Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 104 of 216
Found at i:32704269 original size:14 final size:13
Alignment explanation
Indices: 32704247--32704296 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
32704237 TCGAAACAAA
*
32704247 TTCAAAAAAAATT
1 TTCAAAAAAAAAT
32704260 TTCAAAAAAAAAT
1 TTCAAAAAAAAAT
*
32704273 TTGAAAAAAAAA-
1 TTCAAAAAAAAAT
32704285 TTCAAAAAAAAA
1 TTCAAAAAAAAA
32704297 ATTAGTTTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
12 11 0.32
13 23 0.68
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.22
Consensus pattern (13 bp):
TTCAAAAAAAAAT
Found at i:32704296 original size:13 final size:13
Alignment explanation
Indices: 32704244--32704299 Score: 69
Period size: 13 Copynumber: 4.4 Consensus size: 13
32704234 TCTTCGAAAC
32704244 AAATTCAAAAAAA
1 AAATTCAAAAAAA
**
32704257 ATTTTC-AAAAAA
1 AAATTCAAAAAAA
**
32704269 AAATTTGAAAAAA
1 AAATTCAAAAAAA
32704282 AAATTCAAAAAAA
1 AAATTCAAAAAAA
32704295 AAATT
1 AAATT
32704300 AGTTTCCATT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
12 9 0.26
13 26 0.74
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (13 bp):
AAATTCAAAAAAA
Found at i:32704358 original size:15 final size:15
Alignment explanation
Indices: 32704338--32704375 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
32704328 TATCAAGTTG
32704338 AAAAAAAATTCGTGA
1 AAAAAAAATTCGTGA
32704353 AAAAAAAATTCGTGA
1 AAAAAAAATTCGTGA
32704368 AAAAAAAA
1 AAAAAAAA
32704376 GAAGAAGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.68, C:0.05, G:0.11, T:0.16
Consensus pattern (15 bp):
AAAAAAAATTCGTGA
Found at i:32705324 original size:18 final size:17
Alignment explanation
Indices: 32705303--32705347 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
32705293 GAGTGACGAG
32705303 AGAAAAAGAAACTGAAAA
1 AGAAAAA-AAACTGAAAA
*
32705321 AGAAATAAAAATTGAAAA
1 AGAAA-AAAAACTGAAAA
32705339 AGAGAAAAA
1 AGA-AAAAA
32705348 GATTGGAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.73, C:0.02, G:0.16, T:0.09
Consensus pattern (17 bp):
AGAAAAAAAACTGAAAA
Found at i:32705352 original size:18 final size:18
Alignment explanation
Indices: 32705301--32705352 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
32705291 AAGAGTGACG
*
32705301 AGAGAAAAAGAAACTGAAAA
1 AGAGAAAAAG--ATTGAAAA
*
32705321 AGA-AATAAAAATTGAAAA
1 AGAGAA-AAAGATTGAAAA
32705339 AGAGAAAAAGATTG
1 AGAGAAAAAGATTG
32705353 GAGAAAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 17 0.63
19 4 0.15
20 6 0.22
ACGTcount: A:0.67, C:0.02, G:0.19, T:0.12
Consensus pattern (18 bp):
AGAGAAAAAGATTGAAAA
Found at i:32708812 original size:21 final size:21
Alignment explanation
Indices: 32708786--32708827 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
32708776 TTTTCCTAAG
32708786 ATGTGAAATGGATTAAATTGA
1 ATGTGAAATGGATTAAATTGA
* * *
32708807 ATGTGAATTGTATTGAATTGA
1 ATGTGAAATGGATTAAATTGA
32708828 GTTAAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (21 bp):
ATGTGAAATGGATTAAATTGA
Found at i:32709297 original size:26 final size:28
Alignment explanation
Indices: 32709260--32709333 Score: 86
Period size: 26 Copynumber: 2.8 Consensus size: 28
32709250 ACACACCTTA
*
32709260 GCTCTT-ATGAGCGTCCCGATAT-A-TG
1 GCTCTTCATGAGCTTCCCGATATAATTG
*
32709285 GCTCTTCATGAGCTTCCTGAT-TAATTG
1 GCTCTTCATGAGCTTCCCGATATAATTG
*
32709312 GCTC-CCATGAGCTTCCCGATAT
1 GCTCTTCATGAGCTTCCCGATAT
32709334 GGCTCGCTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 7 0.17
26 27 0.66
27 7 0.17
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.34
Consensus pattern (28 bp):
GCTCTTCATGAGCTTCCCGATATAATTG
Found at i:32712482 original size:58 final size:58
Alignment explanation
Indices: 32712392--32712502 Score: 195
Period size: 58 Copynumber: 1.9 Consensus size: 58
32712382 GTGAAATTAT
* * *
32712392 CAAATAAACCTTGACTCACTATTTAACGAGATAGGAACCAAAGGTATAGCAAAATCAA
1 CAAATAAACCTTGACCCACTATCTAACGAGATAAGAACCAAAGGTATAGCAAAATCAA
32712450 CAAATAAACCTTGACCCACTATCTAACGAGATAAGAACCAAAGGTATAGCAAA
1 CAAATAAACCTTGACCCACTATCTAACGAGATAAGAACCAAAGGTATAGCAAA
32712503 CGCCACACTT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.47, C:0.21, G:0.14, T:0.19
Consensus pattern (58 bp):
CAAATAAACCTTGACCCACTATCTAACGAGATAAGAACCAAAGGTATAGCAAAATCAA
Found at i:32720183 original size:72 final size:73
Alignment explanation
Indices: 32720029--32720176 Score: 219
Period size: 72 Copynumber: 2.0 Consensus size: 73
32720019 GCAGGTACAT
* * *
32720029 GGACAGCATTTAAAGAGAAAAGTTGCTGTTGCATTTTTTCAAGCTGCCGAATTTAATGTGTCGAT
1 GGACAGCATTTAAAGAGAAAAGTTGATGTTGCATTTTTCCAAGCTGCCAAATTTAATGTGTCGAT
32720094 GGGACTTG
66 GGGACTTG
* *
32720102 GGACAGCATTTAAAGAG-AAGGTTGATGTTGCCTTTTTCCAAGCTGCCAAATTTAATGTGT-GCA
1 GGACAGCATTTAAAGAGAAAAGTTGATGTTGCATTTTTCCAAGCTGCCAAATTTAATGTGTCG-A
*
32720165 TGGGATTTG
65 TGGGACTTG
32720174 GGA
1 GGA
32720177 TGGCATTAAG
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 1 0.01
72 50 0.74
73 17 0.25
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (73 bp):
GGACAGCATTTAAAGAGAAAAGTTGATGTTGCATTTTTCCAAGCTGCCAAATTTAATGTGTCGAT
GGGACTTG
Found at i:32720203 original size:72 final size:72
Alignment explanation
Indices: 32720029--32720211 Score: 217
Period size: 72 Copynumber: 2.5 Consensus size: 72
32720019 GCAGGTACAT
* * * *
32720029 GGACAGCATTTAAAGAGAAAAGTTGCTGTTGCATTTTTTCAAGCTGCCGAATTTAATGTGTCGAT
1 GGACAGCATTTAAAGAG-AAGGCTGCTGTTGCATTTTTCCAAGCTGCCAAATTTAATGTGTCGAT
32720094 GGGACTTG
65 GGGACTTG
* * *
32720102 GGACAGCATTTAAAGAGAAGGTTGATGTTGCCTTTTTCCAAGCTGCCAAATTTAATGTGT-GCAT
1 GGACAGCATTTAAAGAGAAGGCTGCTGTTGCATTTTTCCAAGCTGCCAAATTTAATGTGTCG-AT
*
32720166 GGGATTTG
65 GGGACTTG
** * *
32720174 GGATGGCA-TTAAGGGAGGAGGCTGCTGTTGCATTTTTC
1 GGACAGCATTTAA-AGAGAAGGCTGCTGTTGCATTTTTC
32720212 TGAGCTGATT
Statistics
Matches: 95, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
71 5 0.05
72 73 0.77
73 17 0.18
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (72 bp):
GGACAGCATTTAAAGAGAAGGCTGCTGTTGCATTTTTCCAAGCTGCCAAATTTAATGTGTCGATG
GGACTTG
Found at i:32722553 original size:33 final size:33
Alignment explanation
Indices: 32722485--32722556 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
32722475 AGAAAACAAA
*
32722485 AGTGGAAAAGAAAAAGAGCCTAAAAAGAAATCG
1 AGTGAAAAAGAAAAAGAGCCTAAAAAGAAATCG
* * *
32722518 AGTGAAAAAGAAAGAGAGTCTGTAAAAGAAA-CG
1 AGTGAAAAAGAAAAAGAGCCT-AAAAAGAAATCG
32722551 AGTGAA
1 AGTGAA
32722557 GAGAGTAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 26 0.76
34 8 0.24
ACGTcount: A:0.56, C:0.07, G:0.26, T:0.11
Consensus pattern (33 bp):
AGTGAAAAAGAAAAAGAGCCTAAAAAGAAATCG
Found at i:32727868 original size:72 final size:72
Alignment explanation
Indices: 32727750--32727939 Score: 292
Period size: 72 Copynumber: 2.6 Consensus size: 72
32727740 GCAGGTACAT
32727750 GGACGGCATTTAAAGAGAAAGGTTGCTGCTGCATTTTTCCAAGCTGCCAAATTTAATGTGTGCAT
1 GGACGGCATTTAAAGAG-AAGGTTGCTGCTGCATTTTTCCAAGCTGCCAAATTTAATGTGTGCAT
