Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002954.1 Hibiscus syriacus cultivar Beakdansim tig00006098_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: 87571
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Found at i:556 original size:23 final size:24
Alignment explanation
Indices: 530--582 Score: 74
Period size: 22 Copynumber: 2.2 Consensus size: 24
520 TTTCCCCTGG
530 TTTTATAAAAGTTTTTCTTT-TTT-
1 TTTT-TAAAAGTTTTTCTTTGTTTA
*
553 TTTTTCAAAGTTTTTCTTTGTTTA
1 TTTTTAAAAGTTTTTCTTTGTTTA
577 TTTTTA
1 TTTTTA
583 TTTTCAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 14 0.54
23 7 0.27
24 5 0.19
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.70
Consensus pattern (24 bp):
TTTTTAAAAGTTTTTCTTTGTTTA
Found at i:751 original size:14 final size:15
Alignment explanation
Indices: 725--753 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
715 AAGAAATGAT
725 TAAAATGGAAATAAA
1 TAAAATGGAAATAAA
740 TAAAAT-GAAATAAA
1 TAAAATGGAAATAAA
754 AATGGAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (15 bp):
TAAAATGGAAATAAA
Found at i:8791 original size:21 final size:21
Alignment explanation
Indices: 8754--8793 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8744 CCCCCTTTGA
*
8754 AGGGGAACTGATTCCCCCCAC
1 AGGGGAACTGATACCCCCCAC
8775 AGGGGAA-TCGATACCCCCC
1 AGGGGAACT-GATACCCCCC
8794 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.25, C:0.38, G:0.25, T:0.12
Consensus pattern (21 bp):
AGGGGAACTGATACCCCCCAC
Found at i:9204 original size:24 final size:24
Alignment explanation
Indices: 9164--9209 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
9154 AGAATTTTCC
*
9164 AAAAAATTTTAATTTTTCGAAATAA
1 AAAAAATGTTAATTTTTC-AAATAA
9189 AAAAAATGTTAA-TTTTCAAAT
1 AAAAAATGTTAATTTTTCAAAT
9210 TATTGTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 5 0.25
25 11 0.55
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (24 bp):
AAAAAATGTTAATTTTTCAAATAA
Found at i:13997 original size:33 final size:33
Alignment explanation
Indices: 13955--14022 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
13945 TTCACATAAT
13955 ATAGTAGAGAACATTATGTCACAAGGTAACACG
1 ATAGTAGAGAACATTATGTCACAAGGTAACACG
13988 ATAGTAGAGAACATTATGTCACAAGGTAACACG
1 ATAGTAGAGAACATTATGTCACAAGGTAACACG
14021 AT
1 AT
14023 TCTAATAAGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.22
Consensus pattern (33 bp):
ATAGTAGAGAACATTATGTCACAAGGTAACACG
Found at i:20895 original size:2 final size:2
Alignment explanation
Indices: 20888--20938 Score: 59
Period size: 2 Copynumber: 25.5 Consensus size: 2
20878 CCACCGGCTT
* *
20888 TA TA TA TA TA TA TA TA TA TA TA TA GTA TA TG TA TA TA T- TC TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
*
20930 TA TA AA TA T
1 TA TA TA TA T
20939 TTTATAATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
1 1 0.02
2 39 0.93
3 2 0.05
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:20974 original size:18 final size:18
Alignment explanation
Indices: 20955--20988 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20945 ATATACTTAT
20955 TTTATT-TTATTTATTTA
1 TTTATTATTATTTATTTA
*
20972 TTTATTATTTTTTATTT
1 TTTATTATTATTTATTT
20989 TGGTTTAGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTATTATTATTTATTTA
Found at i:24300 original size:36 final size:36
Alignment explanation
Indices: 24260--24399 Score: 194
Period size: 36 Copynumber: 3.9 Consensus size: 36
24250 GATTCAAGAA
*
24260 GAACGAAAGGAAGCGTCGGCACTTTCGATTCAAAGT
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
* * * *
24296 GAACGAAATGAATCATCGACACTTTCGATTC-AAGAA
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAG-T
24332 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
* *
24368 GAACGGAAGGAAGCAT-TGCACTTTCGATTCAA
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAA
24400 TTGTTCATCT
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
35 18 0.20
36 70 0.77
37 3 0.03
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (36 bp):
GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
Found at i:24335 original size:72 final size:71
Alignment explanation
Indices: 24250--24399 Score: 246
