Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004395.1 Hibiscus syriacus cultivar Beakdansim tig00009639_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: 126817
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Found at i:1432 original size:16 final size:16
Alignment explanation
Indices: 1411--1442 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1401 ACTATTTACA
*
1411 TGAATAGTAAATTTTG
1 TGAATAGTAAAATTTG
1427 TGAATAGTAAAATTTG
1 TGAATAGTAAAATTTG
1443 GTCGGTGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (16 bp):
TGAATAGTAAAATTTG
Found at i:4079 original size:23 final size:23
Alignment explanation
Indices: 4053--4101 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
4043 ATGATATGTA
* *
4053 TGAATACATGTTAATAAATCATG
1 TGAATACATATAAATAAATCATG
* *
4076 TGAATAGATATAAATAATTCATG
1 TGAATACATATAAATAAATCATG
4099 TGA
1 TGA
4102 TTATATAAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.35
Consensus pattern (23 bp):
TGAATACATATAAATAAATCATG
Found at i:6789 original size:19 final size:19
Alignment explanation
Indices: 6751--6791 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
6741 AGGATTGATA
* *
6751 GAAAAGTGTAAGGTAATAT
1 GAAAAGAGTAAGGGAATAT
*
6770 GAAAAGAGTAAGGGAGTAT
1 GAAAAGAGTAAGGGAATAT
6789 GAA
1 GAA
6792 GAAAAGATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.32, T:0.20
Consensus pattern (19 bp):
GAAAAGAGTAAGGGAATAT
Found at i:9838 original size:23 final size:23
Alignment explanation
Indices: 9811--9859 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
9801 ATGATATGTA
* *
9811 TGAATACATGTTAATAAATCATG
1 TGAATACATATAAATAAATCATG
* *
9834 TGAATAGATATAAATAATTCATG
1 TGAATACATATAAATAAATCATG
9857 TGA
1 TGA
9860 TTATATAAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.35
Consensus pattern (23 bp):
TGAATACATATAAATAAATCATG
Found at i:10291 original size:2 final size:2
Alignment explanation
Indices: 10284--10310 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10274 GTAACATTGG
10284 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
10311 GATAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11051 original size:23 final size:23
Alignment explanation
Indices: 11021--11089 Score: 120
Period size: 23 Copynumber: 3.0 Consensus size: 23
11011 ACATCTTATA
11021 TGGCACTTCGGTGCATTTCTACG
1 TGGCACTTCGGTGCATTTCTACG
*
11044 TGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCATTTCTACG
*
11067 TGGCACTTCGGTGCATTTTTACG
1 TGGCACTTCGGTGCATTTCTACG
11090 AGCTGTGGTG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.14, C:0.25, G:0.26, T:0.35
Consensus pattern (23 bp):
TGGCACTTCGGTGCATTTCTACG
Found at i:12703 original size:11 final size:11
Alignment explanation
Indices: 12687--12749 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
12677 AAAATTACAT
12687 TATTAAAAATA
1 TATTAAAAATA
12698 TATTAAAAATA
1 TATTAAAAATA
* ***
12709 CATTATTGATA
1 TATTAAAAATA
12720 -ATTATAAAAT-
1 TATTA-AAAATA
*
12730 T-TAAAAAATA
1 TATTAAAAATA
12740 TATTAAAAAT
1 TATTAAAAAT
12750 TCTATAATAC
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
9 5 0.13
10 7 0.18
11 27 0.69
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:12877 original size:7 final size:7
Alignment explanation
Indices: 12859--12918 Score: 52
Period size: 7 Copynumber: 8.9 Consensus size: 7
12849 TGTAATTAAT
12859 CCTAAA-
1 CCTAAAC
12865 CCTAAAC
1 CCTAAAC
12872 CCTAAA-
1 CCTAAAC
*
12878 CATAAAC
1 CCTAAAC
* * *
12885 CATGAAT
1 CCTAAAC
12892 CCTAAAC
1 CCTAAAC
**
12899 TATAAAC
1 CCTAAAC
12906 CCTAAAC
1 CCTAAAC
12913 CCTAAA
1 CCTAAA
12919 TCCGATTATG
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
6 11 0.26
7 31 0.74
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.18
Consensus pattern (7 bp):
CCTAAAC
Found at i:15313 original size:11 final size:11
Alignment explanation
Indices: 15297--15405 Score: 85
Period size: 11 Copynumber: 9.5 Consensus size: 11
15287 TTAACCCGTT
15297 GAGCTTGAATC
1 GAGCTTGAATC
* *
15308 GAGCTTAAAATA
1 GAGCTT-GAATC
15320 GAGCTTGAATC
1 GAGCTTGAATC
*
15331 GAGCTTAAAATC
1 GAGCTT-GAATC
15343 GAGCTTGAATC
1 GAGCTTGAATC
*
15354 GAG-TTCAAAATC
1 GAGCTT--GAATC
*
15366 GAGCTTCAATC
1 GAGCTTGAATC
* *
15377 GAGCTCGAGTCTC
1 GAGCTTGA--ATC
*
15390 GAGCTTCAATC
1 GAGCTTGAATC
15401 GAGCT
1 GAGCT
15406 CTTGAATTTT
Statistics
Matches: 77, Mismatches: 14, Indels: 14
0.73 0.13 0.13
Matches are distributed among these distances:
10 2 0.03
11 39 0.51
12 26 0.34
13 10 0.13
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (11 bp):
GAGCTTGAATC
Found at i:15323 original size:23 final size:23
Alignment explanation
Indices: 15297--15381 Score: 136
Period size: 23 Copynumber: 3.7 Consensus size: 23
15287 TTAACCCGTT
*
15297 GAGCTTGAATCGAGCTTAAAATA
1 GAGCTTGAATCGAGCTTAAAATC
15320 GAGCTTGAATCGAGCTTAAAATC
1 GAGCTTGAATCGAGCTTAAAATC
15343 GAGCTTGAATCGAG-TTCAAAATC
1 GAGCTTGAATCGAGCTT-AAAATC
*
15366 GAGCTTCAATCGAGCT
1 GAGCTTGAATCGAGCT
15382 CGAGTCTCGA
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
22 2 0.03
23 55 0.95
24 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (23 bp):
GAGCTTGAATCGAGCTTAAAATC
Found at i:15325 original size:12 final size:12
Alignment explanation
Indices: 15304--15381 Score: 83
Period size: 12 Copynumber: 6.8 Consensus size: 12
15294 GTTGAGCTTG
15304 AATCGAGCTTAA
1 AATCGAGCTTAA
* *
15316 AATAGAGCTT-G
1 AATCGAGCTTAA
15327 AATCGAGCTTAA
1 AATCGAGCTTAA
*
15339 AATCGAGCTT-G
1 AATCGAGCTTAA
15350 AATCGAG-TTCAA
1 AATCGAGCTT-AA
*
15362 AATCGAGCTT-C
1 AATCGAGCTTAA
15373 AATCGAGCT
1 AATCGAGCT
15382 CGAGTCTCGA
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
10 2 0.04
11 25 0.45
12 26 0.47
13 2 0.04
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (12 bp):
AATCGAGCTTAA
Found at i:15535 original size:26 final size:27
Alignment explanation
Indices: 15506--15568 Score: 110
Period size: 26 Copynumber: 2.4 Consensus size: 27
15496 TCGCGAGTTT
15506 TCGAGTTCGAGTCGAGTTC-GCAATAC
1 TCGAGTTCGAGTCGAGTTCGGCAATAC
15532 TCGAGTTCGAGTCGAGTTCGGCAATAC
1 TCGAGTTCGAGTCGAGTTCGGCAATAC
*
15559 TCGAGCTCGA
1 TCGAGTTCGA
15569 CGGCTCGTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 19 0.54
27 16 0.46
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (27 bp):
TCGAGTTCGAGTCGAGTTCGGCAATAC
Found at i:17595 original size:109 final size:110
Alignment explanation
Indices: 17345--17640 Score: 452
Period size: 109 Copynumber: 2.7 Consensus size: 110
17335 AACGGTTAAA
*
17345 GAAAAAAA-TCGGTTAATTCGGTTCGGTTAATCAAACCAAAATTTATTTAAAAATTATTAACCGA
1 GAAAAAAATTCGGTTAATTCGGTTCGGTTAATCGAACC-AAATTTATTTAAAAATTATTAACCGA
* * *
17409 ACCAAATCAATCAAAACTTTTTTGAAAATTATTAACCGAATTAATC
65 ACCGAATTAATCAAAACTTTTTTGAAAAGTATTAACCGAATTAATC
* *
17455 GAAGAAAAAATTTGGTTAATTCGGTTCGGTTAATCGAACCAAATTTATTTAAAAATTATTAACCA
1 G-A-AAAAAATTCGGTTAATTCGGTTCGGTTAATCGAACCAAATTTATTTAAAAATTATTAACCG
** *
17520 AACCGAATTAA-CCGAATTTTTTTGAAAAGTATTAACCGAATTAATC
64 AACCGAATTAATCAAAACTTTTTTGAAAAGTATTAACCGAATTAATC
* *
17566 GAAAAAAATTCAGTTAATTCGGTTCGGTTAATCGAACCAAATTTATTTGAAAATTATTAACCGAA
1 GAAAAAAATTCGGTTAATTCGGTTCGGTTAATCGAACCAAATTTATTTAAAAATTATTAACCGAA
17631 CCGAATTAAT
66 CCGAATTAAT
17641 TTGAAAATTA
Statistics
Matches: 169, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
109 68 0.40
110 2 0.01
111 33 0.20
112 39 0.23
113 27 0.16
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (110 bp):
GAAAAAAATTCGGTTAATTCGGTTCGGTTAATCGAACCAAATTTATTTAAAAATTATTAACCGAA
CCGAATTAATCAAAACTTTTTTGAAAAGTATTAACCGAATTAATC
Found at i:17665 original size:29 final size:29
Alignment explanation
Indices: 17593--17669 Score: 100
Period size: 29 Copynumber: 2.7 Consensus size: 29
17583 TTCGGTTCGG
* * *
17593 TTAATCGAACCAAATTTATTTGAAAATTA
1 TTAACCGAACCGAATTAATTTGAAAATTA
17622 TTAACCGAACCGAATTAATTTGAAAATTA
1 TTAACCGAACCGAATTAATTTGAAAATTA
* * *
17651 TTAATCGGACGGAATTAAT
1 TTAACCGAACCGAATTAAT
17670 CGATTTTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.34
Consensus pattern (29 bp):
TTAACCGAACCGAATTAATTTGAAAATTA
Found at i:17747 original size:139 final size:136
Alignment explanation
Indices: 17484--17815 Score: 413
Period size: 139 Copynumber: 2.4 Consensus size: 136
17474 TTCGGTTCGG
* * * **
17484 TTAATCGAACCAAATTTATTTAAAAATTATTAACCAAACCGAATTAACCGAATTTTTTTGAAAAG
1 TTAACCGAACC-AATTAATTTGAAAATTATTAACCAAACCGAATTAACCG-ATTTTTTTTTAAAG
*
