Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002558.1 Hibiscus syriacus cultivar Beakdansim tig00005190_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: 59120
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Found at i:2911 original size:34 final size:34
Alignment explanation
Indices: 2868--2996 Score: 116
Period size: 35 Copynumber: 3.7 Consensus size: 34
2858 TGAAAGTATT
*
2868 AAAATGGTTTTTAAAGTTTGGTAA-CCAACTTTG
1 AAAATGGTTTTCAAAGTTTGGTAATCCAACTTTG
****
2901 AAAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 -AAAATGGTTTTCAAAGTTTGGT-AATCCAACTTTG
****
2937 AAAATGGTTTTCAAAGTTTGGTAAATGTTTTCTTTG
1 AAAATGGTTTTCAAAGTTTGGT-AAT-CCAACTTTG
*
2973 AAAATAGTTTTTCAAAGTTTGGTA
1 AAAAT-GGTTTTCAAAGTTTGGTA
2997 GATGTTTGTT
Statistics
Matches: 84, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
34 21 0.25
35 28 0.33
36 19 0.23
37 16 0.19
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.43
Consensus pattern (34 bp):
AAAATGGTTTTCAAAGTTTGGTAATCCAACTTTG
Found at i:2948 original size:35 final size:35
Alignment explanation
Indices: 2896--3013 Score: 175
Period size: 35 Copynumber: 3.3 Consensus size: 35
2886 TGGTAACCAA
2896 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
2932 CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTTT
1 CTTTGAAAATGGTTTTCAAAGTTTGGTAAATG-TTT
* *
2968 CTTTGAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
*
3004 -GTTGAAAATG
1 CTTTGAAAATG
3014 ATAATGGGAT
Statistics
Matches: 77, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
34 1 0.01
35 35 0.45
36 21 0.27
37 20 0.26
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (35 bp):
CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:4685 original size:4 final size:4
Alignment explanation
Indices: 4676--4706 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
4666 ATCATAACCC
4676 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
4707 AATCCGGTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:8148 original size:23 final size:23
Alignment explanation
Indices: 8122--8179 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
8112 TGAATTTATT
*
8122 TTAATTAATAATGAGAGTTTTTG
1 TTAATTAATAATGAAAGTTTTTG
* *
8145 TTAAATACTAATGAAAGTTTTTG
1 TTAATTAATAATGAAAGTTTTTG
8168 TTAATTAGATAA
1 TTAATTA-ATAA
8180 ATTTATTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 26 0.90
24 3 0.10
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.45
Consensus pattern (23 bp):
TTAATTAATAATGAAAGTTTTTG
Found at i:11683 original size:21 final size:17
Alignment explanation
Indices: 11641--11674 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
11631 CGGTGTGTCC
11641 CAACAGTGCATAAATAA
1 CAACAGTGCATAAATAA
11658 CAACAGTGCATAAATAA
1 CAACAGTGCATAAATAA
11675 ATACAAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.18, G:0.12, T:0.18
Consensus pattern (17 bp):
CAACAGTGCATAAATAA
Found at i:15614 original size:21 final size:21
Alignment explanation
Indices: 15588--15641 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
15578 TGTAAAATTA
15588 AACTTGTTATCGACCGGCACT
1 AACTTGTTATCGACCGGCACT
15609 AACTTGTTATCGACCGGCACT
1 AACTTGTTATCGACCGGCACT
15630 AACTTGTTATCG
1 AACTTGTTATCG
15642 GATTTCTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (21 bp):
AACTTGTTATCGACCGGCACT
Found at i:20058 original size:19 final size:19
Alignment explanation
Indices: 20036--20081 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
20026 AAAGTCAACG
20036 GGTCGAGTCAAACAGTTCA
1 GGTCGAGTCAAACAGTTCA
* *
20055 GGTCGGGTCAAACAGTTCG
1 GGTCGAGTCAAACAGTTCA
20074 GGTCGAGT
1 GGTCGAGT
20082 GGGACCAGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.24, C:0.20, G:0.35, T:0.22
Consensus pattern (19 bp):
GGTCGAGTCAAACAGTTCA
Found at i:23000 original size:4 final size:4
Alignment explanation
Indices: 22993--23018 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
22983 CAACAGTTAG
22993 TTTC TTTC TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TT
23019 ATGAAATTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:23157 original size:21 final size:21
Alignment explanation
Indices: 23133--23175 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
23123 TTGTACTTGC
*
23133 CACCACCATTATCATCA-TCAT
1 CACCACCATCATCA-CAGTCAT
23154 CACCACCATCATCACAGTCAT
1 CACCACCATCATCACAGTCAT
23175 C
1 C
23176 GTCATCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.33, C:0.42, G:0.02, T:0.23
Consensus pattern (21 bp):
CACCACCATCATCACAGTCAT
Found at i:28156 original size:21 final size:20
Alignment explanation
Indices: 28070--28227 Score: 88
Period size: 21 Copynumber: 7.8 Consensus size: 20
28060 AAATGACCAA
**
28070 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* **
28089 AAAAATCGCAACGCGA-TCC
1 CAAAATCGCAACGCGATTTT
** *
28108 CAAGAATCGCAAATC-AGTTTC
1 CAA-AATCGCAACGCGA-TTTT