Period size: 72 Copynumber: 2.1 Consensus size: 71
24240 AAATGAAGGT
* * *
24250 GATTCAAGAAGAACGAAAGGAAGCGTCGGCACTTTCGATTCAAAGTGAACGAAATGAATCATCGA
1 GATTCAAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAACGAAAGGAAGCATCG-
24315 CACTTTC
65 CACTTTC
* *
24322 GATTCAAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATTGC
1 GATTCAAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAACGAAAGGAAGCATCGC
24387 ACTTTC
66 ACTTTC
24393 GATTCAA
1 GATTCAA
24400 TTGTTCATCT
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
71 14 0.19
72 59 0.81
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (71 bp):
GATTCAAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAACGAAAGGAAGCATCGC
ACTTTC
Found at i:29031 original size:2 final size:2
Alignment explanation
Indices: 29026--29068 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
29016 ATATATTGAA
29026 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29068 A
1 A
29069 GTGATATTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:31313 original size:6 final size:6
Alignment explanation
Indices: 31304--31331 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
31294 TTTATCTTCT
31304 TCTCCA TCTCCA TCTCCA TCTCCA TCTC
1 TCTCCA TCTCCA TCTCCA TCTCCA TCTC
31332 AAACCCACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.50, G:0.00, T:0.36
Consensus pattern (6 bp):
TCTCCA
Found at i:40123 original size:21 final size:21
Alignment explanation
Indices: 40098--40170 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
40088 ATTATGACTA
*
40098 TCGCAATGCGATTTTCCTAAT
1 TCGCAATGCGATTTTCATAAT
* * *
40119 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGATTTTCATAAT
**
40139 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCATAAT
40160 TCGCAATGCGA
1 TCGCAATGCGA
40171 ATCGTTAACG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 17 0.40
21 26 0.60
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (21 bp):
TCGCAATGCGATTTTCATAAT
Found at i:40213 original size:20 final size:21
Alignment explanation
Indices: 40188--40261 Score: 98
Period size: 20 Copynumber: 3.6 Consensus size: 21
40178 ACGCGAATAG
40188 TCGCAACGCGAATTA-GTAAA
1 TCGCAACGCGAATTACGTAAA
* *
40208 TCGCAACGCGAATTAGGAAAA
1 TCGCAACGCGAATTACGTAAA
*
40229 TCGCAATGCGAA-TACGTAAA
1 TCGCAACGCGAATTACGTAAA
*
40249 TCGCAATGCGAAT
1 TCGCAACGCGAAT
40262 CTTACTATTG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
20 33 0.69
21 15 0.31
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (21 bp):
TCGCAACGCGAATTACGTAAA
Found at i:40846 original size:19 final size:19
Alignment explanation
Indices: 40824--41002 Score: 100
Period size: 19 Copynumber: 10.1 Consensus size: 19
40814 GAAACCAAAA
*
40824 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
40843 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
40857 TCTCGTTGTGATTTTCATT
1 TCGCGTTGCGATTTTCATT
40876 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
40895 TCGCGTTAC-A-ATTC---
1 TCGCGTTGCGATTTTCATT
* **
40909 TCTCGTTGCGATAATCATT
1 TCGCGTTGCGATTTTCATT
40928 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
40942 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
40961 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
* * *
40981 ATCTCGTTACGATTTCCATT
1 -TCGCGTTGCGATTTTCATT
41001 TC
1 TC
41003 AACCAAAAGA
Statistics
Matches: 122, Mismatches: 21, Indels: 34
0.69 0.12 0.19
Matches are distributed among these distances:
14 26 0.21
15 1 0.01
16 8 0.07
17 8 0.07
18 1 0.01
19 48 0.39
20 29 0.24
21 1 0.01
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:40909 original size:52 final size:52
Alignment explanation
Indices: 40824--40940 Score: 180
Period size: 52 Copynumber: 2.2 Consensus size: 52
40814 GAAACCAAAA
* * * * **
40824 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGTGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTACAATTCTCTCGTTGCGATAATCATT
40876 TCGCGTTGCGATTTTCATTTCGCGTTACAATTCTCTCGTTGCGATAATCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTACAATTCTCTCGTTGCGATAATCATT
40928 TCGCGTTGCGATT
1 TCGCGTTGCGATT
40941 CTCTCGTTGC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 59 1.00
