Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004863.1 Hibiscus syriacus cultivar Beakdansim tig00010969_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: 52063
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:4832 original size:54 final size:54
Alignment explanation
Indices: 4730--5211 Score: 734
Period size: 54 Copynumber: 8.9 Consensus size: 54
4720 TGAATATTTC
* * * * * * *
4730 AACTCATTATAAATTCTGTGGTTTTGCACATATATTGCCGCTACGGTAATTCACA
1 AACTCATTATGAATTATGTGG-GTTGCACACATAGTGTCGATACGGTAATTCACA
4785 AACTCATTATGAATTATGTGGGTTGCACACATAGTGTCGATACGGTAATTCACA
1 AACTCATTATGAATTATGTGGGTTGCACACATAGTGTCGATACGGTAATTCACA
4839 AACTCATTATGAATTATGTGGGTTGCACACATAGTGTCGATACGGTAATTCACA
1 AACTCATTATGAATTATGTGGGTTGCACACATAGTGTCGATACGGTAATTCACA
4893 AACTCATTATGAATTATGTGGGTTGCACACATAGTGTCGATACGGTAATTCACA
1 AACTCATTATGAATTATGTGGGTTGCACACATAGTGTCGATACGGTAATTCACA
* ** *
4947 AACTCATTATGAATTACGTGGGTTGCACACATAGTGTCGATATAGTAATTCATA
1 AACTCATTATGAATTATGTGGGTTGCACACATAGTGTCGATACGGTAATTCACA
* **
5001 AACTCATTATGAATTAAT-TGGGTTGCACATATAGTGTCGATATAGTAATTCACA
1 AACTCATTATGAATT-ATGTGGGTTGCACACATAGTGTCGATACGGTAATTCACA
*
5055 AACTCATTATGAATTACGTGGGTTGCACACATAGT-TCCGATACGGTAATTCACA
1 AACTCATTATGAATTATGTGGGTTGCACACATAGTGT-CGATACGGTAATTCACA
* *
5109 AACTCATTATGAATTATGTGGGTTTCACACATACTGTCGATACGGTAATTCACA
1 AACTCATTATGAATTATGTGGGTTGCACACATAGTGTCGATACGGTAATTCACA
* * * *
5163 AACTCATTATGGATTACGTGGGTTGCACACATAGTGCCGATACAGTAAT
1 AACTCATTATGAATTATGTGGGTTGCACACATAGTGTCGATACGGTAAT
5212 GCAACATATA
Statistics
Matches: 396, Mismatches: 27, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
53 2 0.01
54 373 0.94
55 21 0.05
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (54 bp):
AACTCATTATGAATTATGTGGGTTGCACACATAGTGTCGATACGGTAATTCACA
Found at i:6824 original size:17 final size:18
Alignment explanation
Indices: 6784--6827 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
6774 AGTATGGAGG
*
6784 ATGAAGAGAGATGAGAGA
1 ATGAAGAGAGATAAGAGA
*
6802 AAGAAGA-AGATAAGAGA
1 ATGAAGAGAGATAAGAGA
*
6819 GTGAAGAGA
1 ATGAAGAGA
6828 ATGAGAAAGG
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.55, C:0.00, G:0.36, T:0.09
Consensus pattern (18 bp):
ATGAAGAGAGATAAGAGA
Found at i:7303 original size:31 final size:30
Alignment explanation
Indices: 7217--7307 Score: 103
Period size: 31 Copynumber: 3.0 Consensus size: 30
7207 CCAAAATATG
* *
7217 AAAAATTATGATTTATACCTTTAAAAGTTTTA
1 AAAAATTATAATTTAAACCTTT-AAA-TTTTA
* * *
7249 AAAAATT-TAATTTGATCCCTTAAATTTTGA
1 AAAAATTATAATTTAAACCTTTAAATTTT-A
7279 AAAAATTATAATTTAAACCTTTAAATTTT
1 AAAAATTATAATTTAAACCTTTAAATTTT
7308 TCAAATTTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 4 0.08
30 11 0.22
31 27 0.55
32 7 0.14
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (30 bp):
AAAAATTATAATTTAAACCTTTAAATTTTA
Found at i:12676 original size:21 final size:20
Alignment explanation
Indices: 12620--12677 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
12610 CGCGGTTATC
* *
12620 CAAAATTGCAACGCCATTTT
1 CAAATTTGCAACGCGATTTT
*
12640 CTAAATTCGCAACGCGATTTTT
1 C-AAATTTGCAACGCGA-TTTT
12662 CAAATTTGCAACGCGA
1 CAAATTTGCAACGCGA
12678 ATATGTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 1 0.03
21 26 0.81
22 5 0.16
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (20 bp):
CAAATTTGCAACGCGATTTT
Found at i:12687 original size:21 final size:21
Alignment explanation
Indices: 12641--12700 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
12631 CGCCATTTTC
* *
12641 TAAATTCGCAACGCG-ATTTT
1 TAAATTCGCAACGCGAATATG
*
12661 TCAAATTTGCAACGCGAATATG
1 T-AAATTCGCAACGCGAATATG
*
12683 TAAA-TCGCAACGCTAATA
1 TAAATTCGCAACGCGAATA
12701 ACCGATATAG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 13 0.39
21 16 0.48
22 4 0.12
