Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002961.1 Hibiscus syriacus cultivar Beakdansim tig00006129_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 121635
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:4992 original size:8 final size:8
Alignment explanation
Indices: 4979--5017 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
4969 TGTTAGTATT
4979 TTATTTAA
1 TTATTTAA
4987 TTATTTAA
1 TTATTTAA
4995 TTA-TT--
1 TTATTTAA
5000 TTATTTAA
1 TTATTTAA
5008 TTATTTAA
1 TTATTTAA
5016 TT
1 TT
5018 TTTTTGCAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
5 3 0.11
6 2 0.07
7 2 0.07
8 21 0.75
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TTATTTAA
Found at i:5000 original size:21 final size:21
Alignment explanation
Indices: 4975--5022 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
4965 ATTTTGTTAG
4975 TATTTTATTTAATTATTTAAT
1 TATTTTATTTAATTATTTAAT
4996 TATTTTATTTAATTATTTAAT
1 TATTTTATTTAATTATTTAAT
*
5017 TTTTTT
1 TATTTT
5023 GCAGTTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
TATTTTATTTAATTATTTAAT
Found at i:5003 original size:13 final size:13
Alignment explanation
Indices: 4987--5018 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4977 TTTTATTTAA
4987 TTATTTAATTATT
1 TTATTTAATTATT
5000 TTATTTAATTATT
1 TTATTTAATTATT
*
5013 TAATTT
1 TTATTT
5019 TTTTGCAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTATTTAATTATT
Found at i:7295 original size:3 final size:3
Alignment explanation
Indices: 7287--7339 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
7277 GTGCTCGTTA
* * * * * *
7287 CAT CAT CAT CGT CGT CAT CAT CAC CAT AAT CAT CAT CAT CAT CTT CTT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
7335 CAT CA
1 CAT CA
7340 GAGTAAAGCA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.28, C:0.34, G:0.04, T:0.34
Consensus pattern (3 bp):
CAT
Found at i:10292 original size:20 final size:20
Alignment explanation
Indices: 10267--10306 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
10257 ATGTGAGATT
10267 CACTCATTAACAATCTAATC
1 CACTCATTAACAATCTAATC
*
10287 CACTCATTAGCAATCTAATC
1 CACTCATTAACAATCTAATC
10307 AGGTGATTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.30, G:0.03, T:0.30
Consensus pattern (20 bp):
CACTCATTAACAATCTAATC
Found at i:16396 original size:16 final size:15
Alignment explanation
Indices: 16375--16410 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
16365 GGGCAAATCC
16375 GGGTACCTAGATTTTT
1 GGGTA-CTAGATTTTT
*
16391 GGGTACTCGATTTTT
1 GGGTACTAGATTTTT
16406 GGGTA
1 GGGTA
16411 TTCGGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.17, C:0.11, G:0.31, T:0.42
Consensus pattern (15 bp):
GGGTACTAGATTTTT
Found at i:16404 original size:15 final size:16
Alignment explanation
Indices: 16384--16424 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
16374 CGGGTACCTA
16384 GATTTTTGGGTACTC-
1 GATTTTTGGGTACTCG
*
16399 GATTTTTGGGTATTCG
1 GATTTTTGGGTACTCG
16415 GAATTTTTGG
1 G-ATTTTTGG
16425 ATCGACGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.61
16 1 0.04
17 8 0.35
ACGTcount: A:0.15, C:0.07, G:0.29, T:0.49
Consensus pattern (16 bp):
GATTTTTGGGTACTCG
Found at i:17099 original size:23 final size:23
Alignment explanation
Indices: 17072--17146 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
17062 TACATATTCT
*
17072 ATTTTAATTATATTATATTTAAA
1 ATTTTAATTATATTATATTTAAC
*
17095 ATTTTAATTA-ATTTATAATTATAC
1 ATTTTAATTATA-TTATATTTA-AC
*
17119 A-TTTAA-TATTTTATAATTTAAC
1 ATTTTAATTATATTAT-ATTTAAC
17141 ATTTTA
1 ATTTTA
17147 TAAATTATCG
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 10 0.23
23 31 0.72
24 2 0.05
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (23 bp):
ATTTTAATTATATTATATTTAAC
Found at i:17139 original size:15 final size:15
Alignment explanation
Indices: 17074--17149 Score: 59
Period size: 15 Copynumber: 5.0 Consensus size: 15
17064 CATATTCTAT
*
17074 TTTAATTATATTAT-A
1 TTTAA-TATTTTATAA
*
17089 TTTAAAATTTTAATTAA
1 TTTAATATTTT-A-TAA
*
17106 TTT-ATA-ATTATACA
1 TTTAATATTTTATA-A
17120 TTTAATATTTTATAA
1 TTTAATATTTTATAA
*
17135 TTTAACATTTTATAA
1 TTTAATATTTTATAA
17150 ATTATCGGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
13 2 0.04
14 9 0.18
15 26 0.53
16 8 0.16
17 4 0.08
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTAATATTTTATAA
Found at i:17154 original size:22 final size:22
Alignment explanation
Indices: 17083--17154 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
17073 TTTTAATTAT
*
17083 ATTAT-ATTTAAAATTTTAATTAA
1 ATTATAATTTAACATTTT-A-TAA
* * *
17106 TTTATAA-TTATACATTTAATAT
1 ATTATAATTTA-ACATTTTATAA
*
17128 TTTATAATTTAACATTTTATAA
1 ATTATAATTTAACATTTTATAA
17150 ATTAT
1 ATTAT
17155 CGGTTTTCGT
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
22 22 0.56
23 11 0.28
24 6 0.15
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTATAATTTAACATTTTATAA
Found at i:18129 original size:14 final size:12
Alignment explanation
Indices: 18100--18124 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18090 ATTATTTTTC
18100 TTAAAAACAATA
1 TTAAAAACAATA
18112 TTAAAAACAATA
1 TTAAAAACAATA
18124 T
1 T
18125 ATTAACCTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (12 bp):
