Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 9 of 352
Found at i:2784999 original size:38 final size:38
Alignment explanation
Indices: 2784952--2785069 Score: 94
Period size: 38 Copynumber: 3.0 Consensus size: 38
2784942 GGTGGAGATG
2784952 GGAGAGGTGGGGCACTAGTTGTCAAAGTGGTTGTTGAA
1 GGAGAGGTGGGGCACTAGTTGTCAAAGTGGTTGTTGAA
* ** * ** * * *
2784990 GGAGGGGTGGGGTGCTAGATAT-TGATGGGGGTGGTGGAGA
1 GGAGAGGTGGGGCACTAG-T-TGTCAAAGTGGTTGTTGA-A
*
2785030 TGGAGAAGGTGGGGCACTAGTCGTCAAAGTGGTTGTTGAA
1 -GGAG-AGGTGGGGCACTAGTTGTCAAAGTGGTTGTTGAA
2785070 AGAGGAGTGG
Statistics
Matches: 55, Mismatches: 19, Indels: 10
0.65 0.23 0.12
Matches are distributed among these distances:
38 15 0.27
39 11 0.20
40 3 0.05
41 15 0.27
42 11 0.20
ACGTcount: A:0.22, C:0.07, G:0.47, T:0.25
Consensus pattern (38 bp):
GGAGAGGTGGGGCACTAGTTGTCAAAGTGGTTGTTGAA
Found at i:2785015 original size:80 final size:80
Alignment explanation
Indices: 2784916--2785125 Score: 327
Period size: 80 Copynumber: 2.6 Consensus size: 80
2784906 TGGGGAGGAC
* *
2784916 GGTGGGGTG-TAGATGTTGATGGGGGTGGTGGAGATGGGAGAGGTGGGGCACTAGTTGTCAAAGT
1 GGTGGGGTGCTAGATATTGATGGGGGTGGTGGAGATGGGAGAGGTGGGGCACTAGTCGTCAAAGT
*
2784980 GGTTGTTGAAGGAGG
66 GGTTGTTGAAAGAGG
2784995 GGTGGGGTGCTAGATATTGATGGGGGTGGTGGAGAT-GGAGAAGGTGGGGCACTAGTCGTCAAAG
1 GGTGGGGTGCTAGATATTGATGGGGGTGGTGGAGATGGGAG-AGGTGGGGCACTAGTCGTCAAAG
2785059 TGGTTGTTGAAAGAGG
65 TGGTTGTTGAAAGAGG
*
2785075 AGTGGGGTGCTAGATATTGATGGGGGTGTGGTGGAGATGGGA-AGGTTGGGG
1 GGTGGGGTGCTAGATATTGAT-GGGG-GTGGTGGAGATGGGAGAGG-TGGGG
2785126 AGGAGTTAGG
Statistics
Matches: 121, Mismatches: 4, Indels: 9
0.90 0.03 0.07
Matches are distributed among these distances:
79 13 0.11
80 82 0.68
81 7 0.06
82 16 0.13
83 3 0.02
ACGTcount: A:0.20, C:0.04, G:0.51, T:0.25
Consensus pattern (80 bp):
GGTGGGGTGCTAGATATTGATGGGGGTGGTGGAGATGGGAGAGGTGGGGCACTAGTCGTCAAAGT
GGTTGTTGAAAGAGG
Found at i:2785042 original size:42 final size:41
Alignment explanation
Indices: 2784916--2785043 Score: 97
Period size: 41 Copynumber: 3.2 Consensus size: 41
2784906 TGGGGAGGAC
2784916 GGTGGGGTG-TAGATGTTGATGGGGGTGGTGGAGATGG-GAGA
1 GGTGGGGTGCTAGAT-TTGATGGGGGTGGTGGAGATGGAGA-A
** * ** * * * *
2784957 GGTGGGGCACTAG-TTGTCAAAGTGGTTGTTGA-A-GGAG-G
1 GGTGGGGTGCTAGATT-TGATGGGGGTGGTGGAGATGGAGAA
2784995 GGTGGGGTGCTAGATATTGATGGGGGTGGTGGAGATGGAGAA
1 GGTGGGGTGCTAGAT-TTGATGGGGGTGGTGGAGATGGAGAA
2785037 GGTGGGG
1 GGTGGGG
2785044 CACTAGTCGT
Statistics
Matches: 61, Mismatches: 18, Indels: 15
0.65 0.19 0.16
Matches are distributed among these distances:
38 11 0.18
39 13 0.21
40 5 0.08
41 22 0.36
42 10 0.16
ACGTcount: A:0.19, C:0.03, G:0.54, T:0.24
Consensus pattern (41 bp):
GGTGGGGTGCTAGATTTGATGGGGGTGGTGGAGATGGAGAA
Found at i:2785296 original size:80 final size:81
Alignment explanation
Indices: 2785199--2785365 Score: 255
Period size: 80 Copynumber: 2.1 Consensus size: 81
2785189 CATAGATGAG
* * *
2785199 GGAGAAGGTGGGGTGCTAGATATTGATGGGGGTGGTGGAGAT-GAGGAGGTGGGGTACTAGTCAT
1 GGAGAAGGTGGGGTGCTAGATATTGACGGGGGTGGTGGAGATGGAGGAGGTAGGGCACTAGTCAT
*
2785263 CGAAGTGGTTGGTGAA
66 CAAAGTGGTTGGTGAA
* **
2785279 GGAGGAGGTGGGGTGCTAGATATTGACGGGGGTGGTGGAGATGGAGGAGGTAGGGCACTAGTTGT
1 GGAGAAGGTGGGGTGCTAGATATTGACGGGGGTGGTGGAGATGGAGGAGGTAGGGCACTAGTCAT
2785344 CAAAGTGGTTGGTGAA
66 CAAAGTGGTTGGTGAA
*
2785360 GAAGAA
1 GGAGAA
2785366 CAAGGAATTA
Statistics
Matches: 77, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 40 0.52
81 37 0.48
ACGTcount: A:0.24, C:0.05, G:0.49, T:0.22
Consensus pattern (81 bp):
GGAGAAGGTGGGGTGCTAGATATTGACGGGGGTGGTGGAGATGGAGGAGGTAGGGCACTAGTCAT
CAAAGTGGTTGGTGAA
Found at i:2785315 original size:39 final size:41
Alignment explanation
Indices: 2785199--2785329 Score: 151
Period size: 39 Copynumber: 3.2 Consensus size: 41
2785189 CATAGATGAG
* *
2785199 GGAGAAGGTGGGGTGCTAGATATTGATGGGGGTGGTGGAGA
1 GGAGGAGGTGGGGTGCTAGATATTGAAGGGGGTGGTGGAGA
* * * * *
2785240 TGAGGAGGTGGGGTACTAG-TCATCGAAGTGGTTGGT-GA-A
1 GGAGGAGGTGGGGTGCTAGAT-ATTGAAGGGGGTGGTGGAGA
*
2785279 GGAGGAGGTGGGGTGCTAGATATTGACGGGGGTGGTGGAGA
1 GGAGGAGGTGGGGTGCTAGATATTGAAGGGGGTGGTGGAGA
2785320 TGGAGGAGGT
1 -GGAGGAGGT
2785330 AGGGCACTAG
Statistics
Matches: 72, Mismatches: 13, Indels: 9
0.77 0.14 0.10
Matches are distributed among these distances:
39 29 0.40
40 6 0.08
41 28 0.39
42 9 0.12
ACGTcount: A:0.21, C:0.05, G:0.52, T:0.22
Consensus pattern (41 bp):
GGAGGAGGTGGGGTGCTAGATATTGAAGGGGGTGGTGGAGA
Found at i:2785887 original size:84 final size:86
Alignment explanation
Indices: 2785835--2786042 Score: 252
Period size: 85 Copynumber: 2.5 Consensus size: 86
2785825 GGAGATGGGA
* *
2785835 CAATATTAG-TCAAAGAGGGTGGTGAAGGTGGAGGAAGTGGAGTACTACACATTGGTGGGGGTGG
1 CAATAGTAGTTCAAAGAGGGTGGTGAAGGTGGAGGAAGTGGAGTACTACACATTGGTGGGAGTGG
*
2785899 TAGAGAGGGAGGAAGACAAGG
66 TAGAGAGAGAGGAAGACAAGG
* **
2785920 CAATAGTAGTTGAAA-AGGGTGGTGAAAATGGAGGAAGTGGAGTACTACACATTGGTGGG-GTGG
1 CAATAGTAGTTCAAAGAGGGTGGTGAAGGTGGAGGAAGTGGAGTACTACACATTGGTGGGAGTGG
*
2785983 T-GA-AAATGGAGG-AGACAAGG
66 TAGAGAGA--GAGGAAGACAAGG
* *
2786003 CAATAGTAGTTGAAA-AAGGTGGTG-AGGTTGGAGGAAGTGG
1 CAATAGTAGTTCAAAGAGGGTGGTGAAGG-TGGAGGAAGTGG
2786043 GGTAGTAGTC
Statistics
Matches: 110, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
82 2 0.02
83 45 0.41
84 9 0.08
85 50 0.45
86 4 0.04
ACGTcount: A:0.33, C:0.06, G:0.42, T:0.19
Consensus pattern (86 bp):
CAATAGTAGTTCAAAGAGGGTGGTGAAGGTGGAGGAAGTGGAGTACTACACATTGGTGGGAGTGG
TAGAGAGAGAGGAAGACAAGG
Found at i:2785952 original size:85 final size:83
Alignment explanation
Indices: 2785850--2786042 Score: 289
Period size: 83 Copynumber: 2.3 Consensus size: 83
2785840 TTAGTCAAAG
* *
2785850 AGGGTGGTGAAGGTGGAGGAAGTGGAGTACTACACATTGGTGGGGGTGGT-AGAGAGGGAGGAAG
1 AGGGTGGTGAAGATGGAGGAAGTGGAGTACTACACATTGGT-GGGGTGGTGA-AAAGGGAGG-AG
2785914 ACAAGGCAATAGTAGTTGAAA
63 ACAAGGCAATAGTAGTTGAAA
* *
2785935 AGGGTGGTGAAAATGGAGGAAGTGGAGTACTACACATTGGTGGGGTGGTGAAAATGGAGGAGACA
1 AGGGTGGTGAAGATGGAGGAAGTGGAGTACTACACATTGGTGGGGTGGTGAAAAGGGAGGAGACA
2786000 AGGCAATAGTAGTTGAAA
66 AGGCAATAGTAGTTGAAA
* * *
2786018 AAGGTGGTGAGGTTGGAGGAAGTGG
1 AGGGTGGTGAAGATGGAGGAAGTGG
2786043 GGTAGTAGTC
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
83 44 0.44
84 15 0.15
85 40 0.40
ACGTcount: A:0.32, C:0.05, G:0.44, T:0.19
Consensus pattern (83 bp):
AGGGTGGTGAAGATGGAGGAAGTGGAGTACTACACATTGGTGGGGTGGTGAAAAGGGAGGAGACA
AGGCAATAGTAGTTGAAA
Found at i:2786134 original size:45 final size:46
Alignment explanation
Indices: 2786032--2786162 Score: 176
Period size: 45 Copynumber: 2.9 Consensus size: 46
2786022 TGGTGAGGTT
* *
2786032 GGAGGAAGTGGGGTAGTAGTCGTTGAAGAGGGTGGTGAAAGGTGGA
1 GGAGGAAGTGGGGCAGTAGTTGTTGAAGAGGGTGGTGAAAGGTGGA
* *
2786078 GGAGGATGTGGGGCAGTAGTTGCTGAAGAGGGTGGTG-AAGGTGGA
1 GGAGGAAGTGGGGCAGTAGTTGTTGAAGAGGGTGGTGAAAGGTGGA
* * * *
2786123 GGAGGAAGTGGGACACTAGCTGTTGAAGAGGATGGT-AAAG
1 GGAGGAAGTGGGGCAGTAGTTGTTGAAGAGGGTGGTGAAAG
2786163 ACGGAGAAGG
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
45 41 0.55
46 33 0.45
ACGTcount: A:0.27, C:0.05, G:0.50, T:0.19
Consensus pattern (46 bp):
GGAGGAAGTGGGGCAGTAGTTGTTGAAGAGGGTGGTGAAAGGTGGA
Found at i:2787404 original size:3 final size:3
Alignment explanation
Indices: 2787398--2787423 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2787388 TGGTGGTGGT
2787398 GGA GGA GGA GGA GGA GGA GGA GGA GG
1 GGA GGA GGA GGA GGA GGA GGA GGA GG
2787424 GGTAGGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.69, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:2787748 original size:54 final size:54
Alignment explanation
Indices: 2787661--2787772 Score: 152
Period size: 54 Copynumber: 2.1 Consensus size: 54
2787651 TTGGATAGTC
* * *
2787661 TGAAGGCTTTGTAAGGTCAACCTTTTGACCTTTTTGCTCAGATGAAAAATCCTT
1 TGAAGGCTTTGTAACGTCAACCTTCTGAACTTTTTGCTCAGATGAAAAATCCTT
* * ** *
2787715 TGAAGTCTTTGTATCGTCAACCTTCTGAACTTTTTGCTTGGATGAAACATCCTT
1 TGAAGGCTTTGTAACGTCAACCTTCTGAACTTTTTGCTCAGATGAAAAATCCTT
2787769 TGAA
1 TGAA
2787773 ATCACAGCTC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (54 bp):
TGAAGGCTTTGTAACGTCAACCTTCTGAACTTTTTGCTCAGATGAAAAATCCTT
Found at i:2788544 original size:93 final size:92
Alignment explanation
Indices: 2788413--2788691 Score: 409
Period size: 93 Copynumber: 3.0 Consensus size: 92
2788403 TGAATTCTAA
*
2788413 GGGGATCTACATCTTCCCTCAAGATATCTTTCTGCTCTGGCTTGTTTTCATGAACTATCTGACTG
1 GGGGATCTACATC-TCCCTCAGGATATCTTTCTGCTCTGGCTTGTTTTCATGAACTATCTGACTG
* *
2788478 TCATAATCCACCTTTCCATCCAGTGCAT
65 TCGTAATCCACCTTTCCATCCAGCGCAT
* *
2788506 GGGGATCTACATACTCCCTCAGGATATCTTTCTGCTCTGGCTTGTTTTGATGACCTATCTGACTG
1 GGGGATCTACAT-CTCCCTCAGGATATCTTTCTGCTCTGGCTTGTTTTCATGAACTATCTGACT-
*
2788571 GT-GTAATCCACCTTTCCATCCAGCACAT
64 GTCGTAATCCACCTTTCCATCCAGCGCAT
* * *
2788599 GGGAATCTACATCCTCTCTC-GAGATATCTTTCTGCTCTGGCTTGATTTCATGAACTATCTGACT
1 GGGGATCTACAT-CTCCCTCAG-GATATCTTTCTGCTCTGGCTTGTTTTCATGAACTATCTGACT
*
2788663 GCCGTAATCCACCTTTCCATCCAGCGCAT
64 GTCGTAATCCACCTTTCCATCCAGCGCAT
2788692 CGACTTTTCC
Statistics
Matches: 168, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
92 2 0.01
93 163 0.97