32727815 GGGACTTG
65 GGGACTTG
* *
32727823 GGACGGCATTTAAAGAGAAGGTTGCTGCTACCTTTTTCCAAGCTGCCAAATTTAATGTGTGCATG
1 GGACGGCATTTAAAGAGAAGGTTGCTGCTGCATTTTTCCAAGCTGCCAAATTTAATGTGTGCATG
*
32727888 GGATTTG
66 GGACTTG
* * * *
32727895 GGACGGCA-TTAAGAGAGGAGGCTGCTGTTGCATTTTTCTAAGCTG
1 GGACGGCATTTAA-AGAGAAGGTTGCTGCTGCATTTTTCCAAGCTG
32727940 ATTATTCAAC
Statistics
Matches: 107, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
71 4 0.04
72 86 0.80
73 17 0.16
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (72 bp):
GGACGGCATTTAAAGAGAAGGTTGCTGCTGCATTTTTCCAAGCTGCCAAATTTAATGTGTGCATG
GGACTTG
Found at i:32734050 original size:19 final size:20
Alignment explanation
Indices: 32734026--32734063 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
32734016 TGAGCTGGTT
32734026 GGAGCTGAAA-TGAGCTAAG
1 GGAGCTGAAATTGAGCTAAG
32734045 GGAGCTGAAATTGAGCTAA
1 GGAGCTGAAATTGAGCTAA
32734064 AATCAGCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.37, C:0.11, G:0.34, T:0.18
Consensus pattern (20 bp):
GGAGCTGAAATTGAGCTAAG
Found at i:32739451 original size:121 final size:122
Alignment explanation
Indices: 32739225--32739721 Score: 297
Period size: 131 Copynumber: 3.9 Consensus size: 122
32739215 TATTGTTTAC
* *
32739225 TTTATATATCATGAAAAATCTTATTTGAGTTAGCTGATTTAAGATCGCTACTCCAAATAGTTCGC
1 TTTATATATCATGAAAAATCTTATTTGAGTTAGCTGATTTAAGATCGCTACTCCAAACAATTCGC
* *** *
32739290 TGATTTAATATCACAGTTGATATCATTGAGATTCGCTGATTTAATATCATTTGTTGA
66 TGATTTAAGATCACAGCCAATATCATTAAGATTCGCTGATTTAATATCATTTGTTGA
* * * *
32739347 TTTA-ATATCATGAACAATCTTATTTTAGTTAGTTGATTTAAGAGT-GCTACTCCAAACAATTTG
1 TTTATATATCATGAAAAATCTTATTTGAGTTAGCTGATTTAAGA-TCGCTACTCCAAACAATTCG
* ** * * * * *
32739410 TTGATTTAAGATTGCAGCCAATATCATTAAGGTTTGTTGATTTAAGATTACAACCTAAGTTCATT
65 CTGATTTAAGATCACAGCCAATATCATTAAGATTCGCTGATTTAATA-T-C-A--T---TT-GTT
*
32739475 CAA
121 -GA
** * * * *
32739478 TTTA-ATATTGTGAACAATCTTATTTGAGTTCA-TTGATTTAATACCGCTACTCCAAAC-ATCTC
1 TTTATATATCATGAAAAATCTTATTTGAGTT-AGCTGATTTAAGATCGCTACTCCAAACAAT-TC
* ** * * * ** *
32739540 GATGATTTAAGATCACAAG-TGATATCGTTAAGGTTCACAAATTTAAGATCACAAACTAAGTTCA
64 GCTGATTTAAGATCAC-AGCCAATATCATTAAGATTCGCTGATTTAATAT--C--A-T---TT--
*
32739604 TTTGA
118 GTTGA
* * * * * *
32739609 TTTA-ACATCATGAACAATCTTATTTGAGTTAGTTGATTTAAGATCGCTACTCCAAAAAACTCGT
1 TTTATATATCATGAAAAATCTTATTTGAGTTAGCTGATTTAAGATCGCTACTCCAAACAATTCGC
*** * * *
32739673 TGATTTAAGATCACAGTTGATATCGTTAAGGTTCACTGATTTAATATCA
66 TGATTTAAGATCACAGCCAATATCATTAAGATTCGCTGATTTAATATCA
32739722 CAACCTAAGT
Statistics
Matches: 303, Mismatches: 51, Indels: 37
0.77 0.13 0.09
Matches are distributed among these distances:
121 86 0.28
122 6 0.02
123 1 0.00
124 1 0.00
126 1 0.00
127 1 0.00
129 3 0.01
130 8 0.03
131 188 0.62
132 8 0.03
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (122 bp):
TTTATATATCATGAAAAATCTTATTTGAGTTAGCTGATTTAAGATCGCTACTCCAAACAATTCGC
TGATTTAAGATCACAGCCAATATCATTAAGATTCGCTGATTTAATATCATTTGTTGA
Found at i:32739584 original size:131 final size:131
Alignment explanation
Indices: 32739345--32739778 Score: 521
Period size: 131 Copynumber: 3.3 Consensus size: 131
32739335 ATCATTTGTT
* ** * * *
32739345 GATTTAATATCATGAACAATCTTATTTTAGTTAGTTGATTTAAGAGTGCTACTCCAAACAATTTG
1 GATTTAATATCATGAACAATCTTATTTGAGTTAGTTGATTTAAGACCGCTACTCCAAAAAACTCG
* ** *** * ***** *
32739410 TTGATTTAAGATTGCAGCCAATATCATTAAGGTTTGTTGATTTAAGATTACAACCTAAGTTCATT
66 ATGATTTAAGATCACAGTTGATATCGTTAAGGTTCACAAATTTAAGATCACAACCTAAGTTCATT
32739475 C
131 C
* ** * * *
32739476 AATTTAATATTGTGAACAATCTTATTTGAGTTCA-TTGATTTAATACCGCTACTCCAAACATCTC
1 GATTTAATATCATGAACAATCTTATTTGAGTT-AGTTGATTTAAGACCGCTACTCCAAAAAACTC
*
32739540 GATGATTTAAGATCACAAG-TGATATCGTTAAGGTTCACAAATTTAAGATCACAAACTAAGTTCA
65 GATGATTTAAGATCAC-AGTTGATATCGTTAAGGTTCACAAATTTAAGATCACAACCTAAGTTCA
*
32739604 TTT
129 TTC
* *
32739607 GATTTAACATCATGAACAATCTTATTTGAGTTAGTTGATTTAAGATCGCTACTCCAAAAAACTCG
1 GATTTAATATCATGAACAATCTTATTTGAGTTAGTTGATTTAAGACCGCTACTCCAAAAAACTCG
* ** *
32739672 TTGATTTAAGATCACAGTTGATATCGTTAAGGTTCACTGATTTAATATCACAACCTAAGTTCATT
66 ATGATTTAAGATCACAGTTGATATCGTTAAGGTTCACAAATTTAAGATCACAACCTAAGTTCATT
32739737 C
131 C
* *
32739738 GATTTAATATCATGAACAATCTCATTTGTGTTAGTTGATTT
1 GATTTAATATCATGAACAATCTTATTTGAGTTAGTTGATTT
32739779 TCCAATCGCT
Statistics
Matches: 258, Mismatches: 41, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
130 3 0.01
131 252 0.98
132 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.38
Consensus pattern (131 bp):
GATTTAATATCATGAACAATCTTATTTGAGTTAGTTGATTTAAGACCGCTACTCCAAAAAACTCG
ATGATTTAAGATCACAGTTGATATCGTTAAGGTTCACAAATTTAAGATCACAACCTAAGTTCATT
C
Found at i:32741169 original size:20 final size:20
Alignment explanation
Indices: 32741141--32741184 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
32741131 ATTTCAAAAT
32741141 TTTAAAGTT-GGTATCGATAA
1 TTTAAAGTTGGGTATCGAT-A
*
32741161 TTTACAGTTGGGTATCGATA
1 TTTAAAGTTGGGTATCGATA
32741181 TTTA
1 TTTA
32741185 TTTTCTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (20 bp):
TTTAAAGTTGGGTATCGATA
Found at i:32756941 original size:17 final size:17
Alignment explanation
Indices: 32756915--32756965 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
32756905 TATTTTCCTT
*
32756915 CTTTCTATTTTTCTATC
1 CTTTCAATTTTTCTATC
32756932 CTTTCAATTTTTC-AT-
1 CTTTCAATTTTTCTATC
*
32756947 CTTTCCAATTTTCCTATC
1 CTTT-CAATTTTTCTATC
32756965 C
1 C
32756966 ACTCTACCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
15 4 0.14
16 10 0.34
17 14 0.48
18 1 0.03
ACGTcount: A:0.16, C:0.27, G:0.00, T:0.57
Consensus pattern (17 bp):
CTTTCAATTTTTCTATC
Found at i:32759916 original size:12 final size:12
Alignment explanation
Indices: 32759899--32759923 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32759889 TGTTTGACAT
32759899 AATTTGCAAATG
1 AATTTGCAAATG
32759911 AATTTGCAAATG
1 AATTTGCAAATG
32759923 A
1 A
32759924 CTCTTGTTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (12 bp):
AATTTGCAAATG
Found at i:32761985 original size:42 final size:42
Alignment explanation
Indices: 32761908--32761989 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
32761898 ACAGTGAGTT
* *
32761908 ACACGGCCTGGACACACGCCTATGTCTTTGCCCGTGTGGCTC
1 ACACGGCCTGGACACACGCCTATGTCCTAGCCCGTGTGGCTC
* *
32761950 ACACGGCTTGGGCACACGCCTATGTCCCTAG-CCGTGTGGC
1 ACACGGCCTGGACACACGCCTATGT-CCTAGCCCGTGTGGC
32761990 GTCAACAGTC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 32 0.91
43 3 0.09
ACGTcount: A:0.15, C:0.35, G:0.28, T:0.22
Consensus pattern (42 bp):
ACACGGCCTGGACACACGCCTATGTCCTAGCCCGTGTGGCTC
Found at i:32766773 original size:12 final size:12
Alignment explanation
Indices: 32766744--32766774 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
32766734 TAAATGATAT
32766744 TTTAGTATTTTA
1 TTTAGTATTTTA
32766756 -TTAGTATTTTA
1 TTTAGTATTTTA
32766767 TTTAGTAT
1 TTTAGTAT
