Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000622.1 Hibiscus syriacus cultivar Beakdansim tig00001203_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: 56984
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Found at i:292 original size:17 final size:18
Alignment explanation
Indices: 259--292 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
249 GCACCTACAT
259 ACATATAATTAAATATAA
1 ACATATAATTAAATATAA
*
277 ACATAT-ATTTAATATA
1 ACATATAATTAAATATA
293 TTTAATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (18 bp):
ACATATAATTAAATATAA
Found at i:6275 original size:12 final size:12
Alignment explanation
Indices: 6258--6289 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
6248 TTAAGTGCTG
6258 GAAACAAGGTAA
1 GAAACAAGGTAA
*
6270 GAAACAAGGTAT
1 GAAACAAGGTAA
6282 GAAACAAG
1 GAAACAAG
6290 ATTAAAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.56, C:0.09, G:0.25, T:0.09
Consensus pattern (12 bp):
GAAACAAGGTAA
Found at i:17055 original size:19 final size:19
Alignment explanation
Indices: 17031--17076 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
17021 TAGTGAGGAA
17031 CAAGGCTAGACTTGTTGCT
1 CAAGGCTAGACTTGTTGCT
17050 CAAGGCTAGACTTGTTGCT
1 CAAGGCTAGACTTGTTGCT
17069 CAAGGCTA
1 CAAGGCTA
17077 TACTCAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (19 bp):
CAAGGCTAGACTTGTTGCT
Found at i:20102 original size:85 final size:85
Alignment explanation
Indices: 20013--20238 Score: 314
Period size: 85 Copynumber: 2.7 Consensus size: 85
20003 TTATGATATT
20013 CATTGAGTGTCATTGAAGCCCCCGTCATAAATTAAGATGAAACACATTTGTGTGTCATAAATTTA
1 CATTGAGTGTCATTGAAGCCCCCGTCATAAATTAAGATGAAACACATTTGTGTGTCATAAATTTA
20078 TGACACGCATGTATGACTTA
66 TGACACGCATGTATGACTTA
* * * *
20098 CATTGAGCGTCATTGAAGCCCCCGTCATAAATCT--GCTTGATACACATTTATGTGTCATAAATT
1 CATTGAGTGTCATTGAAGCCCCCGTCATAAAT-TAAG-ATGAAACACATTTGTGTGTCATAAATT
20161 TATGACACGCATGTATGACTTA
64 TATGACACGCATGTATGACTTA
* * * * * *
20183 CATTGCGTGTCATTGAAGCACACGTCATTAAA-AAAGATGACACACATTCGTGTGTC
1 CATTGAGTGTCATTGAAGCCCCCGTCA-TAAATTAAGATGAAACACATTTGTGTGTC
20239 GTGATTGTAT
Statistics
Matches: 123, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
84 1 0.01
85 116 0.94
86 6 0.05
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (85 bp):
CATTGAGTGTCATTGAAGCCCCCGTCATAAATTAAGATGAAACACATTTGTGTGTCATAAATTTA
TGACACGCATGTATGACTTA
Found at i:32516 original size:36 final size:36
Alignment explanation
Indices: 32470--32543 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
32460 AGTTATCAAT
32470 ATATATATATTGTAGATTGACAAATAATCAAACTAA
1 ATATATATATTGTAGATTGACAAATAATCAAACTAA
32506 ATATATATATTGTAGATTGACAAATAATCAAACTAA
1 ATATATATATTGTAGATTGACAAATAATCAAACTAA
32542 AT
1 AT
32544 CACATTTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.34
Consensus pattern (36 bp):
ATATATATATTGTAGATTGACAAATAATCAAACTAA
Found at i:38260 original size:16 final size:17
Alignment explanation
Indices: 38239--38270 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
38229 GGGAGGTTGC
38239 AAAGAGAAAAA-GGGGA
1 AAAGAGAAAAATGGGGA
38255 AAAGAGAAAAATGGGG
1 AAAGAGAAAAATGGGG
38271 GAAGCAAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.59, C:0.00, G:0.38, T:0.03
Consensus pattern (17 bp):
AAAGAGAAAAATGGGGA
Found at i:39436 original size:21 final size:21
Alignment explanation
Indices: 39412--39452 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
39402 AATTTATGTA
39412 TTTGAATATTTGGATGTTTGT
1 TTTGAATATTTGGATGTTTGT
* *
