCAATTATTT
* ** * * * *
224991 TTATTGTTTATATTTGTTTGTTTATTTT-AGCATTTACTTT-TTATTTTTATTTTTTGTTTATTT
1 TTATTATTTATATTTAATTGTTTATTTTGA-CATTTAATTTATTAATTTT-TTGTTTATTTATTT
*
225054 ATATT-GTTGTTATTTATTTTCATG
64 AT-TTAGTTGTCATTTATTTTCATG
225078 TCATTTTATT
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
103 8 0.11
104 65 0.87
105 2 0.03
ACGTcount: A:0.21, C:0.05, G:0.07, T:0.66
Consensus pattern (104 bp):
TTATTATTTATATTTAATTGTTTATTTTGACATTTAATTTATTAATTTTTTGTTTATTTATTTAT
TTAGTTGTCATTTATTTTCATGCCTAATCTCAATTATTT
Found at i:225085 original size:46 final size:46
Alignment explanation
Indices: 225033--225156 Score: 123
Period size: 46 Copynumber: 2.7 Consensus size: 46
225023 TTTACTTTTT
* *
225033 ATTTTTATT-TTTTGTTTATTTATATTGTTGTTATTT-ATTTTCATGTC
1 ATTTTTATTATTTTGTTTATTTATATT-AT-TTATTTAATTTGCAT-TC
* * * *
225080 A-TTTTATTGTTATCTTTA-TTATTATTATTTATTTAATTTGCATTT
1 ATTTTTATTATTTTGTTTATTTA-TATTATTTATTTAATTTGCATTC
225125 ATTTTTATTATTTTGTTTATTTAT-TTATTTAT
1 ATTTTTATTATTTTGTTTATTTATATTATTTAT
225157 CATTAAATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
45 16 0.25
46 33 0.52
47 15 0.23
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.70
Consensus pattern (46 bp):
ATTTTTATTATTTTGTTTATTTATATTATTTATTTAATTTGCATTC
Found at i:225146 original size:28 final size:26
Alignment explanation
Indices: 225094--225154 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 26
225084 TATTGTTATC
*
225094 TTTATTATTATTATTTATTTAATTTGCA
1 TTTATTTTTATTATTTATTTAATTT--A
*
225122 TTTATTTTTATTATTT-TGTTTATTTA
1 TTTATTTTTATTATTTAT-TTAATTTA
225148 TTTATTT
1 TTTATTT
225155 ATCATTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 8 0.27
27 1 0.03
28 21 0.70
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.72
Consensus pattern (26 bp):
TTTATTTTTATTATTTATTTAATTTA
Found at i:249361 original size:11 final size:11
Alignment explanation
Indices: 249347--249383 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
249337 TCTTCTAAAG
249347 TCTTTCTCATT
1 TCTTTCTCATT
*
249358 TCTTTCTTATT
1 TCTTTCTCATT
*
249369 TCTTTCCCATT
1 TCTTTCTCATT
249380 TCTT
1 TCTT
249384 CCTCTTTTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.08, C:0.27, G:0.00, T:0.65
Consensus pattern (11 bp):
TCTTTCTCATT
Found at i:249976 original size:11 final size:11
Alignment explanation
Indices: 249960--250001 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
249950 CCAAGTCAGA
249960 CCGTTGACCGG
1 CCGTTGACCGG
* *
249971 CCGTTGATCGA
1 CCGTTGACCGG
*
249982 CCGTTGATCGG
1 CCGTTGACCGG
249993 CCGTTGACC
1 CCGTTGACC
250002 ATTGACTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.12, C:0.33, G:0.31, T:0.24
