Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002338.1 Hibiscus syriacus cultivar Beakdansim tig00004775_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: 91096
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Found at i:395 original size:21 final size:21
Alignment explanation
Indices: 371--412 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
361 GTGAAGAAGT
371 TATTCCAGCAGAATTGAGTTC
1 TATTCCAGCAGAATTGAGTTC
392 TATTCCAGCAGAATTGAGTTC
1 TATTCCAGCAGAATTGAGTTC
413 CACCACTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (21 bp):
TATTCCAGCAGAATTGAGTTC
Found at i:2322 original size:17 final size:17
Alignment explanation
Indices: 2284--2321 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
2274 ACTATAGCAA
2284 TTTTTGTTTTGTGTGTT
1 TTTTTGTTTTGTGTGTT
2301 TTTTTGTTTAT-T-TGTT
1 TTTTTGTTT-TGTGTGTT
2317 TTTTT
1 TTTTT
2322 TTACTTCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.45
17 10 0.50
18 1 0.05
ACGTcount: A:0.03, C:0.00, G:0.16, T:0.82
Consensus pattern (17 bp):
TTTTTGTTTTGTGTGTT
Found at i:5343 original size:18 final size:19
Alignment explanation
Indices: 5320--5356 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
5310 TATTTAAGTT
*
5320 ATAAAAGCGA-TTAAATAA
1 ATAAAAGCAATTTAAATAA
5338 ATAAAAGCAATTTAAATAA
1 ATAAAAGCAATTTAAATAA
5357 CAATAAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.62, C:0.05, G:0.08, T:0.24
Consensus pattern (19 bp):
ATAAAAGCAATTTAAATAA
Found at i:15548 original size:151 final size:152
Alignment explanation
Indices: 15299--15599 Score: 507
Period size: 151 Copynumber: 2.0 Consensus size: 152
15289 CATTAGTATA
* *
15299 TTATCTATTAATTAACACATTTTTCCTCATTCACAAACGTCAGGGTTTAAACTCTTAACCTTACT
1 TTATCTATTAATTAACACAGTTTTCCTCATTCACAAACGTCAGGGTTTAAACACTTAACCTTACT
*
15364 TAAAAAATCTAGTGTCTCATCCCACTAGTCCAACTAATTGTTAATTTTTTAACTATAATTTTAAA
66 TAAAAAATCTAGTATCTCATCCCACTAGTCCAACTAATTGTTAATTTTTTAACTATAATTTTAAA
15429 TCAA-TTTTTAGTGTTTAACAT
131 TCAATTTTTTAGTGTTTAACAT
* * *
15450 TTATCTATTGATTAATACAGTTTTCCTCATTCACAAACGTCAGGGTTTAAACACTTGACCTTACT
1 TTATCTATTAATTAACACAGTTTTCCTCATTCACAAACGTCAGGGTTTAAACACTTAACCTTACT
* *
15515 TAAAAAATCTAGTATCTCTTCCTACTA-TACCAACTAATTGTTAATTTTTTAACTATAATTTTAA
66 TAAAAAATCTAGTATCTCATCCCACTAGT-CCAACTAATTGTTAATTTTTTAACTATAATTTTAA
15579 ATCAATTTTTTAGTGTTTAAC
130 ATCAATTTTTTAGTGTTTAAC
15600 GTTATTTATA
Statistics
Matches: 140, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
150 1 0.01
151 124 0.89
152 15 0.11
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.42
Consensus pattern (152 bp):
TTATCTATTAATTAACACAGTTTTCCTCATTCACAAACGTCAGGGTTTAAACACTTAACCTTACT
TAAAAAATCTAGTATCTCATCCCACTAGTCCAACTAATTGTTAATTTTTTAACTATAATTTTAAA
TCAATTTTTTAGTGTTTAACAT
Found at i:18122 original size:5 final size:5
Alignment explanation
Indices: 18102--18135 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
18092 CTGCATTTAC
18102 ATTAT ATTAT -TATAT ATTAT ATTAT ATTAT ATTA
1 ATTAT ATTAT AT-TAT ATTAT ATTAT ATTAT ATTA
18136 CATTTTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 1 0.04
5 25 0.93
6 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:31252 original size:23 final size:23
Alignment explanation
Indices: 31209--31255 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
31199 GAATCCATGC
**
31209 GAAAAACAAGATTAACGAAAACA
1 GAAAAACAAGAAGAACGAAAACA
*
31232 GAAAAACAAGAAGAAGCAAAAACA
1 GAAAAACAAGAAGAA-CGAAAACA
31256 AGCGAAAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.68, C:0.13, G:0.15, T:0.04
Consensus pattern (23 bp):
GAAAAACAAGAAGAACGAAAACA
Found at i:34869 original size:26 final size:25
Alignment explanation
Indices: 34815--34875 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 25
34805 AAACAATTAA
34815 ATTTTAAAA-TGTATTTTTGAAAAC
1 ATTTTAAAAGTGTATTTTTGAAAAC
*
34839 ATTTTTAAAAGTTTATTTTT-ATAATAC
1 A-TTTTAAAAGTGTATTTTTGA-AA-AC
34866 -TTTTAAAAGT
1 ATTTTAAAAGT
34876 CACTTCTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
24 1 0.03
25 19 0.59
26 10 0.31
27 2 0.06
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (25 bp):
ATTTTAAAAGTGTATTTTTGAAAAC
Found at i:36627 original size:17 final size:17
Alignment explanation
Indices: 36605--36638 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
36595 GGTCGATTTG
*
36605 GGTATCATGTTGGTTCA
1 GGTATCAGGTTGGTTCA
36622 GGTATCAGGTTGGTTCA
1 GGTATCAGGTTGGTTCA
36639 ATATCAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.12, G:0.32, T:0.38
Consensus pattern (17 bp):
GGTATCAGGTTGGTTCA
Found at i:37053 original size:29 final size:28
Alignment explanation
Indices: 37012--37066 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
37002 GATACTTAAC
*
37012 ATTTAATTATAAATATTATTTTTGAATAA
1 ATTTAATTATAAATA-TATTTATGAATAA
* *
37041 ATTTTATTCTAAATATATTTATGAAT
1 ATTTAATTATAAATATATTTATGAAT
37067 GTTATTATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 10 0.43
29 13 0.57
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (28 bp):
ATTTAATTATAAATATATTTATGAATAA
Found at i:38038 original size:27 final size:27
Alignment explanation
Indices: 38008--38074 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
37998 TCATGTTTTG
38008 TGTTCGTTTATTTATTATTTGCGAACA
1 TGTTCGTTTATTTATTATTTGCGAACA
38035 TGTTCGTTTATTTATTATTTGCGAACA
1 TGTTCGTTTATTTATTATTTGCGAACA
*
38062 TGTTCCTTTATTT
1 TGTTCGTTTATTT
38075 GTTCATGAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.19, C:0.12, G:0.13, T:0.55
Consensus pattern (27 bp):
TGTTCGTTTATTTATTATTTGCGAACA
Found at i:39891 original size:186 final size:181
Alignment explanation
Indices: 39579--39965 Score: 614
Period size: 186 Copynumber: 2.1 Consensus size: 181
39569 TTTTCTAATT
* * * *
39579 TATATAA-AAATTAAATATTTTATAATTCAAAAAACCGTTATAATTAATTTAAAATATATAATTA
1 TATATAATATATTTAATATTTTATAATTCAAAAAACAGTTACAATTAATTTAAAATATATAATTA
39643 TAAAATAAAAATTTTATATAATTTTTTAATTAATTAATATTGATTTAGATTTAAAAGTTATTGGA
66 TAAAATAAAAATTTTATATAATTTTTTAATTAATTAATATTGATTTAGATTTAAAAGTTATTGGA
*
39708 CCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTGAACCCATATGTTA
131 CCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAACCCATATGTTA
* * *
39759 TATATTATATATTTAATATTTTTTAATTCAGAAAAATAGTTTACAATTAATTTAAATAATATATA
1 TATATAATATATTTAATATTTTATAATTCA-AAAAACAG-TTACAATTAATTT-AA-AATATATA
*
39824 ATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
62 ATTATAAAATAAAAATTTTATAT-AATTTTTTAATTAATTAATATTGATTTAGATTTAAAAGTTA
* *