39433 TTTGGATATTTGGTTGTTTG
1 TTTGAATATTTGGATGTTTG
39453 GATTGTTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.27, T:0.59
Consensus pattern (21 bp):
TTTGAATATTTGGATGTTTGT
Found at i:39467 original size:16 final size:14
Alignment explanation
Indices: 39420--39475 Score: 60
Period size: 16 Copynumber: 3.8 Consensus size: 14
39410 TATTTGAATA
39420 TTTGGATGTTTGT-
1 TTTGGATGTTTGTG
*
39433 TTTGGATATTTGGTTG
1 TTTGGATGTTT-G-TG
39449 TTTGGATTGTTTGTGG
1 TTTGGA-TGTTTGT-G
39465 TTTGGATGTTT
1 TTTGGATGTTT
39476 AATTTTGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
13 10 0.28
14 1 0.03
15 7 0.19
16 14 0.39
17 4 0.11
ACGTcount: A:0.09, C:0.00, G:0.32, T:0.59
Consensus pattern (14 bp):
TTTGGATGTTTGTG
Found at i:41731 original size:20 final size:21
Alignment explanation
Indices: 41677--41731 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
41667 GTACCACAGG
* *
41677 AACAATATCAGTACTATTCAT
1 AACAATATCAGTACTAGTAAT
*
41698 -GCAATATC-GATACT-GTAAT
1 AACAATATCAG-TACTAGTAAT
41717 AACAATATCAGTACT
1 AACAATATCAGTACT
41732 TCGTACCCAG
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
19 4 0.15
20 22 0.81
21 1 0.04
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (21 bp):
AACAATATCAGTACTAGTAAT
Found at i:48175 original size:181 final size:182
Alignment explanation
Indices: 47550--48686 Score: 1554
Period size: 182 Copynumber: 6.3 Consensus size: 182
47540 AAAAAATATC
** * * * * * * *
47550 ACAAAACTAGTAAAGCGCTACCGGATATTTTACACGTGTCGATACTTTAATATAAGTTTCGATAC
1 ACAAAACCGGTAAAGAGATACCGGATATATTGCAAGTGTCGATACTTTAATATAAGTATCGACAC
* * ** *
47615 ATAGTGAATTTAAAGGTGAAGGAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTAT
66 ATTGTGAATTTAAAGGAGAATCAGTTTTAGCACCTATAAAGTGTCGATTCTTTATAAATATGTAT
* *
47680 CGATCCACAACGATATAACAGGTAAAAATATGAAAAAACCGGTTAGGAAAAG
131 CGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGGTCAGGAAAAG
* **
47732 ACAAAATCGGTAAAGAGATACCATATATATTGCAAGTGTCGATACTTTAATATAAGTATCGACAC
1 ACAAAACCGGTAAAGAGATACCGGATATATTGCAAGTGTCGATACTTTAATATAAGTATCGACAC
* * *
47797 ATTGTGAATTTAAAGGAGAAGCAGTTTTAGCACCTATAAAGTGTCAATTATTTATAAATATGTAT
66 ATTGTGAATTTAAAGGAGAATCAGTTTTAGCACCTATAAAGTGTCGATTCTTTATAAATATGTAT
* *
47862 TGATCCACAACGATATAACAGGTAAAAATATGACAAAACTGGTCAGGAAAAG
131 CGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGGTCAGGAAAAG
* *
47914 ATAAAACCGGTAAAGAGATACCGGATATATTGCAAGTATCGATACTTTAATATAAGTATCGACAC
1 ACAAAACCGGTAAAGAGATACCGGATATATTGCAAGTGTCGATACTTTAATATAAGTATCGACAC
* * *
47979 ATTGTGAAATTAAAGGAGAATCAGTTTTAGCTCCTAGAAAGTGTCGATTCTTTATAAATATGTAT
66 ATTGTGAATTTAAAGGAGAATCAGTTTTAGCACCTATAAAGTGTCGATTCTTTATAAATATGTAT
*
48044 CGATCCACAACGATATAATAGGT-AAAATATGACAAAACCGGTCAGGAAAAG
131 CGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGGTCAGGAAAAG
* *
48095 ATAAAATCGGTAAAGAGATACCGGATATATTGCAAGTGTCGATACTTTAATATAAGTATCGACAC
1 ACAAAACCGGTAAAGAGATACCGGATATATTGCAAGTGTCGATACTTTAATATAAGTATCGACAC
* * * *
48160 AATGTGAATTTAAAGGAGAATCAGTTTTAGCGCCTAGAAAGTGTCAATTCTTTATAAATATGTAT
66 ATTGTGAATTTAAAGGAGAATCAGTTTTAGCACCTATAAAGTGTCGATTCTTTATAAATATGTAT
48225 CGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGGTCAGGAAAAG
131 CGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGGTCAGGAAAAG
* * *
48277 ACAAAACTGGTAAAGAAATACCAGATATATTGCAAGTGTCGATACTTTAATATAAGTATCGACAC
1 ACAAAACCGGTAAAGAGATACCGGATATATTGCAAGTGTCGATACTTTAATATAAGTATCGACAC
48342 ATTGTGAATTTAAAGGAG-----GTTTTAGCACCTATAAAGTGTCGATTCTTTATAAATATGTAT
66 ATTGTGAATTTAAAGGAGAATCAGTTTTAGCACCTATAAAGTGTCGATTCTTTATAAATATGTAT