TTAAAAACAATA
Found at i:21412 original size:13 final size:13
Alignment explanation
Indices: 21375--21414 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
21365 TCGATATTGA
21375 AAAATAAATA-TT
1 AAAATAAATATTT
*
21387 AAAATAATTTATTT
1 AAAATAA-ATATTT
21401 AAAATAAATATTT
1 AAAATAAATATTT
21414 A
1 A
21415 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:22670 original size:16 final size:16
Alignment explanation
Indices: 22649--22679 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
22639 ACCGTTGGCT
22649 GAGGCGGCTGGAGGCA
1 GAGGCGGCTGGAGGCA
22665 GAGGCGGCTGGAGGC
1 GAGGCGGCTGGAGGC
22680 GGCTGGACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.19, G:0.58, T:0.06
Consensus pattern (16 bp):
GAGGCGGCTGGAGGCA
Found at i:22813 original size:3 final size:3
Alignment explanation
Indices: 22805--22873 Score: 102
Period size: 3 Copynumber: 23.0 Consensus size: 3
22795 TTAATGTATT
* * *
22805 TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TTA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
22853 TAA TAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
22874 ATCAAAATGG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:25169 original size:59 final size:59
Alignment explanation
Indices: 25074--25191 Score: 218
Period size: 59 Copynumber: 2.0 Consensus size: 59
25064 AATCAAATAT
*
25074 CATATTGTTACCAAGTGAATTAAAATTACAATATGCAAACATATTATTACAGCTAAGTA
1 CATATTGTTACCAAGTGAATTAAAATTACAACATGCAAACATATTATTACAGCTAAGTA
*
25133 CATATTGTTACCAAGTGGATTAAAATTACAACATGCAAACATATTATTACAGCTAAGTA
1 CATATTGTTACCAAGTGAATTAAAATTACAACATGCAAACATATTATTACAGCTAAGTA
25192 ATTATTCCTT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.31
Consensus pattern (59 bp):
CATATTGTTACCAAGTGAATTAAAATTACAACATGCAAACATATTATTACAGCTAAGTA
Found at i:29243 original size:22 final size:21
Alignment explanation
Indices: 29217--29258 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
29207 ATTTATAAAT
*
29217 ATTTATATATAATTTCATTAAG
1 ATTTATATATAAATT-ATTAAG
29239 ATTTATATATAAATTATTAA
1 ATTTATATATAAATTATTAA
29259 CACGAAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
ATTTATATATAAATTATTAAG
Found at i:30748 original size:10 final size:10
Alignment explanation
Indices: 30732--30763 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
30722 AATAATAATG
30732 AATAAAAAA-
1 AATAAAAAAT
30741 AAT-AAAAAT
1 AATAAAAAAT
30750 AATAAAAAAT
1 AATAAAAAAT
30760 AATA
1 AATA
30764 TAAAGTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 5 0.24
9 6 0.29
10 10 0.48
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
AATAAAAAAT
Found at i:30750 original size:15 final size:16
Alignment explanation
Indices: 30732--30761 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30722 AATAATAATG
30732 AATAA-AAAAAATAAA
1 AATAATAAAAAATAAA
30747 AATAATAAAAAATAA
1 AATAATAAAAAATAA
30762 TATAAAGTTA
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:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (16 bp):
AATAATAAAAAATAAA
Found at i:31043 original size:18 final size:17
Alignment explanation
Indices: 31020--31062 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
31010 ATATATACAT
31020 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
31038 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
31055 ATAA-AATA
1 ATAATAATA
31063 TTCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:31498 original size:37 final size:36
Alignment explanation
Indices: 31455--31556 Score: 165
Period size: 34 Copynumber: 2.9 Consensus size: 36
31445 TTAGTAGAAC
31455 TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG-AAAAT
31492 GT-TATCCTATTTTTAGGAGTTTGAATCCT--AAAAT
1 -TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
31526 TCTATCCTATTTTTAGGAGTTTGAATCCTAG
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG
31557 TAGGACGAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
33 1 0.02
34 32 0.52
37 27 0.44
38 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (36 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
Found at i:32316 original size:105 final size:106
Alignment explanation
Indices: 32102--32557 Score: 666
Period size: 105 Copynumber: 4.3 Consensus size: 106
32092 CATTGTTCCA
* * * ** *
32102 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* *
32167 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
66 CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
* * *
32208 AGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTT-TTTGTTGACAAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* * *
32272 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
*
32313 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTT-TTGACAAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
*
32377 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-G
66 CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
*
32417 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 -AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
32482 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
* *
32524 AGTGCCACGATATCCTCCGTTGTGGAGTTGAAAT
1 AGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