94 3 0.02
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (92 bp):
GGGGATCTACATCTCCCTCAGGATATCTTTCTGCTCTGGCTTGTTTTCATGAACTATCTGACTGT
CGTAATCCACCTTTCCATCCAGCGCAT
Found at i:2788700 original size:21 final size:21
Alignment explanation
Indices: 2788673--2788737 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
2788663 GCCGTAATCC
*
2788673 ACCTTTCCATCCAGCGCATCG
1 ACCTTTCCATCCAGCGCATCA
* *
2788694 ACTTTTCCATCCAGCACATCA
1 ACCTTTCCATCCAGCGCATCA
*
2788715 ACCTTTCCCTCCAGCGCATCA
1 ACCTTTCCATCCAGCGCATCA
2788736 AC
1 AC
2788738 TGCATTGCTG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.23, C:0.43, G:0.09, T:0.25
Consensus pattern (21 bp):
ACCTTTCCATCCAGCGCATCA
Found at i:2798736 original size:28 final size:28
Alignment explanation
Indices: 2798681--2798747 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
2798671 ATTTAGAAAT
* *** *
2798681 ATAATAATATATGATCTTACTTTCAAAA
1 ATAATAATATATGATATTAAAATAAAAA
2798709 ATAATAATATATGATATTAAAATAAAAA
1 ATAATAATATATGATATTAAAATAAAAA
*
2798737 TTAAT-ATATAT
1 ATAATAATATAT
2798748 TAAGTTTGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 6 0.18
28 27 0.82
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (28 bp):
ATAATAATATATGATATTAAAATAAAAA
Found at i:2799128 original size:169 final size:169
Alignment explanation
Indices: 2798840--2799148 Score: 471
Period size: 169 Copynumber: 1.8 Consensus size: 169
2798830 TTTTCTGATG
*
2798840 TTTGTTTGGCTGAAAATAATTTCTCACGATAAAACCTTTTACAAAACACGGGAAAATAAACGTTT
1 TTTGTTTGGCTGAAAATAATTCCTCACGATAAAACCTTTTACAAAACACGGGAAAATAAACGTTT
* * * * *
2798905 ATTTTAGGAAAATGTCTTACAAATTTTATTTTAATAAGACGTTTTCTAAAA-TTTTTCTTTTCAC
66 ATTTTAAGAAAATGTCTTAAAAATTATATTTTAATAAGACATTTTCTAAAATTTTTTCTCTTCAC
2798969 CAATAAACTTAGGCTGTGTTTGTTTACTTGTAAAAGCTT
131 CAATAAACTTAGGCTGTGTTTGTTTACTTGTAAAAGCTT
* *
2799008 TTTGTTTGGCTGAAAATAATTGCCT-ACGATAAAATCTTTTTTCAAAACACGGGAAAATAAACGT
1 TTTGTTTGGCTGAAAATAATT-CCTCACGATAAAA-CCTTTTACAAAACACGGGAAAATAAACGT
** *
2799072 TTATTTTAAGAAAATGTCTTAAAAATTATATTTTGGTAAGACATATTT-TCAAATTTTTTCTCTT
64 TTATTTTAAGAAAATGTCTTAAAAATTATATTTTAATAAGACAT-TTTCTAAAATTTTTTCTCTT
2799136 CACCAATAAACTT
128 CACCAATAAACTT
2799149 TTAAGTTATA
Statistics
Matches: 126, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
168 30 0.24
169 71 0.56
170 25 0.20
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (169 bp):
TTTGTTTGGCTGAAAATAATTCCTCACGATAAAACCTTTTACAAAACACGGGAAAATAAACGTTT
ATTTTAAGAAAATGTCTTAAAAATTATATTTTAATAAGACATTTTCTAAAATTTTTTCTCTTCAC
CAATAAACTTAGGCTGTGTTTGTTTACTTGTAAAAGCTT
Found at i:2804124 original size:13 final size:13
Alignment explanation
Indices: 2804106--2804144 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
2804096 ATAGATGTAA
2804106 TTTTTATTATTAT
1 TTTTTATTATTAT
*
2804119 TTTTTATTA-TAG
1 TTTTTATTATTAT
2804131 TTTTTATT-TTAT
1 TTTTTATTATTAT
2804143 TT
1 TT
2804145 ACTTTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 14 0.61
13 9 0.39
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (13 bp):
TTTTTATTATTAT
Found at i:2804930 original size:21 final size:22
Alignment explanation
Indices: 2804897--2804943 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
2804887 TAAATTTAAT
* *
2804897 AAAACATATTTAAATTTTTATA
1 AAAACATATTTAAAATTCTATA
*
2804919 AAAACGTA-TTAAAATTCTATA
1 AAAACATATTTAAAATTCTATA
2804940 AAAA
1 AAAA
2804944 TAATAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.36
Consensus pattern (22 bp):
AAAACATATTTAAAATTCTATA
Found at i:2805486 original size:20 final size:19
Alignment explanation
Indices: 2805458--2805511 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
2805448 TTAATATATT
2805458 TTTTA-TATTTTTTTACAA
1 TTTTATTATTTTTTTACAA
* *
2805476 TTTCTATTATTTTTTAAGAA
1 TTT-TATTATTTTTTTACAA
*
2805496 TTTTATTACTTTTTTA
1 TTTTATTATTTTTTTA
2805512 TTTTAAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 3 0.10
19 13 0.43
20 14 0.47
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTATTATTTTTTTACAA
Found at i:2805490 original size:19 final size:19
Alignment explanation
Indices: 2805466--2805511 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
2805456 TTTTTTATAT
2805466 TTTTTTACAATTTCTATTA-
1 TTTTTTACAATTT-TATTAC
*
2805485 TTTTTTAAGAATTTTATTAC
1 TTTTTT-ACAATTTTATTAC
2805505 TTTTTTA
1 TTTTTTA
2805512 TTTTAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTTTACAATTTTATTAC
Found at i:2806178 original size:21 final size:21
Alignment explanation
Indices: 2806130--2806179 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
2806120 TTTAATTTTT
**
2806130 ATTTTAAATTTCTCAAAAATA
1 ATTTTAAATTAATCAAAAATA
** *
2806151 AACTTAAATTAATTAAAAATA
1 ATTTTAAATTAATCAAAAATA
2806172 ATTTTAAA
1 ATTTTAAA
2806180 ATTGGAATAA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTTTAAATTAATCAAAAATA
Found at i:2806530 original size:38 final size:39
Alignment explanation
Indices: 2806487--2806564 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
2806477 GTAGTACAAA
* *
2806487 AAAAAT-AAAAAATTTCAAAATAATATAATCCAAAAACT
1 AAAAATAAAAAAATTCCAAAATAATATAATACAAAAACT
2806525 AAAAATAAAAAAATTCCAAAATAATATAATACAAAAACT
1 AAAAATAAAAAAATTCCAAAATAATATAATACAAAAACT
2806564 A
1 A
2806565 TGTACCAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
38 6 0.16
39 31 0.84
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.22
Consensus pattern (39 bp):
AAAAATAAAAAAATTCCAAAATAATATAATACAAAAACT
Found at i:2807378 original size:13 final size:13
Alignment explanation
Indices: 2807360--2807391 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2807350 ATAGTTTAAT
2807360 AATAAAATAAAGA
1 AATAAAATAAAGA
*
2807373 AATAAAATAACGA
1 AATAAAATAAAGA
2807386 AATAAA
1 AATAAA
2807392 TGAAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (13 bp):
AATAAAATAAAGA
Found at i:2808702 original size:15 final size:15
Alignment explanation
Indices: 2808679--2808726 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
2808669 TATCAAATTT
2808679 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
2808694 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
2808709 ATATTGATTGAAAT-
1 ATATTGATTGAAATC
2808723 ATAT
1 ATAT
2808727 ATTATATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:2809382 original size:18 final size:19
Alignment explanation
Indices: 2809361--2809401 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
2809351 AATGACATGA
2809361 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
2809379 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
2809398 GAAA
1 GAAA
2809402 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:2810323 original size:12 final size:11
Alignment explanation
Indices: 2810303--2810334 Score: 55
Period size: 12 Copynumber: 2.8 Consensus size: 11
2810293 TTGTATAAAA
2810303 ATTATTTTATT
1 ATTATTTTATT
2810314 ATTAATTTTATT
1 ATT-ATTTTATT
2810326 ATTATTTTA
1 ATTATTTTA
2810335 AAGGCATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:2810351 original size:30 final size:30
Alignment explanation
Indices: 2810315--2810374 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
2810305 TATTTTATTA
2810315 TTAATTTTATTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* * *
2810345 TTAATTTTGTTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
2810375 CTTGTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:2814534 original size:21 final size:22
Alignment explanation
Indices: 2814510--2814570 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
2814500 AAAAACTTGC
**
2814510 TATTTTGCTACTATTTTTTTA-
1 TATTTTGCTACTATTTTACTAT
*
2814531 TATTTTGTTA-TCATTTTACTAT
1 TATTTTGCTACT-ATTTTACTAT
*
2814553 TATGTTGCTACTATTTTA
1 TATTTTGCTACTATTTTA
2814571 ATGTTAATGT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 1 0.03
21 16 0.50
22 14 0.44
23 1 0.03
ACGTcount: A:0.21, C:0.10, G:0.07, T:0.62
Consensus pattern (22 bp):
TATTTTGCTACTATTTTACTAT
Found at i:2820278 original size:12 final size:12
Alignment explanation
Indices: 2820263--2820287 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2820253 AATTAAAATT
2820263 TTAATAATAAAA
1 TTAATAATAAAA
2820275 TTAATAATAAAA
1 TTAATAATAAAA
2820287 T
1 T
2820288 ACAAATATCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TTAATAATAAAA
Found at i:2823117 original size:19 final size:17
Alignment explanation
Indices: 2823070--2823104 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
2823060 AGTAGGCTCC
2823070 TATAAATTTTAATCATA
1 TATAAATTTTAATCATA
2823087 TATAAATTTTAATCATA
1 TATAAATTTTAATCATA
2823104 T
1 T
2823105 CAATTCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (17 bp):
TATAAATTTTAATCATA
Found at i:2824027 original size:21 final size:22
Alignment explanation
Indices: 2824001--2824046 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 22
2823991 ATTTTAATTT
2824001 TTTTCAA-AAGAAAATCTT-AAA
1 TTTTCAAGAA-AAAATCTTCAAA
2824022 TTTTCAAGAAAAAATCTTCAAA
1 TTTTCAAGAAAAAATCTTCAAA
2824044 TTT
1 TTT
2824047 AAGAGAGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (22 bp):
TTTTCAAGAAAAAATCTTCAAA
Found at i:2824391 original size:25 final size:26