39889 TTGGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
126 TTGGACCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAACCCATATGTTA
*
39945 TATATAATATATTTAAAATTT
1 TATATAATATATTTAATATTT
39966 AAAATTTTAT
Statistics
Matches: 188, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
180 6 0.03
181 19 0.10
182 6 0.03
183 12 0.06
184 2 0.01
185 31 0.16
186 112 0.60
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (181 bp):
TATATAATATATTTAATATTTTATAATTCAAAAAACAGTTACAATTAATTTAAAATATATAATTA
TAAAATAAAAATTTTATATAATTTTTTAATTAATTAATATTGATTTAGATTTAAAAGTTATTGGA
CCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAACCCATATGTTA
Found at i:41518 original size:33 final size:34
Alignment explanation
Indices: 41476--41552 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 34
41466 ATAAGTATGG
* **
41476 GCATTGCGATTCACTCGTTGCGATTTTCA-TTTC
1 GCATTGCGATTCACTCGTTACGATAGTCATTTTC
*
41509 GCATTGCGATTCTCTCGTTACGATAGTCATTTTC
1 GCATTGCGATTCACTCGTTACGATAGTCATTTTC
*
41543 GCGTTGCGAT
1 GCATTGCGAT
41553 AGTCTGTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
33 25 0.66
34 13 0.34
ACGTcount: A:0.16, C:0.23, G:0.21, T:0.40
Consensus pattern (34 bp):
GCATTGCGATTCACTCGTTACGATAGTCATTTTC
Found at i:41677 original size:14 final size:14
Alignment explanation
Indices: 41658--41694 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
41648 CATCAATTAA
41658 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
41672 ACAAATCATCTTTT
1 ACAAATCAACATTT
41686 ACAAATCAA
1 ACAAATCAA
41695 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:43019 original size:19 final size:19
Alignment explanation
Indices: 42959--43030 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
42949 CGATGATAGT
* *
42959 GGCCTCTTGAACGGT-GAG
1 GGCCTCTTGAACGATAGGG
* ** *
42977 GGACTCTTGAGGGATGATGG
1 GGCCTCTTGAACGAT-AGGG
42997 GGCCTCTTGAACGATAGGG
1 GGCCTCTTGAACGATAGGG
43016 GGCCTCTTGAACGAT
1 GGCCTCTTGAACGAT
43031 GACAGGTGAG
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
18 11 0.26
19 18 0.43
20 13 0.31
ACGTcount: A:0.19, C:0.19, G:0.38, T:0.24
Consensus pattern (19 bp):
GGCCTCTTGAACGATAGGG
Found at i:43032 original size:39 final size:39
Alignment explanation
Indices: 42934--43032 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 39
42924 AGAATATTGG
* * *
42934 GAGGGACCTCTTCAACGATGATAGTGGCCTCTTGAACGGT
1 GAGGG-CCTCTTGAACGATGATAGGGGCCTCTTGAACGAT
* **
42974 GAGGGACTCTTGAGGGATGAT-GGGGCCTCTTGAACGAT
1 GAGGGCCTCTTGAACGATGATAGGGGCCTCTTGAACGAT
*
43012 AGGGGGCCTCTTGAACGATGA
1 -GAGGGCCTCTTGAACGATGA
43033 CAGGTGAGTC
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
38 15 0.31
39 28 0.58
40 5 0.10
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (39 bp):
GAGGGCCTCTTGAACGATGATAGGGGCCTCTTGAACGAT
Found at i:43541 original size:20 final size:20
Alignment explanation
Indices: 43516--43584 Score: 129
Period size: 20 Copynumber: 3.5 Consensus size: 20
43506 AAAACTTAAA
43516 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
43536 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
43556 ATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
43576 ATCGCAACG
1 ATCGCAACG
43585 AGAGAATCGC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:43599 original size:34 final size:37
Alignment explanation
Indices: 43515--43601 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 37
43505 TAAAACTTAA
*
43515 AATCGCAACGCGAAAATGACTATCGCAACGCGAAAATG
1 AATCGCAATGCGAAAATGACTATCGCAAC-CGAAAATG
*
43553 ACTATCGCAATGCGAAAATGACTATCGCAA-CG-AGA-G
1 A--ATCGCAATGCGAAAATGACTATCGCAACCGAAAATG
43589 AATCGCAATGCGA
1 AATCGCAATGCGA
43602 TTTTCATTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
34 12 0.27
36 2 0.04
37 2 0.04
38 3 0.07
40 26 0.58
ACGTcount: A:0.40, C:0.23, G:0.22, T:0.15
Consensus pattern (37 bp):
AATCGCAATGCGAAAATGACTATCGCAACCGAAAATG
Found at i:43647 original size:34 final size:34
Alignment explanation
Indices: 43608--43762 Score: 170
Period size: 34 Copynumber: 4.4 Consensus size: 34
43598 GCGATTTTCA
* *
43608 TTTCGCATTTCGATTCTTTCGTTGTGATAGTCAT
1 TTTCGCATTGCGATTCTTTCGTTGCGATAGTCAT
43642 TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCAT
1 TTTCGCATTGCGAT--TC--TTTCG--TTGCGATAGTCAT
* * **
43682 TTTTGCATTGCGATT-TTGTTGTTGCGATTTTCA-
1 TTTCGCATTGCGATTCTT-TCGTTGCGATAGTCAT
*
43715 TTTCGCATTGCGATTCTCTCGTTGCGATAGTCAT
1 TTTCGCATTGCGATTCTTTCGTTGCGATAGTCAT
43749 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
43763 AGTAAACTAT
Statistics
Matches: 101, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
33 26 0.26
34 38 0.38
35 2 0.02
36 4 0.04
38 6 0.06
40 25 0.25
ACGTcount: A:0.15, C:0.19, G:0.20, T:0.46
Consensus pattern (34 bp):
TTTCGCATTGCGATTCTTTCGTTGCGATAGTCAT
Found at i:43648 original size:53 final size:52
Alignment explanation
Indices: 43591--43762 Score: 163
Period size: 53 Copynumber: 3.2 Consensus size: 52
43581 AACGAGAGAA
* *
43591 TCGCAATGCGATTTTCATTTCGCATTTCGATTCTTTCGTTGTGATAGTCATTT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTG-GATAGTCATTT
** * *
43644 TCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCATTT--TTGCATTG-CGATTT
1 TCGCATTGCGATTTTCA-TTTCGCATTGCGAT--TC-TTTCGTTGGATAGTC-ATTT
** *
43698 T-GTTGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTT
1 TCG-CATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTG-GATAGTCATTT
43751 TCGCATTGCGAT
1 TCGCATTGCGAT
43763 AGTAAACTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 22
0.72 0.12 0.17
Matches are distributed among these distances:
50 2 0.02
51 2 0.02
52 3 0.03
53 45 0.48
54 33 0.35
55 3 0.03
56 2 0.02
57 3 0.03
ACGTcount: A:0.16, C:0.19, G:0.20, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGGATAGTCATTT
Found at i:43658 original size:20 final size:20
Alignment explanation
Indices: 43633--43765 Score: 123
Period size: 20 Copynumber: 7.3 Consensus size: 20
43623 CTTTCGTTGT
43633 GATAGTCATTTTCGCATTGC
1 GATAGTCATTTTCGCATTGC
43653 GATAGTCATTTTCGCATTGC
1 GATAGTCATTTTCGCATTGC
*
43673 GATAGTCATTTTTGCATTGC
1 GATAGTCATTTTCGCATTGC
43693 GAT--T--TTGTT-G--TTGC
1 GATAGTCATT-TTCGCATTGC
**
43707 GATTTTCA-TTTCGCATTGC
1 GATAGTCATTTTCGCATTGC
*
43726 GAT--TC--TCTCG--TTGC
1 GATAGTCATTTTCGCATTGC
43740 GATAGTCATTTTCGCATTGC
1 GATAGTCATTTTCGCATTGC
43760 GATAGT
1 GATAGT
43766 AAACTATTCT
Statistics
Matches: 96, Mismatches: 3, Indels: 28
0.76 0.02 0.22
Matches are distributed among these distances:
14 14 0.15
16 12 0.12
