Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014973.1 Kokia drynarioides strain JFW-HI SEQ_130017, 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: 256115
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 33 characters in sequence are not A, C, G, or T
Found at i:167 original size:23 final size:23
Alignment explanation
Indices: 137--284 Score: 110
Period size: 23 Copynumber: 6.4 Consensus size: 23
127 ACGCTAGCGC
137 GCTTACTGTTTCGCACT-TCGTGT
1 GCTTACTGTTTCGCACTGT-GTGT
* *
160 GCTTACTGTTTCGCACTTTGTTT
1 GCTTACTGTTTCGCACTGTGTGT
* * * *
183 GCCTACTGATTCG--CTATGTGC
1 GCTTACTGTTTCGCACTGTGTGT
* *
204 GCCTACTGATT-GCACTGTGTGT
1 GCTTACTGTTTCGCACTGTGTGT
* *
226 GCCTACTGGATT-GCACTGTGTGT
1 GCTTACT-GTTTCGCACTGTGTGT
249 GCTTACTGTTTCCCTAGCACT-TGTGT
1 GCTTACTGTTT--C--GCACTGTGTGT
275 GCTTACTGTT
1 GCTTACTGTT
285 AAGTACTTCG
Statistics
Matches: 106, Mismatches: 10, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
20 1 0.01
21 16 0.15
22 16 0.15
23 52 0.49
24 1 0.01
26 15 0.14
27 5 0.05
ACGTcount: A:0.11, C:0.24, G:0.23, T:0.41
Consensus pattern (23 bp):
GCTTACTGTTTCGCACTGTGTGT
Found at i:11508 original size:27 final size:27
Alignment explanation
Indices: 11477--11533 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
11467 TGAATTAATG
11477 TATAATATTATATATAAATTGATTTTA
1 TATAATATTATATATAAATTGATTTTA
* * **
11504 TATAATTTTATATATGAATTTTTTTTA
1 TATAATATTATATATAAATTGATTTTA
11531 TAT
1 TAT
11534 TTGTCAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.58
Consensus pattern (27 bp):
TATAATATTATATATAAATTGATTTTA
Found at i:12656 original size:55 final size:57
Alignment explanation
Indices: 12586--12711 Score: 193
Period size: 55 Copynumber: 2.2 Consensus size: 57
12576 GATGTGCTAT
* *
12586 ATAACAATCAATTTAAACATATAAACAATTGATTC-AA-AAGAAGCAATATTCCAAC
1 ATAACAATCGATTTAAACATATAAACAATCGATTCAAAGAAGAAGCAATATTCCAAC
* *
12641 ATAACAATCGGTTTAAACATATAAACAATCGATTCAAAAGAAGAAGCAATATTCCACC
1 ATAACAATCGATTTAAACATATAAACAATCGATTC-AAAGAAGAAGCAATATTCCAAC
12699 ATAACAATCGATT
1 ATAACAATCGATT
12712 CACAAGAAAC
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
55 32 0.51
57 2 0.03
58 29 0.46
ACGTcount: A:0.50, C:0.17, G:0.08, T:0.25
Consensus pattern (57 bp):
ATAACAATCGATTTAAACATATAAACAATCGATTCAAAGAAGAAGCAATATTCCAAC
Found at i:12722 original size:18 final size:18
Alignment explanation
Indices: 12701--12756 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
12691 ATTCCACCAT
12701 AACAATCGATTCACAAGA
1 AACAATCGATTCACAAGA
* *
12719 AAC-AGC-ATTC-CAATA
1 AACAATCGATTCACAAGA
12734 TAACAATCGATTCACAAGA
1 -AACAATCGATTCACAAGA
12753 AACA
1 AACA
12757 GCATTCCAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
15 4 0.13
16 7 0.23
17 4 0.13
18 11 0.37
19 4 0.13
ACGTcount: A:0.50, C:0.23, G:0.09, T:0.18
Consensus pattern (18 bp):
AACAATCGATTCACAAGA
Found at i:12722 original size:55 final size:55
Alignment explanation
Indices: 12598--12708 Score: 150
Period size: 58 Copynumber: 2.0 Consensus size: 55
12588 AACAATCAAT
* * *
12598 TTAAACATATAAACAATTGATTCAAAAGAAGCAATATTCCAACATAACAATCGGT
1 TTAAACATAGAAACAATCGATTCAAAAGAAGCAATATTCCAACATAACAATCGGA
* *
12653 TTAAACATATAAACAATCGATTCAAAAGAAGAAGCAATATTCCACCATAACAATCG
1 TTAAACATAGAAACAATCGATTC--AA-AAGAAGCAATATTCCAACATAACAATCG
12709 ATTCACAAGA
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
55 22 0.43
57 2 0.04
58 27 0.53
ACGTcount: A:0.50, C:0.18, G:0.09, T:0.23
Consensus pattern (55 bp):
TTAAACATAGAAACAATCGATTCAAAAGAAGCAATATTCCAACATAACAATCGGA
Found at i:12729 original size:34 final size:34
Alignment explanation
Indices: 12659--12779 Score: 163
Period size: 34 Copynumber: 3.4 Consensus size: 34
12649 CGGTTTAAAC
*
12659 ATATAAACAATCGATTCAAAAGAAGA-AGCAATATTCCA
1 ATAT-AACAATCGATTCACAAGAA-ACAGC---ATTCCA
**
12697 CCATAACAATCGATTCACAAGAAACAGCATTCCA
1 ATATAACAATCGATTCACAAGAAACAGCATTCCA
12731 ATATAACAATCGATTCACAAGAAACAGCATTCCA
1 ATATAACAATCGATTCACAAGAAACAGCATTCCA
12765 ATATAACAATCGATT
1 ATATAACAATCGATT
12780 TAAACATATA
Statistics
Matches: 77, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
34 53 0.69
36 1 0.01
37 21 0.27
38 2 0.03
ACGTcount: A:0.48, C:0.21, G:0.09, T:0.21
Consensus pattern (34 bp):
ATATAACAATCGATTCACAAGAAACAGCATTCCA
Found at i:12738 original size:16 final size:16
Alignment explanation
Indices: 12719--12772 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
12709 ATTCACAAGA
12719 AACAGCATTCCAATAT
1 AACAGCATTCCAATAT
* *
12735 AACAATCGATTCACAAGA-
1 AAC-AGC-ATTC-CAATAT
12753 AACAGCATTCCAATAT
1 AACAGCATTCCAATAT
12769 AACA
1 AACA
12773 ATCGATTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
15 4 0.13
16 11 0.37
17 4 0.13
18 7 0.23
19 4 0.13
ACGTcount: A:0.48, C:0.24, G:0.07, T:0.20
Consensus pattern (16 bp):
AACAGCATTCCAATAT
Found at i:12790 original size:20 final size:21
Alignment explanation
Indices: 12765--12804 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
12755 CAGCATTCCA
12765 ATAT-AACAATCGATTTAAAC
1 ATATAAACAATCGATTTAAAC
12785 ATATAAACAATCGATTTAAA
1 ATATAAACAATCGATTTAAA
12805 AGAAGAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (21 bp):
ATATAAACAATCGATTTAAAC
Found at i:12921 original size:55 final size:55
Alignment explanation
Indices: 12833--12954 Score: 165
Period size: 55 Copynumber: 2.2 Consensus size: 55
