Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005180.1 Hibiscus syriacus cultivar Beakdansim tig00011694_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: 76082
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Found at i:5387 original size:42 final size:42
Alignment explanation
Indices: 5297--5465 Score: 257
Period size: 42 Copynumber: 4.0 Consensus size: 42
5287 GAGCCTAGAA
* * * *
5297 AAACTGTAAAGTTTACCTTTGCACACAGCAAAAAGGGACCTGGG
1 AAACTGTAAGGCTTACCTTTGCACACA--ACAAAGGAACCTGGG
5341 AAACTGTAAGGCTTACCTTTGCACACAACAAAGGAACCTGGG
1 AAACTGTAAGGCTTACCTTTGCACACAACAAAGGAACCTGGG
* *
5383 AAACTGTAAGGCTTACCTTTGCACATAGCAAAGGAACCTGGG
1 AAACTGTAAGGCTTACCTTTGCACACAACAAAGGAACCTGGG
*
5425 AAACTGTAAGGCTTACCTTTGCACACAGCAAAGGAACCTGG
1 AAACTGTAAGGCTTACCTTTGCACACAACAAAGGAACCTGG
5466 TAATACTTCC
Statistics
Matches: 118, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
42 93 0.79
44 25 0.21
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (42 bp):
AAACTGTAAGGCTTACCTTTGCACACAACAAAGGAACCTGGG
Found at i:6442 original size:29 final size:28
Alignment explanation
Indices: 6384--6541 Score: 115
Period size: 29 Copynumber: 5.5 Consensus size: 28
6374 GTCAAACATT
** *
6384 TTACACAAATAGCACCCTTTTTAAAATAA
1 TTAC-CAAATAGCACCCTTTTCGAATTAA
6413 TTACCAATATAGCACCCTTTTCGAATTAA
1 TTACCAA-ATAGCACCCTTTTCGAATTAA
* * **
6442 TTCCCAAAATAGCATCAATTTCGAATTAA
1 TTACC-AAATAGCACCCTTTTCGAATTAA
** * *
6471 TTACCAGAATATTA--CTTTTTGAA-AAA
1 TTACCA-AATAGCACCCTTTTCGAATTAA
* *
6497 TTACCAAAATAGCACCCATTTCAAATTAA
1 TTACC-AAATAGCACCCTTTTCGAATTAA
*
6526 TTCCCAGAATAGCACC
1 TTACCA-AATAGCACC
6542 AAAACTAATT
Statistics
Matches: 100, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
26 12 0.12
27 7 0.07
28 11 0.11
29 68 0.68
30 2 0.02
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (28 bp):
TTACCAAATAGCACCCTTTTCGAATTAA
Found at i:6595 original size:12 final size:13
Alignment explanation
Indices: 6570--6598 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
6560 GAATAACACC
6570 GGTCAACGGGTCG
1 GGTCAACGGGTCG
6583 GGTCAAC-GGTCG
1 GGTCAACGGGTCG
6595 GGTC
1 GGTC
6599 GTGACCGGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.14, C:0.24, G:0.45, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:12836 original size:29 final size:28
Alignment explanation
Indices: 12804--12872 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
12794 ATTAAATATA
12804 TAAAGATATAAAAATAAATAAATA-ATTAC
1 TAAA-ATATAAAAATAAA-AAATATATTAC
* * *
12833 TAAAATAAATAAAATTAAAAATATATTAT
1 TAAAATATA-AAAATAAAAAATATATTAC
12862 TAAAATATAAA
1 TAAAATATAAA
12873 CGATAACAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
28 11 0.32
29 23 0.68
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (28 bp):
TAAAATATAAAAATAAAAAATATATTAC
Found at i:12853 original size:16 final size:16
Alignment explanation
Indices: 12797--12855 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 16
12787 AATAATAATT
*
12797 AAATATATAAAGATATAA
1 AAATAAATAAA-AT-TAA
12815 AAATAAATAAATAATTACTA
1 AAATAAAT-AA-AATTA--A
12835 AAATAAATAAAATTAA
1 AAATAAATAAAATTAA
12851 AAATA
1 AAATA
12856 TATTATTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
16 6 0.17
18 14 0.39
19 6 0.17
20 10 0.28
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (16 bp):
AAATAAATAAAATTAA
Found at i:14412 original size:134 final size:132
Alignment explanation
Indices: 14064--14505 Score: 505
Period size: 137 Copynumber: 3.2 Consensus size: 132
14054 ATCAAGCAAA
* * * * * *
14064 AAGGTCGAACAATTTATTCTCATTATGAACTTCTCCTCCCTCATCGGATGAGCTCTTCTCGTTAT
1 AAGGTCGAACAAGTTCTTCTCATTATGAACTTCT--T-CCTCTTCAGATGAGTTCTTCTCATTAT
* *
14129 GAACTCTCCACT-ATAAATGTTGATCCCTTCAAGTGAGGTG--TTGATTCAACTCCATATGTGAT
63 GAACT-TTCTCTGA-AAATGTTGAT-CC-TCAAGTGAGGTGTCTTGATTCAACTCCATATGTGAT
14191 GAATTGAA-C
124 GAATT-AAGC
* * * *
14200 TAAGGTTGAACAAGTTCTTCTTACTGTGAACTTCTTATTCCTCTTCAGATGAGTTCTTCTCATTA
1 -AAGGTCGAACAAGTTCTTCTCATTATGAACTTC---TTCCTCTTCAGATGAGTTCTTCTCATTA
*
14265 TGAACTTTCTCTGAAAATGTTGATCCTCAAGTGAGGTGTCATTGATTCAACTTCATATGTGATGA
62 TGAACTTTCTCTGAAAATGTTGATCCTCAAGTGAGGTGTC-TTGATTCAACTCCATATGTGATGA
14330 ATTAAGGC
126 ATTAA-GC
* *
14338 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 AAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
* * * *
14403 CTTTCTCTGAAAATGTTGATCCTCAAGAGAGGTTCTTCTTTCATTCAACTCCATAGGTGATGAAT
66 CTTTCTCTGAAAATGTTGATCCTCAAGTGAGG-T-GTC-TTGATTCAACTCCATATGTGATGAAT
* *
14468 CAAGTT
128 TAAG-C
14474 AAGGTCGAACAAGTTCTTCTCATTATGAACTT
1 AAGGTCGAACAAGTTCTTCTCATTATGAACTT
14506 TCTCTGGAAA
Statistics
Matches: 267, Mismatches: 26, Indels: 25
0.84 0.08 0.08
Matches are distributed among these distances:
134 74 0.28
135 4 0.01
136 74 0.28
137 112 0.42
138 2 0.01
140 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (132 bp):
AAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
CTTTCTCTGAAAATGTTGATCCTCAAGTGAGGTGTCTTGATTCAACTCCATATGTGATGAATTAA
GC
Found at i:14881 original size:113 final size:112
Alignment explanation
Indices: 14679--14935 Score: 392
Period size: 113 Copynumber: 2.3 Consensus size: 112
14669 AGAGTCATGC
*
14679 AAAGGTTGAACAAGTTTTTCTCATTATGAACTTTTTCTTCCTCTTCAGATAAGTTCTTCTCATTA
