Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006367.1 Hibiscus syriacus cultivar Beakdansim tig00015304_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: 95973
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:5955 original size:250 final size:252
Alignment explanation
Indices: 5675--6156 Score: 781
Period size: 255 Copynumber: 1.9 Consensus size: 252
5665 TGGTCGGGTC
*
5675 GGGTCGAGTTCGGGTTTAAGGTGAAAAATACCCAACCCG-AAAATATATATAATTTTACCTTATA
1 GGGTCGAGTTCGGGTTTAAGGTGAAAAATACCCAACCCGAAAAAAATATATAATTTTACCTTATA
* * *
5739 TATTTAGGAATAATTACAATAATAC-CC-CTATATATATATATTTTTTTCAATTAAGTCACTGTT
66 TATTTAGGAATAATTACAATAATACACCTCTATATATATATA-TATTTCCAATTAAGTCACTATT
*
5802 TTTATTGAATAAAAATAATTTTTTTATTATTTCAGGTCGGATTTCTAATTCATATATTCGGGTCG
130 TTTATTGAATAAAAATAATTTTTTTATTATTTCAGGTCGGATATCTAATTCATATATTCGGGTCG
5867 GGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGTTTTTTTTAAGTGTGATATTT
195 GGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGTTTTTTTTAAGTGTGATATTT
* * * *
5925 GGGTCGGGTTCGGGTTTAGGGTGAAAAATACCCGACCCGACCAAAAAAATATATAATTTTACGTT
1 GGGTCGAGTTCGGGTTTAAGGTGAAAAATACCCAACCCG---AAAAAAATATATAATTTTACCTT
* *
5990 ATATATTTAGGAATAATTACAATAATACACCTCTCTCTATATATATATTTCCAATTAAGTCACTA
63 ATATATTTAGGAATAATTACAATAATACACCTCTATATATATATATATTTCCAATTAAGTCACTA
** *
6055 TTTTTATTGAATAAAAATAATTTTTTTATTATTTTGGGTCGGGTATCTAATTCATATATTCGGGT
128 TTTTTATTGAATAAAAATAATTTTTTTATTATTTCAGGTCGGATATCTAATTCATATATTCGGGT
6120 CGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTC
193 CGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTC
6157 TCGGATGGAG
Statistics
Matches: 212, Mismatches: 14, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
250 36 0.17
254 48 0.23
255 117 0.55
256 11 0.05
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (252 bp):
GGGTCGAGTTCGGGTTTAAGGTGAAAAATACCCAACCCGAAAAAAATATATAATTTTACCTTATA
TATTTAGGAATAATTACAATAATACACCTCTATATATATATATATTTCCAATTAAGTCACTATTT
TTATTGAATAAAAATAATTTTTTTATTATTTCAGGTCGGATATCTAATTCATATATTCGGGTCGG
GTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGTTTTTTTTAAGTGTGATATTT
Found at i:6582 original size:61 final size:62
Alignment explanation
Indices: 6478--6611 Score: 225
Period size: 61 Copynumber: 2.2 Consensus size: 62
6468 TATGGAATTG
* * *
6478 GATTTCAATTCAATTTCCTGCCAACCAAACAGAATATGGAATTGGATTCTAATTCC-TGACA
1 GATTTCAATTCAATTTCCTGCCAACCAAACAGAATATGAAATTGGATTCCAATTCCTTCACA
*
6539 GATTCCAATTCAATTTCCTGCCAACCAAACAGAATATGAAATTGGATTCCAATTCCTTCACA
1 GATTTCAATTCAATTTCCTGCCAACCAAACAGAATATGAAATTGGATTCCAATTCCTTCACA
6601 GATTTCAATTC
1 GATTTCAATTC
6612 CCTCAGAAAC
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
61 53 0.79
62 14 0.21
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.31
Consensus pattern (62 bp):
GATTTCAATTCAATTTCCTGCCAACCAAACAGAATATGAAATTGGATTCCAATTCCTTCACA
Found at i:7163 original size:2 final size:2
Alignment explanation
Indices: 7147--7217 Score: 126
Period size: 2 Copynumber: 35.5 Consensus size: 2
7137 GCATATTAGC
7147 TA TA TGA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7189 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7218 GCATATGTTA
Statistics
Matches: 67, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.01
2 64 0.96
3 2 0.03
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:8489 original size:21 final size:18
Alignment explanation
Indices: 8393--8492 Score: 55
Period size: 21 Copynumber: 5.4 Consensus size: 18
8383 CTAGAAATTA
8393 TATATATTTTT-AAAAAC
1 TATATATTTTTAAAAAAC
**
8410 TATA-GGTTTT-AAAAAC
1 TATATATTTTTAAAAAAC
* *
8426 TATATATTATATACACTATAA-
1 TATATATT-TTTA-A--AAAAC
*
8447 TACATATTTTTAAAAAAC
1 TATATATTTTTAAAAAAC
*
8465 TATATATGTTTTCAAAAATAT
1 TATATAT-TTTT-AAAAA-AC
8486 TATATAT
1 TATATAT
8493 AAATATAATA
Statistics
Matches: 62, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
16 14 0.23
17 8 0.13
18 8 0.13
19 5 0.08
20 9 0.15
21 15 0.24
22 3 0.05
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (18 bp):
TATATATTTTTAAAAAAC
Found at i:11045 original size:23 final size:24
Alignment explanation
Indices: 11019--11074 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
11009 TCAGGATCAT
*
11019 AAAAAA-ATAGCAGAGAA-AAAATG
1 AAAAAAGATAGCA-AAAAGAAAATG
11042 AAAAAAGATAGCAAAAAGAAAATG
1 AAAAAAGATAGCAAAAAGAAAATG
11066 AAAACAAGA
1 AAAA-AAGA
11075 GATTAAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 9 0.31
24 16 0.55
25 4 0.14
ACGTcount: A:0.71, C:0.05, G:0.16, T:0.07
Consensus pattern (24 bp):
AAAAAAGATAGCAAAAAGAAAATG
Found at i:13521 original size:11 final size:11
Alignment explanation
Indices: 13507--13535 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
13497 TAAAACAATA
13507 TTAAAATTTCT
1 TTAAAATTTCT
13518 TTAAAATTTCT
1 TTAAAATTTCT
13529 TTAAAAT
1 TTAAAAT
13536 AATATTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (11 bp):
TTAAAATTTCT
Found at i:15775 original size:32 final size:31
Alignment explanation
Indices: 15739--15815 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
15729 CGGGGCCGTG
*
15739 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
15771 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
15802 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
15816 GTCACATTAG
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 24 0.65
32 13 0.35
ACGTcount: A:0.27, C:0.31, G:0.27, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:15798 original size:63 final size:63
Alignment explanation
Indices: 15692--15815 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
15682 CCCTAAGGGA
* * ** *
15692 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
15755 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAGA
15816 GTCACATTAG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 2 0.04
63 50 0.96
ACGTcount: A:0.26, C:0.29, G:0.28, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:16729 original size:5 final size:5
Alignment explanation
Indices: 16719--16793 Score: 69
Period size: 5 Copynumber: 13.8 Consensus size: 5
16709 AACGGTCAAC
* *
16719 GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG
1 GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG
*
16768 GGTCG GGTCAAC GGTCG GGTCG GGTC
1 GGTCG GGTC--G GGTCG GGTCG GGTC
16794 AGACCGGTCA