12823 CCACCATAGT
* * * *
12833 AATCGATTCAAAAGAACCAATATTCCAACATGACAATTGATTTAAACATATAAAC
1 AATCGATTCAAAAGAAACAATATCCCAACATGACAATCGATTTAAACATAAAAAC
* * *
12888 AATCGATTCAAAAGAAATAGTATCCCAATATGACAATCGATTTAAACATAAAAAC
1 AATCGATTCAAAAGAAACAATATCCCAACATGACAATCGATTTAAACATAAAAAC
*
12943 AATC-ATCCAAAA
1 AATCGATTCAAAA
12955 AAAAAAAGCA
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
54 7 0.12
55 52 0.88
ACGTcount: A:0.51, C:0.18, G:0.07, T:0.24
Consensus pattern (55 bp):
AATCGATTCAAAAGAAACAATATCCCAACATGACAATCGATTTAAACATAAAAAC
Found at i:20304 original size:4 final size:4
Alignment explanation
Indices: 20295--20346 Score: 68
Period size: 4 Copynumber: 13.0 Consensus size: 4
20285 GCTGTGTATA
* * * *
20295 CATG CATG CATG CATG CATG CATG TATG TATG TATG TATG CATG CATG
1 CATG CATG CATG CATG CATG CATG CATG CATG CATG CATG CATG CATG
20343 CATG
1 CATG
20347 TATTTATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (4 bp):
CATG
Found at i:23317 original size:4 final size:4
Alignment explanation
Indices: 23308--23355 Score: 87
Period size: 4 Copynumber: 12.0 Consensus size: 4
23298 ATATATCACC
*
23308 ACAT ACAT ACAT ACAT ACAT ACAT ACAC ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
23356 TAACCAAGCT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:26115 original size:24 final size:23
Alignment explanation
Indices: 26083--26129 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
26073 TTCAGTAATT
*
26083 TTTTTATATGTTATTGATACATAA
1 TTTTGATATGTTATTGA-ACATAA
* *
26107 TTTTGATATTTTATTTAACATAA
1 TTTTGATATGTTATTGAACATAA
26130 ACCTCAAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.55
Consensus pattern (23 bp):
TTTTGATATGTTATTGAACATAA
Found at i:28636 original size:19 final size:20
Alignment explanation
Indices: 28607--28647 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
28597 CTCGAATCCC
*
28607 CGAATTTCAAACTTTGGACT
1 CGAATTTCAAACCTTGGACT
28627 CGAA-TTCAAACCTTGGACT
1 CGAATTTCAAACCTTGGACT
28646 CG
1 CG
28648 GTTCAAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (20 bp):
CGAATTTCAAACCTTGGACT
Found at i:28814 original size:22 final size:23
Alignment explanation
Indices: 28771--28815 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
28761 CTATATATTA
**
28771 ATCATATAAAAAATTACTAAAAT
1 ATCATATAAAAAATTAAAAAAAT
*
28794 ATCAT-TAAATAATTAAAAAAAT
1 ATCATATAAAAAATTAAAAAAAT
28816 TATGAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
ATCATATAAAAAATTAAAAAAAT
Found at i:28816 original size:31 final size:30
Alignment explanation
Indices: 28742--28817 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 30
28732 CAATCTTCAA
28742 AATAAAAAAATTACTAATACTATATATTAAT
1 AATAAAAAAATTACTAATAC-ATATATTAAT
*
28773 CATATAAAAAATTACTAA-A-ATATCATTAAAT
1 AATA-AAAAAATTACTAATACATAT-ATT-AAT
28804 AATTAAAAAAATTA
1 AA-TAAAAAAATTA
28818 TGAATAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
29 4 0.10
30 3 0.08
31 17 0.44
32 15 0.38
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.33
Consensus pattern (30 bp):
AATAAAAAAATTACTAATACATATATTAAT
Found at i:47259 original size:18 final size:19
Alignment explanation
Indices: 47224--47261 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
47214 AAAACATAAC
* *
47224 AAAAAAATTATTTCAATTA
1 AAAAAAATAAATTCAATTA
47243 AAAAAAATAAATT-AATTA
1 AAAAAAATAAATTCAATTA
47261 A
1 A
47262 TTAATATTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAAAATAAATTCAATTA
Found at i:47263 original size:22 final size:22
Alignment explanation
Indices: 47224--47265 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
47214 AAAACATAAC
*
47224 AAAAAAATTATTTCAATTAAAA
1 AAAAAAATTAATTCAATTAAAA
47246 AAAATAAATTAATT-AATTAA
1 AAAA-AAATTAATTCAATTAA
47266 TATTCTACGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAAAAATTAATTCAATTAAAA
Found at i:49550 original size:30 final size:30
Alignment explanation
Indices: 49514--49578 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
49504 TAAATTTAAC
* *
49514 TAAAAATCAATTTAATCTTCATAAAATAAT
1 TAAAAATCAATTAAATCATCATAAAATAAT
* *
49544 TAAAAATTAATTAAATCATCATTAAATAAT
1 TAAAAATCAATTAAATCATCATAAAATAAT
49574 TAAAA
1 TAAAA
49579 GGTAAATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (30 bp):
TAAAAATCAATTAAATCATCATAAAATAAT
Found at i:49787 original size:22 final size:23
Alignment explanation
Indices: 49762--49814 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
49752 AAATTGATTG
*
49762 TAATTTTATTTAA-TTAATTTTT
1 TAATTTTATTTAAGTGAATTTTT
* *
49784 TAATTAT-TTTAAGTGAGTTTTT
1 TAATTTTATTTAAGTGAATTTTT
49806 TAATATTTA
1 TAAT-TTTA
49815 GACCTAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 5 0.21
22 17 0.71
23 2 0.08
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (23 bp):
TAATTTTATTTAAGTGAATTTTT
Found at i:50048 original size:24 final size:21
Alignment explanation
Indices: 50005--50056 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 21
49995 GAATAAATTA
50005 AAAATAACATATATTTTATTT
1 AAAATAACATATATTTTATTT
50026 AAAATAACCATATATTATATATTT
1 AAAATAA-CATATATT-T-TATTT
*
50050 AGAATAA
1 AAAATAA
50057 TTTAAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 7 0.26
22 8 0.30
23 1 0.04
24 11 0.41
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (21 bp):
AAAATAACATATATTTTATTT