17549 TATTAACCGAATTAATCGAAAAAAATTCAGTTAATTCGGTTCGGTTAATCGAACCAAATTTATTT
64 TATTAACCGAATTAATCGAAAAAAATTCAGTTAATTCGGTTCGGTTAATCGAACAAAATTTATTT
17614 GAAAATTA
129 GAAAATTA
* ** * * *
17622 TTAACCGAACCGAATTAATTTGAAAATTATTAATCGGACGGAATTAATCGATTTTTTTTTAAATT
1 TTAACCGAACC-AATTAATTTGAAAATTATTAACCAAACCGAATTAACCGATTTTTTTTTAAAGT
* * ** *
17687 ATTCATCGAATTAATCGAAGAAAAAATTTGGTTAATTTGGTTCGGTTAAT-GAACTAAAATTTAT
65 ATTAACCGAATTAATCG-A-AAAAAATTCAGTTAATTCGGTTCGGTTAATCGAAC-AAAATTTAT
17751 TTGAAAATTA
127 TTGAAAATTA
*
17761 TTAACCGAA-C---TAATTTGAAAATTATTAACCAAACCGAATTAACCGAATTTTTTTT
1 TTAACCGAACCAATTAATTTGAAAATTATTAACCAAACCGAATTAACCGATTTTTTTTT
17816 CTTTAACCAT
Statistics
Matches: 167, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
134 39 0.23
137 27 0.16
138 47 0.28
139 54 0.32
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (136 bp):
TTAACCGAACCAATTAATTTGAAAATTATTAACCAAACCGAATTAACCGATTTTTTTTTAAAGTA
TTAACCGAATTAATCGAAAAAAATTCAGTTAATTCGGTTCGGTTAATCGAACAAAATTTATTTGA
AAATTA
Found at i:18476 original size:29 final size:30
Alignment explanation
Indices: 18421--18479 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
18411 GTCGGTGATT
18421 TGATTGAATTAATTAAATAGTTGGGTGGTC
1 TGATTGAATTAATTAAATAGTTGGGTGGTC
* *
18451 TGATTG-ATTCAATTGAA-AGTTTGGTGGTC
1 TGATTGAATT-AATTAAATAGTTGGGTGGTC
18480 ACATTAACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.27, C:0.05, G:0.27, T:0.41
Consensus pattern (30 bp):
TGATTGAATTAATTAAATAGTTGGGTGGTC
Found at i:19236 original size:32 final size:32
Alignment explanation
Indices: 19193--19284 Score: 105
Period size: 32 Copynumber: 2.9 Consensus size: 32
19183 TGACTGTAAC
* **
19193 TGTTTTGCATTATTTAAATGTGACACTGACAT
1 TGTTGTGCATTATTTAAATGCAACACTGACAT
***
19225 TGTTGTGCATTATCCGAATGCAACACTGACAT
1 TGTTGTGCATTATTTAAATGCAACACTGACAT
*
19257 TGTTGTGTATTATCTT-AATGCAACACTG
1 TGTTGTGCATTAT-TTAAATGCAACACTG
19285 TTAGTATCGG
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.39
Consensus pattern (32 bp):
TGTTGTGCATTATTTAAATGCAACACTGACAT
Found at i:23068 original size:27 final size:28
Alignment explanation
Indices: 23037--23090 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
23027 TTAAATACCA
*
23037 ATTATAATGATA-ATAATAGAT-ATTATT
1 ATTATAAT-ATAGATAAAAGATAATTATT
23064 ATTATAATATAGATAAAAGATAATTAT
1 ATTATAATATAGATAAAAGATAATTAT
23091 GTTTCTTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 3 0.12
27 16 0.67
28 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (28 bp):
ATTATAATATAGATAAAAGATAATTATT
Found at i:24894 original size:20 final size:20
Alignment explanation
Indices: 24856--24894 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24846 ATATACAGGA
**
24856 GTAATATCAAATATTATAAT
1 GTAATATCAAATAAAATAAT
*
24876 GTAATATTAAATAAAATAA
1 GTAATATCAAATAAAATAA
24895 GAAGAAAATT
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:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (20 bp):
GTAATATCAAATAAAATAAT
Found at i:26325 original size:106 final size:106
Alignment explanation
Indices: 26140--26565 Score: 708
Period size: 106 Copynumber: 4.0 Consensus size: 106
26130 TGTATTGTTC
* * * * * *
26140 CGAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGTTCTGGAACTGTGAAATTGCTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAATTGTTTGTTGACA
26205 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
*
26246 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTTTGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAATTGTTTGTTGACA
*
26311 ACCATCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
** * *
26352 CGAGTCCAATGCCCTTTGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAATTGTTTGTTGACA
26417 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* *
26458 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAATTGTTTGTTGACA
* *
26523 ACCAGACGTCCATTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
26564 CG
1 CG
26566 GGTGGCGTGA
Statistics
Matches: 297, Mismatches: 23, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
106 297 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.35
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAATTGTTTGTTGACA
ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:27466 original size:36 final size:38
Alignment explanation
Indices: 27412--27488 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 38
27402 GAAACAATTT
*
27412 CAAAGGTTTTTTTCCAAGGGAAACTGTCGCAAGAGAGA
1 CAAAGGTTTGTTTCCAAGGGAAACTGTCGCAAGAGAGA
*
27450 CAAA-GTTTGTTT-CAAGGGAAACTGTCTCAAGAGAGA
1 CAAAGGTTTGTTTCCAAGGGAAACTGTCGCAAGAGAGA
27486 CAA
1 CAA
27489 TGGTGAGCAC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 26 0.70
37 7 0.19
38 4 0.11
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (38 bp):
CAAAGGTTTGTTTCCAAGGGAAACTGTCGCAAGAGAGA
Found at i:28007 original size:18 final size:19
Alignment explanation
Indices: 27974--28010 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
27964 TGTTGAATCC
*
27974 CCAAAGATGCCCCCAATAT
1 CCAAAAATGCCCCCAATAT
27993 CCAAAAATG-CCCCAATAT
1 CCAAAAATGCCCCCAATAT
28011 TTGATGTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.41, C:0.35, G:0.08, T:0.16
Consensus pattern (19 bp):
CCAAAAATGCCCCCAATAT
Found at i:29075 original size:10 final size:10
Alignment explanation
Indices: 29062--29099 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
29052 TTTGCTTCTT
29062 TTCTTTTTTA
1 TTCTTTTTTA
29072 TTCTTGTTTT-
1 TTCTT-TTTTA
29082 TTCTTTTTTA
1 TTCTTTTTTA
29092 CTTCTTTT
1 -TTCTTTT
29100 CTTTTTTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.16
10 10 0.40
11 11 0.44
ACGTcount: A:0.05, C:0.13, G:0.03, T:0.79
Consensus pattern (10 bp):
TTCTTTTTTA
Found at i:29104 original size:21 final size:21
Alignment explanation
Indices: 29037--29104 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 21
29027 TTTTTTGTCC
* * *
29037 CTTTTCCTTTTGATTTTTGCTT
1 CTTTTCTTTTTTATTCTTG-TT
29059 CTTTTCTTTTTTATTCTTGTT
1 CTTTTCTTTTTTATTCTTGTT
29080 -TTTTCTTTTTTACTTCTT-TT
1 CTTTTCTTTTTTA-TTCTTGTT
29100 CTTTT
1 CTTTT
29105 TTGTTCTTGA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
20 14 0.34
21 11 0.27
22 16 0.39
ACGTcount: A:0.04, C:0.16, G:0.04, T:0.75
Consensus pattern (21 bp):
CTTTTCTTTTTTATTCTTGTT
Found at i:29106 original size:18 final size:17
Alignment explanation
Indices: 29050--29112 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 17
29040 TTCCTTTTGA
*
29050 TTTTTGCTTCTTTTCTT
1 TTTTTTCTTCTTTTCTT
*
29067 TTTTATTCTTGTTTT-TT
1 TTTT-TTCTTCTTTTCTT
29084 CTTTTTTACTTCTTTTCTT
1 -TTTTTT-CTTCTTTTCTT
29103 TTTTGTTCTT
1 TTTT-TTCTT
29113 GATTGAATCT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
17 8 0.21
18 26 0.68
19 4 0.11
ACGTcount: A:0.03, C:0.14, G:0.05, T:0.78
Consensus pattern (17 bp):
TTTTTTCTTCTTTTCTT
Found at i:32585 original size:10 final size:10
Alignment explanation
Indices: 32570--32616 Score: 62
Period size: 10 Copynumber: 4.7 Consensus size: 10
32560 ACAGTTAGTA
32570 AAATAAAAAT
1 AAATAAAAAT
32580 AAATAAAAAT
1 AAATAAAAAT
32590 AAATAATGAAAT
1 AAATAA--AAAT
32602 -AATAAAAA-
1 AAATAAAAAT
32610 AAATAAA
1 AAATAAA
32617 TGGCAAGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
9 9 0.26
10 16 0.47
11 5 0.15
12 4 0.12
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:32618 original size:21 final size:22
Alignment explanation
Indices: 32576--32615 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
32566 AGTAAAATAA
32576 AAATAAATAAAAATAAATAATG
1 AAATAAATAAAAATAAATAATG
32598 AAAT-AATAAAAA-AAATAA
1 AAATAAATAAAAATAAATAA
32616 ATGGCAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 8 0.44
22 4 0.22
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (22 bp):
AAATAAATAAAAATAAATAATG
Found at i:33694 original size:26 final size:27
Alignment explanation
Indices: 33665--33715 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
33655 TTATGAAAAT
*
33665 AAATGGAAT-ATATAAAAAAATAAAGA
1 AAATGGAATAAGATAAAAAAATAAAGA
*
33691 AAATGGAATAAGATAAATAAATAAA
1 AAATGGAATAAGATAAAAAAATAAA
33716 TAAATAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.69, C:0.00, G:0.12, T:0.20
Consensus pattern (27 bp):
AAATGGAATAAGATAAAAAAATAAAGA
Found at i:33720 original size:26 final size:25
Alignment explanation
Indices: 33661--33720 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 25
33651 GAGATTATGA
*
33661 AAATAAATGGAATATATAAAAAAAT
1 AAATAAATGGAATAGATAAAAAAAT