17 6 0.06
18 5 0.05
19 7 0.07
20 52 0.54
ACGTcount: A:0.17, C:0.18, G:0.21, T:0.44
Consensus pattern (20 bp):
GATAGTCATTTTCGCATTGC
Found at i:45659 original size:20 final size:20
Alignment explanation
Indices: 45636--45723 Score: 106
Period size: 20 Copynumber: 4.5 Consensus size: 20
45626 CTGAAACTTT
45636 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
45656 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
** * **
45676 CTATCGCAACGCGAATTTGA
1 AAATCGCAACACGAAAATGA
**
45696 CTATCGCAACACG-AAATGA
1 AAATCGCAACACGAAAATGA
45715 AAATCGCAA
1 AAATCGCAA
45724 TGACAGAATC
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
19 11 0.19
20 47 0.81
ACGTcount: A:0.47, C:0.23, G:0.16, T:0.15
Consensus pattern (20 bp):
AAATCGCAACACGAAAATGA
Found at i:46112 original size:22 final size:22
Alignment explanation
Indices: 46050--46115 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
46040 TAACCGTGAA
* *
46050 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
* *
46072 TGATATCGTTGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
46094 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
46116 GGATGTCGCC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.21, C:0.14, G:0.39, T:0.26
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:46856 original size:20 final size:20
Alignment explanation
Indices: 46828--46866 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
46818 AAGTATAAGT
*
46828 ATGACAAAACCGGTCAAGAA
1 ATGACAAAACCGGTAAAGAA
*
46848 ATGATAAAACCGGTAAAGA
1 ATGACAAAACCGGTAAAGA
46867 GCTACCGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (20 bp):
ATGACAAAACCGGTAAAGAA
Found at i:47109 original size:181 final size:180
Alignment explanation
Indices: 46607--47254 Score: 793
Period size: 181 Copynumber: 3.6 Consensus size: 180
46597 ATACAAATGA
* * * * *
46607 AAAATGTATCGCTCCATAGA-AATATAACAGGTAAAAATATGATAAAACCGATTTC-ATTATGAT
1 AAAATGTATCGATCCATA-ACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGA-AATGAT
** * * * * *
46670 AAAACCGGTAAACCGTTACTGGATATATCGAAAGTATCGATTAGATTTAA-ATAAGTATCGACAC
64 AAAACCGGTAAAGAGCTACCGGATATATTGAAAGTGTCGA-TA-AATTAATATAAGTATCGACAC
* * *
46734 TTTTGGAATTTAAAATAGAAGAAG-TACTAGCGCCTATAAAGTGTCGATGCTTTAT
127 -TTTGTAATTTAAAAGAGAAGAAGTTA-TAGCGCCTATAAAGTGTCGATACTTTAT
* * * * **
46789 AAAAACGTATCGATCCATAACAATATAACAAGTATAAGTATGACAAAACCGGTCAAGAAATGATA
1 -AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGATA
* **
46854 AAACCGGTAAAGAGCTACCGAATATATTGAAAGTGTCGATACGTTAATATAAGTATCGACACTTT
65 AAACCGGTAAAGAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTT
* *
46919 TTGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTTGATACTTTAT
130 GT-AATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAT
* * *
46971 ACAAATGTATCGATCCATAGCAATATAACAGGTAAGAATATGA-AAAACAGGTCTCGAAATGATA
1 A-AAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGATA
* * *
47035 AAATCGGTAAAAAACTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTT
65 AAACCGGTAAAGAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTT
* *
47100 CGTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCAATACTTTAT
130 -GTAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAT
* * * *
47152 GAAAATGTATCGATCCATAACAATATAATAGGTAAAAATATGACAAAACCGGTATCAAAATGACA
1 -AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGATA
* * *
47217 AAACCGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCG
65 AAACCGGTAAAGAGCTACCGGATATATTGAAAGTGTCG
47255 GTACTTTAAT
Statistics
Matches: 399, Mismatches: 57, Indels: 19
0.84 0.12 0.04
Matches are distributed among these distances:
181 169 0.42
182 146 0.37
183 83 0.21
184 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (180 bp):
AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGATAA
AACCGGTAAAGAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTG
TAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAT
Found at i:47346 original size:21 final size:21
Alignment explanation
Indices: 47320--47376 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
47310 TATCCTATCG
47320 AAAGTATCGACACTTCACATA
1 AAAGTATCGACACTTCACATA
47341 AAAGTATCGACACTTCACATA
1 AAAGTATCGACACTTCACATA
47362 AAAGTATCGACACTT
1 AAAGTATCGACACTT
47377 ATGTAATTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.42, C:0.23, G:0.11, T:0.25
Consensus pattern (21 bp):
AAAGTATCGACACTTCACATA
Found at i:47623 original size:23 final size:23
Alignment explanation
Indices: 47572--47623 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
47562 ATGTCTATTT
* * * *
47572 TATTATATAAGCATTACTTATTA
1 TATTATATAAACACTACCTAATA
47595 TATTATATAAACACTACCTAATA
1 TATTATATAAACACTACCTAATA
*
47618 TGTTAT
1 TATTAT
47624 TATGCTTGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.44
Consensus pattern (23 bp):
TATTATATAAACACTACCTAATA
Found at i:52918 original size:36 final size:36
Alignment explanation
Indices: 52828--53063 Score: 273
Period size: 36 Copynumber: 6.5 Consensus size: 36
52818 AAAAATCGGT
*
52828 TTTTGAAAATATA-ATA-TATA-ATTTTTGAAAACA
1 TTTTGAAAATATATATATTATATAGTTTTGAAAACA
*
52861 TTTTTGGAATATATATATATTATATAGTTTTGAAAACA
1 -TTTT-GAAAATATATATATTATATAGTTTTGAAAACA
** *
52899 TTTCAAAAATATATATATTATATAGTTTTGAAAATA
1 TTTTGAAAATATATATATTATATAGTTTTGAAAACA
* *
52935 TTTTG-AAATATATATAATATATGGTTTTGAAAACA
1 TTTTGAAAATATATATATTATATAGTTTTGAAAACA
* * *
52970 TTTTGAAAACACATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAATATATATATTATATAG-TTTTGAAAACA
* * * *
53007 TTTTGAAAATAAATATATAATATAATTTTGAAAACCT
1 TTTTGAAAATATATATATTATATAGTTTTGAAAA-CA
53044 TTTTGAAAATATATAATATT
1 TTTTGAAAATATAT-ATATT
53064 TTGAAAATGT
Statistics
Matches: 172, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
34 4 0.02
35 40 0.23
36 60 0.35
37 52 0.30
38 16 0.09
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (36 bp):
TTTTGAAAATATATATATTATATAGTTTTGAAAACA
Found at i:53041 original size:73 final size:72
Alignment explanation
Indices: 52836--53052 Score: 251
Period size: 71 Copynumber: 3.0 Consensus size: 72
52826 GTTTTTGAAA
* * *
52836 ATATAATATATAATTTTTGAAAACATTTTTGGAATATATATATATTATATAGTTTTGAAAACATT
1 ATATAATATATAGTTTTTGAAAACA-TTTT-GAAAATA-ATATATAATATAGTTTTGAAAACATT
** * *
52901 TCAAAAATAT
63 TTGAAAACAC
* *
52911 ATATATTATATAG-TTTTGAAAATATTTTG-AAAT-ATATATAATATATGGTTTTGAAAACATTT
1 ATATAATATATAGTTTTTGAAAACATTTTGAAAATAATATATAATATA--GTTTTGAAAACATTT
52973 TGAAAACAC
64 TGAAAACAC
* *
