Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 145 of 182
Found at i:44600571 original size:20 final size:21
Alignment explanation
Indices: 44600521--44600576 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
44600511 TATTTATATT
* **
44600521 TTTAATTTAATTCAATTTTAA
1 TTTAATATAATTTTATTTTAA
*
44600542 TTTAATATAATTTTATTTTAT
1 TTTAATATAATTTTATTTTAA
44600563 TTTAA-ATAATTTTA
1 TTTAATATAATTTTA
44600577 ATAAATAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 9 0.29
21 22 0.71
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTAATATAATTTTATTTTAA
Found at i:44600857 original size:36 final size:37
Alignment explanation
Indices: 44600819--44600901 Score: 100
Period size: 35 Copynumber: 2.3 Consensus size: 37
44600809 AACTCTGATG
44600819 TTTCAAAATTTTTTCGTGTTTTCAACAATTTTCGTGT
1 TTTCAAAATTTTTTCGTGTTTTCAACAATTTTCGTGT
* * *
44600856 TTTCAAAA-ATTCTCATG-TTTC-ACAAATTTTCGTGT
1 TTTCAAAATTTTTTCGTGTTTTCAAC-AATTTTCGTGT
44600891 TTTCGAAAATT
1 TTTC-AAAATT
44600902 GTGTTTCGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
34 2 0.05
35 19 0.49
36 10 0.26
37 8 0.21
ACGTcount: A:0.27, C:0.14, G:0.10, T:0.49
Consensus pattern (37 bp):
TTTCAAAATTTTTTCGTGTTTTCAACAATTTTCGTGT
Found at i:44600931 original size:18 final size:18
Alignment explanation
Indices: 44600788--44601075 Score: 161
Period size: 18 Copynumber: 16.3 Consensus size: 18
44600778 ATTGTGTTTA
*
44600788 AAAAATCTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* *
44600806 AAAAACTCT-GATG-TTTC
1 AAAAATTTTCG-TGTTTTC
*
44600823 AAAATTTTTTCGTGTTTTC
1 AAAA-ATTTTCGTGTTTTC
*
44600842 AACAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* *
44600860 AAAAATTCTCATG-TTTC
1 AAAAATTTTCGTGTTTTC
*
44600877 ACAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
*
44600895 GAAAA--TT-GTG-TTTC
1 AAAAATTTTCGTGTTTTC
* *
44600909 GAAAATTTTCATGTTTTC
1 AAAAATTTTCGTGTTTTC
**
44600927 AAAAAAAATTCCCGTG-TTTC
1 ---AAAAATTTTCGTGTTTTC
* * *
44600947 ATAAATTTCCGTGTTTGC
1 AAAAATTTTCGTGTTTTC
** *
44600965 AAAAAATTACCGT-CTTTC
1 -AAAAATTTTCGTGTTTTC
*
44600983 AAAAATTTTTGTGTTTTC
1 AAAAATTTTCGTGTTTTC
**
44601001 AAAAATTGCCCGTG-TTTC
1 AAAAATT-TTCGTGTTTTC
* * *
44601019 ATAAATTTCCGT-ATTTC
1 AAAAATTTTCGTGTTTTC
*
44601036 AAAAAATTTTTGTG-TTTC
1 -AAAAATTTTCGTGTTTTC
* *
44601054 TAAAATTCTCGTGTTTT-
1 AAAAATTTTCGTGTTTTC
44601071 AAAAA
1 AAAAA
44601076 AAATTTGTAT
Statistics
Matches: 206, Mismatches: 44, Indels: 41
0.71 0.15 0.14
Matches are distributed among these distances:
14 9 0.04
15 3 0.01
16 4 0.02
17 67 0.33
18 89 0.43
19 21 0.10
20 4 0.02
21 9 0.04
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (18 bp):
AAAAATTTTCGTGTTTTC
Found at i:44600983 original size:36 final size:35
Alignment explanation
Indices: 44600845--44601076 Score: 147
Period size: 35 Copynumber: 6.6 Consensus size: 35
44600835 TGTTTTCAAC
* * * *
44600845 AATTTTCGTGTTTTC-AAAAATTCTCATGTTTCACA
1 AATTTCCGTG-TTTCAAAAAATTCCCGTGTTTCATA
* *
44600880 AATTTTCGTGTTTTC-GAAAATT---GTGTTTCGA-A
1 AATTTCCGTG-TTTCAAAAAATTCCCGTGTTTC-ATA
* *
44600912 AATTTTCATGTTTTCAAAAAAAATTCCCGTGTTTCATA
1 AATTTCCGTG-TTTC--AAAAAATTCCCGTGTTTCATA
* * *
44600950 AATTTCCGTGTTTGCAAAAAATTACCGTCTTTCAAA
1 AATTTCCGTGTTT-CAAAAAATTCCCGTGTTTCATA
**
44600986 AATTTTTGTGTTTTC-AAAAATTGCCCGTGTTTCATA
1 AATTTCCGTG-TTTCAAAAAATT-CCCGTGTTTCATA
* ***
44601022 AATTTCCGTATTTCAAAAAATTTTTGTGTTTC-TA
1 AATTTCCGTGTTTCAAAAAATTCCCGTGTTTCATA
* *
44601056 AAATTCTCGTGTTTTAAAAAA
1 AATTTC-CGTGTTTCAAAAAA
44601077 AATTTGTATT
Statistics
Matches: 161, Mismatches: 23, Indels: 26
0.77 0.11 0.12
Matches are distributed among these distances:
32 21 0.13
33 1 0.01
34 7 0.04
35 57 0.35
36 51 0.32
37 7 0.04
38 17 0.11
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (35 bp):
AATTTCCGTGTTTCAAAAAATTCCCGTGTTTCATA
Found at i:44601083 original size:35 final size:34
Alignment explanation
Indices: 44601012--44601093 Score: 83
Period size: 35 Copynumber: 2.4 Consensus size: 34
44601002 AAAATTGCCC
* **
44601012 GTGTTTCATAAATTTCCGTATTTCAAAAAATTTTT
1 GTGTTTC-TAAAATTCCGTATTTCAAAAAAAATTT
* *
44601047 GTGTTTCTAAAATTCTCGTGTTTTAAAAAAAATTT
1 GTGTTTCTAAAATTC-CGTATTTCAAAAAAAATTT
* *
44601082 GTATTTCAAAAA
1 GTGTTTCTAAAA
44601094 AAAGGTTATT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
34 7 0.18
35 32 0.82
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (34 bp):
GTGTTTCTAAAATTCCGTATTTCAAAAAAAATTT
Found at i:44602778 original size:4 final size:4
Alignment explanation
Indices: 44602769--44602793 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
44602759 CATCCATTGG
44602769 TCAT TCAT TCAT TCAT TCAT TCAT T
1 TCAT TCAT TCAT TCAT TCAT TCAT T
44602794 GCATGTACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TCAT
Found at i:44608475 original size:15 final size:15
Alignment explanation
Indices: 44608451--44608498 Score: 64
Period size: 16 Copynumber: 3.3 Consensus size: 15
44608441 TATTATGCCT
44608451 AAAA-AAACAACAAA
1 AAAAGAAACAACAAA
*
44608465 AAACGAAACAACAAAA
1 AAAAGAAACAAC-AAA
44608481 AAAAGAAACAA-AAA
1 AAAAGAAACAACAAA
44608495 AAAA
1 AAAA
44608499 TAAAAAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 10 0.33
15 7 0.23
16 13 0.43
ACGTcount: A:0.83, C:0.12, G:0.04, T:0.00
Consensus pattern (15 bp):
AAAAGAAACAACAAA
Found at i:44608483 original size:16 final size:16
Alignment explanation
Indices: 44608451--44608498 Score: 66
Period size: 15 Copynumber: 3.2 Consensus size: 16
44608441 TATTATGCCT
44608451 AAAA-AAACAAC-AAA
1 AAAAGAAACAACAAAA
*
44608465 AAACGAAACAACAAAA
1 AAAAGAAACAACAAAA
44608481 AAAAGAAACAA-AAAA
1 AAAAGAAACAACAAAA
44608496 AAA
1 AAA
44608499 TAAAAAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 3 0.10
15 14 0.47
16 13 0.43
ACGTcount: A:0.83, C:0.12, G:0.04, T:0.00
Consensus pattern (16 bp):
AAAAGAAACAACAAAA
Found at i:44608503 original size:10 final size:10
Alignment explanation
Indices: 44608451--44608506 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
44608441 TATTATGCCT
44608451 AAAAAAACAA
1 AAAAAAACAA
*
44608461 CAAAAAACGAA
1 AAAAAAAC-AA
*
44608472 ACAACAAA-AA
1 A-AAAAAACAA
*
44608482 AAAGAAACAA
1 AAAAAAACAA
*
44608492 AAAAAAATAA
1 AAAAAAACAA
44608502 AAAAA
1 AAAAA
44608507 TCAAGATGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 5 0.14
10 25 0.68
11 2 0.05
12 5 0.14
ACGTcount: A:0.84, C:0.11, G:0.04, T:0.02
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:44609480 original size:77 final size:74
Alignment explanation
Indices: 44609351--44610079 Score: 489
Period size: 77 Copynumber: 9.2 Consensus size: 74
44609341 TTCAAGAATC
* * * *
44609351 ATTTTTTAATTTCTGTTTTTCAAAAATCAGCTCATATTGCGAGAGGTAAGTTGAGCCTCGAGTCA
1 ATTTTTCAATTTCTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCA
44609416 CGTCGAGGT
66 CGTCGAGGT
* * * *
44609425 ATTTTCCAATTTCTCTTTTTTCAAAGAAATCAACTCAGATTGTGAGAGGTGAGTTGAGCCTCGGG
1 ATTTTTCAATTTCT-TTTTTTC-AA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAG
*
44609490 TCACATGCCGAGGT
63 TCAC--GTCGAGGT
* *
44609504 ATTTTTTAAATTTCTATTTTTT-AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-AGA
1 A-TTTTTCAATTTCT-TTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAG-
*
44609567 TCACATCTTGAGGT
63 TCACGTC--GAGGT
* * * * *
44609581 ATTTTTCAGTTTCTATTTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATTGGGTC
1 ATTTTTCAATTTCT-TTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTC
*
44609646 ACATCTCG-GGT
65 AC--GTCGAGGT
*** *
44609657 CACATGCCGAGATATTTTTTTAAATTTTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG
1 ---AT-------T-TTTCAAT---TTCTT-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG
* *
44609722 TTGAGCCTCGGGTCACATCCTGAGGT
51 TTGAGCCTCGAGTCACGT-C-GAGGT
* * *
44609748 ATTTTTCAGTTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-AGA
1 ATTTTTCAATTTCTTTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAG-
*
44609812 TCACATCCTGAGGT
63 TCACGT-C-GAGGT
* * *
44609826 ATTTTTCAATTTCTGTTTTTCAAAATATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG-GAC
1 ATTTTTCAATTTCTTTTTTTCAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTC
* * *
44609890 AAATGCCGATGT
65 --ACGTCGAGGT
* ** * * *
44609902 ATTTCTTTTAAATTTCAGTTTTTCAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCCCGGG
1 A--T-TTTTCAATTTCTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAG
* *
44609967 TCACATGCTGATGT
63 TCACGT-C-GAGGT
* * *
44609981 ATTTTTTTTAAATAAAAATTTTCTATTTTTT-AAAAATCAACTCATATTACGAGAGGTGGGTTGA
1 A----TTTT---T--CAA-TTTCT-TTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* *
44610045 GCCTCAAGTCACACGCCGAGGT
55 GCCTCGAGT--CACGTCGAGGT
44610067 ATTTTTCAATTTC
1 ATTTTTCAATTTC
44610080 AGTTAAAAAA
Statistics
Matches: 531, Mismatches: 69, Indels: 108
0.75 0.10 0.15
Matches are distributed among these distances:
74 12 0.02
75 7 0.01
76 43 0.08
77 162 0.31
78 110 0.21
79 42 0.08
80 24 0.05
81 4 0.01
82 4 0.01
83 1 0.00
85 3 0.01
86 46 0.09
87 10 0.02
88 6 0.01
89 2 0.00
90 52 0.10
91 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (74 bp):
ATTTTTCAATTTCTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCA
CGTCGAGGT
Found at i:44609540 original size:154 final size:152
Alignment explanation
Indices: 44609351--44610079 Score: 714
Period size: 154 Copynumber: 4.6 Consensus size: 152
44609341 TTCAAGAATC
* * *
44609351 ATTTTTT-AATTTCTGTTTTTCAAAAATCAGCTCATATTGCGAGAGGTAAGTTGAGCCTCGAGTC
1 ATTTTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTC
* * * *
44609415 ACGTCGAGGTATTTTCCAATTTCTCTTTTTTCAAAGAAATCAACTCAGATTGTGAGAGGTGAGTT
66 ACGTCGAGGTATTTTTCAATTTCT-GTTTTTCAAA-AAATCAACTCATATTGCGAGAGGTGAGTT
44609480 GAGCCTCGGGTCACATGCCGAGGT
129 GAGCCTCGGGTCACATGCCGAGGT
* *
44609504 ATTTTTTAAATTTCTATTTTTTAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-AGAT
1 ATTTTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAG-T
* * * *
44609568 CACATCTTGAGGTATTTTTCAGTTTCTATTTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGT
65 CACGTC--GAGGTATTTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGT
*
44609633 TGAGCATTGGGTCACATCTCGGGTCACATGCCGAGAT
128 T--G-A----G---C--CTCGGGTCACATGCCGAGGT
* *
44609670 ATTTTTTTAAATTTTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
1 A-TTTTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGT
* * *
44609735 CACATCCTGAGGTATTTTTCAGTTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAG
65 CACGT-C-GAGGTATTTTTCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAG
* *
44609800 TTGAGCCTCAGATCACAT-CCTGAGGT
127 TTGAGCCTCGGGTCACATGCC-GAGGT
* * * *
44609826 A-TTTTTCAATTTCTGTTTTTCAAAATATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG-GA