* *
33686 AAAGAAAATGGAATAAGATAAATAAAT
1 AAA-TAAATGGAAT-AGATAAAAAAAT
33713 AAATAAAT
1 AAATAAAT
33721 AAAATAGGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 3 0.10
26 13 0.45
27 13 0.45
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.22
Consensus pattern (25 bp):
AAATAAATGGAATAGATAAAAAAAT
Found at i:33806 original size:8 final size:9
Alignment explanation
Indices: 33781--33814 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
33771 AAACAAAACG
*
33781 AAGGGAAAA
1 AAGGAAAAA
*
33790 AAGGTAAAA
1 AAGGAAAAA
33799 AAGGAAAAA
1 AAGGAAAAA
33808 AAGGAAA
1 AAGGAAA
33815 TACATACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (9 bp):
AAGGAAAAA
Found at i:35239 original size:3 final size:3
Alignment explanation
Indices: 35227--35303 Score: 75
Period size: 3 Copynumber: 25.7 Consensus size: 3
35217 TTTTTCATTT
* ** **
35227 TTA TTT TTA TTA TTA TTA TTA AAA TTA AAA TTA TTA TTA TTA TTA TTAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
* *
35276 ATA TTA TTA TTA -TA TTA TAA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
35304 TACAAACAGT
Statistics
Matches: 58, Mismatches: 14, Indels: 4
0.76 0.18 0.05
Matches are distributed among these distances:
2 2 0.03
3 54 0.93
4 2 0.03
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:35271 original size:27 final size:28
Alignment explanation
Indices: 35233--35301 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
35223 ATTTTTATTT
35233 TTATTATTATTATTAAA-ATTAAAATTA
1 TTATTATTATTATTAAATATTAAAATTA
**
35260 TTATTATTATTATTAAATATTATTATTA
1 TTATTATTATTATTAAATATTAAAATTA
*
35288 -TATTATAATTATTA
1 TTATTATTATTATTA
35302 TTTACAAACA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.79
28 8 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TTATTATTATTATTAAATATTAAAATTA
Found at i:35346 original size:26 final size:26
Alignment explanation
Indices: 35310--35364 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
35300 TATTTACAAA
* *
35310 CAGTTACAAACAAAACTGGACCGGCC
1 CAGTTACAAACAAAACAGAACCGGCC
*
35336 CAGTTACAAACAAACCAGAACCGGCC
1 CAGTTACAAACAAAACAGAACCGGCC
35362 CAG
1 CAG
35365 ACTAACCAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.40, C:0.33, G:0.18, T:0.09
Consensus pattern (26 bp):
CAGTTACAAACAAAACAGAACCGGCC
Found at i:36587 original size:12 final size:12
Alignment explanation
Indices: 36557--36594 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
36547 ATTACTTTTA
36557 TATTTTAATTAT
1 TATTTTAATTAT
**
36569 TGCTTTAATTAT
1 TATTTTAATTAT
36581 TATTTT-ATTAT
1 TATTTTAATTAT
36592 TAT
1 TAT
36595 CTTAGTCATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (12 bp):
TATTTTAATTAT
Found at i:36615 original size:2 final size:2
Alignment explanation
Indices: 36602--36633 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
36592 TATCTTAGTC
*
36602 AT AT AA 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
36634 TTTAAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:36771 original size:31 final size:31
Alignment explanation
Indices: 36730--36788 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
36720 ATAATTAAAT
*
36730 ATTATAAAAATTATAATTTAGTTTTATTTAA
1 ATTATAAAAATTATAATATAGTTTTATTTAA
* * *
36761 ATTATTAAAATTTTAATATATTTTTATT
1 ATTATAAAAATTATAATATAGTTTTATT
36789 AATATCAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (31 bp):
ATTATAAAAATTATAATATAGTTTTATTTAA
Found at i:37487 original size:20 final size:21
Alignment explanation
Indices: 37464--37515 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
37454 AGAAATTAAA
37464 AATTCATTTATTT-AATTTTT
1 AATTCATTTATTTAAATTTTT
* *
37484 AATTCTTTTCTTTCAAATTTTT
1 AATTCATTTATTT-AAATTTTT
37506 -ATT-ATTTATT
1 AATTCATTTATT
37516 ATTTTTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 16 0.62
21 3 0.12
22 7 0.27
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (21 bp):
AATTCATTTATTTAAATTTTT
Found at i:39577 original size:21 final size:21
Alignment explanation
Indices: 39553--39593 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
39543 TTTTCATACA
39553 TGCATTTACATTTTGTATTTG
1 TGCATTTACATTTTGTATTTG
*
39574 TGCATTTTCATTTTGTATTT
1 TGCATTTACATTTTGTATTT
39594 TTACTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.10, G:0.12, T:0.61
Consensus pattern (21 bp):
TGCATTTACATTTTGTATTTG
Found at i:39602 original size:21 final size:21
Alignment explanation
Indices: 39555--39602 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
39545 TTCATACATG
* *
39555 CATTTACATTTTGTATTTGTG
1 CATTTTCATTTTGTATTTGTA
*
39576 CATTTTCATTTTGTATTTTTA
1 CATTTTCATTTTGTATTTGTA
*
39597 CTTTTT
1 CATTTT
39603 ATATCTTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.10, G:0.08, T:0.65
Consensus pattern (21 bp):
CATTTTCATTTTGTATTTGTA
Found at i:46092 original size:54 final size:54
Alignment explanation
Indices: 46027--46181 Score: 256
Period size: 54 Copynumber: 2.9 Consensus size: 54
46017 GAAATCTTGG
*
46027 CAGAAGCCACAGTAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAA
1 CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAA
* *
46081 CAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAG
1 CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAA
***
46135 CAGAAGCCACAGGAAAGGATGAATGCACTGTCAAATGTTTTACGAAC
1 CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
46182 CTGCTATTCT
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 94 1.00
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.23
Consensus pattern (54 bp):
CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAA
Found at i:47351 original size:76 final size:76
Alignment explanation
Indices: 47252--48117 Score: 1516
Period size: 76 Copynumber: 11.4 Consensus size: 76
47242 CTATTTCCCA
47252 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
47317 AACCTTCGGGT
66 AGCCTTCGGGT
*
47328 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTTATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
47393 AACCTTCGGGT
66 AGCCTTCGGGT
*
47404 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
47469 AACCTTCGGGT
66 AGCCTTCGGGT
*
47480 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGTAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
47545 AGCCTTCGGGT
66 AGCCTTCGGGT
*
47556 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGAAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
47621 AGCCTTCGGGT
66 AGCCTTCGGGT
*
47632 CATCTGTAAGCCCTTTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
47697 AGCCTTCGGGT
66 AGCCTTCGGGT
*
47708 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGAAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
47773 AGCCTTCGGGT
66 AGCCTTCGGGT
47784 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
47849 AGCCTTAGGGT
66 AGCCTTCGGGT
* *
47860 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
47925 AGCCTTAGGGT
66 AGCCTTCGGGT
*
47936 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
48001 AGCCTTAGGGT
66 AGCCTTCGGGT
* * * *
48012 CATCTTTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCTTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
48077 AACCTTGGGGT
66 AGCCTTCGGGT
* * *
48088 CATCTGTAAGTCATGCAGTGCATGATGTTT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTT
48118 TTAAGACCTC
Statistics
Matches: 767, Mismatches: 23, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 767 1.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:48283 original size:3 final size:3
Alignment explanation
Indices: 48271--48344 Score: 69
Period size: 3 Copynumber: 24.7 Consensus size: 3
48261 TTTTTCATTT
* ** **
48271 TTA TTT TTA TTA TTA TTA TTA AAA TTA AAA TTA TTA TTA TTA TTAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
* *
48317 ATA TTA TTA TTA -TA TTA TAA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
48345 TACAAACAGT
Statistics
Matches: 55, Mismatches: 14, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
2 2 0.04
3 51 0.93
4 2 0.04
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:48309 original size:24 final size:25
Alignment explanation
Indices: 48277--48339 Score: 85
Period size: 24 Copynumber: 2.6 Consensus size: 25
48267 ATTTTTATTT
48277 TTATTATTATTATTAAA-ATTAAAA
1 TTATTATTATTATTAAATATTAAAA
**
48301 TTATTATTATTATTAAATATTATTA
1 TTATTATTATTATTAAATATTAAAA
*
48326 TTA-TATTATAATTA
1 TTATTATTATTATTA
48340 TTATTTACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
