Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006469.1 Hibiscus syriacus cultivar Beakdansim tig00015670_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: 98011
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:3382 original size:18 final size:18
Alignment explanation
Indices: 3361--3399 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
3351 TTTAAATTTC
*
3361 TCAATTAGGCCTTGATAA
1 TCAAGTAGGCCTTGATAA
*
3379 TCAAGTATGCCTTGATAA
1 TCAAGTAGGCCTTGATAA
3397 TCA
1 TCA
3400 CTTGTCTTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (18 bp):
TCAAGTAGGCCTTGATAA
Found at i:5900 original size:21 final size:22
Alignment explanation
Indices: 5876--5929 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
5866 ACATGACATA
*
5876 TGAACTGTCATATTAATA-TTG
1 TGAACTGTCATATCAATACTTG
*
5897 TGAAAC-GTCACATCAATACTTG
1 TG-AACTGTCATATCAATACTTG
*
5919 TGAACTATCAT
1 TGAACTGTCAT
5930 GTCAGCACCA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (22 bp):
TGAACTGTCATATCAATACTTG
Found at i:12112 original size:231 final size:232
Alignment explanation
Indices: 11709--12178 Score: 924
Period size: 231 Copynumber: 2.0 Consensus size: 232
11699 TATCAACGTT
11709 ATTACTAGGGGTGCTTAATGAGTGAGCTGCTCGAACTTGACTCAGTCAAAACTACGTCAACACTT
1 ATTACTAGGGGTGCTTAATGAGTGAGCTGCTCGAACTTGACTCAGTCAAAACTACGTCAACACTT
11774 GACTCAGGTTGATTCAACTCAAACTTGCGCTTGACTCAAGACCTTTACGAGTTGAGTCGAGCAAG
66 GACTCAGGTTGATTCAACTCAAACTTGCGCTTGACTCAAGACCTTTACGAGTTGAGTCGAGCAAG
11839 ATCCAACTCAATTTGATAAATTCACGAACAGTTCATTAACC-TTTTTTATATTTTTTAATAATTA
131 ATCCAACTCAATTTGATAAATTCACGAACAGTTCATTAACCTTTTTTTATATTTTTTAATAATTA
11903 ATTTAAAACATTATTCCATTAAAAAGTCTAATTAATA
196 ATTTAAAACATTATTCCATTAAAAAGTCTAATTAATA
11940 ATTACTAGGGGTGCTTAATGAGTGAGCTGCTCGAACTTGACTCAGTCAAAACTACGTCAACACTT
1 ATTACTAGGGGTGCTTAATGAGTGAGCTGCTCGAACTTGACTCAGTCAAAACTACGTCAACACTT
12005 GACTCAGGTTGATTCAACTCAAACTTGCGCTTGACTCAAGACCTTTACGAGTTGAGTCGAGCAAG
66 GACTCAGGTTGATTCAACTCAAACTTGCGCTTGACTCAAGACCTTTACGAGTTGAGTCGAGCAAG
*
12070 ATCCAACTCGATTTGATAAATTCACGAACAGTTCATTAACCTTTTTTTATATTTTTTAATAATTA
131 ATCCAACTCAATTTGATAAATTCACGAACAGTTCATTAACCTTTTTTTATATTTTTTAATAATTA
12135 ATTTAAAACATTATTCCATTAAAAAGTCTAATTAATA
196 ATTTAAAACATTATTCCATTAAAAAGTCTAATTAATA
12172 ATTACTA
1 ATTACTA
12179 ATTTTCTAAA
Statistics
Matches: 237, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
231 170 0.72
232 67 0.28
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.34
Consensus pattern (232 bp):
ATTACTAGGGGTGCTTAATGAGTGAGCTGCTCGAACTTGACTCAGTCAAAACTACGTCAACACTT
GACTCAGGTTGATTCAACTCAAACTTGCGCTTGACTCAAGACCTTTACGAGTTGAGTCGAGCAAG
ATCCAACTCAATTTGATAAATTCACGAACAGTTCATTAACCTTTTTTTATATTTTTTAATAATTA
ATTTAAAACATTATTCCATTAAAAAGTCTAATTAATA
Found at i:13582 original size:7 final size:7
Alignment explanation
Indices: 13570--13651 Score: 74
Period size: 7 Copynumber: 11.7 Consensus size: 7
13560 GTTAGATTAC
13570 ACCCTAA
1 ACCCTAA
13577 ACCCTAA
1 ACCCTAA
*
13584 ACCTTAA
1 ACCCTAA
**
13591 ATACTAA
1 ACCCTAA
13598 ACCCTAA
1 ACCCTAA
*
13605 AACCTAA
1 ACCCTAA
*
13612 ACCATAA
1 ACCCTAA
*
13619 ACCTTAA
1 ACCCTAA
* *
13626 GCCTTAA
1 ACCCTAA
* *
13633 ATCTTAA
1 ACCCTAA
13640 ACCCTAA
1 ACCCTAA
13647 ACCCT
1 ACCCT
13652 TAATTTGATT
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 60 1.00
ACGTcount: A:0.44, C:0.33, G:0.01, T:0.22
Consensus pattern (7 bp):
ACCCTAA
Found at i:13599 original size:21 final size:21
Alignment explanation
Indices: 13574--13654 Score: 85
Period size: 21 Copynumber: 3.8 Consensus size: 21
13564 GATTACACCC
13574 TAAACCCTAAACCTTAAAT-A
1 TAAACCCTAAACCTTAAATCA
*
13594 CTAAACCCTAAAACC-TAAACCA
1 -TAAACCCT-AAACCTTAAATCA
* * *
13616 TAAACCTTAAGCCTTAAATCT
1 TAAACCCTAAACCTTAAATCA
13637 TAAACCCTAAACCCTTAA
1 TAAACCCTAAA-CCTTAA
13655 TTTGATTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
20 4 0.08
21 33 0.67
22 12 0.24