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.44
Consensus pattern (52 bp):
TCGCGTTGCGATTTTCATTTCGCGTTACAATTCTCTCGTTGCGATAATCATT
Found at i:40916 original size:33 final size:33
Alignment explanation
Indices: 40879--40977 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
40869 TTTCATTTCG
** * *
40879 CGTTGCGATTTTCATTTCGCGTTACAATTCTCT
1 CGTTGCGATAATCATTTCGCGTTGCGATTCTCT
40912 CGTTGCGATAATCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATAATCATTTCGCGTTGCGATTCTCT
*
40945 CGTTGCGATAGTCATTTCCGCGTTGCGATTCTC
1 CGTTGCGATAATCATTT-CGCGTTGCGATTCTC
40978 ATTATCTCGT
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
33 45 0.75
34 15 0.25
ACGTcount: A:0.14, C:0.25, G:0.20, T:0.40
Consensus pattern (33 bp):
CGTTGCGATAATCATTTCGCGTTGCGATTCTCT
Found at i:43707 original size:21 final size:21
Alignment explanation
Indices: 43665--43707 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
43655 TTTTCGGGCT
* * *
43665 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
43686 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
43707 A
1 A
43708 CGAATATGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:43767 original size:66 final size:66
Alignment explanation
Indices: 43687--43901 Score: 378
Period size: 66 Copynumber: 3.3 Consensus size: 66
43677 ACCCATTCAA
43687 GGGGAACCGATACCCCCTCAACGAATATGATTTCCAGAATGCTAGAGGGGAATCGATACCCCCAG
1 GGGGAACCGATACCCCCTCAACGAATATGATTTCCAGAATGCTAGAGGGGAATCGATACCCCCAG
43752 G
66 G
43753 GGGGAACCGATACCCCCTCAACGAATATGATTTCCAGAATGCTAGAGGGGAATCGATACCCCCAG
1 GGGGAACCGATACCCCCTCAACGAATATGATTTCCAGAATGCTAGAGGGGAATCGATACCCCCAG
43818 G
66 G
* * *
43819 GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTAGTGGGGAATCGATA-CCCTAG
1 GGGGAACCGATACCCCCTCAACGAATATGATTTCCAGAATGCTAGAGGGGAATCGATACCCCCA-
43883 GG
65 GG
*
43885 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
43902 ATGAAAAAAA
Statistics
Matches: 144, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
65 4 0.03
66 140 0.97
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.17
Consensus pattern (66 bp):
GGGGAACCGATACCCCCTCAACGAATATGATTTCCAGAATGCTAGAGGGGAATCGATACCCCCAG
G
Found at i:44466 original size:22 final size:23
Alignment explanation
Indices: 44434--44492 Score: 84
Period size: 22 Copynumber: 2.6 Consensus size: 23
44424 ATCTTAATAT
*
44434 GGCACTACGGTGCAATTCTAC-G
1 GGCACTTCGGTGCAATTCTACGG
*
44456 GGCACTTCGGTGTAATTCTACGG
1 GGCACTTCGGTGCAATTCTACGG
*
44479 GGCACTTCAGTGCA
1 GGCACTTCGGTGCA
44493 TTTATACGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 19 0.59
23 13 0.41
ACGTcount: A:0.20, C:0.25, G:0.29, T:0.25
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGG
Found at i:44500 original size:23 final size:23
Alignment explanation
Indices: 44434--44500 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 23
44424 ATCTTAATAT
* * *
44434 GGCACTACGGTGCAATTCTAC-G
1 GGCACTTCAGTGCAATTATACGG
* * *
44456 GGCACTTCGGTGTAATTCTACGG
1 GGCACTTCAGTGCAATTATACGG
*
44479 GGCACTTCAGTGCATTTATACG
1 GGCACTTCAGTGCAATTATACG
44501 AGCTGTGGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
22 19 0.50
23 19 0.50
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (23 bp):
GGCACTTCAGTGCAATTATACGG
Found at i:46673 original size:14 final size:14
Alignment explanation
Indices: 46654--46744 Score: 74
Period size: 14 Copynumber: 5.9 Consensus size: 14
46644 ATGCGAAATG
46654 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
46668 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
*
46687 AAAATCCCAACGAC
1 AAAATCGCAACGAC
*
46701 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
46717 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
46733 AAAATCGCAACG
1 AAAATCGCAACG
46745 CGAAACACAA
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
14 30 0.48
15 1 0.02
16 10 0.16
17 2 0.03
18 10 0.16
19 9 0.15
ACGTcount: A:0.48, C:0.24, G:0.16, T:0.11
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:46730 original size:32 final size:33
Alignment explanation
Indices: 46638--46749 Score: 199
Period size: 33 Copynumber: 3.4 Consensus size: 33
46628 GGAAATGGCT
46638 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