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (21 bp):
TAAATTCGCAACGCGAATATG
Found at i:12840 original size:20 final size:20
Alignment explanation
Indices: 12801--12849 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
12791 AATAGTACTA
12801 TCGCAACGCGATTTATAAAT
1 TCGCAACGCGATTTATAAAT
* *
12821 TTGCAATGCGATTT-TCAAAT
1 TCGCAACGCGATTTAT-AAAT
12841 TCGCAACGC
1 TCGCAACGC
12850 TAATTATCGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (20 bp):
TCGCAACGCGATTTATAAAT
Found at i:12902 original size:20 final size:20
Alignment explanation
Indices: 12877--12925 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
12867 AAACAGTGTT
*
12877 ATCGCAACG-TGAATGTGTAA
1 ATCGCAACGAT-AATATGTAA
12897 ATCGCAACGATAATATGTAA
1 ATCGCAACGATAATATGTAA
12917 ATCGCAACG
1 ATCGCAACG
12926 CGATTTTCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.22
Consensus pattern (20 bp):
ATCGCAACGATAATATGTAA
Found at i:13010 original size:57 final size:57
Alignment explanation
Indices: 12921--13061 Score: 201
Period size: 57 Copynumber: 2.5 Consensus size: 57
12911 ATGTAAATCG
* * * *
12921 CAACGCGATTTTCCAAAATCGCAACGCTAATTACCGATGTAGGTAAACAGTACTATCA
1 CAACGCGATTTT-CAAATTCGCAACGCCAATTACAGACGTAGGTAAACAGTACTATCA
* *
12979 CAACGCGATTTTCAAATTCGCAACGCCAATTACAGACGTAGGTAAACAGTATTATCG
1 CAACGCGATTTTCAAATTCGCAACGCCAATTACAGACGTAGGTAAACAGTACTATCA
* *
13036 TAACACGATTTTCAAATTCGCAACGC
1 CAACGCGATTTTCAAATTCGCAACGC
13062 GATTTTTAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
57 63 0.84
58 12 0.16
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (57 bp):
CAACGCGATTTTCAAATTCGCAACGCCAATTACAGACGTAGGTAAACAGTACTATCA
Found at i:13066 original size:20 final size:20
Alignment explanation
Indices: 13041--13081 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
13031 TATCGTAACA
13041 CGATTTTCAAATTCGCAACG
1 CGATTTTCAAATTCGCAACG
*
13061 CGATTTTTAAATTCGCAACG
1 CGATTTTCAAATTCGCAACG
13081 C
1 C
13082 TAATTACCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (20 bp):
CGATTTTCAAATTCGCAACG
Found at i:13124 original size:77 final size:77
Alignment explanation
Indices: 12646--13124 Score: 318
Period size: 77 Copynumber: 6.2 Consensus size: 77
12636 TTTTCTAAAT
* * * *
12646 TCGCAACGCGATTTTTCAAATTTGCAACGCGAATATGT-AAA-TCGCAACGCTAATAACCGATAT
1 TCGCAACGCGA-TTTTCAAATTCGCAACGCG-AT-TTTCAAATTCGCAACGCTAATTACCAATAT
12709 AGGTAAACAGTATTA
63 AGGTAAACAGTATTA
** * * * ** *
12724 TAACAATGCAATTTACAAATTCGCAACGCGATTTTCAAATTTACAACGCTAATTACCGATATAGG
1 TCGCAACGCGATTTTCAAATTCGCAACGCGATTTTCAAATTCGCAACGCTAATTACCAATATAGG
* *
12789 TAAATAGTACTA
66 TAAACAGTATTA
* * * *
12801 TCGCAACGCGATTTAT-AAATTTGCAATGCGATTTTCAAATTCGCAACGCTAATTATCGATATAG
1 TCGCAACGCGATTT-TCAAATTCGCAACGCGATTTTCAAATTCGCAACGCTAATTACCAATATAG
*
12865 GTAAACAGTGTTA
65 GTAAACAGTATTA
* * ** * * * * *
12878 TCGCAACGTGAATGTGT-AAA-TCGCAACGATAATATGT-AAA-TCGCAACGCGATTTTCCAAAA
1 TCGCAACGCG-AT-TTTCAAATTCGCAACG-CGAT-TTTCAAATTCGCAACGCTAATTACCAATA
* *
12939 T-CG-CAAC-GCTAATTA
62 TAGGTAAACAG-T-ATTA
* * * * *** * * * *
12954 -C-CGATGTAGGTAAACAGTACTATCACAACGCGATTTTCAAATTCGCAACGCCAATTA-CAGAC
1 TCGCAACG-CGATTTTCA--AAT-TCGCAACGCGATTTTCAAATTCGCAACGCTAATTACCA-AT
*
13016 GTAGGTAAACAGTATTA
61 ATAGGTAAACAGTATTA
* * *
13033 TCGTAACACGATTTTCAAATTCGCAACGCGATTTTTAAATTCGCAACGCTAATTACCAATATAGG
1 TCGCAACGCGATTTTCAAATTCGCAACGCGATTTTCAAATTCGCAACGCTAATTACCAATATAGG
*
13098 TAAACAGTACTA
66 TAAACAGTATTA
13110 TCGCAACGCGATTTT
1 TCGCAACGCGATTTT
13125 AGAAACTGTG
Statistics
Matches: 299, Mismatches: 78, Indels: 49
0.70 0.18 0.12
Matches are distributed among these distances:
74 6 0.02
75 8 0.03
76 12 0.04
77 211 0.71
78 43 0.14
79 8 0.03
80 9 0.03
81 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (77 bp):
TCGCAACGCGATTTTCAAATTCGCAACGCGATTTTCAAATTCGCAACGCTAATTACCAATATAGG