ACGTcount: A:0.46, C:0.30, G:0.01, T:0.23
Consensus pattern (21 bp):
TAAACCCTAAACCTTAAATCA
Found at i:14901 original size:23 final size:23
Alignment explanation
Indices: 14874--14927 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
14864 CCTCTTAGAC
14874 ATCGAGCTCAAAATTTAGCTTGA
1 ATCGAGCTCAAAATTTAGCTTGA
14897 ATCGAGCTCAAAATTTAGCTTGA
1 ATCGAGCTCAAAATTTAGCTTGA
14920 ATCGAGCT
1 ATCGAGCT
14928 TGAATCGAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (23 bp):
ATCGAGCTCAAAATTTAGCTTGA
Found at i:14929 original size:11 final size:11
Alignment explanation
Indices: 14890--14952 Score: 56
Period size: 11 Copynumber: 5.6 Consensus size: 11
14880 CTCAAAATTT
14890 AGCTTGAATCG
1 AGCTTGAATCG
** **
14901 AGCTCAAAATTT
1 AGCT-TGAATCG
14913 AGCTTGAATCG
1 AGCTTGAATCG
14924 AGCTTGAATCG
1 AGCTTGAATCG
14935 AG-TATGAATCG
1 AGCT-TGAATCG
*
14946 AGTTTGA
1 AGCTTGA
14953 GTCTTGAGTT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 1 0.02
11 32 0.78
12 8 0.20
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (11 bp):
AGCTTGAATCG
Found at i:15577 original size:24 final size:24
Alignment explanation
Indices: 15545--15595 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
15535 ATGTTTTACC
*
15545 TTAAATATTATGTTGCAGTTGATT
1 TTAAATATTATGTTGCACTTGATT
* * *
15569 TTAATTATTTTGTTTCACTTGATT
1 TTAAATATTATGTTGCACTTGATT
15593 TTA
1 TTA
15596 TGGTTTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.06, G:0.12, T:0.57
Consensus pattern (24 bp):
TTAAATATTATGTTGCACTTGATT
Found at i:15680 original size:20 final size:20
Alignment explanation
Indices: 15654--15694 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
15644 ATATAAAAAA
*
15654 TTAT-TTTTTA-TTATTTTT
1 TTATATTTTTATTTAATTTT
15672 TTATATTTTTATTTAATTTT
1 TTATATTTTTATTTAATTTT
15692 TTA
1 TTA
15695 AATAATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 6 0.30
20 10 0.50
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (20 bp):
TTATATTTTTATTTAATTTT
Found at i:15793 original size:12 final size:12
Alignment explanation
Indices: 15776--15810 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
15766 ACATGTAGCA
15776 TGACCGGTTCGC
1 TGACCGGTTCGC
15788 TGACCGGTTCGC
1 TGACCGGTTCGC
15800 TGACCGGTTCG
1 TGACCGGTTCG
15811 GTTCTGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.09, C:0.31, G:0.34, T:0.26
Consensus pattern (12 bp):
TGACCGGTTCGC
Found at i:30420 original size:46 final size:46
Alignment explanation
Indices: 30367--30455 Score: 151
Period size: 46 Copynumber: 1.9 Consensus size: 46
30357 GGTAGAACGC
30367 TACCTAAAATGTTATTTTTTATACCGGAAATATTAATATCAGACGT
1 TACCTAAAATGTTATTTTTTATACCGGAAATATTAATATCAGACGT
* * *
30413 TACCTAAAATGTTATTTTTTCTACCGTAAATGTTAATATCAGA
1 TACCTAAAATGTTATTTTTTATACCGGAAATATTAATATCAGA
30456 AATATTCATT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.40
Consensus pattern (46 bp):
TACCTAAAATGTTATTTTTTATACCGGAAATATTAATATCAGACGT
Found at i:40043 original size:14 final size:14
Alignment explanation
Indices: 40024--40054 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
40014 AAAAGGCCTA
40024 ATGGAAGCAATGGG
1 ATGGAAGCAATGGG
40038 ATGGAAGCAATGGG
1 ATGGAAGCAATGGG
40052 ATG
1 ATG
40055 CAAGATGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.42, T:0.16
Consensus pattern (14 bp):
ATGGAAGCAATGGG
Found at i:43944 original size:29 final size:29
Alignment explanation
Indices: 43863--43950 Score: 160
Period size: 29 Copynumber: 3.1 Consensus size: 29
43853 TGTCAACATC
43863 ATCATGAAGTTTTTAATGCGGGAACCAAA
1 ATCATGAAGTTTTTAATGCGGGAACCAAA
*
43892 ATCATGAAG-TTTTAATGCGAGAACCAAA
1 ATCATGAAGTTTTTAATGCGGGAACCAAA
43920 ATCATGAAGTTTTTAATGCGGGAACCAAA
1 ATCATGAAGTTTTTAATGCGGGAACCAAA
43949 AT
1 AT
43951 GAAACCTAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
28 27 0.48
29 29 0.52
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (29 bp):