32766775 ATATAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.65
Consensus pattern (12 bp):
TTTAGTATTTTA
Found at i:32768396 original size:18 final size:19
Alignment explanation
Indices: 32768375--32768410 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
32768365 TGTTAAAATT
32768375 TGAAAGTTT-TAACTCGGA
1 TGAAAGTTTGTAACTCGGA
*
32768393 TGAAATTTTGTAACTCGG
1 TGAAAGTTTGTAACTCGG
32768411 TTTAATACGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.36
Consensus pattern (19 bp):
TGAAAGTTTGTAACTCGGA
Found at i:32769447 original size:50 final size:50
Alignment explanation
Indices: 32769332--32769519 Score: 187
Period size: 50 Copynumber: 3.6 Consensus size: 50
32769322 TGTGAGCCAG
* * *
32769332 TGTAAGACCATGTCTAGGAAATGGCATTGGCATCATTGAGATTATGAGAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCCCA
* * *
32769388 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGGCCCC
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA
* * * * **
32769438 TGTAAGACCATGTCTGAGACATGACATGGGCACCGATATGAGAACTCCCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA
* * *
32769488 TGTAAGACCGTATCTGGGATATGGCATTGGCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCA
32769520 GTACAGAAAA
Statistics
Matches: 111, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
50 78 0.70
53 3 0.03
55 1 0.01
56 29 0.26
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (50 bp):
TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA
Found at i:32776256 original size:52 final size:51
Alignment explanation
Indices: 32776199--32776330 Score: 167
Period size: 50 Copynumber: 2.6 Consensus size: 51
32776189 TAAATGAAAT
*
32776199 GAGTTACTTAATGCATGACTTAATTTAATGATGCAAACTTTAACTAACATGA
1 GAGTTACATAATGCATGACTTAATTTAATGATGCAAAC-TTAACTAACATGA
* * * * * *
32776251 GAGTTACGTAAAGCATGTCATAATTT-ATGATGTAAACTTAACTAACATGG
1 GAGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGA
* *
32776301 GAGTTACATAATGCATGGCTTTATTTAATG
1 GAGTTACATAATGCATGACTTAATTTAATG
32776331 CAAAACACGT
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
50 33 0.49
51 13 0.19
52 22 0.32
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (51 bp):
GAGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGA
Found at i:32779461 original size:15 final size:15
Alignment explanation
Indices: 32779441--32779470 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
32779431 TTAGTAAAAA
32779441 CACTCCTCTCCTTTT
1 CACTCCTCTCCTTTT
32779456 CACTCCTCTCCTTTT
1 CACTCCTCTCCTTTT
32779471 TAATTTCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.47, G:0.00, T:0.47
Consensus pattern (15 bp):
CACTCCTCTCCTTTT
Found at i:32779688 original size:21 final size:19
Alignment explanation
Indices: 32779627--32779685 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 19
32779617 TATTTTTCAA
32779627 TTTATTTTTCTCTCATTTCT
1 TTTA-TTTTCTCTCATTTCT
*
32779647 TTT-TTCCTTCTCTCAAATTCT
1 TTTATT--TTCTCTC-ATTTCT
32779668 TTTAGTTTTCTCTCATTT
1 TTTA-TTTTCTCTCATTT
32779686 TCTCTCATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
18 2 0.06
20 13 0.41
21 15 0.47
23 2 0.06
ACGTcount: A:0.12, C:0.22, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTATTTTCTCTCATTTCT
Found at i:32784354 original size:22 final size:23
Alignment explanation
Indices: 32784329--32784377 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
32784319 ATCAGCTTCT
32784329 TTAATAC-ACCTATTAAGACACA
1 TTAATACGACCTATTAAGACACA
* *
32784351 TTAA-ACGACTTATTAGGACACA
1 TTAATACGACCTATTAAGACACA
32784373 TTAAT
1 TTAAT
32784378 CATACCAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (23 bp):
TTAATACGACCTATTAAGACACA
Found at i:32789852 original size:23 final size:23
Alignment explanation
Indices: 32789814--32789864 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
32789804 CCGTATACAA
32789814 TTTTTTCTTTTCTTTTCGAATTT
1 TTTTTTCTTTTCTTTTCGAATTT
*
32789837 TCTTTTTCTTTT-TTTTTGAATTT
1 T-TTTTTCTTTTCTTTTCGAATTT
32789860 TTTTT
1 TTTTT
32789865 ACAAAAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 4 0.15
23 12 0.46
24 10 0.38
ACGTcount: A:0.08, C:0.10, G:0.04, T:0.78
Consensus pattern (23 bp):
TTTTTTCTTTTCTTTTCGAATTT
Found at i:32792270 original size:22 final size:23
Alignment explanation
Indices: 32792245--32792293 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
32792235 ATCAGCTTCT
32792245 TTAATAC-ACCTATTAAGACACA
1 TTAATACGACCTATTAAGACACA
* *
32792267 TTAA-ACGACTTATTAGGACACA
1 TTAATACGACCTATTAAGACACA
32792289 TTAAT
1 TTAAT
32792294 CATACCAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (23 bp):
TTAATACGACCTATTAAGACACA
Found at i:32794184 original size:60 final size:61
Alignment explanation
Indices: 32794024--32794329 Score: 158
Period size: 60 Copynumber: 5.1 Consensus size: 61
32794014 ATGCTTGACG
** ** * * *
32794024 CATCCCTTTTTGTAATTTGATAACCGAAGTTATCC-CTTTTCATAGTTCGACAGTCAAAGC
1 CATCCCTTTTCATAATTTGATAGTCGAAGCTATCCTCTTTTCATAGTTCGATAGTCACAGC
* * * * * * * *
32794084 TATCCCTTTTCATAATTTGATGGTTGTCA-CGAT-TTCTTTTCATTGTTCGATGGTCATCA-C
1 CATCCCTTTTCATAATTTGATAGTCG-AAGCTATCCTCTTTTCATAGTTCGATAGTCA-CAGC
* * * *
32794144 CATCCCTTTTCATAATTTGATAGCCGAAGCTATCCT-TTTTCATAGATCAATAGCCGA-AGC
1 CATCCCTTTTCATAATTTGATAGTCGAAGCTATCCTCTTTTCATAGTTCGATAGTC-ACAGC
* * * * * * * *
32794204 CATCCTTTTTCATAGTTCGATGGTC-ATCA-CCAT-CTCTTTTCATTGTT-GATGGTCGTCA-C
1 CATCCCTTTTCATAATTTGATAGTCGA--AGCTATCCTCTTTTCATAGTTCGATAGTC-ACAGC
* *
32794263 CATCCCTTTTCATAA-TCGATAGTCGAAGCTATCC-C-TTTCTGTA-TTCGATAGTCGA-AGC
1 CATCCCTTTTCATAATTTGATAGTCGAAGCTATCCTCTTTTC-ATAGTTCGATAGTC-ACAGC
*
32794321 TATCCCTTT
1 CATCCCTTT
32794330 CCATTCGTTG
Statistics
Matches: 181, Mismatches: 48, Indels: 36
0.68 0.18 0.14
Matches are distributed among these distances:
57 8 0.04
58 29 0.16
59 26 0.14
60 113 0.62
61 5 0.03
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (61 bp):
CATCCCTTTTCATAATTTGATAGTCGAAGCTATCCTCTTTTCATAGTTCGATAGTCACAGC
Found at i:32794263 original size:29 final size:30
Alignment explanation
Indices: 32794055--32794276 Score: 123
Period size: 30 Copynumber: 7.4 Consensus size: 30
32794045 AACCGAAGTT
** * *
32794055 ATCCCTTTTCATAGTTCGACAGTCA-AAGCT
1 ATCCCTTTTCATAGTTCGATGGTCATCA-CC
* * ** *
32794085 ATCCCTTTTCATAATTTGATGGTTGTCACG
1 ATCCCTTTTCATAGTTCGATGGTCATCACC
** *
32794115 ATTTCTTTTCATTGTTCGATGGTCATCACC
1 ATCCCTTTTCATAGTTCGATGGTCATCACC
* * * * *
32794145 ATCCCTTTTCATAATTTGATAGCCGA--AGCT
1 ATCCCTTTTCATAGTTCGATGGTC-ATCA-CC
* * * * *
32794175 ATCCTTTTTCATAGATCAATAGCCGA--AGCC
1 ATCCCTTTTCATAGTTCGATGGTC-ATCA-CC
*
32794205 ATCCTTTTTCATAGTTCGATGGTCATCACC
1 ATCCCTTTTCATAGTTCGATGGTCATCACC
* * *
32794235 ATCTCTTTTCATTGTT-GATGGTCGTCACC
1 ATCCCTTTTCATAGTTCGATGGTCATCACC
32794264 ATCCCTTTTCATA
1 ATCCCTTTTCATA
32794277 ATCGATAGTC
Statistics
Matches: 147, Mismatches: 40, Indels: 11
0.74 0.20 0.06
Matches are distributed among these distances:
29 25 0.17
30 119 0.81
31 3 0.02