Found at i:56376 original size:29 final size:27
Alignment explanation
Indices: 56312--56376 Score: 69
Period size: 31 Copynumber: 2.3 Consensus size: 27
56302 GTTTCATGTT
56312 TATAATTGCATCAAATTAAAATTCATG
1 TATAATTGCATCAAATTAAAATTCATG
*
56339 TATACAATTGCA-CATTAATTCAAAATTTATG
1 TAT--AATTGCATCA--AATT-AAAATTCATG
56370 TATAATT
1 TATAATT
56377 TTGAGATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
27 3 0.09
28 2 0.06
29 11 0.34
30 4 0.12
31 12 0.38
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (27 bp):
TATAATTGCATCAAATTAAAATTCATG
Found at i:56999 original size:2 final size:2
Alignment explanation
Indices: 56994--57028 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
56984 GAATAAAAGG
56994 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57029 TATTGCAGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:57420 original size:17 final size:18
Alignment explanation
Indices: 57382--57420 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
57372 TATGTGTTGT
*
57382 AAATTACATAATATATAA
1 AAATAACATAATATATAA
57400 AAATAACATAATATA-AA
1 AAATAACATAATATATAA
57417 AAAT
1 AAAT
57421 TATTCTATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (18 bp):
AAATAACATAATATATAA
Found at i:64036 original size:15 final size:16
Alignment explanation
Indices: 64009--64039 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
63999 AATTCTTAGT
64009 TTTTTTAGTATTATTA
1 TTTTTTAGTATTATTA
64025 TTTTTTAG-ATTATTA
1 TTTTTTAGTATTATTA
64040 GATTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (16 bp):
TTTTTTAGTATTATTA
Found at i:66215 original size:2 final size:2
Alignment explanation
Indices: 66208--66233 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
66198 GCCATCTATA
66208 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
66234 ATATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:67745 original size:16 final size:16
Alignment explanation
Indices: 67724--67757 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
67714 ATCAAAGTTT
*
67724 TATTTTAATTTTTATA
1 TATTTTAATTTTAATA
*
67740 TATTTTTATTTTAATA
1 TATTTTAATTTTAATA
67756 TA
1 TA
67758 CACATTTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTTAATTTTAATA
Found at i:72019 original size:44 final size:43
Alignment explanation
Indices: 71954--72077 Score: 121
Period size: 44 Copynumber: 2.9 Consensus size: 43
71944 AAACGCATAA
* *
71954 AAAAATAA-ACATCCAAACAACAAAAATAACAATCAAAATAGCAGC
1 AAAAATAACA-ATCAAAACAACAAAAATAACAA-CAAAATAACA-C
* *
71999 AAAAATAACAGT-AAAACAACAAAAATAGCAGGA-AAAATAACAC
1 AAAAATAACAATCAAAACAACAAAAATAACA--ACAAAATAACAC
* *
72042 GAAAATAACAATCAAAACAATAAAAA-AACAACAAAA
1 AAAAATAACAATCAAAACAACAAAAATAACAACAAAA
72078 AAATCAATCA
Statistics
Matches: 66, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
41 1 0.02
42 4 0.06
43 14 0.21
44 36 0.55
45 9 0.14
46 2 0.03
ACGTcount: A:0.69, C:0.16, G:0.06, T:0.10
Consensus pattern (43 bp):
AAAAATAACAATCAAAACAACAAAAATAACAACAAAATAACAC
Found at i:77088 original size:94 final size:94
Alignment explanation
Indices: 76919--77089 Score: 270
Period size: 94 Copynumber: 1.8 Consensus size: 94
76909 GTTCTCATGC
* *
76919 AATCCCATTTCCCACCCCAAGTTATCAATAAATATGGGAAGTTTTGCTGACTTAATGGTAAGAGT
1 AATCCCATTTCCCACCCCAAATTACCAATAAATATGGGAAGTTTTGCTGACTTAATGGTAAGAGT
*
76984 ATTATGTTGTAAGCATGAGAATTTGAATT
66 ATTATATTGTAAGCATGAGAATTTGAATT
* * * * *
77013 AATCTCATTTCTCACCCCAAATTACCAATATATATGGGAAGTTTTGTTGACTTAGTGGTAAGAGT
1 AATCCCATTTCCCACCCCAAATTACCAATAAATATGGGAAGTTTTGCTGACTTAATGGTAAGAGT
77078 ATTATATTGTAA
66 ATTATATTGTAA
77090 ATAAGAGAAC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
94 69 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.36
Consensus pattern (94 bp):
AATCCCATTTCCCACCCCAAATTACCAATAAATATGGGAAGTTTTGCTGACTTAATGGTAAGAGT
ATTATATTGTAAGCATGAGAATTTGAATT
Found at i:77187 original size:109 final size:104
Alignment explanation
Indices: 77013--77227 Score: 259
Period size: 109 Copynumber: 2.0 Consensus size: 104
77003 AATTTGAATT
* ** *** *
77013 AATCTCATTTCTCACCCCAAATTACCAATATATATGGGAAGTTTTGTTGACTTAGTGGTAAGAGT
1 AATCCCATTTCTCACCCCAAATTACCAATATATATGAAAAGTTTTACCGACTTAGTAGTAAGAGT
* *
77078 ATTATATTGTAAATAAGAGAACTTGAATAGTTAATCTCATGC
66 ATTATATTATAAATAAGAGAACTT--A-AGTTAATATCATGC
* *
77120 AATCCCATTTCTCACCCCAAATTATCTATATATATATGAAAAGTTTTACCGACTTAGTAGTACGA
1 AATCCCATTTCTCACCCCAAATTA-CCA-ATATATATGAAAAGTTTTACCGACTTAGTAGTAAGA
* * *
77185 GTATTATGTTATAAGTACGAGAACTTAAGTTAATATCATGC
64 GTATTATATTATAAATAAGAGAACTTAAGTTAATATCATGC
77226 AA
1 AA
77228 ATCCGTTCCC
Statistics
Matches: 92, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
106 15 0.16
107 24 0.26
108 2 0.02
109 51 0.55
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (104 bp):
AATCCCATTTCTCACCCCAAATTACCAATATATATGAAAAGTTTTACCGACTTAGTAGTAAGAGT
ATTATATTATAAATAAGAGAACTTAAGTTAATATCATGC
Found at i:79816 original size:4 final size:4
Alignment explanation
Indices: 79807--79842 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
79797 AGTGAATTTA
*
79807 CTTT CTTT CTTT CTTT CTTT CTTT CTTC CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
79843 TCTTAAATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (4 bp):
CTTT
Found at i:97706 original size:19 final size:18
Alignment explanation