Consensus pattern (11 bp):
CCGTTGACCGG
Found at i:249986 original size:22 final size:22
Alignment explanation
Indices: 249958--249999 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
249948 AACCAAGTCA
249958 GACCGTTGACCGGCCGTTGATC
1 GACCGTTGACCGGCCGTTGATC
*
249980 GACCGTTGATCGGCCGTTGA
1 GACCGTTGACCGGCCGTTGA
250000 CCATTGACTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.29, G:0.33, T:0.24
Consensus pattern (22 bp):
GACCGTTGACCGGCCGTTGATC
Found at i:250013 original size:7 final size:7
Alignment explanation
Indices: 249993--250056 Score: 74
Period size: 7 Copynumber: 9.1 Consensus size: 7
249983 CGTTGATCGG
249993 CCGTTGA
1 CCGTTGA
*
250000 CCATTGA
1 CCGTTGA
*
250007 CTGTTGA
1 CCGTTGA
250014 CCGTTGA
1 CCGTTGA
*
250021 CCGTTAA
1 CCGTTGA
250028 CCGTTGA
1 CCGTTGA
*
250035 TCGTTGA
1 CCGTTGA
*
250042 CCATTGA
1 CCGTTGA
*
250049 CCATTGA
1 CCGTTGA
250056 C
1 C
250057 TTTTTTGAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 48 1.00
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (7 bp):
CCGTTGA
Found at i:250019 original size:21 final size:21
Alignment explanation
Indices: 249993--250056 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
249983 CGTTGATCGG
*
249993 CCGTTGACCATTGACTGTTGA
1 CCGTTGACCATTGACCGTTGA
* *
250014 CCGTTGACCGTTAACCGTTGA
1 CCGTTGACCATTGACCGTTGA
* *
250035 TCGTTGACCATTGACCATTGA
1 CCGTTGACCATTGACCGTTGA
250056 C
1 C
250057 TTTTTTGAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (21 bp):
CCGTTGACCATTGACCGTTGA
Found at i:251106 original size:3 final size:3
Alignment explanation
Indices: 251098--251138 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
251088 TTACATCGTT
251098 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
251139 TTGGTTTTGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:251506 original size:2 final size:2
Alignment explanation
Indices: 251499--251526 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
251489 TTTATGTTAC
251499 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
251527 GATTTATTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:256663 original size:16 final size:16
Alignment explanation
Indices: 256642--256673 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
256632 TCATCTCACA
256642 TAAGAAACCACACTCT
1 TAAGAAACCACACTCT
*
256658 TAAGAAGCCACACTCT
1 TAAGAAACCACACTCT
256674 CACGTAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.31, G:0.09, T:0.19
Consensus pattern (16 bp):
TAAGAAACCACACTCT
Found at i:257675 original size:3 final size:3
Alignment explanation