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAGTTCGATGGTCATCACC
Found at i:32794271 original size:90 final size:87
Alignment explanation
Indices: 32794120--32794296 Score: 205
Period size: 90 Copynumber: 2.0 Consensus size: 87
32794110 TCACGATTTC
* *
32794120 TTTTCATTGTTCGATGGTCATCACCATCCCTTTTCATAATTTGATAGCCGAAGCTATCCTTTTTC
1 TTTTCATAGTTCGATGGTCATCACCATCCCTTTTCAT-ATTTGATAGCCGAAGCCATCC-TTTTC
32794185 ATAGATCAATAGCCGAAGCCATCCT
64 ATA-ATCAATAGCCGAAGCCATCCT
* * * *
32794210 TTTTCATAGTTCGATGGTCATCACCATCTCTTTTCAT-TGTTGATGGTCGTCA-CCATCCCTTTT
1 TTTTCATAGTTCGATGGTCATCACCATCCCTTTTCATAT-TTGATAGCCG-AAGCCAT-CCTTTT
* * *
32794273 CATAATCGATAGTCGAAGCTATCC
63 CATAATCAATAGCCGAAGCCATCC
32794297 CTTTCTGTAT
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
88 18 0.24
89 19 0.25
90 38 0.51
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (87 bp):
TTTTCATAGTTCGATGGTCATCACCATCCCTTTTCATATTTGATAGCCGAAGCCATCCTTTTCAT
AATCAATAGCCGAAGCCATCCT
Found at i:32794296 original size:29 final size:29
Alignment explanation
Indices: 32794143--32794329 Score: 112
Period size: 29 Copynumber: 6.3 Consensus size: 29
32794133 ATGGTCATCA
* *
32794143 CCATCCCTTTTCATAATTTGATAGCCGAAG
1 CCATCCCTTTTCATAA-TCGATAGTCGAAG
* * * *
32794173 CTATCCTTTTTCATAGATCAATAGCCGAAG
1 CCATCCCTTTTCATA-ATCGATAGTCGAAG
* * *
32794203 CCATCCTTTTTCATAGTTCGATGGTC-ATCA-
1 CCATCCCTTTTCATA-ATCGATAGTCGA--AG
* ** * * *
32794233 CCATCTCTTTTCATTGTTGATGGTCGTCA-
1 CCATCCCTTTTCATAATCGATAGTCG-AAG
32794262 CCATCCCTTTTCATAATCGATAGTCGAAG
1 CCATCCCTTTTCATAATCGATAGTCGAAG
* * *
32794291 CTATCCC-TTTCTGTATTCGATAGTCGAAG
1 CCATCCCTTTTC-ATAATCGATAGTCGAAG
*
32794320 CTATCCCTTT
1 CCATCCCTTT
32794330 CCATTCGTTG
Statistics
Matches: 125, Mismatches: 24, Indels: 16
0.76 0.15 0.10
Matches are distributed among these distances:
28 5 0.04
29 59 0.47
30 59 0.47
31 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.37
Consensus pattern (29 bp):
CCATCCCTTTTCATAATCGATAGTCGAAG
Found at i:32796117 original size:21 final size:20
Alignment explanation
Indices: 32796074--32796118 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 20
32796064 ACTTAAGTAC
32796074 ATTTTGTTGCATTTTTAGGAT
1 ATTTTGTTGCATTTTTA-GAT
32796095 ATTTTAGTTAGCATTTTTA-AT
1 ATTTT-GTT-GCATTTTTAGAT
32796116 ATT
1 ATT
32796119 GCATTAGGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 10 0.45
22 3 0.14
23 9 0.41
ACGTcount: A:0.24, C:0.04, G:0.13, T:0.58
Consensus pattern (20 bp):
ATTTTGTTGCATTTTTAGAT
Found at i:32797496 original size:165 final size:165
Alignment explanation
Indices: 32797224--32797547 Score: 567
Period size: 165 Copynumber: 2.0 Consensus size: 165
32797214 CTTTTTCCGT
* * *
32797224 AGCATTTTTAGTTACTCATTAATTCCACGTATTGCTTACATCATTACTCCACTAATTGCCACTAC
1 AGCATTTTCAGTTACTCAATAATTCCACGTATTGCTTACATCACTACTCCACTAATTGCCACTAC
**
32797289 ATATTTATCACTGATTTTACCATAGCATTAATCACATTTTATTATAATAACTTGACCAATTTTGT
66 ATATTTATCACAAATTTTACCATAGCATTAATCACATTTTATTATAATAACTTGACCAATTTTGT
*
32797354 GCCTCAATTCGATACTCGTGGGAATGATACTCATC
131 GCCTCAACTCGATACTCGTGGGAATGATACTCATC
*
32797389 AGCATTTTCAGTTACTCAATAATTCCACGTATTGCTTACATCACTACTCCACTAATTGCCACTGC
1 AGCATTTTCAGTTACTCAATAATTCCACGTATTGCTTACATCACTACTCCACTAATTGCCACTAC
* *
32797454 ATATTTATCACAAATTTTTCCATAGCATTAATCACATTTTATTATAATAACTTGACCAATTTTTT
66 ATATTTATCACAAATTTTACCATAGCATTAATCACATTTTATTATAATAACTTGACCAATTTTGT
32797519 GCCTCAACTCGATACTCGTGGGAATGATA
131 GCCTCAACTCGATACTCGTGGGAATGATA
32797548 TTGATCACTT
Statistics
Matches: 150, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
165 150 1.00
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (165 bp):
AGCATTTTCAGTTACTCAATAATTCCACGTATTGCTTACATCACTACTCCACTAATTGCCACTAC
ATATTTATCACAAATTTTACCATAGCATTAATCACATTTTATTATAATAACTTGACCAATTTTGT
GCCTCAACTCGATACTCGTGGGAATGATACTCATC
Found at i:32797690 original size:19 final size:18
Alignment explanation
Indices: 32797666--32797709 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
32797656 TTTGTTTTGG
* *
32797666 TTATTTTACTTAGTAGTTT
1 TTATTTTACTTAAT-GTAT
*
32797685 TTATTTAACTTAATGTAT
1 TTATTTTACTTAATGTAT
32797703 TTATTTT
1 TTATTTT
32797710 TTATAGGTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.25, C:0.05, G:0.07, T:0.64
Consensus pattern (18 bp):
TTATTTTACTTAATGTAT
Found at i:32802337 original size:21 final size:23
Alignment explanation
Indices: 32802311--32802352 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
32802301 GTACTTAAGT
*
32802311 ACATTTT-GTT-GCTTTTTTAGA
1 ACATTTTAGTTAGCATTTTTAGA
32802332 ACATTTTAGTTAGCATTTTTA
1 ACATTTTAGTTAGCATTTTTA
32802353 ATATTGTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 3 0.17
23 8 0.44
ACGTcount: A:0.24, C:0.10, G:0.12, T:0.55
Consensus pattern (23 bp):
ACATTTTAGTTAGCATTTTTAGA
Found at i:32809965 original size:96 final size:96
Alignment explanation
Indices: 32809859--32810037 Score: 268
Period size: 96 Copynumber: 1.9 Consensus size: 96
32809849 TCTTCTCTTG
** * *
32809859 TTGGATATTTAATTGGACATTGGAAACCCTTATGATCTTTTGAACTACACAAATAAAATTGCACA
1 TTGGATATTTAATTGGACACCGGAAAACCTCATGATCTTTTGAACTACACAAATAAAATTGCACA
* *
32809924 AAAGGTGATAGCTCAATCTTATTGTCTCTAT
66 AAAGGTGAGAGATCAATCTTATTGTCTCTAT
* * *
32809955 TTGGATATTTAATTGGACACCGGAAAACCTCATGATCTTTTGAACTACACCAATAACATTTCACA
1 TTGGATATTTAATTGGACACCGGAAAACCTCATGATCTTTTGAACTACACAAATAAAATTGCACA
*
32810020 ACAGGTGAGAGATCAATC
66 AAAGGTGAGAGATCAATC
32810038 ATACTCCTAT
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 73 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (96 bp):
TTGGATATTTAATTGGACACCGGAAAACCTCATGATCTTTTGAACTACACAAATAAAATTGCACA
AAAGGTGAGAGATCAATCTTATTGTCTCTAT
Found at i:32811117 original size:25 final size:25
Alignment explanation
Indices: 32811088--32811136 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
32811078 TGAAACAGCT
32811088 TTTAA-AAGAAACTCAA-GAGCAATTC
1 TTTAAGAA-AAACTCAATGAG-AATTC
32811113 TTTAAGAAAAACTCAATGAGAATT
1 TTTAAGAAAAACTCAATGAGAATT
32811137 ATTATTAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (25 bp):
TTTAAGAAAAACTCAATGAGAATTC
Found at i:32814337 original size:40 final size:40
Alignment explanation
Indices: 32814273--32814484 Score: 221
Period size: 40 Copynumber: 5.3 Consensus size: 40
32814263 TAATTATTGT
* *
32814273 TGAATGCACATATGTG-CCCTGTTTGTACTTCGATACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * * *
32814312 TGAATGCACTTACGTTCCCCTGTTTGTACTTTGATATCCT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
32814352 TGAATGCACATACATG-CCCTGTTTTGTACTTTGGTACCCC
1 TGAATGCACATACGTGCCCCTG-TTTGTACTTCGGTACCCC
* ** * * *
32814392 TGAATCCATTTACATGCCTCTGTTTGTACTTCGGTACCCA
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
32814432 TGAATGCACACACGTGCCCCTGTTTATACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
**
32814472 TGAAAACACATAC
1 TGAATGCACATAC
32814485 TTCGGTTAGT
Statistics
Matches: 141, Mismatches: 29, Indels: 5
0.81 0.17 0.03