52982 ATATAATATATAGTTTTTGAAAACATTTTGAAAATAAATATATAATATAATTTTGAAAACCTTTT
1 ATATAATATATAGTTTTTGAAAACATTTTGAAAAT-AATATATAATATAGTTTTGAAAA-CATTT
53047 TGAAAA
64 TGAAAA
53053 TATATAATAT
Statistics
Matches: 122, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
69 11 0.09
71 35 0.29
72 16 0.13
73 17 0.14
74 20 0.16
75 23 0.19
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (72 bp):
ATATAATATATAGTTTTTGAAAACATTTTGAAAATAATATATAATATAGTTTTGAAAACATTTTG
AAAACAC
Found at i:58759 original size:11 final size:10
Alignment explanation
Indices: 58733--58764 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
58723 TGAAGGTACT
58733 GGTTCAACCG
1 GGTTCAACCG
58743 GGTTCAACCG
1 GGTTCAACCG
58753 CGGTTCAACCG
1 -GGTTCAACCG
58764 G
1 G
58765 ATTTTATCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.19, C:0.31, G:0.31, T:0.19
Consensus pattern (10 bp):
GGTTCAACCG
Found at i:60555 original size:85 final size:85
Alignment explanation
Indices: 60342--60830 Score: 673
Period size: 85 Copynumber: 5.8 Consensus size: 85
60332 CAACTCGTAA
* * * *
60342 CATAGCTCAATGCGAGAAGGGCTATATGTCAACAAAAACCTTCGAGTTTGATTCTATTCAGCTCA
1 CATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCA
* ** *
60407 AAGGCA-GCCAAATTTACAA
66 AGGGCATATCAAATTTACAG
* *
60426 CATAGCTCAA-GTGAGAAGGGTTATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCA
1 CATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCA
60490 AGGGCATATCAAATTTACAG
66 AGGGCATATCAAATTTACAG
* * * *
60510 CATAGCTCAAGGCGAGAAGAGCTATCTGTCAATAAAAACCTTCGAGTTAGATTGCATTCAGCTCA
1 CATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCA
60575 AGGGCATATCAAATTTACAG
66 AGGGCATATCAAATTTACAG
* * *
60595 CATAGCTCAAGGCAAAAAGGGCTATCTGCCAACAAAAAACCTTCGAGTTCGATTCCATTCAGCTC
1 CATAGCTCAAGGCGAGAAGGGCTATCTGTCAAC-AAAAACCTTCGAGTTCGATTCCATTCAGCTC
* *
60660 AAGGGCATA-CAAGTTT-TAG
65 AAGGGCATATCAAATTTACAG
* * * * *
60679 CATAGGTCAAGGCGAGAAGGGCTATCTGTAAACAAAAACCTTCGAGTTCAATTCTATTTAGCTCA
1 CATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCA
60744 AGGGCATATCAAATTTACAG
66 AGGGCATATCAAATTTACAG
* * *
60764 CATAGCTCAAGGCGAGAATGGTTATCTGTAAAACAAAAACCTTCGAGTTCGA-TCCTATTCAGCT
1 CATAGCTCAAGGCGAGAAGGGCTATCTGT-CAACAAAAACCTTCGAGTTCGATTCC-ATTCAGCT
60828 CAA
64 CAA
60831 TGAAAATGAG
Statistics
Matches: 358, Mismatches: 40, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
83 91 0.25
84 66 0.18
85 132 0.37
86 69 0.19
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (85 bp):
CATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCA
AGGGCATATCAAATTTACAG
Found at i:60696 original size:169 final size:169
Alignment explanation
Indices: 60342--60830 Score: 670
Period size: 169 Copynumber: 2.9 Consensus size: 169
60332 CAACTCGTAA
* * *
60342 CATAGCTCAATGCGAGAAGGGCTATATGTCAACAAAAACCTTCGAGTTTGATTCTATTCAGCTCA
1 CATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTAGATTCTATTCAGCTCA
* ** *
60407 AAGGCA-GCCAAATTTACAACATAGCTCAAGTG-AGAAGGGTTATCTGTCAAC-AAAAACCTTCG
66 AGGGCATATCAAATTTACAGCATAGCTCAAG-GCAGAAGGGTTATCTG-CAACAAAAAACCTTCG
60469 AGTTCGATTCCATTCAGCTCAAGGGCATATCAAATTTACAG
129 AGTTCGATTCCATTCAGCTCAAGGGCATATCAAATTTACAG
* *
60510 CATAGCTCAAGGCGAGAAGAGCTATCTGTCAATAAAAACCTTCGAGTTAGATTGC-ATTCAGCTC
1 CATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTAGATT-CTATTCAGCTC
* *
60574 AAGGGCATATCAAATTTACAGCATAGCTCAAGGCAAAAAGGGCTATCTGCCAACAAAAAACCTTC
65 AAGGGCATATCAAATTTACAGCATAGCTCAAGGC-AGAAGGGTTATCTG-CAACAAAAAACCTTC
* *
60639 GAGTTCGATTCCATTCAGCTCAAGGGCATA-CAAGTTT-TAG
128 GAGTTCGATTCCATTCAGCTCAAGGGCATATCAAATTTACAG
* * *
60679 CATAGGTCAAGGCGAGAAGGGCTATCTGTAAACAAAAACCTTCGAGTTCA-ATTCTATTTAGCTC
1 CATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTT-AGATTCTATTCAGCTC
* * *
60743 AAGGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAATGGTTATCTGTAAAACAAAAACCTTC
65 AAGGGCATATCAAATTTACAGCATAGCTCAAGGC-AGAAGGGTTATCTGCAACA-AAAAACCTTC
60808 GAGTTCGA-TCCTATTCAGCTCAA
128 GAGTTCGATTCC-ATTCAGCTCAA
60831 TGAAAATGAG
Statistics
Matches: 287, Mismatches: 25, Indels: 17
0.87 0.08 0.05
Matches are distributed among these distances:
168 71 0.25
169 153 0.53
170 23 0.08
171 40 0.14
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (169 bp):
CATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTAGATTCTATTCAGCTCA
AGGGCATATCAAATTTACAGCATAGCTCAAGGCAGAAGGGTTATCTGCAACAAAAAACCTTCGAG
TTCGATTCCATTCAGCTCAAGGGCATATCAAATTTACAG
Found at i:60792 original size:254 final size:254
Alignment explanation
Indices: 60342--60830 Score: 689
Period size: 254 Copynumber: 1.9 Consensus size: 254
60332 CAACTCGTAA
* * * * * *
60342 CATAGCTCAATGCGAGAAGGGCTATATGTCAACAAAAACCTTCGAGTTTGATTCTATTCAGCTCA
1 CATAGCTCAAGGCAAAAAGGGCTATATGCCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCA
* * * *
60407 AAGGCAGCCAAATTTACAACATAGCTCAAGTGAGAAGGGTTATCTGTCAACAAAAACCTTCGAGT
66 AAGGCAGACAAATTTACAACATAGCTCAAGCGAGAAGGGCTATCTGTAAACAAAAACCTTCGAGT
*
60472 TCGATTCCATTCAGCTCAAGGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGAGCTATCT
131 TCAATTCCATTCAGCTCAAGGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGAGCTATCT
* * *
60537 GT-CAATAAAAACCTTCGAGTTAGATTGC-ATTCAGCTCAAGGGCATATCAAATTTACAG
196 GTAAAACAAAAACCTTCGAGTTAGA-TCCTATTCAGCTCAAGGGCATATCAAATTTACAG
*
60595 CATAGCTCAAGGCAAAAAGGGCTATCTGCCAACAAAAAACCTTCGAGTTCGATTCCATTCAGCTC
1 CATAGCTCAAGGCAAAAAGGGCTATATGCCAAC-AAAAACCTTCGAGTTCGATTCCATTCAGCTC
* * * * * *
60660 AAGGGCATACAAGTTT-TAGCATAGGTCAAGGCGAGAAGGGCTATCTGTAAACAAAAACCTTCGA
65 AAAGGCAGACAAATTTACAACATAGCTCAA-GCGAGAAGGGCTATCTGTAAACAAAAACCTTCGA
* * *
60724 GTTCAATTCTATTTAGCTCAAGGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAATG-GTTA
129 GTTCAATTCCATTCAGCTCAAGGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAA-GAGCTA
*
60788 TCTGTAAAACAAAAACCTTCGAGTTCGATCCTATTCAGCTCAA
193 TCTGTAAAACAAAAACCTTCGAGTTAGATCCTATTCAGCTCAA
60831 TGAAAATGAG
Statistics
Matches: 206, Mismatches: 25, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
253 38 0.18
254 137 0.67
255 31 0.15
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (254 bp):
CATAGCTCAAGGCAAAAAGGGCTATATGCCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCA
AAGGCAGACAAATTTACAACATAGCTCAAGCGAGAAGGGCTATCTGTAAACAAAAACCTTCGAGT
TCAATTCCATTCAGCTCAAGGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGAGCTATCT
GTAAAACAAAAACCTTCGAGTTAGATCCTATTCAGCTCAAGGGCATATCAAATTTACAG
Found at i:61936 original size:22 final size:22
Alignment explanation
