Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008144.1 Hibiscus syriacus cultivar Beakdansim tig00110706_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: 78113
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:6935 original size:14 final size:14
Alignment explanation
Indices: 6916--6942 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6906 GATCAGAATT
6916 TCAAGATTCCAGAG
1 TCAAGATTCCAGAG
6930 TCAAGATTCCAGA
1 TCAAGATTCCAGA
6943 CATGCAATCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (14 bp):
TCAAGATTCCAGAG
Found at i:7563 original size:98 final size:98
Alignment explanation
Indices: 7391--7576 Score: 282
Period size: 98 Copynumber: 1.9 Consensus size: 98
7381 GATATCGTGC
* * * * *
7391 CAATTTCAACTTCACAGTGAATGATATTGGACTCGAGACAACACAAGTTCAACTTCACAGCGAAG
1 CAATTTCAACTTCACAATGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCACAGCGAAG
* *
7456 GGACGGCTGATTGTCAACAAACACTTTCAGAGT
66 GGACAGCTGACTGTCAACAAACACTTTCAGAGT
* *
7489 CAATTTCAACTTCACAATGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCACGGTGAAG
1 CAATTTCAACTTCACAATGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCACAGCGAAG
*
7554 GGGCAGCTGACTGTCAACAAACA
66 GGACAGCTGACTGTCAACAAACA
7577 ATTTGTCAGT
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
98 78 1.00
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.22
Consensus pattern (98 bp):
CAATTTCAACTTCACAATGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCACAGCGAAG
GGACAGCTGACTGTCAACAAACACTTTCAGAGT
Found at i:7820 original size:280 final size:272
Alignment explanation
Indices: 7421--7972 Score: 847
Period size: 280 Copynumber: 2.0 Consensus size: 272
7411 ATGATATTGG
* *
7421 ACTCGAGACAACACAAGTTCAACTTCACAGCGAAGGGACGGCTGATTGTCAACAAACACTTTCAG
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAACACTTTCAG
* * *
7486 AGTCAATTTCAACTTCACAATGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCACGGTG
66 AGTCAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCACAGCG
* *
7551 AAGGGGCAGCTGACTGTCAACAAACAATTT-GTCAGTTTCAGAGCCAATTTCAACTTCACGACGG
131 AAGGGGCAGCTGACTGTCAACAAACAATTTCCT-AGTTCCAGAGCCAATTTCAACTTCACGACGG
*
7615 AGGATATTGGACTCGGAGCAATACAACTTACTTGGATTTCAACTTCACGACGAA-TGATATCCAA
195 AGGATATTGGACTCGGAGCAATACAACTTACTTGGATTTCAACTTCACGACAAAGT-ATATCCAA
*
7679 TTACCAGGCTCAAC
259 TTACCAAGCTCAAC
* *
7693 ACTCAAGACAGCACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAAC-A-----C
* * * * *
7758 AATTTCATAGTCAATTTTAACTTCACAGCGAAGGATATTAGACTCGAGACAGCACAAGCTCAACT
60 --TTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAACACAAGCTCAACT
*
7823 TCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCCTAGTTCCAGAGCCAATTTCAACTTC
123 TCACAGCGAAGGGGCAGCTGACTGTCAACAAACAATTTCCTAGTTCCAGAGCCAATTTCAACTTC
7888 ACGACGGAGGATATTGGACTCGGAGCAATACAACTTACTTGGATTTCAACTTCACGACAAAGTAT
188 ACGACGGAGGATATTGGACTCGGAGCAATACAACTTACTTGGATTTCAACTTCACGACAAAGTAT
7953 ATCCAATTACCAAGCTCAAC
253 ATCCAATTACCAAGCTCAAC
7973 TTCACGACGG
Statistics
Matches: 253, Mismatches: 17, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
272 53 0.21
273 1 0.00
278 1 0.00
280 196 0.77
281 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (272 bp):
ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAACACTTTCAG
AGTCAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCACAGCG
AAGGGGCAGCTGACTGTCAACAAACAATTTCCTAGTTCCAGAGCCAATTTCAACTTCACGACGGA
GGATATTGGACTCGGAGCAATACAACTTACTTGGATTTCAACTTCACGACAAAGTATATCCAATT
ACCAAGCTCAAC
Found at i:7822 original size:106 final size:106
Alignment explanation
Indices: 7693--7909 Score: 283
Period size: 106 Copynumber: 2.0 Consensus size: 106
7683 CAGGCTCAAC
* * **
7693 ACTCAAGACAGCACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
1 ACTCGAGACAGCACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAACAAACAACTTCCC
* * * *
7758 AATTTCATAGTCAATTTTAACTTCAC-AGCGAAGGATATTAG
66 AATTCCAGAGCCAATTTCAACTTCACGA-CGAAGGATATTAG
* * * *
7799 ACTCGAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCCT
1 ACTCGAGACAGCACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAACAAACAACTTCCC
* * *
7864 AGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
66 AATTCCAGAGCCAATTTCAACTTCACGACGAAGGATATTAG
7905 ACTCG
1 ACTCG
7910 GAGCAATACA
Statistics
Matches: 95, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
106 94 0.99
107 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (106 bp):
ACTCGAGACAGCACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAACAAACAACTTCCC
AATTCCAGAGCCAATTTCAACTTCACGACGAAGGATATTAG
Found at i:9087 original size:21 final size:21
Alignment explanation
Indices: 9055--9122 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 21
9045 TGTTTACTTA
9055 TATTTCCA-TTATTATTATTTT
1 TATTT-CATTTATTATTATTTT
9076 TATTTCATTTA-TACTTTATTTT
1 TATTTCATTTATTA--TTATTTT
*
9098 T-TTT-ATTTATATATTACTTT
1 TATTTCATTTAT-TATTATTTT
*
9118 GATTT
1 TATTT
9123 TCATATTCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
20 15 0.38
21 14 0.36
22 10 0.26
ACGTcount: A:0.24, C:0.07, G:0.01, T:0.68
Consensus pattern (21 bp):
TATTTCATTTATTATTATTTT