28129 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
28150 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
28171 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
28191 CAAGAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
28212 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
28228 ACACATAAAT
Statistics
Matches: 106, Mismatches: 26, Indels: 13
0.73 0.18 0.09
Matches are distributed among these distances:
19 18 0.17
20 37 0.35
21 51 0.48
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:28256 original size:20 final size:20
Alignment explanation
Indices: 28195--28383 Score: 202
Period size: 20 Copynumber: 9.4 Consensus size: 20
28185 GATTTTCAAG
* ** *
28195 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
28215 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
28235 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
28255 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
28275 AATAGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
28295 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
28315 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
28335 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
28355 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
28375 AATCACAAC
1 AATCGCAAC
28384 ACTGAAATTT
Statistics
Matches: 143, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
19 2 0.01
20 139 0.97
21 2 0.01
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:29313 original size:12 final size:12
Alignment explanation
Indices: 29296--29320 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29286 ATATAATCCT
29296 GAAGAAGAAAAA
1 GAAGAAGAAAAA
29308 GAAGAAGAAAAA
1 GAAGAAGAAAAA
29320 G
1 G
29321 TCCCGAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:31711 original size:72 final size:72
Alignment explanation
Indices: 31618--31851 Score: 295
Period size: 72 Copynumber: 3.3 Consensus size: 72
31608 GCAACGAGAG
31618 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
31683 AAATGAA
66 AAATGAA
* * *
31690 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
31755 AAATGAA
66 AAATGAA
* * * * * *
31762 AATCGCAACGAGAGAATCG-CAATGCGAA-ATGAAAATCGCAATGC-GAAATGAAAATCGCAA--
1 AATCGCAATGCGA-AAT-GAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATG
*
31822 CG--A-GAG
64 CGAAATGAA
31828 AATCGCAATGCGGAAATGAAAATC
1 AATCGCAATGC-GAAATGAAAATC
31852 GCAATGCGAA
Statistics
Matches: 141, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
65 1 0.01
66 17 0.12
67 3 0.02
69 2 0.01
71 16 0.11
72 93 0.66
73 8 0.06
74 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (72 bp):
AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
AAATGAA
Found at i:31739 original size:53 final size:52
Alignment explanation
Indices: 31604--31873 Score: 415
Period size: 53 Copynumber: 5.1 Consensus size: 52
31594 CGGAAATTAC
*
31604 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C--AA-GAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
31651 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
31709 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
31762 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
31814 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
31867 AATCGCA
1 AATCGCA
31874 TTGCAATTCT
Statistics
Matches: 207, Mismatches: 3, Indels: 20
0.90 0.01 0.09
Matches are distributed among these distances:
47 8 0.04
49 1 0.00
50 1 0.00
52 66 0.32
53 115 0.56
55 2 0.01
56 1 0.00
57 2 0.01
58 11 0.05
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:31852 original size:72 final size:68
Alignment explanation
Indices: 31585--31873 Score: 275
Period size: 72 Copynumber: 4.1 Consensus size: 68
31575 GCATTTGACT
** * * *
31585 ATCGCAACACGGAAATTACAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAAC-AAG
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAAG
31649 AAA
66 AAA
*
31652 ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 ATCGCAATGCGGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAA
*
31717 CG-AGAGA
61 CGAAGAAA
* * * * *
31724 ATCGCAATGCGGAAATGAAAATCGCAATGCGA-AAT-GAAAAT-CGCAACGAGAGAATCGCAATG
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCG-CAATGCGAAATGA-A-AATCGCAA--
31786 CGAAATGAAA
61 CG-AA-GAAA
31796 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAA--CG
31860 AAATGAAA
63 -AA-GAAA
31868 ATCGCA
1 ATCGCA
31874 TTGCAATTCT
Statistics
Matches: 186, Mismatches: 18, Indels: 31
0.79 0.08 0.13
Matches are distributed among these distances:
65 7 0.04
66 7 0.04
67 33 0.18
69 4 0.02
70 1 0.01
71 21 0.11
72 105 0.56
73 3 0.02
74 5 0.03
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (68 bp):
ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAAG
AAA
Found at i:31893 original size:105 final size:105
Alignment explanation