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
5 46 0.79
7 12 0.21
ACGTcount: A:0.08, C:0.23, G:0.51, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:16734 original size:17 final size:17
Alignment explanation
Indices: 16712--16794 Score: 81
Period size: 17 Copynumber: 5.3 Consensus size: 17
16702 AACGGTCAAC
16712 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
16729 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
* **
16746 GGTC--GGGTC--AAC-
1 GGTCAACGGTCGGGTCG
*
16758 GGTC--GGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
16773 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
16790 GGTCA
1 GGTCA
16795 GACCGGTCAA
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
12 9 0.16
13 1 0.02
14 1 0.02
15 8 0.15
17 36 0.65
ACGTcount: A:0.11, C:0.23, G:0.48, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:16739 original size:7 final size:7
Alignment explanation
Indices: 16685--16722 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
16675 GTCAAAGAAA
16685 GTCAACG
1 GTCAACG
16692 GTCAACG
1 GTCAACG
16699 GTCAACG
1 GTCAACG
16706 GTCAACG
1 GTCAACG
16713 GTCAACG
1 GTCAACG
16720 GTC
1 GTC
16723 GGGTCGGGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:16747 original size:22 final size:22
Alignment explanation
Indices: 16705--16793 Score: 151
Period size: 22 Copynumber: 4.0 Consensus size: 22
16695 AACGGTCAAC
*
16705 GGTCAACGGTCAACGGTCGGGTCG
1 GGTCAACGGTC--GGGTCGGGTCG
16729 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
16751 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
16773 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
16794 AGACCGGTCA
Statistics
Matches: 64, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
22 53 0.83
24 11 0.17
ACGTcount: A:0.11, C:0.24, G:0.47, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:16817 original size:19 final size:18
Alignment explanation
Indices: 16790--16887 Score: 115
Period size: 19 Copynumber: 5.2 Consensus size: 18
16780 GGTCGGGTCG
16790 GGTCAGACCGGTCAAACC
1 GGTCAGACCGGTCAAACC
*
16808 GGCTCGGACCGGTCAAACC
1 GG-TCAGACCGGTCAAACC
16827 GAGTCAGACCGGTCAAACC
1 G-GTCAGACCGGTCAAACC
* *
16846 GGTTCGGACCGGTTGAAACC
1 GG-TCAGACCGG-TCAAACC
*
16866 GGTCAAACCGGTCAGAACC
1 GGTCAGACCGGTCA-AACC
16885 GGT
1 GGT
16888 TGAAAACCGG
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
18 5 0.07
19 54 0.79
20 9 0.13
ACGTcount: A:0.26, C:0.31, G:0.31, T:0.13
Consensus pattern (18 bp):
GGTCAGACCGGTCAAACC
Found at i:16832 original size:10 final size:9
Alignment explanation
Indices: 16790--16887 Score: 88
Period size: 9 Copynumber: 10.3 Consensus size: 9
16780 GGTCGGGTCG
*
16790 GGTCAGACC
1 GGTCAAACC
16799 GGTCAAACC
1 GGTCAAACC
**
16808 GGCTCGGACC
1 GG-TCAAACC
16818 GGTCAAACC
1 GGTCAAACC
*
16827 GAGTCAGACC
1 G-GTCAAACC
16837 GGTCAAACC
1 GGTCAAACC
**
16846 GGTTCGGACC
1 GG-TCAAACC
*
16856 GGTTGAAACC
1 GG-TCAAACC
16866 GGTCAAACC
1 GGTCAAACC
16875 GGTCAGAACC
1 GGTCA-AACC
16885 GGT
1 GGT
16888 TGAAAACCGG
Statistics
Matches: 72, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
9 36 0.50
10 36 0.50
ACGTcount: A:0.26, C:0.31, G:0.31, T:0.13
Consensus pattern (9 bp):
GGTCAAACC
Found at i:16833 original size:38 final size:38
Alignment explanation
Indices: 16790--16886 Score: 142
Period size: 38 Copynumber: 2.5 Consensus size: 38
16780 GGTCGGGTCG
16790 GGTCAGACCGGTCAAACCGGCTCGGACCGG-TCAAACC
1 GGTCAGACCGGTCAAACCGGCTCGGACCGGTTCAAACC
* *
16827 GAGTCAGACCGGTCAAACCGGTTCGGACCGGTTGAAACC
1 G-GTCAGACCGGTCAAACCGGCTCGGACCGGTTCAAACC
*
16866 GGTCAAACCGGTCAGAACCGG
1 GGTCAGACCGGTCA-AACCGG
16887 TTGAAAACCG
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
37 1 0.02
38 40 0.74
39 13 0.24
ACGTcount: A:0.26, C:0.31, G:0.31, T:0.12
Consensus pattern (38 bp):
GGTCAGACCGGTCAAACCGGCTCGGACCGGTTCAAACC
Found at i:16837 original size:29 final size:27
Alignment explanation
Indices: 16790--16887 Score: 79
Period size: 29 Copynumber: 3.4 Consensus size: 27
16780 GGTCGGGTCG
* *
16790 GGTCAGACCGGTCAAACCGGCTCGGACC
1 GGTCAAACCGGTCAAACCGG-TCAGACC
* *
16818 GGTCAAACCGAGTCAGACCGGTCAAACC
1 GGTCAAACCG-GTCAAACCGGTCAGACC
** * *
16846 GGTTCGGACCGGTTGAAACCGGTCAAACC
1 GG-TCAAACCGG-TCAAACCGGTCAGACC
16875 GGTCAGAACCGGT
1 GGTCA-AACCGGT
16888 TGAAAACCGG
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
28 20 0.36
29 36 0.64
ACGTcount: A:0.26, C:0.31, G:0.31, T:0.13
Consensus pattern (27 bp):
GGTCAAACCGGTCAAACCGGTCAGACC
Found at i:16888 original size:29 final size:29
Alignment explanation
Indices: 16834--16907 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 29
16824 ACCGAGTCAG
*
16834 ACCGGTCAAACCGGTTCGGACCGGTTG-AA
1 ACCGGTCAAACCGG-TCGAACCGGTTGAAA
16863 ACCGGTCAAACCGGTCAGAACCGGTTGAAA
1 ACCGGTCAAACCGGTC-GAACCGGTTGAAA
**
16893 ACCGGTTTAACCGGT
1 ACCGGTCAAACCGGT
16908 TTCCAGCAGC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
28 2 0.05
29 23 0.57
30 15 0.38
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.18
Consensus pattern (29 bp):
ACCGGTCAAACCGGTCGAACCGGTTGAAA
Found at i:23180 original size:32 final size:31
Alignment explanation
Indices: 23144--23220 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
23134 CGGGGCCGTG
*
23144 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
23176 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
23207 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
23221 GTCACATTAG
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 24 0.65
32 13 0.35
ACGTcount: A:0.27, C:0.31, G:0.27, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:23203 original size:63 final size:63
Alignment explanation
Indices: 23097--23220 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
23087 CCCTAAGGGA
* * ** *
23097 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
23160 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAGA
23221 GTCACATTAG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 2 0.04
63 50 0.96
ACGTcount: A:0.26, C:0.29, G:0.28, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:24134 original size:5 final size:5
Alignment explanation
Indices: 24124--24176 Score: 52
Period size: 5 Copynumber: 9.8 Consensus size: 5
24114 AACGGTCAAC
* *
24124 GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG
1 GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG
24173 GGTC
1 GGTC
24177 AGACCGGTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 32 0.80
7 8 0.20
ACGTcount: A:0.08, C:0.23, G:0.51, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:24139 original size:17 final size:17
Alignment explanation
Indices: 24117--24177 Score: 77
Period size: 17 Copynumber: 3.3 Consensus size: 17
24107 AACGGTCAAC
24117 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
24134 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAA----C-GGTCGGGTCG
24156 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
24173 GGTCA
1 GGTCA
24178 GACCGGTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
17 21 0.54
18 1 0.03
21 1 0.03
22 16 0.41
ACGTcount: A:0.11, C:0.23, G:0.48, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:24144 original size:7 final size:7
Alignment explanation
Indices: 24090--24127 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
24080 GTCAAAGAAA
24090 GTCAACG
1 GTCAACG
24097 GTCAACG
1 GTCAACG
24104 GTCAACG
1 GTCAACG
24111 GTCAACG
1 GTCAACG
24118 GTCAACG
1 GTCAACG
24125 GTC
1 GTC
24128 GGGTCGGGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:24152 original size:22 final size:22
Alignment explanation
Indices: 24110--24176 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
24100 AACGGTCAAC
*
24110 GGTCAACGGTCAACGGTCGGGTCG
1 GGTCAACGGTC--GGGTCGGGTCG
24134 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
24156 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
24177 AGACCGGTCA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
22 31 0.74
24 11 0.26
ACGTcount: A:0.12, C:0.24, G:0.46, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:24200 original size:19 final size:18
Alignment explanation
Indices: 24173--24270 Score: 115
Period size: 19 Copynumber: 5.2 Consensus size: 18
24163 GGTCGGGTCG
24173 GGTCAGACCGGTCAAACC
1 GGTCAGACCGGTCAAACC
*
24191 GGCTCGGACCGGTCAAACC
1 GG-TCAGACCGGTCAAACC
24210 GAGTCAGACCGGTCAAACC
1 G-GTCAGACCGGTCAAACC
* *
24229 GGTTCGGACCGGTTGAAACC
1 GG-TCAGACCGG-TCAAACC
*
24249 GGTCAAACCGGTCAGAACC
1 GGTCAGACCGGTCA-AACC
24268 GGT
1 GGT
24271 TGAAAACCGG
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
18 5 0.07
19 54 0.79
20 9 0.13
ACGTcount: A:0.26, C:0.31, G:0.31, T:0.13
Consensus pattern (18 bp):
GGTCAGACCGGTCAAACC
Found at i:24215 original size:10 final size:9
Alignment explanation
Indices: 24173--24270 Score: 88
Period size: 9 Copynumber: 10.3 Consensus size: 9
24163 GGTCGGGTCG
*
24173 GGTCAGACC
1 GGTCAAACC
24182 GGTCAAACC
1 GGTCAAACC
**
24191 GGCTCGGACC
1 GG-TCAAACC
24201 GGTCAAACC
1 GGTCAAACC
*
24210 GAGTCAGACC
1 G-GTCAAACC
24220 GGTCAAACC
1 GGTCAAACC
**
24229 GGTTCGGACC
1 GG-TCAAACC
*
24239 GGTTGAAACC
1 GG-TCAAACC
24249 GGTCAAACC
1 GGTCAAACC
24258 GGTCAGAACC
1 GGTCA-AACC
24268 GGT
1 GGT
24271 TGAAAACCGG
Statistics
Matches: 72, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
9 36 0.50
10 36 0.50
ACGTcount: A:0.26, C:0.31, G:0.31, T:0.13
Consensus pattern (9 bp):
GGTCAAACC
Found at i:24216 original size:38 final size:38
Alignment explanation
Indices: 24173--24269 Score: 142
Period size: 38 Copynumber: 2.5 Consensus size: 38
24163 GGTCGGGTCG
24173 GGTCAGACCGGTCAAACCGGCTCGGACCGG-TCAAACC
1 GGTCAGACCGGTCAAACCGGCTCGGACCGGTTCAAACC
* *
24210 GAGTCAGACCGGTCAAACCGGTTCGGACCGGTTGAAACC
1 G-GTCAGACCGGTCAAACCGGCTCGGACCGGTTCAAACC
*
24249 GGTCAAACCGGTCAGAACCGG
1 GGTCAGACCGGTCA-AACCGG
24270 TTGAAAACCG
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
37 1 0.02
38 40 0.74
39 13 0.24
ACGTcount: A:0.26, C:0.31, G:0.31, T:0.12
Consensus pattern (38 bp):
GGTCAGACCGGTCAAACCGGCTCGGACCGGTTCAAACC
Found at i:24220 original size:29 final size:27
Alignment explanation
Indices: 24173--24270 Score: 79
Period size: 29 Copynumber: 3.4 Consensus size: 27
24163 GGTCGGGTCG
* *
24173 GGTCAGACCGGTCAAACCGGCTCGGACC
1 GGTCAAACCGGTCAAACCGG-TCAGACC
* *
24201 GGTCAAACCGAGTCAGACCGGTCAAACC
1 GGTCAAACCG-GTCAAACCGGTCAGACC
** * *
24229 GGTTCGGACCGGTTGAAACCGGTCAAACC
1 GG-TCAAACCGG-TCAAACCGGTCAGACC
24258 GGTCAGAACCGGT
1 GGTCA-AACCGGT
24271 TGAAAACCGG
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
28 20 0.36
29 36 0.64
ACGTcount: A:0.26, C:0.31, G:0.31, T:0.13
Consensus pattern (27 bp):
GGTCAAACCGGTCAAACCGGTCAGACC
Found at i:24271 original size:29 final size:30
Alignment explanation
Indices: 24217--24281 Score: 98
Period size: 29 Copynumber: 2.2 Consensus size: 30
24207 ACCGAGTCAG
*
24217 ACCGGTCAAACCGGTTCGGACCGGTTG-AA
1 ACCGGTCAAACCGGTTCGAACCGGTTGAAA
24246 ACCGGTCAAACCGG-TCAGAACCGGTTGAAA
1 ACCGGTCAAACCGGTTC-GAACCGGTTGAAA
24276 ACCGGT
1 ACCGGT
24282 TTACCGGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 2 0.06
29 23 0.70
30 8 0.24
ACGTcount: A:0.28, C:0.28, G:0.29, T:0.15
Consensus pattern (30 bp):
ACCGGTCAAACCGGTTCGAACCGGTTGAAA
Found at i:24288 original size:48 final size:47
Alignment explanation
Indices: 24198--24290 Score: 118
Period size: 48 Copynumber: 1.9 Consensus size: 47
24188 ACCGGCTCGG
*
24198 ACCGGTCAAACCGAGTCAGACCGGTCAAACCGGTTCGGACCGGTTGAA
1 ACCGGTCAAACCGAGTCAGACCGGTAAAACCGGTTC-GACCGGTTGAA
*
24246 ACCGGTCAAACCG-GTCAGAACCGGTTGAAAACCGGTT-TACCGGTT
1 ACCGGTCAAACCGAGTCAG-ACCGG-T-AAAACCGGTTCGACCGGTT
24291 TCCAGCAGCC
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
47 5 0.12
48 25 0.62
49 1 0.03
50 9 0.22
ACGTcount: A:0.27, C:0.28, G:0.28, T:0.17
Consensus pattern (47 bp):
ACCGGTCAAACCGAGTCAGACCGGTAAAACCGGTTCGACCGGTTGAA
Found at i:32178 original size:20 final size:20
Alignment explanation
Indices: 32147--32200 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
32137 CCCTAACACC
*
32147 AGAGCATTGATACTCACTCT
1 AGAGCATCGATACTCACTCT
*
32167 AGAGTATCGATACTCACTCT
1 AGAGCATCGATACTCACTCT
32187 AGAGCATCGATACT
1 AGAGCATCGATACT
32201 GCCTTAATCC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (20 bp):
AGAGCATCGATACTCACTCT
Found at i:38153 original size:24 final size:24
Alignment explanation
Indices: 38121--38167 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
38111 TACACCATCA
38121 TCGGCACCAGCCCCGGCTCCAGCG
1 TCGGCACCAGCCCCGGCTCCAGCG
* *
38145 TCGGTACCAGCTCCGGCTCCAGC
1 TCGGCACCAGCCCCGGCTCCAGC
38168 AACAGTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.13, C:0.47, G:0.28, T:0.13