* * ** * * **
48402 CGATCCACAATGATATAAAAAATAAAAATATGATAAAATCGGTCTCGAAAAG
131 CGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGGTCAGGAAAAG
* * * * *
48454 ACAAAACCAGTAAAGAGCTACCGGATATATT-AAATTGTCGATAATTTAATATAAGTATCGACAC
1 ACAAAACCGGTAAAGAGATACCGGATATATTGCAAGTGTCGATACTTTAATATAAGTATCGACAC
* * * * * *
48518 TTTGTGAATTTAAAAGAGAAGT-TGTTTTAGCACCTTTAAAGTGTCGATACTTTATAAAAATGTA
66 ATTGTGAATTTAAAGGAGAA-TCAGTTTTAGCACCTATAAAGTGTCGATTCTTTATAAATATGTA
* * * * * *** *
48582 TCGATTCATAATGATATAATAGGTAAAAATATGATAAAACCGGTCTCTAAATG
130 TCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGGTCAGGAAAAG
* * * *
48635 ATAAAACCGGTAAAGCA-CTACCGAATATATTGAAAGTGTCGATACTTTAATA
1 ACAAAACCGGTAAAG-AGATACCGGATATATTGCAAGTGTCGATACTTTAATA
48687 AGTACGCATA
Statistics
Matches: 861, Mismatches: 86, Indels: 16
0.89 0.09 0.02
Matches are distributed among these distances:
176 46 0.05
177 109 0.13
181 282 0.33
182 424 0.49
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.28
Consensus pattern (182 bp):
ACAAAACCGGTAAAGAGATACCGGATATATTGCAAGTGTCGATACTTTAATATAAGTATCGACAC
ATTGTGAATTTAAAGGAGAATCAGTTTTAGCACCTATAAAGTGTCGATTCTTTATAAATATGTAT
CGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGGTCAGGAAAAG
Found at i:48234 original size:363 final size:362
Alignment explanation
Indices: 47559--48686 Score: 1577
Period size: 363 Copynumber: 3.1 Consensus size: 362
47549 CACAAAACTA
* * * * * * * *
47559 GTAAAGCGCTACCGGATATTTTACACGTGTCGATACTTTAATATAAGTTTCGATACATAGTGAAT
1 GTAAAGAGATACCGGATATATTGCAAGTGTCGATACTTTAATATAAGTATCGACACATTGTGAAT
* *
47624 TTAAAGGTGAAGGAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTATCGATCCACA
66 TTAAAGGAGAA--AGTTTTAGCACCTATAAAGTGTCGATTCTTTATAAATATGTATCGATCCACA
* *
47689 ACGATATAACAGGTAAAAATATGAAAAAACCGGTTAGGAAAAGACAAAATCGGTAAAGAGATACC
129 ACGATATAAAAGGTAAAAATATGAAAAAACCGGTCAGGAAAAGACAAAATCGGTAAAGAGATACC
** *
47754 ATATATATTGCAAGTGTCGATACTTTAATATAAGTATCGACACATTGTGAATTTAAAGGAGAAGC
194 GGATATATTGCAAGTGTCGATACTTTAATATAAGTATCGACACATTGTGAATTTAAAGGAGAATC
* *
47819 AGTTTTAGCACCTATAAAGTGTCAATTATTTATAAATATGTATTGATCCACAACGATATAACAGG
259 AGTTTTAGCACCTATAAAGTGTCAATTCTTTATAAATATGTATCGATCCACAACGATATAACAGG
*
47884 TAAAAATATGACAAAACTGGTCAGGAAAAGATAAAACCG
324 TAAAAATATGACAAAACCGGTCAGGAAAAGATAAAACCG
* *
47923 GTAAAGAGATACCGGATATATTGCAAGTATCGATACTTTAATATAAGTATCGACACATTGTGAAA
1 GTAAAGAGATACCGGATATATTGCAAGTGTCGATACTTTAATATAAGTATCGACACATTGTGAAT
* *
47988 TTAAAGGAGAATCAGTTTTAGCTCCTAGAAAGTGTCGATTCTTTATAAATATGTATCGATCCACA
66 TTAAAGGAGAA--AGTTTTAGCACCTATAAAGTGTCGATTCTTTATAAATATGTATCGATCCACA
* * *
48053 ACGATATAATAGGT-AAAATATGACAAAACCGGTCAGGAAAAGATAAAATCGGTAAAGAGATACC
129 ACGATATAAAAGGTAAAAATATGAAAAAACCGGTCAGGAAAAGACAAAATCGGTAAAGAGATACC
*
48117 GGATATATTGCAAGTGTCGATACTTTAATATAAGTATCGACACAATGTGAATTTAAAGGAGAATC
194 GGATATATTGCAAGTGTCGATACTTTAATATAAGTATCGACACATTGTGAATTTAAAGGAGAATC
* *
48182 AGTTTTAGCGCCTAGAAAGTGTCAATTCTTTATAAATATGTATCGATCCACAACGATATAACAGG
259 AGTTTTAGCACCTATAAAGTGTCAATTCTTTATAAATATGTATCGATCCACAACGATATAACAGG
* *
48247 TAAAAATATGACAAAACCGGTCAGGAAAAGACAAAACTG
324 TAAAAATATGACAAAACCGGTCAGGAAAAGATAAAACCG
* *
48286 GTAAAGAAATACCAGATATATTGCAAGTGTCGATACTTTAATATAAGTATCGACACATTGTGAAT
1 GTAAAGAGATACCGGATATATTGCAAGTGTCGATACTTTAATATAAGTATCGACACATTGTGAAT
*
48351 TTAAAGGAG---GTTTTAGCACCTATAAAGTGTCGATTCTTTATAAATATGTATCGATCCACAAT
66 TTAAAGGAGAAAGTTTTAGCACCTATAAAGTGTCGATTCTTTATAAATATGTATCGATCCACAAC