1 ATTTTTTAAATTTCTATTTTTCAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGT
* * * * * *
44609889 CAAATGCCGATGTATTTCTTTTAAATTTCAGTTTTTC-AAAAATCAACTCATATTGCGAGATGTG
65 C--ACGTCGAGGTA--T-TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTG
* * *
44609953 AGTTGAGCCCCGGGTCACATGCTGATGT
125 AGTTGAGCCTCGGGTCACATGCCGAGGT
* * *
44609981 ATTTTTTTTAAATAAAAATTTTCTATTTTTTAAAAATCAACTCATATTACGAGAGGTGGGTTGAG
1 A---TTTTT---T--AAA-TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* *
44610046 CCTCAAGTCACACGCCGAGGTATTTTTCAATTTC
57 CCTCGAGT--CACGTCGAGGTATTTTTCAATTTC
44610080 AGTTAAAAAA
Statistics
Matches: 482, Mismatches: 53, Indels: 73
0.79 0.09 0.12
Matches are distributed among these distances:
153 9 0.02
154 108 0.22
155 92 0.19
156 36 0.07
157 17 0.04
158 1 0.00
159 4 0.01
161 2 0.00
162 11 0.02
163 1 0.00
164 34 0.07
165 25 0.05
166 21 0.04
167 89 0.18
168 32 0.07
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (152 bp):
ATTTTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTC
ACGTCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
GCCTCGGGTCACATGCCGAGGT
Found at i:44609738 original size:78 final size:78
Alignment explanation
Indices: 44609650--44610072 Score: 421
Period size: 78 Copynumber: 5.3 Consensus size: 78
44609640 TGGGTCACAT
*
44609650 CTCGGGTCACATGCCGAGATATTTTTTTAAATTTTTATTTTTCAAAAATCAACTCATATTGCGAG
1 CTCGGGTCACATGCCGAGGTATTTTTTTAAATTTTTATTTTTCAAAAATCAACTCATATTGCGAG
44609715 AGGTGAGTTGAGC
66 AGGTGAGTTGAGC
* * * * *
44609728 CTCGGGTCACAT-CCTGAGGTA--TTTTTCAGTTTCTGTTTTTCAAAAAAATCAACTCATAATGC
1 CTCGGGTCACATGCC-GAGGTATTTTTTTAAATTTTTATTTTTC--AAAAATCAACTCATATTGC
44609790 GAGAGGTGAGTTGAGC
63 GAGAGGTGAGTTGAGC
* * * * *
44609806 CTCAGATCACAT-CCTGAGGTA--TTTTTCAATTTCTGTTTTTCAAAATATCAACTCATATTGCG
1 CTCGGGTCACATGCC-GAGGTATTTTTTTAAATTTTTATTTTTCAAAA-ATCAACTCATATTGCG
*
44609868 AGAAGTGAGTTGAGC
64 AGAGGTGAGTTGAGC
* * * *
44609883 CTC-GGACAAATGCCGATGTATTTCTTTTAAA-TTTCAGTTTTTCAAAAATCAACTCATATTGCG
1 CTCGGGTCACATGCCGAGGTATTT-TTTTAAATTTTTA-TTTTTCAAAAATCAACTCATATTGCG
*
44609946 AGATGTGAGTTGAGC
64 AGAGGTGAGTTGAGC
* * * *
44609961 CCCGGGTCACATGCTGATGTATTTTTTTTAAATAAAAATTTTCTATTTTTTAAAAATCAACTCAT
1 CTCGGGTCACATGCCGAGGTA--TTTTTT---T--AAATTTT-TATTTTTCAAAAATCAACTCAT
* *
44610026 ATTACGAGAGGTGGGTTGAGC
58 ATTGCGAGAGGTGAGTTGAGC
** *
44610047 CTCAAGTCACACGCCGAGGTATTTTT
1 CTCGGGTCACATGCCGAGGTATTTTT
44610073 CAATTTCAGT
Statistics
Matches: 291, Mismatches: 35, Indels: 32
0.81 0.10 0.09
Matches are distributed among these distances:
76 30 0.10
77 36 0.12
78 124 0.43
79 30 0.10
80 3 0.01
81 3 0.01
83 1 0.00
84 5 0.02
85 3 0.01
86 55 0.19
87 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (78 bp):
CTCGGGTCACATGCCGAGGTATTTTTTTAAATTTTTATTTTTCAAAAATCAACTCATATTGCGAG
AGGTGAGTTGAGC
Found at i:44609759 original size:167 final size:167
Alignment explanation
Indices: 44609484--44609805 Score: 538
Period size: 167 Copynumber: 1.9 Consensus size: 167
44609474 TGAGTTGAGC
* *
44609484 CTCGGGTCACATGCCGAGGTATTTTTTAAATTTCTATTTTTTAAAAATCAACTCATATTGCAAGA
1 CTCGGGTCACATGCCGAGATATTTTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCAAGA
* *
44609549 GGTGAGTTGAGCCTCAGATCACATCTTGAGGTATTTTTCAGTTTCTATTTTTC-CAAAAATCAAC
66 GGTGAGTTGAGCCTCAGATCACATCCTGAGGTATTTTTCAGTTTCTATTTTTCAAAAAAATCAAC
*
44609613 TCATATTGCGAGAGGTGAGTTGAGCATTGGGTCACAT
131 TCATAATGCGAGAGGTGAGTTGAGCATTGGGTCACAT
* *
44609650 CTCGGGTCACATGCCGAGATATTTTTTTAAATTTTTATTTTTCAAAAATCAACTCATATTGCGAG
1 CTCGGGTCACATGCCGAGATA-TTTTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCAAG
* * *
44609715 AGGTGAGTTGAGCCTCGGGTCACATCCTGAGGTATTTTTCAGTTTCTGTTTTTCAAAAAAATCAA
65 AGGTGAGTTGAGCCTCAGATCACATCCTGAGGTATTTTTCAGTTTCTATTTTTCAAAAAAATCAA
44609780 CTCATAATGCGAGAGGTGAGTTGAGC
130 CTCATAATGCGAGAGGTGAGTTGAGC
44609806 CTCAGATCAC
Statistics
Matches: 144, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
166 20 0.14
167 90 0.62
168 34 0.24
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (167 bp):
CTCGGGTCACATGCCGAGATATTTTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCAAGA
GGTGAGTTGAGCCTCAGATCACATCCTGAGGTATTTTTCAGTTTCTATTTTTCAAAAAAATCAAC
TCATAATGCGAGAGGTGAGTTGAGCATTGGGTCACAT
Found at i:44609767 original size:90 final size:85
Alignment explanation
Indices: 44609518--44610079 Score: 309
Period size: 78 Copynumber: 6.9 Consensus size: 85
44609508 TTTAAATTTC
* * * * *
44609518 TATTTTTTAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGATCACATCTTGAGGTAT
1 TATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATCCTGAGGTAT
44609583 TTTTCAGTTTC------T-A
66 TTTTCAGTTTCTGTTTTTAA
* * *
44609596 T-TTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATTGGGTCACAT-CTCG-GGTC
1 TATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATCCT-GAGGT-
** ** *
44609658 ACATGCCGAGATATT-T-TTTTAAA
64 ATTTTTC-AG-T-TTCTGTTTTTAA
44609681 TTTTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATCCTGAG
1 ----TATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATCCTGAG
*
44609746 GTATTTTTCAGTTTCTGTTTTTCA
62 GTATTTTTCAGTTTCTGTTTTTAA
* * *
44609770 -A------AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGATCACATCCTGAGGTAT
1 TATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATCCTGAGGTAT
*
44609828 TTTTCAATTTCTG-------
66 TTTTCAGTTTCTGTTTTTAA
* * * *
44609841 --TTTTTCAAAATATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGACAAATGCC-GATGT
1 TATTTTTCAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAT-CCTGAGGT
*** *
44609902 A--TTTC--TTT-TAAATTTCA
64 ATTTTTCAGTTTCTGTTTTTAA
* * * * *
44609919 -GTTTTTCAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCCCGGGTCACATGCTGATGTAT
1 TATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATCCTGAGGTA-
* ** ***** *
44609983 TTTTTTTAAATAAAAATTTT-C
65 -TTTTTCAGTTTCTGTTTTTAA
* * * ** *
44610004 TATTTTTTAAAAATCAACTCATATTACGAGAGGTGGGTTGAGCCTCAAGTCACA-CGCCGAGGTA
1 TATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATC-CTGAGGTA
*
44610068 TTTTTCAATTTC
65 TTTTTCAGTTTC
44610080 AGTTAAAAAA
Statistics
Matches: 378, Mismatches: 59, Indels: 88
0.72 0.11 0.17
Matches are distributed among these distances:
71 1 0.00
72 3 0.01
74 4 0.01
76 18 0.05
77 84 0.22
78 102 0.27
79 23 0.06
80 2 0.01
83 3 0.01
84 9 0.02
85 2 0.01
86 56 0.15
87 2 0.01
88 2 0.01
89 8 0.02
90 54 0.14
91 5 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (85 bp):
TATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATCCTGAGGTAT
TTTTCAGTTTCTGTTTTTAA
Found at i:44609880 original size:245 final size:231
Alignment explanation
Indices: 44609351--44610079 Score: 701
Period size: 245 Copynumber: 3.1 Consensus size: 231
44609341 TTCAAGAATC
* * * * * *
44609351 ATTTTTTAATTTCTGTTTTT-CAAAAATCAGCTCATATTGCGAGAGGTAAGTTGAGCCTCGAGTC
1 ATTTTTCAATTTCTATTTTTCCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG-GAC
* * * ** ** * *
44609415 --ACGTCGAGGTA--T-TTTCCAATTTCTCTTTTTTCAAAGAAATCAACTCAGATTGTGAGAGGT
65 AAATGCCGATGTATTTCTTTTAAATTTC-AGTTTTTC-AA-AAATCAACTCATATTGCGAGAGGT
*
44609475 GAGTTGAGCCTCGGGTCACATGCC-GAGGTATTTTTTAAATTTCTATTTTTTAAAAATCAACTCA
127 GAGTTGAGCCTCGGGTCACAT-CCTGAGGTA-TTTTTAAATTTCTATTTTTAAAAAATCAACTCA
* *
44609539 TATTGCAAGAGGTGAGTTGAGCCTCAGATCACATCTTGAGGT
190 TAATGCAAGAGGTGAGTTGAGCCTCAGATCACATCCTGAGGT
* *
44609581 ATTTTTCAGTTTCTATTTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATTGGGTC
1 ATTTTTCAATTTCTATTTTTCCAAAAATCAACTCATATTGCGAGA----AG-TGAG--TTGAG--
* * *
44609646 ACATCTCGGGTCACATGCCGA-GATATTT-TTTTAAATTTTTA-TTTTTCAAAAATCAACTCATA
57 -C--CTC-GGACAAATGCCGATG-TATTTCTTTTAAA-TTTCAGTTTTTCAAAAATCAACTCATA
* * *
44609708 TTGCGAGAGGTGAGTTGAGCCTCGGGTCACATCCTGAGGTATTTTTCAGTTTCTGTTTTTCAAAA
116 TTGCGAGAGGTGAGTTGAGCCTCGGGTCACATCCTGAGGTATTTTTAAATTTCTATTTTT--AAA
*
44609773 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGATCACATCCTGAGGT
179 AAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTCAGATCACATCCTGAGGT
*
44609826 ATTTTTCAATTTCTGTTTTT-CAAAATATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGAC
1 ATTTTTCAATTTCTATTTTTCCAAAA-ATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGAC
*
44609890 AAATGCCGATGTATTTCTTTTAAATTTCAGTTTTTCAAAAATCAACTCATATTGCGAGATGTGAG
65 AAATGCCGATGTATTTCTTTTAAATTTCAGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG
* * * *
44609955 TTGAGCCCCGGGTCACATGCTGATGTATTTTTTTTAAATAAAAATTTTCTATTTTTTAAAAATCA
130 TTGAGCCTCGGGTCACATCCTGAGGTA----TTTT---T--AAA-TTTCTATTTTTAAAAAATCA
* * * * *
44610020 ACTCATATTACGAGAGGTGGGTTGAGCCTCA-AGTCACA-CGCCGAGGT
185 ACTCATAATGCAAGAGGTGAGTTGAGCCTCAGA-TCACATC-CTGAGGT
44610067 ATTTTTCAATTTC
1 ATTTTTCAATTTC
44610080 AGTTAAAAAA
Statistics
Matches: 420, Mismatches: 40, Indels: 67
0.80 0.08 0.13
Matches are distributed among these distances:
230 17 0.04
231 23 0.05
232 20 0.05
233 69 0.16
235 2 0.00
236 3 0.01
237 4 0.01
238 8 0.02
240 7 0.02
241 63 0.15
242 1 0.00
243 34 0.08
244 56 0.13
245 98 0.23
246 6 0.01
247 6 0.01
248 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (231 bp):
ATTTTTCAATTTCTATTTTTCCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGACA
AATGCCGATGTATTTCTTTTAAATTTCAGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCCTCGGGTCACATCCTGAGGTATTTTTAAATTTCTATTTTTAAAAAATCAACTCATAATGC
AAGAGGTGAGTTGAGCCTCAGATCACATCCTGAGGT
Found at i:44609939 original size:155 final size:153
Alignment explanation
Indices: 44609673--44610049 Score: 400
Period size: 155 Copynumber: 2.4 Consensus size: 153
44609663 CCGAGATATT
* * * *
44609673 TTTTTAAATTTTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
1 TTTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACAA
* * *
44609738 ATCCTGAGGTATTTTTCAGTTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTG
66 ATCCTGAGGTATTTTTAAATTTCAGTTTTTC-AAAAAATCAACTCATAATGCGAGAGGTGAGTTG
*
44609803 AGCCTCAGATCACATCCTGAGGTA
130 AGCCCCAGATCACATCCTGAGGTA
* *
44609827 TTTTTCAATTTCTGTTTTTCAAAATATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGACA
1 TTTTTAAATTTCTATTTTTCAAAA-ATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACA
* * *
44609891 AATGCC-GATGTATTTCTTTTAAATTTCAGTTTTTC-AAAAATCAACTCATATTGCGAGATGTGA
65 AAT-CCTGAGGTA--T-TTTTAAATTTCAGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGA
* * * *
44609954 GTTGAGCCCCGGGTCACATGCTGATGTA
126 GTTGAGCCCCAGATCACATCCTGAGGTA
* * * *
44609982 TTTTTTTTAAATAAAAATTTTCTATTTTTTAAAAATCAACTCATATTACGAGAGGTGGGTTGAGC
1 ----TTTT---T--AAA-TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
44610047 CTC
56 CTC
44610050 AAGTCACACG
Statistics
Matches: 185, Mismatches: 23, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
154 32 0.17
155 84 0.45
156 1 0.01
157 16 0.09
159 4 0.02
162 1 0.01