TAAACAGTATTA
Found at i:13142 original size:20 final size:20
Alignment explanation
Indices: 13117--13204 Score: 74
Period size: 20 Copynumber: 4.4 Consensus size: 20
13107 CTATCGCAAC
*
13117 GCGATTTTAGAAACTGTGTT
1 GCGATTTTACAAACTGTGTT
* *
13137 GCGA-TTTACAAATTCGCGTT
1 GCGATTTTACAAACT-GTGTT
* * *
13157 GCGATTTTAGAAACTATATT
1 GCGATTTTACAAACTGTGTT
13177 GCGA-TTTACAAATTCT-TGTT
1 GCGATTTTACAAA--CTGTGTT
13197 GCGATTTT
1 GCGATTTT
13205 GGAACTTGTG
Statistics
Matches: 53, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
19 15 0.28
20 25 0.47
21 13 0.25
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (20 bp):
GCGATTTTACAAACTGTGTT
Found at i:13179 original size:40 final size:40
Alignment explanation
Indices: 13117--13204 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 40
13107 CTATCGCAAC
* *
13117 GCGATTTTAGAAACTGTGTTGCGATTTACAAATTCGCGTT
1 GCGATTTTAGAAACTATATTGCGATTTACAAATTCGCGTT
**
13157 GCGATTTTAGAAACTATATTGCGATTTACAAATTCTTGTT
1 GCGATTTTAGAAACTATATTGCGATTTACAAATTCGCGTT
13197 GCGATTTT
1 GCGATTTT
13205 GGAACTTGTG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (40 bp):
GCGATTTTAGAAACTATATTGCGATTTACAAATTCGCGTT
Found at i:14891 original size:80 final size:80
Alignment explanation
Indices: 14746--14908 Score: 200
Period size: 80 Copynumber: 2.0 Consensus size: 80
14736 ATGACCTCAA
* * **
14746 GTTATACCAAACGCGAGGTACCCGAGATATTGAAACGTCCCCGAGAATTTGAAGTATCATTTCTT
1 GTTATACCAAACGCGAAGTACCCGAGATATTGAAACATCCCCGAGAATTTGAAGTATCACGTCTT
14811 TTGAATGGCCCTCGC
66 TTGAATGGCCCTCGC
* * * *** **
14826 GTTATACCAAACGTGAAGTACCTGAGATATTGAAGCATCTTTGAGAATTTGAAGTATTGCGTCTT
1 GTTATACCAAACGCGAAGTACCCGAGATATTGAAACATCCCCGAGAATTTGAAGTATCACGTCTT
**
14891 TTGAATGGGTCTCGC
66 TTGAATGGCCCTCGC
14906 GTT
1 GTT
14909 TTGTGTAACC
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 69 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (80 bp):
GTTATACCAAACGCGAAGTACCCGAGATATTGAAACATCCCCGAGAATTTGAAGTATCACGTCTT
TTGAATGGCCCTCGC
Found at i:16719 original size:95 final size:95
Alignment explanation
Indices: 16556--16734 Score: 263
Period size: 95 Copynumber: 1.9 Consensus size: 95
16546 ATAAATGGAT
*
16556 ACCAACACGCCAGAGAAACCAAAAGGAAAACTTCGTCCTAGACTTGTGTTCTTGGTATCGTCTAT
1 ACCAACACGCCAGAGAAACCAAAAGGAAAACTTCGTCCTAGAATTGTGTTCTTGGTATCGTCTAT
*
16621 ACAAAATGTAAAGGAAAAAGCTAAACACTA
66 ACAAAATGGAAAGGAAAAAGCTAAACACTA
* * * *
16651 ACCAACATGCTAGAGAAACCCAAAGGAAAACTTCGTCTTAGAATTGTGTTCTTGGTA-CTGT-TG
1 ACCAACACGCCAGAGAAACCAAAAGGAAAACTTCGTCCTAGAATTGTGTTCTTGGTATC-GTCT-
*
16714 GTACAAAATGGAAAGGAAAAA
64 ATACAAAATGGAAAGGAAAAA
16735 AACTCAGTAG
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
94 2 0.03
95 73 0.97
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.22
Consensus pattern (95 bp):
ACCAACACGCCAGAGAAACCAAAAGGAAAACTTCGTCCTAGAATTGTGTTCTTGGTATCGTCTAT
ACAAAATGGAAAGGAAAAAGCTAAACACTA
Found at i:21076 original size:19 final size:20
Alignment explanation
Indices: 21052--21123 Score: 58
Period size: 19 Copynumber: 3.5 Consensus size: 20
21042 AGCTAAGTTT
21052 GGTATCGATACCA-GAAGGG
1 GGTATCGATACCACGAAGGG
* *
21071 GGTATCAATACCACAATAGGG
1 GGTATCGATACCACGA-AGGG
* * *
21092 TAGTATCGATACCATGGTA-GG
1 -GGTATCGATACCA-CGAAGGG
21113 GGTATCGATAC
1 GGTATCGATAC
21124 TGAAGAGCCA
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
19 12 0.29
20 11 0.27
21 6 0.15
22 12 0.29
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (20 bp):
GGTATCGATACCACGAAGGG
Found at i:21124 original size:95 final size:95
Alignment explanation
Indices: 20902--21124 Score: 283
Period size: 95 Copynumber: 2.4 Consensus size: 95
20892 ATACTGATGA
* * * * *
20902 GGTAGTAT--ATACCATGGTGAGGGTATTGATACCAGGTAACATCGAACCTAATTTTGGTATCGA
1 GGTAGTATCGATACCATGGTGAGGGTATCGATACTAAGCAACATCGAACCTAAGTTTGGTATCGA