Found at i:9107 original size:20 final size:22
Alignment explanation
Indices: 9069--9108 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9059 TCCATTATTA
9069 TTATTTTTATTTCATTTATACT
1 TTATTTTTATTTCATTTATACT
9091 TTATTTTT-TTT-ATTTATA
1 TTATTTTTATTTCATTTATA
9109 TATTACTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (22 bp):
TTATTTTTATTTCATTTATACT
Found at i:9115 original size:25 final size:25
Alignment explanation
Indices: 9066--9123 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
9056 ATTTCCATTA
* *
9066 TTATTATTTTTATTTCATTTATACT
1 TTATTTTTTTTATTTCATATATACT
9091 TTATTTTTTTTATTT-ATATATTACT
1 TTATTTTTTTTATTTCATATA-TACT
9116 TTGATTTT
1 TT-ATTTT
9124 CATATTCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 4 0.14
25 20 0.69
26 5 0.17
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (25 bp):
TTATTTTTTTTATTTCATATATACT
Found at i:9184 original size:28 final size:28
Alignment explanation
Indices: 9144--9215 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
9134 TTAATTTCTT
* * * *
9144 TTATTTCTGTTTTTTCTATTTATTAC-TA
1 TTATTACTATTTTTTAT-TTTAATACTTA
*
9172 TTATTATTATTTTTTATTTTAATACTTA
1 TTATTACTATTTTTTATTTTAATACTTA
9200 TTATTACTATTATTTT
1 TTATTACTATT-TTTT
9216 TATACCTTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
27 7 0.19
28 25 0.69
29 4 0.11
ACGTcount: A:0.24, C:0.07, G:0.01, T:0.68
Consensus pattern (28 bp):
TTATTACTATTTTTTATTTTAATACTTA
Found at i:9244 original size:2 final size:2
Alignment explanation
Indices: 9237--9273 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
9227 TATAAGTTAT
9237 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TCA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
9274 ACTTGAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:10841 original size:10 final size:10
Alignment explanation
Indices: 10826--10857 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
10816 AACACTAGCA
10826 TACATATATT
1 TACATATATT
10836 TACATATATT
1 TACATATATT
10846 TACATATATT
1 TACATATATT
10856 TA
1 TA
10858 TATTGTGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (10 bp):
TACATATATT
Found at i:16064 original size:2 final size:2
Alignment explanation
Indices: 16057--16082 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16047 TAAATACATA
16057 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
16083 GCAAGAAAAA
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:16446 original size:16 final size:17
Alignment explanation
Indices: 16425--16457 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
16415 TATTTTGTGA
16425 TTTTATATTTTG-ATTC
1 TTTTATATTTTGTATTC
*
16441 TTTTATTTTTTGTATTC
1 TTTTATATTTTGTATTC
16458 AAATTCTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.73
Consensus pattern (17 bp):
TTTTATATTTTGTATTC
Found at i:16562 original size:19 final size:17
Alignment explanation
Indices: 16529--16576 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
16519 ATACATGTGT
*
16529 AATTTTAGTTTTTTTATG
1 AATTTT-GTTTTTTTATC
*
16547 ATATTTTGTTTCTTTTTTC
1 A-ATTTTGTTT-TTTTATC
16566 AATTTTGTTTT
1 AATTTTGTTTT
16577 ATATTCAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 1 0.04
18 14 0.54
19 11 0.42
ACGTcount: A:0.17, C:0.04, G:0.08, T:0.71
Consensus pattern (17 bp):
AATTTTGTTTTTTTATC
Found at i:17662 original size:17 final size:17
Alignment explanation
Indices: 17627--17661 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
17617 AGAGGTATGA
*
17627 TTAGGGTTTTGAGATTT
1 TTAGGGATTTGAGATTT
17644 TTAGGGATTTG-GATTT
1 TTAGGGATTTGAGATTT
17660 TT
1 TT
17662 TTTTTGTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (17 bp):
TTAGGGATTTGAGATTT
Found at i:19866 original size:15 final size:15
Alignment explanation
Indices: 19837--19908 Score: 55
Period size: 15 Copynumber: 5.1 Consensus size: 15
19827 GTGAAATTAT
*
19837 AATTA-TTAAATAAA
1 AATTATTTATATAAA
19851 AATTATTTATATAAA
1 AATTATTTATATAAA
* *
19866 AATCCA--TCTAT-AA
1 AAT-TATTTATATAAA
* *
19879 TA-TATTTAAATAAA
1 AATTATTTATATAAA
19893 AATTATTTATATAAA
1 AATTATTTATATAAA
19908 A
1 A
19909 TTCATCGATA
Statistics
Matches: 43, Mismatches: 9, Indels: 11
0.68 0.14 0.17
Matches are distributed among these distances:
11 1 0.02
13 6 0.14
14 12 0.28
15 23 0.53
16 1 0.02
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (15 bp):
AATTATTTATATAAA
Found at i:19921 original size:41 final size:42
Alignment explanation
Indices: 19835--19925 Score: 143
Period size: 41 Copynumber: 2.2 Consensus size: 42
19825 AAGTGAAATT
*
19835 ATAAT-TA-TTAAATAAAAATTATTTATATAAAAATCCATCT
1 ATAATATATTTAAATAAAAATTATTTATATAAAAATCCATCG
*
19875 ATAATATATTTAAATAAAAATTATTTATAT-AAAATTCATCG
1 ATAATATATTTAAATAAAAATTATTTATATAAAAATCCATCG
19916 ATAATATATT
1 ATAATATATT
19926 ATTTTATTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
40 5 0.11
41 21 0.45
42 21 0.45
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (42 bp):
ATAATATATTTAAATAAAAATTATTTATATAAAAATCCATCG
Found at i:21609 original size:17 final size:19
Alignment explanation
Indices: 21587--21623 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