46671 ATCGCAATGCGAAATGAAAATCCCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
46704 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
46736 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
46750 CACAAATCGC
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
32 28 0.37
33 48 0.63
ACGTcount: A:0.47, C:0.23, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:46778 original size:19 final size:19
Alignment explanation
Indices: 46756--46852 Score: 70
Period size: 19 Copynumber: 5.6 Consensus size: 19
46746 GAAACACAAA
46756 TCGCATTGCGATTTTTATT
1 TCGCATTGCGATTTTTATT
* *
46775 TCGCGTTGCGA--TTT-TG
1 TCGCATTGCGATTTTTATT
*
46791 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTTATT
* *
46808 TCGCATTGTGA--TTT-TG
1 TCGCATTGCGATTTTTATT
*
46824 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTTATT
46841 TCGCATTGCGAT
1 TCGCATTGCGAT
46853 AGCCATTTCC
Statistics
Matches: 58, Mismatches: 10, Indels: 20
0.66 0.11 0.23
Matches are distributed among these distances:
14 11 0.19
16 12 0.21
17 13 0.22
19 22 0.38
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (19 bp):
TCGCATTGCGATTTTTATT
Found at i:46797 original size:14 final size:14
Alignment explanation
Indices: 46778--46836 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
46768 TTTTATTTCG
46778 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
46792 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
*
46809 CGCATTGTGATTTTGT
1 CG--TTGCGATTTTGT
46825 CGTTGCGATTTT
1 CGTTGCGATTTT
46837 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
14 17 0.47
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 5 0.14
ACGTcount: A:0.10, C:0.15, G:0.24, T:0.51
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:46803 original size:33 final size:33
Alignment explanation
Indices: 46761--46852 Score: 157
Period size: 33 Copynumber: 2.8 Consensus size: 33
46751 ACAAATCGCA
* *
46761 TTGCGATTTTTATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
46794 TTGCGATTTTCATTTCGCATTGTGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
46827 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
46853 AGCCATTTCC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.12, C:0.16, G:0.22, T:0.50
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:46859 original size:19 final size:20
Alignment explanation
Indices: 46837--46880 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
46827 TTGCGATTTT
46837 CATTT-CGCATTGCGATAGC
1 CATTTCCGCATTGCGATAGC
* *
46856 CATTTCCGTATTGCGATAGT
1 CATTTCCGCATTGCGATAGC
46876 CATTT
1 CATTT
46881 TCGTGTTGCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (20 bp):
CATTTCCGCATTGCGATAGC
Found at i:46870 original size:20 final size:20
Alignment explanation
Indices: 46845--46891 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
46835 TTCATTTCGC
46845 ATTGCGATAGCCATTTCCGT
1 ATTGCGATAGCCATTTCCGT
* *
46865 ATTGCGATAGTCATTTTCGT
1 ATTGCGATAGCCATTTCCGT
*
46885 GTTGCGA
1 ATTGCGA
46892 AAGTAAACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (20 bp):
ATTGCGATAGCCATTTCCGT
Found at i:47399 original size:18 final size:18
Alignment explanation
Indices: 47373--47417 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
47363 GTCGATCAGA
*
47373 TGATGGCTCTAGGTGAGG
1 TGATGGCTCTAGGAGAGG
* *
47391 TGATAGCTCTGGGAGAGG
1 TGATGGCTCTAGGAGAGG
47409 TGATGGCTC
1 TGATGGCTC
47418 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.18, C:0.13, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTAGGAGAGG
Found at i:48761 original size:20 final size:20
Alignment explanation
Indices: 48736--48778 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
48726 AATAGTTTCT
48736 GAAAATGAAAATAGCAACAC
1 GAAAATGAAAATAGCAACAC
** *
48756 GAAAATGACTATCGCAACAC
1 GAAAATGAAAATAGCAACAC
48776 GAA
1 GAA
48779 TTTGACTATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.19, G:0.16, T:0.12
Consensus pattern (20 bp):
GAAAATGAAAATAGCAACAC
Found at i:48784 original size:20 final size:20
Alignment explanation
Indices: 48749--48793 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
48739 AATGAAAATA
48749 GCAACACGAAAATGACTATC