Indices: 61895--61961 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
61885 CTCGTATAAA
61895 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
61918 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
61940 TGCACCGTAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
61962 GATGTCCATA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 31 0.72
23 12 0.28
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:63675 original size:21 final size:21
Alignment explanation
Indices: 63651--63695 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
63641 TCTTGTTCGT
* *
63651 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
63672 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
63693 TTG
1 TTG
63696 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:67052 original size:36 final size:36
Alignment explanation
Indices: 66974--67133 Score: 180
Period size: 36 Copynumber: 4.3 Consensus size: 36
66964 ATTTTTGAAA
* *
66974 ATATAATATATAGTTTTTGAAAACATTTTTGGAAAAAAT
1 ATATATTATATAG-TTTTGAAAACA-TTTT-GAAAATAT
*
67013 ATATATTATATAGTTTTGAAAACATTTCGAAAATAT
1 ATATATTATATAGTTTTGAAAACATTTTGAAAATAT
* *
67049 ATATATCATATGGTTTTGAAAACATTTTG-AAATAT
1 ATATATTATATAGTTTTGAAAACATTTTGAAAATAT
* * *
67084 ATATGA-TATATAATTTTTGAAAACATTTTTAGAATAT
1 ATAT-ATTATAT-AGTTTTGAAAACATTTTGAAAATAT
67121 ATATATATATATA
1 ATATAT-TATATA
67134 TATATATATA
Statistics
Matches: 105, Mismatches: 11, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
35 14 0.13
36 50 0.48
37 13 0.12
38 16 0.15
39 12 0.11
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (36 bp):
ATATATTATATAGTTTTGAAAACATTTTGAAAATAT
Found at i:67124 original size:2 final size:2
Alignment explanation
Indices: 67117--67150 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
67107 CATTTTTAGA
67117 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
67151 GTTTTGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:67142 original size:55 final size:53
Alignment explanation
Indices: 67080--67185 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 53
67070 ACATTTTGAA
* * *
67080 ATATATATGATA-TATA-ATTTTTGAAAACATTTTTAGAATATATATATATATAT
1 ATATATAT-ATATTATATAGTTTTGAAAACATTTTGAAAATATATATA-ATATAT
*
67133 ATATATATATATTATATAGTTTTGAAAACATTTTGAAAATGTATATAATATAT
1 ATATATATATATTATATAGTTTTGAAAACATTTTGAAAATATATATAATATAT
67186 GGTTTTGAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
52 3 0.06
53 18 0.38
54 26 0.55
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.46
Consensus pattern (53 bp):
ATATATATATATTATATAGTTTTGAAAACATTTTGAAAATATATATAATATAT
Found at i:67144 original size:90 final size:89
Alignment explanation
Indices: 67045--67224 Score: 236
Period size: 90 Copynumber: 2.0 Consensus size: 89
67035 CATTTCGAAA
* * *
67045 ATATATATATCATATGGTTTTGAAAACATTTTG-AAATATATATGATATATAATTTTTGAAAACA
1 ATATATATATCATATAGTTTTGAAAACATTTTGAAAATATATATAATATAT-AGTTTTGAAAACA
* * * *
67109 TTTTTAGAATATATATATATATATAT
65 TTTTGAAAACAAATATATA-ATATAT
* * * *
67135 ATATATATATTATATAGTTTTGAAAACATTTTGAAAATGTATATAATATATGGTTTTGAAAGCAT
1 ATATATATATCATATAGTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTGAAAACAT
67200 TTTGAAAACAAATATATAATATAT
66 TTTGAAAACAAATATATAATATAT
67224 A
1 A
67225 GTTTTTGAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
89 7 0.09
90 56 0.72
91 15 0.19
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.43
Consensus pattern (89 bp):
ATATATATATCATATAGTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTGAAAACAT
TTTGAAAACAAATATATAATATAT
Found at i:67155 original size:126 final size:128
Alignment explanation
Indices: 67011--67240 Score: 367
Period size: 126 Copynumber: 1.8 Consensus size: 128
67001 TTTGGAAAAA
67011 ATATATATTATATAGTTTTGAAAACATTTCGAAAATATATAT-ATCATATGGTTTTGAAAACATT
1 ATATATATTATATAGTTTTGAAAACATTTCGAAAATATATATAAT-ATATGGTTTTGAAAACATT
* *
67075 TTG-AA-ATATATATGATATATAATTTTTGAAAACATTTTTAGAATATATATATATATATATAT
65 TTGAAACAAATATATAATATATAATTTTTGAAAACATTTTTAGAATATATATATATATATATAT
* * *
67137 ATATATATTATATAGTTTTGAAAACATTTTGAAAATGTATATAATATATGGTTTTGAAAGCATTT
1 ATATATATTATATAGTTTTGAAAACATTTCGAAAATATATATAATATATGGTTTTGAAAACATTT
*
67202 TGAAAACAAATATATAATATATAGTTTTTGAAAACATTT
66 TG-AAACAAATATATAATATATAATTTTTGAAAACATTT
67241 CGAAACACGT
Statistics
Matches: 94, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
126 61 0.65
127 2 0.02
128 2 0.02
129 29 0.31
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (128 bp):
ATATATATTATATAGTTTTGAAAACATTTCGAAAATATATATAATATATGGTTTTGAAAACATTT
TGAAACAAATATATAATATATAATTTTTGAAAACATTTTTAGAATATATATATATATATATAT
Found at i:67247 original size:38 final size:37
Alignment explanation
Indices: 67137--67247 Score: 143
Period size: 36 Copynumber: 3.0 Consensus size: 37
67127 ATATATATAT
* *
67137 ATATATATTATATAGTTTTGAAAACATTTTGAAA-AT
1 ATATATAATATATAGTTTTGAAAACATTTTGAAACAA
* * *
67173 GTATATAATATATGGTTTTGAAAGCATTTTGAAAACAA
1 ATATATAATATATAGTTTTGAAAACATTTTG-AAACAA
*
67211 ATATATAATATATAGTTTTTGAAAACATTTCGAAACA
1 ATATATAATATATAG-TTTTGAAAACATTTTGAAACA
67248 CGTTTTTAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
36 27 0.43
37 3 0.05
38 19 0.30
39 14 0.22
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.40
Consensus pattern (37 bp):
ATATATAATATATAGTTTTGAAAACATTTTGAAACAA
Found at i:68565 original size:14 final size:14
Alignment explanation
Indices: 68546--68573 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
68536 TTTTCATTAA
68546 TTTTTATTTTATTT
1 TTTTTATTTTATTT
68560 TTTTTATTTTATTT
1 TTTTTATTTTATTT
68574 CTTTCGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTATTTTATTT
Found at i:68647 original size:5 final size:5
Alignment explanation
Indices: 68637--68663 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
68627 TTTATGCTTC
68637 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
68664 CCTCTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:73002 original size:18 final size:18
Alignment explanation
Indices: 72979--73017 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
72969 TAAAAAAGAG
72979 TTGAATTTAAACT-TATAT
1 TTGAATTTAAA-TATATAT
72997 TTGAATTTAAATATATAT
1 TTGAATTTAAATATATAT
73015 TTG
1 TTG
73018 TAATAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (18 bp):
TTGAATTTAAATATATAT
Found at i:73585 original size:2 final size:2
Alignment explanation
Indices: 73580--73617 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
73570 GCATATATTC