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTCTTCAGATAAGTTCTTCTCATTA
* * *
14744 TGAACTTTCTCTGGCAATGCTGATCCATCGAGTGATGAATTCGAGCA
66 TGAACTTACTCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCA
* * *
14791 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTT-TTCCTTTTTCAGATGAGTTCTTCTCAT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTT-TTTCTTCC-TCTTCAGATAAGTTCTTCTCAT
*
14855 TATGAACTCTAC-CTGGCAATGTTGATCCATCGAATGATGAATTCAAGCA
64 TATGAACT-TACTCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCA
*
14904 AAAGGTTGAACAAGTTCGTCTCATTATGAACT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACT
14936 CTACCTGGCA
Statistics
Matches: 132, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
112 35 0.27
113 95 0.72
114 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (112 bp):
AAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTCTTCAGATAAGTTCTTCTCATTA
TGAACTTACTCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCA
Found at i:15174 original size:102 final size:104
Alignment explanation
Indices: 14981--15179 Score: 285
Period size: 102 Copynumber: 1.9 Consensus size: 104
14971 TGGAAATGGA
* * * *
14981 ATCAAGCAAAAGGTTAAACACGCTCTTCTCATTTATGAACTTCTTCTTCCTCTTTAGATTAGTTC
1 ATCAAGCAAAAGGTTAAACAAGCTCTTCTCATTTATAAACTTCTTCTTCCTCTTCAGATGAGTTC
15046 TTCCCATTATGAACTCTACCTAGAAATGTTGATACATCG
66 TTCCCATTATGAACTCTACCTAGAAATGTTGATACATCG
* * *
15085 ATCAAGCTAAA-GTTAAACAAGTTCTTCTCA-TTATAAACTTCTTCTTCCTCTTCAGGTGAGTTC
1 ATCAAGCAAAAGGTTAAACAAGCTCTTCTCATTTATAAACTTCTTCTTCCTCTTCAGATGAGTTC
* * * *
15148 TTCTCATTATGAACTTTATCTGGAAATGTTGA
66 TTCCCATTATGAACTCTACCTAGAAATGTTGA
15180 CCCATCGAAT
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
102 57 0.68
103 17 0.20
104 10 0.12
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (104 bp):
ATCAAGCAAAAGGTTAAACAAGCTCTTCTCATTTATAAACTTCTTCTTCCTCTTCAGATGAGTTC
TTCCCATTATGAACTCTACCTAGAAATGTTGATACATCG
Found at i:15602 original size:22 final size:22
Alignment explanation
Indices: 15566--15641 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
15556 TAAAGCTTTT
*
15566 ATCTTT-AAAAGAGAATCTATC
1 ATCTTTGAAGAGAGAATCTATC
15587 ATCTTTGAAGAGAGAATCTATC
1 ATCTTTGAAGAGAGAATCTATC
15609 ATCTTTGAAGAGAGAATCTATC
1 ATCTTTGAAGAGAGAATCTATC
*
15631 ATTTTTGAAGA
1 ATCTTTGAAGA
15642 ATGTAGATGT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
21 6 0.12
22 46 0.88
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (22 bp):
ATCTTTGAAGAGAGAATCTATC
Found at i:16153 original size:54 final size:54
Alignment explanation
Indices: 16041--16233 Score: 199
Period size: 54 Copynumber: 3.6 Consensus size: 54
16031 ACTTCTGTAT
*
16041 AGATGTTTCGTAAAATATTTGGCAACACATTCATCATCTCATGTGGTTTATGCCC
1 AGATG-TTCGTAAAATATTTGACAACACATTCATCATCTCATGTGGTTTATGCCC
* * *
16096 AGATGTTCGTAAAATATTTGACAACACATTCATCATCTCATGTGGTTTTTTCTC
1 AGATGTTCGTAAAATATTTGACAACACATTCATCATCTCATGTGGTTTATGCCC
* ** * * * * * * *
16150 AGATGCTAATAAAACATTTGATAATACATTCATCCTTTTC-TGTGGCTTCTGCCC
1 AGATGTTCGTAAAATATTTGACAACACATTCAT-CATCTCATGTGGTTTATGCCC
* * * *
16204 ATATGTTTGTAAAACATTTGACAATACATT
1 AGATGTTCGTAAAATATTTGACAACACATT
16234 TATCCAGTTG
Statistics
Matches: 116, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
54 107 0.92
55 9 0.08
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (54 bp):
AGATGTTCGTAAAATATTTGACAACACATTCATCATCTCATGTGGTTTATGCCC
Found at i:17479 original size:75 final size:75
Alignment explanation
Indices: 17346--17508 Score: 184
Period size: 75 Copynumber: 2.2 Consensus size: 75
17336 GGCCTTCAAA
* * * *
17346 ATGCCCCAACATTGGCTAATATGAACATTCAAAATACATCAACATTCTTAATTCTGATTGAAAAG
1 ATGCCCCATCATTGGCTAATATAAACATTCAAAATACATCAACATTCTCAATTATGATTGAAAAG
17411 GGCTTTCAGC
66 GGCTTTCAGC
* * *** * * *
17421 ATGCCCTATCATTGGCTAATATAAACGTTCAAAATGTGTCAATATTC-CAATTTATGATTGGAAT
1 ATGCCCCATCATTGGCTAATATAAACATTCAAAATACATCAACATTCTCAA-TTATGATTGAAAA
*
17485 GGGTTTTCAGC
65 GGGCTTTCAGC
*
17496 ATACCCCATCATT
1 ATGCCCCATCATT
17509 TGTTTTTTTT
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
74 2 0.03
75 70 0.97
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (75 bp):
ATGCCCCATCATTGGCTAATATAAACATTCAAAATACATCAACATTCTCAATTATGATTGAAAAG
GGCTTTCAGC
Found at i:22336 original size:6 final size:6
Alignment explanation
Indices: 22327--22419 Score: 51
Period size: 6 Copynumber: 14.8 Consensus size: 6
22317 TGCAAATGCA
* * * *
22327 AAAATG AAAATG TAAATAC AAACATA AAAATG CAAAATG CAAATG CAAAATG
1 AAAATG AAAATG AAAAT-G AAA-ATG AAAATG -AAAATG AAAATG -AAAATG
* * * * * * *
22379 CAAATG CAAATG TAAATG TAAATG TAAATG TAAATG TAAAT
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAAT
22420 ATGTGAATGT
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
6 56 0.76
7 16 0.22
8 2 0.03
ACGTcount: A:0.57, C:0.08, G:0.13, T:0.23
Consensus pattern (6 bp):
AAAATG
Found at i:22372 original size:13 final size:13
Alignment explanation
Indices: 22354--22388 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
22344 ACAAACATAA
22354 AAATGCAAAATGC
1 AAATGCAAAATGC
22367 AAATGCAAAATGC
1 AAATGCAAAATGC
22380 AAATGCAAA
1 AAATGCAAA
22389 TGTAAATGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.14
Consensus pattern (13 bp):
AAATGCAAAATGC