Indices: 31604--31873 Score: 426
Period size: 105 Copynumber: 2.6 Consensus size: 105
31594 CGGAAATTAC
*
31604 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCCCAA--C--AA-GAAAATCGCAATGCG
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--C-
*
31663 GAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
63 G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
31709 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAG
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAG
31774 AGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
66 AGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
31814 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCA
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCA
31874 TTGCAATTCT
Statistics
Matches: 157, Mismatches: 2, Indels: 12
0.92 0.01 0.07
Matches are distributed among these distances:
105 125 0.80
106 16 0.10
108 2 0.01
109 1 0.01
110 2 0.01
111 11 0.07
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (105 bp):
AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAG
AGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:31913 original size:20 final size:20
Alignment explanation
Indices: 31888--31976 Score: 120
Period size: 20 Copynumber: 4.8 Consensus size: 20
31878 AATTCTCTCG
31888 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCCGCA
31908 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCCGCA
*
31928 TTGCGA--TTC-TCT-CG--
1 TTGCGATTTTCATTTCCGCA
31942 TTGCGATTTTCATTT-CGCA
1 TTGCGATTTTCATTTCCGCA
31961 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
31977 AACATAATGC
Statistics
Matches: 61, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
14 6 0.10
16 5 0.08
17 6 0.10
18 3 0.05
19 15 0.25
20 26 0.43
ACGTcount: A:0.13, C:0.24, G:0.16, T:0.47
Consensus pattern (20 bp):
TTGCGATTTTCATTTCCGCA
Found at i:31937 original size:54 final size:53
Alignment explanation
Indices: 31870--31976 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 53
31860 AAATGAAAAT
31870 CGCATTGCAATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTTC
1 CGCATTGCAATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATTTC
*
31924 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTC
1 CGCATTGCAATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTC
31977 AACATAATGC
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
53 20 0.38
54 32 0.62
ACGTcount: A:0.14, C:0.25, G:0.16, T:0.45
Consensus pattern (53 bp):
CGCATTGCAATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTC
Found at i:32086 original size:14 final size:14
Alignment explanation
Indices: 32067--32103 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
32057 CATCAATTAC
32067 ACAAATCAACTTTT
1 ACAAATCAACTTTT
**
32081 ACAAATCATTTTTT
1 ACAAATCAACTTTT
32095 ACAAATCAA
1 ACAAATCAA
32104 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:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:34065 original size:19 final size:19
Alignment explanation
Indices: 34023--34195 Score: 141
Period size: 19 Copynumber: 9.6 Consensus size: 19
34013 TAGTTTACTT
* *
34023 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
34043 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
34062 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
**
34081 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
34100 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
34119 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
34133 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
34152 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
* *
34166 TTGCAACGCGAAATTAAAA
1 TCGCAACGCGAAATGAAAA
*
34185 TCGCAATGCGA
1 TCGCAACGCGA
34196 TTTTGGTTTC
Statistics
Matches: 125, Mismatches: 18, Indels: 21
0.76 0.11 0.13
Matches are distributed among these distances:
14 17 0.14
15 1 0.01
16 7 0.06
17 7 0.06
18 1 0.01
19 80 0.64
20 12 0.10
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.12
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:34144 original size:33 final size:33
Alignment explanation
Indices: 34098--34190 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
34088 GCGAAACCAA
34098 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
34131 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
34164 AATTGCAACGCGAAATTAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
34191 TGCGATTTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.13
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:34226 original size:14 final size:14
Alignment explanation
Indices: 34207--34265 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
34197 TTTGGTTTCG
34207 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
34221 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
*
34238 CGCGTTGCGATTCTGT
1 --CGTTGCGATTTTGT
*