Consensus pattern (24 bp):
TCGGCACCAGCCCCGGCTCCAGCG
Found at i:44280 original size:27 final size:29
Alignment explanation
Indices: 44219--44280 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 29
44209 AGAGCACATT
*
44219 TTATCTTAAAATAAAGTATTGAAGATTAA
1 TTATTTTAAAATAAAGTATTGAAGATTAA
44248 -TA-TTTAAAAGTAAAG-ATT-AA-ATTAA
1 TTATTTTAAAA-TAAAGTATTGAAGATTAA
44273 TTATTTTA
1 TTATTTTA
44281 TAAAATGTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
25 5 0.17
26 4 0.14
27 13 0.45
28 7 0.24
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (29 bp):
TTATTTTAAAATAAAGTATTGAAGATTAA
Found at i:44518 original size:31 final size:31
Alignment explanation
Indices: 44480--44586 Score: 187
Period size: 31 Copynumber: 3.5 Consensus size: 31
44470 AACTACGTAA
*
44480 TTAGTACTTAAACTATTAATTTCGTTTCATT
1 TTAGTACTTAAACTATCAATTTCGTTTCATT
*
44511 TTAGTACTTAAATTATCAATTTCGTTTCATT
1 TTAGTACTTAAACTATCAATTTCGTTTCATT
44542 TTAGTACTTAAACTATCAATTTCGTTTCATT
1 TTAGTACTTAAACTATCAATTTCGTTTCATT
*
44573 TTAATACTTAAACT
1 TTAGTACTTAAACT
44587 TTAATTTTTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 72 1.00
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (31 bp):
TTAGTACTTAAACTATCAATTTCGTTTCATT
Found at i:45856 original size:14 final size:13
Alignment explanation
Indices: 45837--45879 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
45827 TTTAGATTTT
*
45837 TTAAAATTACATTA
1 TTAAAAATACA-TA
*
45851 TTAAAAATATATA
1 TTAAAAATACATA
45864 TTAAAAATACACTA
1 TTAAAAATACA-TA
45878 TT
1 TT
45880 GATAATTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (13 bp):
TTAAAAATACATA
Found at i:46050 original size:7 final size:7
Alignment explanation
Indices: 46038--46123 Score: 68
Period size: 7 Copynumber: 12.3 Consensus size: 7
46028 GCAATGAACT
46038 CTAAACC
1 CTAAACC
46045 CTAAACC
1 CTAAACC
46052 CTAAA-C
1 CTAAACC
*
46058 CTCAAACT
1 CT-AAACC
46066 CTAAA-C
1 CTAAACC
46072 CTCAAACC
1 CT-AAACC
46080 CTAAACC
1 CTAAACC
* *
46087 TTAAATC
1 CTAAACC
* *
46094 TTAAACT
1 CTAAACC
* *
46101 ATAAATC
1 CTAAACC
*
46108 ATAAACC
1 CTAAACC
46115 CTAAACC
1 CTAAACC
46122 CT
1 CT
46124 TAATTTGATT
Statistics
Matches: 64, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
6 5 0.08
7 54 0.84
8 5 0.08
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:46066 original size:28 final size:28
Alignment explanation
Indices: 46034--46087 Score: 92
Period size: 28 Copynumber: 1.9 Consensus size: 28
46024 CTTTGCAATG
46034 AACTCTAAACC-CTAAACCCTAAACCTCA
1 AACTCTAAACCTC-AAACCCTAAACCTCA
46062 AACTCTAAACCTCAAACCCTAAACCT
1 AACTCTAAACCTCAAACCCTAAACCT
46088 TAAATCTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.19
Consensus pattern (28 bp):
AACTCTAAACCTCAAACCCTAAACCTCA
Found at i:46086 original size:35 final size:35
Alignment explanation
Indices: 46039--46123 Score: 109
Period size: 35 Copynumber: 2.4 Consensus size: 35
46029 CAATGAACTC
* *
46039 TAAACCCTAAACCCTAAACCTCAAACTCTAAA-CC
1 TAAACCCTAAACCCTAAACCTCAAACTATAAATCA
* * *
46073 TCAAACCCTAAACCTTAAATCTTAAACTATAAATCA
1 T-AAACCCTAAACCCTAAACCTCAAACTATAAATCA
46109 TAAACCCTAAACCCT
1 TAAACCCTAAACCCT
46124 TAATTTGATT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
34 1 0.02
35 40 0.93
36 2 0.05
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (35 bp):
TAAACCCTAAACCCTAAACCTCAAACTATAAATCA
Found at i:47353 original size:23 final size:23
Alignment explanation
Indices: 47321--47374 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
47311 CTCTTAGGCC
47321 TTGAGCTTGAATCGAGCTCAAAA
1 TTGAGCTTGAATCGAGCTCAAAA
* * *
47344 TTGAGTTTGAATTGAGCTCAAAT
1 TTGAGCTTGAATCGAGCTCAAAA
47367 TTGAGCTT
1 TTGAGCTT
47375 AAAATCAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (23 bp):
TTGAGCTTGAATCGAGCTCAAAA
Found at i:47449 original size:18 final size:16
Alignment explanation
Indices: 47428--47458 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
47418 CTTTTGAATT
47428 TTTTTTGAGTTCGAGC
1 TTTTTTGAGTTCGAGC
47444 TTTTTTGAGTTCGAG
1 TTTTTTGAGTTCGAG
47459 TTGAGTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.10, G:0.26, T:0.52
Consensus pattern (16 bp):
TTTTTTGAGTTCGAGC
Found at i:48024 original size:19 final size:19
Alignment explanation
Indices: 47986--48025 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
47976 CGAATAATTG
* * *
47986 AATCGAATATAATATTTTA
1 AATCAAATATAAAATCTTA
48005 AATCAAATATAAAATCTTA
1 AATCAAATATAAAATCTTA
48024 AA
1 AA
48026 ATTACTTAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.35
Consensus pattern (19 bp):
AATCAAATATAAAATCTTA
Found at i:53045 original size:18 final size:18
Alignment explanation
Indices: 53024--53058 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
53014 ATCTTTATTT
*
53024 ATTTAATCTCTTTTTACC
1 ATTTAATCTCATTTTACC
*
53042 ATTTAATTTCATTTTAC
1 ATTTAATCTCATTTTAC
53059 TAAAACCCCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.17, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTAATCTCATTTTACC
Found at i:55986 original size:22 final size:21
Alignment explanation
Indices: 55961--56011 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 21
55951 ATAATAATAT
55961 ATTTTTTAT-TTTTAGTAATTTA
1 ATTTTTTATATTTTA-T-ATTTA
55983 ATTTTTTTATATTTTATATTTA
1 A-TTTTTTATATTTTATATTTA
*
56005 ACTTTTT
1 ATTTTTT
56012 GAAAAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 5 0.19
22 7 0.27
23 9 0.35
24 5 0.19
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (21 bp):
ATTTTTTATATTTTATATTTA
Found at i:55992 original size:23 final size:22
Alignment explanation
Indices: 55962--56011 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
55952 TAATAATATA
*
55962 TTTTTTAT-TTTTAGTAATTTAAT
1 TTTTTTATATTTTA-T-ATTTAAC
55985 TTTTTTATATTTTATATTTAAC
1 TTTTTTATATTTTATATTTAAC
56007 TTTTT
1 TTTTT
56012 GAAAAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 11 0.44
23 9 0.36
24 5 0.20
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTTTTATATTTTATATTTAAC
Found at i:56415 original size:29 final size:29
Alignment explanation
Indices: 56373--56461 Score: 178
Period size: 29 Copynumber: 3.1 Consensus size: 29
56363 CTACAGTGGT
56373 CTTGGAGGTCGCCATGGCATCCGGGCGAC
1 CTTGGAGGTCGCCATGGCATCCGGGCGAC
56402 CTTGGAGGTCGCCATGGCATCCGGGCGAC
