Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012458.1 Kokia drynarioides strain JFW-HI SEQ_127462, 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: 182651
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Warning! 35 characters in sequence are not A, C, G, or T
Found at i:10848 original size:35 final size:35
Alignment explanation
Indices: 10800--10871 Score: 119
Period size: 36 Copynumber: 2.1 Consensus size: 35
10790 AAAAAAAATA
10800 TTTATTTACTAAAATAATATT-AAAAATTATTTAT
1 TTTATTTACTAAAATAATATTAAAAAATTATTTAT
*
10834 TTTATTTGACTAAAATAATTTTAAAAAATTATTTAT
1 TTTATTT-ACTAAAATAATATTAAAAAATTATTTAT
10870 TT
1 TT
10872 AATAAAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 7 0.20
35 13 0.37
36 15 0.43
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.51
Consensus pattern (35 bp):
TTTATTTACTAAAATAATATTAAAAAATTATTTAT
Found at i:14061 original size:14 final size:14
Alignment explanation
Indices: 14044--14097 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
14034 TTTTTGTTTA
14044 AGGGTTTTGAATTT
1 AGGGTTTTGAATTT
*
14058 AGGGTTTT-ATATTA
1 AGGGTTTTGA-ATTT
*
14072 AGGGTTATGAATTT
1 AGGGTTTTGAATTT
* *
14086 AAGGTTTCGAAT
1 AGGGTTTTGAAT
14098 CTAGAGTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
13 1 0.03
14 30 0.94
15 1 0.03
ACGTcount: A:0.28, C:0.02, G:0.26, T:0.44
Consensus pattern (14 bp):
AGGGTTTTGAATTT
Found at i:14114 original size:28 final size:28
Alignment explanation
Indices: 14083--14141 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
14073 GGGTTATGAA
14083 TTTAAGGTTTCGAA-TCTAGAGTTTAAGG
1 TTTAAGGTTTC-AAGTCTAGAGTTTAAGG
* *
14111 TTTAAGGTTTCAAGTTTTGAGTTTAAGG
1 TTTAAGGTTTCAAGTCTAGAGTTTAAGG
14139 TTT
1 TTT
14142 TTAAGTATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.25, C:0.05, G:0.24, T:0.46
Consensus pattern (28 bp):
TTTAAGGTTTCAAGTCTAGAGTTTAAGG
Found at i:14126 original size:21 final size:21
Alignment explanation
Indices: 14102--14141 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14092 TCGAATCTAG
14102 AGTTTA-AGGTTTAAGGTTTCA
1 AGTTTAGA-GTTTAAGGTTTCA
*
14123 AGTTTTGAGTTTAAGGTTT
1 AGTTTAGAGTTTAAGGTTT
14142 TTAAGTATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.47
Consensus pattern (21 bp):
AGTTTAGAGTTTAAGGTTTCA
Found at i:14548 original size:6 final size:6
Alignment explanation
Indices: 14515--14550 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
14505 CTTCCTCTTA
* *
14515 CTCTGG CTCCGG CTCCGG CTCTGG CTCTGG CTCTGG
1 CTCTGG CTCTGG CTCTGG CTCTGG CTCTGG CTCTGG
14551 GGCAGGAGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.39, G:0.33, T:0.28
Consensus pattern (6 bp):
CTCTGG
Found at i:16363 original size:19 final size:21
Alignment explanation
Indices: 16318--16371 Score: 58
Period size: 23 Copynumber: 2.6 Consensus size: 21
16308 GCTGGGGAAA
16318 CAGTAAGCACACACAGTGCAATC
1 CAGTAAGCACACACAGTG--ATC
*
16341 CAGTACGCACACACAGTG-T-
1 CAGTAAGCACACACAGTGATC
*
16360 CAGTAGGCACAC
1 CAGTAAGCACAC
16372 GAGGTGCGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 11 0.38
20 1 0.03
23 17 0.59
ACGTcount: A:0.35, C:0.31, G:0.20, T:0.13
Consensus pattern (21 bp):
CAGTAAGCACACACAGTGATC
Found at i:16392 original size:23 final size:23
Alignment explanation
Indices: 16360--16436 Score: 111
Period size: 23 Copynumber: 3.3 Consensus size: 23
16350 CACACAGTGT
* *
16360 CAGTAGGCACACGAGGTGCGAAA
1 CAGTAAGCACACGAAGTGCGAAA
*
16383 CAGTAAGCACACGAAGTGTGAAA
1 CAGTAAGCACACGAAGTGCGAAA
16406 CAGTAAGCACAC-ACAGTGCGAAA
1 CAGTAAGCACACGA-AGTGCGAAA
16429 CAGTAAGC
1 CAGTAAGC
16437 GCGCTAGCGT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 1 0.02
23 48 0.98
ACGTcount: A:0.40, C:0.22, G:0.27, T:0.10
Consensus pattern (23 bp):
CAGTAAGCACACGAAGTGCGAAA
Found at i:19271 original size:5 final size:5
Alignment explanation
Indices: 19261--19290 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
19251 ACTTACTAAC
19261 AAAAT AAAAT AAAAT AAAAT AAAATT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAA-T AAAA
19291 ATAACCAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:19389 original size:30 final size:32
Alignment explanation
Indices: 19336--19418 Score: 84
Period size: 30 Copynumber: 2.7 Consensus size: 32
19326 TTAGTCAACT
* * *
19336 AAATAAAAAATATTAA-ATAACAAATTAA-TTA
1 AAATAATAAATATAAACAAAACAAA-TAACTTA
*
19367 AAA-ATTAAAT-TAAACAAAACAAATAACTTA
1 AAATAATAAATATAAACAAAACAAATAACTTA
19397 AAATAATAAATACTAAACAAAA
1 AAATAATAAATA-TAAACAAAA
19419 TATAACTTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
29 6 0.14
30 18 0.43
31 9 0.21
33 9 0.21
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (32 bp):
AAATAATAAATATAAACAAAACAAATAACTTA
Found at i:19641 original size:4 final size:4
Alignment explanation
Indices: 19632--19690 Score: 73
Period size: 4 Copynumber: 14.2 Consensus size: 4
19622 CTCACCCTTC
* * *
19632 TTCT TTCT TTCT TTAT TTCTT TTAT TTCT TTCT TTCT TTAT TTCTT TTCT
1 TTCT TTCT TTCT TTCT TTC-T TTCT TTCT TTCT TTCT TTCT TTC-T TTCT
19682 TTCT TTCT T
1 TTCT TTCT T
19691 CTCTGGTGCC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
4 40 0.85
5 7 0.15
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (4 bp):
TTCT
Found at i:19661 original size:21 final size:21
Alignment explanation
Indices: 19635--19687 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
19625 ACCCTTCTTC
*
19635 TTTCTTTCTTTATTTCTTT-T
1 TTTCTTTCTTTATTTATTTCT
*
19655 ATTTCTTTCTTTCTTTATTTCT
1 -TTTCTTTCTTTATTTATTTCT
19677 TTTCTTTCTTT
1 TTTCTTTCTTT
19688 CTTCTCTGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTCTTTCTTTATTTATTTCT
Found at i:19666 original size:25 final size:25
Alignment explanation
Indices: 19632--19690 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
19622 CTCACCCTTC
19632 TTCTTTCTTTCTTTATTTCTTTTAT
1 TTCTTTCTTTCTTTATTTCTTTTAT
*
19657 TTCTTTCTTTCTTTATTTCTTTTCT
1 TTCTTTCTTTCTTTATTTCTTTTAT
19682 TTCTTTCTT
1 TTCTTTCTT
19691 CTCTGGTGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (25 bp):
TTCTTTCTTTCTTTATTTCTTTTAT
Found at i:35443 original size:20 final size:20
Alignment explanation
Indices: 35406--35444 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
35396 CTACCCTGGG
** *
35406 ACTTTTACCGGTAGAACTTC
1 ACTTTTACCAATACAACTTC
35426 ACTTTTACCAATACAACTT
1 ACTTTTACCAATACAACTT
35445 TAGTTCTACC
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:0.31, C:0.26, G:0.08, T:0.36
Consensus pattern (20 bp):
ACTTTTACCAATACAACTTC
Found at i:36447 original size:6 final size:7
Alignment explanation
Indices: 36415--36445 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
36405 CGCAATGAAA
36415 GGGGAAG
1 GGGGAAG
36422 GGGGAAG
1 GGGGAAG
36429 GGGGAAG
1 GGGGAAG
36436 GGGGAAG
1 GGGGAAG
36443 GGG
1 GGG
36446 AACGAGAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.74, T:0.00
Consensus pattern (7 bp):
GGGGAAG
Found at i:45056 original size:17 final size:17
Alignment explanation
Indices: 45029--45061 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
45019 TGATTTAATT
45029 TAAATATGAAAATAAAAA