21577 CAAATGCTTT
21587 ATTTA-TTTAATA-TTTAG
1 ATTTATTTTAATAGTTTAG
21604 ATTTATTTTAATAGTTTAG
1 ATTTATTTTAATAGTTTAG
21623 A
1 A
21624 GGGTTTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 7 0.39
19 6 0.33
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (19 bp):
ATTTATTTTAATAGTTTAG
Found at i:27127 original size:14 final size:13
Alignment explanation
Indices: 27110--27174 Score: 66
Period size: 13 Copynumber: 5.1 Consensus size: 13
27100 ATTATCTTTT
27110 TATTCTTATTTTAA
1 TATT-TTATTTTAA
*
27124 TATTTTAATTTAA
1 TATTTTATTTTAA
27137 -A--TTATTTTAA
1 TATTTTATTTTAA
27147 T-TTATTATTTTAA
1 TATT-TTATTTTAA
27160 TTATTTTATTTTAA
1 -TATTTTATTTTAA
27174 T
1 T
27175 CATTCTAGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
10 8 0.19
12 1 0.02
13 18 0.42
14 14 0.33
15 2 0.05
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (13 bp):
TATTTTATTTTAA
Found at i:27141 original size:23 final size:22
Alignment explanation
Indices: 27115--27172 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
27105 CTTTTTATTC
27115 TTATTTTAATATT-TTAATTTAAA
1 TTATTTTAAT-TTATT-ATTTAAA
*
27138 TTATTTTAATTTATTATTTTAA
1 TTATTTTAATTTATTATTTAAA
*
27160 TTATTTTATTTTA
1 TTATTTTAATTTA
27173 ATCATTCTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
22 20 0.62
23 12 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTATTTTAATTTATTATTTAAA
Found at i:34379 original size:2 final size:2
Alignment explanation
Indices: 34372--34396 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
34362 ATTCTAATTC
34372 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
34397 AATTCTACGA
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:40200 original size:20 final size:21
Alignment explanation
Indices: 40175--40226 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
40165 TTTTCCCAAT
*
40175 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
40195 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
40216 TCGCAATGCGA
1 TCGCAATGCGA
40227 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:40240 original size:20 final size:20
Alignment explanation
Indices: 40215--40308 Score: 100
Period size: 20 Copynumber: 4.7 Consensus size: 20
40205 AATTGGGAAA
40215 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
40235 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
40255 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
40276 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
40296 TTCGCAACGCGAT
1 ATCGCAATGCGAT
40309 TTACATAGCG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 2 0.03
20 45 0.73
21 13 0.21
22 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:40939 original size:20 final size:19
Alignment explanation
Indices: 40894--41058 Score: 125
Period size: 20 Copynumber: 9.1 Consensus size: 19
40884 CGCAACGCGA
*
40894 CGCGTTACGATTTTCATTT
1 CGCGTTGCGATTTTCATTT
*
40913 CGCGTTGCGATTTTTATTT
1 CGCGTTGCGATTTTCATTT
40932 CGCGGTTGCGATTTTCATTT
1 CGC-GTTGCGATTTTCATTT
*
40952 CGCGTTGCGATTGTC---T
1 CGCGTTGCGATTTTCATTT
* **
40968 -G-GTCGCGATAGTCATTT
1 CGCGTTGCGATTTTCATTT
*
40985 CGTGTTGCGA--TTC---T
1 CGCGTTGCGATTTTCATTT
* **
40999 CTCGTTGCGATAGTCATTT
1 CGCGTTGCGATTTTCATTT
*
41018 CCGCGTTGCGATTCTCATTAT
1 -CGCGTTGCGATTTTCATT-T
*
41039 CTCGTTGCGATTTTCATTT
1 CGCGTTGCGATTTTCATTT
41058 C
1 C
41059 AACCAAAAGA
Statistics
Matches: 117, Mismatches: 16, Indels: 26
0.74 0.10 0.16
Matches are distributed among these distances:
14 19 0.16
15 1 0.01
16 3 0.03
17 3 0.03
18 1 0.01
19 40 0.34
20 49 0.42
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (19 bp):
CGCGTTGCGATTTTCATTT
Found at i:40983 original size:33 final size:33
Alignment explanation
Indices: 40946--41033 Score: 131
Period size: 33 Copynumber: 2.6 Consensus size: 33
40936 GTTGCGATTT
* *
40946 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
* *
40979 TCATTTCGTGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
41012 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
41034 ATTATCTCGT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 35 0.71
34 14 0.29
ACGTcount: A:0.11, C:0.24, G:0.25, T:0.40
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:43122 original size:42 final size:42
Alignment explanation
Indices: 43062--43184 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
43052 GCCCGACTCG
* * *
43062 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
43104 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
43146 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
43185 CCCGATTCAT
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:43142 original size:21 final size:21
Alignment explanation
Indices: 43118--43184 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
43108 TCATTCCTCG
43118 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
43139 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
43160 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
43181 AGAG
1 AGAG
43185 CCCGATTCAT
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:44564 original size:14 final size:14