24 27 0.77
25 8 0.23
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TTATTATTATTATTAAATATTAAAA
Found at i:48387 original size:26 final size:26
Alignment explanation
Indices: 48351--48405 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
48341 TATTTACAAA
* *
48351 CAGTTACAAACAAAACTGGACCGGCC
1 CAGTTACAAACAAAACAGAACCGGCC
*
48377 CAGTTACAAACAAACCAGAACCGGCC
1 CAGTTACAAACAAAACAGAACCGGCC
48403 CAG
1 CAG
48406 ACCAACCAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.40, C:0.33, G:0.18, T:0.09
Consensus pattern (26 bp):
CAGTTACAAACAAAACAGAACCGGCC
Found at i:49627 original size:12 final size:12
Alignment explanation
Indices: 49597--49634 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
49587 ATTACTTTTA
49597 TATTTTAATTAT
1 TATTTTAATTAT
**
49609 TGCTTTAATTAT
1 TATTTTAATTAT
49621 TATTTT-ATTAT
1 TATTTTAATTAT
49632 TAT
1 TAT
49635 CTTAGTCATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (12 bp):
TATTTTAATTAT
Found at i:49649 original size:2 final size:2
Alignment explanation
Indices: 49642--49686 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
49632 TATCTTAGTC
49642 AT AT AT AT 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 AT AT AT AT
49684 AT A
1 AT A
49687 AAAAAATAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:49951 original size:17 final size:18
Alignment explanation
Indices: 49919--49953 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
49909 TTTTACTATA
*
49919 TTAAAATAAATTTTTGTC
1 TTAAAATAAATGTTTGTC
49937 TTAAAA-AAATGTTTGTC
1 TTAAAATAAATGTTTGTC
49954 ATTTATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.46
Consensus pattern (18 bp):
TTAAAATAAATGTTTGTC
Found at i:51176 original size:3 final size:3
Alignment explanation
Indices: 51170--51220 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
51160 CTAATTTTTT
* * *
51170 TTA TTA TAA TAA TTA TTA TTA TAA TTA TTA -TA TATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
51215 TTA TTA
1 TTA TTA
51221 AAAAAAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:53463 original size:24 final size:23
Alignment explanation
Indices: 53420--53467 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
53410 TTTATAATTC
53420 TTTTATATATATATACATATTAT
1 TTTTATATATATATACATATTAT
* *
53443 TTTTATAGTATTTATATATATTAT
1 TTTTATA-TATATATACATATTAT
53467 T
1 T
53468 AATATTTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTTATATATATATACATATTAT
Found at i:56783 original size:15 final size:15
Alignment explanation
Indices: 56763--56794 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
56753 ATCAATACCT
56763 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
56778 TTTTGCATACATTCA
1 TTTTGCATACATGCA
56793 TT
1 TT
56795 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:64141 original size:8 final size:9
Alignment explanation
Indices: 64127--64161 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
64117 GAAGAGAAGA
64127 AAAAGAAAG
1 AAAAGAAAG
64136 -AAAGAAAG
1 AAAAGAAAG
*
64144 AAAAAAAAG
1 AAAAGAAAG
64153 AAAAGAAAG
1 AAAAGAAAG
64162 GGGGTCAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:64146 original size:18 final size:18
Alignment explanation
Indices: 64118--64161 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
64108 ATTATGCTTG
64118 AAGAGAAGAAAAAGAAAG-A
1 AAGA-AAGAAAAA-AAAGAA
64137 AAGAAAGAAAAAAAAGAA
1 AAGAAAGAAAAAAAAGAA
64155 AAGAAAG
1 AAGAAAG
64162 GGGGTCAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.17
18 16 0.67
19 4 0.17
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (18 bp):
AAGAAAGAAAAAAAAGAA
Found at i:65735 original size:92 final size:92
Alignment explanation
Indices: 65578--65800 Score: 419
Period size: 92 Copynumber: 2.4 Consensus size: 92
65568 GGTTTGGTAA
*
65578 AACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
1 AACCAATCATTGGATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
65643 TCTGATCTGGTTTGGTAGAAACCACAG
66 TCTGATCTGGTTTGGTAGAAACCACAG
65670 AACCAATCATTGGATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
1 AACCAATCATTGGATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
65735 TCTGATCTGGTTTGGTAGAAACCACAG
66 TCTGATCTGGTTTGGTAGAAACCACAG
*
65762 AACCAATCATTGGATATTGAAAGATGAATTTGCTCATAG
1 AACCAATCATTGGAT-TTGAAAGATGAATGTGCTCATAG
65801 TAGAAATAAG
Statistics
Matches: 128, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
92 106 0.83
93 22 0.17
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (92 bp):
AACCAATCATTGGATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
TCTGATCTGGTTTGGTAGAAACCACAG
Found at i:66175 original size:115 final size:115
Alignment explanation
Indices: 65704--66133 Score: 817
Period size: 115 Copynumber: 3.7 Consensus size: 115
65694 GAATGTGCTC
65704 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGAAACCACAGAACCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGAAACCACAGAACCAAT
65769 CATTGGATATTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACCCA
66 CATTGGATATTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACCCA
*
65819 ATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGAAACCACAGAACCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGAAACCACAGAACCAAT
65884 CATTGGATATTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACCCA
66 CATTGGATATTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACCCA
65934 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGAAACCACAGAACCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGAAACCACAGAACCAAT
65999 CATTGGATATTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACCCA
66 CATTGGATATTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACCCA
* *
66049 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGGAACCACATAACCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGAAACCACAGAACCAAT
*
66114 CATTGGA-ATTAAAAGATGAA
66 CATTGGATATTGAAAGATGAA
66134 CTGCATGATC
Statistics
Matches: 310, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
114 12 0.04
115 298 0.96
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (115 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGAAACCACAGAACCAAT
CATTGGATATTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACCCA
Found at i:67179 original size:124 final size:123
Alignment explanation
Indices: 66960--67492 Score: 725
Period size: 124 Copynumber: 4.3 Consensus size: 123
66950 TGGATCAACA
66960 TTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCACAATGAGAA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCACAATGAGAA
* * * *
67025 GAGTTTGTTCAACCTTTTGCATAATTCTATCACATAAGCAGATAGATTAGCATAAACC
66 GAGCTTGTTCAACCTTTTGCATAACTCTATCACAGAAGCAGATAGATCAGCATAAACC
* *
67083 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG-AGAAAGTTCATAATGAG
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAG-AAGTTCACAATGAG
* * * * * * * *
67147 AAGAACTTGTTTAACCTTTTGC-TCGACGCTATCACAGAAGGAGATAGATCGGCATCAACA
64 AAGAGCTTGTTCAACCTTTTGCAT-AACTCTATCACAGAAGCAGATAGATCAGCATAAACC
67207 TTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCACAATGAGAA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCACAATGAGAA
* *
67272 GAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCATAAACC
66 GAGCTTGTTCAACCTTTTGCATAACTCTATCACAGAAGCAGATAGATCAGCATAAACC
* * *
67330 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAA-GAGGAAGAAGAAGTTCACAATGAGA
* * * * * * * * * *
67395 AGAGCTTATTTAACCTTTTGAATGACTCTATCACAGAAGGAAATAGGTCAACATCATCC
65 AGAGCTTGTTCAACCTTTTGCATAACTCTATCACAGAAGCAGATAGATCAGCATAAACC
67454 ---CCAGTAGAAAGTTCATAATGAGAAGAACTTATCTGAAGA
1 TTTCCAG-AGAAAGTTCATAATGAGAAGAACTTATCTGAAGA
67493 AAGAAAAGAT
Statistics
Matches: 361, Mismatches: 42, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
121 6 0.02
122 31 0.09
123 147 0.41
124 177 0.49
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (123 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCACAATGAGAA
GAGCTTGTTCAACCTTTTGCATAACTCTATCACAGAAGCAGATAGATCAGCATAAACC
Found at i:67283 original size:247 final size:245
Alignment explanation
Indices: 66858--67492 Score: 929
Period size: 247 Copynumber: 2.6 Consensus size: 245
66848 TGCTAGATCG
* *
66858 AGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTT
* * ** *
66923 AACTTTTTGCTCGA-AT-TCATC-------TCTTGATGG-ATCAACATTTCCAGAGAAAGTTCAT
66 AACCTTTTGCTCGACCTATCA-CAGAAGGAAATAGATGGCATCAACATTTCCAGAGAAAGTTCAT