32558 CGCGGATGGC
Statistics
Matches: 321, Mismatches: 22, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
104 1 0.00
105 198 0.62
106 95 0.30
107 4 0.01
109 23 0.07
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (106 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
Found at i:32454 original size:210 final size:212
Alignment explanation
Indices: 32102--32557 Score: 675
Period size: 211 Copynumber: 2.1 Consensus size: 212
32092 CATTGTTCCA
* *
32102 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAAACCGGGAAATTGTTTGTTGACAAC
* *
32167 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTCGTGAAG
66 CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTCGTGAAG
* * * *
32232 TTGAAATTGGCTCTGAGATTGGGAAGTT-TTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTT
131 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTT
*
32296 GAACTTGCATTGTCTGG
196 GAACTTGCATTGTCTCG
* ** * *
32313 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTT-TTGACAAG
1 AGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAAACCGGGAAATTGTTTGTTGACAAC
* *
32377 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-GAAGTCCAATATCCTTCGTTGTGAA
66 CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG-AGTCCAATATCCTTCGTCGTGAA
*
32441 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGT
130 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGT
**
32506 TGAACTTGTGTTGTCTCG
195 TGAACTTGCATTGTCTCG
*
32524 AGTGCCACGATATCCTCCGTTGTGGAGTTGAAAT
1 AGT-CCA--ATATCCTCCGTTGTGAAGTTGAAAT
32558 CGCGGATGGC
Statistics
Matches: 219, Mismatches: 21, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
209 1 0.00
210 92 0.42
211 100 0.46
212 3 0.01
214 23 0.11
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (212 bp):
AGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAAACCGGGAAATTGTTTGTTGACAAC
CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTCGTGAAG
TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTT
GAACTTGCATTGTCTCG
Found at i:33293 original size:67 final size:65
Alignment explanation
Indices: 33160--33613 Score: 266
Period size: 65 Copynumber: 6.7 Consensus size: 65
33150 AAGATATCTG
* ** * **
33160 TTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAAATGTCTCAAGGGAGACAAAATT-TGTTTTAAGGGAAATAAATTCAAAGA-
33225 TT
64 TT
* * *
33227 TGTGTTTCAAGAGTAATTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGAT
1 T-TGTTTCAAGAGAAAATGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGAT
33292 T
65 T
* ** * * *
33293 TTGTTTCAAGGGAAAATGTCTCAAGATAGACGAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAG
1 TTGTTTCAAGAGAAAATGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAA-----T--A-A-AT
* *
33358 ACAAA-ACT
57 TCAAAGATT
* * * * * * * * * * * *
33366 TAGTTCCAAAAGCAACTGTCTCAAGGGAGACGAAATTTGTTTCAAAGAAAACATATTCAAATATT
1 TTGTTTCAAGAGAAAATGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
* * * * * *
33431 TTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGAGAG
1 TTGTTTCAAGAGAAAATGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAA-----T--A-A-AT
*
33496 ACAAA-ATT
57 TCAAAGATT
* * * * * * * ** *
33504 TTGTTTCAAGGGAAACTATCTCAAGAGAGACGAAATTTATTTCAAGGGAAATATTTTCAATG-TT
1 TTGTTTCAAGAGAAAATGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
*
33568 TATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTGTTTTAA
1 T-TGTTTCAAGAGAAAATGTCTCAAGGGAGACAAAATTTGTTTTAA
33614 AAAAGCAATC
Statistics
Matches: 299, Mismatches: 66, Indels: 46
0.73 0.16 0.11
Matches are distributed among these distances:
64 11 0.04
65 121 0.40
66 5 0.02
67 24 0.08
68 32 0.11
70 1 0.00
72 2 0.01
73 93 0.31
74 10 0.03
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.31
Consensus pattern (65 bp):
TTGTTTCAAGAGAAAATGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
Found at i:33349 original size:36 final size:36
Alignment explanation
Indices: 33292--33554 Score: 245
Period size: 36 Copynumber: 7.4 Consensus size: 36
33282 ATTCAAAGAT
* * *
33292 TTTGTTTCAAGGGAAAATGTCTCAAGATAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* *
33328 TTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * ** * * *
33364 CTTAGTTCCAAAAGCAACTGTCTCAAGGGAGACGAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * * * *
33401 TTTGTTTCAAAGAAAACATAT-TC-----A-A-ATAT
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGACAAAA
*
33430 TTTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
33466 TTTATTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* *
33502 TTTTGTTTCAAGGGAAACTATCTCAAGAGAGACGAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
33539 TTTATTTCAAGGGAAA
1 TTTGTTTCAAGGGAAA
33555 TATTTTCAAT
Statistics
Matches: 183, Mismatches: 33, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
28 2 0.01
29 17 0.09
30 1 0.01
31 1 0.01
34 1 0.01
35 1 0.01
36 96 0.52
37 64 0.35
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:33403 original size:138 final size:138
Alignment explanation
Indices: 33244--33613 Score: 481
Period size: 138 Copynumber: 2.7 Consensus size: 138
33234 CAAGAGTAAT
* * * * *
33244 TGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGATTTTGTTTCAAGGGAAAA
1 TGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAATATATTCAAAGATTTTGTTTCAAGGGAAAT
* *
33309 TGTCTCAAGATAGACGAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCA
66 TGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCA
*
33374 AAAGCAAC
131 AAAGAAAC
* * * *
33382 TGTCTCAAGGGAGACGAAATTTGTTTCAAAGAAAACATATTCAAATATTTTGTTTCAAGGGAAAT
1 TGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAATATATTCAAAGATTTTGTTTCAAGGGAAAT
* * * * * *
33447 TGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCA
66 TGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCA
**
33512 AGGGAAAC
131 AAAGAAAC
* * * * * *
33520 TATCTCAAGAGAGACGAAATTTATTTCAAGGGAAATATTTTCAATG-TTTATGTTTCAAGAGAAA
1 TGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAATATATTCAAAGATTT-TGTTTCAAGGGAAA
*
33584 TTGTCTCAAGGGAGACAAAATTTGTTTTAA
65 TTGTCTCAAGAGAGACAAAATTTGTTTTAA
33614 AAAAGCAATC
Statistics
Matches: 198, Mismatches: 33, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
137 3 0.02
138 195 0.98
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (138 bp):
TGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAATATATTCAAAGATTTTGTTTCAAGGGAAAT
TGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCA
AAAGAAAC
Found at i:33461 original size:102 final size:102
Alignment explanation
Indices: 33328--33512 Score: 264
Period size: 102 Copynumber: 1.8 Consensus size: 102
33318 ATAGACGAAA
* * *
33328 TTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGCAACTGTCTCAAGGG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTA-TTCCAAAAGAAACTGTCTCAAGAG
*
33393 AGACGAAA-TTTGTTTCAAAGAAAACATATTCAAATAT
65 AGACAAAATTTTGTTTCAAAGAAAACATATTCAAATAT
* * * * **
33430 TTTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGAGA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTCCAAAAGAAACTGTCTCAAGAGA
33495 GACAAAATTTTGTTTCAA
66 GACAAAATTTTGTTTCAA
33513 GGGAAACTAT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
101 26 0.36
102 46 0.64
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (102 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTCCAAAAGAAACTGTCTCAAGAGA
GACAAAATTTTGTTTCAAAGAAAACATATTCAAATAT
Found at i:34003 original size:18 final size:18
Alignment explanation
Indices: 33976--34011 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
33966 TGTTGAATCC
* *
33976 CCAAAGATGCCTCAATAT
1 CCAAAAATGCCCCAATAT
33994 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
34012 TTGATGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.31, G:0.08, T:0.19
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:34440 original size:22 final size:22
Alignment explanation
Indices: 34414--34468 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
34404 TTGTGTTTGG
34414 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
34436 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
34458 TCAAATGTTTG
1 TCAAAGGTTTG
34469 ATGGGATAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.38
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:35148 original size:16 final size:17
Alignment explanation
Indices: 35118--35164 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
35108 TTGATTCTTG
35118 TTTTTTCCTTT-TTTC-C
1 TTTTTT-CTTTGTTTCTC
35134 TTTTGTTC-TTGTTTCTC
1 TTTT-TTCTTTGTTTCTC
35151 TTTTTTCTTTGTTT
1 TTTTTTCTTTGTTT
35165 TTTCTTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.07
16 12 0.44
17 13 0.48
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.77
Consensus pattern (17 bp):
TTTTTTCTTTGTTTCTC
Found at i:35156 original size:27 final size:27
Alignment explanation
Indices: 35101--35157 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
35091 TTTGTTCCTA
*
35101 TTTCTTTTTGATTCTTGTTTTTTCCTTT
1 TTTCCTTTTGATTCTTGTTTTTT-CTTT
*
35129 TTTCCTTTTG-TTCTTG-TTTCTCTTT
1 TTTCCTTTTGATTCTTGTTTTTTCTTT
35154 TTTC
1 TTTC
35158 TTTGTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 8 0.30
26 4 0.15
27 6 0.22
28 9 0.33
ACGTcount: A:0.02, C:0.18, G:0.07, T:0.74
Consensus pattern (27 bp):
TTTCCTTTTGATTCTTGTTTTTTCTTT
Found at i:35163 original size:44 final size:42
Alignment explanation
Indices: 35089--35199 Score: 106
Period size: 44 Copynumber: 2.6 Consensus size: 42
35079 TTGCATGTGC
*
35089 TTTTTGTTCCTATTTCT-TTTTGATTC-TTGTTTTTTCCTTT-TT
1 TTTTTGTTCTTATTTCTCTTTT--TTCTTTGTTTTTT-CTTTGTT
*
35131 TCCTTTTGTTCTTGTTTCTCTTTTTTCTTTGTTTTTTCTTTGTT
1 T--TTTTGTTCTTATTTCTCTTTTTTCTTTGTTTTTTCTTTGTT
* *
35175 TTTTT-TGCTTCTTT-TCTTTTTTCTT
1 TTTTTGTTCTTATTTCTCTTTTTTCTT
35200 CTTGATTGGA
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
40 11 0.18
41 7 0.12
42 5 0.08
43 7 0.12
44 26 0.43
45 4 0.07
ACGTcount: A:0.02, C:0.15, G:0.07, T:0.76
Consensus pattern (42 bp):
TTTTTGTTCTTATTTCTCTTTTTTCTTTGTTTTTTCTTTGTT
Found at i:35179 original size:12 final size:11
Alignment explanation
Indices: 35151--35178 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
35141 CTTGTTTCTC
35151 TTTTTTCTTTG
1 TTTTTTCTTTG
35162 TTTTTTCTTTG
1 TTTTTTCTTTG
35173 TTTTTT
1 TTTTTT
35179 TTGCTTCTTT
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:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (11 bp):