34254 CGTTGCAATTTT
1 CGTTGCGATTTT
34266 CATTTCGCGT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 22 0.59
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.30
ACGTcount: A:0.08, C:0.17, G:0.27, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:34233 original size:33 final size:33
Alignment explanation
Indices: 34191--34314 Score: 176
Period size: 33 Copynumber: 3.7 Consensus size: 33
34181 AAAATCGCAA
*
34191 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
34224 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* ** *
34257 TGCAATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* *
34290 TGCGATTTTATGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
34315 AAGTAAACTA
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
33 69 0.85
34 12 0.15
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.47
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:34245 original size:19 final size:19
Alignment explanation
Indices: 34191--34249 Score: 83
Period size: 19 Copynumber: 3.4 Consensus size: 19
34181 AAAATCGCAA
34191 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
34210 TGCGATTTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
34224 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
34243 TGCGATT
1 TGCGATT
34250 CTGTCGTTGC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 12 0.34
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 19 0.54
ACGTcount: A:0.07, C:0.15, G:0.31, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:34478 original size:83 final size:87
Alignment explanation
Indices: 34362--34634 Score: 333
Period size: 93 Copynumber: 3.1 Consensus size: 87
34352 ATGGATTGCA
* **
34362 TTAC-TTCAACCAATAGACAAAACAAAGACAAATACTGACTT-CAG-G-G-TA-TTAGTTTAGCA
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACT-ACTTACAGTGAGATACACAGTTTAGCA
34421 GAATTGGCAGCAACCGAACAAAT
65 GAATTGGCAGCAACCGAACAAAT
*
34444 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTACTT-ACAGTG----AG-ATACACAGTT
34509 TAGCAGAATTGGCAGCAACCGAACAAAT
60 TAGCAGAATTGGCAGCAACCGAACAAAT
*
34537 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTACTT-ACAGTG----AG-ATACACAGTT
*
34602 TAGCAGAATTGGCAGCAACCGAATAAAT
60 TAGCAGAATTGGCAGCAACCGAACAAAT
34630 TTACT
1 TTACT
34635 AAGCAATCTA
Statistics
Matches: 174, Mismatches: 5, Indels: 13
0.91 0.03 0.07
Matches are distributed among these distances:
82 7 0.04
83 31 0.18
84 3 0.02
85 1 0.01
90 1 0.01
92 2 0.01
93 129 0.74
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.23
Consensus pattern (87 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTACTTACAGTGAGATACACAGTTTAGCAG
AATTGGCAGCAACCGAACAAAT
Found at i:34571 original size:93 final size:93
Alignment explanation
Indices: 34412--34634 Score: 437
Period size: 93 Copynumber: 2.4 Consensus size: 93
34402 TCAGGGTATT
34412 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
34477 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
34505 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
34570 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
34598 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
34635 AAGCAATCTA
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 129 1.00
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:36350 original size:20 final size:20
Alignment explanation
Indices: 36319--36415 Score: 100
Period size: 20 Copynumber: 5.2 Consensus size: 20
36309 TTTTGGTTGA
36319 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
36339 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
36359 AAATGAAAATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
36378 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
36393 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
36413 AAT
1 AAT
36416 CGCAACGCGA
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
14 9 0.15
16 4 0.06
17 2 0.03
19 15 0.24
20 20 0.32
21 12 0.19
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:36371 original size:21 final size:21
Alignment explanation
Indices: 36317--36381 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
36307 TCTTTTGGTT
36317 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
36338 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
36358 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
36379 GAA
1 GAA
36382 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:36385 original size:14 final size:14
Alignment explanation
Indices: 36366--36422 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
36356 GAGAAATGAA
36366 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
36380 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
36399 AATCGCAACGAGAG
1 AATCGCAACGAGAG
36413 AATCGCAACG
1 AATCGCAACG
36423 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:36398 original size:33 final size:33