Alignment explanation
Indices: 44545--44580 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
44535 ATTGTTTAAT
44545 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
44559 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
44573 TGATTTGT
1 TGATTTGT
44581 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:44805 original size:33 final size:32
Alignment explanation
Indices: 44763--44889 Score: 175
Period size: 33 Copynumber: 3.9 Consensus size: 32
44753 ATTAAATTCG
*
44763 CGTTGCGATTTTCATTTCACATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
* **
44796 CGTTGCGATTTTCATTTCGCATTGCAAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGC--GATTCCT
44829 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
44862 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
44890 AGTAATTTCC
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
31 3 0.04
33 77 0.93
35 3 0.04
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:44852 original size:66 final size:66
Alignment explanation
Indices: 44756--44886 Score: 235
Period size: 66 Copynumber: 2.0 Consensus size: 66
44746 ACGCGAAATT
*
44756 AAATTCGCGTTGCGATTTTCATTTCACATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCACATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
44821 A
66 A
* *
44822 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCACATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
44887 GATAGTAATT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.42
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCACATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
A
Found at i:44855 original size:19 final size:19
Alignment explanation
Indices: 44831--44889 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
44821 AAAATTAGCG
44831 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
44850 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
44864 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
44883 TTGCGAT
1 TTGCGAT
44890 AGTAATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 6 0.18
16 7 0.21
17 7 0.21
19 13 0.39
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:47198 original size:12 final size:12
Alignment explanation
Indices: 47181--47205 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47171 TCTTCGGGGA
47181 CTTTTTCTTCTT
1 CTTTTTCTTCTT
47193 CTTTTTCTTCTT
1 CTTTTTCTTCTT
47205 C
1 C
47206 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:47414 original size:24 final size:24
Alignment explanation
Indices: 47380--47433 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
47370 CTGAAACATC
* *
47380 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
47404 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
47428 ATCAAA
1 ATCAAA
47434 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:48519 original size:20 final size:20
Alignment explanation
Indices: 48490--48547 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
48480 ATTCATTTGA
*
48490 CTATCACAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
48510 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
48530 CTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
48548 CGCAATGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:48590 original size:14 final size:16
Alignment explanation
Indices: 48570--48643 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 16
48560 TGAAAATCGC
48570 ATTGCGATTTTC-TCG
1 ATTGCGATTTTCTTCG
48585 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC--TTCG
48602 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC--TTCG
48621 CATTGCGATTTTC-TCG
1 -ATTGCGATTTTCTTCG
48637 -TTGCGAT
1 ATTGCGAT
48644 AGCCATTTCG
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.33
16 3 0.06
17 3 0.06
19 30 0.56
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCGATTTTCTTCG
Found at i:48607 original size:19 final size:19
Alignment explanation
Indices: 48566--48633 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
48556 GAAATGAAAA
48566 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
48582 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
48599 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
48618 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
48634 TCGTTGCGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.23
16 3 0.06
17 3 0.06
19 30 0.64
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:48769 original size:14 final size:14
Alignment explanation
Indices: 48750--48786 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
48740 CATCAATTAA
48750 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
48764 ACAAATCATCTTTT
1 ACAAATCAACATTT
48778 ACAAATCAA
1 ACAAATCAA
48787 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:50258 original size:41 final size:42
Alignment explanation
Indices: 50207--50287 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
50197 TTCAACGATG
* *
50207 ATAGTGGCCTCTTGAACG-GTGGGGGGGAATCTTGAGGGAGA
1 ATAGGGGCCTCTTGAACGAGTGGAGGGGAATCTTGAGGGAGA
* *
50248 ATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGGGA
1 ATAGGGGCCTCTTGAACGAGTGGAGGGGAATCTTGAGGGA
50288 TGACCGGTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
41 17 0.49
42 18 0.51
ACGTcount: A:0.22, C:0.14, G:0.42, T:0.22
Consensus pattern (42 bp):
ATAGGGGCCTCTTGAACGAGTGGAGGGGAATCTTGAGGGAGA
Found at i:50690 original size:20 final size:19
Alignment explanation
Indices: 50655--50721 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
50645 GAAACTTAAA
50655 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
50674 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
50694 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
50713 ATCGCAACG
1 ATCGCAACG
50722 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:50729 original size:14 final size:14
Alignment explanation
Indices: 50710--50767 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
50700 ATGCGAAATG
50710 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
50724 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
50740 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
50756 AAAATCGCAACG
1 AAAATCGCAACG
50768 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:50752 original size:32 final size:33
Alignment explanation
Indices: 50694--50772 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
50684 GGAAATGGCT
*
50694 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
50727 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
50759 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
50773 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:50820 original size:14 final size:14
Alignment explanation
Indices: 50801--50858 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
50791 TTTCATTTCG
50801 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
50815 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
*
50831 CGCATTGGGATTTTGT
1 CG--TTGCGATTTTGT
50847 CGTTGCGATTTT
1 CGTTGCGATTTT
50859 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.56
16 8 0.22
18 8 0.22
ACGTcount: A:0.10, C:0.16, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:50865 original size:33 final size:33
Alignment explanation
Indices: 50784--50874 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
50774 ACAAATCGCA
*
50784 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
50817 TTGCGA-TTTCATTTCGCATTGGGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
50849 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
50875 AGCCATTTTC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.56
33 24 0.44
ACGTcount: A:0.12, C:0.18, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:50910 original size:20 final size:20
Alignment explanation
Indices: 50861--50913 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
50851 GCGATTTTCA
*
50861 TTTCGCATTGCGATAGCCAT
1 TTTCGCGTTGCGATAGCCAT
*
50881 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGCCAT
*
50901 TTTCGTGTTGCGA
1 TTTCGCGTTGCGA
50914 AAGTAAACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.15, C:0.21, G:0.25, T:0.40
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGCCAT
Found at i:51421 original size:18 final size:18
Alignment explanation
Indices: 51395--51439 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
51385 GTCGATCAGA
*
51395 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
51413 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
51431 TGATGGCTC
1 TGATGGCTC
51440 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:52779 original size:20 final size:20
Alignment explanation
Indices: 52754--52796 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
52744 AATAGTTTCT
52754 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
*
52774 GAAAATGAAAATCGCAACGC
1 GAAAATGAAAATCGCAACAC
52794 GAA
1 GAA
52797 TTCGACTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.53, C:0.19, G:0.19, T:0.09
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:53101 original size:22 final size:22
Alignment explanation
Indices: 53074--53117 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
53064 GATGGAGATA
53074 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
53096 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
53118 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:53331 original size:20 final size:20
Alignment explanation
Indices: 53305--53377 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
53295 GATTATGTAT
53305 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
53325 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
53345 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
*
53365 TATCTCGTTGCGA
1 TATCGCGTTGCGA
53378 TTTTTTATTA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:53408 original size:41 final size:41
Alignment explanation
Indices: 53291--53420 Score: 136
Period size: 41 Copynumber: 3.2 Consensus size: 41
53281 GAAAATCGCA
* * *
53291 TTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCG
1 TTGCGATTATTTATTATCGCGTTGCGAAAGTCAGTATCACG
* * * * * *
53332 TTGCGA-AAGTCAGTATCGCGTTGCGAAAGTAAGTATCTCG