Matches are distributed among these distances:
39 18 0.13
40 119 0.84
41 4 0.03
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:32814342 original size:20 final size:20
Alignment explanation
Indices: 32814289--32814347 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
32814279 CACATATGTG
32814289 CCCTGTTTGTACTTCGATAC
1 CCCTGTTTGTACTTCGATAC
** * *
32814309 CCCTGAATGCACTTACG-TTC
1 CCCTGTTTGTACTT-CGATAC
*
32814329 CCCTGTTTGTACTTTGATA
1 CCCTGTTTGTACTTCGATA
32814348 TCCTTGAATG
Statistics
Matches: 28, Mismatches: 9, Indels: 4
0.68 0.22 0.10
Matches are distributed among these distances:
19 1 0.04
20 25 0.89
21 2 0.07
ACGTcount: A:0.17, C:0.29, G:0.15, T:0.39
Consensus pattern (20 bp):
CCCTGTTTGTACTTCGATAC
Found at i:32814415 original size:80 final size:79
Alignment explanation
Indices: 32814272--32814475 Score: 255
Period size: 80 Copynumber: 2.6 Consensus size: 79
32814262 ATAATTATTG
* * * * *
32814272 TTGAATGCACATATGTGCCCTGTTTGTACTTCGATACCCCTGAATGCACTTACGTTCCCCTGTTT
1 TTGAATGCACATACGTGCCCTGTTTGTACTTCGGTACCCCTGAATCCACTTACATGCCCCTGTTT
* *
32814337 GTACTTTGATATCC
66 GTACTTCGATACCC
* * * *
32814351 TTGAATGCACATACATGCCCTGTTTTGTACTTTGGTACCCCTGAATCCATTTACATGCCTCTGTT
1 TTGAATGCACATACGTGCCCTG-TTTGTACTTCGGTACCCCTGAATCCACTTACATGCCCCTGTT
*
32814416 TGTACTTCGGTACCC
65 TGTACTTCGATACCC
* * *
32814431 ATGAATGCACACACGTGCCCCTGTTTATACTTCGGTACCCCTGAA
1 TTGAATGCACATACGTG-CCCTGTTTGTACTTCGGTACCCCTGAA
32814476 AACACATACT
Statistics
Matches: 106, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
79 20 0.19
80 81 0.76
81 5 0.05
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (79 bp):
TTGAATGCACATACGTGCCCTGTTTGTACTTCGGTACCCCTGAATCCACTTACATGCCCCTGTTT
GTACTTCGATACCC
Found at i:32831641 original size:22 final size:19
Alignment explanation
Indices: 32831616--32831657 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
32831606 TGATAATCAT
32831616 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
32831638 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
32831657 T
1 T
32831658 CAACTTTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:32843630 original size:26 final size:26
Alignment explanation
Indices: 32843594--32843659 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
32843584 TTTACATCAT
*
32843594 TGCTCACACGAGCTGTGAAATGAGTC
1 TGCTCACACGAGCTGTGAAATGAGCC
*
32843620 TGCTCACACGAGCTGTGAAATGGGCC
1 TGCTCACACGAGCTGTGAAATGAGCC
*
32843646 TGCTCACATGAGCT
1 TGCTCACACGAGCT
32843660 ATGGGTCGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.24, C:0.26, G:0.27, T:0.23
Consensus pattern (26 bp):
TGCTCACACGAGCTGTGAAATGAGCC
Found at i:32847153 original size:19 final size:19
Alignment explanation
Indices: 32847129--32847166 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
32847119 TATTAAAAGC
32847129 ATGTTTGAG-AAGTTCTAAT
1 ATGTTTG-GCAAGTTCTAAT
32847148 ATGTTTGGCAAGTTCTAAT
1 ATGTTTGGCAAGTTCTAAT
32847167 GATAATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (19 bp):
ATGTTTGGCAAGTTCTAAT
Found at i:32866948 original size:22 final size:22
Alignment explanation
Indices: 32866923--32866964 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
32866913 AGCAACGAGG
* *
32866923 TATGTATTTTATGTTATTCTGT
1 TATGTATCTTATCTTATTCTGT
32866945 TATGTATCTTATCTTATTCT
1 TATGTATCTTATCTTATTCT
32866965 ATTTGTCCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.10, G:0.10, T:0.62
Consensus pattern (22 bp):
TATGTATCTTATCTTATTCTGT
Found at i:32870467 original size:29 final size:29
Alignment explanation
Indices: 32870408--32870467 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
32870398 GCACTTTCAT
* *
32870408 AAAATGTCCAATATAGTATCTGTACTTTC
1 AAAATGTCCAATATAGTATCTGAACTATC
* *
32870437 AAAATGTCCAATGTGGTA-CTTGAACTATC
1 AAAATGTCCAATATAGTATC-TGAACTATC
32870466 AA
1 AA
32870468 TGTGTGTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 1 0.04
29 25 0.96
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (29 bp):
AAAATGTCCAATATAGTATCTGAACTATC
Found at i:32872117 original size:17 final size:16
Alignment explanation
Indices: 32872097--32872131 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
32872087 AAATTTAATG
32872097 ATAATATAAAATATATA
1 ATAATATAAAATAT-TA
*
32872114 ATAATATAATATATTA
1 ATAATATAAAATATTA
32872130 AT
1 AT
32872132 TTAATAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAATATAAAATATTA
Found at i:32872122 original size:8 final size:8
Alignment explanation
Indices: 32872097--32872147 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
32872087 AAATTTAATG
32872097 ATAATATA
1 ATAATATA
32872105 A-AATAT-
1 ATAATATA
32872111 ATAATA-A
1 ATAATATA
32872118 TATAATATA
1 -ATAATATA
* *
32872127 TTAATTTA
1 ATAATATA
32872135 ATAATATA
1 ATAATATA
32872143 ATAAT
1 ATAAT
32872148 TGGTGTTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
6 1 0.03
7 9 0.26
8 24 0.69
9 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
ATAATATA
Found at i:32876340 original size:22 final size:22
Alignment explanation
Indices: 32876312--32876357 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
32876302 ATAGAAATTA
32876312 AAAATATTTAGGAAAATAGACT
1 AAAATATTTAGGAAAATAGACT
32876334 AAAATATTTAGGAAAATAGACT
1 AAAATATTTAGGAAAATAGACT
32876356 AA
1 AA
32876358 TAGTTATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.57, C:0.04, G:0.13, T:0.26
Consensus pattern (22 bp):
AAAATATTTAGGAAAATAGACT
Found at i:32881597 original size:137 final size:137
Alignment explanation
Indices: 32881351--32881618 Score: 394
Period size: 137 Copynumber: 2.0 Consensus size: 137
32881341 TTAGGGTTTT
* * * * * *
32881351 CATGTTTCGGGTGCTGGTCTTGAATGTTCTACTGATGGCTGAGATCTGGCATTTTTGTGGATACT
1 CATGTTTCAGGTGCTGATCCTGAATGTCCTACCGATGGCTGAGATCTGACATTTTTGTGGATACT
* *
32881416 CATCAGCTTGTGTGAGTAGCATCGTGCAGCTTACATTCCGACCATCAGCTTGTGTGAGTAGACCC
66 CACCAGCTTGTGTGAGCAGCATCGTGCAGCTTACATTCCGACCATCAGCTTGTGTGAGTAGACCC
32881481 AGGTTAC
131 AGGTTAC
*
32881488 CATGTTTCAGGTGCTGATCCTGAATGTCCTACCGATGGCTGAGTTCTGACATTTTTTGTGGATAC
1 CATGTTTCAGGTGCTGATCCTGAATGTCCTACCGATGGCTGAGATCTGACA-TTTTTGTGGATAC
* * * * *
32881553 TCGCCCGCTTGTGTGAGCGGCATCGTGCAGC-TACATTTCTACCATCAGCTTGTGTGAGTAGACC
65 TCACCAGCTTGTGTGAGCAGCATCGTGCAGCTTACATTCCGACCATCAGCTTGTGTGAGTAGACC
32881617 CA
130 CA
32881619 TTTATGGCTC
Statistics
Matches: 116, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
137 77 0.66
138 39 0.34
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (137 bp):
CATGTTTCAGGTGCTGATCCTGAATGTCCTACCGATGGCTGAGATCTGACATTTTTGTGGATACT
CACCAGCTTGTGTGAGCAGCATCGTGCAGCTTACATTCCGACCATCAGCTTGTGTGAGTAGACCC
AGGTTAC
Found at i:32886794 original size:11 final size:11
Alignment explanation
Indices: 32886778--32886805 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
32886768 TATTGATAGC
32886778 CTTATGCTACA
1 CTTATGCTACA
32886789 CTTATGCTACA
1 CTTATGCTACA
32886800 CTTATG
1 CTTATG