73580 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
73618 TATCATTATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73808 original size:23 final size:23
Alignment explanation
Indices: 73779--73886 Score: 74
Period size: 23 Copynumber: 4.7 Consensus size: 23
73769 CATCAAAGTG
* *
73779 CAACATAGAAATGTCTCGATGGA
1 CAACATAGAAATGTCCCGAAGGA
* * *
73802 CCACATAGTATTGTCCCGAAGGA
1 CAACATAGAAATGTCCCGAAGGA
* * *
73825 CAACGTAGAAATATCCCAAAGGA
1 CAACATAGAAATGTCCCGAAGGA
* * * * *
73848 CAGCGTAGAAATATCCTGAATGA
1 CAACATAGAAATGTCCCGAAGGA
*
73871 CCACATA-AAATTGTCC
1 CAACATAGAAA-TGTCC
73887 AGAAAGATCG
Statistics
Matches: 65, Mismatches: 19, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
22 3 0.05
23 62 0.95
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (23 bp):
CAACATAGAAATGTCCCGAAGGA
Found at i:74098 original size:45 final size:45
Alignment explanation
Indices: 74019--74146 Score: 141
Period size: 45 Copynumber: 2.8 Consensus size: 45
74009 ATCACATATA
* * * * *
74019 CATATAATCACATAGGTTC-TTATCACGTACCTTATATCACATTTT
1 CATATAATCACATAGG-TCAATAACACATAACTTATATCACATTCT
* * *
74064 CATATAATCGCTTAGGTCAATAACACATAACTTATATCATATTCT
1 CATATAATCACATAGGTCAATAACACATAACTTATATCACATTCT
* * *
74109 CATGTAATCACATAGGTCAATATCACATATCTTATATC
1 CATATAATCACATAGGTCAATAACACATAACTTATATC
74147 TTGTTCACAT
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
44 2 0.03
45 67 0.97
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.37
Consensus pattern (45 bp):
CATATAATCACATAGGTCAATAACACATAACTTATATCACATTCT
Found at i:77273 original size:57 final size:57
Alignment explanation
Indices: 77181--77298 Score: 227
Period size: 57 Copynumber: 2.1 Consensus size: 57
77171 CCAATTAATG
77181 TGCACGTTGACAGGTCTAAAAGTAGATATGAACTAAGTGATTAGCATATGCATGGTA
1 TGCACGTTGACAGGTCTAAAAGTAGATATGAACTAAGTGATTAGCATATGCATGGTA
*
77238 TGCACGTTGACAGGTCTAAAAGTAGATATGCACTAAGTGATTAGCATATGCATGGTA
1 TGCACGTTGACAGGTCTAAAAGTAGATATGAACTAAGTGATTAGCATATGCATGGTA
77295 TGCA
1 TGCA
77299 TGATGACACG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (57 bp):
TGCACGTTGACAGGTCTAAAAGTAGATATGAACTAAGTGATTAGCATATGCATGGTA
Found at i:77468 original size:23 final size:23
Alignment explanation
Indices: 77442--77489 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
77432 ATAAAGTACA
*
77442 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
77465 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
77488 AT
1 AT
77490 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:77929 original size:21 final size:23
Alignment explanation
Indices: 77865--77935 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
77855 ACACTTTACA
* *
77865 ATATAACCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
*
77888 ATATAAACGATACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
77911 ATAT-AAGGCTACCTA-TACATC
1 ATATAAACGCTACCTATTACATT
77932 ATAT
1 ATAT
77936 GTTTACCTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.21
22 9 0.21
23 24 0.57
ACGTcount: A:0.41, C:0.21, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:78390 original size:39 final size:39
Alignment explanation
Indices: 78336--78422 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
78326 TCAAGTTGTA
* *
78336 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATACGAGATTTG
*
78375 GATTTTGATTTCCTTTTGCTTGGCACCATACGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATACGAGATTTG
78414 GATTTTGAT
1 GATTTTGAT
78423 GAGCATCGGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.17, C:0.15, G:0.21, T:0.47
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATACGAGATTTG
Found at i:78700 original size:18 final size:18
Alignment explanation
Indices: 78677--78713 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
78667 GCGGAAATAT
78677 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
78695 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
78713 A
1 A
78714 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:79042 original size:25 final size:25
Alignment explanation
Indices: 79008--79058 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
78998 TTTTTCCAAA
*
79008 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
79033 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
79058 T
1 T
79059 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:79358 original size:23 final size:23
Alignment explanation
Indices: 79332--79394 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
79322 ATATAACCAC
79332 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
79355 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
79378 TACCTATTACATCATAT
1 TACCTATTACATTATAT
79395 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:82127 original size:55 final size:55
Alignment explanation
Indices: 82055--82354 Score: 322
Period size: 55 Copynumber: 5.4 Consensus size: 55
82045 TCTTCAAATG
*
82055 ACGGGCCTGCTCCCTATTCCTTCAAGAAGTATA-AGACTCGAACAATCTTCATAAA
1 ACGGGTCTGCTCCCTATTCCTTCAAGAAGTATAGA-ACTCGAACAATCTTCATAAA
* * * *
82110 ACGTGTCTGCTCTCTATTCATTC-AGAGAGTATAGAACTCGAACAATCTTCATAAC
1 ACGGGTCTGCTCCCTATTCCTTCAAGA-AGTATAGAACTCGAACAATCTTCATAAA
* * * * *
82165 ACGGGTCCGCCCCCTATTCGTTCAGGGAGTATAGAACTCGAACAATCTTCATAAA
1 ACGGGTCTGCTCCCTATTCCTTCAAGAAGTATAGAACTCGAACAATCTTCATAAA
* * * * *
82220 ACGGGTCCGCTCCCTATTCGTTCAGGGAGTATAGAACTCGAACAATCTTCAACAAA
1 ACGGGTCTGCTCCCTATTCCTTCAAGAAGTATAGAACTCGAACAATCTTC-ATAAA
* * *
82276 ACAGGT-TCGCTCTCTATTCCTTC-AGAGAGTATAGAACTCGAAAAATCTTCA-ATAA
1 ACGGGTCT-GCTCCCTATTCCTTCAAGA-AGTATAGAACTCGAACAATCTTCATA-AA
* * *
82331 ACAGGTCCGCTCCCTATTCTTTCA
1 ACGGGTCTGCTCCCTATTCCTTCA
82355 GAGAGTACAG
Statistics
Matches: 211, Mismatches: 25, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
54 4 0.02
55 161 0.76
56 46 0.22
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (55 bp):
ACGGGTCTGCTCCCTATTCCTTCAAGAAGTATAGAACTCGAACAATCTTCATAAA
Found at i:82237 original size:110 final size:111
Alignment explanation
Indices: 82066--82669 Score: 417
Period size: 99 Copynumber: 5.7 Consensus size: 111
82056 CGGGCCTGCT
* * * * *
82066 CCCTATTCCTTCAAGAAGTATA-AGACTCGAACAATCTTCATAAAACGTGTCTGCTCTCTATTCA
1 CCCTATTCCTTCAGGGAGTATAGA-ACTCGAACAATCTTCATAAAACGGGTCCGCTCCCTATTCA
* * *
82130 TTCAGAGAGTATAGAACTCGAACAATCTTC-ATAACACGGGTCCGCC
65 TTCAGAGAGTATAGAACTCGAACAATCTTCAACAAAACAGGTCCGCC
* *
82176 CCCTATTCGTTCAGGGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCTCCCTATTCGT
1 CCCTATTCCTTCAGGGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCTCCCTATTCAT
* * *
82241 TCAGGGAGTATAGAACTCGAACAATCTTCAACAAAACAGGTTCGCT
66 TCAGAGAGTATAGAACTCGAACAATCTTCAACAAAACAGGTCCGCC
* * * * *
82287 CTCTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCA-ATAAACAGGTCCGCTCCCTATTCT
1 CCCTATTCCTTCAGGGAGTATAGAACTCGAACAATCTTCATA-AAACGGGTCCGCTCCCTATTCA
* * * * *
82351 TTCAGAGAGTACAGGACTC-AA-TAT-TT-AAC-AAAC--GTTCGCT
65 TTCAGAGAGTATAGAACTCGAACAATCTTCAACAAAACAGGTCCGCC
**
82391 CCCTA-TCCGTTCAGGGAG--TAGAACT----CAATCTTCA-ACAAACTTGTCCGCTCTCCTATT
1 CCCTATTCC-TTCAGGGAGTATAGAACTCGAACAATCTTCATA-AAACGGGTCCGCTC-CCTATT
* * * ** *
82448 CTTTCAGAGAGTATAGGACT----CAATCTTCAAC-GAACTTGTCCGCT
63 CATTCAGAGAGTATAGAACTCGAACAATCTTCAACAAAACAGGTCCGCC
* * * **
82492 CCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCA-ACGAACTTGT-C-CT-CCTATTCA
1 CCCTATTCCTTCAGGGAGTATAGAACTCGAACAATCTTCATA-AAACGGGTCCGCTCCCTATTCA
* ** ** *
82549 TTCAGAGAGTATAGGACT----CAATCTTCAA-GGAACTTGTCCGCT
65 TTCAGAGAGTATAGAACTCGAACAATCTTCAACAAAACAGGTCCGCC
* * * * **
82591 CCCTATTCATTCAGAGAGTATAGGACT----CAATCTTCA-AGGAACTTGTCCGCTCCCTATTCA
1 CCCTATTCCTTCAGGGAGTATAGAACTCGAACAATCTTCATA-AAACGGGTCCGCTCCCTATTCA
*
82651 TTCAGAGAGTATAGGACTC
65 TTCAGAGAGTATAGAACTC
82670 AATCTTCAAT
Statistics
Matches: 437, Mismatches: 39, Indels: 43
0.84 0.08 0.08
Matches are distributed among these distances:
97 2 0.00
98 23 0.05
99 123 0.28
100 1 0.00
101 23 0.05
102 37 0.08
103 27 0.06
104 19 0.04
106 4 0.01
107 3 0.01
108 2 0.00
109 2 0.00
110 87 0.20
111 84 0.19
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (111 bp):
CCCTATTCCTTCAGGGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCTCCCTATTCAT
TCAGAGAGTATAGAACTCGAACAATCTTCAACAAAACAGGTCCGCC
Found at i:82325 original size:166 final size:160
Alignment explanation
Indices: 82055--82671 Score: 439
Period size: 150 Copynumber: 3.9 Consensus size: 160
82045 TCTTCAAATG
* * * *
82055 ACGGG-CCTGCTCCCTATTCCTTCAAGAAGTATA-AGACTCGAACAATCTTC-ATAAAACGTGTC
1 ACGGGTCC-GCTCCCTATTCGTTCAGGGAGTATAGA-ACTCGAACAATCTTCAACAAAACGT-TC
* *
82117 TGCTCTCTATTCATTCAGAGAGTATAGAACTCGAACAATCTTC-ATAACACGGGTCCGCCCCCTA
63 -GCTCTCTATTCATTCAGAGAGTATAGAACTCGAAAAATCTTCAATAA-ACAGGTCCGCCCCCTA
* *
82181 TTCGTTCAGGGAGTATAGAACTCGAACAATCTTCATA-AA
126 TTCGTTCAGAGAGTACAGAACTC-AA-AAT-TT-A-ACAA
82220 ACGGGTCCGCTCCCTATTCGTTCAGGGAGTATAGAACTCGAACAATCTTCAACAAAACAGGTTCG
1 ACGGGTCCGCTCCCTATTCGTTCAGGGAGTATAGAACTCGAACAATCTTCAACAAAAC--GTTCG
* *
82285 CTCTCTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCAATAAACAGGTCCGCTCCCTATTC
64 CTCTCTATTCATTCAGAGAGTATAGAACTCGAAAAATCTTCAATAAACAGGTCCGCCCCCTATTC
* * *
82350 TTTCAGAGAGTACAGGACTCAATATTTAACAA
129 GTTCAGAGAGTACAGAACTCAAAATTTAACAA
* * *
82382 AC--GTTCGCTCCCTATCCGTTCAGGGAG--TAGAACT----CAATCTTCAAC-AAACTTGTCCG
1 ACGGGTCCGCTCCCTATTCGTTCAGGGAGTATAGAACTCGAACAATCTTCAACAAAAC--GTTCG
* * ** ** *
82438 CTCTCCTATTCTTTCAGAGAGTATAGGACTC----AATCTTCAACGAACTTGTCCGCTCCCTATT
64 CTCT-CTATTCATTCAGAGAGTATAGAACTCGAAAAATCTTCAATAAACAGGTCCGCCCCCTATT
* * * ** * *
82499 CCTTCAGAGAGTATAGGACTCAATCTTCAACGA
128 CGTTCAGAGAGTACAGAACTCAAAATTTAACAA
** * * * ** *
82532 ACTTGT-C-CT-CCTATTCATTCAGAGAGTATAGGACT----CAATCTTCAA-GGAACTTGTCCG
1 ACGGGTCCGCTCCCTATTCGTTCAGGGAGTATAGAACTCGAACAATCTTCAACAAAAC--GTTCG
* * ** ** *
82589 CTCCCTATTCATTCAGAGAGTATAGGACTC----AATCTTCAAGGAACTTGTCCGCTCCCTATTC
64 CTCTCTATTCATTCAGAGAGTATAGAACTCGAAAAATCTTCAATAAACAGGTCCGCCCCCTATTC
* * *
82650 ATTCAGAGAGTATAGGACTCAA
129 GTTCAGAGAGTACAGAACTCAA
82672 TCTTCAATAA
Statistics
Matches: 401, Mismatches: 38, Indels: 41
0.84 0.08 0.09
Matches are distributed among these distances:
149 14 0.03
150 134 0.33
151 30 0.07
152 2 0.00
153 12 0.03
154 35 0.09
158 7 0.02
160 23 0.06
161 1 0.00
162 5 0.01
163 2 0.00
164 2 0.00
165 44 0.11
166 82 0.20
167 6 0.01
168 2 0.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (160 bp):
ACGGGTCCGCTCCCTATTCGTTCAGGGAGTATAGAACTCGAACAATCTTCAACAAAACGTTCGCT
CTCTATTCATTCAGAGAGTATAGAACTCGAAAAATCTTCAATAAACAGGTCCGCCCCCTATTCGT
TCAGAGAGTACAGAACTCAAAATTTAACAA
Found at i:82356 original size:55 final size:51
Alignment explanation
Indices: 82097--82683 Score: 485
Period size: 51 Copynumber: 11.3 Consensus size: 51
82087 AAGACTCGAA
* *
82097 CAATCTTC-ATAAAAC-GTGTCTGCTCTCTATTCATTCAGAGAGTATAGAACT
1 CAATCTTCAAT-AAACTG-GTCCGCTCCCTATTCATTCAGAGAGTATAGAACT
* * * *
82148 CGAACAATCTTC-ATAACACGGGTCCGCCCCCTATTCGTTCAGGGAGTATAGAACT
1 ----CAATCTTCAATAA-ACTGGTCCGCTCCCTATTCATTCAGAGAGTATAGAACT
* * *
82203 CGAACAATCTTC-ATAAAACGGGTCCGCTCCCTATTCGTTCAGGGAGTATAGAACT
1 ----CAATCTTCAAT-AAACTGGTCCGCTCCCTATTCATTCAGAGAGTATAGAACT
* * * * *
82258 CGAACAATCTTCAACAAAACAGGTTCGCTCTCTATTCCTTCAGAGAGTATAGAACT
1 ----CAATCTTCAA-TAAACTGGTCCGCTCCCTATTCATTCAGAGAGTATAGAACT
* * * *
82314 CGAAAAATCTTCAATAAACAGGTCCGCTCCCTATTCTTTCAGAGAGTACAGGACT
1 C----AATCTTCAATAAACTGGTCCGCTCCCTATTCATTCAGAGAGTATAGAACT
* * * * * * *
82369 CAATATTTAACAAAC--GTTCGCTCCCTATCCGTTCAGGGAG--TAGAACT
1 CAATCTTCAATAAACTGGTCCGCTCCCTATTCATTCAGAGAGTATAGAACT
* * * *
82416 CAATCTTCAACAAACTTGTCCGCTCTCCTATTCTTTCAGAGAGTATAGGACT
1 CAATCTTCAATAAACTGGTCCGCTC-CCTATTCATTCAGAGAGTATAGAACT
** * * *
82468 CAATCTTCAACGAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT
1 CAATCTTCAATAAACTGGTCCGCTCCCTATTCATTCAGAGAGTATAGAACT
** * *
82519 CAATCTTCAACGAACTTGT-C-CT-CCTATTCATTCAGAGAGTATAGGACT
1 CAATCTTCAATAAACTGGTCCGCTCCCTATTCATTCAGAGAGTATAGAACT
** * *
82567 CAATCTTCAAGGAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
1 CAATCTTCAATAAACTGGTCCGCTCCCTATTCATTCAGAGAGTATAGAACT
** * *
82618 CAATCTTCAAGGAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
1 CAATCTTCAATAAACTGGTCCGCTCCCTATTCATTCAGAGAGTATAGAACT
82669 CAATCTTCAATAAAC
1 CAATCTTCAATAAAC
82684 GAATTTACTT
Statistics
Matches: 475, Mismatches: 40, Indels: 38
0.86 0.07 0.07
Matches are distributed among these distances:
47 18 0.04
48 43 0.09
49 31 0.07
50 17 0.04
51 145 0.31
52 31 0.07
54 2 0.00
55 140 0.29
56 48 0.10
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (51 bp):
CAATCTTCAATAAACTGGTCCGCTCCCTATTCATTCAGAGAGTATAGAACT
Found at i:82459 original size:99 final size:99
Alignment explanation
Indices: 82207--82678 Score: 470
Period size: 99 Copynumber: 4.6 Consensus size: 99
82197 AGAACTCGAA
** * * *
82207 CAATCTTCATA-AAACGGGTCCGCTCCCTATTCGTTCAGGGAGTATAGAACTCGAACAATCTTCA
1 CAATCTTCA-ACAAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT----CAATCTTCA