TTTTTTCTTTG
Found at i:35188 original size:17 final size:15
Alignment explanation
Indices: 35120--35202 Score: 62
Period size: 16 Copynumber: 5.1 Consensus size: 15
35110 GATTCTTGTT
35120 TTTTCCTTTTTTCCTT-
1 TTTT-CTTTTTT-CTTC
35136 TTGTTCTTGTTTCTCTT-
1 TT-TTCTT-TTT-TCTTC
*
35153 TTTTCTTTGTTTTTTC
1 TTTTCTTT-TTTCTTC
*
35169 TTTGTTTTTTTTGCTTC
1 TTT-TCTTTTTT-CTTC
35186 TTTTCTTTTTTCTTC
1 TTTTCTTTTTTCTTC
35201 TT
1 TT
35203 GATTGGATCT
Statistics
Matches: 56, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
15 10 0.18
16 25 0.45
17 20 0.36
18 1 0.02
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.77
Consensus pattern (15 bp):
TTTTCTTTTTTCTTC
Found at i:35198 original size:7 final size:7
Alignment explanation
Indices: 35118--35199 Score: 60
Period size: 7 Copynumber: 11.3 Consensus size: 7
35108 TTGATTCTTG
35118 TTTTTTCC
1 TTTTTT-C
35126 TTTTTTCC
1 TTTTTT-C
35134 TTTTGTTC
1 TTTT-TTC
*
35142 TTGTTTC
1 TTTTTTC
*
35149 TCTTTT-
1 TTTTTTC
* *
35155 TTCTTTG
1 TTTTTTC
35162 TTTTTTC
1 TTTTTTC
35169 TTTGTTT-
1 TTT-TTTC
*
35176 TTTTTGC
1 TTTTTTC
35183 TTCTTTTC
1 TT-TTTTC
35191 TTTTTTC
1 TTTTTTC
35198 TT
1 TT
35200 CTTGATTGGA
Statistics
Matches: 60, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
6 6 0.10
7 27 0.45
8 25 0.42
9 2 0.03
ACGTcount: A:0.00, C:0.16, G:0.06, T:0.78
Consensus pattern (7 bp):
TTTTTTC
Found at i:38331 original size:2 final size:2
Alignment explanation
Indices: 38326--38364 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
38316 AAAAAAGAAA
38326 AT AT 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 AT AT A
38365 AAGTATTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:38899 original size:18 final size:17
Alignment explanation
Indices: 38878--38920 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
38868 ACATATACAT
38878 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
38896 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
38913 ATAA-AATA
1 ATAATAATA
38921 TTCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:39320 original size:37 final size:37
Alignment explanation
Indices: 39279--39417 Score: 178
Period size: 37 Copynumber: 3.8 Consensus size: 37
39269 GTACTTGTGG
* * *
39279 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAATTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAATTCT
* * *
39316 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATGT-T
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAAT-TCT
*
39353 ATCCTATTTTTAGGAGTTTGAATCCTA--A-AATTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAATTCT
39387 ATCCTATTTTTAGGAGTTTAAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAG
39418 GACGAAAAAT
Statistics
Matches: 90, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
33 1 0.01
34 30 0.33
35 1 0.01
36 1 0.01
37 56 0.62
38 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAATTCT
Found at i:39390 original size:34 final size:34
Alignment explanation
Indices: 39310--39413 Score: 156
Period size: 34 Copynumber: 3.0 Consensus size: 34
39300 ATCTTAGTAG
39310 AATTCTATCCTATTTTTAGGAGTTTGAATCCTAGCAA
1 AATTCTATCCTATTTTTAGGAGTTTGAATCCT---AA
39347 AATGT-TATCCTATTTTTAGGAGTTTGAATCCTAA
1 AAT-TCTATCCTATTTTTAGGAGTTTGAATCCTAA
*
39381 AATTCTATCCTATTTTTAGGAGTTTAAATCCTA
1 AATTCTATCCTATTTTTAGGAGTTTGAATCCTA
39414 GTAGGACGAA
Statistics
Matches: 64, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
33 1 0.02
34 32 0.50
37 30 0.47
38 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.43
Consensus pattern (34 bp):
AATTCTATCCTATTTTTAGGAGTTTGAATCCTAA
Found at i:58892 original size:60 final size:60
Alignment explanation
Indices: 58799--58918 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
58789 AACCCCGAAC
58799 TCGCCGCCGCCTACATTTGACAACGGCCACTATGCCTCGCCGAAGCTCCGGTTAGTTTAT
1 TCGCCGCCGCCTACATTTGACAACGGCCACTATGCCTCGCCGAAGCTCCGGTTAGTTTAT
58859 TCGCCGCCGCCTACATTTGACAACGGCCACTATGCCTCGCCGAAGCTCCGGTTAGTTTAT
1 TCGCCGCCGCCTACATTTGACAACGGCCACTATGCCTCGCCGAAGCTCCGGTTAGTTTAT
58919 CCTCTCCTCT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.18, C:0.35, G:0.22, T:0.25
Consensus pattern (60 bp):
TCGCCGCCGCCTACATTTGACAACGGCCACTATGCCTCGCCGAAGCTCCGGTTAGTTTAT
Found at i:63854 original size:22 final size:24
Alignment explanation
Indices: 63822--63874 Score: 76
Period size: 22 Copynumber: 2.3 Consensus size: 24
63812 CTACATATTA
63822 TTTT-TTTTGTTATTTT-TTTTAC
1 TTTTCTTTTGTTATTTTCTTTTAC
*
63844 -TTTCTTTTGTTATTTTCTTTTTC
1 TTTTCTTTTGTTATTTTCTTTTAC
63867 TTTTCTTT
1 TTTTCTTT
63875 ATTACATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 3 0.11
22 12 0.44
23 5 0.19
24 7 0.26
ACGTcount: A:0.06, C:0.09, G:0.04, T:0.81
Consensus pattern (24 bp):
TTTTCTTTTGTTATTTTCTTTTAC
Found at i:64667 original size:21 final size:21
Alignment explanation
Indices: 64643--64682 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
64633 AAAAATTATT
* *
64643 TAAAATATTATTATTTTTACC
1 TAAAACATCATTATTTTTACC
*
64664 TAAAACATCATTTTTTTTA
1 TAAAACATCATTATTTTTA
64683 ATATTTTCGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.53
Consensus pattern (21 bp):
TAAAACATCATTATTTTTACC
Found at i:64720 original size:29 final size:30