164 33 0.18
165 14 0.08
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (153 bp):
TTTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACAA
ATCCTGAGGTATTTTTAAATTTCAGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGA
GCCCCAGATCACATCCTGAGGTA
Found at i:44610307 original size:29 final size:30
Alignment explanation
Indices: 44610272--44610370 Score: 130
Period size: 30 Copynumber: 3.4 Consensus size: 30
44610262 TTTTTAAAAA
* *
44610272 AAATTACATTTTGACCCCT-AACTTTTTTG
1 AAATTACATTTTAACCCCTAAACTTTCTTG
*
44610301 AAATTACATTTCAACCCCTAAACTTTCTTG
1 AAATTACATTTTAACCCCTAAACTTTCTTG
* * *
44610331 AAATTACATTTTAACCCTTGAACTTTCTAG
1 AAATTACATTTTAACCCCTAAACTTTCTTG
44610361 -AATTACATTT
1 AAATTACATTT
44610371 GACCCTAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
29 27 0.44
30 35 0.56
ACGTcount: A:0.32, C:0.21, G:0.05, T:0.41
Consensus pattern (30 bp):
AAATTACATTTTAACCCCTAAACTTTCTTG
Found at i:44610796 original size:23 final size:23
Alignment explanation
Indices: 44610752--44610798 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
44610742 GCAAAGAAGC
** * *
44610752 AAAAAAAAAATCGCAAGCAAAAG
1 AAAAAAAAAAGAGAAAGAAAAAG
44610775 AAAAAAAAAAGAGAAAGAAAAAG
1 AAAAAAAAAAGAGAAAGAAAAAG
44610798 A
1 A
44610799 GCAAAGAAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.77, C:0.06, G:0.15, T:0.02
Consensus pattern (23 bp):
AAAAAAAAAAGAGAAAGAAAAAG
Found at i:44610821 original size:17 final size:17
Alignment explanation
Indices: 44610772--44610821 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
44610762 TCGCAAGCAA
*
44610772 AAGAAAAAA-AAAAGAG
1 AAGAAAAAAGAAAAAAG
**
44610788 AA-AGAAAAAGAGCAAAG
1 AAGA-AAAAAGAAAAAAG
44610805 AAGAAAAAAGAAAAAAG
1 AAGAAAAAAGAAAAAAG
44610822 GGGAAAGGGG
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
15 1 0.04
16 7 0.27
17 17 0.65
18 1 0.04
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAGAAAAAAG
Found at i:44610935 original size:7 final size:7
Alignment explanation
Indices: 44610913--44611002 Score: 51
Period size: 7 Copynumber: 12.7 Consensus size: 7
44610903 ACGGAGAAGG
44610913 AAAAAGA
1 AAAAAGA
44610920 AAGAAAGA
1 AA-AAAGA
44610928 AAAAAGA
1 AAAAAGA
44610935 AGAAGAAGA
1 A-AA-AAGA
**
44610944 AGGAAGA
1 AAAAAGA
* *
44610951 AGAAAGGG
1 A-AAAAGA
**
44610959 GGAAAGA
1 AAAAAGA
44610966 AAAAAG-
1 AAAAAGA
44610972 AAAAAG-
1 AAAAAGA
44610978 AAAAAGA
1 AAAAAGA
*
44610985 AAGAA-A
1 AAAAAGA
*
44610991 AAATAGA
1 AAAAAGA
44610998 AAAAA
1 AAAAA
44611003 ATTTTAACAG
Statistics
Matches: 61, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
6 16 0.26
7 29 0.48
8 11 0.18
9 5 0.08
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.01
Consensus pattern (7 bp):
AAAAAGA
Found at i:44610998 original size:13 final size:11
Alignment explanation
Indices: 44610960--44611003 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
44610950 AAGAAAGGGG
*
44610960 GAAAGAAAAAA
1 GAAAAAAAAAA
44610971 GAAAAAGAAAAA
1 GAAAAA-AAAAA
44610983 GAAAGAAAAAATA
1 GAAA-AAAAAA-A
44610996 GAAAAAAA
1 GAAAAAAA
44611004 TTTTAACAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 5 0.17
12 17 0.59
13 7 0.24
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:44611133 original size:24 final size:22
Alignment explanation
Indices: 44611089--44611134 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
44611079 AAAAAAGCAA
*
44611089 AAAAAAAAGAAAGAAGCAGTAG
1 AAAAAAAAGAAAGAAGAAGTAG
44611111 AAAAAAAAGAAAAGAAAGAAGTAG
1 AAAAAAAAG-AAAG-AAGAAGTAG
44611135 CCCAAAACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.43
23 4 0.19
24 8 0.38
ACGTcount: A:0.72, C:0.02, G:0.22, T:0.04
Consensus pattern (22 bp):
AAAAAAAAGAAAGAAGAAGTAG
Found at i:44611141 original size:27 final size:26
Alignment explanation
Indices: 44611087--44611141 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
44611077 AAAAAAAAGC
* *
44611087 AAAAAAAAAAGAAAGAAGCAGTAGAA
1 AAAAAAAAAAGAAAGAAGCAGCACAA
* *
44611113 AAAAAAGAAAAGAAAGAAGTAGCCCAA
1 AAAAAA-AAAAGAAAGAAGCAGCACAA
44611140 AA
1 AA
44611142 CCCAGCGGCC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.71, C:0.07, G:0.18, T:0.04
Consensus pattern (26 bp):
AAAAAAAAAAGAAAGAAGCAGCACAA
Found at i:44611286 original size:35 final size:35
Alignment explanation
Indices: 44611232--44611319 Score: 115
Period size: 35 Copynumber: 2.5 Consensus size: 35
44611222 CCCAGCAGAG
* *
44611232 AAGAAAAAAAAGAGAAAAAAGAAGAAAAAAGAAAA
1 AAGAAAAAAAAAAGAAAAAAGAAAAAAAAAGAAAA
44611267 AAGAAAAAAGAAAAG-AAAAAGAAAAAAAAAGAAAAAA
1 AAGAAAAAA-AAAAGAAAAAAGAAAAAAAAAG--AAAA
*
44611304 AAGAAGAAAAAAAGAA
1 AAGAAAAAAAAAAGAA
44611320 GGAAAAAAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
35 24 0.52
36 9 0.20
37 13 0.28
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (35 bp):
AAGAAAAAAAAAAGAAAAAAGAAAAAAAAAGAAAA
Found at i:44611326 original size:25 final size:22
Alignment explanation
Indices: 44611232--44611329 Score: 114
Period size: 21 Copynumber: 4.5 Consensus size: 22
44611222 CCCAGCAGAG
*
44611232 AAGAAAAAAAAG-AGAAAAAAG
1 AAGAAAAAAAAGAAGAAAAAAA
*
44611253 AAGAAAAAAGAA-AA-AAGAAAA
1 AAGAAAAAA-AAGAAGAAAAAAA
*
44611274 AAGAAAAGAAA-AAGAAAAAAA
1 AAGAAAAAAAAGAAGAAAAAAA
44611295 AAGAAAAAAAAGAAGAAAAAAA
1 AAGAAAAAAAAGAAGAAAAAAA
*
44611317 GAAGGAAAAAAAG
1 -AAGAAAAAAAAG
44611330 GGTTCAATTT
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
20 4 0.06
21 38 0.58
22 13 0.20
23 11 0.17
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (22 bp):
AAGAAAAAAAAGAAGAAAAAAA
Found at i:44611328 original size:1 final size:1
Alignment explanation
Indices: 44611235--44611316 Score: 56
Period size: 1 Copynumber: 82.0 Consensus size: 1
44611225 AGCAGAGAAG
* * * * * * * * * *
44611235 AAAAAAAAGAGAAAAAAGAAGAAAAAAGAAAAAAGAAAAAAGAAAAGAAAAAGAAAAAAAAAGAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
44611300 AAAAAAGAAGAAAAAAA
1 AAAAAAAAAAAAAAAAA
44611317 GAAGGAAAAA
Statistics
Matches: 57, Mismatches: 24, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (1 bp):
A
Found at i:44611328 original size:12 final size:11
Alignment explanation
Indices: 44611230--44611329 Score: 104
Period size: 11 Copynumber: 9.2 Consensus size: 11
44611220 GGCCCAGCAG
44611230 AGAAG-AAAAA
1 AGAAGAAAAAA
44611240 A-AAGAGAAAAA
1 AGAAGA-AAAAA
44611251 AGAAG-AAAAA
1 AGAAGAAAAAA
44611261 AGAA-AAAAGAA
1 AGAAGAAAA-AA
*
44611272 AAAAGAAAAGAA
1 AGAAGAAAA-AA
44611284 A-AAGAAAAAA
1 AGAAGAAAAAA
44611294 A-AAGAAAAAAA
1 AGAAG-AAAAAA
44611305 AGAAGAAAAAA
1 AGAAGAAAAAA
44611316 AGAAGGAAAAAA
1 AGAA-GAAAAAA
44611328 AG
1 AG
44611330 GGTTCAATTT
Statistics
Matches: 80, Mismatches: 1, Indels: 16
0.82 0.01 0.16
Matches are distributed among these distances:
9 3 0.04
10 19 0.24
11 35 0.44
12 23 0.29
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AGAAGAAAAAA
Found at i:44611495 original size:5 final size:5
Alignment explanation
Indices: 44611485--44611511 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
44611475 TACTTATATT
44611485 TTTAA TTTAA TTTAA TTTAA TTTAA TT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TT
44611512 CAAATTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTTAA
Found at i:44611523 original size:5 final size:5
Alignment explanation
Indices: 44611515--44611540 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
44611505 TTTAATTCAA
44611515 ATTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT A
44611541 AATAATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:44611870 original size:18 final size:18
Alignment explanation
Indices: 44611843--44612143 Score: 214
Period size: 17 Copynumber: 16.9 Consensus size: 18
44611833 AATAAAAAAA
*
44611843 TTCGTG-TTTCAAAAATC
1 TTCGTGTTTTCAAAAATT
* *
44611860 TTCATGTTTTCAAAAA-A
1 TTCGTGTTTTCAAAAATT
* *
44611877 TCCG-GTATTTCAAAATTTT
1 TTCGTGT-TTTCAAAA-ATT
*
44611896 TTCGTGTTTTCAACAATT
1 TTCGTGTTTTCAAAAATT
44611914 TTCGTGTTTTCAAAAATT
1 TTCGTGTTTTCAAAAATT
*
44611932 ATT-GTG-TTTCACAAATT
1 -TTCGTGTTTTCAAAAATT
44611949 TTCGTGTTTTCAAAAATT
1 TTCGTGTTTTCAAAAATT
44611967 TTCGTG-TTTCAAAAATT
1 TTCGTGTTTTCAAAAATT
44611984 TTCGTGTTTTCAAAAAAAATT
1 TTCGTGTTTTC---AAAAATT
* *
44612005 CTCGTG-TTTCATAAATT
1 TTCGTGTTTTCAAAAATT
* *
44612022 TCCGTGTTTGCAAAAAATT
1 TTCGTGTTTTC-AAAAATT
** *
44612041 CCCGTCTTTT-AAAAATT
1 TTCGTGTTTTCAAAAATT
* * *
44612058 TTTGCGTTTTAAAAAATT
1 TTCGTGTTTTCAAAAATT
* *
44612076 GCTCGTG-TTTCATAAA-T
1 -TTCGTGTTTTCAAAAATT
44612093 TTCAGTG-TTTCAAAAAATT
1 TTC-GTGTTTTC-AAAAATT
* *
44612112 TTCGTG-CTTCTAAAATT
1 TTCGTGTTTTCAAAAATT
* *
44612129 CTCGT-TTTTTAAAAA
1 TTCGTGTTTTCAAAAA
44612144 AAAATTTGTA
Statistics
Matches: 225, Mismatches: 39, Indels: 40
0.74 0.13 0.13
Matches are distributed among these distances:
16 6 0.03
17 91 0.40
18 78 0.35
19 32 0.14
20 6 0.03
21 12 0.05
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (18 bp):
TTCGTGTTTTCAAAAATT
Found at i:44611901 original size:53 final size:53
Alignment explanation
Indices: 44611843--44611981 Score: 167
Period size: 54 Copynumber: 2.6 Consensus size: 53
44611833 AATAAAAAAA
* * *
44611843 TTCGTG-TTTCAAAAATCTTCATGTTTTCAAAAAATCCGGTATTTCA-AAATTTT
1 TTCGTGTTTTCAAAAATTTTCGTGTTTTCAAAAAATACGGTATTTCACAAA--TT
* * ** *
44611896 TTCGTGTTTTCAACAATTTTCGTGTTTTCAAAAATTATTGTGTTTCACAAATT
1 TTCGTGTTTTCAAAAATTTTCGTGTTTTCAAAAAATACGGTATTTCACAAATT
44611949 TTCGTGTTTTCAAAAATTTTCGTG-TTTCAAAAA
1 TTCGTGTTTTCAAAAATTTTCGTGTTTTCAAAAA
44611982 TTTTCGTGTT
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
52 9 0.12
53 31 0.41
54 32 0.43
55 3 0.04
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (53 bp):
TTCGTGTTTTCAAAAATTTTCGTGTTTTCAAAAAATACGGTATTTCACAAATT
Found at i:44611949 original size:35 final size:34
Alignment explanation
Indices: 44611843--44612144 Score: 209
Period size: 35 Copynumber: 8.5 Consensus size: 34
44611833 AATAAAAAAA
* * **
44611843 TTCGTG-TTTCAAAAATCTTCATGTTTTCAAAAAA
1 TTCGTGTTTTCAAAAATTTTCGTG-TTTCAAAATT
* *
44611877 TCCG-GTATTTCAAAATTTTTTCGTGTTTTCAACAATT
1 TTCGTGT-TTTCAAAA-ATTTTCGTG-TTTCAA-AATT
44611914 TTCGTGTTTTCAAAAATTATT-GTGTTTCACAAATT
1 TTCGTGTTTTCAAAAATT-TTCGTGTTTCA-AAATT
44611949 TTCGTGTTTTCAAAAATTTTCGTGTTTCAAAAATT
1 TTCGTGTTTTCAAAAATTTTCGTGTTTC-AAAATT
*
44611984 TTCGTGTTTTCAAAAAAAATTCTCGTGTTTCATAAATT
1 TTCGTGTTTTC---AAAAATTTTCGTGTTTCA-AAATT
* * ** * *
44612022 TCCGTGTTTGCAAAAAATTCCCGTCTTTTAAAAATT
1 TTCGTGTTTTC-AAAAATTTTCGT-GTTTCAAAATT
* * * *
44612058 TTTGCGTTTTAAAAAATTGCTCGTGTTTCATAAA-T
1 TTCGTGTTTTCAAAAATT-TTCGTGTTTCA-AAATT
*
44612093 TTCAGTG-TTTCAAAAAATTTTCGTGCTTCTAAAATT
1 TTC-GTGTTTTC-AAAAATTTTCGTGTTTC-AAAATT
* * *
44612129 CTCGTTTTTTAAAAAA
1 TTCGTGTTTTCAAAAA
44612145 AAATTTGTAT
Statistics