** * * ** * * *
48413 GATATAAAAAATAAAAATATGATAAAATCGGTCTCGAAAAGACAAAACCAGTAAAGAGCTACCGG
131 GATATAAAAGGTAAAAATATGAAAAAACCGGTCAGGAAAAGACAAAATCGGTAAAGAGATACCGG
* * * * * *
48478 ATATATT-AAATTGTCGATAATTTAATATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGT-T
196 ATATATTGCAAGTGTCGATACTTTAATATAAGTATCGACACATTGTGAATTTAAAGGAGAA-TCA
* * * * * * * *
48541 GTTTTAGCACCTTTAAAGTGTCGATACTTTATAAAAATGTATCGATTCATAATGATATAATAGGT
260 GTTTTAGCACCTATAAAGTGTCAATTCTTTATAAATATGTATCGATCCACAACGATATAACAGGT
* *** *
48606 AAAAATATGATAAAACCGGTCTCTAAATGATAAAACCG
325 AAAAATATGACAAAACCGGTCAGGAAAAGATAAAACCG
* * *
48644 GTAAAGCA-CTACCGAATATATTGAAAGTGTCGATACTTTAATA
1 GTAAAG-AGATACCGGATATATTGCAAGTGTCGATACTTTAATA
48687 AGTACGCATA
Statistics
Matches: 685, Mismatches: 76, Indels: 12
0.89 0.10 0.02
Matches are distributed among these distances:
358 229 0.33
359 53 0.08
363 275 0.40
364 128 0.19
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (362 bp):
GTAAAGAGATACCGGATATATTGCAAGTGTCGATACTTTAATATAAGTATCGACACATTGTGAAT
TTAAAGGAGAAAGTTTTAGCACCTATAAAGTGTCGATTCTTTATAAATATGTATCGATCCACAAC
GATATAAAAGGTAAAAATATGAAAAAACCGGTCAGGAAAAGACAAAATCGGTAAAGAGATACCGG
ATATATTGCAAGTGTCGATACTTTAATATAAGTATCGACACATTGTGAATTTAAAGGAGAATCAG
TTTTAGCACCTATAAAGTGTCAATTCTTTATAAATATGTATCGATCCACAACGATATAACAGGTA
AAAATATGACAAAACCGGTCAGGAAAAGATAAAACCG
Found at i:48294 original size:20 final size:20
Alignment explanation
Indices: 48256--48294 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48246 GTAAAAATAT
* *
48256 GACAAAACCGGTCAGGAAAA
1 GACAAAACCGGTAAAGAAAA
*
48276 GACAAAACTGGTAAAGAAA
1 GACAAAACCGGTAAAGAAA
48295 TACCAGATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.15, G:0.23, T:0.08
Consensus pattern (20 bp):
GACAAAACCGGTAAAGAAAA
Found at i:50495 original size:21 final size:21
Alignment explanation
Indices: 50469--50531 Score: 117
Period size: 21 Copynumber: 3.0 Consensus size: 21
50459 GACAATCAAT
50469 AGTCGAAGAGAAACTTGAGAG
1 AGTCGAAGAGAAACTTGAGAG
50490 AGTCGAAGAGAAACTTGAGAG
1 AGTCGAAGAGAAACTTGAGAG
*
50511 AGTCGAAGAGACACTTGAGAG
1 AGTCGAAGAGAAACTTGAGAG
50532 GCATAATGGG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.41, C:0.11, G:0.33, T:0.14
Consensus pattern (21 bp):
AGTCGAAGAGAAACTTGAGAG
Found at i:50677 original size:66 final size:67
Alignment explanation
Indices: 50553--50682 Score: 163
Period size: 66 Copynumber: 2.0 Consensus size: 67
50543 AAGTGGAATG
** * *
50553 AAAAATAGATGGAGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGAACTTAAGATGGTG-AGGGGT
1 AAAAATAGATGGAGTGGTGAAAGAAGTTGAGGAATTGAGGAGTGAACTTAAGAGGGTGAAGGGGT
50617 AA
66 AA
* * * * * *
50619 AAAAATTGATGGAGTGGTGAAGGAGGTTGTGGAATTGAGGAGTGAACTTACGGGGGTGAAGGGG
1 AAAAATAGATGGAGTGGTGAAAGAAGTTGAGGAATTGAGGAGTGAACTTAAGAGGGTGAAGGGG
50683 GTGGTATATG
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
66 48 0.91
67 5 0.09
ACGTcount: A:0.32, C:0.02, G:0.43, T:0.22
Consensus pattern (67 bp):
AAAAATAGATGGAGTGGTGAAAGAAGTTGAGGAATTGAGGAGTGAACTTAAGAGGGTGAAGGGGT
AA
Found at i:50807 original size:18 final size:18
Alignment explanation
Indices: 50784--50820 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
50774 AAAAATATGT
50784 AGAAGAAAAGAGGGAGGA
1 AGAAGAAAAGAGGGAGGA
*
50802 AGAAGAAAAGATGGAGGA
1 AGAAGAAAAGAGGGAGGA
50820 A
1 A
50821 ATGAGGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.41, T:0.03
Consensus pattern (18 bp):
AGAAGAAAAGAGGGAGGA
Found at i:50836 original size:29 final size:29
Alignment explanation
Indices: 50804--50885 Score: 119