Indices: 97675--97713 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
97665 TTGTGCATGA
* *
97675 ATTTTGATTAATTTAATG
1 ATTTTAATTAATTCAATG
97693 ATTTTAATTGAATTCAATG
1 ATTTTAATT-AATTCAATG
97712 AT
1 AT
97714 ATAATGTGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (18 bp):
ATTTTAATTAATTCAATG
Found at i:112833 original size:62 final size:62
Alignment explanation
Indices: 112736--112859 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
112726 ATGCCAATCA
112736 ACGTTAAAACTCAATCGACGATAATTTTATTTTAATTTGATATTATTACGTGTTAATTCTAT
1 ACGTTAAAACTCAATCGACGATAATTTTATTTTAATTTGATATTATTACGTGTTAATTCTAT
112798 ACGTTAAAACTCAATCGACGATAATTTTATTTTAATTTGATATTATTACGTGTTAATTCTAT
1 ACGTTAAAACTCAATCGACGATAATTTTATTTTAATTTGATATTATTACGTGTTAATTCTAT
112860 CTAAATTTAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.45
Consensus pattern (62 bp):
ACGTTAAAACTCAATCGACGATAATTTTATTTTAATTTGATATTATTACGTGTTAATTCTAT
Found at i:115485 original size:18 final size:16
Alignment explanation
Indices: 115453--115496 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
115443 ATGAGATGAG
115453 AATAAATTTTTAATTA
1 AATAAATTTTTAATTA
115469 AATAAA--TTTAATTA
1 AATAAATTTTTAATTA
*
115483 ATTAAAATTTTTAA
1 AAT-AAATTTTTAA
115497 ACCTAAATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.42
15 3 0.12
16 6 0.25
17 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATAAATTTTTAATTA
Found at i:122713 original size:20 final size:22
Alignment explanation
Indices: 122685--122725 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
122675 ATATTTAAAC
122685 ATAAAATA-TATTA-ATTTTTT
1 ATAAAATATTATTACATTTTTT
*
122705 ATAATATATTATTACATTTTT
1 ATAAAATATTATTACATTTTT
122726 ATTCTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
ATAAAATATTATTACATTTTTT
Found at i:143835 original size:42 final size:42
Alignment explanation
Indices: 143770--143858 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
143760 ATAACATAAC
* * * * *
143770 TTAATCGAATTTATCTACTACCGTTCAGTTAGGTTGAAATTT
1 TTAAACGAATTTATCTACCACCGTTCAGTTAAGATGAAAATT
143812 TTAAACGAATTTATCTACCACCGTTCAGTTAAGATGAAAATT
1 TTAAACGAATTTATCTACCACCGTTCAGTTAAGATGAAAATT
143854 TTAAA
1 TTAAA
143859 ACTTAAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (42 bp):
TTAAACGAATTTATCTACCACCGTTCAGTTAAGATGAAAATT
Found at i:147817 original size:15 final size:15
Alignment explanation
Indices: 147799--147829 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
147789 GGAAATATAA
147799 AAATTAAAAGTAATT
1 AAATTAAAAGTAATT
*
147814 AAATTAAAATTAATT
1 AAATTAAAAGTAATT
147829 A
1 A
147830 GTTATATTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (15 bp):
AAATTAAAAGTAATT
Found at i:148834 original size:145 final size:144
Alignment explanation
Indices: 148554--148836 Score: 354
Period size: 145 Copynumber: 2.0 Consensus size: 144
148544 TTACTTATCT
* *
148554 TATTTGGATTGATAATTTAATGAAAAAAATCTTTAAATTTATTAACGTGTTGTTATATTAAAGAT
1 TATTTGGATTGACAATTTAATGAAAAAAATCTTTAAATCTATTAACGTGTTGTTATATTAAAGAT
* * * * *
148619 ACCATGATTCATCTATAGAAATCAATCATTGACTTTTGAAGATTGGATTAGATTTGAGTACATCA
66 ACCATGATACATCTATAAAAACCAATCATAGACTTTTGAAGATTGGATTAGATTCGAGTACATCA
148684 ATTCAACCTTGAAA
131 ATTCAACCTTGAAA
** * * * *
148698 TATTTGGATTGACAATTTAATGAAAAAAAATCTTTGGATCTATTGATGTTTTGTTATATTGAAGA
1 TATTTGGATTGACAATTTAATG-AAAAAAATCTTTAAATCTATTAACGTGTTGTTATATTAAAGA
* * * * *
148763 TACTATGGTACATCTATAAAAACCAATTATA-AGCTTTTGATGATTGGATTGGATTCGAGTGA-A
65 TACCATGATACATCTATAAAAACCAATCATAGA-CTTTTGAAGATTGGATTAGATTCGAGT-ACA
*
148826 TCAGTTCAACC
128 TCAATTCAACC
148837 CTTGGAATGT
Statistics
Matches: 117, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
144 22 0.19
145 94 0.80
146 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (144 bp):
TATTTGGATTGACAATTTAATGAAAAAAATCTTTAAATCTATTAACGTGTTGTTATATTAAAGAT
ACCATGATACATCTATAAAAACCAATCATAGACTTTTGAAGATTGGATTAGATTCGAGTACATCA
ATTCAACCTTGAAA
Found at i:151298 original size:42 final size:42
Alignment explanation
Indices: 151233--151321 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
151223 ATAACATAAC
* * * * *
151233 TTAATCGAATTTATCTACTACCGTTCAGTTAGGTTGAAATTT
1 TTAAACGAATTTATCTACCACCGTTCAGTTAAGATGAAAATT
151275 TTAAACGAATTTATCTACCACCGTTCAGTTAAGATGAAAATT
1 TTAAACGAATTTATCTACCACCGTTCAGTTAAGATGAAAATT
151317 TTAAA
1 TTAAA
151322 ACTTAAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (42 bp):
TTAAACGAATTTATCTACCACCGTTCAGTTAAGATGAAAATT
Found at i:155280 original size:15 final size:15
Alignment explanation
Indices: 155262--155292 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
155252 GGAAATATAA
155262 AAATTAAAAGTAATT
1 AAATTAAAAGTAATT
*
155277 AAATTAAAATTAATT
1 AAATTAAAAGTAATT
155292 A
1 A
155293 GTTATATTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (15 bp):
AAATTAAAAGTAATT
Found at i:156297 original size:145 final size:144
Alignment explanation
Indices: 156017--156299 Score: 354
Period size: 145 Copynumber: 2.0 Consensus size: 144
156007 TTACTTATCT
* *
156017 TATTTGGATTGATAATTTAATGAAAAAAATCTTTAAATTTATTAACGTGTTGTTATATTAAAGAT
1 TATTTGGATTGACAATTTAATGAAAAAAATCTTTAAATCTATTAACGTGTTGTTATATTAAAGAT
* * * * *
156082 ACCATGATTCATCTATAGAAATCAATCATTGACTTTTGAAGATTGGATTAGATTTGAGTACATCA
66 ACCATGATACATCTATAAAAACCAATCATAGACTTTTGAAGATTGGATTAGATTCGAGTACATCA
156147 ATTCAACCTTGAAA
131 ATTCAACCTTGAAA