1 TTGCGATTATTTATTATCGCGTTGCGAAAGTCAGTATCACG
* * * *
53372 TTGCGATTTTTTATTATCGCATTGCGATAGTCAGTATCACA
1 TTGCGATTATTTATTATCGCGTTGCGAAAGTCAGTATCACG
53413 TTGCGATT
1 TTGCGATT
53421 TTCCCAATTC
Statistics
Matches: 70, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
40 32 0.46
41 38 0.54
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.35
Consensus pattern (41 bp):
TTGCGATTATTTATTATCGCGTTGCGAAAGTCAGTATCACG
Found at i:53438 original size:41 final size:41
Alignment explanation
Indices: 53347--53481 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
53337 AAAGTCAGTA
* * * ** *
53347 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCACATTGCGATTTTCCCAAT
* *
53387 ATCGCATTGCGATAGTCAGTATCACATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCACATTGCGATTTTCCCAAT
* ** *
53429 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCACATTGCGATTTTCCCAAT
53470 TCGCGTTGCGAT
1 TCGCGTTGCGAT
53482 TTACTTATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 3 0.04
41 73 0.94
42 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCACATTGCGATTTTCCCAAT
Found at i:53439 original size:21 final size:21
Alignment explanation
Indices: 53413--53483 Score: 99
Period size: 21 Copynumber: 3.4 Consensus size: 21
53403 CAGTATCACA
53413 TTGCGATTTTCCCAATTCGCG
1 TTGCGATTTTCCCAATTCGCG
* ** *
53434 TTGCGA-TTTACTTATTCGCA
1 TTGCGATTTTCCCAATTCGCG
53454 TTGCGATTTTCCCAATTCGCG
1 TTGCGATTTTCCCAATTCGCG
53475 TTGCGATTT
1 TTGCGATTT
53484 ACTTATTCGC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.39
21 25 0.61
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.42
Consensus pattern (21 bp):
TTGCGATTTTCCCAATTCGCG
Found at i:53452 original size:20 final size:20
Alignment explanation
Indices: 53427--53500 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
53417 GATTTTCCCA
*
53427 ATTCGCGTTGCGATTTACTT
1 ATTCGCATTGCGATTTACTT
* **
53447 ATTCGCATTGCGATTTTCCCA
1 ATTCGCATTGCGA-TTTACTT
*
53468 ATTCGCGTTGCGATTTACTT
1 ATTCGCATTGCGATTTACTT
53488 ATTCGCATTGCGA
1 ATTCGCATTGCGA
53501 ATTGGGAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.41
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACTT
Found at i:53482 original size:41 final size:41
Alignment explanation
Indices: 53411--53500 Score: 180
Period size: 41 Copynumber: 2.2 Consensus size: 41
53401 GTCAGTATCA
53411 CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCG
1 CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCG
53452 CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCG
1 CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCG
53493 CATTGCGA
1 CATTGCGA
53501 ATTGGGAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCG
Found at i:62167 original size:3 final size:3
Alignment explanation
Indices: 62159--62200 Score: 59
Period size: 3 Copynumber: 13.7 Consensus size: 3
62149 CAAAAATGAT
62159 TAA TAA TAA TAA TAA -ACA TAA TAA TAA TAA TAAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA T-AA TAA TAA TA
62201 GTTTAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 1 0.03
3 31 0.86
4 4 0.11
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:62182 original size:18 final size:16
Alignment explanation
Indices: 62160--62200 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
62150 AAAAATGATT
62160 AATAATAATAATAA-A
1 AATAATAATAATAATA
*
62175 CATAATAATAATAATA
1 AATAATAATAATAATA
62191 AATAATAATA
1 AATAATAATA
62201 GTTTAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (16 bp):
AATAATAATAATAATA
Found at i:62462 original size:40 final size:41
Alignment explanation
Indices: 62353--62470 Score: 116
Period size: 43 Copynumber: 2.9 Consensus size: 41
62343 TGTTGGTTGT
62353 TGGGGATGACACTGCTCATACGTGATGAAGAGTTCGGGTCG
1 TGGGGATGACACTGCTCATACGTGATGAAGAGTTCGGGTCG
* * * * * * *
62394 TCTAAGGG-TGACACGGATCCTACATGATGAGGA-TATCTGGTCG
1 --T-GGGGATGACACTGCTCATACGTGATGAAGAGT-TCGGGTCG
62437 -GGGGATGACACTGCTCATACGTGATGAAGAGTTC
1 TGGGGATGACACTGCTCATACGTGATGAAGAGTTC
62471 TTGGTCATCT
Statistics
Matches: 58, Mismatches: 13, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
39 3 0.05
40 22 0.38
41 1 0.02
42 1 0.02
43 28 0.48
44 3 0.05
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.25
Consensus pattern (41 bp):
TGGGGATGACACTGCTCATACGTGATGAAGAGTTCGGGTCG
Found at i:62727 original size:134 final size:135
Alignment explanation
Indices: 62399--62849 Score: 551
Period size: 134 Copynumber: 3.4 Consensus size: 135
62389 GGTCGTCTAA
* ** * **
62399 GGGTGACACGGA-TCCTACATGATGAGGATATCTGGTCGGGGGATGACACTGCTCATACGTGATG
1 GGGTGACAC-GACTCCTACGTGATGAGGAGGTCTGGTCAGGGGATGACACAACTCATACGTGATG
* * * * *
62463 AAGAGTTCTTGGTCATCTTTAGGA-AGGGTGATAACTCAGTTCCTACGCGATGAAGACTGCTGGT
65 AAGAGTTC-TGGCCATCTTTAGGAGAGGGTGATAACACGGTTCCTACGTGATGAGGAC-GCTGGT
62527 TATCTAT-
128 TATCTATG
* * * * *
62534 GGGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATAACATAGCTCATACGTGATGA
1 GGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCAGGGGATGACACAACTCATACGTGATGA
62599 AGAGTTCTGGCCATCTTTAGGAGA-GGTGATAACACGGTTCCTACGTGATGAGGACAGCTGGTTA
66 AGAGTTCTGGCCATCTTTAGGAGAGGGTGATAACACGGTTCCTACGTGATGAGGAC-GCTGGTTA