* * * *
20965 TACCGGAAAGGGGTATCGATACCCTAGTAT
66 TACCAGAAAGGGGTATCAATACCCTAATAG
* * *
20995 AGTAGTATCGATACCATGGTGAGGGTATCGATACTAAGCCACATCGAAGCTAAGTTTGGTATCGA
1 GGTAGTATCGATACCATGGTGAGGGTATCGATACTAAGCAACATCGAACCTAAGTTTGGTATCGA
*
21060 TACCAGAAGGGGGTATCAATACCAC-AATAG
66 TACCAGAAAGGGGTATCAATACC-CTAATAG
21090 GGTAGTATCGATACCATGGT-AGGGGTATCGATACT
1 GGTAGTATCGATACCATGGTGA-GGGTATCGATACT
21125 GAAGAGCCAA
Statistics
Matches: 112, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
93 7 0.06
94 1 0.01
95 103 0.92
96 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (95 bp):
GGTAGTATCGATACCATGGTGAGGGTATCGATACTAAGCAACATCGAACCTAAGTTTGGTATCGA
TACCAGAAAGGGGTATCAATACCCTAATAG
Found at i:21518 original size:59 final size:59
Alignment explanation
Indices: 21454--21812 Score: 547
Period size: 59 Copynumber: 6.1 Consensus size: 59
21444 ATAACACTAA
* *
21454 GTGTGCTAAAATAATAAGGAAATCATACTAAGTGTATGAATTTTCAGATAGGGCACTTC
1 GTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
*
21513 ATGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
1 GTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
* * * * *
21572 TTGTGTTAAACTGATAAGGAAATTATATTAAGTGTATGAATTTCCAGATAGGGCACTTC
1 GTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
* **
21631 GTGTGCTAAATTGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTAA
1 GTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
** * *
21690 GTGTGCTAAAATGATAATAAAATAATACTAAGTGTATGAATTTCCAGATAGGGCACTTT
1 GTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
* * * *
21749 GTGTGCTAAACTGATAAGGAAATCATACTATGTGTGTGAATTTCTAGATAGGGCACTTC
1 GTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
21808 GTGTG
1 GTGTG
21813 ATAGGGCACT
Statistics
Matches: 271, Mismatches: 29, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 271 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.31
Consensus pattern (59 bp):
GTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
Found at i:21761 original size:177 final size:177
Alignment explanation
Indices: 21454--22046 Score: 821
Period size: 177 Copynumber: 3.3 Consensus size: 177
21444 ATAACACTAA
* *
21454 GTGTGCTAAAATAATAAGGAAATCATACTAAGTGTATGAATTTTCAGATAGGGCACTTCA-TGTG
1 GTGTGCTAAAATAATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCAC-TAAGTGTG
*
21518 CTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCT-TGTGTTAAA
65 CTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTT-TGTGTGCTAAA
* *
21582 CTGATAAGGAAATTATATTAAGTGTATGAATTTCCAGATAGGGCACTTC
129 CTGATAAGGAAATTATACTAAGTGTATGAATTTCTAGATAGGGCACTTC
* *
21631 GTGTGCTAAATTGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTAAGTGTGC
1 GTGTGCTAAAATAATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTAAGTGTGC
** *
21696 TAAAATGATAATAAAATAATACTAAGTGTATGAATTTCCAGATAGGGCACTTTGTGTGCTAAACT
66 TAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTTGTGTGCTAAACT
* * *
21761 GATAAGGAAATCATACTATGTGTGTGAATTTCTAGATAGGGCACTTC
131 GATAAGGAAATTATACTAAGTGTATGAATTTCTAGATAGGGCACTTC
*
21808 GTGTGATAGGGCACTAAGTGTGCTAAACTGATAAGGAAATCATACTAAGTGTATGAATTTCCAGA
1 --GTG-T---G--CT-A-------AAA-TAATAAGGAAATCATACTAAGTGTATGAATTTCCAGA
21873 TAGGGCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGC
49 TAGGGCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGC
** * **
21938 ACTAAGTGTGCTAAAATGATAAGGAAATTATACTAAGTGTATGAATTTCTAGATAGGGCACTAA
114 ACTTTGTGTGCTAAACTGATAAGGAAATTATACTAAGTGTATGAATTTCTAGATAGGGCACTTC
*
22002 GTGTGCTAAAATAATAAGGAAATCATACTAATTGTATGAATTTCC
1 GTGTGCTAAAATAATAAGGAAATCATACTAAGTGTATGAATTTCC
22047 TATTGAATTT
Statistics
Matches: 370, Mismatches: 27, Indels: 38
0.85 0.06 0.09
Matches are distributed among these distances:
176 3 0.01
177 191 0.52
178 3 0.01
179 3 0.01
180 1 0.00
183 1 0.00
185 3 0.01