1 TAAATATGAAAA-AAAAA
45047 TAAA-ATGAAAAAAAA
1 TAAATATGAAAAAAAA
45062 TTTAGAGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (17 bp):
TAAATATGAAAAAAAAA
Found at i:54025 original size:69 final size:69
Alignment explanation
Indices: 53940--54075 Score: 254
Period size: 69 Copynumber: 2.0 Consensus size: 69
53930 CCTAAAAGGA
* *
53940 TAAAACATCAAAACAGTAGCCCCAAATCCCACTTTTTTTGGTAAACAGTTCAGGAAAAAAGATTT
1 TAAAACATCAAAACAGTAGCCCCAAATCCCAATTTTTTTGGTAAACAGTTCAAGAAAAAAGATTT
54005 TGGC
66 TGGC
54009 TAAAACATCAAAACAGTAGCCCCAAATCCCAATTTTTTTGGTAAACAGTTCAAGAAAAAAGATTT
1 TAAAACATCAAAACAGTAGCCCCAAATCCCAATTTTTTTGGTAAACAGTTCAAGAAAAAAGATTT
54074 TG
66 TG
54076 CAAGCCAAGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.26
Consensus pattern (69 bp):
TAAAACATCAAAACAGTAGCCCCAAATCCCAATTTTTTTGGTAAACAGTTCAAGAAAAAAGATTT
TGGC
Found at i:61076 original size:19 final size:18
Alignment explanation
Indices: 61044--61094 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
61034 AATTCAGAGA
*
61044 AATAAAAATAAAATTTTT
1 AATAAAAATAAAATATTT
*
61062 AATAAAAAGTTAAATATTT
1 AATAAAAA-TAAAATATTT
61081 ATATTAAAAA-AAAA
1 A-A-TAAAAATAAAA
61095 GAATAGTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 8 0.30
19 12 0.44
20 1 0.04
21 6 0.22
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
AATAAAAATAAAATATTT
Found at i:61203 original size:3 final size:3
Alignment explanation
Indices: 61195--61236 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
61185 AGAATAAGAT
*
61195 AAG AAG AAGG AAG AAAG AA- AAA AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AA-G AAG -AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
61237 AAGGAGTAGC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
2 2 0.06
3 27 0.77
4 6 0.17
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:61419 original size:30 final size:30
Alignment explanation
Indices: 61385--61452 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
61375 TAAAAATGTA
61385 ATTTTTAAAAGATTAAA-TCAAAATTTTATC
1 ATTTTTAAAAGATTAAAGT-AAAATTTTATC
* *
61415 ATTTTTAAAATATTAAAGTATAATTTTATC
1 ATTTTTAAAAGATTAAAGTAAAATTTTATC
61445 -TTTATTAA
1 ATTT-TTAA
61453 TTTAAAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 3 0.09
30 30 0.88
31 1 0.03
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (30 bp):
ATTTTTAAAAGATTAAAGTAAAATTTTATC
Found at i:65809 original size:21 final size:21
Alignment explanation
Indices: 65767--65809 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
65757 ATCTATGTAT
* *
65767 AAAAATATATATGTATATAAA
1 AAAAATATAAATGTATAAAAA
65788 AAAAATATACAATGT-TAAAAA
1 AAAAATATA-AATGTATAAAAA
65809 A
1 A
65810 TATGAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (21 bp):
AAAAATATAAATGTATAAAAA
Found at i:75491 original size:19 final size:20
Alignment explanation
Indices: 75469--75509 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
75459 TTGAACTTTA
*
75469 TTTAATATT-TTTTATAAAT
1 TTTAATATTGTTTTAAAAAT
75488 TTTAATATTGTTTTAAAAAT
1 TTTAATATTGTTTTAAAAAT
75508 TT
1 TT
75510 ATAAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTAATATTGTTTTAAAAAT
Found at i:75510 original size:19 final size:19
Alignment explanation
Indices: 75468--75510 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
75458 TTTGAACTTT
75468 ATTTAATATTTTTTATAAA
1 ATTTAATATTTTTTATAAA
*
75487 TTTTAATATTGTTTTA-AAA
1 ATTTAATATT-TTTTATAAA
75506 ATTTA
1 ATTTA
75511 TAAAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTTTTATAAA
Found at i:76030 original size:10 final size:11
Alignment explanation
Indices: 76005--76032 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
75995 GAACTTTAAA
76005 AAAAATAAATT
1 AAAAATAAATT
76016 AAAAATAAATT
1 AAAAATAAATT
76027 AAAAAT
1 AAAAAT
76033 TATTTATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
AAAAATAAATT
Found at i:76227 original size:24 final size:24
Alignment explanation
Indices: 76200--76265 Score: 114
Period size: 24 Copynumber: 2.8 Consensus size: 24
76190 AAATAAAAGC
76200 AAAACAGCAACAAAAATAGCAATA
1 AAAACAGCAACAAAAATAGCAATA
*
76224 AAAACAGCAACAAAAACAGCAATA
1 AAAACAGCAACAAAAATAGCAATA
*
76248 AAAATAGCAACAAAAATA
1 AAAACAGCAACAAAAATA
76266 ACAACATCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.68, C:0.17, G:0.08, T:0.08
Consensus pattern (24 bp):
AAAACAGCAACAAAAATAGCAATA
Found at i:76265 original size:12 final size:12
Alignment explanation
Indices: 76200--76263 Score: 92
Period size: 12 Copynumber: 5.3 Consensus size: 12
76190 AAATAAAAGC
76200 AAAACAGCAACA
1 AAAACAGCAACA
* *
76212 AAAATAGCAATA
1 AAAACAGCAACA
76224 AAAACAGCAACA
1 AAAACAGCAACA
*
76236 AAAACAGCAATA
1 AAAACAGCAACA
*
76248 AAAATAGCAACA
1 AAAACAGCAACA
76260 AAAA
1 AAAA
76264 TAACAACATC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 45 1.00
ACGTcount: A:0.69, C:0.17, G:0.08, T:0.06
Consensus pattern (12 bp):
AAAACAGCAACA
Found at i:76270 original size:12 final size:12
Alignment explanation
Indices: 76200--76271 Score: 90
Period size: 12 Copynumber: 6.0 Consensus size: 12
76190 AAATAAAAGC
*
76200 AAAACAGCAACA
1 AAAATAGCAACA
*
76212 AAAATAGCAATA
1 AAAATAGCAACA
*
76224 AAAACAGCAACA
1 AAAATAGCAACA
* *
76236 AAAACAGCAATA
1 AAAATAGCAACA
76248 AAAATAGCAACA
1 AAAATAGCAACA
*
76260 AAAATAACAACA
1 AAAATAGCAACA
76272 TCAAAACAGT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 52 1.00
ACGTcount: A:0.68, C:0.18, G:0.07, T:0.07
Consensus pattern (12 bp):
AAAATAGCAACA
Found at i:76271 original size:36 final size:36
Alignment explanation
Indices: 76187--76289 Score: 111
Period size: 36 Copynumber: 2.8 Consensus size: 36
76177 AAAACAGTAG
*
76187 CAAAAATAA-AAGC-AAAACAGCAACAAAAATAGCAA
1 CAAAAATAACAA-CAAAAACAGCAAAAAAAATAGCAA
* * * *
76222 TAAAAACAGCAACAAAAACAGCAATAAAAATAGCAA
1 CAAAAATAACAACAAAAACAGCAAAAAAAATAGCAA
*
76258 CAAAAATAACAACATCAAAACAGTAAAAAAAA
1 CAAAAATAACAACA--AAAACAGCAAAAAAAA
76290 AAAACAATAC
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
35 7 0.13
36 34 0.62
38 14 0.25
ACGTcount: A:0.69, C:0.17, G:0.07, T:0.08
Consensus pattern (36 bp):
CAAAAATAACAACAAAAACAGCAAAAAAAATAGCAA
Found at i:76312 original size:26 final size:26
Alignment explanation
Indices: 76248--76314 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
76238 AACAGCAATA
* * *
76248 AAAATAGCAACAAAAATAACAACATC
1 AAAATAGCAAAAAAAAAAACAACACC
* * *
76274 AAAACAGTAAAAAAAAAAAACAATACC
1 AAAATAG-CAAAAAAAAAAACAACACC
76301 AAAATAGCAAAAAA
1 AAAATAGCAAAAAA
76315 TAGAAACTAA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
26 12 0.38
27 20 0.62
ACGTcount: A:0.72, C:0.15, G:0.04, T:0.09
Consensus pattern (26 bp):
AAAATAGCAAAAAAAAAAACAACACC
Found at i:76348 original size:22 final size:22
Alignment explanation
Indices: 76287--76348 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
76277 ACAGTAAAAA
*
76287 AAAAAAACAATACCAAAATAGC
1 AAAAAAACAATACCAAAACAGC
* * *
76309 AAAAAATAGAA-ACTAAAACAGT
1 AAAAAA-ACAATACCAAAACAGC
*
76331 AAAAAAACAATGCCAAAA
1 AAAAAAACAATACCAAAA
76349 TAACAATATA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
21 3 0.10
22 25 0.81
23 3 0.10