ATCATGAAGTTTTTAATGCGGGAACCAAA
Found at i:44423 original size:29 final size:28
Alignment explanation
Indices: 44391--44467 Score: 70
Period size: 29 Copynumber: 2.8 Consensus size: 28
44381 TTTATGTTAG
44391 AGTTTAAGATTTATAGGTTATG-GTTTGAA
1 AGTTTAAGATTTATAGGTTA-GAGTTT-AA
* * *
44420 AG-TTATGGAATTATAGTTTAGAGTTTAA
1 AGTTTA-AGATTTATAGGTTAGAGTTTAA
*
44448 ATTTTAAGATTT-TAGGTTAG
1 AGTTTAAGATTTATAGGTTAG
44468 GATTAAAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
27 7 0.18
28 11 0.29
29 20 0.53
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.45
Consensus pattern (28 bp):
AGTTTAAGATTTATAGGTTAGAGTTTAA
Found at i:44503 original size:36 final size:36
Alignment explanation
Indices: 44453--44523 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
44443 TTTAAATTTT
*
44453 AAGATTTTAGGTTAGGATTAAAATTAGGGTTAAGGG
1 AAGATTTTAAGTTAGGATTAAAATTAGGGTTAAGGG
* *
44489 AAGATTTTAAGTTAGGATTAAAGTTGGGGTTAAGG
1 AAGATTTTAAGTTAGGATTAAAATTAGGGTTAAGG
44524 TATACACTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.34
Consensus pattern (36 bp):
AAGATTTTAAGTTAGGATTAAAATTAGGGTTAAGGG
Found at i:45325 original size:17 final size:17
Alignment explanation
Indices: 45296--45328 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
45286 AATTAAAATT
45296 ACAAGACACAATTGAAA
1 ACAAGACACAATTGAAA
45313 ACAAGTACA-AATTGAA
1 ACAAG-ACACAATTGAA
45329 GGAACACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (17 bp):
ACAAGACACAATTGAAA
Found at i:45812 original size:19 final size:18
Alignment explanation
Indices: 45788--45826 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 18
45778 GAAAACCATC
45788 TCTTTGGATTAATGATGTG
1 TCTTTGGATTAATGA-GTG
45807 TCTTTGGATTAATGAGTG
1 TCTTTGGATTAATGAGTG
45825 TC
1 TC
45827 AAAAGGAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.21, C:0.08, G:0.26, T:0.46
Consensus pattern (18 bp):
TCTTTGGATTAATGAGTG
Found at i:47580 original size:24 final size:24
Alignment explanation
Indices: 47522--47610 Score: 126
Period size: 24 Copynumber: 3.8 Consensus size: 24
47512 GAGCTTGAGT
* **
47522 TCGAGCTTGAATCGAGCTC-AAAA
1 TCGAGCTTCAATCGAGCTCGAATC
*
47545 TCAAGCTTCAATCGAGCTCGAATC
1 TCGAGCTTCAATCGAGCTCGAATC
*
47569 TCGAGCTTCAATCGAGCTCGAGTC
1 TCGAGCTTCAATCGAGCTCGAATC
47593 TCGAGCTTCAATCGAGCT
1 TCGAGCTTCAATCGAGCT
47611 TCTAAATTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 17 0.29
24 42 0.71
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (24 bp):
TCGAGCTTCAATCGAGCTCGAATC
Found at i:47612 original size:11 final size:11
Alignment explanation
Indices: 47522--47612 Score: 62
Period size: 11 Copynumber: 7.8 Consensus size: 11
47512 GAGCTTGAGT
*
47522 TCGAGCTTGAA
1 TCGAGCTTCAA
47533 TCGAGC-TCAAAA
1 TCGAGCTTC--AA
*
47545 TCAAGCTTCAA
1 TCGAGCTTCAA
47556 TCGAGC-TCGAA
1 TCGAGCTTC-AA
47567 TCTCGAGCTTCAA
1 --TCGAGCTTCAA
*
47580 TCGAGC-TCGAGTC
1 TCGAGCTTC-A--A
47593 TCGAGCTTCAA
1 TCGAGCTTCAA
47604 TCGAGCTTC
1 TCGAGCTTC
47613 TAAATTTTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 22
0.70 0.05 0.24
Matches are distributed among these distances:
10 5 0.08
11 31 0.48
12 7 0.11
13 17 0.27
14 4 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (11 bp):
TCGAGCTTCAA
Found at i:49085 original size:27 final size:27
Alignment explanation
Indices: 49047--49099 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
49037 AACCCATCTT
49047 AAAATTATCTTTAAAAAGGAGATTTTC
1 AAAATTATCTTTAAAAAGGAGATTTTC
* * *
49074 AAAATTTTCTTTCAAAAGGCGATTTT
1 AAAATTATCTTTAAAAAGGAGATTTT
49100 ATATGTATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (27 bp):
AAAATTATCTTTAAAAAGGAGATTTTC
Found at i:50612 original size:13 final size:14
Alignment explanation
Indices: 50587--50625 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
50577 CTTTAAAACC
50587 TAAACCCTAAACTT
1 TAAACCCTAAACTT
50601 TAAACCCT-AACTT
1 TAAACCCTAAACTT
* *