Indices: 257667--257715 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
257657 ATTTACATCG
257667 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
257715 T
1 T
257716 GTTTTGGGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:265279 original size:91 final size:91
Alignment explanation
Indices: 265134--265314 Score: 308
Period size: 91 Copynumber: 2.0 Consensus size: 91
265124 CCATTAGCTC
* * *
265134 TCTACGCCTATAGAACGTCTGTCAGAACTTGTACTGGGGTAACACCGTTCTCATTAGCATATGAA
1 TCTACACCTATAGAACGTCTGTCAGAACTTCTACTAGGGTAACACCGTTCTCATTAGCATATGAA
* *
265199 ATGAAGGCAATTCTGCCCATTGAAGT
66 ATGAAGGCAATTCTACCAATTGAAGT
*
265225 TCTACACCTATAGAACGTCTGTCAGAACTTCTACTAGGGTAACACCGTTCTCATTAGTATATGAA
1 TCTACACCTATAGAACGTCTGTCAGAACTTCTACTAGGGTAACACCGTTCTCATTAGCATATGAA
265290 ATGAAGGCAATTCTACCAATTGAAG
66 ATGAAGGCAATTCTACCAATTGAAG
265315 CCGAGATTCC
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
91 84 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.29
Consensus pattern (91 bp):
TCTACACCTATAGAACGTCTGTCAGAACTTCTACTAGGGTAACACCGTTCTCATTAGCATATGAA
ATGAAGGCAATTCTACCAATTGAAGT
Found at i:266971 original size:49 final size:49
Alignment explanation
Indices: 266890--267584 Score: 502
Period size: 49 Copynumber: 14.2 Consensus size: 49
266880 ATAGAGTTTG
* * * * ** *
266890 AAGAAGGATAGGTTGAAGCAGTAACAGCAGACCTAACATCTTAAAATCA
1 AAGAGGGATAGGTTGAAGCCGCAACGGTGGACCTAACACCTTAAAATCA
* * * * *
266939 AATAGGGAAAGGTTGAAGCCACAACGGTAGACCTTACACCTTAAAA-CTA
1 AAGAGGGATAGGTTGAAGCCGCAACGGTGGACCTAACACCTTAAAATC-A
** * *
266988 AAGAGGGATAGGTTGAAGCCATAACGGCGGACCTAACACCTTAAAATCG
1 AAGAGGGATAGGTTGAAGCCGCAACGGTGGACCTAACACCTTAAAATCA
* * * * *
267037 AAGAGGTAAAGATTGAAGCCGCAACGGTGGATCTTACACCTTAAAATCA
1 AAGAGGGATAGGTTGAAGCCGCAACGGTGGACCTAACACCTTAAAATCA
* * * * * *
267086 AAAAGGGATAGGTTAAAGTCACAACGATGAACCTAACATCC-TAAAATCA
1 AAGAGGGATAGGTTGAAGCCGCAACGGTGGACCTAACA-CCTTAAAATCA
* * * *** * *
267135 AAGAGAGATAGATTGAAGTCGCAACAACGGATCTAACATCC-TAAAATCG
1 AAGAGGGATAGGTTGAAGCCGCAACGGTGGACCTAACA-CCTTAAAATCA
* * * * *
267184 AAGAGGGAAAGGTTGAAGCCGTAACGATGGACCTTACACCTTAAAACTGA
1 AAGAGGGATAGGTTGAAGCCGCAACGGTGGACCTAACACCTTAAAA-TCA
* * * ** * ** * *
267234 AA-AGGGACAGGTTAAAGCCGTAACGGCAGACCTAAAACCCAAAAAACCG
1 AAGAGGGATAGGTTGAAGCCGCAACGGTGGACCTAACA-CCTTAAAATCA
* * * * ** * * *
267283 AGGAGGGAAAGATTGAAGTCGCAACGACGGATCTTACACCTTAAAATCG
1 AAGAGGGATAGGTTGAAGCCGCAACGGTGGACCTAACACCTTAAAATCA
* * ** *
267332 AAGAGGGATAGGTTGAAGTCACAACGACGGACCTAACACCTTAAAATCG
1 AAGAGGGATAGGTTGAAGCCGCAACGGTGGACCTAACACCTTAAAATCA
* ** * * * *
267381 AAGAGGGATAGATTGAAGCTACAATGGTGGATCTAACACCCTAAAACCA