Alignment explanation
Indices: 64681--64790 Score: 132
Period size: 30 Copynumber: 3.7 Consensus size: 30
64671 TCATTTTTTT
*
64681 TAATATTTTCGGTCA-TTTTTAGCGTCTAA
1 TAATGTTTTCGGTCATTTTTTAGCGTCTAA
* *
64710 TACTGTTTTCGGTCATTTTTTAACGTCTAA
1 TAATGTTTTCGGTCATTTTTTAGCGTCTAA
* **
64740 TAATGTTTCCGGTCATTTTTTAGCACCTAAA
1 TAATGTTTTCGGTCATTTTTTAGCGTCT-AA
**
64771 TAATGTTTTCATTCATTTTT
1 TAATGTTTTCGGTCATTTTT
64791 AACCGGTTTT
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
29 13 0.19
30 36 0.53
31 19 0.28
ACGTcount: A:0.23, C:0.15, G:0.12, T:0.50
Consensus pattern (30 bp):
TAATGTTTTCGGTCATTTTTTAGCGTCTAA
Found at i:68088 original size:37 final size:35
Alignment explanation
Indices: 68047--68120 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 35
68037 GTTGGAAAAT
* * *
68047 ATTTACATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTACATAATTT-TTTAAAAAATTGAAAAT-ATAAA
* *
68084 ATTTATATAATTTTTTACAAAATTGAAAATATAAA
1 ATTTACATAATTTTTTAAAAAATTGAAAATATAAA
68119 AT
1 AT
68121 GTTTAATGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
35 7 0.22
36 14 0.44
37 11 0.34
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (35 bp):
ATTTACATAATTTTTTAAAAAATTGAAAATATAAA
Found at i:70561 original size:20 final size:19
Alignment explanation
Indices: 70536--70573 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
70526 TTTCTTGAAT
70536 ATTGATATTATCGACCGACC
1 ATTGATATTATC-ACCGACC
70556 ATTGATATTATCACCGAC
1 ATTGATATTATCACCGAC
70574 AAAATCTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (19 bp):
ATTGATATTATCACCGACC
Found at i:72009 original size:17 final size:17
Alignment explanation
Indices: 71987--72020 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
71977 AATGCTTCGG
71987 CCTTACATAAACGAAGA
1 CCTTACATAAACGAAGA
72004 CCTTACATAAACGAAGA
1 CCTTACATAAACGAAGA
72021 GAAGCTCAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.24, G:0.12, T:0.18
Consensus pattern (17 bp):
CCTTACATAAACGAAGA
Found at i:75494 original size:2 final size:2
Alignment explanation
Indices: 75487--75511 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
75477 CCATCAAGAA
75487 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 A
75512 CACATTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:76588 original size:105 final size:106
Alignment explanation
Indices: 76400--76615 Score: 425
Period size: 105 Copynumber: 2.0 Consensus size: 106
76390 AGTGTGTTTG
76400 TCTAATTGTTAACTCTTCTGAGCTGTGTTTTGTTATGTTCTCTACAAGTTCAATTATTTTTTGAA
1 TCTAATTGTTAACTCTTCTGAGCTGTGTTTTGTTATGTTCTCTACAAGTTCAATTATTTTTTGAA
76465 ATGCCCTGCTGCTTGAACTTGTGTGCCTGTTGTAATTTCCT
66 ATGCCCTGCTGCTTGAACTTGTGTGCCTGTTGTAATTTCCT
76506 TCTAA-TGTTAACTCTTCTGAGCTGTGTTTTGTTATGTTCTCTACAAGTTCAATTATTTTTTGAA
1 TCTAATTGTTAACTCTTCTGAGCTGTGTTTTGTTATGTTCTCTACAAGTTCAATTATTTTTTGAA
76570 ATGCCCTGCTGCTTGAACTTGTGTGCCTGTTGTAATTTCCT
66 ATGCCCTGCTGCTTGAACTTGTGTGCCTGTTGTAATTTCCT
76611 TCTAA
1 TCTAA
76616 GGAAATCCAT
Statistics
Matches: 110, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
105 105 0.95
106 5 0.05
ACGTcount: A:0.19, C:0.18, G:0.17, T:0.47
Consensus pattern (106 bp):
TCTAATTGTTAACTCTTCTGAGCTGTGTTTTGTTATGTTCTCTACAAGTTCAATTATTTTTTGAA
ATGCCCTGCTGCTTGAACTTGTGTGCCTGTTGTAATTTCCT
Found at i:79732 original size:19 final size:19
Alignment explanation
Indices: 79704--79756 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
79694 TTAATTTTAC
*
79704 AAATATAAAAAAAT-CAGAA
1 AAATACAAAAAAATCCA-AA
79723 AAATACAAAAAAAATCCAAA
1 AAATAC-AAAAAAATCCAAA
79743 AAATTACAAAAAAA
1 AAA-TACAAAAAAA
79757 AATAATATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 5 0.17
20 20 0.67
21 5 0.17
ACGTcount: A:0.75, C:0.09, G:0.02, T:0.13
Consensus pattern (19 bp):
AAATACAAAAAAATCCAAA
Found at i:79736 original size:21 final size:21
Alignment explanation
Indices: 79710--79757 Score: 73
Period size: 20 Copynumber: 2.3 Consensus size: 21
79700 TTACAAATAT
79710 AAAAAAAT-CAGAAAAA-TACA
1 AAAAAAATCCA-AAAAATTACA
79730 AAAAAAATCCAAAAAATTACA
1 AAAAAAATCCAAAAAATTACA
79751 AAAAAAA
1 AAAAAAA
79758 ATAATATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.77, C:0.10, G:0.02, T:0.10
Consensus pattern (21 bp):
AAAAAAATCCAAAAAATTACA
Found at i:79795 original size:25 final size:27
Alignment explanation
Indices: 79767--79819 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
79757 AATAATATGA
*
79767 TTATTTA-TTTA-ATTTTAATATATTT
1 TTATTTATTTTATAATTTAATATATTT
79792 TTATTTATTTTATAATTTAATATATTT
1 TTATTTATTTTATAATTTAATATATTT
79819 T
1 T
79820 AAATAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 7 0.28
26 4 0.16
27 14 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (27 bp):
TTATTTATTTTATAATTTAATATATTT
Found at i:79796 original size:21 final size:22
Alignment explanation
Indices: 79759--79803 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
79749 CAAAAAAAAA
79759 TAATATGATTATTTATTTAATTT
1 TAATATGATTATTTATTT-ATTT
79782 TAATAT-ATT-TTTATTTATTT
1 TAATATGATTATTTATTTATTT
79802 TA
1 TA
79804 TAATTTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.27
21 7 0.32
22 3 0.14
23 6 0.27
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TAATATGATTATTTATTTATTT