Alignment explanation
Indices: 2824358--2824414 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
2824348 TAAATACTTT
*
2824358 TAAAATAA-TATTTATTATTTTAGAAA
1 TAAAATAATTATTTATAATTTTA-AAA
*
2824384 -AAAATAATTTTTTATAATTTTAAAA
1 TAAAATAATTATTTATAATTTTAAAA
2824409 TAAAAT
1 TAAAAT
2824415 TAAAACCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 10 0.37
26 17 0.63
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (26 bp):
TAAAATAATTATTTATAATTTTAAAA
Found at i:2835512 original size:25 final size:23
Alignment explanation
Indices: 2835483--2835554 Score: 74
Period size: 22 Copynumber: 3.1 Consensus size: 23
2835473 AAATTTAATT
2835483 TAATTTTTAAAAATTATAAAAATA
1 TAATTTTT-AAAATTATAAAAATA
* * *
2835507 TGAATTATTAAAATGATAAAATTA
1 T-AATTTTTAAAATTATAAAAATA
**
2835531 T-ATTTTTATTATTATAAAAATA
1 TAATTTTTAAAATTATAAAAATA
2835553 TA
1 TA
2835555 TAATTTAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
22 17 0.45
24 15 0.39
25 6 0.16
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (23 bp):
TAATTTTTAAAATTATAAAAATA
Found at i:2837505 original size:4 final size:4
Alignment explanation
Indices: 2837496--2837530 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
2837486 GTCAAAAGTT
2837496 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
2837531 TGTATATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:2841713 original size:29 final size:30
Alignment explanation
Indices: 2841640--2841713 Score: 80
Period size: 28 Copynumber: 2.5 Consensus size: 30
2841630 AAATATATAC
* * *
2841640 TTAACATATATTTTTATAATTTTTAAATGG
1 TTAAAATATAATTTTATAATTTTTAAAAGG
* * *
2841670 TTAAATTA-AAATTTATTA-TTTTAAAAGG
1 TTAAAATATAATTTTATAATTTTTAAAAGG
2841698 TTAAAATATAATTTTA
1 TTAAAATATAATTTTA
2841714 GCATTACTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
28 16 0.46
29 13 0.37
30 6 0.17
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.50
Consensus pattern (30 bp):
TTAAAATATAATTTTATAATTTTTAAAAGG
Found at i:2842959 original size:24 final size:23
Alignment explanation
Indices: 2842926--2842979 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
2842916 GCTTCACTTT
*
2842926 TTTAAATACACAACATAAATAAA
1 TTTAAATACACAACACAAATAAA
* *
2842949 TTTAACATACACTAGACAAATAAA
1 TTTAA-ATACACAACACAAATAAA
2842973 TTTAAAT
1 TTTAAAT
2842980 TATACAGGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 7 0.26
24 20 0.74
ACGTcount: A:0.56, C:0.13, G:0.02, T:0.30
Consensus pattern (23 bp):
TTTAAATACACAACACAAATAAA
Found at i:2857686 original size:34 final size:34
Alignment explanation
Indices: 2857643--2857714 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 34
2857633 CTTAAATTTT
*
2857643 AAATTCATATTTCGATTGAACATAAGTAATTATA
1 AAATTCATATTTCGATTGAACATAAGTAAATATA
* *
2857677 AAATTCATATTTCGATTGGACTTAAGTAAATATA
1 AAATTCATATTTCGATTGAACATAAGTAAATATA
2857711 AAAT
1 AAAT
2857715 GTATTAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (34 bp):
AAATTCATATTTCGATTGAACATAAGTAAATATA
Found at i:2859810 original size:26 final size:26
Alignment explanation
Indices: 2859781--2859840 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
2859771 TCCCTTTGAA
* * *
2859781 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
2859807 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
2859835 CCATTC
1 TCATTC
2859841 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:2859826 original size:28 final size:28
Alignment explanation
Indices: 2859795--2859866 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
2859785 TCGATATTTT
*
2859795 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
2859823 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
2859851 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
2859867 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:2864853 original size:28 final size:28
Alignment explanation
Indices: 2864816--2865170 Score: 242
Period size: 29 Copynumber: 12.5 Consensus size: 28
2864806 ACCGATCTTA
*
2864816 CACACACAGTGCTTGGTTACGGAACTCG
1 CACACACAGTGCTCGGTTACGGAACTCG
* **** * * *
2864844 CACACGCAGTGCCTCAACAACTGATCTTG
1 CACACACAGTG-CTCGGTTACGGAACTCG
2864873 CACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCTCGGTTACGGAACTCG
* **** * *
2864901 CACACATAGTGCCTCAACAACCGATCTCG
1 CACACACAGTG-CTCGGTTACGGAACTCG
2864930 CACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCTCGGTTACGGAACTCG
**** * *
2864958 CACACACAGTGCCTCAACAACCGATCTCG
1 CACACACAGTG-CTCGGTTACGGAACTCG
2864987 CACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCTCGGTTACGGAACTCG
**** ** *
2865015 CACACACAGTGCCTCAACAACCCATCTCG
1 CACACACAGTG-CTCGGTTACGGAACTCG
* * *
2865044 CACACACAGTGCTCAGTTACAGAACTCA
1 CACACACAGTGCTCGGTTACGGAACTCG
* **** * *
2865072 CACACATAGTGCCTCAACAACCGATCTCG
1 CACACACAGTG-CTCGGTTACGGAACTCG
* ** * * *
2865101 CGCACACAGTGCCTCAATAACCGATCTCG
1 CACACACAGTG-CTCGGTTACGGAACTCG
*
2865130 CACACACAGTGCTCGGTTACGGAACTCA
1 CACACACAGTGCTCGGTTACGGAACTCG
2865158 CACACACAGTGCT
1 CACACACAGTGCT
2865171 TATGTTCACT
Statistics
Matches: 248, Mismatches: 74, Indels: 10
0.75 0.22 0.03
Matches are distributed among these distances:
28 118 0.48
29 130 0.52
ACGTcount: A:0.29, C:0.35, G:0.18, T:0.17
Consensus pattern (28 bp):
CACACACAGTGCTCGGTTACGGAACTCG
Found at i:2864877 original size:29 final size:29
Alignment explanation
Indices: 2864840--2865141 Score: 288
Period size: 29 Copynumber: 10.6 Consensus size: 29
2864830 GGTTACGGAA
* *
2864840 CTCGCACACGCAGTGCCTCAACAACTGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
* **** * *
2864869 CTTGCACACACAGTG-CTCGGTTACGGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
*
2864897 CTCGCACACATAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
**** * *
2864926 CTCGCACACACAGTG-CTCGGTTACGGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
2864954 CTCGCACACACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
**** * *
2864983 CTCGCACACACAGTG-CTCGGTTACGGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
*
2865011 CTCGCACACACAGTGCCTCAACAACCCAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
*** * *
2865040 CTCGCACACACAGTG-CTCAGTTACAGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
* *
2865068 CTCACACACATAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
* *
2865097 CTCGCGCACACAGTGCCTCAATAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
2865126 CTCGCACACACAGTGC
1 CTCGCACACACAGTGC
2865142 TCGGTTACGG
Statistics
Matches: 209, Mismatches: 60, Indels: 8
0.75 0.22 0.03
Matches are distributed among these distances:
28 84 0.40
29 125 0.60
ACGTcount: A:0.29, C:0.37, G:0.18, T:0.17
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCAACAACCGAT
Found at i:2864877 original size:57 final size:57
Alignment explanation
Indices: 2864785--2865141 Score: 516
Period size: 57 Copynumber: 6.2 Consensus size: 57
2864775 GATCTCATTT
* ** *
2864785 CACACACTTAGTGCCCCAACAACCGATCTTACACACACAGTGCTTGGTTACGGAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* * *
2864844 CACACGCAGTGCCTCAACAACTGATCTTGCACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
*
2864901 CACACATAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
2864958 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* * * *
2865015 CACACACAGTGCCTCAACAACCCATCTCGCACACACAGTGCTCAGTTACAGAACTCA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* * ** * * *
2865072 CACACATAGTGCCTCAACAACCGATCTCGCGCACACAGTGCCTCAATAACCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTG-CTCGGTTACGGAACTCG
2865130 CACACACAGTGC
1 CACACACAGTGC
2865142 TCGGTTACGG
Statistics
Matches: 274, Mismatches: 23, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
57 245 0.89
58 23 0.08
59 6 0.02
ACGTcount: A:0.29, C:0.36, G:0.17, T:0.17
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
Found at i:2865108 original size:86 final size:86
Alignment explanation
Indices: 2864840--2865169 Score: 367
Period size: 86 Copynumber: 3.8 Consensus size: 86
2864830 GGTTACGGAA
* * * * *
2864840 CTCGCACACGCAGTGCCTCAACAACTGATCTTGCACACACAGTGCTCGGTTACGGAACTCGCACA
1 CTCGCACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCAGTTACGGAACTCACACA
*
2864905 CATAGTGCCTCAACAACCGAT
66 CACAGTGCCTCAACAACCGAT
**** * * *** * * *
2864926 CTCGCACACACAGTG-CTCGGTTACGGAACTCGCACACACAGTGCCTCAACAACCGATCTCGCAC
1 CTCGCACACACAGTGCCTCAACAACCGATCTCGCACACACAGTG-CTCAGTTACGGAACTCACAC
**** * *
2864990 ACACAGTG-CTCGGTTACGGAA
65 ACACAGTGCCTCAACAACCGAT
* *
2865011 CTCGCACACACAGTGCCTCAACAACCCATCTCGCACACACAGTGCTCAGTTACAGAACTCACACA
1 CTCGCACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCAGTTACGGAACTCACACA
*
2865076 CATAGTGCCTCAACAACCGAT
66 CACAGTGCCTCAACAACCGAT
* * *
2865097 CTCGCGCACACAGTGCCTCAATAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCACACA
1 CTCGCACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCAGTTACGGAACTCACACA
2865162 CACAGTGC
66 CACAGTGC
2865170 TTATGTTCAC
Statistics
Matches: 194, Mismatches: 47, Indels: 6
0.79 0.19 0.02
Matches are distributed among these distances:
85 64 0.33
86 130 0.67
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.17