Found at i:22376 original size:20 final size:20
Alignment explanation
Indices: 22308--22388 Score: 78
Period size: 20 Copynumber: 4.0 Consensus size: 20
22298 AAATGTAATT
22308 ATGCAAAGATGCAAATGCAAAA
1 ATGCAAA-ATGCAAATGC-AAA
* *
22330 ATG-AAAATGTAAATACAAA
1 ATGCAAAATGCAAATGCAAA
*
22349 CAT-AAAAATGCAAAATGC-AA
1 -ATGCAAAATGC-AAATGCAAA
22369 ATGCAAAATGCAAATGCAAA
1 ATGCAAAATGCAAATGCAAA
22389 TGTAAATGTA
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
19 11 0.22
20 27 0.55
21 8 0.16
22 3 0.06
ACGTcount: A:0.58, C:0.12, G:0.14, T:0.16
Consensus pattern (20 bp):
ATGCAAAATGCAAATGCAAA
Found at i:22395 original size:12 final size:12
Alignment explanation
Indices: 22354--22419 Score: 78
Period size: 12 Copynumber: 5.3 Consensus size: 12
22344 ACAAACATAA
*
22354 AAATGCAAAATGC
1 AAATGC-AAATGT
*
22367 AAATGCAAAATGC
1 AAATGC-AAATGT
22380 AAATGCAAATGT
1 AAATGCAAATGT
*
22392 AAATGTAAATGT
1 AAATGCAAATGT
*
22404 AAATGTAAATGT
1 AAATGCAAATGT
22416 AAAT
1 AAAT
22420 ATGTGAATGT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
12 32 0.63
13 19 0.37
ACGTcount: A:0.53, C:0.08, G:0.15, T:0.24
Consensus pattern (12 bp):
AAATGCAAATGT
Found at i:22401 original size:18 final size:18
Alignment explanation
Indices: 22361--22419 Score: 82
Period size: 18 Copynumber: 3.2 Consensus size: 18
22351 TAAAAATGCA
* *
22361 AAATGCAAATGCAAAATGC
1 AAATGCAAATG-TAAATGT
22380 AAATGCAAATGTAAATGT
1 AAATGCAAATGTAAATGT
*
22398 AAATGTAAATGTAAATGT
1 AAATGCAAATGTAAATGT
22416 AAAT
1 AAAT
22420 ATGTGAATGT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
18 26 0.70
19 11 0.30
ACGTcount: A:0.53, C:0.07, G:0.15, T:0.25
Consensus pattern (18 bp):
AAATGCAAATGTAAATGT
Found at i:22429 original size:6 final size:6
Alignment explanation
Indices: 22374--22419 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
22364 TGCAAATGCA
* *
22374 AAATGC AAATGC AAATGT AAATGT AAATGT AAATGT AAATGT AAAT
1 AAATGT AAATGT AAATGT AAATGT AAATGT AAATGT AAATGT AAAT
22420 ATGTGAATGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.52, C:0.04, G:0.15, T:0.28
Consensus pattern (6 bp):
AAATGT
Found at i:24597 original size:2 final size:2
Alignment explanation
Indices: 24590--24614 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24580 AATTTTAAGA
24590 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
24615 AGATATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27335 original size:56 final size:53
Alignment explanation
Indices: 27249--27354 Score: 158
Period size: 56 Copynumber: 1.9 Consensus size: 53
27239 GAAGTAAACC
27249 AAATATTATGTATATTAAAAAAATAAAAATTTAGATACTAAAATAAAATAAAAATT
1 AAATATTATGTATATTAAAAAAATAAAAA-TT--ATACTAAAATAAAATAAAAATT
* * *
27305 AAATATTATGTATATTAAATAAATGAAAATTATACTAAAATAAATTAAAA
1 AAATATTATGTATATTAAAAAAATAAAAATTATACTAAAATAAAATAAAA
27355 CTGCTAATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
53 18 0.38
55 2 0.04
56 27 0.57
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (53 bp):
AAATATTATGTATATTAAAAAAATAAAAATTATACTAAAATAAAATAAAAATT
Found at i:27686 original size:23 final size:23
Alignment explanation
Indices: 27660--27711 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
27650 TCCTTCAATA
27660 TTTAAATGAT-TAA-TTTTGATCTT
1 TTTAAATG-TCTAATTTTTGAT-TT
*
27683 TTT-AATGTCTAATTTTTTATTT
1 TTTAAATGTCTAATTTTTGATTT
27705 TTTAAAT
1 TTTAAAT
27712 CATATTTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 1 0.04
22 12 0.48
23 12 0.48
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.62
Consensus pattern (23 bp):
TTTAAATGTCTAATTTTTGATTT
Found at i:27835 original size:20 final size:20
Alignment explanation
Indices: 27812--27854 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
27802 ATAAACAAAA
27812 AAAC-TAATAAATTATATAAT
1 AAACATAATAAATT-TATAAT
* *
27832 AAACATATTAAATTTTTAAT
1 AAACATAATAAATTTATAAT
27852 AAA
1 AAA
27855 ATATATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATAATAAATTTATAAT
Found at i:27843 original size:21 final size:21
Alignment explanation
Indices: 27811--27864 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
27801 AATAAACAAA
*
27811 AAAAC-TAATAAATTATATAAT
1 AAAACATATTAAATT-TATAAT
*
27832 -AAACATATTAAATTTTTAAT
1 AAAACATATTAAATTTATAAT
*
27852 AAAATATATTAAA
1 AAAACATATTAAA
27865 ATAAAAACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 9 0.32
21 19 0.68
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAACATATTAAATTTATAAT
Found at i:28326 original size:20 final size:20
Alignment explanation
Indices: 28301--28393 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
28291 TTTTCCCAAT
28301 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
28321 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
28341 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* * * *
28362 TCGCAACGTGAATTGAGAAAA
1 TCGCAATGCGAA-TAAGTAAA
28383 TCGCAATGCGA
1 TCGCAATGCGA
28394 TACTGACTAT
Statistics
Matches: 57, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 26 0.46
21 31 0.54
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:28343 original size:41 final size:41
Alignment explanation
Indices: 28298--28393 Score: 165
Period size: 41 Copynumber: 2.3 Consensus size: 41
28288 CGATTTTCCC
*