32886806 GGACATGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.39
Consensus pattern (11 bp):
CTTATGCTACA
Found at i:32890185 original size:24 final size:24
Alignment explanation
Indices: 32890147--32890194 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
32890137 AGTGACCCAT
*
32890147 TTCTACTCACCTCCTTATTTCTCC
1 TTCTACTCACCTCCTTATCTCTCC
32890171 TTCT-CTCACCTTCCTTATCTCTCC
1 TTCTACTCACC-TCCTTATCTCTCC
32890195 ACATAGGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.10, C:0.44, G:0.00, T:0.46
Consensus pattern (24 bp):
TTCTACTCACCTCCTTATCTCTCC
Found at i:32891325 original size:17 final size:18
Alignment explanation
Indices: 32891272--32891325 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
32891262 AATAGTTTAA
*
32891272 TCCTC-CTCCTCATCCATC
1 TCCTCACTCCT-ATCCTTC
*
32891290 TCCTCACTCCTATCATTC
1 TCCTCACTCCTATCCTTC
*
32891308 TCCTCA-TCTTATCCTTC
1 TCCTCACTCCTATCCTTC
32891325 T
1 T
32891326 TGTCGCTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 10 0.32
18 16 0.52
19 5 0.16
ACGTcount: A:0.13, C:0.46, G:0.00, T:0.41
Consensus pattern (18 bp):
TCCTCACTCCTATCCTTC
Found at i:32893976 original size:22 final size:22
Alignment explanation
Indices: 32893937--32893988 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
32893927 TGGATAAGCC
*
32893937 ACCACTGA-TTGCAGATAAACT
1 ACCACTGATTTGCAAATAAACT
32893958 ACCACTGATTTGCAAATAAACT
1 ACCACTGATTTGCAAATAAACT
32893980 ACCACTGAT
1 ACCACTGAT
32893989 AACACTTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 8 0.28
22 21 0.72
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (22 bp):
ACCACTGATTTGCAAATAAACT
Found at i:32898376 original size:46 final size:46
Alignment explanation
Indices: 32898324--32898417 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
32898314 CAAAGAAAAG
32898324 ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
* *
32898370 ACCTCGACTCACTATCAAGGATGATAGGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
32898416 AC
1 AC
32898418 GCCACACTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.24
Consensus pattern (46 bp):
ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
Found at i:32900954 original size:25 final size:24
Alignment explanation
Indices: 32900926--32901002 Score: 100
Period size: 25 Copynumber: 3.1 Consensus size: 24
32900916 TGCTCTCATA
32900926 AGCTAGAAATCGGTAAGCTCATACG
1 AGCT-GAAATCGGTAAGCTCATACG
*
32900951 AGCTGAGAATCGGTAAGCTCTTACG
1 AGCTGA-AATCGGTAAGCTCATACG
** *
32900976 AGCTGAAATCAATAAGCTCATATG
1 AGCTGAAATCGGTAAGCTCATACG
32901000 AGC
1 AGC
32901003 AGTGGTATGT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
24 19 0.41
25 27 0.59
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.22
Consensus pattern (24 bp):
AGCTGAAATCGGTAAGCTCATACG
Found at i:32900971 original size:50 final size:49
Alignment explanation
Indices: 32900896--32901002 Score: 126
Period size: 50 Copynumber: 2.2 Consensus size: 49
32900886 ATGTATGCTT
* * **
32900896 ATACGAGCTATGAATCGGTATGCTCTCATAAGCTAGAAATCGGTAAGCTC
1 ATACGAGCTATGAATCGGTAAGCTCTCACAAGCT-GAAATCAATAAGCTC
* *
32900946 ATACGAGCTGA-GAATCGGTAAGCTCTTACGAGCTGAAATCAATAAGCTC
1 ATACGAGCT-ATGAATCGGTAAGCTCTCACAAGCTGAAATCAATAAGCTC
*
32900995 ATATGAGC
1 ATACGAGC
32901003 AGTGGTATGT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
49 20 0.41
50 28 0.57
51 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (49 bp):
ATACGAGCTATGAATCGGTAAGCTCTCACAAGCTGAAATCAATAAGCTC
Found at i:32900991 original size:24 final size:25
Alignment explanation
Indices: 32900939--32901002 Score: 85
Period size: 24 Copynumber: 2.6 Consensus size: 25
32900929 TAGAAATCGG
**
32900939 TAAGCTCATACGAGCTGAGAATCGG
1 TAAGCTCATACGAGCTGAGAATCAA
*
32900964 TAAGCTCTTACGAGCTGA-AATCAA
1 TAAGCTCATACGAGCTGAGAATCAA
*
32900988 TAAGCTCATATGAGC
1 TAAGCTCATACGAGC
32901003 AGTGGTATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 17 0.50
25 17 0.50
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.23
Consensus pattern (25 bp):
TAAGCTCATACGAGCTGAGAATCAA
Found at i:32904231 original size:16 final size:16
Alignment explanation
Indices: 32904181--32904238 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
32904171 AACCTCACTA
* * *
32904181 TCTATTGTTTTCACAA
1 TCTATAGTTTTCATAG
* *
32904197 TCTAGAGTTTTC-TCTG
1 TCTATAGTTTTCAT-AG
32904213 TCTATAGTTTTCATAG
1 TCTATAGTTTTCATAG
32904229 TCTATAGTTT
1 TCTATAGTTT
32904239 CACATCTAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
16 32 0.97
17 1 0.03
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.52
Consensus pattern (16 bp):
TCTATAGTTTTCATAG
Found at i:32905370 original size:25 final size:25
Alignment explanation
Indices: 32905314--32905371 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
32905304 AGGGTCAAAC
* * *
32905314 GATCATGTCACACGCTCGTGTGCCA
1 GATCGTGTCACACGCCCGTGTACCA
* *
32905339 GACCGTGTCACACGCCCGTGTACTA
1 GATCGTGTCACACGCCCGTGTACCA
32905364 GATCGTGT
1 GATCGTGT
32905372 AACTCATTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.19, C:0.31, G:0.26, T:0.24
Consensus pattern (25 bp):
GATCGTGTCACACGCCCGTGTACCA
Found at i:32916834 original size:40 final size:40
Alignment explanation
Indices: 32916736--32916998 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
32916726 TCCTCGTTCA
* * * * *
32916736 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
32916775 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
32916815 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
32916855 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
32916895 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
32916935 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
32916975 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
32916999 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:32924750 original size:40 final size:40
Alignment explanation
Indices: 32924652--32924914 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
32924642 TCCTCGTTCA
* * * * *
32924652 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
32924691 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
32924731 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
32924771 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
32924811 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
32924851 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
32924891 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
32924915 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:32927205 original size:11 final size:11
Alignment explanation
Indices: 32927189--32927213 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
32927179 TATATTACGA
32927189 CACATATTAAT
1 CACATATTAAT
32927200 CACATATTAAT
1 CACATATTAAT
32927211 CAC
1 CAC
32927214 TTTCAGTCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (11 bp):
CACATATTAAT