Period size: 29 Copynumber: 2.8 Consensus size: 29
50794 AGGGAGGAAG
50804 AAGAAAAGATGGAGGAAATGAGGAGAAAT
1 AAGAAAAGATGGAGGAAATGAGGAGAAAT
** *
50833 AAGAAAAGATGGAGGAAATGAATAGGAAT
1 AAGAAAAGATGGAGGAAATGAGGAGAAAT
* *
50862 AAGGAAAGATAGAGGAAATGAGGA
1 AAGAAAAGATGGAGGAAATGAGGA
50886 CGAAGGATGT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.55, C:0.00, G:0.34, T:0.11
Consensus pattern (29 bp):
AAGAAAAGATGGAGGAAATGAGGAGAAAT
Found at i:52455 original size:19 final size:19
Alignment explanation
Indices: 52431--52479 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
52421 AATGTAGAGT
52431 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
52450 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
52469 TAATTTTGTAT
1 TAATTTTGTAT
52480 GTGGATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:53028 original size:199 final size:200
Alignment explanation
Indices: 52743--55082 Score: 3381
Period size: 200 Copynumber: 11.8 Consensus size: 200
52733 GTAAGCATAT
* * *
52743 GTGTCGATACATTTATAAAACA-TGTCGATCCTAAAAACATTGAAACAGATAATTATAATGTAAT
1 GTGTCGATACATATATAAAA-AGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAAT
* * *
52807 AGGTAATTTTGTAAAATAACCGGTATAAATATACCGGTTTTATGTGAGAATAAGTTTACATAATG
65 AGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATG
*
52872 TATCAACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACG
130 TATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACG
52937 AATAAA
195 AATAAA
* * * *
52943 GTGTCGATACATATATAAAAAGTTTCGATCTC-AAAACATCAAAACAGATAATTATAATGTAATT
1 GTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
*
53007 GGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGGGAATAGGTCTACATAATGT
66 GGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
** *
53072 ATTAACACTTTTTTATTTTGTGTCGATACTTTTTGTCCATAATGAATGCCAAAAATGATGAACGA
131 ATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACGA
53137 ATAAA
196 ATAAA
* * *
53142 GTGTCGATATATATATAAAAAGTGTCGATCCCAAAAACATTGAAACAAATAATTATAATGTAATA
1 GTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
*
53207 GGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATGT
66 GGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
* * *
53272 ATCGACATTTTTTTTTATTTTGTGTCGATACTTTTTGTCCAGATTGAATGCAAAAAATGATGAAC
131 ATCGACA--CTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAAC
53337 GAATAAA
194 GAATAAA
*
53344 GTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATCTAATA
1 GTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
* **
53409 GGTAATTTTGTAATATAACAGGTATAAATATACCGGTTTTATGTGAGAATATATCTACATAATGT
66 GGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
* * * *
53474 ATCGACACTTTTTTATTTTGTGTCTATACTTTTTGTCAATATTGAATGCCAAAAATGATGAACGA
131 ATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACGA
53539 ATAAA
196 ATAAA
*
53544 GTATCGATACATATATAAAAAGTGTCGAT-CC---AA-A---AAACAGATAATTATAATGTAATA
1 GTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
* * *
53601 GGTAATTTTGTAATCTAACTGGTATAAATATACCAGTTTTATGTGAGAATAGGTCTACATAATGT
66 GGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
*
53666 ATCGACACTTTTTTATTTTGTGTCAATACTTTTTGTCCAGAATGAATG-CAAAAATGATGAACGA
131 ATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACGA
53730 ATAAA
196 ATAAA
* * * *
53735 GTGTCGATACATATATAAAAAGTGTCGATCTCAAAATCATTGAAACATATAATTATAATGTAATA
1 GTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
* * *
53800 GGTAATTTTGTAATATAACCGTTATAAATATACCGATTTTACGTGAGAATAGGTCTACATAATGT