Consensus pattern (86 bp):
CTCGCACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCAGTTACGGAACTCACACA
CACAGTGCCTCAACAACCGAT
Found at i:2867112 original size:26 final size:26
Alignment explanation
Indices: 2867083--2867142 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
2867073 TCCCTTTGAA
* * *
2867083 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
2867109 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
2867137 CCATTC
1 TCATTC
2867143 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:2867128 original size:28 final size:28
Alignment explanation
Indices: 2867097--2867168 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
2867087 TCGATATTTT
*
2867097 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
2867125 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
2867153 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
2867169 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:2870384 original size:34 final size:34
Alignment explanation
Indices: 2870341--2870410 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
2870331 GAGGGCACTG
*
2870341 ATTTAGTTAAAGAAATATTGGACAGATTTCTTAT
1 ATTTAGTTAAAGAAAGATTGGACAGATTTCTTAT
2870375 ATTTAGTTAAAGAAAGATTGGACAGATTTCTTAT
1 ATTTAGTTAAAGAAAGATTGGACAGATTTCTTAT
2870409 AT
1 AT
2870411 CTGAAGATCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.40
Consensus pattern (34 bp):
ATTTAGTTAAAGAAAGATTGGACAGATTTCTTAT
Found at i:2875407 original size:21 final size:21
Alignment explanation
Indices: 2875342--2875421 Score: 88
Period size: 21 Copynumber: 3.8 Consensus size: 21
2875332 TCATTTCTGT
* * *
2875342 CATAGCCCCCCCCACCACCTC
1 CATAGCCGCCACCGCCACCTC
* * * *
2875363 CATAGCCACCACTGCCCCCAC
1 CATAGCCGCCACCGCCACCTC
2875384 CATAGCCGCCACCGCCACCTC
1 CATAGCCGCCACCGCCACCTC
*
2875405 CATATCCGCCACCGCCA
1 CATAGCCGCCACCGCCA
2875422 TAACCGCTAT
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.21, C:0.59, G:0.10, T:0.10
Consensus pattern (21 bp):
CATAGCCGCCACCGCCACCTC
Found at i:2875415 original size:15 final size:15
Alignment explanation
Indices: 2875394--2875428 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2875384 CATAGCCGCC
*
2875394 ACCGCCACCTCCATA
1 ACCGCCACCGCCATA
*
2875409 TCCGCCACCGCCATA
1 ACCGCCACCGCCATA
2875424 ACCGC
1 ACCGC
2875429 TATTAAAACC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.23, C:0.54, G:0.11, T:0.11
Consensus pattern (15 bp):
ACCGCCACCGCCATA
Found at i:2879602 original size:29 final size:30
Alignment explanation
Indices: 2879551--2879615 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
2879541 TAGTGTATAT
*
2879551 TTTTATAATTTTTAAAAGATTAAATTAAAA
1 TTTTATAATTTTTAAAAGATTAAAGTAAAA
* * * *
2879581 TTTTATAA-TTTTAGAGGGTTAAAGTATAA
1 TTTTATAATTTTTAAAAGATTAAAGTAAAA
2879610 TTTTAT
1 TTTTAT
2879616 TTTTATTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (30 bp):
TTTTATAATTTTTAAAAGATTAAAGTAAAA
Found at i:2882094 original size:18 final size:19
Alignment explanation
Indices: 2882057--2882094 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
2882047 GACACCGCCT
2882057 GAGAGCCCTAAGGTAGAAGCA
1 GAGAGCCCTAA-G-AGAAGCA
2882078 GAGAGCCCTAA-AGAAGC
1 GAGAGCCCTAAGAGAAGC
2882095 CTCAGAAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
21 11 0.65
ACGTcount: A:0.39, C:0.21, G:0.32, T:0.08
Consensus pattern (19 bp):
GAGAGCCCTAAGAGAAGCA
Found at i:2902312 original size:4 final size:4
Alignment explanation
Indices: 2902305--2902377 Score: 76
Period size: 4 Copynumber: 18.2 Consensus size: 4
2902295 ATTTGTTGGT
* * * * **
2902305 TGTA TGTA TGTA TGTA TGTA TTTA TGTA TG-A CGTA TGCA TGCA TGCG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
2902352 TGTA TGTA TGTA TGTAA TGTA TGTA T
1 TGTA TGTA TGTA TGT-A TGTA TGTA T
2902378 AGAAAGAATT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
3 2 0.03
4 53 0.90
5 4 0.07
ACGTcount: A:0.25, C:0.05, G:0.25, T:0.45
Consensus pattern (4 bp):
TGTA
Found at i:2904204 original size:20 final size:20
Alignment explanation
Indices: 2904168--2904205 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2904158 TACCATAATG
*
2904168 TGTTATATATTATATATTAA
1 TGTTATATATTAAATATTAA
2904188 TGTTA-ATATTTAAATATT
1 TGTTATATA-TTAAATATT
2904206 TTAAATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
TGTTATATATTAAATATTAA
Found at i:2904213 original size:27 final size:26
Alignment explanation
Indices: 2904174--2904226 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
2904164 AATGTGTTAT
* *
2904174 ATATTATATATTAATGTTAATATTTAA
1 ATATTATAAATTAAT-TTAAAATTTAA
*
2904201 ATATTTTAAATTAATTTAAAATTTAA
1 ATATTATAAATTAATTTAAAATTTAA
2904227 TACATATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (26 bp):
ATATTATAAATTAATTTAAAATTTAA
Found at i:2906492 original size:46 final size:46
Alignment explanation
Indices: 2906425--2906546 Score: 174
Period size: 46 Copynumber: 2.6 Consensus size: 46
2906415 GGGGATATAG
2906425 ATCTATTTATTTACCGTATTACTTAGCATGACT-AAGAGATTATTAC
1 ATCTATTTATTTACCGTATTACTTAGCATGACTGAA-AGATTATTAC
* * *
2906471 ATCTATTTATTTACCATATTACTTAGCATGATTGAAAGATTATTAG
1 ATCTATTTATTTACCGTATTACTTAGCATGACTGAAAGATTATTAC
* *
2906517 GTCTATTTATTTTTCCGTATTACTTAGCAT
1 ATCTATTTA-TTTACCGTATTACTTAGCAT
2906547 TAGAGGTGCT
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
46 48 0.71
47 20 0.29
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (46 bp):
ATCTATTTATTTACCGTATTACTTAGCATGACTGAAAGATTATTAC
Found at i:2906745 original size:13 final size:11
Alignment explanation
Indices: 2906709--2906739 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2906699 CCACATGTAT
2906709 TAATTTTTATA
1 TAATTTTTATA
*
2906720 TTATTTTTATA
1 TAATTTTTATA
2906731 TAATTTTTA
1 TAATTTTTA
2906740 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:2906967 original size:11 final size:11
Alignment explanation
Indices: 2906953--2907023 Score: 63
Period size: 11 Copynumber: 6.5 Consensus size: 11
2906943 ATATTTAAAC
2906953 AATAATAATAA
1 AATAATAATAA
* * *
2906964 AATAGTGACAA
1 AATAATAATAA
*
2906975 CATAATAATAA
1 AATAATAATAA
*
2906986 AATAATAGTAA
1 AATAATAATAA
2906997 AATAAGTAA-AA
1 AATAA-TAATAA
* *
2907008 AACAATAAGAA
1 AATAATAATAA
2907019 AATAA
1 AATAA
2907024 CATTAAAAAA
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
10 3 0.07
11 41 0.89
12 2 0.04
ACGTcount: A:0.68, C:0.04, G:0.07, T:0.21
Consensus pattern (11 bp):
AATAATAATAA
Found at i:2908287 original size:46 final size:46
Alignment explanation
Indices: 2908146--2908273 Score: 193
Period size: 46 Copynumber: 2.8 Consensus size: 46
2908136 CAATATATAT
* * * *
2908146 ATATACATCTCATACATATCTCACATTAGCCATTCGGCTTTACTTC
1 ATATACATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTC
* *
2908192 ATATTCATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTC
1 ATATACATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTC
*
2908238 ATATCCATCTCATACACATTTCGCATTAGCCATTCG
1 ATATACATCTCATACACATTTCGCATTAGCCATTCG
2908274 ACTTCGCCAC
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.26, C:0.30, G:0.09, T:0.36
Consensus pattern (46 bp):
ATATACATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTC
Found at i:2908330 original size:22 final size:21
Alignment explanation
Indices: 2908304--2908379 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 21
2908294 TTCCACGTTC
2908304 ATCACATTGGCCATTCTACCTT
1 ATCACATTGGCCATT-TACCTT
* *
2908326 ATCACATATATG-CATGTTCACATT
1 ATCACAT-T-GGCCAT-TT-ACCTT
2908350 CATCACATTGGCCATTTAGCCTT
1 -ATCACATTGGCCATTTA-CCTT
2908373 ATCACAT
1 ATCACAT
2908380 ATATGCATGT
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
22 15 0.35
23 11 0.26
24 10 0.23
25 7 0.16
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.36
Consensus pattern (21 bp):
ATCACATTGGCCATTTACCTT
Found at i:2908332 original size:47 final size:47
Alignment explanation
Indices: 2908281--2908400 Score: 163
Period size: 47 Copynumber: 2.6 Consensus size: 47
2908271 TCGACTTCGC
*
2908281 CACATATATACACT-TCCACGTTCATCACATTGGCCATTCTA-CCTTAT
1 CACATATATACA-TGTCCACATTCATCACATTGGCCATT-TAGCCTTAT
* *
2908328 CACATATATGCATGTTCACATTCATCACATTGGCCATTTAGCCTTAT
1 CACATATATACATGTCCACATTCATCACATTGGCCATTTAGCCTTAT
* *
2908375 CACATATATGCATGTTCACATTCATC
1 CACATATATACATGTCCACATTCATC
2908401 TTATAAAATC
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
46 3 0.04
47 65 0.96
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.35
Consensus pattern (47 bp):
CACATATATACATGTCCACATTCATCACATTGGCCATTTAGCCTTAT
Found at i:2912084 original size:17 final size:16
Alignment explanation
Indices: 2912050--2912087 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
2912040 TTTATTTATT
2912050 TATTTATTTATAAATA
1 TATTTATTTATAAATA
*
2912066 TATTTATTATATAATTA
1 TATTTATT-TATAAATA
2912083 TATTT
1 TATTT
2912088 TTACTCACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TATTTATTTATAAATA
Found at i:2912637 original size:16 final size:16
Alignment explanation
Indices: 2912616--2912649 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2912606 TTCCCCAATT
*
2912616 ATTTATAATAAAAAAA
1 ATTTATAACAAAAAAA
*