** * * * *
156161 TATTTGGATTGACAATTTAATGAAAAAAAATCTTTGGATCTATTGATGTTTTGTTATATTGAAGA
1 TATTTGGATTGACAATTTAATG-AAAAAAATCTTTAAATCTATTAACGTGTTGTTATATTAAAGA
* * * * *
156226 TACTATGGTACATCTATAAAAACCAATTATA-AGCTTTTGATGATTGGATTGGATTCGAGTGA-A
65 TACCATGATACATCTATAAAAACCAATCATAGA-CTTTTGAAGATTGGATTAGATTCGAGT-ACA
*
156289 TCAGTTCAACC
128 TCAATTCAACC
156300 CTTGGAATGT
Statistics
Matches: 117, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
144 22 0.19
145 94 0.80
146 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (144 bp):
TATTTGGATTGACAATTTAATGAAAAAAATCTTTAAATCTATTAACGTGTTGTTATATTAAAGAT
ACCATGATACATCTATAAAAACCAATCATAGACTTTTGAAGATTGGATTAGATTCGAGTACATCA
ATTCAACCTTGAAA
Found at i:159322 original size:20 final size:20
Alignment explanation
Indices: 159284--159322 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
159274 GAGAAAAAAT
* * *
159284 TCAATTACCAATTTGAATAC
1 TCAAATACCAAATTAAATAC
159304 TCAAATACCAAATTAAATA
1 TCAAATACCAAATTAAATA
159323 TTAAACCTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.18, G:0.03, T:0.31
Consensus pattern (20 bp):
TCAAATACCAAATTAAATAC
Found at i:159344 original size:31 final size:31
Alignment explanation
Indices: 159304--159362 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
159294 ATTTGAATAC
159304 TCAAATACCAAATTAAATATTAAACCTAATG
1 TCAAATACCAAATTAAATATTAAACCTAATG
* ** *
159335 TCAAGTACCAAATTGTATCTTAAACCTA
1 TCAAATACCAAATTAAATATTAAACCTA
159363 CATTCTTTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.46, C:0.19, G:0.05, T:0.31
Consensus pattern (31 bp):
TCAAATACCAAATTAAATATTAAACCTAATG
Found at i:163718 original size:13 final size:13
Alignment explanation
Indices: 163700--163724 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
163690 TAACAATCTC
163700 ATTATAAGTTTTG
1 ATTATAAGTTTTG
163713 ATTATAAGTTTT
1 ATTATAAGTTTT
163725 ATCCTATAAA
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:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
ATTATAAGTTTTG
Found at i:165809 original size:21 final size:19
Alignment explanation
Indices: 165769--165813 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
165759 TAAAATAAAT
* *
165769 AAAAAATTAAATTAACAAC
1 AAAAAATTAAAATAAAAAC
165788 AAAAAATATGAAAATAAAAAC
1 AAAAAAT-T-AAAATAAAAAC
165809 AAAAA
1 AAAAA
165814 TGGATAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 1 0.05
21 14 0.64
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.16
Consensus pattern (19 bp):
AAAAAATTAAAATAAAAAC
Found at i:168641 original size:18 final size:19
Alignment explanation
Indices: 168612--168647 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
168602 CCACAACTTT
*
168612 TAAAAGTAAAAATTAAAAA
1 TAAAAGTAAAAATGAAAAA
168631 TAAAA-TAAAAATGAAAA
1 TAAAAGTAAAAATGAAAA
168648 GAGAGAGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (19 bp):
TAAAAGTAAAAATGAAAAA
Found at i:171939 original size:2 final size:2
Alignment explanation
Indices: 171932--171966 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
171922 GGGTAATGGC
* *
171932 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
171967 GGTTTTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (2 bp):
AT
Found at i:181601 original size:14 final size:14
Alignment explanation
Indices: 181582--181612 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
181572 CTTTTTTTTC
*
181582 ATATATACATACAT
1 ATATATACACACAT
181596 ATATATACACACAT
1 ATATATACACACAT
181610 ATA
1 ATA
181613 CATATAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (14 bp):
ATATATACACACAT
Found at i:184335 original size:2 final size:2
Alignment explanation
Indices: 184316--184349 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
184306 ATTAATACAG
* *
184316 GA GA GA GG GA GA GC GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
184350 AAAAGCTGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.03, G:0.53, T:0.00
Consensus pattern (2 bp):
GA
Found at i:186331 original size:23 final size:24
Alignment explanation
Indices: 186294--186341 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
186284 AGATTTAAGT
*
186294 AAAAATGATTATTTTTTTG-CGCC
1 AAAAATGATTATTTTTGTGCCGCC
* *
186317 AAAAATGTTTTTTTTTGTGCCGCC
1 AAAAATGATTATTTTTGTGCCGCC
186341 A
1 A
186342 CTGTGTCAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (24 bp):
AAAAATGATTATTTTTGTGCCGCC
Found at i:187192 original size:14 final size:15
Alignment explanation
Indices: 187175--187214 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
187165 TTTTTAGATT
187175 CTTTTTT-TCGTTTC
1 CTTTTTTCTCGTTTC
*
187189 CTTTTTTTCTCGTTTT
1 C-TTTTTTCTCGTTTC
187205 CTTTTTTCTC
1 CTTTTTTCTC
187215 TCTCTCTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 1 0.04
15 15 0.65
16 7 0.30
ACGTcount: A:0.00, C:0.23, G:0.05, T:0.72
Consensus pattern (15 bp):
CTTTTTTCTCGTTTC
Found at i:187216 original size:17 final size:16
Alignment explanation
Indices: 187176--187216 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
187166 TTTTAGATTC
187176 TTTTTT-TCGTTTCCT
1 TTTTTTCTCGTTTCCT
*
187191 TTTTTTCTCGTTTTCT
1 TTTTTTCTCGTTTCCT
187207 TTTTTCTCTC
1 TTTTT-TCTC
187217 TCTCTCTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.26
16 13 0.57
17 4 0.17
ACGTcount: A:0.00, C:0.22, G:0.05, T:0.73
Consensus pattern (16 bp):
TTTTTTCTCGTTTCCT