186 3 0.01
188 1 0.00
191 1 0.00
192 3 0.01
193 2 0.01
194 155 0.42
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (177 bp):
GTGTGCTAAAATAATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTAAGTGTGC
TAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTTGTGTGCTAAACT
GATAAGGAAATTATACTAAGTGTATGAATTTCTAGATAGGGCACTTC
Found at i:21828 original size:17 final size:17
Alignment explanation
Indices: 21795--21829 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
21785 TGAATTTCTA
**
21795 GATAGGGCACTTCGTGT
1 GATAGGGCACTAAGTGT
21812 GATAGGGCACTAAGTGT
1 GATAGGGCACTAAGTGT
21829 G
1 G
21830 CTAAACTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.14, G:0.37, T:0.26
Consensus pattern (17 bp):
GATAGGGCACTAAGTGT
Found at i:21865 original size:76 final size:76
Alignment explanation
Indices: 21736--21881 Score: 247
Period size: 76 Copynumber: 1.9 Consensus size: 76
21726 TGAATTTCCA
** * * *
21736 GATAGGGCACTTTGTGTGCTAAACTGATAAGGAAATCATACTATGTGTGTGAATTTCTAGATAGG
1 GATAGGGCACTAAGTGTGCTAAACTGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGG
21801 GCACTTCGTGT
66 GCACTTCGTGT
21812 GATAGGGCACTAAGTGTGCTAAACTGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGG
1 GATAGGGCACTAAGTGTGCTAAACTGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGG
21877 GCACT
66 GCACT
21882 AAGTGTGCTA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 65 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (76 bp):
GATAGGGCACTAAGTGTGCTAAACTGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGG
GCACTTCGTGT
Found at i:21904 original size:59 final size:59
Alignment explanation
Indices: 21812--22046 Score: 425
Period size: 59 Copynumber: 4.0 Consensus size: 59
21802 CACTTCGTGT
*
21812 GATAGGGCACTAAGTGTGCTAAACTGATAAGGAAATCATACTAAGTGTATGAATTTCCA
1 GATAGGGCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCA
21871 GATAGGGCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCA
1 GATAGGGCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCA
* *
21930 GATAGGGCACTAAGTGTGCTAAAATGATAAGGAAATTATACTAAGTGTATGAATTTCTA
1 GATAGGGCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCA
* *
21989 GATAGGGCACTAAGTGTGCTAAAATAATAAGGAAATCATACTAATTGTATGAATTTCC
1 GATAGGGCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCC
22047 TATTGAATTT
Statistics
Matches: 169, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 169 1.00
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (59 bp):
GATAGGGCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCA
Found at i:21924 original size:135 final size:135
Alignment explanation
Indices: 21677--21940 Score: 438
Period size: 135 Copynumber: 2.0 Consensus size: 135
21667 TGAATTTCCA
*
21677 GATAGGGCACTAAGTGTGCTAAAATGATAATAAAATAATACTAAGTGTATGAATTTCCAGATAGG
1 GATAGGGCACTAAGTGTGCTAAAATGATAAGAAAATAATACTAAGTGTATGAATTTCCAGATAGG
** * * * *
21742 GCACTTTGTGTGCTAAACTGATAAGGAAATCATACTATGTGTGTGAATTTCTAGATAGGGCACTT
66 GCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTT
21807 CGTGT
131 CGTGT
* * *
21812 GATAGGGCACTAAGTGTGCTAAACTGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGG
1 GATAGGGCACTAAGTGTGCTAAAATGATAAGAAAATAATACTAAGTGTATGAATTTCCAGATAGG
21877 GCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACT
66 GCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACT
21941 AAGTGTGCTA
Statistics
Matches: 119, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
135 119 1.00
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (135 bp):
GATAGGGCACTAAGTGTGCTAAAATGATAAGAAAATAATACTAAGTGTATGAATTTCCAGATAGG
GCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTT
CGTGT
Found at i:21949 original size:194 final size:194
Alignment explanation
Indices: 21618--21999 Score: 656
Period size: 194 Copynumber: 2.0 Consensus size: 194