Matches: 217, Mismatches: 30, Indels: 41
0.75 0.10 0.14
Matches are distributed among these distances:
33 1 0.00
34 5 0.02
35 93 0.43
36 66 0.30
37 20 0.09
38 32 0.15
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (34 bp):
TTCGTGTTTTCAAAAATTTTCGTGTTTCAAAATT
Found at i:44612057 original size:36 final size:35
Alignment explanation
Indices: 44611897--44612144 Score: 214
Period size: 35 Copynumber: 6.9 Consensus size: 35
44611887 CAAAATTTTT
* *
44611897 TCGTGTTTTCAACAATTTTCGTGTTTTC-AAAAATTA
1 TCGTG-TTTCAAAAATTTTCGTG-TTTCAAAAAATTC
* * *
44611933 TTGTGTTTCACAAATTTTCGTGTTTTC-AAAAATTT
1 TCGTGTTTCAAAAATTTTCGTG-TTTCAAAAAATTC
44611968 TCGTGTTTCAAAAATTTTCGTGTTTTCAAAAAAAATTC
1 TCGTGTTTCAAAAATTTTCGTG-TTTC--AAAAAATTC
* *
44612006 TCGTGTTTCATAAATTTCCGTGTTTGCAAAAAATTC
1 TCGTGTTTCAAAAATTTTCGTGTTT-CAAAAAATTC
* * * * * *
44612042 CCGTCTTTTAAAAATTTTTGCGTTTTAAAAAATTGC
1 TCGTGTTTCAAAAATTTTCGTGTTTCAAAAAATT-C
* *
44612078 TCGTGTTTCATAAA-TTTCAGTGTTTCAAAAAATTT
1 TCGTGTTTCAAAAATTTTC-GTGTTTCAAAAAATTC
* * * * *
44612113 TCGTGCTTCTAAAATTCTCGTTTTTTAAAAAA
1 TCGTGTTTCAAAAATTTTCGTGTTTCAAAAAA
44612145 AAATTTGTAT
Statistics
Matches: 174, Mismatches: 31, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
35 85 0.49
36 58 0.33
37 3 0.02
38 28 0.16
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (35 bp):
TCGTGTTTCAAAAATTTTCGTGTTTCAAAAAATTC
Found at i:44612159 original size:72 final size:70
Alignment explanation
Indices: 44611884--44612152 Score: 222
Period size: 71 Copynumber: 3.8 Consensus size: 70
44611874 AAATCCGGTA
** * * ** *
44611884 TTTCAAAATTTTTTCGTG-TTTTCAACAATTTTCGTGTTTTCAAAAATTA-TTGTGTTTCACAAA
1 TTTCAAAAAATTTTCGTGCTTCT-AA-AATTTTCGTGTTTTAAAAAAAAATTTGTGTTTCATAAA
44611947 TTTTCGTG
64 -TTTCGTG
* * *
44611955 TTTTC-AAAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTGTTTCATAA
1 -TTTCAAAAAATTTTCGTGCTTCTAAAATTTTCGTGTTTTAAAAAAAAATT-T-GTGTTTCATAA
44612019 ATTTCCGTG
63 ATTT-CGTG
** * * * **** *
44612028 TTTGCAAAAAATTCCCGT-CTTTTAAAAATTTTTGCGTTTTAAAAAATTGCTCGTGTTTCATAAA
1 TTT-CAAAAAATTTTCGTGCTTCT-AAAATTTTCGTGTTTTAAAAAAAAATTTGTGTTTCATAAA
44612092 TTTCAGTG
64 TTTC-GTG
* *
44612100 TTTCAAAAAATTTTCGTGCTTCTAAAATTCTCGTTTTTTAAAAAAAAATTTGT
1 TTTCAAAAAATTTTCGTGCTTCTAAAATTTTCGTGTTTTAAAAAAAAATTTGT
44612153 ATTTTCAAAA
Statistics
Matches: 155, Mismatches: 32, Indels: 21
0.75 0.15 0.10
Matches are distributed among these distances:
70 21 0.14
71 48 0.31
72 38 0.25
73 18 0.12
74 30 0.19
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (70 bp):
TTTCAAAAAATTTTCGTGCTTCTAAAATTTTCGTGTTTTAAAAAAAAATTTGTGTTTCATAAATT
TCGTG
Found at i:44620903 original size:18 final size:18
Alignment explanation
Indices: 44620877--44620911 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44620867 TTTTGACATC
44620877 TATCACAAGAACAATTTA
1 TATCACAAGAACAATTTA
* *
44620895 TATCTCAAGGACAATTT
1 TATCACAAGAACAATTT
44620912 CCTGCAGGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (18 bp):
TATCACAAGAACAATTTA
Found at i:44627734 original size:9 final size:9
Alignment explanation
Indices: 44627720--44627744 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
44627710 TAATATCATC
44627720 AAAATTAAG
1 AAAATTAAG
44627729 AAAATTAAG
1 AAAATTAAG
44627738 AAAATTA
1 AAAATTA
44627745 TCTTTAAAAA
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (9 bp):
AAAATTAAG
Found at i:44628950 original size:14 final size:14
Alignment explanation
Indices: 44628912--44628954 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
44628902 CAAAATGTAC
44628912 AATATAATTAAA-T
1 AATATAATTAAATT
44628925 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
44628940 AA-ATAATTTAATT
1 AATATAATTAAATT
44628953 AA
1 AA
44628955 CTGTTTACCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:44631084 original size:23 final size:23
Alignment explanation
Indices: 44631049--44631094 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
44631039 GCAATGTGCG
*
44631049 CTTTAGATCGTGTTATTCATCCT
1 CTTTAAATCGTGTTATTCATCCT
* *
44631072 CTTTAAATTGTGTTATTCCTCCT
1 CTTTAAATCGTGTTATTCATCCT
44631095 TTATCAACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.17, C:0.22, G:0.11, T:0.50
Consensus pattern (23 bp):
CTTTAAATCGTGTTATTCATCCT
Found at i:44631702 original size:16 final size:17
Alignment explanation
Indices: 44631671--44631703 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
44631661 AAGCATAATA
44631671 AAATATATTATGAAATTT
1 AAATATATTA-GAAATTT
44631689 AAATATATTA-AAATT
1 AAATATATTAGAAATT
44631704 GAATTAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
18 10 0.67
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
AAATATATTAGAAATTT
Found at i:44631953 original size:20 final size:20
Alignment explanation
Indices: 44631923--44631960 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
44631913 GCTTTACAAT
44631923 AATAAAAAATCT-ACCTTGA
1 AATAAAAAATCTGACCTTGA
44631942 AATAATAAAATCTGACCTT
1 AATAA-AAAATCTGACCTT
44631961 TAAAAAAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 7 0.41
21 5 0.29
ACGTcount: A:0.50, C:0.16, G:0.05, T:0.29
Consensus pattern (20 bp):
AATAAAAAATCTGACCTTGA
Found at i:44638070 original size:24 final size:24
Alignment explanation
Indices: 44638043--44638094 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
44638033 TTAGTAAGTC
*
44638043 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
44638067 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
44638091 AAAT
1 AAAT
44638095 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:44640035 original size:24 final size:24
Alignment explanation
Indices: 44640008--44640059 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
44639998 TTAGTAAGTC
*
44640008 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
44640032 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
44640056 AAAT
1 AAAT
44640060 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:44640317 original size:31 final size:31
Alignment explanation
Indices: 44640280--44640341 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
44640270 CTTGATTTCA
* *
44640280 TGAGGTTTTCAAATTTGGAAGATTCAAAAAG
1 TGAGGTTTTCAAATTTGAAAGATGCAAAAAG
44640311 TGAGGTTTTCAAATTTGAAAGATGCAAAAAG
1 TGAGGTTTTCAAATTTGAAAGATGCAAAAAG
44640342 GGAAATCCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (31 bp):
TGAGGTTTTCAAATTTGAAAGATGCAAAAAG
Found at i:44643565 original size:41 final size:41
Alignment explanation
Indices: 44643350--44643552 Score: 352
Period size: 41 Copynumber: 5.0 Consensus size: 41
44643340 TTATAGTTTA
* *
44643350 ATTCAGTTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
*
44643391 ATTCAATTCACCGGTATTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
*
44643432 ATTCAATTCACCGGTATTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
*
44643473 ATTCAATTCACCGGTATTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
*
44643514 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTC
1 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTC
44643553 TGAATAATTT
Statistics
Matches: 157, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 157 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (41 bp):
ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
Found at i:44644106 original size:48 final size:48
Alignment explanation
Indices: 44644054--44644150 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
44644044 TATATATATA
*
44644054 TTCGGACCTTATGTTTACATATATATTATATATATAAATACCTTTGAT
1 TTCGGACCTTATGTTTACATATAAATTATATATATAAATACCTTTGAT
*
44644102 TTCGGACCTTTTGTTTACATATAAATTATATATATAAATACCTTTGAT
1 TTCGGACCTTATGTTTACATATAAATTATATATATAAATACCTTTGAT
44644150 T
1 T
44644151 AAAAACAAGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.46
Consensus pattern (48 bp):
TTCGGACCTTATGTTTACATATAAATTATATATATAAATACCTTTGAT
Found at i:44645272 original size:13 final size:13
Alignment explanation
Indices: 44645254--44645278 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44645244 CAATCAAATG
44645254 CACACAAAATAAA
1 CACACAAAATAAA
44645267 CACACAAAATAA
1 CACACAAAATAA
44645279 TATTAATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:44658241 original size:21 final size:19
Alignment explanation
Indices: 44658202--44658242 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
44658192 AAAAATTTGT
*
44658202 TAAATTACTTTATATTTAC
1 TAAATTACTTTAAATTTAC
44658221 TAAATTACTTGATAAATTTAC
1 TAAATTACTT--TAAATTTAC
44658242 T
1 T
44658243 TGTTTAGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 10 0.53
21 9 0.47
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (19 bp):
TAAATTACTTTAAATTTAC
Found at i:44658533 original size:26 final size:28
Alignment explanation
Indices: 44658503--44658559 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
44658493 ATTTTATGCA
* *
44658503 ATTTT-AATTT-TAAGTGTATAAAATAT
1 ATTTTAAATTTATAAGTATACAAAATAT
*
44658529 ATTTTAAATTTATAATTATACAAAATAT
1 ATTTTAAATTTATAAGTATACAAAATAT
44658557 ATT
1 ATT
44658560 AGATATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.19
27 5 0.19
28 16 0.62
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.49
Consensus pattern (28 bp):
ATTTTAAATTTATAAGTATACAAAATAT
Found at i:44659288 original size:31 final size:29
Alignment explanation
Indices: 44659250--44659315 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
44659240 ATCTTTAAAC
44659250 TATACATGAACTTTAG-TTTAATGTGCAATTT
1 TATACATGAA-TTTAGATTT--TGTGCAATTT
* *
44659281 TATACATGAATTTTGATTTTGTTCAATTT
1 TATACATGAATTTAGATTTTGTGCAATTT
44659310 TATACA
1 TATACA
44659316 AGAAATTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 15 0.47
30 4 0.12
31 13 0.41
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (29 bp):
TATACATGAATTTAGATTTTGTGCAATTT
Found at i:44659338 original size:30 final size:29
Alignment explanation
Indices: 44659275--44659338 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 29
44659265 GTTTAATGTG
* ** *
44659275 CAATTTTATACATGAATTTTGATTTTGTT
1 CAATTTTATACAAGAATTTTGATTTAATC
*
44659304 CAATTTTATACAAGAAATTTTGGTTTAATC
1 CAATTTTATACAAG-AATTTTGATTTAATC
44659334 CAATT
1 CAATT
44659339 CTCACAAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 13 0.45
30 16 0.55
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.48
Consensus pattern (29 bp):
CAATTTTATACAAGAATTTTGATTTAATC
Found at i:44663706 original size:3 final size:3
Alignment explanation
Indices: 44663691--44663759 Score: 70
Period size: 3 Copynumber: 22.7 Consensus size: 3
44663681 TAATCACTTA
*
44663691 ATT ATT TTT ATT ATT ATT -TGCT ATT ATT ATT ATT ATT ATT ATT -TT
1 ATT ATT ATT ATT ATT ATT AT--T ATT ATT ATT ATT ATT ATT ATT ATT
* *