1 CTTGGAGGTCGCCATGGCATCCGGGCGAC
56431 CTTGGAGGTCGCCATGGCATCCGGGCGAC
1 CTTGGAGGTCGCCATGGCATCCGGGCGAC
56460 CT
1 CT
56462 GTGTATTACA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.13, C:0.31, G:0.37, T:0.18
Consensus pattern (29 bp):
CTTGGAGGTCGCCATGGCATCCGGGCGAC
Found at i:56504 original size:18 final size:18
Alignment explanation
Indices: 56481--56517 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
56471 AGAATAGGGC
56481 CATGCAATCAACATGGGA
1 CATGCAATCAACATGGGA
56499 CATGCAATCAACATGGGA
1 CATGCAATCAACATGGGA
56517 C
1 C
56518 GTGGGAATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (18 bp):
CATGCAATCAACATGGGA
Found at i:56572 original size:43 final size:44
Alignment explanation
Indices: 56499--56588 Score: 173
Period size: 43 Copynumber: 2.1 Consensus size: 44
56489 CAACATGGGA
56499 CATGCAATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATG
1 CATGCAATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATG
56543 CATGCAATCAACAT-GGACGTGGGAATGCATGGGGGAGGGGATG
1 CATGCAATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATG
56586 CAT
1 CAT
56589 AGGGTGGGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 32 0.70
44 14 0.30
ACGTcount: A:0.28, C:0.14, G:0.41, T:0.17
Consensus pattern (44 bp):
CATGCAATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATG
Found at i:56598 original size:31 final size:31
Alignment explanation
Indices: 56561--56746 Score: 164
Period size: 31 Copynumber: 5.8 Consensus size: 31
56551 CAACATGGAC
*
56561 GTGGGAATGCATGGGGGAGGGGATGCATAGG-
1 GTGGGAATGCATGGGGGA-GGGATGCATGGGA
*
56592 GTGGGAATGCATGGGGGAGGGATCAACATGGGA
1 GTGGGAATGCATGGGGGAGGGAT--GCATGGGA
56625 TGTGGGAATGCATGGGGGAGGGATGCATGGGA
1 -GTGGGAATGCATGGGGGAGGGATGCATGGGA
* *
56657 CGTGGGAATGCAT-GGGGTGGAATGCATGGGGGA
1 -GTGGGAATGCATGGGGGAGGGATGCAT--GGGA
* ** *
56690 G-GGGATGGTGCATTGGACGTGGGAATGCATGGG-
1 GTGGGA--ATGCA-TGGGGGAGGG-ATGCATGGGA
*
56723 GTGGGAATGCATGGGGGGGGGATG
1 GTGGGAATGCATGGGGGAGGGATG
56747 GTGCATTGGA
Statistics
Matches: 129, Mismatches: 14, Indels: 25
0.77 0.08 0.15
Matches are distributed among these distances:
30 8 0.06
31 41 0.32
32 29 0.22
33 9 0.07
34 31 0.24
35 5 0.04
36 6 0.05
ACGTcount: A:0.22, C:0.08, G:0.53, T:0.18
Consensus pattern (31 bp):
GTGGGAATGCATGGGGGAGGGATGCATGGGA
Found at i:56635 original size:65 final size:64
Alignment explanation
Indices: 56549--56673 Score: 198
Period size: 65 Copynumber: 1.9 Consensus size: 64
56539 GATGCATGCA
56549 ATCAACATGGACGTGGGAATGCATGGGGGAGGGGATGCATAGG-GTGGGAATGCATGGGGGAGGG
1 ATCAACATGGACGTGGGAATGCATGGGGGA-GGGATGCATAGGAGTGGGAATGCATGGGGGAGGG
* *
56613 ATCAACATGGGATGTGGGAATGCATGGGGGAGGGATGCATGGGACGTGGGAATGCATGGGG
1 ATCAACAT-GGACGTGGGAATGCATGGGGGAGGGATGCATAGGA-GTGGGAATGCATGGGG
56674 TGGAATGCAT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
64 19 0.34
65 21 0.38
66 16 0.29
ACGTcount: A:0.25, C:0.10, G:0.49, T:0.17
Consensus pattern (64 bp):
ATCAACATGGACGTGGGAATGCATGGGGGAGGGATGCATAGGAGTGGGAATGCATGGGGGAGGG
Found at i:56662 original size:32 final size:32
Alignment explanation
Indices: 56557--56686 Score: 167
Period size: 31 Copynumber: 4.1 Consensus size: 32
56547 CAATCAACAT
*
56557 GGACGTGGGAATGCATGGGGGAGGGGATGCATA
1 GGACGTGGGAATGCATGGGGGA-GGGATGCATG
*
56590 GG--GTGGGAATGCATGGGGGAGGGATCAACATG
1 GGACGTGGGAATGCATGGGGGAGGGAT--GCATG
*
56622 GGATGTGGGAATGCATGGGGGAGGGATGCATG
1 GGACGTGGGAATGCATGGGGGAGGGATGCATG
* *
56654 GGACGTGGGAATGCAT-GGGGTGGAATGCATG
1 GGACGTGGGAATGCATGGGGGAGGGATGCATG
56685 GG
1 GG
56687 GGAGGGGATG
Statistics
Matches: 87, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
30 5 0.06
31 33 0.38
32 24 0.28
33 2 0.02
34 23 0.26
ACGTcount: A:0.23, C:0.08, G:0.52, T:0.17
Consensus pattern (32 bp):
GGACGTGGGAATGCATGGGGGAGGGATGCATG
Found at i:56716 original size:50 final size:51
Alignment explanation
Indices: 56626--56764 Score: 218
Period size: 50 Copynumber: 2.8 Consensus size: 51
56616 AACATGGGAT
*
56626 GTGGGAATGCATGGGGGA-GGGA---TGCATGGGACGTGGGAATGCATGGG
1 GTGGGAATGCATGGGGGAGGGGATGGTGCATTGGACGTGGGAATGCATGGG
56673 GT-GGAATGCATGGGGGAGGGGATGGTGCATTGGACGTGGGAATGCATGGG
1 GTGGGAATGCATGGGGGAGGGGATGGTGCATTGGACGTGGGAATGCATGGG
*
56723 GTGGGAATGCATGGGGG-GGGGATGGTGCATTGGATGTGGGAA
1 GTGGGAATGCATGGGGGAGGGGATGGTGCATTGGACGTGGGAA
56765 CTGTGCATGG
Statistics
Matches: 85, Mismatches: 2, Indels: 7
0.90 0.02 0.07
Matches are distributed among these distances:
46 15 0.18
47 6 0.07
50 50 0.59
51 14 0.16
ACGTcount: A:0.20, C:0.07, G:0.53, T:0.19
Consensus pattern (51 bp):
GTGGGAATGCATGGGGGAGGGGATGGTGCATTGGACGTGGGAATGCATGGG
Found at i:56736 original size:15 final size:15
Alignment explanation
Indices: 56561--56738 Score: 119
Period size: 15 Copynumber: 11.1 Consensus size: 15
56551 CAACATGGAC
56561 GTGGGAATGCATGGGG
1 GTGGGAATGCAT-GGG
* * *
56577 GAGGGGATGCATAGG
1 GTGGGAATGCATGGG
56592 GTGGGAATGCATGGG
1 GTGGGAATGCATGGG
* *
56607 G-GAGGGATCAACATGGG
1 GTG-GGAAT--GCATGGG
56624 ATGTGGGAATGCATGGG
1 --GTGGGAATGCATGGG
*
56641 G-GAGGGATGCATGGG
1 GTG-GGAATGCATGGG
56656 ACGTGGGAATGCATGGG
1 --GTGGGAATGCATGGG
56673 GT-GGAATGCATGGGG
1 GTGGGAATGCAT-GGG
* * *
56688 GAGGGGATGGTGCATTGGAC
1 G-TGGGA--ATGCA-TGG-G
56708 GTGGGAATGCATGGG
1 GTGGGAATGCATGGG
56723 GTGGGAATGCATGGG
1 GTGGGAATGCATGGG
56738 G
1 G
56739 GGGGGATGGT
Statistics
Matches: 127, Mismatches: 18, Indels: 35
0.71 0.10 0.19
Matches are distributed among these distances:
14 11 0.09
15 53 0.42
16 13 0.10
17 31 0.24
18 1 0.01
19 15 0.12
20 3 0.02
ACGTcount: A:0.22, C:0.08, G:0.52, T:0.18
Consensus pattern (15 bp):
GTGGGAATGCATGGG
Found at i:56883 original size:32 final size:32
Alignment explanation
Indices: 56837--56900 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
56827 AAGGTCCTGC
56837 TGCATGCATACGTTGCATCATAGCTCATAGCT
1 TGCATGCATACGTTGCATCATAGCTCATAGCT
*
56869 TGCATGCATGCGTTGCATCATAGCTCATAGCT
1 TGCATGCATACGTTGCATCATAGCTCATAGCT
56901 CAGAGATTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.31
Consensus pattern (32 bp):
TGCATGCATACGTTGCATCATAGCTCATAGCT
Found at i:57309 original size:48 final size:45
Alignment explanation
Indices: 57252--57352 Score: 132
Period size: 48 Copynumber: 2.2 Consensus size: 45
57242 TTTAAGTTAT
57252 ATTATATTAGTTTATTAGTTTAAGTTATATATAATTATATAAAAA-ATTA