1 AAGAGGGATAGGTTGAAGCCGCAACGGTGGACCTAACACCTTAAAATCA
* * * * * ** *
267430 AAAAGGGAAAGGTTAAAGTCGCAACAGCAGACCTTACACCTTAAAA-CTA
1 AAGAGGGATAGGTTGAAGCCGCAACGGTGGACCTAACACCTTAAAATC-A
* * *
267479 AAGAGGGATAGGTTGAAGCCGCAATGGTGGACCTAACACCCTAAAA-CTG
1 AAGAGGGATAGGTTGAAGCCGCAACGGTGGACCTAACACCTTAAAATC-A
* * * * *
267528 AAGAGAGATAGGTTAAAGCCGTAACGGTGGACCTAACACCCTAAAATTA
1 AAGAGGGATAGGTTGAAGCCGCAACGGTGGACCTAACACCTTAAAATCA
267577 AAGAGGGA
1 AAGAGGGA
267585 AAGATTTAAA
Statistics
Matches: 505, Mismatches: 132, Indels: 18
0.77 0.20 0.03
Matches are distributed among these distances:
48 4 0.01
49 464 0.92
50 37 0.07
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.17
Consensus pattern (49 bp):
AAGAGGGATAGGTTGAAGCCGCAACGGTGGACCTAACACCTTAAAATCA
Found at i:267171 original size:147 final size:147
Alignment explanation
Indices: 266919--267590 Score: 611
Period size: 147 Copynumber: 4.6 Consensus size: 147
266909 AGTAACAGCA
* * * * *
266919 GACCTAACATCTTAAAATC-AAATAGGGAAAGGTTGAAGCCACAACGGT-AGACCTTACACCTTA
1 GACCTAACACCTTAAAATCGAAA-AGGGATAGGTTAAAGCCACAACGGTGA-ACCTAACACCCTA
* * * * ** ** *
266982 AAACTAAAGAGGGATAGGTTGAAGCCATAACGGCGGACCTAACACCTTAAAATCGAAGAGGTAAA
64 AAACCAAAGAGGGAAAGATTGAAGTCGCAACAACGGACCTAACACCTTAAAATCGAAGAGGGAAA
* *
267047 GATTGAAGCCGCAACGGTG
129 GGTTGAAGCCGCAACGATG
* * * * * *
267066 GATCTTACACCTTAAAATCAAAAAGGGATAGGTTAAAGTCACAACGATGAACCTAACATCCTAAA
1 GACCTAACACCTTAAAATCGAAAAGGGATAGGTTAAAGCCACAACGGTGAACCTAACACCCTAAA
* * * *
267131 ATCAAAGAGAGATAGATTGAAGTCGCAACAACGGATCTAACATCC-TAAAATCGAAGAGGGAAAG
66 ACCAAAGAGGGAAAGATTGAAGTCGCAACAACGGACCTAACA-CCTTAAAATCGAAGAGGGAAAG
*
267195 GTTGAAGCCGTAACGATG
130 GTTGAAGCCGCAACGATG
* * ** * * *
267213 GACCTTACACCTTAAAA-CTGAAAAGGGACAGGTTAAAGCCGTAACGG-CAGACCTAAAACCCAA
1 GACCTAACACCTTAAAATC-GAAAAGGGATAGGTTAAAGCCACAACGGTGA-ACCTAACACCC-T
* * * * * *
267276 AAAACCGAGGAGGGAAAGATTGAAGTCGCAACGACGGATCTTACACCTTAAAATCGAAGAGGGAT
63 AAAACCAAAGAGGGAAAGATTGAAGTCGCAACAACGGACCTAACACCTTAAAATCGAAGAGGGAA
* * *
267341 AGGTTGAAGTCACAACGACG
128 AGGTTGAAGCCGCAACGATG
* * * * * * *
267361 GACCTAACACCTTAAAATCGAAGAGGGATAGATTGAAGCTACAATGGTGGATCTAACACCCTAAA
1 GACCTAACACCTTAAAATCGAAAAGGGATAGGTTAAAGCCACAACGGTGAACCTAACACCCTAAA
* * * * * * * *
267426 ACCAAAAAGGGAAAGGTTAAAGTCGCAACAGCAGACCTTACACCTTAAAA-CTAAAGAGGGATAG
66 ACCAAAGAGGGAAAGATTGAAGTCGCAACAACGGACCTAACACCTTAAAATC-GAAGAGGGAAAG
* *
267490 GTTGAAGCCGCAATGGTG
130 GTTGAAGCCGCAACGATG
* * * ** *
267508 GACCTAACACCCTAAAA-CTGAAGAGAGATAGGTTAAAGCCGTAACGGTGGACCTAACACCCTAA
1 GACCTAACACCTTAAAATC-GAAAAGGGATAGGTTAAAGCCACAACGGTGAACCTAACACCCTAA
**
267572 AATTAAAGAGGGAAAGATT