44663736 ACT ATTT ATT ATT TTT ATT ATT AT
1 ATT A-TT ATT ATT ATT ATT ATT AT
44663760 ATTTGATTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
2 3 0.05
3 48 0.87
4 3 0.05
5 1 0.02
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:44676775 original size:44 final size:44
Alignment explanation
Indices: 44676695--44676792 Score: 101
Period size: 44 Copynumber: 2.2 Consensus size: 44
44676685 GATTGTAAGC
* * * * *
44676695 CTTATCTCCCTAAGTAGTAGTGGAGTAGGCTGAAAATTAC-AGAT
1 CTTATCTTCCTAAGTAATAGTGGAGCAGGCTAAAAATGACGA-AT
* *
44676739 CTTATCTTCCTAAGTAATAGTGGAGCA-GATCAAAAATGGCGAAT
1 CTTATCTTCCTAAGTAATAGTGGAGCAGGCT-AAAAATGACGAAT
44676783 CTTATCTTCC
1 CTTATCTTCC
44676793 CCAGGTAGTA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
43 2 0.04
44 42 0.93
45 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (44 bp):
CTTATCTTCCTAAGTAATAGTGGAGCAGGCTAAAAATGACGAAT
Found at i:44676872 original size:44 final size:44
Alignment explanation
Indices: 44676824--44677026 Score: 241
Period size: 44 Copynumber: 4.6 Consensus size: 44
44676814 TTAAGCCATT
* *
44676824 AGTCCTATCTCCCTGACCAGTAGTGGAATAGGTTGAAGATTGTA
1 AGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTA
** *
44676868 AGTCCTAGATCCCTGAACAGCAGTGGAATAGGTGGAAGATTGTA
1 AGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTA
* *
44676912 AGTCCTAGCTCCCTGAACAGCAATGGAATAGG-TGAAAGATTGTA
1 AGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTG-AAGATTGTA
* * * *
44676956 TGTCCTATCTCCCTAAACAACAATGGAATAGGTTGAAGATTGT-
1 AGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTA
* *
44676999 AGATCCTGTCTCCCT-AAGCAGTAGTGGA
1 AG-TCCTATCTCCCTGAA-CAGCAGTGGA
44677027 GCAGGTCGAA
Statistics
Matches: 138, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
43 4 0.03
44 132 0.96
45 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.26
Consensus pattern (44 bp):
AGTCCTATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTA
Found at i:44678605 original size:3 final size:3
Alignment explanation
Indices: 44678597--44678649 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
44678587 TAATTACTTA
** *
44678597 ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT CCT ATTT ATT ATT GTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
44678642 ATT ATT AT
1 ATT ATT AT
44678650 ATTTGATTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.91
4 2 0.05
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:44678681 original size:39 final size:41
Alignment explanation
Indices: 44678598--44678705 Score: 102
Period size: 41 Copynumber: 2.7 Consensus size: 41
44678588 AATTACTTAA
* * *
44678598 TTATTATTATTATTATTATTATTATTTTCCTATTTATTATTG
1 TTATTATTA-TATTATGATTATTATTTACCTATATATTATTG
44678640 TTATTATTATATT-TGATTA-TATTTACCTATATA-TATGTG
1 TTATTATTATATTATGATTATTATTTACCTATATATTAT-TG
44678679 TTACTTTATTAT-TTACT-ATTATT-TTTA
1 TTA--TTATTATATTA-TGATTATTATTTA
44678706 GACTGTTTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
38 3 0.05
39 17 0.30
40 7 0.12
41 19 0.33
42 11 0.19
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.63
Consensus pattern (41 bp):
TTATTATTATATTATGATTATTATTTACCTATATATTATTG
Found at i:44687084 original size:46 final size:45
Alignment explanation
Indices: 44686984--44687144 Score: 272
Period size: 45 Copynumber: 3.6 Consensus size: 45
44686974 TTTGAGTACT
*
44686984 TCTGATCAAGTGACAAAGTGATAAGTGGTAACCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
*
44687029 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
44687075 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
*
44687120 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
44687145 ATCATACGTA
Statistics
Matches: 111, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
43 12 0.11
44 5 0.05
45 50 0.45
46 44 0.40
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
Found at i:44688195 original size:57 final size:59
Alignment explanation
Indices: 44688092--44688207 Score: 175
Period size: 57 Copynumber: 2.0 Consensus size: 59
44688082 GGTAAAAAGG
*
44688092 ATCTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGTGTGAAAAAA
1 ATCTAGCCCGGACGAGTGATCC-AT-CTGATATAGCCCTCCCGAAGAATATGTG-GAAAAAA
44688154 ATCTAGCCCGGACGAGTGAT-C-T-TGATATAGCCCTCCCGAAGAATATGTGGAAAA
1 ATCTAGCCCGGACGAGTGATCCATCTGATATAGCCCTCCCGAAGAATATGTGGAAAA
44688208 TAGATTTAGC
Statistics
Matches: 53, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
56 5 0.09
57 27 0.51
59 1 0.02
61 1 0.02
62 19 0.36
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.22
Consensus pattern (59 bp):
ATCTAGCCCGGACGAGTGATCCATCTGATATAGCCCTCCCGAAGAATATGTGGAAAAAA
Found at i:44688475 original size:67 final size:67
Alignment explanation
Indices: 44688367--44688493 Score: 227
Period size: 67 Copynumber: 1.9 Consensus size: 67
44688357 TATTACAAGG
* *
44688367 GATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCTTGGAG
1 GATTTAGCCTGAACTGGTAATCCCACTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCTTGGAG
44688432 GA
66 GA
*
44688434 GATTTAGCCTGAATTGGTAATCCCACTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCT
1 GATTTAGCCTGAACTGGTAATCCCACTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCT
44688494 AGATTGAAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 57 1.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.28
Consensus pattern (67 bp):
GATTTAGCCTGAACTGGTAATCCCACTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCTTGGAG
GA
Found at i:44690026 original size:24 final size:22
Alignment explanation
Indices: 44689999--44690053 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 22
44689989 ATTTAGCTAC
44689999 TTATTTGTTATCTTTTTACTTTA
1 TTATTT-TTATCTTTTTACTTTA
* *
44690022 TTTATATTTTATGTTTTTATTTTA
1 -TTAT-TTTTATCTTTTTACTTTA
44690046 TTATTTTT
1 TTATTTTT
44690054 TGGATAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 4 0.14
23 4 0.14
24 18 0.64
25 2 0.07
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (22 bp):
TTATTTTTATCTTTTTACTTTA
Found at i:44705341 original size:81 final size:81
Alignment explanation
Indices: 44705206--44705367 Score: 315
Period size: 81 Copynumber: 2.0 Consensus size: 81
44705196 CTCATGCAAT
*
44705206 AACATGCTGAAATGGATAAAACTATATAATTAGATGATGTATGTATATAGAAGGATAGGAACCTA
1 AACATGCTGAAATGGATAAAACTATATAATTAGATGATGTATGTATATACAAGGATAGGAACCTA
44705271 CTTGATAATGTGATCC
66 CTTGATAATGTGATCC
44705287 AACATGCTGAAATGGATAAAACTATATAATTAGATGATGTATGTATATACAAGGATAGGAACCTA
1 AACATGCTGAAATGGATAAAACTATATAATTAGATGATGTATGTATATACAAGGATAGGAACCTA
44705352 CTTGATAATGTGATCC
66 CTTGATAATGTGATCC
44705368 GACCCTGCCA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.30
Consensus pattern (81 bp):
AACATGCTGAAATGGATAAAACTATATAATTAGATGATGTATGTATATACAAGGATAGGAACCTA
CTTGATAATGTGATCC
Found at i:44706246 original size:112 final size:112
Alignment explanation
Indices: 44706025--44706248 Score: 405
Period size: 113 Copynumber: 2.0 Consensus size: 112
44706015 CACTGCTGTT
* *
44706025 TCTGGGGTTTTTTTTAACTTGAAATATGCAATCATTGGACACATTATCAACTAGTTTCTCGAATG
1 TCTGGGGTTTTTTTTAACTTGAAATATGCAATCATAGGACACATTATCAACTAGTTTCCCGAATG
44706090 TTGTTTTGGAAACAAAACCTTATCACTTTCCAAGTTTTGAGTTTAGA
66 TTGTTTTGGAAACAAAACCTTATCACTTTCCAAGTTTTGAGTTTAGA
*
44706137 TCTGGGGTTTTTTTTAACTTGAAATATGCAATCATAGTGACACATTATCAACTAGTTTCCCTAAT
1 TCTGGGGTTTTTTTTAACTTGAAATATGCAATCATAG-GACACATTATCAACTAGTTTCCCGAAT
44706202 GTTGTTTTGGAAACAAAACCTTATCACTTTCCAAG-TTTGAGTTTAGA
65 GTTGTTTTGGAAACAAAACCTTATCACTTTCCAAGTTTTGAGTTTAGA
44706249 GAAATTTACG
Statistics
Matches: 108, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
112 48 0.44
113 60 0.56
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (112 bp):
TCTGGGGTTTTTTTTAACTTGAAATATGCAATCATAGGACACATTATCAACTAGTTTCCCGAATG
TTGTTTTGGAAACAAAACCTTATCACTTTCCAAGTTTTGAGTTTAGA
Found at i:44714656 original size:16 final size:16
Alignment explanation
Indices: 44714635--44714667 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
44714625 TTCGCTGTAT
44714635 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
44714651 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
44714667 T
1 T
44714668 AGCAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:44714918 original size:16 final size:16
Alignment explanation
Indices: 44714881--44714922 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
44714871 TTAATCATAT
*
44714881 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
44714897 TT-AAATATATTATAA
1 TTAAAATATATTATAA
44714912 TTAAAATATAT
1 TTAAAATATAT
44714923 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:44714929 original size:14 final size:15
Alignment explanation
Indices: 44714890--44714931 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
44714880 TTTAAACATA
*
44714890 ATTATTATTAAATAT
1 ATTATAATTAAATAT
44714905 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
44714919 A-TATAATTTAATA
1 ATTATAATTAAATA
44714932 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:44715024 original size:120 final size:120
Alignment explanation
Indices: 44714879--44715332 Score: 714
Period size: 120 Copynumber: 3.9 Consensus size: 120
44714869 ATTTAATCAT
44714879 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
44714944 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
*
44715000 ATTTAACATAATTATTATTCAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
44715065 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
44715120 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
44715185 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* * * * *
44715240 ATTTNA-TTAA--A-TA-T-AAT-T-TAATAA-T--GATATATAATTTCATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
* * *
44715294 TAAAATGTTCTTATATGAATTTACTAAAATCATAATATA
66 T-TAATATTCTTATATGAATTTACTCAAATCATAATATA
44715333 ACTTAAGAAT
Statistics
Matches: 320, Mismatches: 12, Indels: 13
0.93 0.03 0.04
Matches are distributed among these distances:
109 28 0.09
110 34 0.11
111 1 0.00
112 5 0.02
113 1 0.00
114 3 0.01
115 1 0.00
116 2 0.01
117 1 0.00
119 3 0.01
120 237 0.74
121 4 0.01
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
Found at i:44715160 original size:16 final size:16
Alignment explanation
Indices: 44715117--44715162 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
44715107 ACTATAAAAG
*
44715117 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
44715133 ATTATT-AAATATATT
1 ATAATTAAAATATATT
44715148 ATAATTAAAATATAT
1 ATAATTAAAATATAT
44715163 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:44715169 original size:14 final size:15
Alignment explanation
Indices: 44715117--44715171 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