1 ATTA-ATTAGTTTATTAGTTTAAGTTAT-TA-AA-TATA-AAAAATATTA
* *
57301 GTTAATTAGTTTCTTAGTTTAAGTTATTAAATATAAAAAATATTA
1 ATTAATTAGTTTATTAGTTTAAGTTATTAAATATAAAAAATATTA
57346 ATTAATT
1 ATTAATT
57353 TGTTAGTGTT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
44 5 0.10
45 14 0.29
46 2 0.04
47 2 0.04
48 22 0.46
49 3 0.06
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.49
Consensus pattern (45 bp):
ATTAATTAGTTTATTAGTTTAAGTTATTAAATATAAAAAATATTA
Found at i:58094 original size:26 final size:25
Alignment explanation
Indices: 58065--58123 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
58055 ACTAAATCAT
*
58065 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AGTAAATATCAAATC
*
58091 ATTAGATT-AATAGTAATTATCAAATC
1 ATT--ATTAAATAGTAAATATCAAATC
58117 ATTATTA
1 ATTATTA
58124 GGTTATTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
26 19 0.68
27 3 0.11
28 3 0.11
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (25 bp):
ATTATTAAATAGTAAATATCAAATC
Found at i:61003 original size:26 final size:26
Alignment explanation
Indices: 60974--61436 Score: 337
Period size: 26 Copynumber: 19.1 Consensus size: 26
60964 TTTGATGATT
60974 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
61000 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
* *
61026 TAATAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* *
61048 TA--AAT-ATTTAATGAACAAAT-ATT-
1 TAGTAATGATTTGAT-AA-TAATCATTA
61071 TAGTAATGATTTGAT-AT-ATCATTA
1 TAGTAATGATTTGATAATAATCATTA
61095 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
61121 TA--AATGATTT-ATTAATAATCATTA
1 TAGTAATGATTTGA-TAATAATCATTA
* *
61145 TA-AAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* * * *
61166 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTTGAT-A-ATAATCATTA
61190 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
61216 TAGTAATGA-TTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
* *
61241 TAATAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* * * *
61263 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTTGAT-A-ATAATCATTA
61287 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
61313 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
61339 TAATAATGATTT-AGTAATAATCATTA
1 TAGTAATGATTTGA-TAATAATCATTA
* *
61365 TA-AAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* * *
61386 TA--AAT-ATTT-ATGATTTGATGATT-
1 TAGTAATGATTTGAT-A-ATAATCATTA
61409 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
61435 TA
1 TA
61437 ATTGATTATA
Statistics
Matches: 367, Mismatches: 28, Indels: 84
0.77 0.06 0.18
Matches are distributed among these distances:
19 4 0.01
20 20 0.05
21 5 0.01
22 30 0.08
23 42 0.11
24 63 0.17
25 65 0.18
26 124 0.34
27 14 0.04
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.44
Consensus pattern (26 bp):
TAGTAATGATTTGATAATAATCATTA
Found at i:61115 original size:98 final size:98
Alignment explanation
Indices: 60919--61136 Score: 347
Period size: 98 Copynumber: 2.3 Consensus size: 98
60909 ATGTATTTAT
****
60919 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGAACAAATGATTTAGTAATGAT
60984 TTGATAATAATCATTATAGTAATGATTTGATAA
66 TTGATAATAATCATTATAGTAATGATTTGATAA
*
61017 TAATCATTATAATAATGATTTAATAATGATTTAAATATTTAATGAACAAAT-ATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGAACAAATGATTTAGTAATGAT
61081 TTGAT-AT-ATCATTATAGTAATGATTTGATAA
66 TTGATAATAATCATTATAGTAATGATTTGATAA
*
61112 TAATCATTAT--AAATGATTTATTAAT
1 TAATCATTATAAAAATGATTTAATAAT
61137 AATCATTATA
Statistics
Matches: 113, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
93 13 0.12
95 34 0.30
96 2 0.02
97 18 0.16
98 46 0.41
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.44
Consensus pattern (98 bp):
TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGAACAAATGATTTAGTAATGAT
TTGATAATAATCATTATAGTAATGATTTGATAA
Found at i:61265 original size:97 final size:97
Alignment explanation
Indices: 61095--61356 Score: 467
Period size: 97 Copynumber: 2.7 Consensus size: 97
61085 TATATCATTA
*
61095 TAGTAATGATTTGATAATAATCATTATA--AATGATTTATTAATAATCATTATAA-AATGATTTA
1 TAGTAATGATTTGATAATAATCATTATAGTAATGATTGA-TAATAATCATTATAATAATGATTTA
61157 ATAATGATTTAAATATTTAATGATTTGATGATT
65 ATAATGATTTAAATATTTAATGATTTGATGATT
61190 TAGTAATGATTTGATAATAATCATTATAGTAATGATTGATAATAATCATTATAATAATGATTTAA
1 TAGTAATGATTTGATAATAATCATTATAGTAATGATTGATAATAATCATTATAATAATGATTTAA
61255 TAATGATTTAAATATTTAATGATTTGATGATT
66 TAATGATTTAAATATTTAATGATTTGATGATT
61287 TAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTA
1 TAGTAATGATTTGATAATAATCATTATAGTAATGA-TTGATAATAATCATTATAATAATGATTTA
*
61352 GTAAT
65 ATAAT
61357 AATCATTATA
Statistics
Matches: 161, Mismatches: 2, Indels: 5
0.96 0.01 0.03
Matches are distributed among these distances:
95 28 0.17
96 15 0.09
97 85 0.53
98 33 0.20
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.44
Consensus pattern (97 bp):
TAGTAATGATTTGATAATAATCATTATAGTAATGATTGATAATAATCATTATAATAATGATTTAA
TAATGATTTAAATATTTAATGATTTGATGATT
Found at i:61426 original size:11 final size:11
Alignment explanation
Indices: 61184--61298 Score: 50
Period size: 11 Copynumber: 10.6 Consensus size: 11
61174 TAATGATTTG
61184 ATGATTTAGTA
1 ATGATTTAGTA
*
61195 ATGATTTGATAATA
1 ATGA-TT--TAGTA
*
61209 ATCATTATAGTA
1 ATGATT-TAGTA
*
61221 ATGATTGATAATA
1 ATGATT--TAGTA
* *
61234 ATCATTATAATA
1 ATGATT-TAGTA
*
61246 ATGATTTAATA
1 ATGATTTAGTA
61257 ATGATTTA--A
1 ATGATTTAGTA
61266 AT-A-TT--TA
1 ATGATTTAGTA
61273 ATGATTT-G--
1 ATGATTTAGTA
61281 ATGATTTAGTA
1 ATGATTTAGTA
61292 ATGATTT
1 ATGATTT
61299 GATAATAATC
Statistics
Matches: 86, Mismatches: 7, Indels: 22
0.75 0.06 0.19
Matches are distributed among these distances:
7 5 0.06
8 9 0.10
9 6 0.07
11 24 0.28
12 23 0.27
13 12 0.14
14 7 0.08
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.45
Consensus pattern (11 bp):
ATGATTTAGTA
Found at i:61679 original size:17 final size:17
Alignment explanation
Indices: 61654--61686 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
61644 ACTAAATATC
*
61654 TAATTATTTGATACTAG
1 TAATGATTTGATACTAG
61671 TAATGATTTGATACTA
1 TAATGATTTGATACTA
61687 AAATCATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (17 bp):
TAATGATTTGATACTAG
Found at i:64104 original size:44 final size:47
Alignment explanation
Indices: 64031--64117 Score: 135