* * * * *
82271 ACAAAACAGGTTCGCTCTCTATTCCTTCAGAGAGTATAGAACT
61 AC-GAAC-TGTCCGCTCCCTA-TCCTTCAGAGAG-ATAGGACT
* ** * * * *
82314 CGAAAAATCTTCAATAAACAGGTCCGCTCCCTATTCTTTCAGAGAGTACAGGACTCAATATTTAA
1 C----AATCTTCAACAAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAA
* * * *
82379 CAAAC-GTTCGCTCCCTATCCGTTCAGGGAG-TAGAACT
62 CGAACTGTCCGCTCCCTATCC-TTCAGAGAGATAGGACT
*
82416 CAATCTTCAACAAACTTGTCCGCTCTCCTATTCTTTCAGAGAGTATAGGACTCAATCTTCAACGA
1 CAATCTTCAACAAACTTGTCCGCTC-CCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGA
82481 ACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT
65 AC-TGTCCGCTCCCTA-TCCTTCAGAGAG-ATAGGACT
* *
82519 CAATCTTCAACGAACTTGT-C-CT-CCTATTCATTCAGAGAGTATAGGACTCAATCTTCAAGGAA
1 CAATCTTCAACAAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAA
*
82581 CTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
66 C-TGTCCGCTCCCTA-TCCTTCAGAGAG-ATAGGACT
**
82618 CAATCTTCAAGGAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAA
1 CAATCTTCAACAAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAA
82679 TAAACGAATT
Statistics
Matches: 326, Mismatches: 24, Indels: 35
0.85 0.06 0.09
Matches are distributed among these distances:
98 21 0.06
99 129 0.40
100 1 0.00
101 23 0.07
102 48 0.15
103 27 0.08
104 19 0.06
106 4 0.01
107 10 0.03
110 1 0.00
111 43 0.13
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (99 bp):
CAATCTTCAACAAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAA
CTGTCCGCTCCCTATCCTTCAGAGAGATAGGACT
Found at i:82518 original size:51 final size:51
Alignment explanation
Indices: 82097--82683 Score: 528
Period size: 55 Copynumber: 11.3 Consensus size: 51
82087 AAGACTCGAA
* * * *
82097 CAATCTTCATA-AAACGTGTCTGCTCTCTATTCATTCAGAGAGTATAGAACT
1 CAATCTTCA-ACAAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
* ** * * * *
82148 CGAACAATCTTCATA-ACACGGGTCCGCCCCCTATTCGTTCAGGGAGTATAGAACT
1 ----CAATCTTCA-ACAAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
** * * *
82203 CGAACAATCTTCATA-AAACGGGTCCGCTCCCTATTCGTTCAGGGAGTATAGAACT
1 ----CAATCTTCA-ACAAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
** * * * *
82258 CGAACAATCTTCAACAAAACAGGTTCGCTCTCTATTCCTTCAGAGAGTATAGAACT
1 ----CAATCTTCAAC-AAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
* ** * *
82314 CGAAAAATCTTCAATAAACAGGTCCGCTCCCTATTCTTTCAGAGAGTACAGGACT
1 C----AATCTTCAACAAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
* * * * * * *
82369 CAATATTTAACAAAC--GTTCGCTCCCTATCCGTTCAGGGAG--TAGAACT
1 CAATCTTCAACAAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
*
82416 CAATCTTCAACAAACTTGTCCGCTCTCCTATTCTTTCAGAGAGTATAGGACT
1 CAATCTTCAACAAACTTGTCCGCTC-CCTATTCATTCAGAGAGTATAGGACT
* *
82468 CAATCTTCAACGAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT
1 CAATCTTCAACAAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
*
82519 CAATCTTCAACGAACTTGT-C-CT-CCTATTCATTCAGAGAGTATAGGACT
1 CAATCTTCAACAAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
**
82567 CAATCTTCAAGGAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
1 CAATCTTCAACAAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
**
82618 CAATCTTCAAGGAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
1 CAATCTTCAACAAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
*
82669 CAATCTTCAATAAAC
1 CAATCTTCAACAAAC
82684 GAATTTACTT
Statistics
Matches: 476, Mismatches: 42, Indels: 32
0.87 0.08 0.06
Matches are distributed among these distances:
47 18 0.04
48 43 0.09
49 31 0.07
50 17 0.04
51 145 0.30
52 31 0.07
54 1 0.00
55 146 0.31
56 44 0.09
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (51 bp):
CAATCTTCAACAAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
Found at i:82596 original size:150 final size:149
Alignment explanation
Indices: 82262--82684 Score: 517
Period size: 150 Copynumber: 2.8 Consensus size: 149
82252 AGAACTCGAA
** * * * *
82262 CAATCTTCAACAAAACAGGTTCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCA
1 CAATCTTCAAC-AAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTC----AATCTTCA
** ** * * * *
82327 ATAAACAGGTCCGCTCCCTATTCTTTCAGAGAGTACAGGACTCAATATTTAACAAACGTTCGCTC
61 ACGAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACAAACGTTCGCTC
* *
82392 CCTATCCGTTCAGGGAGTAGAACT
126 CCTATCCATTCAGAGAGTAGAACT
*
82416 CAATCTTCAACAAACTTGTCCGCTCTCCTATTCTTTCAGAGAGTATAGGACTCAATCTTCAACGA
1 CAATCTTCAACAAACTTGTCCGCTC-CCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGA
* * *
82481 ACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTC-CT-CCT
65 ACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACAAACGT-TCGCTCCCT
* *
82544 ATTCATTCAGAGAGTATAGGACT
129 ATCCATTCAGAGAG--TAGAACT
** *
82567 CAATCTTCAAGGAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAAGGAA
1 CAATCTTCAACAAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAA
*
82632 CTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAATAAACG
66 CTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACAAACG
82685 AATTTACTTC
Statistics
Matches: 237, Mismatches: 28, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
149 14 0.06
150 146 0.62
151 31 0.13
153 11 0.05
154 35 0.15
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (149 bp):
CAATCTTCAACAAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAA
CTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACAAACGTTCGCTCCCTAT
CCATTCAGAGAGTAGAACT
Found at i:84021 original size:14 final size:14
Alignment explanation
Indices: 83991--84036 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 14
83981 CCTCCTTTTA
83991 TTTCTCTTTTTCCATT
1 TTTCTCTTTTT--ATT
84007 TTTCTCTTTTTATT
1 TTTCTCTTTTTATT
*
84021 TTTCT-TTTTCATT
1 TTTCTCTTTTTATT
84034 TTT
1 TTT
84037 ATTTTTTCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 10 0.34
14 8 0.28
16 11 0.38
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTCTCTTTTTATT
Found at i:84067 original size:25 final size:25
Alignment explanation
Indices: 84038--84094 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
84028 TTCATTTTTA
84038 TTTTTTCTTCCCTTTTCCCTTTTCCC
1 TTTTTTCTT-CCTTTTCCCTTTTCCC
* * *
84064 TTTTTTCTTCTTTTTTCCTTTT-CG
1 TTTTTTCTTCCTTTTCCCTTTTCCC
84088 TTTTTTC
1 TTTTTTC
84095 CATCATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 8 0.29
25 11 0.39
26 9 0.32
ACGTcount: A:0.00, C:0.28, G:0.02, T:0.70
Consensus pattern (25 bp):
TTTTTTCTTCCTTTTCCCTTTTCCC
Done.