44715107 ACTATAAAAG
44715117 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
44715133 ATTATTAAATATATT
1 ATAATTAAATATATT
44715148 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
44715161 ATAATTTAATA
1 ATAATTAAATA
44715172 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:44718479 original size:16 final size:16
Alignment explanation
Indices: 44718454--44718484 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44718444 TACCAAATAC
44718454 TTGTTGTTTAATCAAG
1 TTGTTGTTTAATCAAG
*
44718470 TTGTTTTTTAATCAA
1 TTGTTGTTTAATCAA
44718485 TCATAATAAC
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:0.26, C:0.06, G:0.13, T:0.55
Consensus pattern (16 bp):
TTGTTGTTTAATCAAG
Found at i:44718568 original size:64 final size:64
Alignment explanation
Indices: 44718497--44718617 Score: 233
Period size: 64 Copynumber: 1.9 Consensus size: 64
44718487 ATAATAACAA
*
44718497 TGAATATTTGTTTTTTAATCAAGTTGTTTACTTGATTATATCTAATGATCCAATTTTAATATAT
1 TGAATATTTGTTTTTTAATCAAGTTGTTTACTTGATTATATCTAATGATCAAATTTTAATATAT
44718561 TGAATATTTGTTTTTTAATCAAGTTGTTTACTTGATTATATCTAATGATCAAATTTT
1 TGAATATTTGTTTTTTAATCAAGTTGTTTACTTGATTATATCTAATGATCAAATTTT
44718618 TATTTTATTT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.52
Consensus pattern (64 bp):
TGAATATTTGTTTTTTAATCAAGTTGTTTACTTGATTATATCTAATGATCAAATTTTAATATAT
Found at i:44718737 original size:24 final size:26
Alignment explanation
Indices: 44718685--44718734 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
44718675 TATATGTAAT
44718685 ATTATTAAAATAATATTTTTAATTTTA
1 ATTATTAAAATAATATTTTTAA-TTTA
*
44718712 ATTATTTAAA-AATATTTTTAATT
1 ATTATTAAAATAATATTTTTAATT
44718735 AATGCGTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 11 0.50
27 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
ATTATTAAAATAATATTTTTAATTTA
Found at i:44719164 original size:61 final size:61
Alignment explanation
Indices: 44719069--44719221 Score: 297
Period size: 61 Copynumber: 2.5 Consensus size: 61
44719059 CTTCCAATAG
44719069 AAATTGTAATGATTCAAGTAGCTAAAATTAACAATAATAGCAATTGTTTTAACACTTACCC
1 AAATTGTAATGATTCAAGTAGCTAAAATTAACAATAATAGCAATTGTTTTAACACTTACCC
44719130 AAATTGTAATGATTCAAGTAGCTAAAATTAACAATAATAGCAATTGTTTTAACACTTACCC
1 AAATTGTAATGATTCAAGTAGCTAAAATTAACAATAATAGCAATTGTTTTAACACTTACCC
*
44719191 AAATTATAATGATTCAAGTAGCTAAAATTAA
1 AAATTGTAATGATTCAAGTAGCTAAAATTAA
44719222 AAAAATACTT
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
61 91 1.00
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (61 bp):
AAATTGTAATGATTCAAGTAGCTAAAATTAACAATAATAGCAATTGTTTTAACACTTACCC
Found at i:44731236 original size:23 final size:23
Alignment explanation
Indices: 44731210--44731254 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
44731200 GAGAAGAAGC
44731210 TGAAGTGCAACGAGAGCCTCCTG
1 TGAAGTGCAACGAGAGCCTCCTG
44731233 TGAAGTGCAACGAGAGCCTCCT
1 TGAAGTGCAACGAGAGCCTCCT
44731255 ATAGTTATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.27, G:0.29, T:0.18
Consensus pattern (23 bp):
TGAAGTGCAACGAGAGCCTCCTG
Found at i:44735507 original size:2 final size:2
Alignment explanation
Indices: 44735500--44735526 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
44735490 TTTGAGAAAA
44735500 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
44735527 ATAATGAATA
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:44735610 original size:19 final size:18
Alignment explanation
Indices: 44735586--44735623 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
44735576 TCACACACAC
44735586 AAAAACAAAAAATAAAGAA
1 AAAAACAAAAAA-AAAGAA
44735605 AAAAACAAAAAAAAAGAA
1 AAAAACAAAAAAAAAGAA
44735623 A
1 A
44735624 GAGCAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.87, C:0.05, G:0.05, T:0.03
Consensus pattern (18 bp):
AAAAACAAAAAAAAAGAA
Found at i:44735614 original size:18 final size:19
Alignment explanation
Indices: 44735586--44735623 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
44735576 TCACACACAC
*
44735586 AAAAACAAAAAATAAAGAA
1 AAAAACAAAAAAAAAAGAA
44735605 AAAAAC-AAAAAAAAAGAA
1 AAAAACAAAAAAAAAAGAA
44735623 A
1 A
44735624 GAGCAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.87, C:0.05, G:0.05, T:0.03
Consensus pattern (19 bp):
AAAAACAAAAAAAAAAGAA
Found at i:44735642 original size:17 final size:17
Alignment explanation
Indices: 44735591--44735640 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
44735581 CACACAAAAA
* *
44735591 CAAAAAATAAAGAAAAAAA
1 CAAAAAA-AAAG-AAAGAG
44735610 CAAAAAAAAAGAAAGAG
1 CAAAAAAAAAGAAAGAG
44735627 CAAAAAAAGAAGAA
1 CAAAAAAA-AAGAA
44735641 GATAAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 12 0.43
18 9 0.32
19 7 0.25
ACGTcount: A:0.80, C:0.06, G:0.12, T:0.02
Consensus pattern (17 bp):
CAAAAAAAAAGAAAGAG
Found at i:44739369 original size:25 final size:21
Alignment explanation
Indices: 44739270--44739383 Score: 88
Period size: 21 Copynumber: 5.2 Consensus size: 21
44739260 TTGTTACTAA
*
44739270 ATTTGTTATTTTAAATTGATT
1 ATTTGTTGTTTTAAATTGATT
* * * *
44739291 -TTTCTTCTTCTTTGAATCGATT
1 ATTTGTT-GT-TTTAAATTGATT
*
44739313 GTTTGTTGTTTTAAATTGATT
1 ATTTGTTGTTTTAAATTGATT
44739334 ATTTGCTT-TTTTAAATTGATT
1 ATTTG-TTGTTTTAAATTGATT
**
44739355 CATTATTGTTGTTTTAAATCAATT
1 -A-T-TTGTTGTTTTAAATTGATT
44739379 ATTTG
1 ATTTG
44739384 CTTCTTTGAA
Statistics
Matches: 74, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
20 5 0.07
21 31 0.42
22 15 0.20
23 9 0.12
24 14 0.19
ACGTcount: A:0.23, C:0.06, G:0.11, T:0.60
Consensus pattern (21 bp):
ATTTGTTGTTTTAAATTGATT
Found at i:44739372 original size:45 final size:45
Alignment explanation
Indices: 44739272--44739460 Score: 183
Period size: 45 Copynumber: 4.3 Consensus size: 45
44739262 GTTACTAAAT
* * * * * *
44739272 TTGTTATTTTAAATTGATTTTTCTTCTTCTTTGAATCGATT--GT-
1 TTGTTGTTTTAAATCGATTATT-TGCTTCTTTGAATTGATTCATTA
* * *
44739315 TTGTTGTTTTAAATTGATTATTTGCTTTTTTAAATTGATTCATTA
1 TTGTTGTTTTAAATCGATTATTTGCTTCTTTGAATTGATTCATTA
* * *
44739360 TTGTTGTTTTAAATCAATTATTTGCTTCTTTGAATCGATTCATGA
1 TTGTTGTTTTAAATCGATTATTTGCTTCTTTGAATTGATTCATTA
* * *
44739405 TTGCTGTTTTGAATCGATTCTTTGCTTCTTTGAATTGATT--TT-
1 TTGTTGTTTTAAATCGATTATTTGCTTCTTTGAATTGATTCATTA
*
44739447 TTTTTGTTTTAAAT
1 TTGTTGTTTTAAAT
44739461 TTATTCATTA
Statistics
Matches: 121, Mismatches: 22, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
42 25 0.21
43 21 0.17
44 1 0.01
45 74 0.61
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.58
Consensus pattern (45 bp):
TTGTTGTTTTAAATCGATTATTTGCTTCTTTGAATTGATTCATTA
Found at i:44739436 original size:21 final size:21
Alignment explanation
Indices: 44739371--44739444 Score: 78
Period size: 21 Copynumber: 3.4 Consensus size: 21
44739361 TGTTGTTTTA
* *
44739371 AATCAATTATTTGCTTCTTTG
1 AATCGATTCTTTGCTTCTTTG
44739392 AATCGATTCATGATTGCTGT-TTTG
1 AATCGATTC-T--TTGCT-TCTTTG
44739416 AATCGATTCTTTGCTTCTTTG
1 AATCGATTCTTTGCTTCTTTG
*
44739437 AATTGATT
1 AATCGATT
44739445 TTTTTTTGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
20 1 0.02
21 23 0.51
22 1 0.02
23 1 0.02
24 18 0.40
25 1 0.02
ACGTcount: A:0.22, C:0.14, G:0.15, T:0.50
Consensus pattern (21 bp):
AATCGATTCTTTGCTTCTTTG
Found at i:44745313 original size:22 final size:22
Alignment explanation
Indices: 44745285--44745340 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
44745275 TCTTATAGTC
*
44745285 TTGTATTTTCTTTCCTTAA-CTA
1 TTGTATTTTCTCTCCTTAATC-A
* *
44745307 TTTTATTTTCTCTCTTTAATCA
1 TTGTATTTTCTCTCCTTAATCA
44745329 TTGTATTTTCTC
1 TTGTATTTTCTC
44745341 CTTAAATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.16, C:0.18, G:0.04, T:0.62
Consensus pattern (22 bp):
TTGTATTTTCTCTCCTTAATCA
Found at i:44753817 original size:10 final size:11
Alignment explanation
Indices: 44753800--44753932 Score: 74
Period size: 11 Copynumber: 12.9 Consensus size: 11
44753790 GGCCCATTTT
44753800 TATTTTAAAAA
1 TATTTTAAAAA
44753811 T-TTTT-AAAA
1 TATTTTAAAAA
*
44753820 -ATTTAAAAAA
1 TATTTTAAAAA
44753830 GTATTTTAAAAA
1 -TATTTTAAAAA
44753842 TATTTT--AAA
1 TATTTTAAAAA
**
44753851 -ATTAAAAAAA
1 TATTTTAAAAA
***
44753861 TA-AAAAAAAA
1 TATTTTAAAAA
44753871 GTATTTTAAAAA
1 -TATTTTAAAAA
44753883 TATTTT--AAA
1 TATTTTAAAAA
44753892 -A--TTAAAAA
1 TATTTTAAAAA
* **
44753900 AATTAAAAAAA
1 TATTTTAAAAA
44753911 GTATTTTAAAAA
1 -TATTTTAAAAA
44753923 TATTTTAAAA
1 TATTTTAAAA
44753933 TTTAAAAAAA
Statistics
Matches: 94, Mismatches: 13, Indels: 30
0.69 0.09 0.22
Matches are distributed among these distances:
6 2 0.02
8 7 0.07
9 14 0.15
10 18 0.19
11 31 0.33
12 22 0.23
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:44753838 original size:31 final size:31
Alignment explanation
Indices: 44753800--44753860 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
44753790 GGCCCATTTT
*
44753800 TATTTTAAAAAT-TTTTAAAAATTTAAAAAAG
1 TATTTTAAAAATATTTT-AAAATTAAAAAAAG
44753831 TATTTTAAAAATATTTTAAAATTAAAAAAA
1 TATTTTAAAAATATTTTAAAATTAAAAAAA
44753861 TAAAAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 24 0.86
32 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (31 bp):
TATTTTAAAAATATTTTAAAATTAAAAAAAG
Found at i:44753869 original size:41 final size:40
Alignment explanation
Indices: 44753824--44753985 Score: 254
Period size: 40 Copynumber: 4.0 Consensus size: 40
44753814 TTAAAAATTT
44753824 AAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATAAA
1 AAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAT-AA
*
44753865 AAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTA
1 AAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATAA
*
44753905 AAAAAAGTATTTTAAAAATATTTTAAAATTTAAAAAAAT-T
1 AAAAAAGTATTTTAAAAATATTTTAAAA-TTAAAAAAATAA
* * *
44753945 AAAAAAGTATGTAAAAAATATTTTAAAATTTAAAAAATAA
1 AAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATAA
44753985 A
1 A
44753986 TATATTTATT
Statistics
Matches: 113, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
39 9 0.08
40 56 0.50
41 48 0.42
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (40 bp):
AAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATAA
Found at i:44761152 original size:18 final size:18
Alignment explanation
Indices: 44761129--44761165 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
44761119 TTTTATATGT
* *
44761129 TATAAATTATATGATATA
1 TATAAATAATATAATATA
44761147 TATAAATAATATAATATA
1 TATAAATAATATAATATA
44761165 T
1 T
44761166 TATGATCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
TATAAATAATATAATATA
Found at i:44770997 original size:22 final size:23
Alignment explanation
Indices: 44770972--44771015 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
44770962 TTTAATGATT
44770972 TAAAATAGTTT-AATAATTTAAA