2912632 ATTTATTACAAAAAAA
1 ATTTATAACAAAAAAA
2912648 AT
1 AT
2912650 GTCAATTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTTATAACAAAAAAA
Found at i:2915373 original size:15 final size:15
Alignment explanation
Indices: 2915353--2915407 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
2915343 TTTTAAATTT
2915353 TAAAAATATAAGAAC
1 TAAAAATATAAGAAC
*
2915368 TAAAAATGATCA-AA-
1 TAAAAAT-ATAAGAAC
* *
2915382 TTAAAATATAAGTAC
1 TAAAAATATAAGAAC
*
2915397 TAAATATATAA
1 TAAAAATATAA
2915408 ATACGAAATC
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
13 3 0.10
14 7 0.23
15 18 0.58
16 3 0.10
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.27
Consensus pattern (15 bp):
TAAAAATATAAGAAC
Found at i:2916694 original size:28 final size:27
Alignment explanation
Indices: 2916659--2916712 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
2916649 GACAGTGTAC
2916659 ATTTTTTTTA-A-TGTAAATTTATATAAA
1 ATTTTTTTTATACT-TAAATTT-TATAAA
2916686 ATTTATTTTTATACTTAAATTTTATAA
1 ATTT-TTTTTATACTTAAATTTTATAA
2916713 TTAGGTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 4 0.17
28 11 0.46
29 8 0.33
30 1 0.04
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (27 bp):
ATTTTTTTTATACTTAAATTTTATAAA
Found at i:2924198 original size:44 final size:46
Alignment explanation
Indices: 2924110--2924201 Score: 143
Period size: 44 Copynumber: 2.0 Consensus size: 46
2924100 TTTGGTTCGC
*
2924110 TGTAATGAAATAAAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAA
1 TGTAATGAAATAAAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAA
* *
2924156 TGTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAA
1 TGTAATGAAATAAAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAA
2924200 TG
1 TG
2924202 GAATAGAGGT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 20 0.47
45 3 0.07
46 20 0.47
ACGTcount: A:0.28, C:0.04, G:0.28, T:0.39
Consensus pattern (46 bp):
TGTAATGAAATAAAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAA
Found at i:2924202 original size:39 final size:44
Alignment explanation
Indices: 2924110--2924217 Score: 127
Period size: 46 Copynumber: 2.5 Consensus size: 44
2924100 TTTGGTTCGC
* * *
2924110 TGTAATGAAATAAAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--A
2924156 TGTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTA
*
2924196 TG-AATGGAATAGAGGTGTAATA
1 TGTAATGGAATAGAGGCGTAATA
2924218 ACATAAGGAA
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
39 18 0.32
40 2 0.04
43 1 0.02
44 13 0.23
45 3 0.05
46 20 0.35
ACGTcount: A:0.31, C:0.04, G:0.29, T:0.37
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTA
Found at i:2924370 original size:16 final size:15
Alignment explanation
Indices: 2924360--2924515 Score: 61
Period size: 17 Copynumber: 10.5 Consensus size: 15
2924350 CATAATTGTT
2924360 ATAAAATATAATTTA
1 ATAAAATATAATTTA
2924375 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
2924392 ATAAAAT-T--TTTA
1 ATAAAATATAATTTA
2924404 AT-AAATAT--TCTT-
1 ATAAAATATAAT-TTA
* * *
2924416 ATATGAAT-TTA-CTA
1 ATA-AAATATAATTTA
2924430 ATAAAATCATAATATATGA
1 ATAAAAT-ATAAT-T-T-A
2924449 TACTAAAATATAATTTA
1 -A-TAAAATATAATTTA
2924466 A-AATAAT-T-A-TT-
1 ATAA-AATATAATTTA
*
2924477 ATTAAATATAATTTA
1 ATAAAATATAATTTA
2924492 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
2924509 ATAAAAT
1 ATAAAAT
2924516 TGTTAATAAA
Statistics
Matches: 109, Mismatches: 7, Indels: 50
0.66 0.04 0.30
Matches are distributed among these distances:
11 8 0.07
12 14 0.13
13 9 0.08
14 12 0.11
15 13 0.12
16 12 0.11
17 25 0.23
18 2 0.02
19 2 0.02
20 6 0.06
21 6 0.06
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:2924405 original size:17 final size:17
Alignment explanation
Indices: 2924365--2924398 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
2924355 TTGTTATAAA
2924365 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
2924382 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
2924399 TTTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:2924488 original size:100 final size:104
Alignment explanation
Indices: 2924382--2924816 Score: 561
Period size: 100 Copynumber: 4.1 Consensus size: 104
2924372 TTAATAAAAT
2924382 ATATAATTTAAT-AAA-AT-T-TTTAATAAATATTCTTATATGAATTTACTAATAAAATCATAAT
1 ATATAATTTAATAAAATATATATTTAATAAATATTCTTATATGAATTTACTAATAAAATCATAAT
*
2924443 ATATGATACTAAAATATAATTTAAAATAATTATTATTAA
66 ATATAATACTAAAATATAATTTAAAATAATTATTATTAA
2924482 ATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAATATTCTTATATGAATTTACTA
1 ATATAATTTAAT--AA-A-AT-A--T-AT---A-T-TTAATAAATATTCTTATATGAATTTACTA
* *
2924547 ATAAAATCATAATATATAATACTAAAATATAATTTAACATAATTATTATAAA
53 ATAAAATCATAATATATAATACTAAAATATAATTTAAAATAATTATTATTAA
*
2924599 ATATAATTTAAT-AAA-AT-T-GTTAATAAATATTCTTATATGAATTTACTAATAAAATCATAAT
1 ATATAATTTAATAAAATATATATTTAATAAATATTCTTATATGAATTTACTAATAAAATCATAAT
2924660 ATATAATACTAAAATATAATTTAAAATAATTATTATTAA
66 ATATAATACTAAAATATAATTTAAAATAATTATTATTAA
2924699 ATATAATTTAATAAAATATATAATTTAATAAAATTCTTATTCTTATATGAATTTAC---TAAAAT
1 ATATAATTTAATAAAATATAT-ATTTAAT-AAA----TATTCTTATATGAATTTACTAATAAAAT
2924761 CATAATATATAATACTATAAAATATAATTT-AAATAATTATTATTAA
60 CATAATATATAATAC--TAAAATATAATTTAAAATAATTATTATTAA
2924807 ATATAATTTA
1 ATATAATTTA
2924817 TAATCTACTT
Statistics
Matches: 299, Mismatches: 7, Indels: 50
0.84 0.02 0.14
Matches are distributed among these distances:
100 103 0.34
101 3 0.01
102 2 0.01
103 2 0.01
104 1 0.00
105 6 0.02
106 4 0.01
107 22 0.07
108 27 0.09
109 14 0.05
110 20 0.07
111 1 0.00
112 1 0.00
113 1 0.00
114 1 0.00
116 1 0.00
117 90 0.30
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (104 bp):
ATATAATTTAATAAAATATATATTTAATAAATATTCTTATATGAATTTACTAATAAAATCATAAT
ATATAATACTAAAATATAATTTAAAATAATTATTATTAA
Found at i:2924488 original size:117 final size:117
Alignment explanation
Indices: 2924345--2924816 Score: 522
Period size: 117 Copynumber: 4.3 Consensus size: 117
2924335 TTAATCATAT
* *
2924345 TTTAACATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTTTTAATAAAT
1 TTTAACATAATTATTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
*
2924410 ATTCTTATATGAATTTACTAATAAAATCATAATATATGATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
* *
2924462 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAACATAATTATTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
2924527 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
* * *
2924579 TTTAACATAATTATTATAAAATATAATTTAAT-AAA-AT-T--GTTAATAAATATTCTTATATGA
1 TTTAACATAATTATTATAAAATATAATTTAATAAAATATATAATTTAATAAA-ATTGTTA-ATAA
* * * *
2924639 AT-TTAC-TA-AT-AA---AATCATAATAT-ATAATACTA-AA-A-T-ATA----A
64 ATATT-CTTATATGAATTTACTAATAAAATCATAATA-TATAATACTAAAATATAA
* * *
2924679 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAA---TT-CT---T
1 TTTAACATAATTATTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
2924737 ATTCTTATATGAATTTAC---TAAAATCATAATATATAATACTATAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATAC--TAAAATATAA
*
2924788 TTTAA-ATAATTATTATTAAATATAATTTA
1 TTTAACATAATTATTATAAAATATAATTTA
2924817 TAATCTACTT
Statistics
Matches: 307, Mismatches: 21, Indels: 63
0.79 0.05 0.16
Matches are distributed among these distances:
96 2 0.01
97 4 0.01
98 2 0.01
99 10 0.03
100 39 0.13
101 6 0.02
102 3 0.01
103 1 0.00
104 4 0.01
105 11 0.04
106 1 0.00
107 8 0.03
108 34 0.11
109 6 0.02
111 2 0.01
112 10 0.03
113 10 0.03
114 7 0.02
115 2 0.01
116 3 0.01
117 142 0.46
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (117 bp):
TTTAACATAATTATTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
Found at i:2924522 original size:17 final size:17
Alignment explanation
Indices: 2924482--2924515 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
2924472 TTATTATTAA
2924482 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
2924499 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
2924516 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:2924616 original size:26 final size:26
Alignment explanation
Indices: 2924569--2924715 Score: 89
Period size: 26 Copynumber: 5.8 Consensus size: 26
2924559 TATATAATAC
* *
2924569 TAAAATATAATTTAACATAATTATTA
1 TAAAATATAATTTAATAAAATTATTA
*
2924595 TAAAATATAATTTAATAAAATTGTTA
1 TAAAATATAATTTAATAAAATTATTA
* * *
2924621 -ATAAATAT--TCTTATATGAATTTACTAA
1 TA-AAATATAAT-TTA-ATAAAATTA-TTA
* *
2924648 TAAAATCATAA--T-ATATAA-TA--C
1 TAAAAT-ATAATTTAATAAAATTATTA
2924669 TAAAATATAATTTAA-AATAATTATTA
1 TAAAATATAATTTAATAA-AATTATTA
*
2924695 TTAAATATAATTTAATAAAAT
1 TAAAATATAATTTAATAAAAT
2924716 ATATAATTTA
Statistics
Matches: 91, Mismatches: 14, Indels: 32
0.66 0.10 0.23
Matches are distributed among these distances:
20 4 0.04
21 6 0.07
22 2 0.02
23 3 0.03
24 5 0.05
25 7 0.08
26 52 0.57
27 9 0.10
28 3 0.03
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (26 bp):
TAAAATATAATTTAATAAAATTATTA
Found at i:2924643 original size:217 final size:207
Alignment explanation
Indices: 2924382--2924816 Score: 719
Period size: 217 Copynumber: 2.0 Consensus size: 207
2924372 TTAATAAAAT
*