65 AACCAAAGAGGGAAAGATT
267591 TAAAGAGGGA
Statistics
Matches: 425, Mismatches: 89, Indels: 22
0.79 0.17 0.04
Matches are distributed among these distances:
146 4 0.01
147 299 0.70
148 121 0.28
149 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.17
Consensus pattern (147 bp):
GACCTAACACCTTAAAATCGAAAAGGGATAGGTTAAAGCCACAACGGTGAACCTAACACCCTAAA
ACCAAAGAGGGAAAGATTGAAGTCGCAACAACGGACCTAACACCTTAAAATCGAAGAGGGAAAGG
TTGAAGCCGCAACGATG
Found at i:267664 original size:49 final size:49
Alignment explanation
Indices: 267592--267698 Score: 214
Period size: 49 Copynumber: 2.2 Consensus size: 49
267582 GGAAAGATTT
267592 AAAGAGGGATAGGTTGAAGGAGAGACGATGAACCTAACACCTTAAAACC
1 AAAGAGGGATAGGTTGAAGGAGAGACGATGAACCTAACACCTTAAAACC
267641 AAAGAGGGATAGGTTGAAGGAGAGACGATGAACCTAACACCTTAAAACC
1 AAAGAGGGATAGGTTGAAGGAGAGACGATGAACCTAACACCTTAAAACC
267690 AAAGAGGGA
1 AAAGAGGGA
267699 ACAGATTGAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 58 1.00
ACGTcount: A:0.44, C:0.15, G:0.28, T:0.13
Consensus pattern (49 bp):
AAAGAGGGATAGGTTGAAGGAGAGACGATGAACCTAACACCTTAAAACC
Found at i:267677 original size:114 final size:115
Alignment explanation
Indices: 267477--267705 Score: 266
Period size: 114 Copynumber: 2.0 Consensus size: 115
267467 ACCTTAAAAC
* * * * **
267477 TAAAGAGGGATAGGTTGAAGCCGCAATGGTGGACCTAACACCCTAAAACTGAAGAGAGATAGGTT
1 TAAAGAGGGATAGGTTGAAGCAGCAACGATGAACCTAACACCCTAAAACCAAAGAGAGATAGGTT
* * * **
267542 AAAGCCGTAACGGTGGACCTAACACCCTAAAATTAAAGAGGGAA-AGATT
66 AAAGCAGTAACGATGAACCTAACACCCTAAAACCAAAGAGGGAACAGATT
* * *
267591 TAAAGAGGGATAGGTTGAAGGAG-AGACGATGAACCTAACACCTTAAAACCAAAGAGGGATAGGT
1 TAAAGAGGGATAGGTTGAAGCAGCA-ACGATGAACCTAACACCCTAAAACCAAAGAGAGATAGGT
* * *
267655 TGAAGGAG-AGACGATGAACCTAACACCTTAAAACCAAAGAGGGAACAGATT
65 TAAAGCAGTA-ACGATGAACCTAACACCCTAAAACCAAAGAGGGAACAGATT
267706 GAAGCCGCAA
Statistics
Matches: 95, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
113 2 0.02
114 88 0.93
115 5 0.05
ACGTcount: A:0.41, C:0.16, G:0.27, T:0.16
Consensus pattern (115 bp):
TAAAGAGGGATAGGTTGAAGCAGCAACGATGAACCTAACACCCTAAAACCAAAGAGAGATAGGTT
AAAGCAGTAACGATGAACCTAACACCCTAAAACCAAAGAGGGAACAGATT
Found at i:268655 original size:15 final size:16
Alignment explanation
Indices: 268630--268667 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
268620 TTATTTTGAC
268630 ATTTAGTTTATTAATTT
1 ATTT-GTTTATTAATTT
*
268647 -TTTGTTTATTTATTT
1 ATTTGTTTATTAATTT
268662 ATTTGT
1 ATTTGT
268668 CATTGATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.71
Consensus pattern (16 bp):
ATTTGTTTATTAATTT
Found at i:272631 original size:20 final size:21
Alignment explanation