Alignment explanation
Indices: 36317--36439 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
36307 TCTTTTGGTT
*
36317 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAAC--GC
36358 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
36391 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
36424 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
36440 TGCGATTTTG
Statistics
Matches: 81, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
33 50 0.62
35 7 0.09
38 1 0.01
40 1 0.01
41 22 0.27
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:36475 original size:14 final size:14
Alignment explanation
Indices: 36456--36512 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
36446 TTTGGTTTCG
36456 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
36470 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
36489 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
36503 CGTTGCGATT
1 CGTTGCGATT
36513 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:36488 original size:33 final size:33
Alignment explanation
Indices: 36440--36520 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
36430 AAAATCGCAA
**
36440 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
36473 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
36506 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
36521 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:36523 original size:21 final size:21
Alignment explanation
Indices: 36497--36572 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
36487 CGCGTTGCGA
36497 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
36518 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
36538 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
36559 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
36573 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:36553 original size:41 final size:41
Alignment explanation
Indices: 36496--36573 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
36486 TCGCGTTGCG
*
36496 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
36537 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
36574 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:36694 original size:33 final size:33
Alignment explanation
Indices: 36652--36722 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
36642 AATACTAACT
36652 TGAAAATCGCAACGAGAGAATAGCAAC-GCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACAG-GAAA
* *
36685 TGAAAATCGCAACGAGAGAATCGTAACAGGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACAGGAAA
36718 TGAAA
1 TGAAA
36723 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 34 0.97
34 1 0.03
ACGTcount: A:0.49, C:0.15, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACAGGAAA
Found at i:37127 original size:20 final size:20
Alignment explanation
Indices: 37102--37274 Score: 188
Period size: 20 Copynumber: 8.6 Consensus size: 20
37092 CTTTAAAAAT
37102 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
37122 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
37142 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
37163 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
37183 CGCGTTTCTATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
37203 CACGTTGCGGTTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
37223 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
37243 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
37263 CGCGTTGCGATT
1 CGCGTTGCGATT
37275 CTTGAAAATC
Statistics
Matches: 128, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
20 110 0.86
21 18 0.14
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:37327 original size:21 final size:20
Alignment explanation
Indices: 37242--37339 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
37232 ATTTATGTGT
* *
37242 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCAAAA
*
37262 TCGCGTTGCGATTCTTGAAAA
1 TCGCGTTGCGATT-TTCAAAA
** **
37283 TCGCAATGCGAATTTGT-ACTA
1 TCGCGTTGCG-ATTT-TCAAAA
*
37304 TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTTCAA-AA
37325 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
37340 GGAAACTGAT
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
19 1 0.02
20 18 0.29
21 39 0.63
22 4 0.06
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCAAAA
Found at i:37335 original size:42 final size:43
Alignment explanation
Indices: 37242--37340 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
37232 ATTTATGTGT
* *
37242 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTCTTGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTCTTCAAAA
**
37283 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATT-TTCAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTCTTCAA-AA
*