Found at i:187346 original size:33 final size:33
Alignment explanation
Indices: 187309--187382 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
187299 TTCACCTATT
**
187309 AAAAAAATTTTAACTTAATTTTAGTGATAGTGA
1 AAAAAAATTTTAACTTAATAGTAGTGATAGTGA
* *
187342 AAAAACATTTTAACTTGATAGTAGTGATAGTGA
1 AAAAAAATTTTAACTTAATAGTAGTGATAGTGA
187375 AAAAAAAT
1 AAAAAAAT
187383 CACGGAATGG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.49, C:0.04, G:0.14, T:0.34
Consensus pattern (33 bp):
AAAAAAATTTTAACTTAATAGTAGTGATAGTGA
Found at i:198372 original size:18 final size:17
Alignment explanation
Indices: 198349--198382 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
198339 GTTATGTTGG
*
198349 ATTGATATTTATATATAA
1 ATTGATAATTA-ATATAA
198367 ATTGATAATTAATATA
1 ATTGATAATTAATATA
198383 GAGAGAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (17 bp):
ATTGATAATTAATATAA
Found at i:207729 original size:31 final size:30
Alignment explanation
Indices: 207663--207745 Score: 96
Period size: 31 Copynumber: 2.7 Consensus size: 30
207653 AATAAAAGAT
* **
207663 TTATAAATAAATATTAATAATTTTATTTAA
1 TTATAAATAAATATTAATAGTTTTAACTAA
*
207693 ATATAAATTAAATATTAAATAGTTTTAACT-A
1 TTATAAA-TAAATATT-AATAGTTTTAACTAA
*
207724 TTATAAATAAATACTAATAGTT
1 TTATAAATAAATATTAATAGTT
207746 ATTGAGTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
29 7 0.16
30 13 0.29
31 15 0.33
32 10 0.22
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (30 bp):
TTATAAATAAATATTAATAGTTTTAACTAA
Found at i:207986 original size:18 final size:17
Alignment explanation
Indices: 207975--208018 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
207965 AATAATTCAT
207975 TTATTTATAATAAATTA
1 TTATTTATAATAAATTA
*
207992 TTATTTAT--TTAATTA
1 TTATTTATAATAAATTA
208007 -TATTTA-AATAAA
1 TTATTTATAATAAA
208019 GTTAAAACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
14 6 0.26
15 9 0.39
17 8 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTATTTATAATAAATTA
Found at i:207988 original size:25 final size:26
Alignment explanation
Indices: 207960--208017 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
207950 ATCAGTGCAG
*
207960 TAAATAATAATTCATTTATTTATA-A
1 TAAATAATAATTCATTTAATTATATA
* * * *
207985 TAAATTATTATTTATTTAATTATATT
1 TAAATAATAATTCATTTAATTATATA
208011 TAAATAA
1 TAAATAA
208018 AGTTAAAACT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 20 0.77
26 6 0.23
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
TAAATAATAATTCATTTAATTATATA
Found at i:209227 original size:3 final size:3
Alignment explanation
Indices: 209219--209247 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
209209 TTTATGGAAG
209219 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
209248 TAATAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:209298 original size:27 final size:27
Alignment explanation
Indices: 209252--209304 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
209242 CAACAATAAT
* **
209252 AATAATAATAATAATTTTAATATAAAA
1 AATAATAACAATAAGATTAATATAAAA
*
209279 AATAATAACAATAAGATTAATTTAAA
1 AATAATAACAATAAGATTAATATAAA
209305 CAAGAGTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (27 bp):
AATAATAACAATAAGATTAATATAAAA
Found at i:214380 original size:2 final size:2
Alignment explanation
Indices: 214363--214407 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
214353 ACATGCATAC
* *
214363 AT AT AC AT AC AT AT 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 AT AT AT AT AT AT AT
214405 AT A
1 AT A
214408 CATGCATGCA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:217813 original size:185 final size:193
Alignment explanation
Indices: 217560--217990 Score: 495
Period size: 196 Copynumber: 2.2 Consensus size: 193
217550 TCACACAATG
* * *
217560 TACTCATGAATTACACTGAGAAATTGAATTAAAGAAGAAAAAAAAAATCAACAATATTCCTCTTT
1 TACTCATGCATTACACTGAGAAATTGAAATAAAGAAG----CAAAAATCAACAATATTCCTCTTT
* * **
217625 TTTCCTCCTTTTCCCTT-GA-AA-AAAAATTAAAA-AAATCAGA-TAAAAAAGAGAGAATAAAA-
62 TTTCCTCCTTTTCCATTAAATAACAAAAAAAAAAATAAATCAGATTAAAAAAGAGA-AA-AAAAT
** * * *
217684 T-AAAATAGCATGCAAATTGATCGACAATGATAGATCACGATGTACATTGTTAGTT-TAC-GCTT
125 TAAAAATAGCATGCAAATTGATAAACAATAATAGATCACGATGTACACTGTTAGTTACACAGCTT
217746 CCTC
190 CCTC
* * * * * *
217750 TGCTTATGCATTGCACTTAGAAATTGAAATAAAGAAG-AAAAATCAACACTATTCCTTTTTTTTC
1 TACTCATGCATTACACTGAGAAATTGAAATAAAGAAGCAAAAATCAACAATATTCCTCTTTTTTC
* *
217814 CTCTTTTTCCATTAAAAATTAACAAAAAAAAAAACTTAAATCAGATTTGAAAAAGAGAAAAAAAT
66 CTCCTTTTCCATT--AAA-TAACAAAAAAAAAAA--TAAATCAGA-TTAAAAAAGAGAAAAAAAT
*
217879 TAAAAATAGCATGCAAATTGATAAACAATAATCGATCACGATGTACACTGTTAGTTACACAGCTT
125 TAAAAATAGCATGCAAATTGATAAACAATAATAGATCACGATGTACACTGTTAGTTACACAGCTT
217944 CCTC
190 CCTC
217948 TACTCATGCATTACACTGAGAAATTGAAATAAAGAAGCAAAAA
1 TACTCATGCATTACACTGAGAAATTGAAATAAAGAAGCAAAAA
217991 AAAACTTAAA
Statistics
Matches: 201, Mismatches: 24, Indels: 23
0.81 0.10 0.09
Matches are distributed among these distances:
185 36 0.18
188 1 0.00
190 33 0.16
191 9 0.04
194 12 0.06
195 3 0.01
196 59 0.29
197 2 0.01
198 41 0.20
199 5 0.02
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.28
Consensus pattern (193 bp):
TACTCATGCATTACACTGAGAAATTGAAATAAAGAAGCAAAAATCAACAATATTCCTCTTTTTTC
CTCCTTTTCCATTAAATAACAAAAAAAAAAATAAATCAGATTAAAAAAGAGAAAAAAATTAAAAA