2924382 ATATAATTTAATAAAATTTTTAATAAATATTCTTATATGAATTTACTAATAAAATCATAATATAT
1 ATATAATTTAATAAAATTGTTAATAAATATTCTTATATGAATTTACTAATAAAATCATAATATAT
*
2924447 GATACTAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATA
66 AATACTAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATA
2924512 AAATTGTTAATAAATATTCTTATATGAATTTACTAATAAAATCATAATATATAATAC-TAAAATA
131 AAA---TT-AT---TATTCTTATATGAATTTAC---TAAAATCATAATATATAATACATAAAATA
2924576 TAATTTAACATAATTATTATAAA
186 TAATTTAA-ATAATTATTATAAA
2924599 ATATAATTTAATAAAATTGTTAATAAATATTCTTATATGAATTTACTAATAAAATCATAATATAT
1 ATATAATTTAATAAAATTGTTAATAAATATTCTTATATGAATTTACTAATAAAATCATAATATAT
2924664 AATACTAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATA
66 AATACTAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATA
*
2924729 AAATTCTTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAA
131 AAATTATTATTCTTATATGAATTTACTAAAATCATAATATATAATAC-ATAAAATATAATTTAAA
*
2924794 TAATTATTATTAA
195 TAATTATTATAAA
2924807 ATATAATTTA
1 ATATAATTTA
2924817 TAATCTACTT
Statistics
Matches: 212, Mismatches: 4, Indels: 13
0.93 0.02 0.06
Matches are distributed among these distances:
207 21 0.10
208 23 0.11
209 15 0.07
210 19 0.09
213 1 0.00
214 2 0.01
217 131 0.62
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (207 bp):
ATATAATTTAATAAAATTGTTAATAAATATTCTTATATGAATTTACTAATAAAATCATAATATAT
AATACTAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATA
AAATTATTATTCTTATATGAATTTACTAAAATCATAATATATAATACATAAAATATAATTTAAAT
AATTATTATAAA
Found at i:2924687 original size:20 final size:21
Alignment explanation
Indices: 2924648--2924687 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
2924638 AATTTACTAA
*
2924648 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
2924669 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
2924688 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:2924721 original size:17 final size:17
Alignment explanation
Indices: 2924699--2924732 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
2924689 TTATTATTAA
2924699 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
2924716 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
2924733 TCTTATTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:2924812 original size:32 final size:32
Alignment explanation
Indices: 2924776--2924839 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
2924766 TATATAATAC
*
2924776 TATAAAATATAATTTAAATAATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
** ** *
2924808 TATAATTTATAATCTACTTTATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
2924840 CTGCAATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (32 bp):
TATAAAATATAATCTAAATAATTATTATTAAA
Found at i:2928683 original size:53 final size:54
Alignment explanation
Indices: 2928599--2928705 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 54
2928589 GCAGTGAATT
2928599 TCAAAAACCACAACAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
1 TCAAAAACCACAACAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
2928653 TCAAAAACCACAAC-AAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
1 TCAAAAACCACAACAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
2928706 GAATAGGTAA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 39 0.74
54 14 0.26
ACGTcount: A:0.59, C:0.15, G:0.21, T:0.06
Consensus pattern (54 bp):
TCAAAAACCACAACAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
Found at i:2952993 original size:32 final size:30
Alignment explanation
Indices: 2952928--2953001 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
2952918 AATAAGAGTC
*
2952928 TAATTAATTTTTTTAGAAAAATTTTGAGAT
1 TAATTAATTTTTTTAGAAAAATTTAGAGAT
* *
2952958 TAATGAATTTTTTT-TAAAAATTTAAGAGAATT
1 TAATTAATTTTTTTAGAAAAATTT-AGAG-A-T
2952990 TAATTAATTTTT
1 TAATTAATTTTT
2953002 CCTAAAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 8 0.22
30 16 0.43
31 1 0.03
32 12 0.32
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (30 bp):
TAATTAATTTTTTTAGAAAAATTTAGAGAT
Found at i:2956728 original size:30 final size:30
Alignment explanation
Indices: 2956671--2956753 Score: 103
Period size: 30 Copynumber: 2.7 Consensus size: 30
2956661 AAAAAAAAGG
*
2956671 TTAGGTACTAAATTAGAAAAAAGTATCAATT
1 TTAGGTACTAAATTA-AAAAAAGTATCAAAT
*
2956702 TTAGGTACTAAATTAAAAAAATTATCAAAT
1 TTAGGTACTAAATTAAAAAAAGTATCAAAT
** *
2956732 TTAAATATTAAATTAAACAAAA
1 TTAGGTACTAAATTAAA-AAAA
2956754 AAATATTTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 27 0.59
31 19 0.41
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.33
Consensus pattern (30 bp):
TTAGGTACTAAATTAAAAAAAGTATCAAAT
Found at i:2956766 original size:28 final size:27
Alignment explanation
Indices: 2956730--2956784 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 27
2956720 AAATTATCAA
*
2956730 ATTTAAATATTAAATTAAACAAAAAAAT
1 ATTTAAATATCAAATTAAA-AAAAAAAT
*
2956758 ATTTAAATATCAAATTAGAAAAAAAAT
1 ATTTAAATATCAAATTAAAAAAAAAAT
2956785 CAAGTTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 8 0.32
28 17 0.68
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.31
Consensus pattern (27 bp):
ATTTAAATATCAAATTAAAAAAAAAAT
Found at i:2964382 original size:18 final size:20
Alignment explanation
Indices: 2964352--2964403 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 20
2964342 AAATAAATTC
*
2964352 TAATAAATATTTTTAATA-A
1 TAATTAATATTTTTAATACA
* *
2964371 TAA-TATTATTTTTATTACA
1 TAATTAATATTTTTAATACA
2964390 TAATTAATATTTTT
1 TAATTAATATTTTT
2964404 TATTTAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 11 0.41
19 7 0.26
20 9 0.33
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TAATTAATATTTTTAATACA
Found at i:2964404 original size:22 final size:23
Alignment explanation
Indices: 2964366--2964425 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
2964356 AAATATTTTT
2964366 AATAATAATATTATTTTTA-TT-A
1 AATAATAATATT-TTTTTATTTAA
*
2964388 CATAATTAATA-TTTTTTATTTAA
1 AATAA-TAATATTTTTTTATTTAA
2964411 AATAATAATATTTTT
1 AATAATAATATTTTT
2964426 ATAAGATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
21 6 0.19
22 12 0.38
23 14 0.44
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
AATAATAATATTTTTTTATTTAA
Found at i:2964405 original size:21 final size:22
Alignment explanation
Indices: 2964366--2964425 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
2964356 AAATATTTTT
2964366 AATAATAATATTATTTT-TATT-A
1 AATAATAATATT-TTTTAT-TTAA
*
2964388 CATAATTAATATTTTTTATTTAA
1 AATAA-TAATATTTTTTATTTAA
2964411 AATAATAATATTTTT
1 AATAATAATATTTTT
2964426 ATAAGATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
AATAATAATATTTTTTATTTAA
Found at i:2966376 original size:20 final size:21
Alignment explanation
Indices: 2966303--2966383 Score: 64
Period size: 20 Copynumber: 4.0 Consensus size: 21
2966293 AATTTTTTAT
* *
2966303 TTTAAATTC-TAAATTTTGAA
1 TTTAAACTCTTAAATTTTAAA
*
2966323 TATTAAA-TCTTAAATTTT-GA
1 T-TTAAACTCTTAAATTTTAAA
*
2966343 TCTAGAAC-CTTAAATTTTAAA
1 TTTA-AACTCTTAAATTTTAAA
*
2966364 TTTAAACTC-TAAACTTTAAA
1 TTTAAACTCTTAAATTTTAAA
2966384 CTAAACATTG
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
19 2 0.04
20 30 0.60
21 18 0.36
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.44
Consensus pattern (21 bp):
TTTAAACTCTTAAATTTTAAA
Found at i:2966382 original size:27 final size:27
Alignment explanation
Indices: 2966325--2966383 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
2966315 ATTTTGAATA
**
2966325 TTAAATCTTAAATTTTGATCTAGAACC
1 TTAAATCTTAAATTTAAATCTAGAACC
* *
2966352 TTAAATTTTAAATTTAAACTCTA-AACT
1 TTAAATCTTAAATTTAAA-TCTAGAACC
2966379 TTAAA
1 TTAAA
2966384 CTAAACATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (27 bp):
TTAAATCTTAAATTTAAATCTAGAACC
Found at i:2966414 original size:20 final size:20
Alignment explanation
Indices: 2966386--2966424 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2966376 ACTTTAAACT
*
2966386 AAACATTGATTCATGAATTG
1 AAACATTGAATCATGAATTG
* *
2966406 AAACTTTGAATCTTGAATT
1 AAACATTGAATCATGAATT
2966425 CATAGTTTAG
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:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (20 bp):
AAACATTGAATCATGAATTG
Found at i:2968018 original size:26 final size:26
Alignment explanation
Indices: 2967982--2968033 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
2967972 CTCGCGATAT
*
2967982 ATTGTCGGCGTATCAATAAGCCCAAA
1 ATTGTCGGCGTATCAACAAGCCCAAA
2968008 ATTGTCGGCGTATCAACAAGCCCAAA
1 ATTGTCGGCGTATCAACAAGCCCAAA
2968034 TCAGACGGCG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (26 bp):
ATTGTCGGCGTATCAACAAGCCCAAA
Found at i:2968042 original size:26 final size:26
Alignment explanation
Indices: 2967987--2968043 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
2967977 GATATATTGT
* * *
2967987 CGGCGTATCAATAAGCCCAAAATTGT
1 CGGCGTATCAACAAGCCCAAAATAGA
2968013 CGGCGTATCAACAAGCCC-AAATCAGA
1 CGGCGTATCAACAAGCCCAAAAT-AGA
2968039 CGGCG
1 CGGCG
2968044 ATCGATGAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 4 0.15
26 23 0.85
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (26 bp):
CGGCGTATCAACAAGCCCAAAATAGA