28298 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
*
28339 AATTCGCAATGCGAATAAGTAAATCGCAACGTGAATTGAGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
*
28380 AAATCGCAATGCGA
1 AATTCGCAATGCGA
28394 TACTGACTAT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.20
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
Found at i:28407 original size:20 final size:20
Alignment explanation
Indices: 28382--28476 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
28372 AATTGAGAAA
*
28382 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
28402 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* * *
28423 ATCACAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
28443 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
28463 TTCGCAACGCGATA
1 ATCGCAACGCGATA
28477 ATACATAATC
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
20 46 0.78
21 13 0.22
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:28693 original size:22 final size:22
Alignment explanation
Indices: 28666--28707 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
28656 CTCTCTCACC
28666 CATCTCCGACGAAATCCGTCCT
1 CATCTCCGACGAAATCCGTCCT
*
28688 CATCTCCGGCGAAATCCGTC
1 CATCTCCGACGAAATCCGTC
28708 TATCTAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.40, G:0.17, T:0.21
Consensus pattern (22 bp):
CATCTCCGACGAAATCCGTCCT
Found at i:28996 original size:20 final size:20
Alignment explanation
Indices: 28971--29008 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
28961 CGATTCTCTC
28971 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
28991 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
29009 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:30372 original size:18 final size:18
Alignment explanation
Indices: 30328--30372 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
30318 TCCACTTCGG
*
30328 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* * *
30346 AAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
30364 GAGCCATCA
1 GAGCCATCA
30373 TCTGATCGAC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.29, C:0.42, G:0.13, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:30873 original size:20 final size:20
Alignment explanation
Indices: 30848--30893 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
30838 TAGTTTACTT
30848 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
30868 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
30888 TCGCAA
1 TCGCAA
30894 TGCGAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:30945 original size:32 final size:32
Alignment explanation
Indices: 30889--30977 Score: 124
Period size: 32 Copynumber: 2.7 Consensus size: 32
30879 AAATGGCTAT
* * *
30889 CGCAATGCGAAATAAAAATCGCAACGACAAGAG
1 CGCAACGCGAAAT-GAAATCGCAACGACAAAAG
*
30922 CGCAACGCGAAATGAAATCGCAACGACAAAAT
1 CGCAACGCGAAATGAAATCGCAACGACAAAAG
30954 CGCAACGCGAAATGAAAATCGCAA
1 CGCAACGCGAAATG-AAATCGCAA
30978 TGCGATTTGT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
32 30 0.59
33 21 0.41
ACGTcount: A:0.47, C:0.24, G:0.20, T:0.09
Consensus pattern (32 bp):
CGCAACGCGAAATGAAATCGCAACGACAAAAG
Found at i:30955 original size:14 final size:14
Alignment explanation
Indices: 30903--30960 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
30893 ATGCGAAATA
30903 AAAATCGCAACGAC
1 AAAATCGCAACGAC
* * *
30917 AAGAGCGCAACGCGAA
1 AAAATCGCAA--CGAC
30933 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
30949 AAAATCGCAACG
1 AAAATCGCAACG
30961 CGAAATGAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
14 19 0.56
16 8 0.24
18 7 0.21
ACGTcount: A:0.47, C:0.26, G:0.21, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:30971 original size:19 final size:19
Alignment explanation
Indices: 30922--30982 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
30912 ACGACAAGAG
30922 CGCAACGCGAAATG-AAAT
1 CGCAACGCGAAATGAAAAT
*
30940 CGCAA--CG--A-CAAAAT
1 CGCAACGCGAAATGAAAAT
30954 CGCAACGCGAAATGAAAAT
1 CGCAACGCGAAATGAAAAT
*
30973 CGCAATGCGA
1 CGCAACGCGA
30983 TTTGTGAAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 11
0.71 0.06 0.23
Matches are distributed among these distances:
14 10 0.29
16 4 0.12
18 6 0.18
19 14 0.41
ACGTcount: A:0.44, C:0.25, G:0.21, T:0.10
Consensus pattern (19 bp):
CGCAACGCGAAATGAAAAT
Found at i:31789 original size:33 final size:33
Alignment explanation
Indices: 31747--31938 Score: 264
Period size: 33 Copynumber: 5.8 Consensus size: 33
31737 GGAAATTACT
31747 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
31780 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
31812 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
31846 ATCGCAATGCGAAATGAAAATCGCAACGCGA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
31878 TTTCGCAATGCGAAATGAAAATCTCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
31912 ATCGCAATGCGAAATG-AAATAGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
31939 CGAATTTAAT
Statistics
Matches: 139, Mismatches: 16, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
32 11 0.08
33 126 0.91
34 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:31854 original size:66 final size:66
Alignment explanation
Indices: 31748--31945 Score: 353