TAGCATGCAAATTGATAAACAATAATAGATCACGATGTACACTGTTAGTTACACAGCTTCCTC
Found at i:218124 original size:130 final size:130
Alignment explanation
Indices: 217880--218113 Score: 337
Period size: 130 Copynumber: 1.8 Consensus size: 130
217870 GAAAAAAATT
* * *
217880 AAAAATAGCATGCAAATTGATAAACAATAATCGATCACGATGTACACTGTTAGTTACACAGCTTC
1 AAAAATAGAACGCAAATTGATAAACAATAATCGATCACGATGCACACTGTTAGTTACACAGCTTC
*
217945 CTCTACTCATGCATTACACTGAGAAATTGAAATAAAGAAGCAAAAAAAAACTTAAATCAGATTTA
66 CTCTACTCATGCATTACACTGAGAAATTGAAATAAACAAGCAAAAAAAAACTTAAATCAGATTTA
* * * *
218010 AAAAATAGAACGCAAATTGATCAACAATGATCGATCACGATGCACATTGTTAGTTA-ACAGCTTG
1 AAAAATAGAACGCAAATTGATAAACAATAATCGATCACGATGCACACTGTTAGTTACACAGCTTC
* * * *
218074 CTCTACTTATGCATTGCACTGA-AACTTTGAAATTAACAAG
66 CTCTACTCATGCATTACACTGAGAA-ATTGAAATAAACAAG
218114 AATGAAAAAA
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
128 2 0.02
129 39 0.43
130 50 0.55
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (130 bp):
AAAAATAGAACGCAAATTGATAAACAATAATCGATCACGATGCACACTGTTAGTTACACAGCTTC
CTCTACTCATGCATTACACTGAGAAATTGAAATAAACAAGCAAAAAAAAACTTAAATCAGATTTA
Found at i:221409 original size:2 final size:2
Alignment explanation
Indices: 221402--221428 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
221392 TGAAGAATTA
221402 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
221429 AACCCTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:221594 original size:12 final size:12
Alignment explanation
Indices: 221579--221613 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
221569 AAATGTTTAA
221579 TTATAATTTATT
1 TTATAATTTATT
221591 TTATAATTTATT
1 TTATAATTTATT
221603 TT-TGAATTTAT
1 TTAT-AATTTAT
221614 ATATTTTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 1 0.05
12 21 0.95
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (12 bp):
TTATAATTTATT
Found at i:221649 original size:27 final size:24
Alignment explanation
Indices: 221601--221653 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 24
221591 TTATAATTTA
*
221601 TTTTTGAATTTATATATTTTTAGAT
1 TTTTTGAATTTATATATATTTA-AT
221626 TTTTTGAAAGTTTATATATATTTAAT
1 TTTTTG-AA-TTTATATATATTTAAT
221652 TT
1 TT
221654 CAATACATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 6 0.24
26 6 0.24
27 13 0.52
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (24 bp):
TTTTTGAATTTATATATATTTAAT
Found at i:222829 original size:2 final size:2
Alignment explanation
Indices: 222822--222870 Score: 89
Period size: 2 Copynumber: 24.0 Consensus size: 2
222812 ACCAGACAGC
222822 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
222864 TGA TA TA
1 T-A TA TA
222871 ATTGACATGT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 44 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:223463 original size:31 final size:31
Alignment explanation
Indices: 223425--223484 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
223415 AAAATGATCT
*
223425 TTGAACTATTTGAAAATTTTCATTTAAGTCA
1 TTGAACTATCTGAAAATTTTCATTTAAGTCA
* *
223456 TTGAACTATCTGAAAGTTTTTATTTAAGT
1 TTGAACTATCTGAAAATTTTCATTTAAGT
223485 GAATAGGATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (31 bp):
TTGAACTATCTGAAAATTTTCATTTAAGTCA
Found at i:224271 original size:2 final size:2
Alignment explanation
Indices: 224264--224298 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
224254 TGAATATAGG
224264 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
224299 AAGTTAAACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:225854 original size:23 final size:23
Alignment explanation
Indices: 225828--225872 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
225818 GATATTCACC
* *
225828 TTGAGCAACAAGAAAATAAAAGA
1 TTGAACAACAAGAAAAAAAAAGA
* *
225851 TTGAACAGCCAGAAAAAAAAAG
1 TTGAACAACAAGAAAAAAAAAG
225873 CTAGTGAACG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.60, C:0.11, G:0.18, T:0.11
Consensus pattern (23 bp):
TTGAACAACAAGAAAAAAAAAGA
Found at i:226785 original size:29 final size:29
Alignment explanation
Indices: 226746--226801 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
226736 ATAGGGATTA
*
226746 GATCAAATTAGACCATTTATTATTAAATG
1 GATCAAATTAGACCATTTACTATTAAATG
* * *
226775 GATCAATTTAGTCCCTTTACTATTAAA
1 GATCAAATTAGACCATTTACTATTAAA
226802 AAGAACCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (29 bp):
GATCAAATTAGACCATTTACTATTAAATG
Found at i:229876 original size:197 final size:197
Alignment explanation
Indices: 229207--229927 Score: 1011
Period size: 197 Copynumber: 3.7 Consensus size: 197
229197 AAGCCTCTAT
* *
229207 AAAGAAGTACCGACCGTCATTCTACTTCAAAATAAGGTTCCTCTAATGTTACAGAGCAAAACCAA
1 AAAGAAGTACCGACCATCATTCTACTTCAAAATAAGGTTCCTCTAATGTTACACAGCAAAACCAA
* ** **
229272 TAACCCAATTTCAAATTATTCAAGCATTGCTATCGTGGCAACTCAAAGATTGTGGATTCGAGCAC
66 TAACCCAATTTCAAATTATTCAAGCATTGCTATTGCAGCAACTCGGAGATTGTGGATTCGAGCAC
* * *
229337 GCTTAACTGCATAATATCATCAAATTTAATTAGTTTGGGTTTACAAGTAGTTTAGAAAATT-TCC
131 ACTTAAGTGCGTAATATCATCAAATTTAATTAGTTTGGGTTTACAAGTAGTTTAGAAAATTGT-C
229401 AAA
195 AAA
* ** * *
229404 AAAGAAGTATCGACCATCATTCTACTTCAAAATAAAATTCCCCTAATGTCACACAGCAAAACCAA
1 AAAGAAGTACCGACCATCATTCTACTTCAAAATAAGGTTCCTCTAATGTTACACAGCAAAACCAA
* * * * * *
229469 TAACCCAATTTCAAATTTATTCAAGCATTGCTATTGCAACAACTTGGAGGTTGAGGATTCAAACA