Found at i:32933020 original size:14 final size:14
Alignment explanation
Indices: 32933001--32933030 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
32932991 CCTTCAATAG
32933001 TTAAACCAAAACCA
1 TTAAACCAAAACCA
*
32933015 TTAAACCTAAACCA
1 TTAAACCAAAACCA
32933029 TT
1 TT
32933031 TTGAAGCCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (14 bp):
TTAAACCAAAACCA
Found at i:32936669 original size:20 final size:20
Alignment explanation
Indices: 32936646--32936699 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
32936636 TAATTTGTCT
*
32936646 TGTCTTAATTAAATTAAATG
1 TGTCTTAATTAAATTAAATA
* ** *
32936666 TGTCTTGATTTTATTAAGTA
1 TGTCTTAATTAAATTAAATA
32936686 TGTCTTAAATTAAA
1 TGTCTT-AATTAAA
32936700 ACATGAATTA
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.35, C:0.06, G:0.11, T:0.48
Consensus pattern (20 bp):
TGTCTTAATTAAATTAAATA
Found at i:32945964 original size:51 final size:50
Alignment explanation
Indices: 32945847--32946023 Score: 223
Period size: 51 Copynumber: 3.5 Consensus size: 50
32945837 GATACACATT
* * * *
32945847 GCCTTCACATAGTACTACACATGTAATC-AAGTTTTACGGTCCACGTAGTA
1 GCCTTCACATAGTACTACACACGTGACCAAAGTTTT-CGGTACACGTAGTA
*
32945897 GCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTA
1 GCCTTCACATAGTACTACACACGTGACCAAAG-TTTTCGGTACACGTAGTA
* * * *
32945948 GCCTTCACTTAGTACTACACATGTGACCATTA-TTTATCGATACACGTAGTA
1 GCCTTCACATAGTACTACACACGTGACCA-AAGTTT-TCGGTACACGTAGTA
32945999 GCCTTCACATAGTACTACACACGTG
1 GCCTTCACATAGTACTACACACGTG
32946024 TTCATCGATA
Statistics
Matches: 111, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
50 28 0.25
51 78 0.70
52 5 0.05
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (50 bp):
GCCTTCACATAGTACTACACACGTGACCAAAGTTTTCGGTACACGTAGTA
Found at i:32945969 original size:26 final size:26
Alignment explanation
Indices: 32945937--32946019 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
32945927 AGCTTTTCGG
32945937 TACACATAGTAGCCTTCACTTAGTAC
1 TACACATAGTAGCCTTCACTTAGTAC
*
32945963 TACACAT-GT-GACCATT-ATTTA-T-C
1 TACACATAGTAG-CC-TTCACTTAGTAC
* *
32945986 GATACACGTAGTAGCCTTCACATAGTAC
1 --TACACATAGTAGCCTTCACTTAGTAC
32946014 TACACA
1 TACACA
32946020 CGTGTTCATC
Statistics
Matches: 43, Mismatches: 5, Indels: 18
0.65 0.08 0.27
Matches are distributed among these distances:
23 1 0.02
24 2 0.05
25 16 0.37
26 21 0.49
27 2 0.05
28 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (26 bp):
TACACATAGTAGCCTTCACTTAGTAC
Found at i:32966777 original size:13 final size:13
Alignment explanation
Indices: 32966744--32966783 Score: 71
Period size: 13 Copynumber: 3.0 Consensus size: 13
32966734 CAAAACTAGT
32966744 TTTTTTTTCACAA
1 TTTTTTTTCACAA
32966757 TTTCTTTTTCACAA
1 TTT-TTTTTCACAA
32966771 TTTTTTTTCACAA
1 TTTTTTTTCACAA
32966784 CTTGATATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 13 0.50
14 13 0.50
ACGTcount: A:0.23, C:0.17, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTTTTTCACAA
Found at i:32969183 original size:51 final size:50
Alignment explanation
Indices: 32969050--32969241 Score: 210
Period size: 51 Copynumber: 3.8 Consensus size: 50
32969040 ACTATTATCA
* * *
32969050 TTCGATACACGTATTAGCCTTCACATAGTACTACACACGTAATC-AAGTT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* *
32969099 TTACGTTCCACGTAGTAGCCTTCACATCA-TACTACACACGTGACCAAAGCTT
1 TT-CGATACACGTAGTAGCCTTCACAT-AGTACTACACACGTGACCAAAG-TT
* * * * *
32969151 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTA-TT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGTT
* *
32969201 TATCAATAAACGTAGTAGCCTTCACATAGTACTACACACGT
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGT
32969242 ATTCATCGAT
Statistics
Matches: 119, Mismatches: 17, Indels: 12
0.80 0.11 0.08
Matches are distributed among these distances:
49 2 0.02
50 39 0.33
51 73 0.61
52 5 0.04
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (50 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
Found at i:32974617 original size:47 final size:47
Alignment explanation
Indices: 32974566--32974741 Score: 228
Period size: 47 Copynumber: 3.7 Consensus size: 47
32974556 TTAGGATTCT
* *
32974566 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
*
32974613 ATGTGATGAATGTGAAAGTGTATATAGGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
32974660 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * *
32974707 ACGTGATGGATGTGAAAGTGTATAAATATGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
32974742 TCCCGAAGGG
Statistics
Matches: 113, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
46 1 0.01
47 112 0.99
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:32974916 original size:37 final size:37
Alignment explanation
Indices: 32974860--32974938 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
32974850 CCGAGCTCTA
* * *
32974860 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
32974897 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
32974934 AAGAC
1 AAGAC
32974939 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:32982724 original size:20 final size:20
Alignment explanation
Indices: 32982681--32982724 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
32982671 ACTAGTTCAC
*
32982681 ACAATAGCATAGGTTCGCAT
1 ACAATAGCATAGGTTCGCAA
* * *
32982701 ACAATAGTATAGTTTCGGAA
1 ACAATAGCATAGGTTCGCAA
32982721 ACAA
1 ACAA
32982725 ATAGACTTCG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (20 bp):
ACAATAGCATAGGTTCGCAA
Found at i:32983899 original size:9 final size:10
Alignment explanation
Indices: 32983873--32983902 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
32983863 AAAGCCGTAC
*
32983873 TTTAAAAATT
1 TTTAAAAATG
32983883 TTTAAAAATG
1 TTTAAAAATG
32983893 TTTAAAAATG
1 TTTAAAAATG
32983903 CTTAGAAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (10 bp):
TTTAAAAATG
Found at i:32995752 original size:22 final size:23
Alignment explanation
Indices: 32995727--32995810 Score: 86
Period size: 22 Copynumber: 3.8 Consensus size: 23
32995717 ATTGTGATGT
* *
32995727 AGTGGTGGTGTAGTGGTGATA-A
1 AGTGGTTGTGTGGTGGTGATATA
*
32995749 AGTGGTTGAGTGGTGGTGATATA
1 AGTGGTTGTGTGGTGGTGATATA
*
32995772 A-TGGTTGTATGGTGGTGATAT-
1 AGTGGTTGTGTGGTGGTGATATA
*
32995793 GGTGGTTGT-TGGGTGGTG
1 AGTGGTTGTGT-GGTGGTG
32995811 TTTTGGTTTG
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.02
22 50 0.94
23 2 0.04
ACGTcount: A:0.17, C:0.00, G:0.46, T:0.37
Consensus pattern (23 bp):
AGTGGTTGTGTGGTGGTGATATA
Found at i:32997160 original size:19 final size:19
Alignment explanation
Indices: 32997127--32997165 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
32997117 ATTTTTTTGG
*
32997127 TGAAAAAAAAGAC-AAGAA
1 TGAAAAAAAACACAAAGAA
32997145 TGAAAAAAGAACACAAAGAA
1 TGAAAAAA-AACACAAAGAA
32997165 T
1 T
32997166 TTACAGTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 4 0.22
20 6 0.33
ACGTcount: A:0.69, C:0.08, G:0.15, T:0.08
Consensus pattern (19 bp):