Indices: 272606--272652 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
272596 ATGTTAGATT
* *
272606 CAAACA-GGTACACCGCAGTG
1 CAAACATGGGACACCGAAGTG
*
272626 CAAACATGGGGCACCGAAGTG
1 CAAACATGGGACACCGAAGTG
272647 CAAACA
1 CAAACA
272653 CAATCAACAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.38, C:0.28, G:0.26, T:0.09
Consensus pattern (21 bp):
CAAACATGGGACACCGAAGTG
Found at i:279915 original size:18 final size:18
Alignment explanation
Indices: 279894--279945 Score: 72
Period size: 17 Copynumber: 2.9 Consensus size: 18
279884 ATAAAAAATA
279894 AAAAAGGAAGAGAAAAA-G
1 AAAAAGGAA-AGAAAAAGG
279912 AAAAA-GAAAGAAAAAGG
1 AAAAAGGAAAGAAAAAGG
279929 AAAAAGGAAAAGAAAAA
1 AAAAAGG-AAAGAAAAA
279946 AAAGAAGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.23
17 9 0.29
18 6 0.19
19 9 0.29
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (18 bp):
AAAAAGGAAAGAAAAAGG
Found at i:279925 original size:28 final size:28
Alignment explanation
Indices: 279880--279951 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 28
279870 TCCATCCCAA
* * *
279880 AAAAATAAAAAATA-AAAAAGG-AAGAG
1 AAAAAGAAAAAAAAGAAAAAGGAAAAAG
279906 AAAAAGAAAAAGAAAGAAAAAGGAAAAAG
1 AAAAAGAAAAA-AAAGAAAAAGGAAAAAG
*
279935 GAAAAGAAAAAAAAGAA
1 AAAAAGAAAAAAAAGAA
279952 GTAAAAAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
26 10 0.26
27 2 0.05
28 13 0.33
29 14 0.36
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (28 bp):
AAAAAGAAAAAAAAGAAAAAGGAAAAAG
Found at i:279933 original size:35 final size:34
Alignment explanation
Indices: 279894--279963 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 34
279884 ATAAAAAATA
*
279894 AAAAAGGAAGAGAAAAAGAAA-AAGAAAGAAAAAGG
1 AAAAAGGAAAAGAAAAA-AAAGAAGAAA-AAAAAGG
*
279929 AAAAAGGAAAAGAAAAAAAAGAAGTAAAAAAAGG
1 AAAAAGGAAAAGAAAAAAAAGAAGAAAAAAAAGG
279963 A
1 A
279964 GAGGTTGAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
34 11 0.34
35 21 0.66
ACGTcount: A:0.76, C:0.00, G:0.23, T:0.01
Consensus pattern (34 bp):
AAAAAGGAAAAGAAAAAAAAGAAGAAAAAAAAGG
Found at i:279939 original size:23 final size:22
Alignment explanation
Indices: 279887--279949 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
279877 CAAAAAAATA
*
279887 AAAAATAAAAAAGGAAGAGAAAAAG
1 AAAAAGAAAAAA--AAG-GAAAAAG
279912 AAAAAGAAAGAAAAAGGAAAAAG
1 AAAAAGAAA-AAAAAGGAAAAAG
*
279935 GAAAAGAAAAAAAAG
1 AAAAAGAAAAAAAAG
279950 AAGTAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 6 0.17
23 15 0.43
24 3 0.09
25 8 0.23
26 3 0.09
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.02
Consensus pattern (22 bp):
AAAAAGAAAAAAAAGGAAAAAG
Done.