62663 TCTATG
130 TCTATG
* * * * * *
62669 GGGTGACATGACTCCTACGTGATGAGGAGGTCTAGT-AAGGGATGACACAATTCCTACGTGAAGA
1 GGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCAGGGGATGACACAACTCATACGTGATGA
* * * *
62733 GGA-TGGCTGACCATCTTTAGG-GAGGGTGATAACATGGTTCCTACGTGATGAGGACGACTGGTT
66 AGAGT-TCTGGCCATCTTTAGGAGAGGGTGATAACACGGTTCCTACGTGATGAGGACG-CTGGTT
62796 ATC--TG
129 ATCTATG
62801 GGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCAGGGGATGACAC
1 GGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCAGGGGATGACAC
62850 GGTTCCTATA
Statistics
Matches: 278, Mismatches: 31, Indels: 16
0.86 0.10 0.05
Matches are distributed among these distances:
132 36 0.13
133 15 0.05
134 130 0.47
135 97 0.35
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (135 bp):
GGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCAGGGGATGACACAACTCATACGTGATGA
AGAGTTCTGGCCATCTTTAGGAGAGGGTGATAACACGGTTCCTACGTGATGAGGACGCTGGTTAT
CTATG
Found at i:62992 original size:28 final size:30
Alignment explanation
Indices: 62960--63015 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
62950 CTCAAAGATA
*
62960 ATGG-TGTTTCAAAAGAAA-CGACTCAAAG
1 ATGGTTGTTTCAAAAGAAATAGACTCAAAG
*
62988 ATGGTTGTTTCAAGAGAAATAGACTCAA
1 ATGGTTGTTTCAAAAGAAATAGACTCAA
63016 TGATTTTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 13 0.54
30 7 0.29
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.25
Consensus pattern (30 bp):
ATGGTTGTTTCAAAAGAAATAGACTCAAAG
Found at i:62997 original size:29 final size:29
Alignment explanation
Indices: 62960--63038 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 29
62950 CTCAAAGATA
62960 ATGG-TGTTTCAAAAGAAACGACTCAAAG
1 ATGGTTGTTTCAAAAGAAACGACTCAAAG
* * *
62988 ATGGTTGTTTCAAGAGAAATAGACTCAATG
1 ATGGTTGTTTCAAAAGAAA-CGACTCAAAG
** *
63018 ATTTTATGTTTCCAAAGAAAC
1 ATGGT-TGTTTCAAAAGAAAC
63039 TGCCTCAAGG
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
28 4 0.10
29 13 0.32
30 11 0.28
31 12 0.30
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (29 bp):
ATGGTTGTTTCAAAAGAAACGACTCAAAG
Found at i:63831 original size:38 final size:36
Alignment explanation
Indices: 63789--63861 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
63779 AAACAAATTT
*
63789 AAATTTGTATCTCAGAGAAAAATGTCTCAAGCGAGACG
1 AAATTTGT-TCTCAGA-AAAAATATCTCAAGCGAGACG
* * *
63827 AAATTTGTTTTTAGAAAAATTATCTCAAGCGAGAC
1 AAATTTGTTCTCAGAAAAAATATCTCAAGCGAGAC
63862 AAAGGTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 18 0.58
37 5 0.16
38 8 0.26
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.29
Consensus pattern (36 bp):
AAATTTGTTCTCAGAAAAAATATCTCAAGCGAGACG
Found at i:63874 original size:36 final size:36
Alignment explanation
Indices: 63804--63891 Score: 101
Period size: 36 Copynumber: 2.4 Consensus size: 36
63794 TGTATCTCAG
*
63804 AGAAAAATGTCTCAAGCGAGACGAAA-TT-TGTTTTT
1 AGAAAAATATCTCAAGCGAGACGAAAGTTAT-TTTTT
63839 AGAAAAATTATCTCAAGCGAGAC-AAAGGTTATTTTTT
1 AGAAAAA-TATCTCAAGCGAGACGAAA-GTTATTTTTT
**
63876 AGAAAACGATCTCAAG
1 AGAAAAATATCTCAAG
63892 TGAAATCAAC
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
35 10 0.22
36 22 0.48
37 13 0.28
38 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.28
Consensus pattern (36 bp):
AGAAAAATATCTCAAGCGAGACGAAAGTTATTTTTT
Found at i:63990 original size:37 final size:37
Alignment explanation
Indices: 63924--64022 Score: 119
Period size: 37 Copynumber: 2.6 Consensus size: 37
63914 GAAGAAAATT
* * * *
63924 CAAAATTTGTATCTCAAAGGGAAAATGTCTCAAGTGAGA
1 CAAAATTTGT-TTTCAAA-GGAAACTGTCTCAAATGAAA
*
63963 CAAAATTTGTTTTCGAAGGAAACTGTCTCAAATGAAA
1 CAAAATTTGTTTTCAAAGGAAACTGTCTCAAATGAAA
64000 CAAAAATTTG-TTTCAAAGGAAAC
1 C-AAAATTTGTTTTCAAAGGAAAC
64023 AAACACAAAG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
37 30 0.57
38 13 0.25
39 10 0.19
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.27
Consensus pattern (37 bp):
CAAAATTTGTTTTCAAAGGAAACTGTCTCAAATGAAA
Found at i:64377 original size:4 final size:4
Alignment explanation
Indices: 64368--65381 Score: 1809
Period size: 4 Copynumber: 258.8 Consensus size: 4
64358 ATGCAAAATT
*
64368 TATG TATG TATG TATG TATG TATG TATA TATG TATG TATG TATG TA--
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
64414 TATG TATG TATG TATG TATG TATG TATA TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
64462 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG --TG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
64508 TATG TATG TATG TATA TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
64556 TATG TATG TATG TATG TATA TATG TATG TA-- TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
64602 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
64650 TATG TATG TATG TATG TATG TA-G TATG TATG TATG TATG TATG TA-G
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
64696 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
64744 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
64792 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
64840 TATG TATG TATG TATG TAT- TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