Found at i:80527 original size:32 final size:33
Alignment explanation
Indices: 80484--80557 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
80474 TTAATACTCG
* *
80484 TTATTAAGGGTT-TATTTTTTTCT-CGATATTTA
1 TTATTAAGGGTTCAATTTTTTT-TACAATATTTA
* *
80516 TTATTATGGGTTCAATTTTTTTTATAATATTTA
1 TTATTAAGGGTTCAATTTTTTTTACAATATTTA
80549 TTATTAAGG
1 TTATTAAGG
80558 ACTTACTCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
32 12 0.34
33 23 0.66
ACGTcount: A:0.26, C:0.04, G:0.12, T:0.58
Consensus pattern (33 bp):
TTATTAAGGGTTCAATTTTTTTTACAATATTTA
Found at i:81542 original size:20 final size:21
Alignment explanation
Indices: 81519--81560 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
81509 TGATACTTCA
81519 ATTATAGGAT-ATGTTTTGTT
1 ATTATAGGATGATGTTTTGTT
*
81539 ATTATAGGATGTTGTTTTGTT
1 ATTATAGGATGATGTTTTGTT
81560 A
1 A
81561 AGTATCTCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (21 bp):
ATTATAGGATGATGTTTTGTT
Found at i:86488 original size:2 final size:2
Alignment explanation
Indices: 86481--86508 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
86471 AGATATTTTA
86481 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
86509 CAATAATGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94225 original size:31 final size:31
Alignment explanation
Indices: 94187--94281 Score: 102
Period size: 31 Copynumber: 3.1 Consensus size: 31
94177 GAACCTCGGC
* *
94187 AACTGTCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* **
94218 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* * *
94249 TACTGTTCATATGTCTCGAAAG-ACATAGGTA
1 AACTGTCCATATGTC-CCAAAGAACATAGGTA
94280 AA
1 AA
94282 ACCCTCGACT
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
31 48 0.94
32 3 0.06
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (31 bp):
AACTGTCCATATGTCCCAAAGAACATAGGTA
Found at i:94447 original size:17 final size:19
Alignment explanation
Indices: 94415--94450 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
94405 CATATATCTC
94415 ATATCATATCACATGTATT
1 ATATCATATCACATGTATT
94434 ATAT-ATAT-ACATGTATT
1 ATATCATATCACATGTATT
94451 CATGTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (19 bp):
ATATCATATCACATGTATT
Found at i:95047 original size:64 final size:64
Alignment explanation
Indices: 94934--95098 Score: 201
Period size: 64 Copynumber: 2.6 Consensus size: 64
94924 TCTTTCAATG
* * *
94934 AATGTATGCATCGATGCACTACTTGTGCATCGGTGCATAAAATGCATTCGATGTTTT-TATTT-
1 AATGCATGCATCGATGCACTACTTGTGCATCGATGCATAAAATCCATTCGATGTTTTCTATTTA
* * *
94996 AATGGGGATGCATCGATGCACTCCTTATGCATCGATGCAT-AAATCCTATTCGATGTTTTCTATT
1 AAT--GCATGCATCGATGCACTACTTGTGCATCGATGCATAAAATCC-ATTCGATGTTTTCTATT
95060 TA
63 TA
* * *
95062 AATTCATGCATCGATGCACTGCATGTGCATCGATGCA
1 AATGCATGCATCGATGCACTACTTGTGCATCGATGCA
95099 CCTTAAACAA
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
62 3 0.03
63 5 0.06
64 72 0.82
65 5 0.06
66 3 0.03
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (64 bp):
AATGCATGCATCGATGCACTACTTGTGCATCGATGCATAAAATCCATTCGATGTTTTCTATTTA
Found at i:98466 original size:31 final size:31
Alignment explanation
Indices: 98428--98522 Score: 111
Period size: 31 Copynumber: 3.1 Consensus size: 31
98418 GAACCTCGGC
* *
98428 AACTGTCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* **
98459 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* *
98490 TACTGTCCATATGTCTCGAAAG-ACATAGGTA
1 AACTGTCCATATGTC-CCAAAGAACATAGGTA
98521 AA
1 AA
98523 ACCCTCGACT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
31 49 0.94
32 3 0.06
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (31 bp):
AACTGTCCATATGTCCCAAAGAACATAGGTA
Found at i:98688 original size:17 final size:19
Alignment explanation
Indices: 98656--98691 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
98646 CATATATCTC
98656 ATATCATATCACATGTATT
1 ATATCATATCACATGTATT
98675 ATAT-ATAT-ACATGTATT
1 ATATCATATCACATGTATT
98692 CATGTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (19 bp):
ATATCATATCACATGTATT
Found at i:99286 original size:64 final size:65
Alignment explanation
Indices: 99178--99337 Score: 175
Period size: 64 Copynumber: 2.5 Consensus size: 65
99168 CAATGAATGT
* * *
99178 ATGCATCGATGCACTACTTGTGCATCGGTGCATAAAATGCATTCGATGTTCT-TATTTAATGGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAAATCCATTCGATGTTCTCTATTTAATGGGG
* * *
99242 ATGCATTGATGCACTCCTTATGCATCGATGCAT-AAATCCTATTCGATGTTTTCTATTTAAAT--
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAAATCC-ATTCGATGTTCTCTATTT-AATGG
**
99304 TC
64 GG
* * *
99306 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACTACTTATGCATCGATGCA
99338 CCTTAAACAA
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
63 5 0.06
64 68 0.84
65 5 0.06
66 3 0.04
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (65 bp):
ATGCATCGATGCACTACTTATGCATCGATGCATAAAATCCATTCGATGTTCTCTATTTAATGGGG
Found at i:101410 original size:25 final size:25
Alignment explanation
Indices: 101377--101427 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
101367 AAACTGAATT
101377 AATACAAATCTATGGTATGTTTTTA
1 AATACAAATCTATGGTATGTTTTTA
*
101402 AATATAAATCTATGGTATGTTTTTA
1 AATACAAATCTATGGTATGTTTTTA