66 GGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
** * *
53865 ATTAACACTTTTTTATTTTGTGTCGATAC--TTTGTCCAGATTGAATACCAAAAATGATGAACGA
131 ATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACGA
53928 ATAAA
196 ATAAA
*
53933 GTGTCGATACATATATTAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
1 GTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
* *
53998 GGTAATTTTGTAATATAACCGGTATAAATATATCGGCTTTATGTGAGAATAGGTCTACATAATGT
66 GGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
* * * *
54063 ATTGACACTTTTTT-TTTTGTGTCGATACTTTTTGTCCAGATTGAATGTCAAAAATGGTGAACGA
131 ATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACGA
54127 ATAAA
196 ATAAA
* *
54132 ATGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATATAATA
1 GTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
* * *
54197 GGTAATTTTGTAATACAACCGGTATAAATATATCGGTTTTATGTGAGAATATGTCTACATAATGT
66 GGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
54262 ATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACGA
131 ATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACGA
54327 ATAAA
196 ATAAA
* *
54332 GTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCAAAATAGATAATTATAATGTAATA
1 GTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
* * *
54397 GTTAATTTTGTAATATAACCGATATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATGT
66 GGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
* *
54462 GTCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAAGGATGAACGA
131 ATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACGA
54527 ATAAA
196 ATAAA
* *
54532 GTGTCGATACATATATAAAAAGTGTCGATCCCAAAAATATTGAAACAGATAATTATAATGTAATA
1 GTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
* * * * *
54597 GGTAATTTTTTAATATAACTGGTATAAATATATCGATTTTATGTGAGAATATGTCTACATAATGT
66 GGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
* * * * *
54662 ATCGATACTTTTTTATTTTGTGTTGATACTTTTTGTCTAGAATGAATACAAAAAATGATGAACGA
131 ATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACGA
54727 ATAAA
196 ATAAA
* * * ** *
54732 GTGCCGATACATTTATAAAAAGTGTCGATACCAAAAACATCGAAACCCTATAAATATAATGTAAT
1 GTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAA-CAGATAATTATAATGTAAT
* ** * * *
54797 AGGTAAATTTACAATGTAATCGGTATAACA-ATACCGGTTTTATG-GAAGAATAGGTTTACA-AC
65 AGGTAATTTTGTAATATAACCGGTATAA-ATATACCGGTTTTATGTG-AGAATAGGTCTACATA-
* * *
54859 ATGTATCGACAC-------TTGTGTGTCGATACTTTTTGTCCAGAAGGAAAT-CC-AAAA-GTTG
127 ATGTATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATG-AATGCCAAAAATGATG
* *
54914 CACGCATAAA
191 AACGAATAAA
* * * *
54924 GTGTCGATACATTTTTAAAAAGTCTCGATCCCAATAACATCGAAAGC-GATAATTATAATGTAAT
1 GTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAA-CAGATAATTATAATGTAAT
* * * * * *
54988 AGGTAAATTTT-CAATGTAACCGGTATAAATATACCAGTTTTATGAGAAAATAGGT-AATCATAA
65 AGGT-AATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTA-CATAA
* * * * * *
55051 AGTATAGACAATTGTTAAATTTGTGTCGATAC
128 TGTATCGACACTTTTTTATTTTGTGTCGATAC
55083 CATTTTAAAT
Statistics
Matches: 1942, Mismatches: 165, Indels: 68
0.89 0.08 0.03
Matches are distributed among these distances:
190 2 0.00
191 116 0.06
192 186 0.10
193 4 0.00
194 26 0.01
195 5 0.00
196 3 0.00
197 29 0.01
198 166 0.09
199 470 0.24
200 673 0.35
201 73 0.04
202 189 0.10
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (200 bp):
GTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
GGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
ATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACGA
ATAAA
Found at i:54471 original size:399 final size:399
Alignment explanation
Indices: 52743--55031 Score: 3356
Period size: 399 Copynumber: 5.8 Consensus size: 399
52733 GTAAGCATAT
* * *
52743 GTGTCGATACATTTATAAAACA-TGTCGATCCTAAAAACATTGAAACAGATAATTATAATGTAAT
1 GTGTCGATACATATATAAAA-AGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAAT
* * * *
52807 AGGTAATTTTGTAAAATAACCGGTATAAATATACCGGTTTTATGTGAGAATAAGTTTACATAATG
65 AGGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATG
*
52872 TATCAACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACG
130 TATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATG-CAAAAATGATGAACG
* * *
52937 AATAAAGTGTCGATACATATATAAAAAGTTTCGATCTC-AAAACATCAAAACAGATAATTATAAT
194 AATAAAGTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAAT
* * *
53001 GTAATTGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGGGAATAGGTCTACA
259 GTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATATGTCTACA
** *
53066 TAATGTATTAACACTTTTTTATTTTGTGTCGATACTTTTTGTCCATAATGAATGCCAAAAATGAT
324 TAATGTATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGAT
53131 GAACGAATAAA
389 GAACGAATAAA
* * *
53142 GTGTCGATATATATATAAAAAGTGTCGATCCCAAAAACATTGAAACAAATAATTATAATGTAATA
1 GTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
53207 GGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATGT
66 GGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATGT
* *
53272 ATCGACATTTTTTTTTATTTTGTGTCGATACTTTTTGTCCAGATTGAATGCAAAAAATGATGAAC
131 ATCGACA--CTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGC-AAAAATGATGAAC
53337 GAATAAAGTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAA
193 GAATAAAGTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAA
* * *
53402 TCTAATAGGTAATTTTGTAATATAACAGGTATAAATATACCGGTTTTATGTGAGAATATATCTAC
258 TGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATATGTCTAC
* * * *
53467 ATAATGTATCGACACTTTTTTATTTTGTGTCTATACTTTTTGTCAATATTGAATGCCAAAAATGA
323 ATAATGTATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGA
53532 TGAACGAATAAA
388 TGAACGAATAAA
*
53544 GTATCGATACATATATAAAAAGTGTCGAT-CC---AA-A---AAACAGATAATTATAATGTAATA
1 GTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
* *
53601 GGTAATTTTGTAATCTAACTGGTATAAATATACC-AGTTTTATGTGAGAATAGGTCTACATAATG
66 GGTAATTTTGTAATATAACCGGTATAAATATACCGA-TTTTATGTGAGAATAGGTCTACATAATG
*
53665 TATCGACACTTTTTTATTTTGTGTCAATACTTTTTGTCCAGAATGAATGCAAAAATGATGAACGA
130 TATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCAAAAATGATGAACGA
* * * *
53730 ATAAAGTGTCGATACATATATAAAAAGTGTCGATCTCAAAATCATTGAAACATATAATTATAATG
195 ATAAAGTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATG
* * * *
53795 TAATAGGTAATTTTGTAATATAACCGTTATAAATATACCGATTTTACGTGAGAATAGGTCTACAT
260 TAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATATGTCTACAT
** * *
53860 AATGTATTAACACTTTTTTATTTTGTGTCGATAC--TTTGTCCAGATTGAATACCAAAAATGATG
325 AATGTATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATG
53923 AACGAATAAA
390 AACGAATAAA
*
53933 GTGTCGATACATATATTAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
1 GTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
* **
53998 GGTAATTTTGTAATATAACCGGTATAAATATATCGGCTTTATGTGAGAATAGGTCTACATAATGT
66 GGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATGT
* * *
54063 ATTGACACTTTTTT-TTTTGTGTCGATACTTTTTGTCCAGATTGAATGTCAAAAATGGTGAACGA