64887 TATG TATG TATG TATG TATG TATG TATG T-TG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
64934 TATG TATG TATG TATG TATG TATG TATG T-TG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
64981 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
65029 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
65077 TATG --TG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
65123 TATG TATG TATG TATG TAT- TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
65170 TATG TATG TATG TATG TATG TATG TATG -ATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
65217 TATG TATG TA-- TATG TTTG TATG TATA TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
65263 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
65311 TATG TATG TATG TATG TATG TATG TA-- TATA TATG TATG TTTG TA--
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
65355 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
65382 ATTTTCTCGA
Statistics
Matches: 974, Mismatches: 15, Indels: 42
0.94 0.01 0.04
Matches are distributed among these distances:
2 14 0.01
3 21 0.02
4 939 0.96
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:66934 original size:4 final size:4
Alignment explanation
Indices: 66925--67071 Score: 267
Period size: 4 Copynumber: 36.8 Consensus size: 4
66915 ACAAGAGGTA
66925 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
66973 TATA TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
67021 TATG TATG TATG CATG TATG TATG TATG TATG TATA TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
67069 TAT
1 TAT
67072 ATTTTCTCGA
Statistics
Matches: 137, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 137 1.00
ACGTcount: A:0.27, C:0.01, G:0.23, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:68403 original size:15 final size:16
Alignment explanation
Indices: 68378--68415 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
68368 TTCTCATTGT
68378 TTTTGTTTTGCT-TTTC
1 TTTT-TTTTGCTCTTTC
*
68394 TTTTTTTTGCTCTTTG
1 TTTTTTTTGCTCTTTC
68410 TTTTTT
1 TTTTTT
68416 CTTTGCTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.00, C:0.11, G:0.11, T:0.79
Consensus pattern (16 bp):
TTTTTTTTGCTCTTTC
Found at i:68451 original size:27 final size:27
Alignment explanation
Indices: 68379--68451 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
68369 TCTCATTGTT
* *
68379 TTTGTTTTGCTTT-TCTTTTTTTTGCTC
1 TTTGTTTTTCTTTCTC-TTCTTTTGCTC
*
68406 TTTGTTTTTTCTTT-GCTTCTTTT-CTC
1 TTTG-TTTTTCTTTCTCTTCTTTTGCTC
68432 TTTGTTTTTCTGTTCTCTTC
1 TTTGTTTTTCT-TTCTCTTC
68452 GCTTTGATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 7 0.18
26 9 0.23
27 14 0.36
28 9 0.23
ACGTcount: A:0.00, C:0.18, G:0.10, T:0.73
Consensus pattern (27 bp):
TTTGTTTTTCTTTCTCTTCTTTTGCTC
Found at i:68640 original size:4 final size:4
Alignment explanation
Indices: 68631--68927 Score: 516
Period size: 4 Copynumber: 75.8 Consensus size: 4
68621 ACAAGAGGTA
68631 TATG TATG TATG TATG TATG TAT- TATG TATG TATG TATG TATG T-TG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
68677 TATG --TG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
68723 TATA TATG TATG TATG TATG TATG TATG TATG TATG TATG TATA TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
68771 TATG TATG TATG TATA TATG TATG TATG TATG TATG TATG TATG TATA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
68819 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
68867 TATG TATG TATG TA-G TATG TATG TATG TATG TATG TATG TATG TA-G
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
68913 TATG TATG TATG TAT
1 TATG TATG TATG TAT
68928 ATTTTCTTGA
Statistics
Matches: 279, Mismatches: 8, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
2 2 0.01
3 12 0.04
4 265 0.95
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:70232 original size:24 final size:25
Alignment explanation
Indices: 70196--70246 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
70186 TCATTGTCTG
*
70196 TGCTCTTTGTCA-TCTTTTTGTTCTT
1 TGCTCTTTCTCATTCTTTTTGTT-TT
*
70221 TGCTC-TTCTCATTGTTTTTGTTTT
1 TGCTCTTTCTCATTCTTTTTGTTTT
70245 TG
1 TG
70247 TTTTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.04, C:0.18, G:0.14, T:0.65
Consensus pattern (25 bp):
TGCTCTTTCTCATTCTTTTTGTTTT
Found at i:70277 original size:18 final size:19
Alignment explanation
Indices: 70249--70284 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
70239 TGTTTTTGTT
*
70249 TTTTTTTTTTGC-TCTTTG
1 TTTTTTCTTTGCTTCTTTG
70267 TTTTTTCTTTGCTTCTTT
1 TTTTTTCTTTGCTTCTTT
70285 TCTCTTTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.00, C:0.14, G:0.08, T:0.78
Consensus pattern (19 bp):
TTTTTTCTTTGCTTCTTTG
Found at i:76877 original size:20 final size:20
Alignment explanation
Indices: 76854--76895 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
76844 TTTATGAAAG
76854 GATTTAACATTTTTCATGAA
1 GATTTAACATTTTTCATGAA
**
76874 GATTTAATTTTTTTCATGAA
1 GATTTAACATTTTTCATGAA
76894 GA
1 GA
76896 GTATTGATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (20 bp):
GATTTAACATTTTTCATGAA
Done.