1 GCAACACGAAAATGACTATC
**
48769 GCAACACGAATTTGACTATC
1 GCAACACGAAAATGACTATC
48789 GCAAC
1 GCAAC
48794 GAGAGAATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.27, G:0.16, T:0.18
Consensus pattern (20 bp):
GCAACACGAAAATGACTATC
Found at i:49085 original size:22 final size:22
Alignment explanation
Indices: 49058--49101 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
49048 GATGGAGATA
49058 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
49080 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
49102 TGAGAGAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.45, T:0.18
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:49315 original size:20 final size:20
Alignment explanation
Indices: 49290--49341 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
49280 ATTATGTATT
49290 ATCGCGTTGCGAAAGTCAGA
1 ATCGCGTTGCGAAAGTCAGA
* *
49310 ATCGCGTTGCAAAAGTCAGT
1 ATCGCGTTGCGAAAGTCAGA
*
49330 ATCTCGTTGCGA
1 ATCGCGTTGCGA
49342 TTTTGTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTCAGA
Found at i:49375 original size:20 final size:20
Alignment explanation
Indices: 49350--49403 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
49340 GATTTTGTAT
49350 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
49370 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
49390 TATCGCATTGCGAT
1 TATCGCATTGCGAT
49404 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:49375 original size:61 final size:61
Alignment explanation
Indices: 49269--49406 Score: 186
Period size: 61 Copynumber: 2.3 Consensus size: 61
49259 TGCTTTGAAA
* * * *
49269 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCAAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCAAAAGTCAGT
* * * * * *
49330 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCAAAAGTCAGT
49391 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
49407 CCCAATTCGC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 65 1.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (61 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCAAAAGTCAGT
Found at i:49422 original size:61 final size:61
Alignment explanation
Indices: 49269--49424 Score: 152
Period size: 61 Copynumber: 2.6 Consensus size: 61
49259 TGCTTTGAAA
* ** * * * *
49269 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCAAAAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCGCATTGCAAAAGTCAGT
* * ** * * * * *
49330 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCGCATTGCAAAAGTCAGT
49391 ATCGCATTGCGATTTTCCCAAT-TCGCGTTGCGAT
1 ATCGCATTGCGATTTT-CCAATATCGCGTTGCGAT
49425 TTACTTATTC
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
61 76 0.97
62 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (61 bp):
ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCGCATTGCAAAAGTCAGT
Found at i:54719 original size:23 final size:23
Alignment explanation
Indices: 54691--54748 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
54681 AAATTAATAA
54691 TATATTATGTAAAATGTTTCGAT
1 TATATTATGTAAAATGTTTCGAT
54714 TATATTATGTAAAATGTTTCGAT
1 TATATTATGTAAAATGTTTCGAT
54737 TATA--ATGTAAAA
1 TATATTATGTAAAA
54749 ATTATAACTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.23
23 27 0.77
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (23 bp):
TATATTATGTAAAATGTTTCGAT
Found at i:57801 original size:8 final size:8
Alignment explanation
Indices: 57788--57828 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
57778 CTCATTTTCA
57788 GAGAATTT
1 GAGAATTT
57796 GAGAATTT
1 GAGAATTT
*
57804 -AGAGTTT
1 GAGAATTT
*
57811 GGGAATTT
1 GAGAATTT
57819 GAGAATTT
1 GAGAATTT
57827 GA
1 GA
57829 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:58121 original size:126 final size:126
Alignment explanation
Indices: 57896--58646 Score: 1315
Period size: 126 Copynumber: 5.8 Consensus size: 126
57886 CTATAATCGG
57896 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
57961 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
58022 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
58087 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
*