Period size: 66 Copynumber: 3.0 Consensus size: 66
31738 GAAATTACTA
* *
31748 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
31813 T
66 T
31814 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
31879 T
66 T
* *
31880 TCGCAATGCGAAATGAAAATCTCAACGAGGGAATCGCAATGCGAAATG-AAATAGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
31944 T
66 T
31945 T
1 T
31946 AATTTCGCGT
Statistics
Matches: 128, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
65 17 0.13
66 111 0.87
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:31965 original size:14 final size:14
Alignment explanation
Indices: 31966--31999 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
31956 TGCGATTTTC
31966 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
31980 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
31994 ATTTTC
1 ATTTTC
32000 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:32153 original size:14 final size:14
Alignment explanation
Indices: 32120--32154 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
32110 CATCAATTAA
32120 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
32134 AC-AATCACCTTTT
1 ACAAATCAACTTTT
32147 ACAAATCA
1 ACAAATCA
32155 TTTAAACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.31
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:33576 original size:21 final size:21
Alignment explanation
Indices: 33510--33576 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
33500 GTGAATCGGG
*
33510 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
33530 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
33552 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
33573 CTCT
1 CTCT
33577 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:33595 original size:42 final size:41
Alignment explanation
Indices: 33510--33632 Score: 104
Period size: 42 Copynumber: 2.9 Consensus size: 41
33500 GTGAATCGGG
* * * * *
33510 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
33552 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * * *
33594 CTCTTCAACGATAGGAGTGGAATCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
33633 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.24, C:0.17, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:35712 original size:33 final size:33
Alignment explanation
Indices: 35655--35753 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
35645 ACGAGATAAT
*
35655 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
35689 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
35722 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
35754 GCGAAATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:35747 original size:19 final size:19
Alignment explanation
Indices: 35630--35814 Score: 165
Period size: 19 Copynumber: 10.1 Consensus size: 19
35620 TCTTTTGGTT
*
35630 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
35649 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
35669 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
35687 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
35703 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
35721 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
35736 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
* *
35756 GAAATAAAAATCGCAACAC
1 GAAATGAAAATCGCAACGC
35775 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
35794 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
35813 GA
1 GA
35815 TTTTGGTTTC
Statistics
Matches: 136, Mismatches: 17, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
14 19 0.14
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.03
19 60 0.44
20 45 0.33
21 2 0.01
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:35768 original size:39 final size:38
Alignment explanation
Indices: 35725--35814 Score: 144
Period size: 39 Copynumber: 2.3 Consensus size: 38
35715 GCGACCAGAC
35725 AATCGCAACGCGAAATGAAAATCGCAACCGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CGCGAAATAAA
* *
35764 AATCGCAACACGAAATGAAAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
*
35802 AATCGCAATGCGA
1 AATCGCAACGCGA
35815 TTTTGGTTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
38 21 0.45
39 26 0.55
ACGTcount: A:0.48, C:0.22, G:0.19, T:0.11
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
Found at i:35843 original size:19 final size:19
Alignment explanation
Indices: 35810--35890 Score: 73
Period size: 19 Copynumber: 4.5 Consensus size: 19
35800 AAAATCGCAA
**
35810 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
35829 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
35848 TGCGA---TTA--TCTCGT
1 TGCGATTTTTATTTCGCGT
**
35862 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
35882 TGCGATTTT
1 TGCGATTTT
35891 CATTCTCGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
14 10 0.20
16 3 0.06
17 3 0.06
19 23 0.46
20 11 0.22
ACGTcount: A:0.11, C:0.17, G:0.25, T:0.47
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:36477 original size:41 final size:41
Alignment explanation
Indices: 36425--36502 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
36415 CGAAAGTCAG
* * *
36425 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