Found at i:2982552 original size:23 final size:23
Alignment explanation
Indices: 2982506--2982552 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
2982496 TCATTTCAAC
* *
2982506 TAAAATTTTATTTAATTCTCATA
1 TAAAATTTTAATTAATTATCATA
2982529 TAAAATTTTAATTAATATAT-ATA
1 TAAAATTTTAATTAAT-TATCATA
2982552 T
1 T
2982553 TTTTTGACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (23 bp):
TAAAATTTTAATTAATTATCATA
Found at i:2982763 original size:22 final size:23
Alignment explanation
Indices: 2982711--2982763 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
2982701 TCTTATTGTA
* *
2982711 TTTTTTATTTTTTTTCATCAATC
1 TTTTTTCTTTTTTTTCAACAATC
* *
2982734 TTTGTTCTTTTTTTTCAAC-ATG
1 TTTTTTCTTTTTTTTCAACAATC
2982756 TTTTTTCT
1 TTTTTTCT
2982764 AATAGATTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.13, C:0.13, G:0.04, T:0.70
Consensus pattern (23 bp):
TTTTTTCTTTTTTTTCAACAATC
Found at i:2990849 original size:17 final size:18
Alignment explanation
Indices: 2990813--2990851 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
2990803 CATGTAATTG
2990813 AAAAAATATAATAAATAT
1 AAAAAATATAATAAATAT
2990831 AAAAATATATAA-AAA-AT
1 AAAAA-ATATAATAAATAT
2990848 AAAA
1 AAAA
2990852 CACATGATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
18 8 0.40
19 6 0.30
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAAAATATAATAAATAT
Found at i:2991241 original size:17 final size:20
Alignment explanation
Indices: 2991225--2991274 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
2991215 TTCCATATTT
2991225 ATTA-TAATTATATATTTTA
1 ATTAGTAATTATATATTTTA
*
2991244 ATTAGTAATTATTAAATTTATA
1 ATTAGTAATTA-TATATTT-TA
2991266 ATTA-TAATT
1 ATTAGTAATT
2991275 GTACTTGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 4 0.15
20 6 0.22
21 11 0.41
22 6 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTAGTAATTATATATTTTA
Found at i:2991583 original size:41 final size:40
Alignment explanation
Indices: 2991498--2991589 Score: 98
Period size: 40 Copynumber: 2.2 Consensus size: 40
2991488 TAATGGATTA
* **
2991498 AAATTTAAAATTTAAAATAAATTATTTAAAAGAAGTATAC
1 AAATTTAAATTTTAAAATAAATTATTTAAAAGAACAATAC
*
2991538 AAATTTAAATTTTAAAGATAATATTA-TTAAAA-AACAATCAT
1 AAATTTAAATTTTAAA-ATAA-ATTATTTAAAAGAACAAT-AC
2991579 AAATTTTAAAT
1 AAA-TTTAAAT
2991590 ATAAACAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
40 19 0.43
41 14 0.32
42 11 0.25
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (40 bp):
AAATTTAAATTTTAAAATAAATTATTTAAAAGAACAATAC
Found at i:2992253 original size:14 final size:15
Alignment explanation
Indices: 2992228--2992257 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2992218 TTTTATAAAT
2992228 TAATATATATTTTTA
1 TAATATATATTTTTA
2992243 TAATA-ATATTTTTA
1 TAATATATATTTTTA
2992257 T
1 T
2992258 TTTTATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TAATATATATTTTTA
Found at i:2992267 original size:19 final size:20
Alignment explanation
Indices: 2992235--2992273 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
2992225 AATTAATATA
*
2992235 TATTTTTATAATAATATTTT
1 TATTTTTATAATAAAATTTT
2992255 TATTTTTAT-ATAAAATTTT
1 TATTTTTATAATAAAATTTT
2992274 AAAAATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TATTTTTATAATAAAATTTT
Found at i:3003631 original size:17 final size:18
Alignment explanation
Indices: 3003598--3003631 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3003588 TATCTCTTAA
3003598 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
3003616 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
3003632 AAAATAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:3004072 original size:14 final size:14
Alignment explanation
Indices: 3004055--3004093 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
3004045 GTAAAACAAA
* *
3004055 AAACCACAAACTCT
1 AAACCAAAAACCCT
*
3004069 AAACCATAAACCCT
1 AAACCAAAAACCCT
3004083 AAACCAAAAAC
1 AAACCAAAAAC
3004094 AATAAACATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.56, C:0.33, G:0.00, T:0.10
Consensus pattern (14 bp):
AAACCAAAAACCCT
Found at i:3004846 original size:41 final size:41
Alignment explanation
Indices: 3004789--3004893 Score: 165
Period size: 41 Copynumber: 2.6 Consensus size: 41
3004779 CTTTTTTGCG
* *
3004789 GCGTTTTTCCAAAAGTGCCGTTAAAACCTCGATCTATAGCA
1 GCGTTTTTCCAAAAGTGCCGCTAAAACCTCGATCTATACCA
* *
3004830 GCGTTTTTTCAAAAGTGCCGCTAAAACCTCGATCTATACCG
1 GCGTTTTTCCAAAAGTGCCGCTAAAACCTCGATCTATACCA
*
3004871 GCGTTTTTCCAAAAGCGCCGCTA
1 GCGTTTTTCCAAAAGTGCCGCTA
3004894 TTGTTCAGTT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (41 bp):
GCGTTTTTCCAAAAGTGCCGCTAAAACCTCGATCTATACCA
Found at i:3011763 original size:52 final size:48
Alignment explanation
Indices: 3011701--3011893 Score: 196
Period size: 47 Copynumber: 4.0 Consensus size: 48
3011691 GAAATGTGAT
* * *
3011701 TTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATTTGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATC-GAG---TGTGATATGTGC
* *
3011753 TTCCGTATAAGACCATATCCGGGATATGGCATCG-GTGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * *
3011800 TACTGTATAAGACCATATCTGGGATATGGCATC-AGTGTGATATGTG-
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * * *
3011846 ATCCGTATAAGACCATGGCTGGGCTATGGCCTCG-GTATGTGATATGTG
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAG--TGTGATATGTG
3011894 ACTATGCAAT
Statistics
Matches: 122, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
46 27 0.22
47 53 0.43
48 11 0.09
50 1 0.01
51 1 0.01
52 29 0.24
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (48 bp):
TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
Found at i:3013666 original size:35 final size:35
Alignment explanation
Indices: 3013618--3013951 Score: 411
Period size: 35 Copynumber: 9.5 Consensus size: 35
3013608 GACAAAGTGC
*
3013618 GAAATGTAGGTATGGTATTAACCATACCGAGTTGT
1 GAAATGTAGGTATGGTATTATCCATACCGAGTTGT
* * * *
3013653 GAAACGTAAGTATGGTATTAACCATACCGAGATGT
1 GAAATGTAGGTATGGTATTATCCATACCGAGTTGT
* * *
3013688 GAAACGTAGCTATGGTATCATCCATACCGAGTTGT
1 GAAATGTAGGTATGGTATTATCCATACCGAGTTGT
* * *
3013723 GACATGTAGGTATGGTATCATCCTTACCGAGTTGT
1 GAAATGTAGGTATGGTATTATCCATACCGAGTTGT
* * *
3013758 GAAATGTAGGTATGGTATCATCCATACCGAATTGA
1 GAAATGTAGGTATGGTATTATCCATACCGAGTTGT
* * *
3013793 AAAATGTAGATATGGTATTATCCATACTGAGTTGT
1 GAAATGTAGGTATGGTATTATCCATACCGAGTTGT
* * * * *
3013828 GAAACGTAAGTATGGTATCATCCATGCCGAGTTGA
1 GAAATGTAGGTATGGTATTATCCATACCGAGTTGT
* **
3013863 GAAATGTAGGTATGGTATTATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATTATCCATACCGAGTTGT
3013898 GAAATGTAGGTAT-GTCATT-TCCCATACCGAGTTGT
1 GAAATGTAGGTATGGT-ATTAT-CCATACCGAGTTGT
3013933 GAAATGTAGGTATGGTATT
1 GAAATGTAGGTATGGTATT
3013952 TCAATGAGGA
Statistics
Matches: 257, Mismatches: 39, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
34 3 0.01
35 252 0.98
36 2 0.01
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.31
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTATCCATACCGAGTTGT
Found at i:3015504 original size:30 final size:30
Alignment explanation
Indices: 3015468--3015527 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
3015458 ACTTAACAAG
*
3015468 CAAATGTCTCTAAAATAATAATAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
* *
3015498 CAAATGTCTTTAAAATAATAACATAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
3015528 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.32
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:3028637 original size:21 final size:21
Alignment explanation
Indices: 3028611--3028651 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3028601 AGACGAGCAA
* *
3028611 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
3028632 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
3028652 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:3032585 original size:29 final size:30
Alignment explanation
Indices: 3032536--3032613 Score: 92
Period size: 29 Copynumber: 2.6 Consensus size: 30
3032526 CTAGAACCTG
3032536 AATTTTAAAATATAGAAAATAAA-AGGACTA
1 AATTTTAAAATATAGAAAATAAAGA-GACTA
*
3032566 AATTCTTAAAA-ATA-AAAATACAGAGACTA
1 AATT-TTAAAATATAGAAAATAAAGAGACTA
3032595 AATTTT-AAATATATGAAAA
1 AATTTTAAAATATA-GAAAA
3032614 GTACACTGAC
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
27 3 0.07
28 5 0.12
29 16 0.38
30 12 0.29
31 6 0.14
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.28
Consensus pattern (30 bp):
AATTTTAAAATATAGAAAATAAAGAGACTA
Found at i:3050387 original size:9 final size:9
Alignment explanation
Indices: 3050373--3050397 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
3050363 TATAATGAAT
3050373 AAAGAATTG
1 AAAGAATTG
3050382 AAAGAATTG
1 AAAGAATTG
3050391 AAAGAAT
1 AAAGAAT
3050398 CCATCCATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (9 bp):
AAAGAATTG
Found at i:3051544 original size:66 final size:66
Alignment explanation
Indices: 3051438--3051573 Score: 272
Period size: 66 Copynumber: 2.1 Consensus size: 66
3051428 ACCCAATACC
3051438 TCTATCAATTTCTAACCTTATACTATTCAAACAACATTTATATGCAGCAGAGGAAATTGTGCAAC