1 TAAAATAGTTTAAATAATTTAAA
**
44770994 TAAAATTTTTTAAATAATTTAA
1 TAAAATAGTTTAAATAATTTAA
44771016 TAATATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TAAAATAGTTTAAATAATTTAAA
Found at i:44773725 original size:17 final size:18
Alignment explanation
Indices: 44773699--44773738 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
44773689 GGGAAAACTT
44773699 TTTTTCAATAAGGTTAAA
1 TTTTTCAATAAGGTTAAA
44773717 TTTTT-AATAAGGTTAAA
1 TTTTTCAATAAGGTTAAA
44773734 TTTTT
1 TTTTT
44773739 TTTAGGTGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.35, C:0.03, G:0.10, T:0.53
Consensus pattern (18 bp):
TTTTTCAATAAGGTTAAA
Found at i:44773845 original size:41 final size:41
Alignment explanation
Indices: 44773797--44773878 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
44773787 AATATTACAA
* *
44773797 TAACCTACACTAATCAGATTTTAAGTGGGAAAATAATAAAT
1 TAACCTACACTAATCAAATTTTAAGTGGGAAAATAAAAAAT
* *
44773838 TAACCTACCCTAATCAAATTTTAAGTGGGAAACTAAAAAAT
1 TAACCTACACTAATCAAATTTTAAGTGGGAAAATAAAAAAT
44773879 AGAGTTTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (41 bp):
TAACCTACACTAATCAAATTTTAAGTGGGAAAATAAAAAAT
Found at i:44789804 original size:28 final size:28
Alignment explanation
Indices: 44789764--44789822 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
44789754 ATTTATAGAC
44789764 TAAATTTGTAGGTCAAATAATATTAAAA
1 TAAATTTGTAGGTCAAATAATATTAAAA
44789792 TAAATTTGTAGGTCAAATAATATTAAAA
1 TAAATTTGTAGGTCAAATAATATTAAAA
44789820 TAA
1 TAA
44789823 CCTACACTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (28 bp):
TAAATTTGTAGGTCAAATAATATTAAAA
Found at i:44795204 original size:23 final size:23
Alignment explanation
Indices: 44795173--44795234 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
44795163 ACTAAGGTGG
44795173 AATTCATTCTGGCA-TTATGATGC
1 AATTCATTCTGGCACTT-TGATGC
* *
44795196 GATTCATTCTGGCACTTTGGTGC
1 AATTCATTCTGGCACTTTGATGC
*
44795219 AATTCATTCTGACACT
1 AATTCATTCTGGCACT
44795235 ACGGTATAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 32 0.94
24 2 0.06
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.39
Consensus pattern (23 bp):
AATTCATTCTGGCACTTTGATGC
Found at i:44800424 original size:24 final size:25
Alignment explanation
Indices: 44800392--44800438 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
44800382 AAATAAGATT
* *
44800392 AAAAGATATAAAGTAA-AAATAACA
1 AAAAAATATAAAATAAGAAATAACA
44800416 AAAAAATATAAAATAAGAAATAA
1 AAAAAATATAAAATAAGAAATAA
44800439 GGTTAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.17
Consensus pattern (25 bp):
AAAAAATATAAAATAAGAAATAACA
Found at i:44800446 original size:26 final size:25
Alignment explanation
Indices: 44800381--44800447 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
44800371 CAAATGATGT
*
44800381 AAAATAAGATTAAAAGATATAAAGTA
1 AAAATAAGATTAAAA-ATATAAAATA
* *
44800407 AAAATAACA-AAAAAATATAAAATA
1 AAAATAAGATTAAAAATATAAAATA
*
44800431 AGAAATAAGGTTAAAAA
1 A-AAATAAGATTAAAAA
44800448 ACCTTAAACT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 10 0.30
25 10 0.30
26 13 0.39
ACGTcount: A:0.70, C:0.01, G:0.09, T:0.19
Consensus pattern (25 bp):
AAAATAAGATTAAAAATATAAAATA
Found at i:44800574 original size:26 final size:26
Alignment explanation
Indices: 44800543--44800598 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
44800533 TCTCTTTCAT
* *
44800543 ATAATATATACTATTATATATAAATA
1 ATAATATATACTACTATATATAAAAA
*
44800569 ATAATATATATTACTATATATAAAAA
1 ATAATATATACTACTATATATAAAAA
44800595 ATAA
1 ATAA
44800599 AAAAAATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (26 bp):
ATAATATATACTACTATATATAAAAA
Found at i:44800588 original size:28 final size:29
Alignment explanation
Indices: 44800545--44800625 Score: 85
Period size: 30 Copynumber: 2.8 Consensus size: 29
44800535 TCTTTCATAT
*
44800545 AATATA-TACTATTATATATAAAT-AATAA
1 AATATATTACTA-TATATATAAATAAAAAA
* *
44800573 TATATATTACTATATATAAAAAATAAAAAA
1 AATATATTACTATATAT-ATAAATAAAAAA
* *
44800603 AATATATTATTATATAAATAAAT
1 AATATATTACTATATATATAAAT
44800626 TTAAACTATA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
28 10 0.23
29 15 0.35
30 18 0.42
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.38
Consensus pattern (29 bp):
AATATATTACTATATATATAAATAAAAAA
Found at i:44800624 original size:32 final size:33
Alignment explanation
Indices: 44800562--44800624 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
44800552 ACTATTATAT
* *
44800562 ATAAATAATAATATATATTACTATATATAAAAA
1 ATAAATAAAAATATATATTACTATAAATAAAAA
44800595 ATAAA-AAAAATATATTATTA-TATAAATAAA
1 ATAAATAAAAATATA-TATTACTATAAATAAA
44800625 TTTAAACTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 17 0.63
33 10 0.37
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (33 bp):
ATAAATAAAAATATATATTACTATAAATAAAAA
Found at i:44804081 original size:14 final size:14
Alignment explanation
Indices: 44804062--44804089 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
44804052 TATGATATAC
44804062 AAAAATAATAATAA
1 AAAAATAATAATAA
44804076 AAAAATAATAATAA
1 AAAAATAATAATAA
44804090 GGGTGAAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAATAATAATAA
Found at i:44806472 original size:22 final size:23
Alignment explanation
Indices: 44806444--44806553 Score: 80
Period size: 22 Copynumber: 4.7 Consensus size: 23
44806434 TTTGTTTGTT
44806444 GCCTTTGTGGCGTACTCTA-ATA
1 GCCTTTGTGGCGTACTCTATATA
** * * * *
44806466 GCCTTTGTGGTATATGTTGTATGTT
1 GCCTTTGTGGCGTA--CTCTATATA
*
44806491 GCCTTTGTGGCGTACTCT-GATA
1 GCCTTTGTGGCGTACTCTATATA
* * *
44806513 GCCTTTGTGGCGTATTTTATATGTT
1 GCCTTTGTGGCGTACTCTATA--TA
44806538 GCCTTTGTGGCGTACT
1 GCCTTTGTGGCGTACT
44806554 TTGATAAGTC
Statistics
Matches: 64, Mismatches: 18, Indels: 9
0.70 0.20 0.10
Matches are distributed among these distances:
22 29 0.45
23 3 0.05
24 3 0.05
25 29 0.45
ACGTcount: A:0.13, C:0.17, G:0.26, T:0.44
Consensus pattern (23 bp):
GCCTTTGTGGCGTACTCTATATA
Found at i:44806547 original size:25 final size:25
Alignment explanation
Indices: 44806419--44806551 Score: 91
Period size: 25 Copynumber: 5.6 Consensus size: 25
44806409 ATTTTATTTG
* * * *
44806419 GCCTTTATGGCATATTTTGTTTGTT
1 GCCTTTGTGGCGTATTTTATATGTT
* * *
44806444 GCCTTTGTGGCGTACTCTA-A--TA
1 GCCTTTGTGGCGTATTTTATATGTT
** * *
44806466 GCCTTTGTGGTATATGTTGTATGTT
1 GCCTTTGTGGCGTATTTTATATGTT
* *
44806491 GCCTTTGTGGCGTACTCTGATA----
1 GCCTTTGTGGCGTA-TTTTATATGTT
44806513 GCCTTTGTGGCGTATTTTATATGTT
1 GCCTTTGTGGCGTATTTTATATGTT
44806538 GCCTTTGTGGCGTA
1 GCCTTTGTGGCGTA
44806552 CTTTGATAAG
Statistics
Matches: 79, Mismatches: 21, Indels: 16
0.68 0.18 0.14
Matches are distributed among these distances:
21 5 0.06
22 28 0.35
23 1 0.01
25 41 0.52
26 4 0.05
ACGTcount: A:0.13, C:0.16, G:0.26, T:0.46
Consensus pattern (25 bp):
GCCTTTGTGGCGTATTTTATATGTT
Found at i:44806559 original size:47 final size:47
Alignment explanation
Indices: 44806419--44806559 Score: 210
Period size: 47 Copynumber: 3.0 Consensus size: 47
44806409 ATTTTATTTG
* * *
44806419 GCCTTTATGGCATATTTTGTTTGTTGCCTTTGTGGCGTACTCTAATA
1 GCCTTTGTGGCATATTTTGTATGTTGCCTTTGTGGCGTACTCTGATA
* *
44806466 GCCTTTGTGGTATATGTTGTATGTTGCCTTTGTGGCGTACTCTGATA
1 GCCTTTGTGGCATATTTTGTATGTTGCCTTTGTGGCGTACTCTGATA
* * *
44806513 GCCTTTGTGGCGTATTTTATATGTTGCCTTTGTGGCGTACTTTGATA
1 GCCTTTGTGGCATATTTTGTATGTTGCCTTTGTGGCGTACTCTGATA
44806560 AGTCTATGTT
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 84 1.00
ACGTcount: A:0.13, C:0.16, G:0.25, T:0.46
Consensus pattern (47 bp):
GCCTTTGTGGCATATTTTGTATGTTGCCTTTGTGGCGTACTCTGATA
Found at i:44818068 original size:14 final size:14
Alignment explanation
Indices: 44818034--44818062 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
44818024 AGTAGATTTA
44818034 ACTATACTAAAATG
1 ACTATACTAAAATG
44818048 ACTATACTAAAATG
1 ACTATACTAAAATG
44818062 A
1 A
44818063 TGATACATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.28
Consensus pattern (14 bp):
ACTATACTAAAATG
Found at i:44831851 original size:18 final size:21
Alignment explanation
Indices: 44831820--44831912 Score: 61
Period size: 24 Copynumber: 4.5 Consensus size: 21
44831810 ACAAAAGAAG
*
44831820 AATTC-AAATAATTT-T-CAA
1 AATTCAAAATAATTTATAAAA
44831838 AATTCAAAAT-ATTTATAAAA
1 AATTCAAAATAATTTATAAAA
* *
44831858 AATTCAAAATTTATATTATTTAAA
1 AATTCAAAA-TAAT-TTA-TAAAA
* * *
44831882 AATTCTAAAGAATATATAAAA
1 AATTCAAAATAATTTATAAAA
44831903 AAGTT-AAAAT
1 AA-TTCAAAAT
44831913 TTTAAAATTT
Statistics
Matches: 58, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
18 9 0.16
19 5 0.09
20 11 0.19
21 10 0.17
22 6 0.10
23 5 0.09
24 12 0.21
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (21 bp):
AATTCAAAATAATTTATAAAA
Found at i:44831877 original size:27 final size:26
Alignment explanation
Indices: 44831833--44831883 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
44831823 TCAAATAATT
44831833 TTCAAAATTCAAAATATTTATAAAAAA
1 TTCAAAATTCAAAATATTTA-AAAAAA
* * *
44831860 TTCAAAATTTATATTATTTAAAAA
1 TTCAAAATTCAAAATATTTAAAAA
44831884 TTCTAAAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.19
27 17 0.81
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (26 bp):
TTCAAAATTCAAAATATTTAAAAAAA
Found at i:44834699 original size:35 final size:36
Alignment explanation
Indices: 44834659--44834746 Score: 142
Period size: 36 Copynumber: 2.4 Consensus size: 36
44834649 TATAATTTTT
44834659 AAAATTCTAAAATTTATACA-TTTTTTAAAATCTTA
1 AAAATTCTAAAATTTATACATTTTTTTAAAATCTTA
*
44834694 AAAATTCTAAAATTTATACATTTTTTTAAAATTTTA
1 AAAATTCTAAAATTTATACATTTTTTTAAAATCTTA
*
44834730 AAAATTTTAAAAATTTA
1 AAAATTCT-AAAATTTA
44834747 AAGAATATAT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
35 20 0.41
36 21 0.43
37 8 0.16
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.47
Consensus pattern (36 bp):
AAAATTCTAAAATTTATACATTTTTTTAAAATCTTA
Found at i:44834728 original size:8 final size:8
Alignment explanation
Indices: 44834655--44834748 Score: 53
Period size: 8 Copynumber: 10.9 Consensus size: 8
44834645 TTAATATAAT
44834655 TTTTAAAA
1 TTTTAAAA
*
44834663 TTCTAAAA
1 TTTTAAAA
**
44834671 TTTATACATT
1 TTT-TA-AAA
44834681 TTTTAAAA
1 TTTTAAAA
*
44834689 TCTTAAAAA
1 T-TTTAAAA
*
44834698 TTCTAAAA
1 TTTTAAAA
**
44834706 TTTATACATTT
1 TTT-TA-A-AA
44834717 TTTTAAAA
1 TTTTAAAA
44834725 TTTTAAAAA
1 TTTT-AAAA
44834734 TTTTAAAA
1 TTTTAAAA
*
44834742 ATTTAAA
1 TTTTAAA
44834749 GAATATATAA
Statistics
Matches: 64, Mismatches: 15, Indels: 14
0.69 0.16 0.15
Matches are distributed among these distances:
8 32 0.50
9 22 0.34
10 7 0.11
11 3 0.05
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (8 bp):
TTTTAAAA
Found at i:44834733 original size:9 final size:9