*
66978 AATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCACAATGAGAAGAGTTTGTTCAACCTTTT
130 AATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTT
*
67043 GCATAATTCTATCACATAAGCAGATAGATTAGCATAAACCTTTCCAGAGAA
195 GCATAATTCTATCACAGAAGCAGATAGATTAGCATAAACCTTTCCAGAGAA
67094 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG-AGAAAGTTCATAATGAGAAGAACTTGTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG-AAGTTCATAATGAGAAGAACTTGTT
*
67158 TAACCTTTTGCTCGACGCTATCACAGAAGGAGATAGATCGGCATCAACATTTCCAGAGAAAGTTC
65 TAACCTTTTGCTCGAC-CTATCACAGAAGGAAATAGAT-GGCATCAACATTTCCAGAGAAAGTTC
67223 ATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTT
128 ATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTT
67288 TTGCATAATTCTATCACAGAAGCAGATAGATTAGCATAAACCTTTCCAGAGAA
193 TTGCATAATTCTATCACAGAAGCAGATAGATTAGCATAAACCTTTCCAGAGAA
* * * *
67341 AGTTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTT
* * * * **
67406 AACCTTTTGAAT-GACTCTATCACAGAAGGAAATAG--GTCAACATCATCCCCAGTAGAAAGTTC
66 AACCTTTTG-CTCGAC-CTATCACAGAAGGAAATAGATGGCATCAACATTTCCAG-AGAAAGTTC
67468 ATAATGAGAAGAACTTATCTGAAGA
128 ATAATGAGAAGAACTTATCTGAAGA
67493 AAGAAAAGAT
Statistics
Matches: 362, Mismatches: 21, Indels: 23
0.89 0.05 0.06
Matches are distributed among these distances:
235 2 0.01
236 73 0.20
238 2 0.01
239 3 0.01
244 12 0.03
245 38 0.10
246 2 0.01
247 227 0.63
248 3 0.01
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.26
Consensus pattern (245 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTT
AACCTTTTGCTCGACCTATCACAGAAGGAAATAGATGGCATCAACATTTCCAGAGAAAGTTCATA
ATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTTG
CATAATTCTATCACAGAAGCAGATAGATTAGCATAAACCTTTCCAGAGAA
Found at i:67647 original size:3 final size:3
Alignment explanation
Indices: 67641--67695 Score: 76
Period size: 3 Copynumber: 18.3 Consensus size: 3
67631 TTTTACTATA
* *
67641 ATT ATT ATT ATT ATA ATT ATT ATT ATA ATT ATT A-T ATAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
67686 ATT ATT ATT A
1 ATT ATT ATT A
67696 AAAAAATAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 41 0.89
4 3 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:67707 original size:21 final size:21
Alignment explanation
Indices: 67637--67707 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
67627 TTTTTTTTAC
*
67637 TATAATTATTATTATTATAAT
1 TATAATTATTATTATTATAAA
* * *
67658 TATTATTATAATTATTATATA
1 TATAATTATTATTATTATAAA
* *
67679 TATTATTATTATTATTAAAAA
1 TATAATTATTATTATTATAAA
*
67700 AATAATTA
1 TATAATTA
67708 CAAATAAAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TATAATTATTATTATTATAAA
Found at i:68795 original size:21 final size:19
Alignment explanation
Indices: 68769--68816 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
68759 GAGTTAGTCC
*
68769 TTTAATTTTAATAATTAATAT
1 TTTAATTTGAATAA-T-ATAT
* *
68790 TTTAATCTGAATAATATGT
1 TTTAATTTGAATAATATAT
68809 TTTAATTT
1 TTTAATTT
68817 ATTTTAATCT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 10 0.43
20 1 0.04
21 12 0.52
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (19 bp):
TTTAATTTGAATAATATAT
Found at i:69324 original size:89 final size:88
Alignment explanation
Indices: 69154--69328 Score: 260
Period size: 89 Copynumber: 2.0 Consensus size: 88
69144 TTATTTTTCA
* *
69154 ATATCAAAGAAAAGGGCAGTCTTAATACAACTGGATGTCCTATTCTAGTATTTTAAAATTAAATA
1 ATATCAAAGAAAAGGGCAGTCTTAATACAACTAGATGTCCTATTCTAGTATTTTAAAAATAAATA
* ** *
69219 TTATAAATTTTTTTATTATAATAT
66 CTATAAAAATTATTATT-TAATAT
* * *
69243 ATATCGAAGAAAAGGGCAGTCTTAATACAACTAGATGTCCTATTCTGGTATTTTAAAAATAAATG
1 ATATCAAAGAAAAGGGCAGTCTTAATACAACTAGATGTCCTATTCTAGTATTTTAAAAATAAATA
69308 CTATAAAAATTATTATTTAAT
66 CTATAAAAATTATTATTTAAT
69329 TTTATTTAAA
Statistics
Matches: 77, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
88 4 0.05
89 73 0.95
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (88 bp):
ATATCAAAGAAAAGGGCAGTCTTAATACAACTAGATGTCCTATTCTAGTATTTTAAAAATAAATA
CTATAAAAATTATTATTTAATAT
Found at i:73812 original size:37 final size:37
Alignment explanation
Indices: 73757--73838 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
73747 TTCAAGTTAG
* * **
73757 CATTTAAACAGCAGTGATGGAGAGACCATCTGTTTCT
1 CATTCAAACAGCAGTGATGGAGAGACCATCGGTTGAT
* *
73794 CATTCAAACAGTAGTGATGGAGAGTCCATCGGTTGAT
1 CATTCAAACAGCAGTGATGGAGAGACCATCGGTTGAT
73831 CATTCAAA
1 CATTCAAA
73839 GGAAAACGGC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (37 bp):
CATTCAAACAGCAGTGATGGAGAGACCATCGGTTGAT
Found at i:75465 original size:20 final size:20
Alignment explanation
Indices: 75440--75484 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
75430 CCAATTCACC
75440 AACCACTCGAACTAGATCCA
1 AACCACTCGAACTAGATCCA
75460 AACCACTCGAACTAGATCCA
1 AACCACTCGAACTAGATCCA
75480 AACCA
1 AACCA
75485 AATCTGATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.42, C:0.36, G:0.09, T:0.13
Consensus pattern (20 bp):
AACCACTCGAACTAGATCCA
Found at i:77441 original size:150 final size:150
Alignment explanation
Indices: 77170--77475 Score: 585
Period size: 150 Copynumber: 2.0 Consensus size: 150
77160 GTAGAGGGTT
* *
77170 TACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGGAAAGACACATA
1 TACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACATA
77235 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTAT
66 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTAT
77300 ATGGCACTACGGTGCAATTC
131 ATGGCACTACGGTGCAATTC
*
77320 TACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACATA
1 TACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACATA
77385 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTAT
66 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTAT
77450 ATGGCACTACGGTGCAATTC
131 ATGGCACTACGGTGCAATTC
77470 TACGCG
1 TACGCG
77476 ACACTTCGGT
Statistics
Matches: 153, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
150 153 1.00
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (150 bp):
TACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACATA
CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTAT
ATGGCACTACGGTGCAATTC
Found at i:84495 original size:150 final size:150
Alignment explanation
Indices: 84224--84540 Score: 582
Period size: 150 Copynumber: 2.1 Consensus size: 150
84214 GGGTAGAGGG
* *
84224 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGGAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
*
84289 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTATATGTATATGATTATTAAGGAATTCTATGTGGTCCTTATGGACATCATT
84354 ATATGGCACTACGGTGCAAT
131 ATATGGCACTACGGTGCAAT
*
84374 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
84439 TACTTGATCCCTAGTATATGTATATGATTATTAAGGAATTCTATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTATATGTATATGATTATTAAGGAATTCTATGTGGTCCTTATGGACATCATT
84504 ATATGGCACTACGGTGCAAT
131 ATATGGCACTACGGTGCAAT
84524 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
84541 TGCATTTATA
Statistics
Matches: 162, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
149 1 0.01
150 161 0.99
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (150 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
TACTTGATCCCTAGTATATGTATATGATTATTAAGGAATTCTATGTGGTCCTTATGGACATCATT
ATATGGCACTACGGTGCAAT
Found at i:84552 original size:23 final size:23
Alignment explanation
Indices: 84508--84552 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
84498 ATCATTATAT
*
84508 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
84531 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
84553 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:86441 original size:4 final size:4
Alignment explanation
Indices: 86434--89001 Score: 4890
Period size: 4 Copynumber: 644.8 Consensus size: 4
86424 TATATATATA
86434 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
86482 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
86530 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
86578 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
86626 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
86674 TATG TA-G TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
86721 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
86769 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
86817 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