58148 TTCACTATTCACGTGAAGGCGCGTT-CCGGGGGCGTGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
58212 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACATACTAT
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
58273 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
58338 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
58399 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCGTTCCCGGGGGCGCGCCTTCCATTATT
1 TTCACTATTCACGTGAA---------------G-GCGCGTTCCCGGGGGCGCGCCTTCCATTATT
*
58464 TCGTCAGAGAATATTATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGTCACTAGATATATC
50 TCGTCAGAGAATATTATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATC
58529 AGTACCTACTAT
115 AGTACCTACTAT
58541 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
58606 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGTCACTA
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTA
58647 TTCACGTGAA
Statistics
Matches: 603, Mismatches: 5, Indels: 34
0.94 0.01 0.05
Matches are distributed among these distances:
125 123 0.20
126 354 0.59
127 1 0.00
141 1 0.00
142 124 0.21
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (126 bp):
TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
Found at i:58340 original size:251 final size:252
Alignment explanation
Indices: 57896--58646 Score: 1315
Period size: 251 Copynumber: 2.9 Consensus size: 252
57886 CTATAATCGG
*
57896 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGTGCCTTCCATTATTTCGTCAGAGAATATTA
57961 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTATTTCA
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTATTTCA
58026 CTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
131 CTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
58091 TGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
196 TGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
58148 TTCACTATTCACGTGAAGGCGCGTT-CCGGGGGCGTGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGTGCCTTCCATTATTTCGTCAGAGAATATTA
*
58212 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACATACTATTTCA
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTATTTCA
58277 CTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
131 CTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
58342 TGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
196 TGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
58399 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCGTTCCCGGGGGCGCGCCTTCCATTATT
1 TTCACTATTCACGTGAAGGCGCGTTCCC--GGG-G-GCG-T-----------GCCTTCCATTATT
*
58464 TCGTCAGAGAATATTATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGTCACTAGATATATC
50 TCGTCAGAGAATATTATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATC
58529 AGTACCTACTATTTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGT
115 AGTACCTACTATTTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGT
*
58594 CAGAGAATATTATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGTCACTA
180 CAGAGAATATTATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTA
58647 TTCACGTGAA
Statistics
Matches: 477, Mismatches: 5, Indels: 18
0.95 0.01 0.04
Matches are distributed among these distances:
251 249 0.52
252 27 0.06
254 3 0.01
255 1 0.00
256 3 0.01
257 1 0.00
268 193 0.40
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (252 bp):
TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGTGCCTTCCATTATTTCGTCAGAGAATATTA
TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTATTTCA
CTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
TGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTAT
Found at i:58438 original size:16 final size:16
Alignment explanation
Indices: 58417--58457 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
58407 TCACGTGAAG
58417 GCGCGTTCCCGGGGGC
1 GCGCGTTCCCGGGGGC
58433 GCGCGTTCCCGGGGGC
1 GCGCGTTCCCGGGGGC
*
58449 GCGCCTTCC
1 GCGCGTTCC
58458 ATTATTTCGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.00, C:0.41, G:0.44, T:0.15
Consensus pattern (16 bp):
GCGCGTTCCCGGGGGC
Found at i:59051 original size:33 final size:33
Alignment explanation
Indices: 58990--59089 Score: 128
Period size: 34 Copynumber: 3.0 Consensus size: 33