Alignment explanation
Indices: 44834638--44834745 Score: 60
Period size: 9 Copynumber: 11.9 Consensus size: 9
44834628 AAAATTACAA
44834638 AAAAATTTT
1 AAAAATTTT
44834647 AATATAATTTT
1 AA-A-AATTTT
* *
44834658 TAAAATTCT
1 AAAAATTTT
44834667 -AAAA-TTT
1 AAAAATTTT
* *
44834674 ATACATTTTT
1 A-AAAATTTT
* *
44834684 TAAAATCTT
1 AAAAATTTT
*
44834693 AAAAATTCT
1 AAAAATTTT
44834702 -AAAATTTAT
1 AAAAATTT-T
* **
44834711 ACATTTTTT
1 AAAAATTTT
*
44834720 TAAAATTTT
1 AAAAATTTT
44834729 AAAAATTTT
1 AAAAATTTT
44834738 AAAAATTT
1 AAAAATTT
44834746 AAAGAATATA
Statistics
Matches: 71, Mismatches: 21, Indels: 14
0.67 0.20 0.13
Matches are distributed among these distances:
7 2 0.03
8 10 0.14
9 43 0.61
10 9 0.13
11 7 0.10
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (9 bp):
AAAAATTTT
Found at i:44840122 original size:13 final size:13
Alignment explanation
Indices: 44840074--44840122 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
44840064 TGTTTTTGGG
44840074 AAGTATTTTTAAA
1 AAGTATTTTTAAA
* *
44840087 AAATATTTTGAAA
1 AAGTATTTTTAAA
*
44840100 AAGTGA-TTTTAAG
1 AAGT-ATTTTTAAA
44840113 AAGTATTTTT
1 AAGTATTTTT
44840123 GTAATTTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 1 0.03
13 27 0.93
14 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (13 bp):
AAGTATTTTTAAA
Found at i:44844796 original size:27 final size:25
Alignment explanation
Indices: 44844759--44844811 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
44844749 GTAATTGATT
* **
44844759 ATGATGAATGAGTTTATTATTTTGA
1 ATGATGAATGAATTTAAAATTTTGA
44844784 ATGATGATTATGAATTTAAAATTTTGA
1 ATGATGA--ATGAATTTAAAATTTTGA
44844811 A
1 A
44844812 ATTATGTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
27 16 0.70
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (25 bp):
ATGATGAATGAATTTAAAATTTTGA
Found at i:44854778 original size:24 final size:24
Alignment explanation
Indices: 44854751--44854808 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
44854741 AAGAGCCTAT
*
44854751 AACGGGTAGCTCCGAAGAGTAATG
1 AACGGGTAGCTCCGAAGAGCAATG
* *
44854775 AACGGGTAGCTCTGAAGAGCAATT
1 AACGGGTAGCTCCGAAGAGCAATG
44854799 AACGGGTAGC
1 AACGGGTAGC
44854809 ACCGGATAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.17
Consensus pattern (24 bp):
AACGGGTAGCTCCGAAGAGCAATG
Found at i:44861396 original size:27 final size:29
Alignment explanation
Indices: 44861359--44861424 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
44861349 GACGTGATAA
* *
44861359 GTGTGTGTGAATTGTGCATTTAATTTTGT
1 GTGTGTGTGAATTGTGCATTAAATGTTGT
44861388 GTGTGTGAATGAATTGTGCATTAAA-GTT-T
1 GTGTGTG--TGAATTGTGCATTAAATGTTGT
44861417 GTGTGTGT
1 GTGTGTGT
44861425 ATGTGTTTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 1 0.03
29 15 0.45
30 2 0.06
31 15 0.45
ACGTcount: A:0.20, C:0.03, G:0.30, T:0.47
Consensus pattern (29 bp):
GTGTGTGTGAATTGTGCATTAAATGTTGT
Found at i:44861401 original size:31 final size:29
Alignment explanation
Indices: 44861359--44861424 Score: 96
Period size: 31 Copynumber: 2.2 Consensus size: 29
44861349 GACGTGATAA
* *
44861359 GTGTGTGTGAATTGTGCATTTAATTTTGT
1 GTGTGTGTGAATTGTGCATTAAAGTTTGT
44861388 GTGTGTGAATGAATTGTGCATTAAAGTTTGT
1 GTGTGTG--TGAATTGTGCATTAAAGTTTGT
44861419 GTGTGT
1 GTGTGT
44861425 ATGTGTTTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 7 0.21
31 26 0.79
ACGTcount: A:0.20, C:0.03, G:0.30, T:0.47
Consensus pattern (29 bp):
GTGTGTGTGAATTGTGCATTAAAGTTTGT
Found at i:44862329 original size:26 final size:26
Alignment explanation
Indices: 44862280--44862329 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
44862270 GTTGACTGGA
*
44862280 AAACCTTCTTTTACTGTTTGTGATTT
1 AAACCTTCTTTTACTCTTTGTGATTT
* *
44862306 AAACCTTCTTTTATTCTTTTTGAT
1 AAACCTTCTTTTACTCTTTGTGAT
44862330 CGAGACATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (26 bp):
AAACCTTCTTTTACTCTTTGTGATTT
Found at i:44863147 original size:27 final size:26
Alignment explanation
Indices: 44863104--44863273 Score: 150
Period size: 27 Copynumber: 6.3 Consensus size: 26
44863094 TGCGAATCAT
*
44863104 GGTAAAATTATTGAAATACCTTCGAAA
1 GGTAAAATTATCGAAATACC-TCGAAA
* * * *
44863131 GGTAAAATTACCAAAATACCCCCGAAG
1 GGTAAAATTATCGAAATA-CCTCGAAA
44863158 GGTAAAATTATCGAAATATCCTC-AAA
1 GGTAAAATTATCGAAATA-CCTCGAAA
*
44863184 GGGTAAAATTATTGAAATAACCTC-AAA
1 -GGTAAAATTATCGAAAT-ACCTCGAAA
44863211 GGGTAAAATTA-CTGAAATACAC-CTGAAA
1 -GGTAAAATTATC-GAAATAC-CTC-GAAA
* *
44863239 GGTAAAATTATCGAAATACCCTTGAAG
1 GGTAAAATTATCGAAATA-CCTCGAAA
44863266 GGTAAAAT
1 GGTAAAAT
44863274 AACTTTTATA
Statistics
Matches: 119, Mismatches: 14, Indels: 20
0.78 0.09 0.13
Matches are distributed among these distances:
26 5 0.04
27 106 0.89
28 8 0.07
ACGTcount: A:0.45, C:0.15, G:0.16, T:0.24
Consensus pattern (26 bp):
GGTAAAATTATCGAAATACCTCGAAA
Found at i:44863168 original size:54 final size:53
Alignment explanation
Indices: 44863104--44863273 Score: 200
Period size: 54 Copynumber: 3.2 Consensus size: 53
44863094 TGCGAATCAT
* * *
44863104 GGTAAAATTATTGAAATACCTTCGAAAGGTAAAATTACCAAAATACCCCCGAAG
1 GGTAAAATTATTGAAATACC-TCGAAAGGTAAAATTATCGAAATACCCTCGAAG
* * * *
44863158 GGTAAAATTATCGAAATATCCTC-AAAGGGTAAAATTATTGAAATAACCTCAAAG
1 GGTAAAATTATTGAAATA-CCTCGAAA-GGTAAAATTATCGAAATACCCTCGAAG
* *
44863212 GGTAAAATTACTGAAATACAC-CTGAAAGGTAAAATTATCGAAATACCCTTGAAG
1 GGTAAAATTATTGAAATAC-CTC-GAAAGGTAAAATTATCGAAATACCCTCGAAG
44863266 GGTAAAAT
1 GGTAAAAT
44863274 AACTTTTATA
Statistics
Matches: 98, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
53 5 0.05
54 88 0.90
55 5 0.05
ACGTcount: A:0.45, C:0.15, G:0.16, T:0.24
Consensus pattern (53 bp):
GGTAAAATTATTGAAATACCTCGAAAGGTAAAATTATCGAAATACCCTCGAAG
Found at i:44863243 original size:81 final size:81
Alignment explanation
Indices: 44863104--44863273 Score: 236
Period size: 81 Copynumber: 2.1 Consensus size: 81
44863094 TGCGAATCAT
* *
44863104 GGTAAAATTATTGAAATACCTTCGAAAGGTAAAATTACCAAAATACCCCCGAAGGGTAAAATTAT
1 GGTAAAATTATTGAAATACCTTCGAAAGGTAAAATTACCAAAATACACCCGAAAGGTAAAATTAT
*
44863169 CGAAATATCCTCAAAG
66 CGAAATACCCTCAAAG
** *
44863185 GGTAAAATTATTGAAATAACC-TC-AAAGGGTAAAATTACTGAAATACACCTGAAAGGTAAAATT
1 GGTAAAATTATTGAAAT-ACCTTCGAAA-GGTAAAATTACCAAAATACACCCGAAAGGTAAAATT
**
44863248 ATCGAAATACCCTTGAAG
64 ATCGAAATACCCTCAAAG
44863266 GGTAAAAT
1 GGTAAAAT
44863274 AACTTTTATA
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
80 3 0.04
81 73 0.92
82 3 0.04
ACGTcount: A:0.45, C:0.15, G:0.16, T:0.24
Consensus pattern (81 bp):
GGTAAAATTATTGAAATACCTTCGAAAGGTAAAATTACCAAAATACACCCGAAAGGTAAAATTAT
CGAAATACCCTCAAAG
Found at i:44864114 original size:20 final size:20
Alignment explanation
Indices: 44864089--44864127 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
44864079 TTCCAAACTT
44864089 AAGAAACGAGTTTGATCAAC
1 AAGAAACGAGTTTGATCAAC
* *
44864109 AAGAAATGAGTTTTATCAA
1 AAGAAACGAGTTTGATCAA
44864128 AAAGTCTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.26
Consensus pattern (20 bp):
AAGAAACGAGTTTGATCAAC
Found at i:44870819 original size:27 final size:27
Alignment explanation
Indices: 44870781--44871058 Score: 321
Period size: 27 Copynumber: 10.3 Consensus size: 27
44870771 AGCGAATCAT
*
44870781 GGTAAAATTACTAAAATACCCTCGAAA
1 GGTAAAATTACTAAAATACCCTCGAAG
*
44870808 GGTAAAATTACTGAAATACCCTCGAAG
1 GGTAAAATTACTAAAATACCCTCGAAG
*
44870835 GGTAAAATTAC-AGAAATAACCTCGAAG
1 GGTAAAATTACTA-AAATACCCTCGAAG
* *
44870862 GGTAAAATTACCAAAATACCTTCGAAG
1 GGTAAAATTACTAAAATACCCTCGAAG
* *
44870889 GGTATAATTACTAAAATACCCTCAAAG
1 GGTAAAATTACTAAAATACCCTCGAAG
* * * *
44870916 GGTAAAATTACTGAAATTCCCCCGAAT
1 GGTAAAATTACTAAAATACCCTCGAAG
* **
44870943 GGAAAAATTACCGAAATACCCTCGAAG
1 GGTAAAATTACTAAAATACCCTCGAAG
* *
44870970 GGTAAAATTA-TCGATATACCCTCGAAG
1 GGTAAAATTACT-AAAATACCCTCGAAG
*
44870997 GGTAAAATTACCAAAATACCC-CTGAAG
1 GGTAAAATTACTAAAATACCCTC-GAAG
* *
44871024 GGTAAAATTA-TCGAAATACCCTTGAAG
1 GGTAAAATTACT-AAAATACCCTCGAAG
44871051 GGTAAAAT
1 GGTAAAAT
44871059 AACTTTTATA
Statistics
Matches: 214, Mismatches: 30, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.00
27 212 0.99
28 1 0.00
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.22
Consensus pattern (27 bp):
GGTAAAATTACTAAAATACCCTCGAAG
Found at i:44871283 original size:26 final size:26
Alignment explanation
Indices: 44871236--44871307 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 26
44871226 TTGCCACATA
* *
44871236 TACTGTTACTGGCAGCCCTGTTGCAT
1 TACTATTACTGGCAGCTCTGTTGCAT
* *
44871262 TACTATTACTGGCAGCTTTGTTGCGT
1 TACTATTACTGGCAGCTCTGTTGCAT
* * *
44871288 CATTATTAGTGGCAGCTCTG
1 TACTATTACTGGCAGCTCTG
44871308 CTACGATATT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.38
Consensus pattern (26 bp):
TACTATTACTGGCAGCTCTGTTGCAT
Found at i:44871989 original size:20 final size:20
Alignment explanation
Indices: 44871961--44872000 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
44871951 CAAACTTAAA
*
44871961 AAACTAGTTTTATCAACAAG
1 AAACGAGTTTTATCAACAAG
44871981 AAACGAGTTTTATCAACAAG
1 AAACGAGTTTTATCAACAAG
44872001 TTTAAGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (20 bp):
AAACGAGTTTTATCAACAAG
Found at i:44876035 original size:20 final size:20
Alignment explanation
Indices: 44875996--44876057 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 20
44875986 AAAATAGGAA
44875996 AATTTTATTTCTACTAATTTAGGC
1 AATTTTATTT-T--TAATTTA-GC
* *
44876020 ATTTTTA-TTTTAATTTTAGT
1 AATTTTATTTTTAA-TTTAGC
44876040 AATTTTATTTTTAATTTA
1 AATTTTATTTTTAATTTA
44876058 ACTTTTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
20 14 0.42
21 10 0.30
22 1 0.03
23 2 0.06
24 6 0.18
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (20 bp):
AATTTTATTTTTAATTTAGC
Found at i:44879712 original size:28 final size:28
Alignment explanation
Indices: 44879669--44879725 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
44879659 CCTTTCTCTG
*
44879669 GTTAGCACTTACTGATCTGTTAGTATTT
1 GTTAGCACTTAATGATCTGTTAGTATTT
*
44879697 GTTAGCACTTAATGATCTTTTAGTATTT
1 GTTAGCACTTAATGATCTGTTAGTATTT
44879725 G
1 G
44879726 ATGCTAGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.23, C:0.12, G:0.18, T:0.47
Consensus pattern (28 bp):
GTTAGCACTTAATGATCTGTTAGTATTT
Found at i:44880734 original size:20 final size:20
Alignment explanation
Indices: 44880709--44880748 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
44880699 AATATTTTCC
44880709 AGTAAAACATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
* *
44880729 AGTAAAGCATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
44880749 TCATTTTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.25
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Done.