50614 AAAACCATAAAC
1 TAAACCCTAAAC
50626 AATAGTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCCTAAACTT
Found at i:50952 original size:28 final size:28
Alignment explanation
Indices: 50902--50960 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
50892 TTTCGTCTTT
* * * *
50902 CCTAAAATTTTATAAGTTTAAATTTACC
1 CCTAAAATTTTAAAAATTCAAATATACC
*
50930 CCTAGAATTTTAAAAATTCAAATATACC
1 CCTAAAATTTTAAAAATTCAAATATACC
50958 CCT
1 CCT
50961 CACATAAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.37
Consensus pattern (28 bp):
CCTAAAATTTTAAAAATTCAAATATACC
Found at i:51465 original size:21 final size:20
Alignment explanation
Indices: 51379--51536 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
51369 AAATGACCAA
**
51379 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
51398 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
51418 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
51438 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
51459 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
51480 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
51500 CAATAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
51521 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
51537 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 42 0.41
21 44 0.43
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:51598 original size:20 final size:20
Alignment explanation
Indices: 51504--51893 Score: 439
Period size: 20 Copynumber: 19.4 Consensus size: 20
51494 GATTTTCAAT
* ** *
51504 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
51524 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
51544 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
51564 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
51584 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
51604 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
51624 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* * *
51644 AATCGCAACG-ATAATACATAA
1 AATCGCAACGCGT-ATCCGT-A
*
51665 AATCGCAACGCGTATCTGTA
1 AATCGCAACGCGTATCCGTA
* *
51685 AATCGCAATGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
51705 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
51725 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
51745 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
51765 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
51785 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
51805 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
51825 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
51845 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
51865 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
51885 AATCACAAC
1 AATCGCAAC
51894 ACTGAAATTT
Statistics
Matches: 315, Mismatches: 44, Indels: 22
0.83 0.12 0.06
Matches are distributed among these distances:
19 4 0.01
20 293 0.93
21 17 0.05
22 1 0.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:52609 original size:24 final size:24
Alignment explanation
Indices: 52570--52616 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
52560 AAATTTGGTC
52570 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
52594 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
52617 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:52808 original size:12 final size:12
Alignment explanation
Indices: 52791--52815 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52781 ATATAATCCT
52791 GAAGAAGAAAAA
1 GAAGAAGAAAAA
52803 GAAGAAGAAAAA
1 GAAGAAGAAAAA
52815 G
1 G
52816 TCCCCGAAGA
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:55117 original size:19 final size:19
Alignment explanation
Indices: 55095--55368 Score: 354
Period size: 19 Copynumber: 15.4 Consensus size: 19
55085 CGGAAAATAC
*
55095 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