66 TAACCCAATTTCAAA-TTATTCAAGCATTGCTATTGCAGCAACTCGGAGATTGTGGATTCGAGCA
* *
229534 CACTTAAGTGCGTAATATCATCAAATTTAATTAGTTGGGGTTTACAAGTAGTTTAGAAAATTGCC
130 CACTTAAGTGCGTAATATCATCAAATTTAATTAGTTTGGGTTTACAAGTAGTTTAGAAAATTGTC
229599 AAA
195 AAA
* * *
229602 AAAAAAGTACCGACCATCGTTCTACTTCAAAATAAGGTTCCTCTAATGTTACACGGCAAAACCAA
1 AAAGAAGTACCGACCATCATTCTACTTCAAAATAAGGTTCCTCTAATGTTACACAGCAAAACCAA
* ** * * *
229667 AAACCCAATTTCAAATTATTCAAGCATAACTGTTGCAGCAACTTGGAGGTTGTGGATTCGAGCAC
66 TAACCCAATTTCAAATTATTCAAGCATTGCTATTGCAGCAACTCGGAGATTGTGGATTCGAGCAC
* **
229732 ACTTAAGTGCGTAGTATCATCAAATTTAATTAGTTTGGGTTTACGGGTAG-TTAGAAAATTGTCA
131 ACTTAAGTGCGTAATATCATCAAATTTAATTAGTTTGGGTTTACAAGTAGTTTAGAAAATTGTCA
229796 AA
196 AA
* *
229798 ACAGAAGCACCGACCAT-AGTTCTACTTCAGAAA-AAGGTTCCTCTAATGTTTACACAGC-AAAC
1 AAAGAAGTACCGACCATCA-TTCTACTTCA-AAATAAGGTTCCTCTAATG-TTACACAGCAAAAC
*
229860 CAATAACCCAAATTTCAAATTATTCAAGCATTGCTATTGCAGCAACTCGGAGATTGTGGATTCTA
63 CAATAACCC-AATTTCAAATTATTCAAGCATTGCTATTGCAGCAACTCGGAGATTGTGGATTCGA
229925 GCA
127 GCA
229928 ATTAGTTCAG
Statistics
Matches: 462, Mismatches: 56, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
196 66 0.14
197 225 0.49
198 171 0.37
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (197 bp):
AAAGAAGTACCGACCATCATTCTACTTCAAAATAAGGTTCCTCTAATGTTACACAGCAAAACCAA
TAACCCAATTTCAAATTATTCAAGCATTGCTATTGCAGCAACTCGGAGATTGTGGATTCGAGCAC
ACTTAAGTGCGTAATATCATCAAATTTAATTAGTTTGGGTTTACAAGTAGTTTAGAAAATTGTCA
AA
Found at i:230986 original size:19 final size:19
Alignment explanation
Indices: 230962--230999 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
230952 TTAAAATAAA
230962 AAATAAAAAAATATT-TTTT
1 AAAT-AAAAAATATTATTTT
*
230981 AAATAATAAATATTATTTT
1 AAATAAAAAATATTATTTT
231000 TGTTCCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AAATAAAAAATATTATTTT
Found at i:232214 original size:23 final size:23
Alignment explanation
Indices: 232177--232221 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
232167 AATAATTGTC
* *
232177 AAATTCAAATACTAAGATAAAAA
1 AAATTCAAACACTAACATAAAAA
*
232200 AAATTCAAACCCTAACATAAAA
1 AAATTCAAACACTAACATAAAA
232222 TCATGTGCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.62, C:0.16, G:0.02, T:0.20
Consensus pattern (23 bp):
AAATTCAAACACTAACATAAAAA
Found at i:245183 original size:31 final size:31
Alignment explanation
Indices: 245145--245208 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
245135 TAAACGGTCT
*
245145 TTTTTGTTAAAAATTTCATTTATTTGTACCG
1 TTTTTGTTAAAAATTCCATTTATTTGTACCG
245176 TTTTTGTTAAAAATTCCATTTATTTGTACCG
1 TTTTTGTTAAAAATTCCATTTATTTGTACCG
245207 TT
1 TT
245209 AAAAATTGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.25, C:0.11, G:0.09, T:0.55
Consensus pattern (31 bp):
TTTTTGTTAAAAATTCCATTTATTTGTACCG
Found at i:246802 original size:24 final size:27
Alignment explanation
Indices: 246775--246834 Score: 63
Period size: 27 Copynumber: 2.2 Consensus size: 27
246765 AGTGCAAAAT
246775 ATTAATTATAATATT-AA-T-AAATTA
1 ATTAATTATAATATTAAATTAAAATTA
*
246799 ATTATCTTTTATAATATTAAATTAAAATTA
1 ATTA---ATTATAATATTAAATTAAAATTA
246829 ATTAAT
1 ATTAAT
246835 AAAAAAACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
24 4 0.14
27 11 0.39
28 2 0.07
29 1 0.04
30 10 0.36
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (27 bp):
ATTAATTATAATATTAAATTAAAATTA
Found at i:247473 original size:3 final size:3
Alignment explanation
Indices: 247461--247491 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
247451 TTTTGTCCAT
247461 TCA T-A TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
247492 TCTTACCTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:251071 original size:29 final size:27
Alignment explanation
Indices: 251039--251155 Score: 70
Period size: 29 Copynumber: 4.3 Consensus size: 27
251029 GCAATTGGGA
251039 TTATATTTTTTATAAATTTAAAATTTAAT
1 TTATATTTTTTAT--ATTTAAAATTTAAT
*
251068 TTATA--TTTTAT-TTTAAAA---AAA
1 TTATATTTTTTATATTTAAAATTTAAT
* * *
251089 TTA-ATCTTTTTATTTTTTAAATTCTGGGA-
1 TTATAT-TTTTTATATTTAAAATT-T--AAT
251118 TTATATTTTTTATAAATTTAAAATTTAAT
1 TTATATTTTTTAT--ATTTAAAATTTAAT
251147 TTATATTTT
1 TTATATTTT
251156 ATTTTAAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 28
0.67 0.06 0.27
Matches are distributed among these distances:
20 1 0.01
21 5 0.07
23 6 0.09
24 13 0.19
27 6 0.09
28 1 0.01
29 24 0.35
30 4 0.06
31 8 0.12
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.59
Consensus pattern (27 bp):
TTATATTTTTTATATTTAAAATTTAAT
Found at i:251134 original size:79 final size:78
Alignment explanation
Indices: 251034--251189 Score: 294
Period size: 79 Copynumber: 2.0 Consensus size: 78
251024 CTATTGCAAT
251034 TGGGATTATATTTTTTATAAATTTAAAATTTAATTTATATTTTATTTTAAAAAAATTAATCTTTT
1 TGGGATTATATTTTTTATAAATTTAAAATTTAATTTATATTTTATTTTAAAAAAATTAATC-TTT
*
251099 TATTTTTTAAATTC
65 TATTTTTAAAATTC
251113 TGGGATTATATTTTTTATAAATTTAAAATTTAATTTATATTTTATTTTAAAAAAATTAATCTTTT
1 TGGGATTATATTTTTTATAAATTTAAAATTTAATTTATATTTTATTTTAAAAAAATTAATCTTTT
251178 ATTTTTAAAATT
66 ATTTTTAAAATT
251190 TTAAAATTCA
Statistics
Matches: 76, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
78 15 0.20
79 61 0.80
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (78 bp):
TGGGATTATATTTTTTATAAATTTAAAATTTAATTTATATTTTATTTTAAAAAAATTAATCTTTT
ATTTTTAAAATTC
Done.