21608 TGAATTTCCA
** *
21618 GATAGGGCACTTCGTGTGCTAAATTGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGG
1 GATAGGGCACTAAGTGTGCTAAACTGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGG
* *
21683 GCACTAAGTGTGCTAAAATGATAATAAAATAATACTAAGTGTATGAATTTCCAGATAGGGCACTT
66 GCACTAAGTGTGCTAAAATGATAAGAAAATAATACTAAGTGTATGAATTTCCAGATAGGGCACTA
* * * *
21748 TGTGTGCTAAACTGATAAGGAAATCATACTATGTGTGTGAATTTCTAGATAGGGCACTTCGTGT
131 AGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGGCACTTCGTGT
21812 GATAGGGCACTAAGTGTGCTAAACTGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGG
1 GATAGGGCACTAAGTGTGCTAAACTGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGG
* *
21877 GCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTA
66 GCACTAAGTGTGCTAAAATGATAAGAAAATAATACTAAGTGTATGAATTTCCAGATAGGGCACTA
*
21942 AGTGTGCTAAAATGATAAGGAAATTATACTAAGTGTATGAATTTCTAGATAGGGCACT
131 AGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGGCACT
22000 AAGTGTGCTA
Statistics
Matches: 176, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
194 176 1.00
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (194 bp):
GATAGGGCACTAAGTGTGCTAAACTGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGG
GCACTAAGTGTGCTAAAATGATAAGAAAATAATACTAAGTGTATGAATTTCCAGATAGGGCACTA
AGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGGCACTTCGTGT
Found at i:22008 original size:253 final size:253
Alignment explanation
Indices: 21559--22045 Score: 796
Period size: 253 Copynumber: 1.9 Consensus size: 253
21549 TGAATTTCCA
*** * * *
21559 GATAGGGCACTTCTTGTGTTAAACTGATAAGGAAATTATATTAAGTGTATGAATTTCCAGATAGG
1 GATAGGGCACTAAGTGTGCTAAACTGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGG
** *
21624 GCACTTCGTGTGCTAAATTGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTA
66 GCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTA
* **
21689 AGTGTGCTAAAATGATAATAAAATAATACTAAGTGTATGAATTTCCAGATAGGGCACTTTGTGTG
131 AGTGTGCTAAAATGATAAGAAAATAATACTAAGTGTATGAATTTCCAGATAGGGCACTAAGTGTG
* * *
21754 CTAAACTGATAAGGAAATCATACT-ATGTGTGTGAATTTCTAGATAGGGCACTTCGTGT
196 CTAAAATAATAAGGAAATCATACTAAT-TGTATGAATTTCTAGATAGGGCACTTCGTGT
21812 GATAGGGCACTAAGTGTGCTAAACTGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGG
1 GATAGGGCACTAAGTGTGCTAAACTGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGG
21877 GCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTA
66 GCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTA
* * *
21942 AGTGTGCTAAAATGATAAGGAAATTATACTAAGTGTATGAATTTCTAGATAGGGCACTAAGTGTG
131 AGTGTGCTAAAATGATAAGAAAATAATACTAAGTGTATGAATTTCCAGATAGGGCACTAAGTGTG
22007 CTAAAATAATAAGGAAATCATACTAATTGTATGAATTTC
196 CTAAAATAATAAGGAAATCATACTAATTGTATGAATTTC
22046 CTATTGAATT
Statistics
Matches: 215, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
253 213 0.99
254 2 0.01
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.30
Consensus pattern (253 bp):
GATAGGGCACTAAGTGTGCTAAACTGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGG
GCACTAAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTA
AGTGTGCTAAAATGATAAGAAAATAATACTAAGTGTATGAATTTCCAGATAGGGCACTAAGTGTG
CTAAAATAATAAGGAAATCATACTAATTGTATGAATTTCTAGATAGGGCACTTCGTGT
Found at i:26780 original size:21 final size:21
Alignment explanation
Indices: 26754--26820 Score: 86
Period size: 20 Copynumber: 3.3 Consensus size: 21
26744 ACAAGAAGTT
26754 TCGATACTGATTGA-ATCAGTA
1 TCGATACTGATTGAGAT-AGTA
*
26775 TCGATACTGA-TGAGGTAGTA
1 TCGATACTGATTGAGATAGTA
*
26795 TCGATACTGA-TGAGGTAGTA
1 TCGATACTGATTGAGATAGTA
26815 TCGATA
1 TCGATA
26821 GCATGGTGAG
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
20 33 0.75
21 11 0.25
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (21 bp):
TCGATACTGATTGAGATAGTA
Found at i:26796 original size:20 final size:20