55114 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
55128 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
55148 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
55162 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
55181 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
55200 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
55214 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
55233 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
55252 AATCGCAATGCGAAATGGA
1 AATCGCAATGCGAAATGAA
55271 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
55290 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
55309 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
55323 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
55342 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
55361 AATCGCAA
1 AATCGCAA
55369 CGAGATAATC
Statistics
Matches: 226, Mismatches: 8, Indels: 42
0.82 0.03 0.15
Matches are distributed among these distances:
14 40 0.18
15 2 0.01
16 11 0.05
17 10 0.04
18 3 0.01
19 147 0.65
20 13 0.06
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:55297 original size:109 final size:105
Alignment explanation
Indices: 55123--55390 Score: 459
Period size: 109 Copynumber: 2.5 Consensus size: 105
55113 AAATCCCAAC
55123 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGA-GAATCGCAATGCGAAATGAAAATCGC
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGATGAATCGCAATGCGAAATGAAAATCGC
*
55187 AATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
65 AATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
*
55228 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGGAAATCGCAATGCGAAATGAAAAT
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAGAT-G-AATCGCAATGCGAAATGAAAAT
55293 CGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
62 CGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
55337 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAT-AATCGCAATGCGAAAT
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATGAATCGCAATGCGAAAT
55391 TATAAACGCA
Statistics
Matches: 155, Mismatches: 3, Indels: 11
0.92 0.02 0.07
Matches are distributed among these distances:
104 32 0.21
105 16 0.10
106 4 0.03
107 5 0.03
108 1 0.01
109 97 0.63
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (105 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATGAATCGCAATGCGAAATGAAAATCGCA
ATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
Found at i:55406 original size:52 final size:52
Alignment explanation
Indices: 55123--55390 Score: 455
Period size: 52 Copynumber: 5.0 Consensus size: 52
55113 AAATCCCAAC
55123 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
55176 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
55228 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGGAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAGA--G-AATCGCAATGCGAA
*
55285 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
55337 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
55389 AT
1 AT
55391 TATAAACGCA
Statistics
Matches: 207, Mismatches: 3, Indels: 11
0.94 0.01 0.05
Matches are distributed among these distances:
52 134 0.65
53 17 0.08
54 4 0.02
55 5 0.02
56 1 0.00
57 46 0.22
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:55487 original size:19 final size:19
Alignment explanation
Indices: 55397--55479 Score: 104
Period size: 20 Copynumber: 4.6 Consensus size: 19
55387 AAATTATAAA
55397 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
*
55416 CCGCATTACGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
55436 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
55452 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
55469 CGCATTGCGAT
1 CGCATTGCGAT
55480 AGTCATTTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
14 6 0.11