ACGTcount: A:0.69, C:0.15, G:0.06, T:0.10
Consensus pattern (22 bp):
AAAAAAACAATACCAAAACAGC
Found at i:84771 original size:219 final size:220
Alignment explanation
Indices: 84385--84822 Score: 851
Period size: 219 Copynumber: 2.0 Consensus size: 220
84375 AATGAAAACA
*
84385 GATGTAAAAGAAACTAAAGTAAATAGGACATGACAATACAACAATTTCACAGATAGCAAATATGT
1 GATGTAAAAGAAACTAAAGTAAATAGGACATGAAAATACAACAATTTCACAGATAGCAAATATGT
84450 TAATATGATAAGCTTCTCTAGTTTTGATTGATAGGAAGGATAAAATTAAACAGAAAATAAATGAG
66 TAATATGATAAGCTTCTCTAGTTTTGATTGATAGGAAGGATAAAATTAAACAGAAAATAAATGAG
*
84515 TAAGAAAGTGTTTATGATACATAAATGAATGAAGAAATCAACGTGGACTATAGTGTTAGCAATAT
131 TAAGAAAGTGTTTATGATACATAAATGAATAAAGAAATCAACGTGGACTATAGTGTTAGCAATAT
84580 CTCTTGCATCAAAATTATCACCAAT
196 CTCTTGCATCAAAATTATCACCAAT
84605 GATG-AAAAGAAACTAAAGTAAATAGGACATGAAAATACAACAATTTCACAGATAGCAAATATGT
1 GATGTAAAAGAAACTAAAGTAAATAGGACATGAAAATACAACAATTTCACAGATAGCAAATATGT
84669 TAATATGATAAGCTTCTCTAGTTTTGATTGATAGGAAGGATAAAATTAAACAGAAAATAAATGAG
66 TAATATGATAAGCTTCTCTAGTTTTGATTGATAGGAAGGATAAAATTAAACAGAAAATAAATGAG
84734 TAAGAAAGTGTTTATGATACATAAATGAATAAAGAAATCAACGTGGACTATAGTGTTAGCAATAT
131 TAAGAAAGTGTTTATGATACATAAATGAATAAAGAAATCAACGTGGACTATAGTGTTAGCAATAT
84799 CTCTTGCATCAAAATTATCACCAA
196 CTCTTGCATCAAAATTATCACCAA
84823 ATAAATGAGT
Statistics
Matches: 216, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
219 212 0.98
220 4 0.02
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (220 bp):
GATGTAAAAGAAACTAAAGTAAATAGGACATGAAAATACAACAATTTCACAGATAGCAAATATGT
TAATATGATAAGCTTCTCTAGTTTTGATTGATAGGAAGGATAAAATTAAACAGAAAATAAATGAG
TAAGAAAGTGTTTATGATACATAAATGAATAAAGAAATCAACGTGGACTATAGTGTTAGCAATAT
CTCTTGCATCAAAATTATCACCAAT
Found at i:84892 original size:98 final size:98
Alignment explanation
Indices: 84723--84920 Score: 387
Period size: 98 Copynumber: 2.0 Consensus size: 98
84713 ATTAAACAGA
84723 AAATAAATGAGTAAGAAAGTGTTTATGATACATAAATGAATAAAGAAATCAACGTGGACTATAGT
1 AAATAAATGAGTAAGAAAGTGTTTATGATACATAAATGAATAAAGAAATCAACGTGGACTATAGT
84788 GTTAGCAATATCTCTTGCATCAAAATTATCACC
66 GTTAGCAATATCTCTTGCATCAAAATTATCACC
*
84821 AAATAAATGAGTGAGAAAGTGTTTATGATACATAAATGAATAAAGAAATCAACGTGGACTATAGT
1 AAATAAATGAGTAAGAAAGTGTTTATGATACATAAATGAATAAAGAAATCAACGTGGACTATAGT
84886 GTTAGCAATATCTCTTGCATCAAAATTATCACC
66 GTTAGCAATATCTCTTGCATCAAAATTATCACC
84919 AA
1 AA
84921 TGATGAACAT
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 99 1.00
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (98 bp):
AAATAAATGAGTAAGAAAGTGTTTATGATACATAAATGAATAAAGAAATCAACGTGGACTATAGT
GTTAGCAATATCTCTTGCATCAAAATTATCACC
Found at i:88553 original size:2 final size:2
Alignment explanation
Indices: 88546--88578 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
88536 AACATCGCAC
88546 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 A
88579 AAAGGTTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:96786 original size:29 final size:30
Alignment explanation
Indices: 96743--96809 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
96733 GTTGTGGATA
* *
96743 TAGTCCTTATACTTT-AAATTGACCAATTT
1 TAGTCATTATACTTTCAAATTGACCAATAT
* **
96772 TAGTCATTATTCTTTCCAAATTGGTCAATAT
1 TAGTCATTATACTTT-CAAATTGACCAATAT
96803 TAGTCAT
1 TAGTCAT
96810 GGTACTTTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 13 0.42
31 18 0.58
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.45
Consensus pattern (30 bp):
TAGTCATTATACTTTCAAATTGACCAATAT
Found at i:99189 original size:41 final size:41
Alignment explanation
Indices: 99094--99192 Score: 98
Period size: 38 Copynumber: 2.5 Consensus size: 41
99084 AGCAATAAAG
* * **
99094 TGACACCCAGTGTCTCATCG-GCCTAGCCGAAGTAAAGTGG
1 TGACACCCAGTGTCTCATCGAACCTAGCCGAAGTAAAATAA
** * *
99134 TG---CCCAGTACCTCATCGAATCTATCCGAAGTAAAATAA
1 TGACACCCAGTGTCTCATCGAACCTAGCCGAAGTAAAATAA
99172 TGACACCCAGTGTCTCATCGA
1 TGACACCCAGTGTCTCATCGA
99193 CTCAAGGTCG
Statistics
Matches: 45, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
37 13 0.29
38 16 0.36
40 2 0.04
41 14 0.31
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (41 bp):
TGACACCCAGTGTCTCATCGAACCTAGCCGAAGTAAAATAA
Found at i:99318 original size:18 final size:18
Alignment explanation
Indices: 99295--99341 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
99285 ACAATTCATA
99295 TCACTTTCAATCCCAATT
1 TCACTTTCAATCCCAATT
* ** *
99313 TCACTTTCACTTTCACTT
1 TCACTTTCAATCCCAATT
99331 TCACTTTCAAT
1 TCACTTTCAAT
99342 TTTGATCATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.23, C:0.32, G:0.00, T:0.45
Consensus pattern (18 bp):
TCACTTTCAATCCCAATT
Found at i:99320 original size:6 final size:6
Alignment explanation
Indices: 99311--99339 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
99301 TCAATCCCAA
99311 TTTCAC TTTCAC TTTCAC TTTCAC TTTCA
1 TTTCAC TTTCAC TTTCAC TTTCAC TTTCA
99340 ATTTTGATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.31, G:0.00, T:0.52
Consensus pattern (6 bp):
TTTCAC
Found at i:101148 original size:20 final size:18
Alignment explanation
Indices: 101125--101201 Score: 57
Period size: 20 Copynumber: 3.9 Consensus size: 18
101115 TTTCTTAGGA
101125 TTTATCAAAATTTATAATAT
1 TTTATCAAAATTT-TAA-AT
*
101145 TTTACCAAAATATTTAAGGA-
1 TTTATCAAAAT-TTTAA--AT
101165 TTTATCAAAATTTCTAAAGT
1 TTTATCAAAATTT-TAAA-T
* *
101185 TTTATAAAAATTCTAAA
1 TTTATCAAAATTTTAAA
101202 AATTTTCTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
18 1 0.02
19 6 0.13
20 37 0.79
21 3 0.06
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (18 bp):
TTTATCAAAATTTTAAAT
Found at i:101430 original size:32 final size:33
Alignment explanation
Indices: 101375--101437 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
101365 ATACCACTTC
101375 ACCAAAATTTCTAAAGATTTACCAA-ATTTTAA
1 ACCAAAATTTCTAAAGATTTACCAATATTTTAA
* *
101407 ACCAAAATTT-TTAAGGTTATACCAATATTTT
1 ACCAAAATTTCTAAAGATT-TACCAATATTTT
101438 TACTGGTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 6 0.22
32 16 0.59
33 5 0.19
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38
Consensus pattern (33 bp):
ACCAAAATTTCTAAAGATTTACCAATATTTTAA
Found at i:101436 original size:20 final size:19
Alignment explanation
Indices: 101407--101480 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 19
101397 CAAATTTTAA
101407 ACCAAAATTTTTAAGGTTAT
1 ACCAAAATTTTTAAGGTT-T
* *
101427 ACCAATATTTTTACTGGTTT
1 ACCAAAATTTTTA-AGGTTT
* * * *
101447 ACCGATATTTATAAGATTTT
1 ACCAAAATTTTTAAG-GTTT
101467 ACCAAAATTTTTAA
1 ACCAAAATTTTTAA
101481 AAATTTAACA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
19 1 0.02
20 38 0.88
21 4 0.09
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.43
Consensus pattern (19 bp):
ACCAAAATTTTTAAGGTTT
Found at i:101515 original size:60 final size:61
Alignment explanation
Indices: 101407--101526 Score: 136
Period size: 60 Copynumber: 2.0 Consensus size: 61
101397 CAAATTTTAA
** * * ** * *
101407 ACCAAAATTTTTAAGGTTATACCAATATTTTTACTGGTTTACCGATATTTAT-AAGATTTT
1 ACCAAAATTTTTAAAATTATAACAATATTATTAAAGGTTCACCAATATTTATAAAGATTTT
*
101467 ACCAAAATTTTTAAAAATT-TAACAATATTATTAAAGGTTCACCAATATTTCTAAAGATTT