131 ATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATG-CAAAAATGATGAACGA
* *
54127 ATAAAATGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATA
195 ATAAAGTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATG
* *
54192 TAATAGGTAATTTTGTAATACAACCGGTATAAATATATCGGTTTTATGTGAGAATATGTCTACAT
260 TAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATATGTCTACAT
54257 AATGTATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATG
325 AATGTATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATG
54322 AACGAATAAA
390 AACGAATAAA
* *
54332 GTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCAAAATAGATAATTATAATGTAATA
1 GTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
* *
54397 GTTAATTTTGTAATATAACCGATATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATGT
66 GGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATGT
* *
54462 GTCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAAGGATGAACGA
131 ATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATG-CAAAAATGATGAACGA
* *
54527 ATAAAGTGTCGATACATATATAAAAAGTGTCGATCCCAAAAATATTGAAACAGATAATTATAATG
195 ATAAAGTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATG
* * * *
54592 TAATAGGTAATTTTTTAATATAACTGGTATAAATATATCGATTTTATGTGAGAATATGTCTACAT
260 TAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATATGTCTACAT
* * * * *
54657 AATGTATCGATACTTTTTTATTTTGTGTTGATACTTTTTGTCTAGAATGAATACAAAAAATGATG
325 AATGTATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATG
54722 AACGAATAAA
390 AACGAATAAA
* * * ** *
54732 GTGCCGATACATTTATAAAAAGTGTCGATACCAAAAACATCGAAACCCTATAAATATAATGTAAT
1 GTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAA-CAGATAATTATAATGTAAT
* ** * * * *
54797 AGGTAAATTTACAATGTAATCGGTATAACA-ATACCGGTTTTATG-GAAGAATAGGTTTACA-AC
65 AGGTAATTTTGTAATATAACCGGTATAA-ATATACCGATTTTATGTG-AGAATAGGTCTACATA-
* * * * *
54859 ATGTATCGACAC-------TTGTGTGTCGATACTTTTTGTCCAGAAGGAAAT-CCAAAA-GTTGC
127 ATGTATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATG-AATGCAAAAATGATGA
* * * * *
54915 ACGCATAAAGTGTCGATACATTTTTAAAAAGTCTCGATCCCAATAACATCGAAAGC-GATAATTA
191 ACGAATAAAGTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAA-CAGATAATTA
* * *
54979 TAATGTAATAGGTAAATTTT-CAATGTAACCGGTATAAATATACCAGTTTTATG
255 TAATGTAATAGGT-AATTTTGTAATATAACCGGTATAAATATACCGGTTTTATG
55032 AGAAAATAGG
Statistics
Matches: 1724, Mismatches: 140, Indels: 59
0.90 0.07 0.03
Matches are distributed among these distances:
389 63 0.04
390 2 0.00
391 165 0.10
392 137 0.08
393 15 0.01
394 118 0.07
395 3 0.00
396 31 0.02
397 261 0.15
398 3 0.00
399 297 0.17
400 282 0.16
401 164 0.10
402 183 0.11
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (399 bp):
GTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
GGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATGT
ATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCAAAAATGATGAACGAA
TAAAGTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGT
AATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATATGTCTACATA
ATGTATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGA
ACGAATAAA
Found at i:55339 original size:11 final size:11
Alignment explanation
Indices: 55323--55352 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
55313 GCATCCACAC
55323 CCAAAACGGCT
1 CCAAAACGGCT
55334 CCAAAACGGCT
1 CCAAAACGGCT
55345 CCAAAACG
1 CCAAAACG
55353 TCAGCGTCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.40, C:0.37, G:0.17, T:0.07
Consensus pattern (11 bp):
CCAAAACGGCT
Done.