* *
36466 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
36503 CCCAATTCGC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.40
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
Found at i:36499 original size:20 final size:20
Alignment explanation
Indices: 36406--36499 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
36396 CGCTATGTAA
*
36406 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* *
36426 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
36446 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTCAGT
*
36467 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
36487 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
36500 TTTCCCAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:36518 original size:41 final size:41
Alignment explanation
Indices: 36425--36542 Score: 105
Period size: 41 Copynumber: 2.9 Consensus size: 41
36415 CGAAAGTCAG
* * * ** *
36425 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAA
* *
36466 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAA
1 TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTT-CCAA
* **
36508 T-TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTT
1 TATCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTT
36543 ACTTATTCGC
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
40 3 0.05
41 57 0.92
42 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.40
Consensus pattern (41 bp):
TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAA
Found at i:36532 original size:20 final size:20
Alignment explanation
Indices: 36488--36600 Score: 136
Period size: 20 Copynumber: 5.5 Consensus size: 20
36478 ATAGTCAGTA
* **
36488 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
36509 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
36529 TCGCATTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
36549 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
36570 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
36590 TCGCATTGCGA
1 TCGCATTGCGA
36601 ATTGGGAAAA
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
20 52 0.67
21 26 0.33
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:36533 original size:61 final size:61
Alignment explanation
Indices: 36450--36600 Score: 209
Period size: 61 Copynumber: 2.5 Consensus size: 61
36440 GTAAGTATCT
* *
36450 CGTTGCGATTT-TTTATTATCGCATTGCGATAGTCA-GTA-TCGCATTGCGATTTTCCCAATTCG
1 CGTTGCGATTTACTTA-T-TCGCATTGCGAT--TCACGTATTCGCATTGCGAATTTCCCAATTCG
* *
36512 CGTTGCGATTTACTTATTCGCATTGCGATTTACTTATTCGCATTGCGAATTTCCCAATTCG
1 CGTTGCGATTTACTTATTCGCATTGCGATTCACGTATTCGCATTGCGAATTTCCCAATTCG
36573 CGTTGCGATTTACTTATTCGCATTGCGA
1 CGTTGCGATTTACTTATTCGCATTGCGA
36601 ATTGGGAAAA
Statistics
Matches: 82, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
59 2 0.02
60 2 0.02
61 63 0.77
62 12 0.15
63 3 0.04
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.40
Consensus pattern (61 bp):
CGTTGCGATTTACTTATTCGCATTGCGATTCACGTATTCGCATTGCGAATTTCCCAATTCG
Found at i:46311 original size:48 final size:47
Alignment explanation
Indices: 46253--46597 Score: 215
Period size: 48 Copynumber: 7.4 Consensus size: 47
46243 CCCGTTGCTT
* * *
46253 ATGGCCCTGCATCCACTGTTGGCGGCGGCATAGTCACCGTTGTTATTA
1 ATGGCCCTGCAGCCACTGTTGGCGGCGGCGTA-ACACCGTTGTTATTA
* ** * * * * *
46301 ATGACCCTGCAGCCACTGCCGGTGGCGTACCT-ACAGCCGTTG---CTC
1 ATGGCCCTGCAGCCACTGTTGGCGGCG-GCGTAACA-CCGTTGTTATTA
* *
46346 ATGGCCCTGCATCCACTGTTGGCGGCGGCGTACACTCCGTTGTTATTA
1 ATGGCCCTGCAGCCACTGTTGGCGGCGGCGTA-ACACCGTTGTTATTA
* * * * ** ** *
46394 ATGACCCTGCAGCCACTGCT---GGTGGCGTACCTACCGCCGTTGCTC
1 ATGGCCCTGCAGCCACTGTTGGCGGCGGCGTAAC-ACCGTTGTTATTA
* *
46439 ATGGCCCTGCATCCACTGTTGGCGGCGGCGTACACACCGTTGTTGTTA
1 ATGGCCCTGCAGCCACTGTTGGCGGCGGCGTA-ACACCGTTGTTATTA
* * * ** ** *
46487 ATGGCCCTGCAGCCAC---TGCCGGTGGCGTACCTACCGCCGTTGCTC
1 ATGGCCCTGCAGCCACTGTTGGCGGCGGCGTAAC-ACCGTTGTTATTA
* * * **
46532 ATGGCCCTGCATCCACTGTTGGCAGCGACGTACACACCGTTGTTGCTA
1 ATGGCCCTGCAGCCACTGTTGGCGGCGGCGTA-ACACCGTTGTTATTA
46580 ATGGCCCTGCAGCCACTG
1 ATGGCCCTGCAGCCACTG
46598 CCGGTGGCGT
Statistics
Matches: 222, Mismatches: 58, Indels: 34
0.71 0.18 0.11
Matches are distributed among these distances:
44 4 0.02
45 96 0.43
46 2 0.01
47 2 0.01
48 114 0.51
49 4 0.02
ACGTcount: A:0.15, C:0.33, G:0.27, T:0.24
Consensus pattern (47 bp):
ATGGCCCTGCAGCCACTGTTGGCGGCGGCGTAACACCGTTGTTATTA
Found at i:46362 original size:45 final size:45
Alignment explanation
Indices: 46305--46632 Score: 293
Period size: 45 Copynumber: 7.1 Consensus size: 45
46295 TTATTAATGA
* *
46305 CCCTGCAGCCACTGCCGGTGGCGTACCTACAGCCGTTGCTCATGG
1 CCCTGCAGCCACTGCCGGTGGCGTACCTACCGTCGTTGCTCATGG
* * * * ** * *
46350 CCCTGCATCCACTGTTGGCGGCGGCGTACACT-CCGTTGTTATTAATGA
1 CCCTGCAGCCAC---TGCCGGTGGCGTAC-CTACCGTCGTTGCTCATGG
* *
46398 CCCTGCAGCCACTGCTGGTGGCGTACCTACCGCCGTTGCTCATGG
1 CCCTGCAGCCACTGCCGGTGGCGTACCTACCGTCGTTGCTCATGG
* * * * * *
46443 CCCTGCATCCACTGTTGGCGGCGGCGTACAC-ACCGTTGTTGTTAATGG
1 CCCTGCAGCCAC---TGCCGGTGGCGTAC-CTACCGTCGTTGCTCATGG
*
46491 CCCTGCAGCCACTGCCGGTGGCGTACCTACCGCCGTTGCTCATGG
1 CCCTGCAGCCACTGCCGGTGGCGTACCTACCGTCGTTGCTCATGG
* ** * * *
46536 CCCTGCATCCACTGTTGGCAGCGACGTACAC-ACCGTTGTTGCTAATGG