1 TCTATCAATTTCTAACCTTATACTATTCAAACAACATTTATATGCAGCAGAGGAAATTGTGCAAC
3051503 A
66 A
3051504 TCTATCAATTTCTAACCTTATACTATTCAAACAACATTTATATGCAGCAGAGGAAATTGTGCAAC
1 TCTATCAATTTCTAACCTTATACTATTCAAACAACATTTATATGCAGCAGAGGAAATTGTGCAAC
3051569 A
66 A
3051570 TCTA
1 TCTA
3051574 AAATCACAAA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 70 1.00
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (66 bp):
TCTATCAATTTCTAACCTTATACTATTCAAACAACATTTATATGCAGCAGAGGAAATTGTGCAAC
A
Found at i:3053822 original size:16 final size:16
Alignment explanation
Indices: 3053801--3053831 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3053791 TTTGTTTGCA
3053801 ATTTTTATAAATTATT
1 ATTTTTATAAATTATT
*
3053817 ATTTTTCTAAATTAT
1 ATTTTTATAAATTAT
3053832 CATAAATTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTTTTATAAATTATT
Found at i:3056319 original size:21 final size:21
Alignment explanation
Indices: 3056272--3056323 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
3056262 TGATAAAAAA
*
3056272 ATATTTAAGATTTTTTGAATTT
1 ATATTT-AGATTTTTTGAATAT
*
3056294 TTATTTAGATTTTTT-ACATAT
1 ATATTTAGATTTTTTGA-ATAT
3056315 ATATTTAGA
1 ATATTTAGA
3056324 ATATTTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 20 0.77
22 5 0.19
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.58
Consensus pattern (21 bp):
ATATTTAGATTTTTTGAATAT
Found at i:3063254 original size:22 final size:21
Alignment explanation
Indices: 3063217--3063275 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 21
3063207 CTTCATCTCG
3063217 TATTTTTTATTAATTA-TTTAA
1 TATTTTTT-TTAATTATTTTAA
3063238 TATTTTTTTCTATATTATTTTAA
1 TATTTTTTT-TA-ATTATTTTAA
*
3063261 TATTTTTTTAAATTA
1 TATTTTTTTTAATTA
3063276 ATCCTGAACC
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
20 1 0.03
21 14 0.41
22 5 0.15
23 14 0.41
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (21 bp):
TATTTTTTTTAATTATTTTAA
Found at i:3063269 original size:11 final size:11
Alignment explanation
Indices: 3063219--3063271 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
3063209 TCATCTCGTA
* *
3063219 TTTTTTATTAA
1 TTTTTTAATAT
*
3063230 TTATTTAATAT
1 TTTTTTAATAT
*
3063241 TTTTTTCTATAT
1 TTTTTT-AATAT
*
3063253 TATTTTAATAT
1 TTTTTTAATAT
3063264 TTTTTTAA
1 TTTTTTAA
3063272 ATTAATCCTG
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
11 24 0.73
12 9 0.27
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTTTAATAT
Found at i:3063275 original size:21 final size:21
Alignment explanation
Indices: 3063217--3063275 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
3063207 CTTCATCTCG
*
3063217 TATTTTTTATTAATTATTTAA
1 TATTTTTTATAAATTATTTAA
* *
3063238 TATTTTTTTCTATATTATTTTAA
1 TA-TTTTTTATAAATTA-TTTAA
3063261 TATTTTTT-TAAATTA
1 TATTTTTTATAAATTA
3063276 ATCCTGAACC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 8 0.25
22 17 0.53
23 7 0.22
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (21 bp):
TATTTTTTATAAATTATTTAA
Found at i:3076899 original size:39 final size:39
Alignment explanation
Indices: 3076847--3076924 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
3076837 ATCCACTTAT
3076847 TTATTAAATATAATGGTAACATAAATTGTATTCTCAATA
1 TTATTAAATATAATGGTAACATAAATTGTATTCTCAATA
3076886 TTATTAAATATAATGGTAACATAAATTGTATTCTCAATA
1 TTATTAAATATAATGGTAACATAAATTGTATTCTCAATA
3076925 AGAGACTGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.41
Consensus pattern (39 bp):
TTATTAAATATAATGGTAACATAAATTGTATTCTCAATA
Found at i:3081087 original size:22 final size:24
Alignment explanation
Indices: 3081047--3081096 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 24
3081037 TGTTTAATTT
*
3081047 AATTCAAAAAGATATTAAAAGCTA-
1 AATTCAAAAAAATATTAAAA-CTAC
3081071 AATT-AAAAAAATA-TAAAACTAC
1 AATTCAAAAAAATATTAAAACTAC
3081093 AATT
1 AATT
3081097 TATTATTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 3 0.12
22 9 0.38
23 8 0.33
24 4 0.17
ACGTcount: A:0.62, C:0.08, G:0.04, T:0.26
Consensus pattern (24 bp):
AATTCAAAAAAATATTAAAACTAC
Found at i:3085636 original size:3 final size:3
Alignment explanation
Indices: 3085628--3085653 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3085618 CCGTCTTGCT
3085628 GAC GAC GAC GAC GAC GAC GAC GAC GA
1 GAC GAC GAC GAC GAC GAC GAC GAC GA
3085654 GACTACTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.35, T:0.00
Consensus pattern (3 bp):
GAC
Found at i:3092582 original size:17 final size:17
Alignment explanation
Indices: 3092560--3092593 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3092550 ATCCACTAAT
*
3092560 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
3092577 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
3092594 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:3097222 original size:17 final size:17
Alignment explanation
Indices: 3097200--3097233 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3097190 ATCCACTAAT
*
3097200 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
3097217 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
3097234 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:3099440 original size:33 final size:33
Alignment explanation
Indices: 3099401--3099466 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
3099391 TTCATCGCAG
* *
3099401 ACCTTCAAATTTTTCTCTTAGATTATGTTTGTT
1 ACCTTCAAATTGTACTCTTAGATTATGTTTGTT
*
3099434 ACCTTCATATTGTACTCTTAGATTATGTTTGTT
1 ACCTTCAAATTGTACTCTTAGATTATGTTTGTT
3099467 TGGTCGTTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.21, C:0.15, G:0.11, T:0.53
Consensus pattern (33 bp):
ACCTTCAAATTGTACTCTTAGATTATGTTTGTT
Found at i:3099528 original size:10 final size:10
Alignment explanation
Indices: 3099513--3099539 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
3099503 CCCTTTCTTT
3099513 TTTTTTTTTC
1 TTTTTTTTTC
3099523 TTTTTTTTTC
1 TTTTTTTTTC
3099533 TTTTTTT
1 TTTTTTT
3099540 AATATTATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:3099539 original size:13 final size:13
Alignment explanation
Indices: 3099506--3099531 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3099496 AACCCTTCCC
3099506 TTTCTTTTTTTTT
1 TTTCTTTTTTTTT
3099519 TTTCTTTTTTTTT
1 TTTCTTTTTTTTT
3099532 CTTTTTTTAA
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TTTCTTTTTTTTT
Found at i:3105087 original size:3 final size:3
Alignment explanation
Indices: 3105079--3105103 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
3105069 CACTCTTGGC
3105079 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
3105104 TGTAGTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:3109204 original size:28 final size:29
Alignment explanation
Indices: 3109175--3109229 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
3109165 AAAATTACAT
3109175 TTTG-TTT-TCTTTT-AAAATTGATAAAAA
1 TTTGATTTATCTTTTAAAAATT-ATAAAAA
3109202 TTTGATTTAATCTTTTAAAAATTATAAA
1 TTTGATTT-ATCTTTTAAAAATTATAAA
3109230 GATATAGACT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 4 0.17
28 3 0.12
30 11 0.46
31 6 0.25
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (29 bp):
TTTGATTTATCTTTTAAAAATTATAAAAA
Found at i:3118916 original size:24 final size:24
Alignment explanation
Indices: 3118889--3118963 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
3118879 AGAAAATCAA
3118889 ATATGTAAAAGGAACAAGAATAAC
1 ATATGTAAAAGGAACAAGAATAAC
* * *
3118913 ATATATAAAA--AATAGAGATATGA-
1 ATATGTAAAAGGAACA-AGA-ATAAC
*
3118936 ATATGTAAAAGGAACGAGAATAAC
1 ATATGTAAAAGGAACAAGAATAAC
3118960 ATAT
1 ATAT
3118964 ATGGAAAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
22 3 0.08
23 15 0.38
24 19 0.49
25 2 0.05
ACGTcount: A:0.57, C:0.05, G:0.16, T:0.21
Consensus pattern (24 bp):
ATATGTAAAAGGAACAAGAATAAC
Found at i:3118918 original size:26 final size:26
Alignment explanation
Indices: 3118889--3118971 Score: 70
Period size: 26 Copynumber: 3.4 Consensus size: 26
3118879 AGAAAATCAA
3118889 ATATGTAAAAGGAACAAGAATAACAT
1 ATATGTAAAAGGAACAAGAATAACAT
* **
3118915 ATA--TAAAA--AA-TAGAGATATGA-
1 ATATGTAAAAGGAACAAGA-ATAACAT
*
3118936 ATATGTAAAAGGAACGAGAATAACAT
1 ATATGTAAAAGGAACAAGAATAACAT
*
3118962 ATATGGAAAA
1 ATATGTAAAA
3118972 TAGAGATATG
Statistics
Matches: 43, Mismatches: 7, Indels: 14
0.67 0.11 0.22
Matches are distributed among these distances:
21 6 0.14
22 6 0.14
23 5 0.12
24 5 0.12
25 6 0.14
26 15 0.35
ACGTcount: A:0.58, C:0.05, G:0.17, T:0.20
Consensus pattern (26 bp):
ATATGTAAAAGGAACAAGAATAACAT
Found at i:3118978 original size:47 final size:47
Alignment explanation
Indices: 3118867--3118983 Score: 173
Period size: 47 Copynumber: 2.5 Consensus size: 47
3118857 GAAGAGAGAG
* *
3118867 TATATGGAAAATAGA-AAATCAAATATGTAAAAGGAACAAGAATAACA
1 TATATGGAAAATAGAGATAT-GAATATGTAAAAGGAACAAGAATAACA
** *
3118914 TATATAAAAAATAGAGATATGAATATGTAAAAGGAACGAGAATAACA
1 TATATGGAAAATAGAGATATGAATATGTAAAAGGAACAAGAATAACA
3118961 TATATGGAAAATAGAGATATGAA
1 TATATGGAAAATAGAGATATGAA
3118984 AGGAAATTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
47 59 0.95
48 3 0.05
ACGTcount: A:0.57, C:0.04, G:0.17, T:0.21
Consensus pattern (47 bp):
TATATGGAAAATAGAGATATGAATATGTAAAAGGAACAAGAATAACA
Done.