37325 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
37341 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 12 0.26
42 32 0.68
43 3 0.06
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTCTTCAAAA
Found at i:38233 original size:2 final size:2
Alignment explanation
Indices: 38226--38261 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
38216 ACTAATAATT
38226 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
38262 ATGAATATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:38968 original size:46 final size:46
Alignment explanation
Indices: 38847--38969 Score: 187
Period size: 45 Copynumber: 2.7 Consensus size: 46
38837 AATTTCTCAC
*
38847 CATTTA-TCCCATAAGCTTGTAAGCTTATTTTAACAAAATACTTAT
1 CATTTATTCCCATAAGCTCGTAAGCTTATTTTAACAAAATACTTAT
* * * *
38892 CATTTATT-CTATAAGCTCGCAAGCTTATTTTACCAATATACTTAT
1 CATTTATTCCCATAAGCTCGTAAGCTTATTTTAACAAAATACTTAT
38937 CATTTATTCCCATAAGCTCGTAAGCTTATTTTA
1 CATTTATTCCCATAAGCTCGTAAGCTTATTTTA
38970 TATGCTTACC
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
45 46 0.67
46 23 0.33
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (46 bp):
CATTTATTCCCATAAGCTCGTAAGCTTATTTTAACAAAATACTTAT
Found at i:57211 original size:20 final size:19
Alignment explanation
Indices: 57168--57214 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
57158 GTTTTTTATG
* *
57168 AATAGTACTATATTGTATA
1 AATAGTACTATACTGTACA
*
57187 AATAGTACTAATACTGTGCA
1 AATAGTACT-ATACTGTACA
57207 AATAGTAC
1 AATAGTAC
57215 CATGAACAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.34
Consensus pattern (19 bp):
AATAGTACTATACTGTACA
Found at i:57854 original size:31 final size:31
Alignment explanation
Indices: 57817--57936 Score: 161
Period size: 31 Copynumber: 3.9 Consensus size: 31
57807 GAAGAACCAA
*
57817 TCCATATATTCCGAAGAACATCA-GTAATCAG
1 TCCATATGTTCCGAAGAACAT-AGGTAATCAG
* * *
57848 TTCATATGTTTCGAAGAACATAGGTAAACAG
1 TCCATATGTTCCGAAGAACATAGGTAATCAG
* *
57879 TCCATATGTCCCGAAGAACATATGTAATCAG
1 TCCATATGTTCCGAAGAACATAGGTAATCAG
*
57910 TCCATATGTTTCGAAGAACATAGGTAA
1 TCCATATGTTCCGAAGAACATAGGTAA
57937 ACCCTCTACT
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
30 1 0.01
31 75 0.99
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28
Consensus pattern (31 bp):
TCCATATGTTCCGAAGAACATAGGTAATCAG
Found at i:57916 original size:62 final size:62
Alignment explanation
Indices: 57817--57938 Score: 201
Period size: 62 Copynumber: 2.0 Consensus size: 62
57807 GAAGAACCAA
* *
57817 TCCATATATTCCGAAGAACATCAGTAATCAGTTCATATGTTTCGAAGAACATAGGTAAACAG
1 TCCATATATCCCGAAGAACATCAGTAATCAGTCCATATGTTTCGAAGAACATAGGTAAACAG
*
57879 TCCATATGTCCCGAAGAACAT-ATGTAATCAGTCCATATGTTTCGAAGAACATAGGTAAAC
1 TCCATATATCCCGAAGAACATCA-GTAATCAGTCCATATGTTTCGAAGAACATAGGTAAAC
57939 CCTCTACTCT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
61 1 0.02
62 55 0.98
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (62 bp):
TCCATATATCCCGAAGAACATCAGTAATCAGTCCATATGTTTCGAAGAACATAGGTAAACAG
Found at i:58898 original size:65 final size:65
Alignment explanation
Indices: 58770--58925 Score: 230
Period size: 65 Copynumber: 2.4 Consensus size: 65
58760 CTAAGAGTGA
* *
58770 ATCGATGCATGAAATGCATTCGATG-TTTCAAAATAGCTAGAGTGCATCGATGCATGGCTTGTGC
1 ATCGATGCATAAAATGCATTCGATGTTTTCAAAATACCTAGAGTGCATCGATGCATGGCTTGTGC
*
58834 ATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCT-GAGTGCATCGATGCATGG-TATG
1 ATCGATGCATAAAATGCATTCGATGTTTTCA-AAATA-CCTAGAGTGCATCGATGCATGGCT-TG
58896 TGC
63 TGC
58899 ATCGATGCATAAAATGCATTCGATGTT
1 ATCGATGCATAAAATGCATTCGATGTT
58926 CAATTTATTC
Statistics
Matches: 85, Mismatches: 3, Indels: 7
0.89 0.03 0.07
Matches are distributed among these distances:
64 25 0.29
65 55 0.65
66 5 0.06
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31
Consensus pattern (65 bp):
ATCGATGCATAAAATGCATTCGATGTTTTCAAAATACCTAGAGTGCATCGATGCATGGCTTGTGC
Found at i:58964 original size:65 final size:64
Alignment explanation
Indices: 58770--58973 Score: 229
Period size: 65 Copynumber: 3.2 Consensus size: 64
58760 CTAAGAGTGA
* * * *
58770 ATCGATGCATGAAATGCATTCGATGTTTCAAAATAGCTA-GAGTGCATCGATGCATGGCTTGTGC
1 ATCGATGCATAAAATGCATTCGATGTTTCAATATATCCATGAGTGCATCGATGCATGG-TTGTGC
* *
58834 ATCGATGCATCAAATGCATTCGATGTTTTC-ATAAAATCC-TGAGTGCATCGATGCATGGTATGT
1 ATCGATGCATAAAATGCATTCGATG-TTTCAAT-ATATCCATGAGTGCATCGATGCATGGT-TGT
58897 GC
63 GC
* *
58899 ATCGATGCATAAAATGCATTCGATG-TTCAATTTATTCCATG-GTGCATCAATGCATGGATTGGT
1 ATCGATGCATAAAATGCATTCGATGTTTCAATATA-TCCATGAGTGCATCGATGCATGG-TT-GT
58962 GC
63 GC
*
58964 ATCGGTGCAT
1 ATCGATGCAT
58974 CACTTTGAAA
Statistics
Matches: 121, Mismatches: 10, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
63 4 0.03
64 47 0.39
65 70 0.58
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (64 bp):
ATCGATGCATAAAATGCATTCGATGTTTCAATATATCCATGAGTGCATCGATGCATGGTTGTGC
Done.