1 CCCTGCAGCCACTGCCGG-TG-G-CGTAC-CTACCGTCGTTGCTCATGG
*
46584 CCCTGCAGCCACTGCCGGTGGCGTACCTACCGTCGTTGCTCGTGG
1 CCCTGCAGCCACTGCCGGTGGCGTACCTACCGTCGTTGCTCATGG
46629 CCCT
1 CCCT
46633 CCAATGGTTG
Statistics
Matches: 219, Mismatches: 49, Indels: 30
0.73 0.16 0.10
Matches are distributed among these distances:
44 4 0.02
45 106 0.48
46 2 0.01
47 2 0.01
48 101 0.46
49 4 0.02
ACGTcount: A:0.13, C:0.35, G:0.28, T:0.24
Consensus pattern (45 bp):
CCCTGCAGCCACTGCCGGTGGCGTACCTACCGTCGTTGCTCATGG
Found at i:46393 original size:93 final size:93
Alignment explanation
Indices: 46234--46632 Score: 645
Period size: 93 Copynumber: 4.3 Consensus size: 93
46224 CGGTCGCCGT
* * * **
46234 GTACCTACCCCCGTTGCTTATGGCCCTGCATCCACTGTTGGCGGCGGCATAGTCACCGTTGTTAT
1 GTACCTACCGCCGTTGCTCATGGCCCTGCATCCACTGTTGGCGGCGGCGTACACACCGTTGTTAT
46299 TAATGACCCTGCAGCCACTGCCGGTGGC
66 TAATGACCCTGCAGCCACTGCCGGTGGC
* *
46327 GTACCTACAGCCGTTGCTCATGGCCCTGCATCCACTGTTGGCGGCGGCGTACACTCCGTTGTTAT
1 GTACCTACCGCCGTTGCTCATGGCCCTGCATCCACTGTTGGCGGCGGCGTACACACCGTTGTTAT
*
46392 TAATGACCCTGCAGCCACTGCTGGTGGC
66 TAATGACCCTGCAGCCACTGCCGGTGGC
*
46420 GTACCTACCGCCGTTGCTCATGGCCCTGCATCCACTGTTGGCGGCGGCGTACACACCGTTGTTGT
1 GTACCTACCGCCGTTGCTCATGGCCCTGCATCCACTGTTGGCGGCGGCGTACACACCGTTGTTAT
*
46485 TAATGGCCCTGCAGCCACTGCCGGTGGC
66 TAATGACCCTGCAGCCACTGCCGGTGGC
* * **
46513 GTACCTACCGCCGTTGCTCATGGCCCTGCATCCACTGTTGGCAGCGACGTACACACCGTTGTTGC
1 GTACCTACCGCCGTTGCTCATGGCCCTGCATCCACTGTTGGCGGCGGCGTACACACCGTTGTTAT
*
46578 TAATGGCCCTGCAGCCACTGCCGGTGGC
66 TAATGACCCTGCAGCCACTGCCGGTGGC
* *
46606 GTACCTACCGTCGTTGCTCGTGGCCCT
1 GTACCTACCGCCGTTGCTCATGGCCCT
46633 CCAATGGTTG
Statistics
Matches: 288, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 288 1.00
ACGTcount: A:0.14, C:0.34, G:0.27, T:0.25
Consensus pattern (93 bp):
GTACCTACCGCCGTTGCTCATGGCCCTGCATCCACTGTTGGCGGCGGCGTACACACCGTTGTTAT
TAATGACCCTGCAGCCACTGCCGGTGGC
Found at i:46621 original size:48 final size:47
Alignment explanation
Indices: 46290--46621 Score: 223
Period size: 48 Copynumber: 7.1 Consensus size: 47
46280 GCATAGTCAC
** * * *
46290 CGTTGTTATTAATGACCCTGCAGCCACTGCCGGTGGCGTACCTACAG
1 CGTTGTTGCTAATGGCCCTGCAGCCACTGCTGGTGGCGTACCTACCG
* * * * * * * *
46337 C--CGTTGCTCATGGCCCTGCATCCACTGTTGGCGGCG-GCGTACACTC
1 CGTTGTTGCTAATGGCCCTGCAGCCACTGCTGGTGGCGTACCTAC-C-G
** *
46383 CGTTGTTATTAATGACCCTGCAGCCACTGCTGGTGGCGTACCTACCG
1 CGTTGTTGCTAATGGCCCTGCAGCCACTGCTGGTGGCGTACCTACCG
* * * * * * * *
46430 C--CGTTGCTCATGGCCCTGCATCCACTGTTGGCGGCG-GCGTACACAC
1 CGTTGTTGCTAATGGCCCTGCAGCCACTGCTGGTGGCGTACCTAC-C-G
* *
46476 CGTTGTTGTTAATGGCCCTGCAGCCACTGCCGGTGGCGTACCTACCG
1 CGTTGTTGCTAATGGCCCTGCAGCCACTGCTGGTGGCGTACCTACCG
* * * * ** * *
46523 C--CGTTGCTCATGGCCCTGCATCCACTGTTGGCAGCG-ACGTACACAC
1 CGTTGTTGCTAATGGCCCTGCAGCCACTGCTGGTGGCGTACCTAC-C-G
*
46569 CGTTGTTGCTAATGGCCCTGCAGCCACTGCCGGTGGCGTACCTACCG
1 CGTTGTTGCTAATGGCCCTGCAGCCACTGCTGGTGGCGTACCTACCG
46616 TCGTTG
1 -CGTTG
46622 CTCGTGGCCC
Statistics
Matches: 205, Mismatches: 64, Indels: 31
0.68 0.21 0.10
Matches are distributed among these distances:
44 13 0.06
45 82 0.40
46 3 0.01
47 3 0.01
48 91 0.44
49 13 0.06
ACGTcount: A:0.14, C:0.33, G:0.27, T:0.25
Consensus pattern (47 bp):
CGTTGTTGCTAATGGCCCTGCAGCCACTGCTGGTGGCGTACCTACCG
Found at i:48342 original size:2 final size:2
Alignment explanation
Indices: 48337--48370 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
48327 TAAAAAATCA
48337 AT AT 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
48371 TAACGATTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48622 original size:20 final size:20
Alignment explanation
Indices: 48597--48637 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
48587 AATTTTTTAA
*
48597 TATAATTTAAAAAATATATT
1 TATAATTTAAAAAATAAATT
*
48617 TATAATTTCAAAAATAAATT
1 TATAATTTAAAAAATAAATT
48637 T
1 T
48638 TTGAAAATCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TATAATTTAAAAAATAAATT
Found at i:48813 original size:30 final size:29
Alignment explanation
Indices: 48779--48839 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
48769 TATATTAGTC
* * *
48779 TTTAACGATAGTCAAATTTCAATACTTCTT
1 TTTAACGAAAGTAAAATTT-AATACTTATT
*
48809 TTTAACGAAATTAAAATTTAATACTTATT
1 TTTAACGAAAGTAAAATTTAATACTTATT
48838 TT
1 TT
48840 ATAATTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (29 bp):
TTTAACGAAAGTAAAATTTAATACTTATT
Found at i:49243 original size:40 final size:40
Alignment explanation
Indices: 49188--49269 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
49178 AAAATGTTTT
49188 TCCTAATTTTCCTATGTTTGGTTCAAGTAAAACACGGAAG
1 TCCTAATTTTCCTATGTTTGGTTCAAGTAAAACACGGAAG
49228 TCCTAATTTTCCTATGTTTGGTTCAAGTAAAACACGGAAG
1 TCCTAATTTTCCTATGTTTGGTTCAAGTAAAACACGGAAG
49268 TC
1 TC
49270 AACTGAAAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.35
Consensus pattern (40 bp):
TCCTAATTTTCCTATGTTTGGTTCAAGTAAAACACGGAAG
Found at i:54784 original size:14 final size:13
Alignment explanation
Indices: 54750--54775 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
54740 ACATAGTTGG
54750 ACAGTCTTCATAT
1 ACAGTCTTCATAT
54763 ACAGTCTTCATAT
1 ACAGTCTTCATAT
54776 GCGAGTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (13 bp):
ACAGTCTTCATAT