1 ACCAAAATTTTT-AAAATTATAACAATATTATTAAAGGTTCACCAATATTTATAAAGATTT
101527 CCCTGATGAC
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
60 38 0.78
61 11 0.22
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (61 bp):
ACCAAAATTTTTAAAATTATAACAATATTATTAAAGGTTCACCAATATTTATAAAGATTTT
Found at i:102744 original size:38 final size:38
Alignment explanation
Indices: 102677--102752 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
102667 ATTGTTTCAA
* * *
102677 TGTTTGTTTTTATTTGAATAGTTGCCCACCACTATAGG
1 TGTTTATTTTTATTTGAATAATTGCCCACCAATATAGG
* **
102715 TGTTTATTTTTATTTGATTAATTTTCCACCAATATAGG
1 TGTTTATTTTTATTTGAATAATTGCCCACCAATATAGG
102753 AGAACACGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.24, C:0.13, G:0.14, T:0.49
Consensus pattern (38 bp):
TGTTTATTTTTATTTGAATAATTGCCCACCAATATAGG
Found at i:108271 original size:28 final size:26
Alignment explanation
Indices: 108232--108286 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 26
108222 CTGACATCTC
* *
108232 TTGTTTTAAATCAATGCTTTGATTTT
1 TTGTTTTAAATCAATGCCTTAATTTT
108258 TTGTCTTTGAAATCAATGCCTTAATTTT
1 TTGT-TTT-AAATCAATGCCTTAATTTT
108286 T
1 T
108287 ACTCTATAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.16
27 3 0.12
28 18 0.72
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.55
Consensus pattern (26 bp):
TTGTTTTAAATCAATGCCTTAATTTT
Found at i:108808 original size:23 final size:23
Alignment explanation
Indices: 108782--108828 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
108772 AAGTCTCATA
108782 TTTGATATGGCTGATAAATTTTT
1 TTTGATATGGCTGATAAATTTTT
108805 TTTGATATGGCTGATAAATTTTT
1 TTTGATATGGCTGATAAATTTTT
108828 T
1 T
108829 CTTTTTCAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.04, G:0.17, T:0.53
Consensus pattern (23 bp):
TTTGATATGGCTGATAAATTTTT
Found at i:134966 original size:5 final size:5
Alignment explanation
Indices: 134956--134984 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
134946 TTTAGCTGTT
134956 TCCTC TCCTC TCCTC TCCTC TCCTC TCCT
1 TCCTC TCCTC TCCTC TCCTC TCCTC TCCT
134985 AGAGGTTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (5 bp):
TCCTC
Found at i:135299 original size:15 final size:16
Alignment explanation
Indices: 135271--135308 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
135261 ATAGTAAAAT
*
135271 ATAAATTATCATTTTA
1 ATAATTTATCATTTTA
*
135287 ATAATTTAT-ATTTTT
1 ATAATTTATCATTTTA
135302 ATAATTT
1 ATAATTT
135309 TTAAAAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
ATAATTTATCATTTTA
Found at i:135330 original size:30 final size:32
Alignment explanation
Indices: 135296--135362 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 32
135286 AATAATTTAT
* *
135296 ATTTTTATAATTTTTAAAA-AGTTAAATTA-A
1 ATTTTTATAATTTTTAAAAGAATTAAAATATA
*
135326 ATTTTTATCATTTTTAAAAGAATTAAAATATA
1 ATTTTTATAATTTTTAAAAGAATTAAAATATA
135358 ATTTT
1 ATTTT
135363 ACTATTGCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 18 0.56
31 8 0.25
32 6 0.19
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (32 bp):
ATTTTTATAATTTTTAAAAGAATTAAAATATA
Found at i:147723 original size:20 final size:20
Alignment explanation
Indices: 147700--147739 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
147690 TTTAAAAATG
*
147700 AAAAATA-ATTAAAATTATTT
1 AAAAATATA-TAAAAATATTT
147720 AAAAATATATAAAAATATTT
1 AAAAATATATAAAAATATTT
147740 TAAATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATATATAAAAATATTT
Found at i:147734 original size:21 final size:21
Alignment explanation
Indices: 147700--147764 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
147690 TTTAAAAATG
*
147700 AAAAATA-ATTAAAATTATTT
1 AAAAATATATAAAAATTATTT
147720 AAAAATATATAAAAA-TATTTT
1 AAAAATATATAAAAATTA-TTT
* * * *
147741 AAATATTTTTAAAAATTAATT
1 AAAAATATATAAAAATTATTT
147762 AAA
1 AAA
147765 TGTTGACCCA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
20 9 0.24
21 26 0.70
22 2 0.05
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAATATATAAAAATTATTT
Found at i:150345 original size:24 final size:24
Alignment explanation
Indices: 150311--150516 Score: 107
Period size: 24 Copynumber: 8.3 Consensus size: 24
150301 GCCCCCGCCT
*
150311 GTTCCAATCTATAAACCTCCACCA
1 GTTCCAGTCTATAAACCTCCACCA
*
150335 GTTCCAGTCTATAAACCTCCTCCA
1 GTTCCAGTCTATAAACCTCCACCA
* *
150359 GTTCCAG--TAAAACCACTTCCTCCACCT
1 GTTCCAGTCTATAA--A---CCTCCACCA
* *
150386 GTTCCAATCTATAAACCTCCTCCA
1 GTTCCAGTCTATAAACCTCCACCA
* *
150410 GTTCCAG--TAAAACCACTTCCTCCACCT
1 GTTCCAGTCTATAA--A---CCTCCACCA
* *
150437 GTTCCAATCTACAAACCTCCACCA
1 GTTCCAGTCTATAAACCTCCACCA
** ** * * * *
150461 GTTGAAAAACCA-CATCCTCCACCT
1 GTT-CCAGTCTATAAACCTCCACCA
*
150485 GTTCCAGTCTATAAACCTCCACCG
1 GTTCCAGTCTATAAACCTCCACCA
150509 GTTCCAGT
1 GTTCCAGT
150517 ATACAAGAAA
Statistics
Matches: 135, Mismatches: 31, Indels: 32
0.68 0.16 0.16
Matches are distributed among these distances:
22 8 0.06
23 3 0.02
24 84 0.62
25 4 0.03
27 28 0.21
29 8 0.06
ACGTcount: A:0.28, C:0.38, G:0.08, T:0.26
Consensus pattern (24 bp):
GTTCCAGTCTATAAACCTCCACCA
Found at i:150380 original size:27 final size:27
Alignment explanation
Indices: 150350--150442 Score: 81
Period size: 27 Copynumber: 3.6 Consensus size: 27
150340 AGTCTATAAA
*
150350 CCTCCTCCAGTTCCAGTAAAACCACTT
1 CCTCCACCAGTTCCAGTAAAACCACTT
* *
150377 CCTCCACCTGTTCCAATCTATAAA-C-C-T
1 CCTCCACCAGTTCC-A-GTA-AAACCACTT
150404 CCT---CCAGTTCCAGTAAAACCACTT
1 CCTCCACCAGTTCCAGTAAAACCACTT
*
150428 CCTCCACCTGTTCCA
1 CCTCCACCAGTTCCA
150443 ATCTACAAAC
Statistics
Matches: 51, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
21 3 0.06
22 3 0.06
23 2 0.04
24 11 0.22
27 24 0.47
28 2 0.04
29 3 0.06
30 3 0.06
ACGTcount: A:0.25, C:0.42, G:0.06, T:0.27
Consensus pattern (27 bp):
CCTCCACCAGTTCCAGTAAAACCACTT
Found at i:150479 original size:48 final size:49
Alignment explanation
Indices: 150326--150512 Score: 250
Period size: 51 Copynumber: 3.8 Consensus size: 49
150316 AATCTATAAA
* * *
150326 CCTCCACCAGTTCCAGTCTATAAACCTCCTCCAGTTCCAGTAAAACCACTT
1 CCTCCACCTGTTCCAATCTATAAACCTCCACCAGTT-C-GTAAAACCACTT
*
150377 CCTCCACCTGTTCCAATCTATAAACCTCCTCCAGTTCCAGTAAAACCACTT
1 CCTCCACCTGTTCCAATCTATAAACCTCCACCAGTT-C-GTAAAACCACTT
* * *
150428 CCTCCACCTGTTCCAATCTACAAACCTCCACCAGTT-GAAAAACCACAT
1 CCTCCACCTGTTCCAATCTATAAACCTCCACCAGTTCGTAAAACCACTT
* *
150476 CCTCCACCTGTTCCAGTCTATAAACCTCCACCGGTTC
1 CCTCCACCTGTTCCAATCTATAAACCTCCACCAGTTC
150513 CAGTATACAA
Statistics
Matches: 126, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
48 43 0.34
51 83 0.66
ACGTcount: A:0.27, C:0.40, G:0.07, T:0.25
Consensus pattern (49 bp):
CCTCCACCTGTTCCAATCTATAAACCTCCACCAGTTCGTAAAACCACTT
Found at i:150546 original size:33 final size:33
Alignment explanation
Indices: 150500--150787 Score: 216
Period size: 33 Copynumber: 9.5 Consensus size: 33
150490 AGTCTATAAA
*
150500 CCTCCACCGGTTCCAGTATACAAGAAACCATGT
1 CCTCCACCAGTTCCAGTATACAAGAAACCATGT
* *
150533 CCTCCACCAGTTCCAG--T-CTA-TAA--A---
1 CCTCCACCAGTTCCAGTATACAAGAAACCATGT
*
150557 CCTCCACCGGTTCCAGTATACAAGAAACCATGT