16 7 0.13
17 7 0.13
19 16 0.30
20 18 0.33
ACGTcount: A:0.16, C:0.24, G:0.17, T:0.43
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:55605 original size:14 final size:14
Alignment explanation
Indices: 55586--55619 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
55576 CATCAATTAC
55586 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
55600 ACAAATCATCTTTT
1 ACAAATCAACTTTT
55614 ACAAAT
1 ACAAAT
55620 TAATTAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:57774 original size:14 final size:14
Alignment explanation
Indices: 57755--57811 Score: 69
Period size: 14 Copynumber: 3.7 Consensus size: 14
57745 TTGAAATGAA
57755 AATCGCAACGAGAG
1 AATCGCAACGAGAG
57769 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
57786 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
57802 AATCGCAACG
1 AATCGCAACG
57812 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
14 18 0.47
16 6 0.16
17 6 0.16
19 8 0.21
ACGTcount: A:0.40, C:0.25, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:57792 original size:33 final size:33
Alignment explanation
Indices: 57747--57830 Score: 150
Period size: 33 Copynumber: 2.5 Consensus size: 33
57737 TCTTTTGGTT
57747 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
57780 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
57813 GAAATGAAAATCGCAACG
1 GAAATGAAAATCGCAACG
57831 CGAAATGAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:57793 original size:19 final size:19
Alignment explanation
Indices: 57769--57852 Score: 97
Period size: 19 Copynumber: 4.7 Consensus size: 19
57759 GCAACGAGAG
* *
57769 AATCGCAACGCGAGATGAC
1 AATCGCAACGCGAAATGAA
*
57788 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
57802 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
57821 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
57840 AATCGCAATGCGA
1 AATCGCAACGCGA
57853 TTTTGGTTTC
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 41 0.72
ACGTcount: A:0.43, C:0.23, G:0.24, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:57926 original size:33 final size:33
Alignment explanation
Indices: 57859--57940 Score: 110
Period size: 33 Copynumber: 2.5 Consensus size: 33
57849 GCGATTTTGG
* ***
57859 TTTCGCGTTGCGATTCTCTCGTTGTGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
57892 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
57925 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
57941 TTCATTTATC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 31 0.72
34 12 0.28
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.44
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:58081 original size:33 final size:33
Alignment explanation
Indices: 58039--58109 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
58029 AATACTAACT
*
58039 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
58072 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
58105 TGAAA
1 TGAAA
58110 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:58343 original size:22 final size:22
Alignment explanation
Indices: 58291--58345 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
58281 TGGTTGTGAG
**
58291 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
58313 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
58335 GGATTTCTTCG
1 GGATTTCTTCG
58346 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:58516 original size:20 final size:20
Alignment explanation
Indices: 58491--58683 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
58481 CTTTAAATAT
58491 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
58511 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
58533 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
58552 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
58572 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