Found at i:55458 original size:16 final size:16
Alignment explanation
Indices: 55437--55498 Score: 97
Period size: 16 Copynumber: 3.9 Consensus size: 16
55427 TAAATAAACA
*
55437 AACATAAACGAACATG
1 AACATAAACGAACACG
*
55453 AACATAATCGAACACG
1 AACATAAACGAACACG
*
55469 AACATAAATGAACACG
1 AACATAAACGAACACG
55485 AACATAAACGAACA
1 AACATAAACGAACA
55499 TAAACGTTGG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.56, C:0.21, G:0.11, T:0.11
Consensus pattern (16 bp):
AACATAAACGAACACG
Found at i:59197 original size:23 final size:23
Alignment explanation
Indices: 59169--59215 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
59159 GTTTCTCCCC
59169 CTCCCCTAGGCCAACGTGTGGGA
1 CTCCCCTAGGCCAACGTGTGGGA
59192 CTCCCCTAGGCCAACGTGTGGGA
1 CTCCCCTAGGCCAACGTGTGGGA
59215 C
1 C
59216 GTACACTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.17, C:0.36, G:0.30, T:0.17
Consensus pattern (23 bp):
CTCCCCTAGGCCAACGTGTGGGA
Found at i:61705 original size:22 final size:21
Alignment explanation
Indices: 61677--61718 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
61667 ACAAAATTTT
61677 ATAAAATATAA-TTATATAAAAA
1 ATAAAAT-TAACTTA-ATAAAAA
61699 ATAAAATTAACTTAATAAAA
1 ATAAAATTAACTTAATAAAA
61719 CTAAAAGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAAAATTAACTTAATAAAAA
Found at i:61762 original size:19 final size:20
Alignment explanation
Indices: 61723--61760 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
61713 ATAAAACTAA
61723 AAGGTAAAGAATAAAAAAAT
1 AAGGTAAAGAATAAAAAAAT
61743 AAGGTAAAGAATAAAAAA
1 AAGGTAAAGAATAAAAAA
61761 TATCGAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (20 bp):
AAGGTAAAGAATAAAAAAAT
Found at i:64332 original size:18 final size:19
Alignment explanation
Indices: 64304--64341 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
64294 AAAGATTCAT
*
64304 TTTGTTTTTCAAAATCAAA
1 TTTGTTTTTCAAAACCAAA
64323 TTTG-TTTTCAAAACCAAA
1 TTTGTTTTTCAAAACCAAA
64341 T
1 T
64342 CATTTTCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.37, C:0.13, G:0.05, T:0.45
Consensus pattern (19 bp):
TTTGTTTTTCAAAACCAAA
Found at i:71820 original size:50 final size:50
Alignment explanation
Indices: 71745--71846 Score: 150
Period size: 50 Copynumber: 2.0 Consensus size: 50
71735 ACTCAAAGTA
* * *
71745 GGGGTTTCAAGACTGATTTTTCAGAGGTTGATTTCGGTACCGATAGTCAT
1 GGGGTTTCAAGACTGATTTTCCAGAGGTTGATTTCGGCACCGATACTCAT
* * *
71795 GGGGTTTCGAGACTGGTTTTCCAGAGGTTGATTTTGGCACCGATACTCAT
1 GGGGTTTCAAGACTGATTTTCCAGAGGTTGATTTCGGCACCGATACTCAT
71845 GG
1 GG
71847 AAGTATCGGT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (50 bp):
GGGGTTTCAAGACTGATTTTCCAGAGGTTGATTTCGGCACCGATACTCAT
Found at i:72027 original size:14 final size:14
Alignment explanation
Indices: 72008--72038 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
71998 TATGTATCGA
72008 TACTCTAGGTGGAG
1 TACTCTAGGTGGAG
*
72022 TACTCTAGGTTGAG
1 TACTCTAGGTGGAG
72036 TAC
1 TAC
72039 GATACTCTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (14 bp):
TACTCTAGGTGGAG
Found at i:72063 original size:20 final size:20
Alignment explanation
Indices: 72022--72083 Score: 83
Period size: 20 Copynumber: 3.1 Consensus size: 20
72012 CTAGGTGGAG
72022 TACTCTAGGTTGAGTA-CGA
1 TACTCTAGGTTGAGTATCGA
72041 TACTCTAGGTTGAGTATCGA
1 TACTCTAGGTTGAGTATCGA
* *
72061 TACTCATGGGTT-AGTATTGA
1 TACTC-TAGGTTGAGTATCGA
72081 TAC
1 TAC
72084 CGAGAGGGTC
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
19 16 0.41
20 18 0.46
21 5 0.13
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (20 bp):
TACTCTAGGTTGAGTATCGA
Found at i:73046 original size:21 final size:21
Alignment explanation
Indices: 73022--73078 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 21
73012 TGTTCCACGA
73022 ACCACATAGAATTCCCGAAGG
1 ACCACATAGAATTCCCGAAGG
* **
73043 ACCACATATAATTATCCCTTAGG
1 ACCACATAGAA-T-TCCCGAAGG
73066 ACCACATAGAATT
1 ACCACATAGAATT
73079 GTCCCTTAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 11 0.37
22 2 0.07
23 17 0.57
ACGTcount: A:0.39, C:0.26, G:0.12, T:0.23
Consensus pattern (21 bp):
ACCACATAGAATTCCCGAAGG
Found at i:73066 original size:23 final size:23
Alignment explanation
Indices: 73040--73097 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
73030 GAATTCCCGA
73040 AGGACCACATATAATTATCCCTT
1 AGGACCACATATAATTATCCCTT
* *
73063 AGGACCACATAGAATTGTCCCTT
1 AGGACCACATATAATTATCCCTT
*
73086 AGGACCATATAT
1 AGGACCACATAT
73098 GTTCAAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (23 bp):
AGGACCACATATAATTATCCCTT
Found at i:75949 original size:21 final size:21
Alignment explanation
Indices: 75911--76023 Score: 108
Period size: 21 Copynumber: 5.5 Consensus size: 21
75901 TCATATAAAT
* *
75911 TGTCCCGAAGGA-CACATAGA
1 TGTCCCGAAAGACCACATATA
75931 TGTCCCGAAAGACCACATATA
1 TGTCCCGAAAGACCACATATA
*
75952 TGTCCCGAAATACCACATATA
1 TGTCCCGAAAGACCACATATA
**
75973 TGT-CC-AAAGGACTGCATATA
1 TGTCCCGAAA-GACCACATATA
* * *
75993 TGTTCC-AAAGGATCACTTATA
1 TGTCCCGAAA-GACCACATATA
76014 TGTCCCGAAA
1 TGTCCCGAAA
76024 AACCGCGTAG
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
19 3 0.04
20 24 0.31
21 48 0.62
22 3 0.04
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (21 bp):
TGTCCCGAAAGACCACATATA
Done.