86865 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
86913 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
86961 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
87009 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
87057 TATG TATG TATG TAGG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
87105 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
87153 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
87201 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
87249 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
87297 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG --TG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
87343 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
87391 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
87439 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
87487 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
87535 TATG TATG TATG TATG TATG TATG TATG TATG TA-- TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
87581 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-G TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
87628 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
87676 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
87724 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG --TG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
87770 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
87818 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
87866 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
87914 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
87962 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
88010 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
88058 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
88106 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
88154 TA-G TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
88201 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
88249 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
88297 TATG TATG TATG TATG TATG TATG -ATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
88344 TATG TA-- TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
88390 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
88438 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
88486 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
88534 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
88582 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
88630 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
88678 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TGTG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
88726 TGTG TATG TATG TATG TATG TATG TATG TATG TATG TATG TGTG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * *
88774 TATG TATG TATG TATG CATG TGTG TATG CATG CATG CATG CATG TGTG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
88822 TATG CATG CATG CATG CATG TATG TATG TATG TATG TATGG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT-G TATG TATG
88871 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
88919 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
88967 TATA TATG TATG TATG TATA TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
89002 AAGTAAAATC
Statistics
Matches: 2531, Mismatches: 20, Indels: 26
0.98 0.01 0.01
Matches are distributed among these distances:
2 8 0.00
3 12 0.00
4 2507 0.99
5 4 0.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:90758 original size:15 final size:15
Alignment explanation
Indices: 90738--90766 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
90728 GCTAGACGGG
90738 CGGATGCGGGGCGGA
1 CGGATGCGGGGCGGA
90753 CGGATGCGGGGCGG
1 CGGATGCGGGGCGG
90767 GTAATGACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.21, G:0.62, T:0.07
Consensus pattern (15 bp):
CGGATGCGGGGCGGA
Found at i:99452 original size:22 final size:24
Alignment explanation
Indices: 99414--99458 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
99404 ATTATAACCA
99414 CTCTTGGTTATAAATAATGAACTG
1 CTCTTGGTTATAAATAATGAACTG
99438 CTCTTGG-T-TAAATAATGAACT
1 CTCTTGGTTATAAATAATGAACT
99459 AACATATCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 13 0.62
23 1 0.05
24 7 0.33
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (24 bp):
CTCTTGGTTATAAATAATGAACTG
Found at i:101142 original size:51 final size:50
Alignment explanation
Indices: 101077--101208 Score: 147
Period size: 51 Copynumber: 2.6 Consensus size: 50
101067 GGTAGTTAGC
* * * * ** *
101077 GGTAAAGCGTGCCCCCTGTACCGTGTTATACGATGATTTGGCGTCACGTGG
1 GGTATAGCGTGCCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACGT-G
* *
101128 GGTATAGCGTGCCCCCTGCATCGCGCTATACGGTGAGCTGGCGCCACGTG
1 GGTATAGCGTGCCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACGTG
* * *
101178 GGTATAGCGAGGCCCCTGCAGCGCGCTATAC
1 GGTATAGCGTGCCCCCTGCACCGCGCTATAC
101209 ATGTATATCT
Statistics
Matches: 69, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 29 0.42
51 40 0.58
ACGTcount: A:0.17, C:0.29, G:0.33, T:0.22
Consensus pattern (50 bp):
GGTATAGCGTGCCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACGTG
Found at i:101351 original size:20 final size:19
Alignment explanation
Indices: 101320--101358 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
101310 TTATCACACC
*
101320 AAATTTTCTCAAATTCTCT
1 AAATTTTCTCAAATACTCT
101339 AAATTTCTCTCAAATACTCT
1 AAATTT-TCTCAAATACTCT
101359 CTTTTTAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATTTTCTCAAATACTCT
Found at i:101615 original size:110 final size:111
Alignment explanation
Indices: 101483--101703 Score: 363
Period size: 110 Copynumber: 2.0 Consensus size: 111
101473 TGGAAATCAT
* *
101483 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* * * *
101548 TATTTAATT-ATTTATTTAATGCATGATTATTATATTAATAATTAA
66 TAATTAATTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
*
101593 ATATCTCGACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTATTAA
1 ATATCTCGACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
101658 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAATTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
101704 TTTTTGTAAT
Statistics
Matches: 102, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
110 69 0.68
111 33 0.32
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAATTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:107454 original size:49 final size:47
Alignment explanation
Indices: 107354--107467 Score: 140
Period size: 49 Copynumber: 2.4 Consensus size: 47
107344 CAAAACGCGA
*
107354 TACCTGCCCCGCGCTATATAAAATTATGGAGTAAAGGTATGTCGCGG
1 TACCTGCCCCGCGCTATATAAAATTATGGAGTAAAGGTATGTCGCAG
* * *
107401 TACCTTCCCTGCGCTATATAAAATTATTAGGAGTAAATGTATAG-CGCAG
1 TACCTGCCCCGCGCTATATAAAATTA-T-GGAGTAAAGGTAT-GTCGCAG
**
107450 TACCTGATCCGCGCTATA
1 TACCTGCCCCGCGCTATA
107468 CCCCTACGTG
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
47 24 0.43
48 1 0.02
49 30 0.54
50 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (47 bp):
TACCTGCCCCGCGCTATATAAAATTATGGAGTAAAGGTATGTCGCAG
Found at i:107563 original size:50 final size:50
Alignment explanation
Indices: 107479--107597 Score: 150
Period size: 50 Copynumber: 2.4 Consensus size: 50
107469 CCCTACGTGG
* * **
107479 CGTATAGCGCGCTGCAGGGGCCGCGCTATACCCACGTGGCGCCAGCTCAC
1 CGTATAGCGCGGTGCAGGGGCCACGCTATACCCACGTGGCGCCAAATCAC
* * *
107529 CGTATAACGCGGTGCAGGGG-TACGCTATACCCCACGTGGCGCCAAATCAT
1 CGTATAGCGCGGTGCAGGGGCCACGCTATA-CCCACGTGGCGCCAAATCAC
*
107579 CGTATAGCACGGTGCAGGG
1 CGTATAGCGCGGTGCAGGG
107598 CGCGCGCTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
49 7 0.12
50 52 0.88
ACGTcount: A:0.20, C:0.32, G:0.32, T:0.16
Consensus pattern (50 bp):
CGTATAGCGCGGTGCAGGGGCCACGCTATACCCACGTGGCGCCAAATCAC
Found at i:108953 original size:3 final size:3
Alignment explanation
Indices: 108945--108986 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
108935 AGATATGGTG
* *
108945 GAA GAA GAA GAA GAA TAA GAA GAA GAA GAA TAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
108987 TCTCCATCCC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.05
Consensus pattern (3 bp):
GAA
Found at i:108966 original size:15 final size:15
Alignment explanation
Indices: 108946--108986 Score: 82