101427 A
1 A
101428 GGATTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (25 bp):
AATACAAATCTATGGTATGTTTTTA
Found at i:103168 original size:16 final size:16
Alignment explanation
Indices: 103147--103180 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
103137 TTTTTACTTG
103147 AACCAAAA-TACTATTA
1 AACCAAAATTA-TATTA
103163 AACCAAAATTATATTA
1 AACCAAAATTATATTA
103179 AA
1 AA
103181 TATATAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (16 bp):
AACCAAAATTATATTA
Found at i:105419 original size:2 final size:2
Alignment explanation
Indices: 105414--105455 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
105404 ATATATATAT
* * *
105414 AG AG AG AG AG AG AT AT AG AG AG AG AG AG AG GG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
105456 GAAAGCTTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.48, C:0.00, G:0.48, T:0.05
Consensus pattern (2 bp):
AG
Found at i:105431 original size:16 final size:16
Alignment explanation
Indices: 105410--105442 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
105400 AGGGATATAT
105410 ATATAGAGAGAGAGAG
1 ATATAGAGAGAGAGAG
105426 ATATAGAGAGAGAGAG
1 ATATAGAGAGAGAGAG
105442 A
1 A
105443 GGGAGAGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.36, T:0.12
Consensus pattern (16 bp):
ATATAGAGAGAGAGAG
Found at i:105435 original size:18 final size:18
Alignment explanation
Indices: 105408--105443 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
105398 TTAGGGATAT
*
105408 ATATATAGAGAGAGAGAG
1 ATATAGAGAGAGAGAGAG
105426 ATATAGAGAGAGAGAGAG
1 ATATAGAGAGAGAGAGAG
105444 GGAGAGAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.36, T:0.14
Consensus pattern (18 bp):
ATATAGAGAGAGAGAGAG
Found at i:106465 original size:31 final size:32
Alignment explanation
Indices: 106420--106493 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 32
106410 TCAATTAATA
** *
106420 ACATGACATTTATCACATCATCATTTTG-GTG
1 ACATGACACATATCACATCATCACTTTGTGTG
** **
106451 ATGTGACACATATCATGTCATCACTTTGTGTG
1 ACATGACACATATCACATCATCACTTTGTGTG
106483 ACATGACACAT
1 ACATGACACAT
106494 GTCATCATTT
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
31 21 0.64
32 12 0.36
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (32 bp):
ACATGACACATATCACATCATCACTTTGTGTG
Found at i:106517 original size:27 final size:27
Alignment explanation
Indices: 106464--106525 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
106454 TGACACATAT
* *
106464 CATGTCATCACTTTGTGTGACATGACA
1 CATGTCATCACTTTGTATGACAGGACA
*
106491 CATGTCATCATTTTGTATGACAGGACA
1 CATGTCATCACTTTGTATGACAGGACA
106518 CAATGTCA
1 C-ATGTCA
106526 CATCATTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
27 25 0.81
28 6 0.19
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (27 bp):
CATGTCATCACTTTGTATGACAGGACA
Found at i:108414 original size:2 final size:2
Alignment explanation
Indices: 108407--108432 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
108397 CGTTGAAGAG
108407 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
108433 GAGAAATTAT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109352 original size:12 final size:12
Alignment explanation
Indices: 109335--109359 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
109325 AACTATATAA
109335 CGTTCACACAAT
1 CGTTCACACAAT
109347 CGTTCACACAAT
1 CGTTCACACAAT
109359 C
1 C
109360 ATATAATCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.36, G:0.08, T:0.24
Consensus pattern (12 bp):
CGTTCACACAAT
Found at i:112500 original size:46 final size:46
Alignment explanation
Indices: 112430--112533 Score: 183
Period size: 46 Copynumber: 2.3 Consensus size: 46
112420 AACCAACCAT
*
112430 GGCTGGCCCTCCCATCACTAATTTTAGGTGCTAAGTTTCTTTCACAA
1 GGCTGGCCCTCCCATCACTAATTTTAGGTGCTAAGTTTCATTCAC-A
112477 GG-TGGCCCTCCCATCACTAATTTTAGGTGCTAAGTTTCATTCACA
1 GGCTGGCCCTCCCATCACTAATTTTAGGTGCTAAGTTTCATTCACA
112522 GGCTGGCCCTCC
1 GGCTGGCCCTCC
112534 TACTAAAGCT
Statistics
Matches: 55, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
45 3 0.05
46 50 0.91
47 2 0.04
ACGTcount: A:0.19, C:0.30, G:0.19, T:0.32
Consensus pattern (46 bp):
GGCTGGCCCTCCCATCACTAATTTTAGGTGCTAAGTTTCATTCACA
Found at i:114265 original size:2 final size:2
Alignment explanation
Indices: 114258--114289 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
114248 ATAAATTTTA
114258 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
114290 GGATACAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:114872 original size:21 final size:22
Alignment explanation
Indices: 114834--114877 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
114824 ATAGTTTACC
*
114834 AAATTAAAAATAATATA-TATA
1 AAATTAAAAATAAAATATTATA
**
114855 AAATTAAAGTTAAAATATTATA
1 AAATTAAAAATAAAATATTATA
114877 A
1 A
114878 GCTAAAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (22 bp):
AAATTAAAAATAAAATATTATA
Found at i:114968 original size:2 final size:2
Alignment explanation
Indices: 114961--114990 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
114951 TTAAATGTTA
114961 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
114991 TTGATTCATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.