Alignment explanation
Indices: 26771--26841 Score: 101
Period size: 20 Copynumber: 3.5 Consensus size: 20
26761 TGATTGAATC
26771 AGTATCGATACTGATGAGGT
1 AGTATCGATACTGATGAGGT
26791 AGTATCGATACTGATGAGGT
1 AGTATCGATACTGATGAGGT
*
26811 AGTATCGATAGCATGGTGAGG-
1 AGTATCGATA-C-TGATGAGGT
26832 -GTATCGATAC
1 AGTATCGATAC
26842 CAGGTAACAT
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
19 1 0.02
20 39 0.81
21 1 0.02
22 7 0.15
ACGTcount: A:0.30, C:0.11, G:0.31, T:0.28
Consensus pattern (20 bp):
AGTATCGATACTGATGAGGT
Found at i:26836 original size:40 final size:40
Alignment explanation
Indices: 26754--26841 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
26744 ACAAGAAGTT
26754 TCGATACTGATTGAATCAGTATCGATACTGATGAGGTAGTA
1 TCGATACTGATTGAATCAGTATCGATACTGATGAGG-AGTA
* *
26795 TCGATACTGA-TGAGGT-AGTATCGATAGCATGGTGAGG-GTA
1 TCGATACTGATTGA-ATCAGTATCGATA-C-TGATGAGGAGTA
26835 TCGATAC
1 TCGATAC
26842 CAGGTAACAT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
40 23 0.55
41 12 0.29
42 7 0.17
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (40 bp):
TCGATACTGATTGAATCAGTATCGATACTGATGAGGAGTA
Found at i:26934 original size:95 final size:94
Alignment explanation
Indices: 26807--27031 Score: 276
Period size: 95 Copynumber: 2.4 Consensus size: 94
26797 GATACTGATG
* * *
26807 AGGTAGTATCGATAGCATGGTGAGGGTATCGATACCAGGTAACATCGAACCTAATTTTGGTATCG
1 AGGTAGTATCGATACCATGGTGAGGGTATCGATACCAGGCAACATCGAACCTAAGTTTGGTATCG
* **
26872 ATACCGGAAAGAGGTATCGGTACC-CTAGCAT
66 ATACCAGAAAGAGGTATCAATACCAC-A--AT
* * * *
26903 A-GTAGTACCGATACCATGGTGAGGGTATCGATACCAGGCCACATCGAAGCTAAGTTTGGTATTG
1 AGGTAGTATCGATACCATGGTGAGGGTATCGATACCAGGCAACATCGAACCTAAGTTTGGTATCG
* *
26967 ATACCAGAAGGGGGTATCAATACCACAAT
66 ATACCAGAAAGAGGTATCAATACCACAAT
26996 AGGGTAGTATCGATACCATGGT-AGGGGTATCGATAC
1 A-GGTAGTATCGATACCATGGTGA-GGGTATCGATAC
27032 TGAAGAGCCA
Statistics
Matches: 112, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
93 3 0.03
94 1 0.01
95 106 0.95
96 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.24
Consensus pattern (94 bp):
AGGTAGTATCGATACCATGGTGAGGGTATCGATACCAGGCAACATCGAACCTAAGTTTGGTATCG
ATACCAGAAAGAGGTATCAATACCACAAT
Found at i:27427 original size:59 final size:59
Alignment explanation
Indices: 27354--27937 Score: 794
Period size: 59 Copynumber: 9.9 Consensus size: 59
27344 ATTACCAAAT
* *
27354 GGCACTAAGTGTGCTAAAATAATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
1 GGCACTTAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
* * * * *
27413 GGCACTTTGTGTGCTAAACTGATAAGAAAATCATACTAAGTCTATGAATTTCCAGATAT
1 GGCACTTAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
** * *
27472 AACACTTCGTGTGCTAAACTGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
1 GGCACTTAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
* * *
27531 GGCACTTTGTGTGCTAAACTGATTAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
1 GGCACTTAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
** * *
27590 TCCA-TTAAGTGTGCTAAGATGATAAGGAAATCATACTAAGTGTTTGAATTTCCAGATAG
1 GGCACTT-AGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
* * * *
27649 GGAACTTCGTGTGCTAAACTGATAAGGAAATCATACTAAGTGTATGAACTTCCAGATAG
1 GGCACTTAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
* * * *
27708 GGAACTTCGTGTGCTAAATTGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAC
1 GGCACTTAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
* * * * *
27767 GGCACTAAGTTTGCTAACATGATAAGCAAATCATACTAAGTGTATGAATTTCTC-TATAG
1 GGCACTTAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTC-CAGATAG
* * *
27826 GGCACTAAGTATGCTAAAATGATAAGGAAATTATACTAAGTGTATGAATTTCCAGATAG
1 GGCACTTAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
* * * *
27885 GGCAGTAATTGTGCTAAAATGATAAGGAAATCATACTAATTGTATGAATTTCC