1 CCTCCACCAGTTCCAGTATACAAGAAACCATGT
* *
150590 CCTCCACCAGTTCCAG--T-CTA-TAA--A---
1 CCTCCACCAGTTCCAGTATACAAGAAACCATGT
*
150614 CCTCCACCCGTTCCAGTATACAAGAAACCATGT
1 CCTCCACCAGTTCCAGTATACAAGAAACCATGT
* *
150647 CCTCCACCAGTTCCAGTCTA-TA-AAA-C---T
1 CCTCCACCAGTTCCAGTATACAAGAAACCATGT
* **
150674 CCT---CCGGTTCCAGTATACAAGAAACCACAT
1 CCTCCACCAGTTCCAGTATACAAGAAACCATGT
* * * **
150704 CCTCCTCCAGTTCCAGTCTATAAGAAACCACAT
1 CCTCCACCAGTTCCAGTATACAAGAAACCATGT
*
150737 CCACCACCAGTTCCAGTATACAAGAAACCATGT
1 CCTCCACCAGTTCCAGTATACAAGAAACCATGT
*
150770 CCTCCCCCAGTTCCAGTA
1 CCTCCACCAGTTCCAGTA
150788 AATAAGCCTC
Statistics
Matches: 199, Mismatches: 29, Indels: 54
0.71 0.10 0.19
Matches are distributed among these distances:
24 42 0.21
25 1 0.01
26 5 0.03
27 11 0.06
28 4 0.02
29 4 0.02
30 11 0.06
31 5 0.03
32 1 0.01
33 115 0.58
ACGTcount: A:0.30, C:0.36, G:0.11, T:0.22
Consensus pattern (33 bp):
CCTCCACCAGTTCCAGTATACAAGAAACCATGT
Found at i:150555 original size:57 final size:57
Alignment explanation
Indices: 150326--150905 Score: 535
Period size: 57 Copynumber: 10.4 Consensus size: 57
150316 AATCTATAAA
*
150326 CCTCCACCAGTTCCAGTCTATAAACCTCCTCCAGTTCCAG--T---A-AAACCACT-T
1 CCTCCACCAGTTCCAGTCTATAAACCTCCACCAGTTCCAGTATACAAGAAACCA-TGT
* * *
150377 CCTCCACCTGTTCCAATCTATAAACCTCCTCCAGTTCCAG--T---A-AAACCACT-T
1 CCTCCACCAGTTCCAGTCTATAAACCTCCACCAGTTCCAGTATACAAGAAACCA-TGT
* * * **
150428 CCTCCACCTGTTCCAATCTACAAACCTCCACCAGTT---G-----AA-AAACCACAT
1 CCTCCACCAGTTCCAGTCTATAAACCTCCACCAGTTCCAGTATACAAGAAACCATGT
* *
150476 CCTCCACCTGTTCCAGTCTATAAACCTCCACCGGTTCCAGTATACAAGAAACCATGT
1 CCTCCACCAGTTCCAGTCTATAAACCTCCACCAGTTCCAGTATACAAGAAACCATGT
*
150533 CCTCCACCAGTTCCAGTCTATAAACCTCCACCGGTTCCAGTATACAAGAAACCATGT
1 CCTCCACCAGTTCCAGTCTATAAACCTCCACCAGTTCCAGTATACAAGAAACCATGT
*
150590 CCTCCACCAGTTCCAGTCTATAAACCTCCACCCGTTCCAGTATACAAGAAACCATGT
1 CCTCCACCAGTTCCAGTCTATAAACCTCCACCAGTTCCAGTATACAAGAAACCATGT
* * * **
150647 CCTCCACCAGTTCCAGTCTATAAAACTCCTCCGGTTCCAGTATACAAGAAACCACAT
1 CCTCCACCAGTTCCAGTCTATAAACCTCCACCAGTTCCAGTATACAAGAAACCATGT
*
150704 CCTCCTCCAGTTCCAGTCTATAAGAAACCACATCCACCACCAGTTCCAGTATACAAGAAACCATG
1 CCTCCACCAGTTCCAGTCTAT---AAA-C-C-T---CCACCAGTTCCAGTATACAAGAAACCATG
150769 T
57 T
* ** * * *
150770 CCTCCCCCAGTTCCAGTAAATAAGCCTCCTCCAGTTCCGGTATACAAGAAACCA-GT
1 CCTCCACCAGTTCCAGTCTATAAACCTCCACCAGTTCCAGTATACAAGAAACCATGT
* * * * * * * * * *
150826 CCCTCCTCCGGTTCCAATCTACAAGCCCCCTCCAGTTCCTGTATACAACAAACCACT-A
1 -CCTCCACCAGTTCCAGTCTATAAACCTCCACCAGTTCCAGTATACAAGAAACCA-TGT
* *
150884 CCTCCCCCAGTTCCAGTGTATA
1 CCTCCACCAGTTCCAGTCTATA
150906 CGAAGCCACT
Statistics
Matches: 462, Mismatches: 44, Indels: 40
0.85 0.08 0.07
Matches are distributed among these distances:
48 42 0.09
51 84 0.18
56 4 0.01
57 278 0.60
60 4 0.01
61 1 0.00
62 2 0.00
63 3 0.01
66 44 0.10
ACGTcount: A:0.29, C:0.37, G:0.10, T:0.23
Consensus pattern (57 bp):
CCTCCACCAGTTCCAGTCTATAAACCTCCACCAGTTCCAGTATACAAGAAACCATGT
Found at i:150651 original size:90 final size:88
Alignment explanation
Indices: 150557--150850 Score: 226
Period size: 90 Copynumber: 3.3 Consensus size: 88
150547 AGTCTATAAA
* *
150557 CCTCCACCGGTTCCAGTATACAAGAAACCATGTCCTCCACCAGTTCCAGTCTATAAACCTCCACC
1 CCTCCACCAGTTCCAGTATACAAGAAACCATGTCCTCC-CCAGTTCCAGTCAATAAACCTCCACC
150622 CGTTCCAGTATACAAGAAACCATGT
65 CGTTCCAGTATACAAGAAACCA-GT
* * * *
150647 CCTCCACCAGTTCCAGTCTA-TA-AAA-C---TCCT--CCGGTTCCAGTATACAAGAAACCACAT
1 CCTCCACCAGTTCCAGTATACAAGAAACCATGTCCTCCCCAGTTCCAG--T-CAATAAA-C-C-T
* * * *
150704 CCTCCTCCAGTTCCAGTCTATAAGAAACCACAT
60 CC-AC-CC-GTTCCAGTATACAAGAAACCA-GT
* * * *
150737 CCACCACCAGTTCCAGTATACAAGAAACCATGTCCTCCCCCAGTTCCAGTAAATAAGCCTCCTCC
1 CCTCCACCAGTTCCAGTATACAAGAAACCATGTCCT-CCCCAGTTCCAGTCAATAAACCTCCACC
* *
150802 AGTTCCGGTATACAAGAAACCAGT
65 CGTTCCAGTATACAAGAAACCAGT
* * * *
150826 CCCTCCTCCGGTTCCAATCTACAAG
1 -CCTCCACCAGTTCCAGTATACAAG
150851 CCCCCTCCAG
Statistics
Matches: 156, Mismatches: 29, Indels: 38
0.70 0.13 0.17
Matches are distributed among these distances:
81 9 0.06
83 1 0.01
84 9 0.06
85 1 0.01
86 1 0.01
87 4 0.03
88 4 0.03
89 4 0.03
90 93 0.60
91 2 0.01
92 4 0.03
93 4 0.03
94 1 0.01
95 1 0.01
96 8 0.05
97 1 0.01
99 9 0.06
ACGTcount: A:0.30, C:0.36, G:0.12, T:0.22
Consensus pattern (88 bp):
CCTCCACCAGTTCCAGTATACAAGAAACCATGTCCTCCCCAGTTCCAGTCAATAAACCTCCACCC
GTTCCAGTATACAAGAAACCAGT
Found at i:150858 original size:147 final size:147
Alignment explanation
Indices: 150707--150988 Score: 325
Period size: 147 Copynumber: 1.9 Consensus size: 147
150697 ACCACATCCT
* * *
150707 CCTCCAGTTCCAGTCTATAAGAAACCAC-ATCCACCACCAGTTCCAGTATACAAGAAACCA-TGT
1 CCTCCAGTTCCAGTATACAACAAACCACTA-CCACCACCAGTTCCAGTATACAAGAAACCACT-T
* * * * * * * * *
150770 CCTCCCCCAGTTCCAGTAAATAAGCCTCCTCCAGTTCCGGTATACAAGAAACCAGTCCCTCCTCC
64 CCACCACCAGTTCCAATAAACAAGCCCCCTCCAGTTCCGGTATACAACAAACCACTACCTCCCCC
150835 GGTTCCAATCTACAAGCCC
129 GGTTCCAATCTACAAGCCC
* * * * * * *
150854 CCTCCAGTTCCTGTATACAACAAACCACTACCTCCCCCAGTTCCAGTGTATACGAAGCCACTTCC
1 CCTCCAGTTCCAGTATACAACAAACCACTACCACCACCAGTTCCAGTATACAAGAAACCACTTCC
* ** *
150919 ACCACCTGTTCCAATCTACAAGCCCCCTCCAGTTCCTGTATACAACAAACCACTACCTCCCCCGG
66 ACCACCAGTTCCAATAAACAAGCCCCCTCCAGTTCCGGTATACAACAAACCACTACCTCCCCCGG
150984 TTCCA
131 TTCCA
150989 GTGTATACGA
Statistics
Matches: 110, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
147 108 0.98
148 2 0.02
ACGTcount: A:0.28, C:0.40, G:0.11, T:0.22
Consensus pattern (147 bp):
CCTCCAGTTCCAGTATACAACAAACCACTACCACCACCAGTTCCAGTATACAAGAAACCACTTCC
ACCACCAGTTCCAATAAACAAGCCCCCTCCAGTTCCGGTATACAACAAACCACTACCTCCCCCGG
TTCCAATCTACAAGCCC
Found at i:150872 original size:180 final size:177
Alignment explanation
Indices: 150475--150940 Score: 509
Period size: 180 Copynumber: 2.6 Consensus size: 177
150465 AAAAACCACA
* * * * * *
150475 TCCTCCACCTGTTCCAGTCTA-TAAACCTCCACCGGTTCCAGTATACAAGAAACCATGTCCTCCA
1 TCCTCCACCAGTTCCAATCTACAAAACC-CCTCCAGTTCCAGTATACAAGAAACCA-CTCCTCCA
*
150539 CCAGTTCCAGTCTAT--AAA-C-CT---CCACCGGTTCCAGTATACAAGAAACCATGTCCTCCAC
64 CCAGTTCCAGTCTATAGAAACCACTCCACCACCAGTTCCAGTATACAAGAAACCATGTCCTCCAC
** *
150597 CAGTTCCAGTCTATAAACCTCCACCCGTTCCAGTATACAAGAAACCATG
129 CAGTTCCAGTAAATAAACCTCCACCAGTTCCAGTATACAAGAAACCATG
* * * * *
150646 TCCTCCACCAGTTCCAGTCTATAAAACTCCTCCGGTTCCAGTATACAAGAAACCACATCCTCCTC
1 TCCTCCACCAGTTCCAATCTACAAAACCCCTCCAGTTCCAGTATACAAGAAACCAC-TCCTCCAC
*
150711 CAGTTCCAGTCTATAAGAAACCACATCCACCACCAGTTCCAGTATACAAGAAACCATGTCCTCCC
65 CAGTTCCAGTCTAT-AGAAACCAC-TCCACCACCAGTTCCAGTATACAAGAAACCATGTCCTCCA
* * *
150776 CCAGTTCCAGTAAATAAGCCTCCTCCAGTTCCGGTATACAAGAAACCA-G
128 CCAGTTCCAGTAAATAAACCTCCACCAGTTCCAGTATACAAGAAACCATG
* * ** * * *
150825 TCCCTCCTCCGGTTCCAATCTACAAGCCCCCTCCAGTTCCTGTATACAACAAACCACTACCTCCC
1 T-CCTCCACCAGTTCCAATCTACAAAACCCCTCCAGTTCCAGTATACAAGAAACCACT-CCTCCA
* * * * *
150890 CCAGTTCCAGTGTATACGAAGCCACTTCCACCACCTGTTCCAATCTACAAG
64 CCAGTTCCAGTCTATA-GAAACCAC-TCCACCACCAGTTCCAGTATACAAG
150941 CCCCCTCCAG
Statistics
Matches: 250, Mismatches: 31, Indels: 19
0.83 0.10 0.06
Matches are distributed among these distances:
171 67 0.27
172 4 0.02
174 3 0.01
175 1 0.00
176 1 0.00
177 1 0.00
179 4 0.02
180 169 0.68
ACGTcount: A:0.29, C:0.37, G:0.11, T:0.23
Consensus pattern (177 bp):
TCCTCCACCAGTTCCAATCTACAAAACCCCTCCAGTTCCAGTATACAAGAAACCACTCCTCCACC
AGTTCCAGTCTATAGAAACCACTCCACCACCAGTTCCAGTATACAAGAAACCATGTCCTCCACCA
GTTCCAGTAAATAAACCTCCACCAGTTCCAGTATACAAGAAACCATG
Found at i:150888 original size:90 final size:90
Alignment explanation
Indices: 150794--151022 Score: 318
Period size: 90 Copynumber: 2.5 Consensus size: 90
150784 AGTAAATAAG
* * * *
150794 CCTCCTCCAGTTCC-G-GTATACAAGAAACCAGTCCCTCCTCCGGTTCCAATCTACAAGCCCCCT
1 CCTCCCCCAGTTCCAGTGTATAC--GAAACCACTCCCACCACCGGTTCCAATCTACAAGCCCCCT
150857 CCAGTTCCTGTATACAACAAACCACTA
64 CCAGTTCCTGTATACAACAAACCACTA
* * *
150884 CCTCCCCCAGTTCCAGTGTATACGAAGCCACTTCCACCACCTGTTCCAATCTACAAGCCCCCTCC
1 CCTCCCCCAGTTCCAGTGTATACGAAACCACTCCCACCACCGGTTCCAATCTACAAGCCCCCTCC
150949 AGTTCCTGTATACAACAAACCACTA
66 AGTTCCTGTATACAACAAACCACTA
* * * * *
150974 CCTCCCCCGGTTCCAGTGTATACGAAGCCACTTCCACCTCCTGTTCCAA
1 CCTCCCCCAGTTCCAGTGTATACGAAACCACTCCCACCACCGGTTCCAA
151023 CCTATAACCC
Statistics
Matches: 128, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
90 121 0.95
91 1 0.01
92 6 0.05
ACGTcount: A:0.25, C:0.41, G:0.11, T:0.23
Consensus pattern (90 bp):
CCTCCCCCAGTTCCAGTGTATACGAAACCACTCCCACCACCGGTTCCAATCTACAAGCCCCCTCC
AGTTCCTGTATACAACAAACCACTA
Found at i:150915 original size:33 final size:32
Alignment explanation
Indices: 150878--151005 Score: 76
Period size: 33 Copynumber: 4.2 Consensus size: 32
150868 ATACAACAAA
150878 CCACTACCTCCCCCAGTTCCAGTGTATACGAAG
1 CCACTACCTCCCCCAGTTCCA-TGTATACGAAG
* * * * * *
150911 CCACTTCCACCACCTGTTCCA-ATCTAC-AAG
1 CCACTACCTCCCCCAGTTCCATGTATACGAAG
* *
150941 CC-C--CCT---CCAGTTCC-TGTATACAACAAA
1 CCACTACCTCCCCCAGTTCCATGTATAC--GAAG
*
150968 CCACTACCTCCCCCGGTTCCAGTGTATACGAAG
1 CCACTACCTCCCCCAGTTCCA-TGTATACGAAG
151001 CCACT
1 CCACT
151006 TCCACCTCCT
Statistics
Matches: 69, Mismatches: 14, Indels: 24
0.64 0.13 0.22
Matches are distributed among these distances:
24 11 0.16
27 6 0.09
28 1 0.01
29 1 0.01
30 8 0.12
31 4 0.06
33 31 0.45
35 7 0.10
ACGTcount: A:0.25, C:0.41, G:0.12, T:0.22
Consensus pattern (32 bp):
CCACTACCTCCCCCAGTTCCATGTATACGAAG
Found at i:151064 original size:18 final size:18
Alignment explanation
Indices: 151041--151076 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
151031 CCAAAACCCC
151041 TCCCTCCACTTCCC-AAGA
1 TCCCTCCA-TTCCCTAAGA
151059 TCCCTCCATTCCCTAAGA
1 TCCCTCCATTCCCTAAGA
151077 AGCCATGCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.22, C:0.47, G:0.06, T:0.25
Consensus pattern (18 bp):
TCCCTCCATTCCCTAAGA
Found at i:151148 original size:60 final size:60
Alignment explanation
Indices: 151084--151266 Score: 314
Period size: 60 Copynumber: 3.0 Consensus size: 60
151074 AGAAGCCATG
*
151084 CCCTCCCCTTCCTAAGCTACCCCCTCTTCCC-AAGATTCCTCCCAAGTATTTCCACCACCA
1 CCCTCCCCTTCCTAAGCTACCTCCTC-TCCCTAAGATTCCTCCCAAGTATTTCCACCACCA
*
151144 CCCTCCCCTTCCTAGGCTACCTCCTCTCCCTAAGATTCCTCCCAAGTATTTCCACCACCA
1 CCCTCCCCTTCCTAAGCTACCTCCTCTCCCTAAGATTCCTCCCAAGTATTTCCACCACCA
* *
151204 CCCTCCCCTTCATAAGCTACCTGCTCTCCCTAAGATTCCTCCCAAGTATTTCCACCACCA
1 CCCTCCCCTTCCTAAGCTACCTCCTCTCCCTAAGATTCCTCCCAAGTATTTCCACCACCA
151264 CCC
1 CCC
151267 CAAGTTCGGA
Statistics
Matches: 117, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
59 4 0.03
60 113 0.97
ACGTcount: A:0.20, C:0.49, G:0.06, T:0.26
Consensus pattern (60 bp):
CCCTCCCCTTCCTAAGCTACCTCCTCTCCCTAAGATTCCTCCCAAGTATTTCCACCACCA
Found at i:151689 original size:28 final size:28
Alignment explanation
Indices: 151652--151707 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
151642 GGATCCTAAC
151652 CTACTCACCAGCATTATGTATCTTATAA
1 CTACTCACCAGCATTATGTATCTTATAA
151680 CTACTCACCAGCATTATGTATCTTATAA
1 CTACTCACCAGCATTATGTATCTTATAA
151708 TTAATGCCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (28 bp):
CTACTCACCAGCATTATGTATCTTATAA
Found at i:159288 original size:3 final size:3
Alignment explanation
Indices: 159280--159354 Score: 150
Period size: 3 Copynumber: 25.0 Consensus size: 3
159270 CTATTTAAAT
159280 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
159328 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
159355 CCAACTTAAG
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:160030 original size:24 final size:24
Alignment explanation
Indices: 159998--160047 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
159988 TAATGTGGAA
*
159998 CCAGTAGAAAATGAAGATTCAACT
1 CCAGTAGAAAATGAAGATCCAACT
160022 CCAGTAGAAAATGAAGATCCAACT
1 CCAGTAGAAAATGAAGATCCAACT
160046 CC
1 CC
160048 TTATATGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.18
Consensus pattern (24 bp):
CCAGTAGAAAATGAAGATCCAACT
Found at i:160751 original size:12 final size:11
Alignment explanation
Indices: 160710--160747 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
160700 CTCAACTAAA
160710 TAAA-AAAAAT
1 TAAATAAAAAT
160720 TAAATAACAAAT
1 TAAATAA-AAAT
*
160732 AAAATAAAAAT
1 TAAATAAAAAT
160743 TAAAT
1 TAAAT
160748 TAAACAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 4 0.17
11 10 0.42
12 10 0.42
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (11 bp):
TAAATAAAAAT
Found at i:161672 original size:6 final size:6
Alignment explanation
Indices: 161661--161692 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
161651 AGAATTATCA
161661 TCCTAT TCCTAT TCCTAT TCCTAT TCCTAT TC
1 TCCTAT TCCTAT TCCTAT TCCTAT TCCTAT TC
161693 AGTATCTCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.34, G:0.00, T:0.50
Consensus pattern (6 bp):
TCCTAT
Found at i:162015 original size:5 final size:5
Alignment explanation
Indices: 162005--162030 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
161995 CGATATTATA
162005 ATAAT ATAAT ATAAT ATAAT ATAAT A
1 ATAAT ATAAT ATAAT ATAAT ATAAT A
162031 ATATTTGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:165561 original size:18 final size:19
Alignment explanation
Indices: 165538--165573 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
165528 GAAAACAGTT
*
165538 TTGCAAGCC-TATATTTTG
1 TTGCAAACCATATATTTTG
165556 TTGCAAACCATATATTTT
1 TTGCAAACCATATATTTT
165574 TAGTGACGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.44
Consensus pattern (19 bp):
TTGCAAACCATATATTTTG
Found at i:168424 original size:25 final size:25
Alignment explanation
Indices: 168396--168445 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
168386 CAGTACTGTG
*
168396 TGTGCCTACTGTTT-CCTAGCACTTA
1 TGTG-CTACTGTTTCCCCAGCACTTA
*
168421 TGTGCTTCTGTTTCCCCAGCACTTA
1 TGTGCTACTGTTTCCCCAGCACTTA
168446 AGCGCTTCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.14, C:0.30, G:0.16, T:0.40
Consensus pattern (25 bp):
TGTGCTACTGTTTCCCCAGCACTTA
Found at i:168432 original size:24 final size:25
Alignment explanation
Indices: 168404--168457 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
168394 TGTGTGCCTA
* * *
168404 CTGTTT-CCTAGCACTTATGTGCTT
1 CTGTTTCCCCAGCACTTAAGCGCTT