58980 AAATTTAATG
*
58990 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTT-GAATAATATAATTTATATTTTAAAT
* * * *
59024 TTAAATTTGAATAATATTATTTTTATTTTTATT
1 TTAAATTTGAATAATATAATTTATATTTTAAAT
*
59057 TTAAATTTTGAATAATATAATTTGTATTTTAAA
1 TTAAA-TTTGAATAATATAATTTATATTTTAAA
59090 AACATTTATC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 25 0.45
34 31 0.55
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (33 bp):
TTAAATTTGAATAATATAATTTATATTTTAAAT
Found at i:59698 original size:21 final size:21
Alignment explanation
Indices: 59610--59703 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
59600 TATGGTATAA
*
59610 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
*
59631 AA-CCTGGCGGGCTAGGCATGT
1 AACCCT-GCGGGCTAGGAATGT
59652 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
59673 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
59694 AACCCTGCGG
1 AACCCTGCGG
59704 AGATGGCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 3 0.04
21 63 0.91
22 3 0.04
ACGTcount: A:0.20, C:0.27, G:0.35, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:59733 original size:21 final size:21
Alignment explanation
Indices: 59707--59754 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
59697 CCTGCGGAGA
*
59707 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
59728 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
59749 GGGCAT
1 TGGCAT
59755 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:61566 original size:34 final size:33
Alignment explanation
Indices: 61514--61578 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
61504 TTAATAATAA
* * * *
61514 AATAATATTTACATAAATATTAATATAAAAAAT
1 AATAATATTTAAAAAAATACTAACATAAAAAAT
61547 AATAACTATTTAAAAAAATACTAACATAAAAA
1 AATAA-TATTTAAAAAAATACTAACATAAAAA
61579 TAAATTTCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 5 0.19
34 22 0.81
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (33 bp):
AATAATATTTAAAAAAATACTAACATAAAAAAT
Found at i:68797 original size:118 final size:116
Alignment explanation
Indices: 68557--68816 Score: 324
Period size: 118 Copynumber: 2.2 Consensus size: 116
68547 TGACAAATCC
* * *
68557 AATAATTAACCT-ATTTTGTTATCGTCGAATTTTTAAAGCCCATCAGTTTAAAAAAGTGCTACCT
1 AATAATTAA-CTGATTATGTTATCGTCGAATTTCTAAAGCCCATCAGTTTAAAAAAGCGCTACCT
* * ** * **
68621 ATTACGTTATATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTTCT
65 ATTACGTTATATAAACGCTACCTAATATATTATTATAATTAATAAAATTTCT
* * * *
68673 AGTAATTAACTGATTATGTTATCGTCGGATTTCTAAAGCTCCATCAGTTTTAACAAGGCGCTACC
1 AATAATTAACTGATTATGTTATCGTCGAATTTCTAAAGC-CCATCAG-TTTAAAAAAGCGCTACC
* *
68738 TATTACGTTATATAAACGCTACCTAATATATTATTGTAATTAATAAAATTTTT
64 TATTACGTTATATAAACGCTACCTAATATATTATTATAATTAATAAAATTTCT
* *
68791 AATAATTAACCGACTATGTTATCGTC
1 AATAATTAACTGATTATGTTATCGTC
68817 TATATATTTT
Statistics
Matches: 122, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
115 2 0.02
116 32 0.26
117 7 0.06
118 81 0.66
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (116 bp):
AATAATTAACTGATTATGTTATCGTCGAATTTCTAAAGCCCATCAGTTTAAAAAAGCGCTACCTA
TTACGTTATATAAACGCTACCTAATATATTATTATAATTAATAAAATTTCT
Found at i:73904 original size:33 final size:33
Alignment explanation
Indices: 73833--73906 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
73823 ACATGAGCAT
* * *
73833 AAACATAGAAAAGAGTTGCAGATATTGAAATTT
1 AAACATAGAAAAGAGTTACAGATATTGAAAGTC
*
73866 GAACATAGAAAAGAGTTACAGATATTGAAAGTC
1 AAACATAGAAAAGAGTTACAGATATTGAAAGTC
73899 AAACATAG
1 AAACATAG
73907 GGATACACTG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.50, C:0.08, G:0.19, T:0.23
Consensus pattern (33 bp):
AAACATAGAAAAGAGTTACAGATATTGAAAGTC
Found at i:86295 original size:19 final size:21
Alignment explanation
Indices: 86257--86296 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
86247 TTTAGAAATT
86257 ATAAAGGAATTACCGATACTC
1 ATAAAGGAATTACCGATACTC
*
86278 ATAAA-GAA-TACTGATACTC
1 ATAAAGGAATTACCGATACTC
86297 CATGTCCTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 3 0.17
21 5 0.28
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.25
Consensus pattern (21 bp):
ATAAAGGAATTACCGATACTC
Done.