Period size: 15 Copynumber: 2.7 Consensus size: 15
108936 GATATGGTGG
108946 AAGAAGAAGAAGAAT
1 AAGAAGAAGAAGAAT
108961 AAGAAGAAGAAGAAT
1 AAGAAGAAGAAGAAT
108976 AAGAAGAAGAA
1 AAGAAGAAGAA
108987 TCTCCATCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.68, C:0.00, G:0.27, T:0.05
Consensus pattern (15 bp):
AAGAAGAAGAAGAAT
Found at i:112547 original size:20 final size:21
Alignment explanation
Indices: 112522--112573 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
112512 TTTTCCCAAT
*
112522 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
112542 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
112563 TCGCAATGCGA
1 TCGCAATGCGA
112574 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:112587 original size:20 final size:20
Alignment explanation
Indices: 112562--112675 Score: 104
Period size: 20 Copynumber: 5.7 Consensus size: 20
112552 AATTGGGAAA
*
112562 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
112582 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * * *
112602 ATCGTAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
112623 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
112643 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
112663 TTCGCAACGCGAT
1 ATCGCAACGCGAT
112676 TTACATAGCG
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
19 2 0.03
20 63 0.80
21 12 0.15
22 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:112675 original size:61 final size:61
Alignment explanation
Indices: 112559--112675 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
112549 GCGAATTGGG
* * * * * *
112559 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGTAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
112620 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
112676 TTACATAGCG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:113240 original size:19 final size:19
Alignment explanation
Indices: 113218--113399 Score: 150
Period size: 19 Copynumber: 9.9 Consensus size: 19
113208 GAAACCAAAA
*
113218 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
113237 TCGCGTTTCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
113256 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
113275 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
113295 TCGCGTTGCGA--TT-ATC
1 TCGCGTTGCGATTTTCATT
* **
113311 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
113328 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * **
113342 TCTCGTTACGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
113361 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
113381 ATCTCGTTGCGATTTTCAT
1 -TCGCGTTGCGATTTTCAT
113400 ATTGCGATTT
Statistics
Matches: 130, Mismatches: 20, Indels: 25
0.74 0.11 0.14
Matches are distributed among these distances:
14 15 0.12
15 1 0.01
16 6 0.05
17 7 0.05
18 1 0.01
19 52 0.40
20 47 0.36
21 1 0.01
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:113299 original size:39 final size:38
Alignment explanation
Indices: 113218--113399 Score: 150
Period size: 33 Copynumber: 5.0 Consensus size: 38
113208 GAAACCAAAA
* *
113218 TCGCATTGCGATTTTCATTTCGCGTTTCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
*
113256 TCGCGTTGCGATTTTTATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGC-GTTGCGATTTTCATT
* * **
113295 TCGCGTTGCGA--TT-ATCT-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* * **
113328 TCGCGTTGCGA--TTC---TCTCGTTACGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* *
113361 TCCGCGTTGCGATTCTCATTATCTCGTTGCGATTTTCAT
1 T-CGCGTTGCGATTTTCATT-TCGCGTTGCGATTTTCAT
113400 ATTGCGATTT
Statistics
Matches: 119, Mismatches: 14, Indels: 20
0.78 0.09 0.13
Matches are distributed among these distances:
31 1 0.01
33 39 0.33
34 10 0.08
35 1 0.01
36 5 0.04
37 2 0.02
38 21 0.18
39 25 0.21
40 15 0.13
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.44
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
Found at i:113406 original size:14 final size:14
Alignment explanation
Indices: 113387--113413 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
113377 CATTATCTCG
113387 TTGCGATTTTCATA
1 TTGCGATTTTCATA
113401 TTGCGATTTTCAT
1 TTGCGATTTTCAT
113414 TTCAACCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.52
Consensus pattern (14 bp):
TTGCGATTTTCATA
Found at i:115477 original size:42 final size:42
Alignment explanation
Indices: 115417--115539 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
115407 GCCCGACTCG
* * *
115417 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
115459 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
115501 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
115540 CTCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:115497 original size:21 final size:21
Alignment explanation
Indices: 115473--115539 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
115463 TCATTCCTCG
115473 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
115494 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
115515 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
115536 AGAG
1 AGAG
115540 CTCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:116914 original size:14 final size:14
Alignment explanation
Indices: 116895--116930 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
116885 ATTGTTTAAT
116895 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
116909 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
116923 TGATTTGT
1 TGATTTGT
116931 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:117131 original size:19 final size:19
Alignment explanation
Indices: 117109--117193 Score: 63
Period size: 19 Copynumber: 4.7 Consensus size: 19
117099 CGAAATTAAA
117109 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
117128 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
117143 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
117161 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
117180 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
117194 GGACATTAAG
Statistics
Matches: 49, Mismatches: 11, Indels: 11
0.69 0.15 0.15
Matches are distributed among these distances:
14 8 0.16
16 3 0.06
17 3 0.06
19 25 0.51
20 10 0.20
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.41
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:119683 original size:24 final size:24
Alignment explanation
Indices: 119649--119702 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
119639 CTGAAACATC
* * *
119649 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGAATTGACCAAG
*
119673 ATCAAAGTCCGGGAATTGACCAAG
1 ATCAAAATCCGGGAATTGACCAAG
119697 ATCAAA
1 ATCAAA
119703 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGGGAATTGACCAAG
Found at i:120786 original size:20 final size:20
Alignment explanation
Indices: 120761--120818 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
120751 ATTCATTTGA
120761 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
120781 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
120801 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
120819 CGCAATGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:120861 original size:33 final size:33
Alignment explanation
Indices: 120824--120894 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 33
120814 AAAATCGCAA
120824 TGCGAAATGAAAATCGCATTACGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTACGATTTTCTCGT
** ** ** *
120857 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTACGATTTTCTCGT
120890 TGCGA
1 TGCGA
120895 TAACCATTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTACGATTTTCTCGT
Found at i:120864 original size:14 final size:14
Alignment explanation
Indices: 120845--120895 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 14
120835 AATCGCATTA
120845 CGATTTTCTCGTTG
1 CGATTTTCTCGTTG
120859 CGATTTTCATTTCGCATTG
1 CGATTTTC---TCG--TTG
120878 CGATTTTCTCGTTG
1 CGATTTTCTCGTTG
120892 CGAT
1 CGAT
120896 AACCATTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
14 15 0.47
16 3 0.09
17 3 0.09
19 11 0.34
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.47
Consensus pattern (14 bp):
CGATTTTCTCGTTG
Found at i:120903 original size:33 final size:34
Alignment explanation
Indices: 120837--120915 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 34