58592 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
58612 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
58632 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
58652 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
58672 CGCGTTGCGATT
1 CGCGTTGCGATT
58684 ATTGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:58678 original size:60 final size:60
Alignment explanation
Indices: 58491--58683 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
58481 CTTTAAATAT
**
58491 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
58552 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
58612 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
58672 CGCGTTGCGATT
1 CGCGTTGCGATT
58684 ATTGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:61562 original size:24 final size:24
Alignment explanation
Indices: 61530--61576 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
61520 AACAATTGAA
*
61530 TTACAACTTTAATTAGAAAGATAT
1 TTACAACTTTAAATAGAAAGATAT
61554 TTACAACTTTAAATAGAAAGATA
1 TTACAACTTTAAATAGAAAGATA
61577 AAAGGATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.34
Consensus pattern (24 bp):
TTACAACTTTAAATAGAAAGATAT
Found at i:62425 original size:2 final size:2
Alignment explanation
Indices: 62418--62448 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
62408 TTTTTCTTCT
*
62418 TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
62449 TTAATGCAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:62449 original size:8 final size:8
Alignment explanation
Indices: 62417--62451 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
62407 ATTTTTCTTC
62417 TTATATAT
1 TTATATAT
*
62425 ATATATAT
1 TTATATAT
*
62433 ATATATAT
1 TTATATAT
62441 TTATATAT
1 TTATATAT
62449 TTA
1 TTA
62452 ATGCAGTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
TTATATAT
Found at i:68691 original size:21 final size:21
Alignment explanation
Indices: 68665--68708 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
68655 CTTTCCTAAC
68665 TAATTGATAACGTATATATCT
1 TAATTGATAACGTATATATCT
68686 TAATTGATAACGTATATATCT
1 TAATTGATAACGTATATATCT
68707 TA
1 TA
68709 CGGACACAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (21 bp):
TAATTGATAACGTATATATCT
Found at i:70252 original size:2 final size:2
Alignment explanation
Indices: 70237--70285 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
70227 TACAAAAGAA
*
70237 AT AT AT AA AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
70278 AT AT AT AT
1 AT AT AT AT
70286 TGGGGCATGG
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:72732 original size:32 final size:32
Alignment explanation
Indices: 72687--72749 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
72677 AATATATTAA
*
72687 ATATCAGTGATTAATTCAAACAAATTTCAAAT
1 ATATAAGTGATTAATTCAAACAAATTTCAAAT
*
72719 ATATAAGTGATTAATTCAAATAAATTTCAAA
1 ATATAAGTGATTAATTCAAACAAATTTCAAA
72750 GGGTTTGCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.35
Consensus pattern (32 bp):
ATATAAGTGATTAATTCAAACAAATTTCAAAT
Found at i:80313 original size:21 final size:21
Alignment explanation
Indices: 80289--80333 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
80279 ATGTTCCGTC
*
80289 TGAAAA-GAAAAATATGACATA
1 TGAAAAGGAAAAAT-CGACATA
80310 TGAAAAGGAAAAATCGACATA
1 TGAAAAGGAAAAATCGACATA
80331 TGA
1 TGA
80334 TTAATCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.58, C:0.07, G:0.18, T:0.18
Consensus pattern (21 bp):
TGAAAAGGAAAAATCGACATA
Found at i:94673 original size:23 final size:23
Alignment explanation
Indices: 94641--94688 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
94631 ATATATATTT
*
94641 TTTATTTTTTAAAAT-TATATAAA
1 TTTATATTTTAAAATAT-TATAAA
94664 TTTATATTTTAAAATATTATAAA
1 TTTATATTTTAAAATATTATAAA
94687 TT
1 TT
94689 CGTCAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTATATTTTAAAATATTATAAA
Done.