1 GGCACTTAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCC
27938 TATTGAATTT
Statistics
Matches: 467, Mismatches: 54, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
58 3 0.01
59 461 0.99
60 3 0.01
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (59 bp):
GGCACTTAGTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
Found at i:32614 original size:95 final size:95
Alignment explanation
Indices: 32398--32596 Score: 283
Period size: 95 Copynumber: 2.1 Consensus size: 95
32388 AATAAACGGA
* ** *
32398 TACCAACACGCTAGAGAAACCCAAATAAAAACTTCGTCTTAGACTTGTGTTCTTGGTATAGCCTA
1 TACCAACACGCCAGAGAAACCCAAAGGAAAACTTCGTCTTAGACTTGTGTTCTTGGTATAGACTA
*
32463 TACAAAATGTAAAGGAAAAAACTCAACACT
66 TACAAAATGCAAAGGAAAAAACTCAACACT
* *
32493 TACCAACACGCCAGAGAAACCCAAAGGAAAACTTCGTCTTATACTTGTGTTCTTGGTATCGAC-A
1 TACCAACACGCCAGAGAAACCCAAAGGAAAACTTCGTCTTAGACTTGTGTTCTTGGTATAGACTA
** * *
32557 GTACAAAATGCAAAGGAAAAAGTTCAATAGT
66 -TACAAAATGCAAAGGAAAAAACTCAACACT
32588 TACCAACAC
1 TACCAACAC
32597 CATAGAGTTT
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
94 1 0.01
95 91 0.99
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.23
Consensus pattern (95 bp):
TACCAACACGCCAGAGAAACCCAAAGGAAAACTTCGTCTTAGACTTGTGTTCTTGGTATAGACTA
TACAAAATGCAAAGGAAAAAACTCAACACT
Found at i:34174 original size:61 final size:61
Alignment explanation
Indices: 34053--34209 Score: 170
Period size: 61 Copynumber: 2.5 Consensus size: 61
34043 GTATTGCTAA
* * * * * * * *
34053 ACCTACACTAAGCTTACGCTCTAGTGCTAATCCGGATATGATACGTAGGGTCTTGGCCACC
1 ACCTACACTAGGTTTACACTCTAGTGCTAATCCGGATACGACACATAAGGTCATGGCCACC
*
34114 ACCTACACTAGGTTTACACTCTAGTGCTAATCCGGATACGACACATAAGGTCATGTCCACC
1 ACCTACACTAGGTTTACACTCTAGTGCTAATCCGGATACGACACATAAGGTCATGGCCACC
* * *
34175 ACATGCACTTAGTGTCCTTACACACTAGTGCTAAT
1 ACCTACAC-TAG-GT--TTACACTCTAGTGCTAAT
34210 ATAAACCTGC
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
61 58 0.73
62 3 0.04
63 2 0.03
65 17 0.21
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (61 bp):
ACCTACACTAGGTTTACACTCTAGTGCTAATCCGGATACGACACATAAGGTCATGGCCACC
Found at i:42468 original size:32 final size:32
Alignment explanation
Indices: 42432--42492 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
42422 TTGGTTTGAA
*
42432 TCAATATCGGATCGATTGATTTTTGGGTCGGG
1 TCAATATCGCATCGATTGATTTTTGGGTCGGG
* *
42464 TCAATATTGCATCGGTTGATTTTTGGGTC
1 TCAATATCGCATCGATTGATTTTTGGGTC
42493 AGGTTAACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.18, C:0.13, G:0.28, T:0.41
Consensus pattern (32 bp):
TCAATATCGCATCGATTGATTTTTGGGTCGGG
Found at i:46073 original size:18 final size:18
Alignment explanation
Indices: 46050--46109 Score: 111
Period size: 18 Copynumber: 3.3 Consensus size: 18
46040 AGACAATAAC
46050 ATCACCAACAATCTCCCA
1 ATCACCAACAATCTCCCA
46068 ATCACCAACAATCTCCCA
1 ATCACCAACAATCTCCCA
*
46086 ATCAGCAACAATCTCCCA
1 ATCACCAACAATCTCCCA
46104 ATCACC
1 ATCACC
46110 GGTTCTGACA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.38, C:0.43, G:0.02, T:0.17
Consensus pattern (18 bp):
ATCACCAACAATCTCCCA
Found at i:47081 original size:35 final size:34
Alignment explanation
Indices: 46988--47107 Score: 118
Period size: 35 Copynumber: 3.4 Consensus size: 34
46978 TAAAAAGACA
*
46988 TTATTTTAATTTAAAATATTTAAAAAATATATAATT
1 TTATTTTAATTTAAAATA-TTAAAAAATA-ATAAAT
* * * *
47024 TTGTTTTAATAGTCAAA-GTTAAATAAATAATAAAT
1 TTATTTTAAT-TTAAAATATTAAA-AAATAATAAAT
*
47059 TTATTTTAATTTAAAATATTAAAAAA-AATGAAT
1 TTATTTTAATTTAAAATATTAAAAAATAATAAAT
*
47092 TTAATTTAATTATAAA
1 TTATTTTAATT-TAAA
47108 TCCACCAATG
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
33 16 0.23
34 11 0.16
35 24 0.35
36 14 0.20
37 4 0.06
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (34 bp):
TTATTTTAATTTAAAATATTAAAAAATAATAAAT
Done.