Period size: 44 Copynumber: 1.9 Consensus size: 47
64021 CAACAAACAA
64031 ATAACTTAACTATTTAACTAACACAAACTAATTAATAATTTTTTTAT
1 ATAACTTAACTATTTAACTAACACAAACTAATTAATAATTTTTTTAT
* *
64078 ATAAC-TAACTA-TTAAC-AATACAAACTAATTAATTATTTTT
1 ATAACTTAACTATTTAACTAACACAAACTAATTAATAATTTTT
64118 AACTATATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
44 22 0.58
45 5 0.13
46 6 0.16
47 5 0.13
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (47 bp):
ATAACTTAACTATTTAACTAACACAAACTAATTAATAATTTTTTTAT
Found at i:64347 original size:17 final size:16
Alignment explanation
Indices: 64348--64379 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
64338 CCCTTTCTTT
64348 CTTTCTTTCCTTTCTCC
1 CTTTCTTT-CTTTCTCC
64365 CTTTCTTTCTTTCTC
1 CTTTCTTTCTTTCTC
64380 GGCTGCAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (16 bp):
CTTTCTTTCTTTCTCC
Found at i:64349 original size:4 final size:4
Alignment explanation
Indices: 64321--64378 Score: 53
Period size: 4 Copynumber: 14.0 Consensus size: 4
64311 TTTCGAATTC
* ** **
64321 TTCT TACT TTCCT TTCT CCCT TTCT TTCT TTCT TTCCT TTCT CCCT TTCT
1 TTCT TTCT TT-CT TTCT TTCT TTCT TTCT TTCT TT-CT TTCT TTCT TTCT
64371 TTCT TTCT
1 TTCT TTCT
64379 CGGCTGCAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
4 34 0.81
5 8 0.19
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (4 bp):
TTCT
Found at i:64355 original size:25 final size:25
Alignment explanation
Indices: 64321--64378 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
64311 TTTCGAATTC
*
64321 TTCTTACTTTCCTTTCTCCCTTTCT
1 TTCTTTCTTTCCTTTCTCCCTTTCT
64346 TTCTTTCTTTCCTTTCTCCCTTTCT
1 TTCTTTCTTTCCTTTCTCCCTTTCT
64371 TTCTTTCT
1 TTCTTTCT
64379 CGGCTGCAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (25 bp):
TTCTTTCTTTCCTTTCTCCCTTTCT
Found at i:64468 original size:25 final size:25
Alignment explanation
Indices: 64440--64491 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
64430 TTTCTTTTAT
*
64440 AACCGGCTGCCTCAATTATTTCACC
1 AACCGACTGCCTCAATTATTTCACC
*
64465 AACCGACTGCCTTAATTATTTCACC
1 AACCGACTGCCTCAATTATTTCACC
64490 AA
1 AA
64492 TAATTGTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.33, G:0.10, T:0.29
Consensus pattern (25 bp):
AACCGACTGCCTCAATTATTTCACC
Found at i:64639 original size:23 final size:23
Alignment explanation
Indices: 64612--64658 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
64602 GAATCTATAT
64612 GGCTGCATGTGAATGGATGATGG
1 GGCTGCATGTGAATGGATGATGG
64635 GGCTGCATGTGAATGGATGATGG
1 GGCTGCATGTGAATGGATGATGG
64658 G
1 G
64659 AATGGACGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.09, G:0.45, T:0.26
Consensus pattern (23 bp):
GGCTGCATGTGAATGGATGATGG
Found at i:64663 original size:13 final size:13
Alignment explanation
Indices: 64645--64676 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
64635 GGCTGCATGT
*
64645 GAATGGATGATGG
1 GAATGGACGATGG
64658 GAATGGACGATGG
1 GAATGGACGATGG
64671 GAATGG
1 GAATGG
64677 CGCCGGGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.03, G:0.47, T:0.19
Consensus pattern (13 bp):
GAATGGACGATGG
Found at i:64710 original size:29 final size:29
Alignment explanation
Indices: 64677--64814 Score: 224
Period size: 29 Copynumber: 4.8 Consensus size: 29
64667 ATGGGAATGG
*
64677 CGCCGGGACTACATGGCGACCTATAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
*
64706 CGCCGGGAGTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
64735 CGCCGGGACTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
64764 CGCCGGGACTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
* *
64793 CGCCTAGG-CTGCATGGCGACCT
1 CGCC-GGGACTACATGGCGACCT
64815 CTCTATTCCA
Statistics
Matches: 103, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
29 101 0.98
30 2 0.02
ACGTcount: A:0.22, C:0.30, G:0.32, T:0.15
Consensus pattern (29 bp):
CGCCGGGACTACATGGCGACCTACAAGGT
Found at i:64870 original size:43 final size:43
Alignment explanation
Indices: 64809--65055 Score: 214
Period size: 43 Copynumber: 5.9 Consensus size: 43
64799 GGCTGCATGG
64809 CGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGGGAGAA
1 CGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGGGAGAA
***
64852 CGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCTCG--
1 CGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGGGAGAA
* * *
64893 C-A-CTC-GTATGGCTCGTA-TGCATGG-GACCTCGCATGGGGAGAA
1 CGACCTCTCTAT---TC-CACTGCATGGCCACCTCGCATGGGGAGAA
***
64935 CGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCTCG--
1 CGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGGGAGAA
* * **
64976 C-A-CTC-GTATGGCTCGTA-TGCATGGGGACCTCGCATGGGGAGAA
1 CGACCTCTCTAT---TC-CACTGCATGGCCACCTCGCATGGGGAGAA
65019 CGACCTCTCTATTCCACTGCATGGCCACCTCGCATGG
1 CGACCTCTCTATTCCACTGCATGGCCACCTCGCATGG
65056 CTCGCACTCG
Statistics
Matches: 157, Mismatches: 26, Indels: 42
0.70 0.12 0.19
Matches are distributed among these distances:
38 6 0.04
39 6 0.04
40 14 0.09
41 33 0.21
42 13 0.08
43 72 0.46
44 4 0.03
45 6 0.04
46 3 0.02
ACGTcount: A:0.18, C:0.34, G:0.25, T:0.23
Consensus pattern (43 bp):
CGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGGGAGAA
Found at i:65056 original size:84 final size:84
Alignment explanation
Indices: 64826--65086 Score: 497
Period size: 84 Copynumber: 3.1 Consensus size: 84
64816 TCTATTCCAC
**
64826 TGCATGGCCACCTCGCATGGGGAGAACGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCT
1 TGCATGGGGACCTCGCATGGGGAGAACGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCT
64891 CGCACTCGTATGGCTCGTA
66 CGCACTCGTATGGCTCGTA
64910 TGCAT-GGGACCTCGCATGGGGAGAACGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCT
1 TGCATGGGGACCTCGCATGGGGAGAACGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCT
64974 CGCACTCGTATGGCTCGTA
66 CGCACTCGTATGGCTCGTA
64993 TGCATGGGGACCTCGCATGGGGAGAACGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCT
1 TGCATGGGGACCTCGCATGGGGAGAACGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCT
65058 CGCACTCGTATGGCTCGTA
66 CGCACTCGTATGGCTCGTA
65077 TGCATGGGGA
1 TGCATGGGGA
65087 GAACCATTGG
Statistics
Matches: 174, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
83 81 0.47
84 93 0.53
ACGTcount: A:0.18, C:0.32, G:0.27, T:0.23
Consensus pattern (84 bp):
TGCATGGGGACCTCGCATGGGGAGAACGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCT
CGCACTCGTATGGCTCGTA
Found at i:65108 original size:35 final size:35
Alignment explanation
Indices: 65062--65138 Score: 154
Period size: 35 Copynumber: 2.2 Consensus size: 35
65052 ATGGCTCGCA
65062 CTCGTATGGCTCGTATGCATGGGGAGAACCATTGG
1 CTCGTATGGCTCGTATGCATGGGGAGAACCATTGG
65097 CTCGTATGGCTCGTATGCATGGGGAGAACCATTGG
1 CTCGTATGGCTCGTATGCATGGGGAGAACCATTGG
65132 CTCGTAT
1 CTCGTAT
65139 ATTCCCGTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.19, C:0.21, G:0.32, T:0.27
Consensus pattern (35 bp):
CTCGTATGGCTCGTATGCATGGGGAGAACCATTGG
Found at i:65604 original size:41 final size:41
Alignment explanation
Indices: 65547--65630 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
65537 CGTACACACT
65547 ACAGTCCAATCAGACCTTCCTTTTTGGTTCAATCCATGGAA
1 ACAGTCCAATCAGACCTTCCTTTTTGGTTCAATCCATGGAA
65588 ACAGTCCAATCAGACCTTCCTTTTTGGTTCAATCCATGGAA
1 ACAGTCCAATCAGACCTTCCTTTTTGGTTCAATCCATGGAA
65629 AC
1 AC
65631 GTAATATTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.31
Consensus pattern (41 bp):
ACAGTCCAATCAGACCTTCCTTTTTGGTTCAATCCATGGAA
Found at i:74967 original size:233 final size:232
Alignment explanation
Indices: 74534--74962 Score: 717
Period size: 234 Copynumber: 1.9 Consensus size: 232
74524 GACAGGACCC
74534 GACCCGAACCGAAAATATATATAATTTTACCTTATATATTTAGAAATAATTACAATAATATCCCT
1 GACCCGAACCGAAAATATATATAATTTTACCTTATATATTTAGAAATAATTACAATAATATCCCT
*
74599 TTATATATAATTTTTTAATTAAATCACTGTTTTTATTGAATAAAAATAATTTTTTTATTATTTCG
66 CTATATATAATTTTTTAATTAAATCACTGTTTTTATTGAATAAAAATAATTTTTTTATTATTTCG
* *
74664 GGTTGGGTCGGGTTTCTAATTCATATATTCGGGTCGGGTCGGGTCGAGTGAAACTTTATTTTGGT
131 GGTCGGGTCGGGTTTCTAATTCATATATTCAGGTCGGGTC-GG-CGAGTGAAACTTTATTTTGGT
74729 CGGGTCAGGTTGGATTCGGGTTTAGGGTGAAAAATACCT
194 CGGGTCAGGTTGGATTCGGGTTTAGGGTGAAAAATACCT
* * *
74768 GACCCGACCCGGAAA-ATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATA-CCCA
1 GACCCGAACCGAAAATATATATAATTTTACCTTATATATTTAGAAATAATTACAATAATATCCC-
*
74831 TCTATATATAATTTTTTCAATTAAGTCACTGTTTTTATTGAATAAAAATAATTTTTTTATTATTT
65 TCTATATATAATTTTTT-AATTAAATCACTGTTTTTATTGAATAAAAATAATTTTTTTATTATTT
74896 CGGGTCGGGTCGGGTTTCTAATTCATATATTCAGGTC-GGTC-G-G-GTGAAACTTTATTTTGGT
129 CGGGTCGGGTCGGGTTTCTAATTCATATATTCAGGTCGGGTCGGCGAGTGAAACTTTATTTTGGT
74957 CGGGTC
194 CGGGTC
74963 GGGTCTCGGA
Statistics
Matches: 186, Mismatches: 7, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
228 24 0.13
229 1 0.01
231 1 0.01
232 3 0.02
233 63 0.34
234 94 0.51
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (232 bp):
GACCCGAACCGAAAATATATATAATTTTACCTTATATATTTAGAAATAATTACAATAATATCCCT
CTATATATAATTTTTTAATTAAATCACTGTTTTTATTGAATAAAAATAATTTTTTTATTATTTCG
GGTCGGGTCGGGTTTCTAATTCATATATTCAGGTCGGGTCGGCGAGTGAAACTTTATTTTGGTCG
GGTCAGGTTGGATTCGGGTTTAGGGTGAAAAATACCT
Found at i:75298 original size:18 final size:18
Alignment explanation
Indices: 75271--75318 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
75261 TATGGAATTG
*
75271 GATTCCAATTCC-TGACA
1 GATTCCAATTCCTTCACA
75288 GATTCCCAATTCCTTCACA
1 GATT-CCAATTCCTTCACA
75307 GATTCCAATTCC
1 GATTCCAATTCC
75319 CTCATAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 4 0.14
18 16 0.57
19 8 0.29
ACGTcount: A:0.27, C:0.33, G:0.08, T:0.31
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:76722 original size:19 final size:19
Alignment explanation
Indices: 76690--76728 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
76680 TTTCTCTTTG
* * *
76690 TTTTTTTTATATTTTTTAA
1 TTTTTTTAAAATTTCTTAA
76709 TTTTTTTAAAATTTCTTAA
1 TTTTTTTAAAATTTCTTAA
76728 T
1 T
76729 AGGGAATAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTTTTAAAATTTCTTAA
Found at i:88102 original size:14 final size:15
Alignment explanation
Indices: 88048--88102 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
88038 CAATACTGCA
*
88048 AGTACCAATACTACT-
1 AGTATCAATACTA-TG
* *
88063 AGTATTAATACTGTG
1 AGTATCAATACTATG
88078 AGTATCAATACTATG
1 AGTATCAATACTATG
88093 AGTA-CAATAC
1 AGTATCAATAC
88103 CAATACTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 7 0.21
15 27 0.79
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (15 bp):
AGTATCAATACTATG
Found at i:90589 original size:17 final size:17
Alignment explanation
Indices: 90567--90601 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
90557 CTGGCCTGAC
*
90567 CCGACCCGACCCGTTGA
1 CCGACCCGACCCGGTGA
90584 CCGACCCGACCCGGTGA
1 CCGACCCGACCCGGTGA
90601 C
1 C
90602 ATTATGGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.49, G:0.26, T:0.09
Consensus pattern (17 bp):
CCGACCCGACCCGGTGA
Found at i:90638 original size:29 final size:29
Alignment explanation
Indices: 90596--90706 Score: 163
Period size: 29 Copynumber: 3.9 Consensus size: 29
90586 GACCCGACCC
90596 GGTGACATTATGGGAAATATTTTGAAAAA
1 GGTGACATTATGGGAAATATTTTGAAAAA
* *
90625 GGTGACATTTTGGGAATTATTTTGAAAAA
1 GGTGACATTATGGGAAATATTTTGAAAAA
* *
90654 GGTGACATTATGAGAATTATTTTGAAAAA
1 GGTGACATTATGGGAAATATTTTGAAAAA
*
90683 GGTGACATTTTGGG-AAT-TTTTGAA
1 GGTGACATTATGGGAAATATTTTGAA
90707 TGTAGACTAT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
27 7 0.09
28 2 0.03
29 66 0.88
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (29 bp):
GGTGACATTATGGGAAATATTTTGAAAAA
Found at i:93107 original size:23 final size:23
Alignment explanation
Indices: 93049--93107 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
93039 ATTCCAAAAA
* * *
93049 AATTATTTAGTTATTTTGAATTT
1 AATTATTTATTTGTTTTGAAATT
* *
93072 ATTTATTTGTTTGTTTTGAAATT
1 AATTATTTATTTGTTTTGAAATT
*
93095 AATTGTTTATTTG
1 AATTATTTATTTG
93108 AAAAGATATG
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.63
Consensus pattern (23 bp):
AATTATTTATTTGTTTTGAAATT
Found at i:94927 original size:12 final size:12
Alignment explanation
Indices: 94906--94972 Score: 55
Period size: 12 Copynumber: 5.6 Consensus size: 12
94896 TGGCCATGTA
*
94906 GATGAGGGTGAT
1 GATGATGGTGAT
94918 GATGATGGTGAT
1 GATGATGGTGAT
* *
94930 GTTGATGGTGGT
1 GATGATGGTGAT
* * *
94942 GGTGGTGGTGGT
1 GATGATGGTGAT
*
94954 GATCA-GAGTGAT
1 GATGATG-GTGAT
94966 GATGATG
1 GATGATG
94973 CCCCCGAATA
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
11 1 0.02
12 41 0.95
13 1 0.02
ACGTcount: A:0.19, C:0.01, G:0.48, T:0.31
Consensus pattern (12 bp):
GATGATGGTGAT
Done.