168428 CTGTTTCCCCAGCACTTAAGCGCTT
1 CTGTTTCCCCAGCACTTAAGCGCTT
168453 CTGTT
1 CTGTT
168458 AAGTGCTTCG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 6 0.23
25 20 0.77
ACGTcount: A:0.13, C:0.30, G:0.17, T:0.41
Consensus pattern (25 bp):
CTGTTTCCCCAGCACTTAAGCGCTT
Found at i:169456 original size:29 final size:28
Alignment explanation
Indices: 169402--169457 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
169392 TAAAATTAGG
* **
169402 TTTAAATTGGTTTAAATTTATTTTTAAA
1 TTTAAATTGCTTTAAATTTAAATTTAAA
169430 TTTAAATTTGCTTTAAATTTAAATTTAA
1 TTTAAA-TTGCTTTAAATTTAAATTTAA
169458 TCAAATTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (28 bp):
TTTAAATTGCTTTAAATTTAAATTTAAA
Found at i:169540 original size:14 final size:15
Alignment explanation
Indices: 169521--169550 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
169511 AAATTAAATT
169521 AAAGTCC-AATTACA
1 AAAGTCCAAATTACA
169535 AAAGTCCAAATTACA
1 AAAGTCCAAATTACA
169550 A
1 A
169551 TGTCCCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.53, C:0.20, G:0.07, T:0.20
Consensus pattern (15 bp):
AAAGTCCAAATTACA
Found at i:170187 original size:21 final size:23
Alignment explanation
Indices: 170145--170190 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
170135 ATATATATTA
170145 AATAATTTCATTAATGATGATAAT
1 AATAATTTCATTAA-GATGATAAT
*
170169 AATAATTTTATTAA-A-GATAAT
1 AATAATTTCATTAAGATGATAAT
170190 A
1 A
170191 TTTATTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 1 0.05
24 13 0.62
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (23 bp):
AATAATTTCATTAAGATGATAAT
Found at i:170188 original size:15 final size:16
Alignment explanation
Indices: 170170--170199 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
170160 GATGATAATA
170170 ATAAT-TTTATTAAAG
1 ATAATATTTATTAAAG
170185 ATAATATTTATTAAA
1 ATAATATTTATTAAA
170200 TAATTAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAATATTTATTAAAG
Found at i:170222 original size:19 final size:21
Alignment explanation
Indices: 170185--170230 Score: 78
Period size: 19 Copynumber: 2.3 Consensus size: 21
170175 TTTATTAAAG
170185 ATAATATTTATTAAATAATTA
1 ATAATATTTATTAAATAATTA
170206 ATAATA-TTATT-AATAATTA
1 ATAATATTTATTAAATAATTA
170225 ATAATA
1 ATAATA
170231 ATAAAAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 14 0.56
20 5 0.20
21 6 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATAATATTTATTAAATAATTA
Found at i:171267 original size:30 final size:29
Alignment explanation
Indices: 171210--171480 Score: 258
Period size: 29 Copynumber: 9.2 Consensus size: 29
171200 AAACTGTCTG
* *
171210 AAAATTACATTTTTTCCCTCG-AACTTCCA
1 AAAATTCCATTTTTACCC-CGAAACTTCCA
* **
171239 AAAATTCCATTTTCGACCTTGAAACTTCCA
1 AAAATTCCATTTT-TACCCCGAAACTTCCA
** *
171269 AAAATTTAATTTTTACCCCCAAACTTCCA
1 AAAATTCCATTTTTACCCCGAAACTTCCA
171298 AAAATTCCATTTTTGACCCCGAAACTTCCA
1 AAAATTCCATTTTT-ACCCCGAAACTTCCA
* ** * * *
171328 AAAATTCCATTTTCAACTTCAAAACCTCTA
1 AAAATTCCATTTT-TACCCCGAAACTTCCA
*
171358 AAAATTCCATTTTTACCCCTAAACTTCCA
1 AAAATTCCATTTTTACCCCGAAACTTCCA
* * *
171387 AAAATTCTATTTTTATCCTCGAAACTTTCA
1 AAAATTCCATTTTTA-CCCCGAAACTTCCA
*
171417 AAAATTCCATTTTTACCCTCG-AACTTTCA
1 AAAATTCCATTTTTACCC-CGAAACTTCCA
* * * **
171446 AAAATTCTATTTTTACCTCTAAACTTTTA
1 AAAATTCCATTTTTACCCCGAAACTTCCA
171475 AAAATT
1 AAAATT
171481 AACATTTTGC
Statistics
Matches: 199, Mismatches: 36, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
28 1 0.01
29 100 0.50
30 98 0.49
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (29 bp):
AAAATTCCATTTTTACCCCGAAACTTCCA
Found at i:171281 original size:59 final size:58
Alignment explanation
Indices: 171210--171489 Score: 239
Period size: 59 Copynumber: 4.7 Consensus size: 58
171200 AAACTGTCTG
* * *
171210 AAAA-TTACATTTTTTCCCTCGAACTTCCAAAAATTCCATTTTCGACCTTGAAACTTCCA
1 AAAATTTA-ATTTTTACCCTCAAACTTCCAAAAATTCCATTTT-GACCCTGAAACTTCCA
* *
171269 AAAATTTAATTTTTACCCCCAAACTTCCAAAAATTCCATTTTTGACCCCGAAACTTCCA
1 AAAATTTAATTTTTACCCTCAAACTTCCAAAAATTCCA-TTTTGACCCTGAAACTTCCA
** * * * * * *
171328 AAAATTCCATTTTCAACTTCAAAACCTCTAAAAATTCCATTTTTACCCCT-AAACTTCCA
1 AAAATTTAATTTTTACCCTC-AAACTTCCAAAAATTCCATTTTGA-CCCTGAAACTTCCA
* * * *
171387 AAAATTCT-ATTTTTATCCTCGAAACTTTCAAAAATTCCATTTTTACCCTCG-AACTTTCA
1 AAAATT-TAATTTTTACCCTC-AAACTTCCAAAAATTCCATTTTGACCCT-GAAACTTCCA
** *
171446 AAAATTCT-ATTTTTA-CCTCTAAACTTTTAAAAATTAACATTTTG
1 AAAATT-TAATTTTTACCCTC-AAACTTCCAAAAATT-CCATTTTG
171490 CCCCCGATGA
Statistics
Matches: 185, Mismatches: 28, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
58 22 0.12
59 137 0.74
60 26 0.14
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (58 bp):
AAAATTTAATTTTTACCCTCAAACTTCCAAAAATTCCATTTTGACCCTGAAACTTCCA
Found at i:171460 original size:29 final size:29
Alignment explanation
Indices: 171210--171462 Score: 242
Period size: 30 Copynumber: 8.6 Consensus size: 29
171200 AAACTGTCTG
* *
171210 AAAATTACATTTTTTCCCTCGAACTTCCA
1 AAAATTCCATTTTTACCCTCGAACTTCCA
* *
171239 AAAATTCCATTTTCGA-CCTTGAAACTTCCA
1 AAAATTCCATTTT-TACCCTCG-AACTTCCA
** * *
171269 AAAATTTAATTTTTACCCCCAAACTTCCA
1 AAAATTCCATTTTTACCCTCGAACTTCCA
171298 AAAATTCCATTTTTGACCC-CGAAACTTCCA
1 AAAATTCCATTTTT-ACCCTCG-AACTTCCA
* * * * * *
171328 AAAATTCCATTTTCAACTTCAAAACCTCTA
1 AAAATTCCATTTTTACCCTC-GAACTTCCA
*
171358 AAAATTCCATTTTTACCC-CTAAACTTCCA
1 AAAATTCCATTTTTACCCTC-GAACTTCCA
* * *
171387 AAAATTCTATTTTTATCCTCGAAACTTTCA
1 AAAATTCCATTTTTACCCTCG-AACTTCCA
*
171417 AAAATTCCATTTTTACCCTCGAACTTTCA
1 AAAATTCCATTTTTACCCTCGAACTTCCA
*
171446 AAAATTCTATTTTTACC
1 AAAATTCCATTTTTACC
171463 TCTAAACTTT
Statistics
Matches: 183, Mismatches: 32, Indels: 18
0.79 0.14 0.08
Matches are distributed among these distances:
29 88 0.48
30 95 0.52
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.36
Consensus pattern (29 bp):
AAAATTCCATTTTTACCCTCGAACTTCCA
Found at i:171580 original size:58 final size:57
Alignment explanation
Indices: 171385--171580 Score: 191
Period size: 58 Copynumber: 3.4 Consensus size: 57
171375 CCTAAACTTC
* *
171385 CAAAAATTCTATTTTTATCCTCGAAACTTTCAAAAATT-CCATTTTTACCCTCGAACTTT
1 CAAAAATTCTATTTTTAACCTCGAAACTTTC-AAAATTACCA-TTTTACCCTCGAA-TGT
* * * * * *
171444 CAAAAATTCTATTTTT-ACCTCTAAACTTTTAAAAATTAACATTTTGCCCCCG-ATGAC
1 CAAAAATTCTATTTTTAACCTCGAAAC-TTTCAAAATTACCATTTTACCCTCGAATG-T
* * ** * *
171501 CAAAAACTCCATTTTCGACCTCGAAACTCTCAAAATTACCCTTTTACCCTCGAATGT
1 CAAAAATTCTATTTTTAACCTCGAAACTTTCAAAATTACCATTTTACCCTCGAATGT
171558 CTAAAAATTCTATTTTTAACCTC
1 C-AAAAATTCTATTTTTAACCTC
171581 TAATTTTCCC
Statistics
Matches: 108, Mismatches: 23, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
56 1 0.01
57 34 0.31
58 52 0.48
59 21 0.19
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.37
Consensus pattern (57 bp):
CAAAAATTCTATTTTTAACCTCGAAACTTTCAAAATTACCATTTTACCCTCGAATGT
Found at i:180470 original size:205 final size:205
Alignment explanation
Indices: 180104--181092 Score: 1395
Period size: 205 Copynumber: 4.8 Consensus size: 205
180094 ACGATTATCC
* ** *
180104 ACAAATGACGCGGTCATCTTTGTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTTGA
1 ACAAACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGA
*
180169 TGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAA
66 TGTGAGTAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAA
* * * *
180234 GGTTAGCTTTCTGATGGGATACTGAGAAGTGGACCAAATTCATCTT-TCTGATGAGATATAGAGA
131 GGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCT-TGATGAGATACAGAGA
180298 AGCGAATTGAA
195 AGCGAATTGAA
* * * * *
180309 ACAAACGATGCGGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAATGAAACCCATGCTTGA
1 ACAAACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGA
* ** *
180374 TGTGAGTAAATCTTCGAACCCTAGCTTCCTGATGAGACACTCCGAAGCAGGTCGAAGTAATAAAA
66 TGTGAGTAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAA
* * *
180439 GGTTAGCTTCCTGATGAGATACTGTGAAGTGGACCAAATTCGTCTTCTTAATGAGATACAGATAA
131 GGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATACAGAGAA
180504 GCGAATTGAA
196 GCGAATTGAA
* * * * * * *
180514 GCAAATGACGCGGTTATCTTCTTGATGAGATACTGAGAAGAAGACCAAATCAAACCCGCACTCAA
1 ACAAACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGA
* * * *
180579 TGTGAGTAAATCTTCGAACCTCGGCTTCCTGATGAGACACTGAGAAACAGGTCAAAGCAATAAAA
66 TGTGAGTAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAA
**
180644 GGTTAGCTTCCTGATGAGATACTGAGAAGTGGATTAAATTCGTCTTCTTGATGAGATACAGAGAA
131 GGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATACAGAGAA
180709 GCGAATTGAA
196 GCGAATTGAA
* * * * ** * *
180719 GCAAACGACACGGTCATCTTCCTGATGAGATACTGATAAGAAGACTAAATCAAACCTGCACTCAA
1 ACAAACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGA
* ** * * * *
180784 TGTGAGTGAATCTTTAAACCCCAACTTCCTGATGAGACACTAAAAAGCAGGGCGAAGCAATAAAA
66 TGTGAGTAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAA
* *
180849 GGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTTGTCTTCTTGATGAGATACAGAAAA
131 GGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATACAGAGAA
180914 GCGAATTGAA
196 GCGAATTGAA
* * *
180924 ACAAAAGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACTAAATCAAACCCACGCTCGA
1 ACAAACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGA
* * * * * *
180989 TGTGAGCAAATCTTTGAACCCCAGCTTCTTGATGAGACACTGAGAAGCTGATCGATGCAATAAAA
66 TGTGAGTAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAA
* **
181054 GGTTAGCTTCCTGATGAGATTCTGAGAAGAAGACCAAAT
131 GGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAAT
181093 CAAACCCACA
Statistics
Matches: 694, Mismatches: 89, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
205 693 1.00
206 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.23
Consensus pattern (205 bp):
ACAAACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGA
TGTGAGTAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAA
GGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATACAGAGAA
GCGAATTGAA
Found at i:181152 original size:119 final size:118
Alignment explanation
Indices: 180941--181314 Score: 507
Period size: 119 Copynumber: 3.1 Consensus size: 118
180931 AGGCGGTCAT
* *
180941 CTTCCTGATGAGATACTGAGAAGAAGACTAAATCAAACCCACGCTCGATGTGAGCAAATCTTTGA
1 CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAATCTTCGA
* * *
181006 ACCCCAGCTTCTTGATGAGACACTGAGAAGCTGATCGATGCAATAAAAGGTTAG
66 ACCCCAGTTTCCTGATGAGACACTGAGAAGC-GATCGAAGCAATAAAAGGTTAG
* * *
181060 CTTCCTGATGAGATTCTGAGAAGAAGACCAAATCAAACCCACACTCGATGTGAGCAAATATTCGA
1 CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAATCTTCGA
** * * *
181125 ACCTTAGTTTCCTGATGAGACACTGAGAAACCGGTCGAAGCGATAAAAGGTTAG
66 ACCCCAGTTTCCTGATGAGACACTGAG-AAGCGATCGAAGCAATAAAAGGTTAG
* *
181179 CTTCTTGATGAGATACTGAGAAGAAGACCAAATCAAACCTACGCTCGATGTGAGCAAATCTTCGA
1 CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAATCTTCGA
* * * * *
181244 ACCCCA-TCTTTCTGATGAGATATTGAGAAGCAAGTCGAAGTAATAAAACGGTTAG
66 ACCCCAGT-TTCCTGATGAGACACTGAGAAGCGA-TCGAAGCAATAAAA-GGTTAG
*
181299 CTTCCTGATGAAATAC
1 CTTCCTGATGAGATAC
181315 GGGGAAGTGA
Statistics
Matches: 221, Mismatches: 30, Indels: 7
0.86 0.12 0.03
Matches are distributed among these distances:
118 4 0.02
119 194 0.88
120 23 0.10
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (118 bp):
CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAATCTTCGA
ACCCCAGTTTCCTGATGAGACACTGAGAAGCGATCGAAGCAATAAAAGGTTAG
Found at i:181359 original size:37 final size:37
Alignment explanation
Indices: 181299--181369 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
181289 AAACGGTTAG
* * *
181299 CTTCCTGATGAAATACGGGGAAGTGAACCAAAACCAT
1 CTTCCTGATGAAACACAGAGAAGTGAACCAAAACCAT
* *
181336 CTTCCTGATGAAACACAGAGAAGTGGATCAAAAC
1 CTTCCTGATGAAACACAGAGAAGTGAACCAAAAC
181370 AAGTGATATG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (37 bp):
CTTCCTGATGAAACACAGAGAAGTGAACCAAAACCAT
Found at i:181791 original size:6 final size:6
Alignment explanation
Indices: 181770--181834 Score: 51
Period size: 6 Copynumber: 10.7 Consensus size: 6
181760 TTTAAATTGG
** ** **
181770 TTTAAA TTTATT TTTAAA TTTAAA TTTATCTT TTTAAA TTTAAA TTTGCA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA
181820 -TTAAA TTTAAA TTTA
1 TTTAAA TTTAAA TTTA
181835 GTCAAATTTG
Statistics
Matches: 44, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
5 3 0.07
6 37 0.84
8 4 0.09
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:181805 original size:20 final size:18
Alignment explanation
Indices: 181770--181834 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 18
181760 TTTAAATTGG
181770 TTTAAATTTATTTTTAAA
1 TTTAAATTTATTTTTAAA
181788 TTTAAATTTATCTTTTTAAA
1 TTTAAATTTA--TTTTTAAA
***
181808 TTTAAATTT-GCATTAAA
1 TTTAAATTTATTTTTAAA
181825 TTTAAATTTA
1 TTTAAATTTA
181835 GTCAAATTTG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
17 14 0.34
18 10 0.24
20 17 0.41
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTAAATTTATTTTTAAA
Found at i:181918 original size:14 final size:15
Alignment explanation
Indices: 181899--181928 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
181889 AAATTAAATT
181899 AAAGTCC-AATTACA
1 AAAGTCCAAATTACA
181913 AAAGTCCAAATTACA
1 AAAGTCCAAATTACA
181928 A
1 A
181929 TGACCCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.53, C:0.20, G:0.07, T:0.20
Consensus pattern (15 bp):
AAAGTCCAAATTACA
Found at i:182619 original size:21 final size:23
Alignment explanation
Indices: 182577--182622 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
182567 TTATATATTA
182577 AATAATTTCATTAATGATGATAAT
1 AATAATTTCATTAA-GATGATAAT
*
182601 AATAATTTTATTAA-A-GATAAT
1 AATAATTTCATTAAGATGATAAT
182622 A
1 A
182623 TTTATTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 1 0.05
24 13 0.62
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (23 bp):
AATAATTTCATTAAGATGATAAT
Found at i:182620 original size:15 final size:16
Alignment explanation
Indices: 182602--182631 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
182592 GATGATAATA
182602 ATAAT-TTTATTAAAG
1 ATAATATTTATTAAAG
182617 ATAATATTTATTAAA
1 ATAATATTTATTAAA
182632 TAATTAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAATATTTATTAAAG
Done.