120827 GAAATGAAAA
* ***
120837 TCGCATTACGATTTTCTCGTTGCGATTTTCA-TT
1 TCGCATTGCGATTTTCTCGTTGCGATAACCATTT
120870 TCGCATTGCGATTTTCTCGTTGCGATAACCATTT
1 TCGCATTGCGATTTTCTCGTTGCGATAACCATTT
*
120904 TCGCGTTGCGAT
1 TCGCATTGCGAT
120916 AGTTTGTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 27 0.68
34 13 0.32
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.43
Consensus pattern (34 bp):
TCGCATTGCGATTTTCTCGTTGCGATAACCATTT
Found at i:121022 original size:14 final size:14
Alignment explanation
Indices: 121003--121039 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
120993 CATCAATTAA
121003 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
121017 ACAAATCATCTTTT
1 ACAAATCAACATTT
121031 ACAAATCAA
1 ACAAATCAA
121040 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:122939 original size:20 final size:19
Alignment explanation
Indices: 122904--122970 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
122894 GAAACTTAAA
122904 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
122923 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
122943 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
122962 ATCGCAACG
1 ATCGCAACG
122971 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:122978 original size:14 final size:14
Alignment explanation
Indices: 122959--123016 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
122949 ATGCGAAATG
122959 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
122973 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
122989 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
123005 AAAATCGCAACG
1 AAAATCGCAACG
123017 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:123001 original size:32 final size:33
Alignment explanation
Indices: 122943--123021 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
122933 GGAAATGGCT
*
122943 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
122976 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
123008 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
123022 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:123069 original size:14 final size:14
Alignment explanation
Indices: 123050--123108 Score: 73
Period size: 14 Copynumber: 3.9 Consensus size: 14
123040 TTTCATTTCG
123050 CGTTGCGATTTTTT
1 CGTTGCGATTTTTT
123064 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TTT
*
123080 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTTT
123096 CGTTGCGATTTTT
1 CGTTGCGATTTTT
123109 ATTTCGCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 21 0.54
16 9 0.23
18 9 0.23
ACGTcount: A:0.10, C:0.17, G:0.22, T:0.51
Consensus pattern (14 bp):
CGTTGCGATTTTTT
Found at i:123118 original size:33 final size:33
Alignment explanation
Indices: 123033--123123 Score: 148
Period size: 32 Copynumber: 2.8 Consensus size: 33
123023 ACAAATCGCA
* *
123033 TTGCGATTTTCATTTCGCGTTGCGATTTTTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
123066 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
123098 TTGCGATTTTTATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
123124 AGCCATTTCC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.56
33 24 0.44
ACGTcount: A:0.12, C:0.18, G:0.21, T:0.49
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:123131 original size:19 final size:20
Alignment explanation
Indices: 123109--123151 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
123099 TGCGATTTTT
123109 ATTT-CGCATTGCGATAGCC
1 ATTTCCGCATTGCGATAGCC
* *
123128 ATTTCCGCGTTGCGATAGTC
1 ATTTCCGCATTGCGATAGCC
123148 ATTT
1 ATTT
123152 TCGTGTTGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (20 bp):
ATTTCCGCATTGCGATAGCC
Found at i:123142 original size:20 final size:20
Alignment explanation
Indices: 123117--123162 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
123107 TTATTTCGCA
123117 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCGCG
* * *
123137 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGCCATTTCCGCG
123157 TTGCGA
1 TTGCGA
123163 AAGTAAACTA
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:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCGCG
Found at i:123666 original size:18 final size:18
Alignment explanation
Indices: 123640--123684 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
123630 GTCGATCAGA
*
123640 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
123658 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
123676 TGATGGCTC
1 TGATGGCTC
123685 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:125023 original size:20 final size:20
Alignment explanation
Indices: 124998--125035 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
124988 AATAGTTTCT
124998 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
125018 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
125036 GAGAGAATCG
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:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:125329 original size:22 final size:22
Alignment explanation
Indices: 125302--125343 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
125292 TGGAGATAGT
125302 CGGATTTCGCCGGAGATGGGGA
1 CGGATTTCGCCGGAGATGGGGA
*
125324 CGGATTTCGTCGGAGATGGG
1 CGGATTTCGCCGGAGATGGG
125344 TGAGAGAGTG
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:0.17, C:0.17, G:0.45, T:0.21
Consensus pattern (22 bp):
CGGATTTCGCCGGAGATGGGGA
Found at i:125555 original size:20 final size:20
Alignment explanation
Indices: 125530--125622 Score: 87
Period size: 20 Copynumber: 4.7 Consensus size: 20
125520 GATTATGTAT
125530 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
125550 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* * *** * *
125570 TATCTCGTTGTGATTTTTAT
1 TATCGCGTTGCGAAAGTCAG
* *
125590 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
125610 TATCGCATTGCGA
1 TATCGCGTTGCGA
125623 TTTTCCCAAT
Statistics
Matches: 58, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:125623 original size:20 final size:20
Alignment explanation
Indices: 125510--125623 Score: 86
Period size: 20 Copynumber: 5.7 Consensus size: 20
125500 CGCTTTGAAA
*
125510 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
125531 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
125551 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * * ** * *
125571 ATCTCGTTGTGATTTTTATT
1 ATCGCATTGCGATAGTCAGT
125591 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
125611 ATCGCATTGCGAT
1 ATCGCATTGCGAT
125624 TTTCCCAATT
Statistics
Matches: 74, Mismatches: 18, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
19 2 0.03
20 61 0.82
21 11 0.15
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:125625 original size:40 final size:40
Alignment explanation
Indices: 125550--125626 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
125540 CGAAAGTCAG
* * * *
125550 TATCGCGTTGCGAAAGTAAGTATCTCGTTGTGATTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTAT
* *
125590 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
125627 CCCAATTCGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.40
Consensus pattern (40 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTAT
Found at i:125641 original size:21 final size:21
Alignment explanation
Indices: 125612--125704 Score: 91
Period size: 20 Copynumber: 4.5 Consensus size: 21
125602 ATAGTCAGTA
125612 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
125633 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
125653 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
** * **
125674 TCGTGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
125694 TCGCATTGCGA
1 TCGCATTGCGA
125705 ATTGGTTGCG
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 31 0.55
21 25 0.45
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.41
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:125657 original size:41 final size:41
Alignment explanation
Indices: 125612--125704 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
125602 ATAGTCAGTA
125612 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
*
125653 TCGCATTGCGATTTTCCCAATTCGTGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
125694 TCGCATTGCGA
1 TCGCATTGCGA
125705 ATTGGTTGCG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.41
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Done.