TGAAAAAAAACACAAAGAA
Found at i:33009385 original size:40 final size:40
Alignment explanation
Indices: 33009310--33009520 Score: 248
Period size: 40 Copynumber: 5.3 Consensus size: 40
33009300 TCTTCGGAAT
* * * * *
33009310 TTAG-CCGGATATAACCACAAGCACAATTGTCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* * * * *
33009349 TTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
* *
33009389 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
*
33009429 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
33009469 TTAACCCGGATAAAATCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
33009509 TTAGCCCGGATA
1 TTAGCCCGGATA
33009521 TCATTCAAAT
Statistics
Matches: 150, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 5 0.03
40 141 0.94
41 4 0.03
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
Found at i:33011851 original size:49 final size:50
Alignment explanation
Indices: 33011779--33011887 Score: 148
Period size: 50 Copynumber: 2.2 Consensus size: 50
33011769 TACGGAGGAA
* * *
33011779 GTATCTAGCAGTATATTTGCAATT-TCTGATGGCTTGACCATAATATTTT
1 GTATCTGGCAGTATATTTGCAATTATCTGATGGCTCGACCACAATATTTT
* * *
33011828 GTATCTGGTAGTATATTTGCAATTATTTGGTGGCTCGACCACAATATTTT
1 GTATCTGGCAGTATATTTGCAATTATCTGATGGCTCGACCACAATATTTT
*
33011878 GTTTCTGGCA
1 GTATCTGGCA
33011888 TCTCAACTGC
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
49 22 0.43
50 29 0.57
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (50 bp):
GTATCTGGCAGTATATTTGCAATTATCTGATGGCTCGACCACAATATTTT
Found at i:33012335 original size:24 final size:24
Alignment explanation
Indices: 33012307--33012359 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
33012297 TGTGTTTTTA
*
33012307 TTTCTATAGACTTTGGCTTGGGAC
1 TTTCTATAGACTTTGGCTTGCGAC
* *
33012331 TTTCTTTTGACTTTGGCTTGCGAC
1 TTTCTATAGACTTTGGCTTGCGAC
33012355 TTTCT
1 TTTCT
33012360 TTTGGACTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.11, C:0.19, G:0.21, T:0.49
Consensus pattern (24 bp):
TTTCTATAGACTTTGGCTTGCGAC
Found at i:33012360 original size:24 final size:25
Alignment explanation
Indices: 33012315--33012369 Score: 94
Period size: 24 Copynumber: 2.2 Consensus size: 25
33012305 TATTTCTATA
*
33012315 GACTTTGGCTTGGGACTTTCTTTT-
1 GACTTTGGCTTGCGACTTTCTTTTG
33012339 GACTTTGGCTTGCGACTTTCTTTTG
1 GACTTTGGCTTGCGACTTTCTTTTG
33012364 GACTTT
1 GACTTT
33012370 AGATTTTGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 23 0.79
25 6 0.21
ACGTcount: A:0.09, C:0.18, G:0.24, T:0.49
Consensus pattern (25 bp):
GACTTTGGCTTGCGACTTTCTTTTG
Found at i:33014026 original size:23 final size:23
Alignment explanation
Indices: 33013995--33014047 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
33013985 TTACAAGCAG
* *
33013995 TAAATTTATATGA-ATTTATATTA
1 TAAAATTATATGATATTT-TAGTA
*
33014018 TAAAATTATTTGATATTTTAGTA
1 TAAAATTATATGATATTTTAGTA
33014041 -AAAATTA
1 TAAAATTA
33014048 AGCATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 7 0.27
23 15 0.58
24 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (23 bp):
TAAAATTATATGATATTTTAGTA
Found at i:33014855 original size:20 final size:20
Alignment explanation
Indices: 33014832--33014907 Score: 79
Period size: 20 Copynumber: 4.0 Consensus size: 20
33014822 TTTATGATTT
33014832 ATATTTATTTATAATTTTTA
1 ATATTTATTTATAATTTTTA
*
33014852 ATATATATTTA-AA--TTTA
1 ATATTTATTTATAATTTTTA
*
33014869 ATAATT-TTTATAATTTTTA
1 ATATTTATTTATAATTTTTA
* *
33014888 TTGATTTTTTTATAATTTTT
1 AT-ATTTATTTATAATTTTT
33014908 TTTCCTCATA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
16 4 0.09
17 10 0.22
19 7 0.15
20 13 0.28
21 12 0.26
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (20 bp):
ATATTTATTTATAATTTTTA
Found at i:33014883 original size:9 final size:9
Alignment explanation
Indices: 33014829--33014907 Score: 54
Period size: 9 Copynumber: 8.3 Consensus size: 9
33014819 TTTTTTATGA
*
33014829 TTTATATTT
1 TTTATAATT
33014838 ATTTATAATT
1 -TTTATAATT
*
33014848 TTTAATATATA
1 TTT-ATA-ATT
33014859 TTTA-AA-T
1 TTTATAATT
*
33014866 TTAATAATT
1 TTTATAATT
33014875 TTTATAATT
1 TTTATAATT
*
33014884 TTTATTGATTTT
1 TTTA-T-A-ATT
33014896 TTTATAATT
1 TTTATAATT
33014905 TTT
1 TTT
33014908 TTTCCTCATA
Statistics
Matches: 55, Mismatches: 7, Indels: 15
0.71 0.09 0.19
Matches are distributed among these distances:
7 3 0.05
8 3 0.05
9 22 0.40
10 14 0.25
11 7 0.13
12 6 0.11
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (9 bp):
TTTATAATT
Found at i:33017468 original size:108 final size:107
Alignment explanation
Indices: 33017300--33017506 Score: 310
Period size: 108 Copynumber: 1.9 Consensus size: 107
33017290 ATTTTGACTT
* *
33017300 TAAGAATTAAAAAATTAGTGATGAAAAAAGATATATGACAATTTTTATAGTTTATTAAAAAAACT
1 TAAGAATTAAAAAATTAATGATGAAAAAAGATATATGACAACTTTTATAGTTTATTAAAAAAACT
* *
33017365 AAACAACAGTTGAAATTTTTCTTTGGGGGTTAAAACCTAATTG
66 AAACAACAGTTGAAAGTTTTC-TGGGGGGTTAAAACCTAATTG
* * *
33017408 TAAGAATTAAAACATTAATGACT-AAAACAGATATATGACTACTTTT-TAGTTTATTAAAAAAAA
1 TAAGAATTAAAAAATTAATGA-TGAAAAAAGATATATGACAACTTTTATAGTTTATT-AAAAAAA
33017471 CTAAACAACAGTTGAAAGTTTTCTGGGGGGTTAAAA
64 CTAAACAACAGTTGAAAGTTTTCTGGGGGGTTAAAA
33017507 AGCAAAATTT
Statistics
Matches: 90, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
107 21 0.23
108 68 0.76
109 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.33
Consensus pattern (107 bp):
TAAGAATTAAAAAATTAATGATGAAAAAAGATATATGACAACTTTTATAGTTTATTAAAAAAACT
AAACAACAGTTGAAAGTTTTCTGGGGGGTTAAAACCTAATTG
Found at i:33021890 original size:203 final size:203
Alignment explanation
Indices: 33021535--33021929 Score: 700
Period size: 203 Copynumber: 1.9 Consensus size: 203
33021525 CAAGGCACAT
*
33021535 GGCCCTATTAACTGATCTATAAGGGAGAAACACTTAGTGGATTGAGGCTTCTCAACTAGCTGAAT
1 GGCCCTATTAACTGATCTATAAGGGAGAAACACTTAGTGGATTGAGGCTTCACAACTAGCTGAAT
*
33021600 GGTGCTTGGTTTAATGCTTTGCAGCACACAAGGATGGAAATCAAGAGTGAACTGCATGGTCAATG
66 GGTGCTTGGTTCAATGCTTTGCAGCACACAAGGATGGAAATCAAGAGTGAACTGCATGGTCAATG
33021665 AGCTGAAACTCCACACAATGGTTCCCAAAGAAAGGCGCCATTGAACACCTAGAACCAGATCAACC
131 AGCTGAAACTCCACACAATGGTTCCCAAAGAAAGGCGCCATTGAACACCTAGAACCAGATCAACC
33021730 AACAATAA
196 AACAATAA
** *
33021738 GGCCCTATTAACTGATCTATAAGGGAGATGCACTTAGTGGATTGAGGCTTCACAACTAGTTGAAT
1 GGCCCTATTAACTGATCTATAAGGGAGAAACACTTAGTGGATTGAGGCTTCACAACTAGCTGAAT
* * * *
33021803 GGTTCTTGGTTCAATGCTTTGTAGCACACAATGATGGAAATCAAGAGTGATCTGCATGGTCAATG
66 GGTGCTTGGTTCAATGCTTTGCAGCACACAAGGATGGAAATCAAGAGTGAACTGCATGGTCAATG
*
33021868 AGCTGAAACTCCACATAATGGTTCCCAAAGAAAGGCGCCATTGAACACCTAGAACCAGATCA
131 AGCTGAAACTCCACACAATGGTTCCCAAAGAAAGGCGCCATTGAACACCTAGAACCAGATCA
33021930 CACTCGTATA
Statistics
Matches: 182, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
203 182 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.24
Consensus pattern (203 bp):
GGCCCTATTAACTGATCTATAAGGGAGAAACACTTAGTGGATTGAGGCTTCACAACTAGCTGAAT
GGTGCTTGGTTCAATGCTTTGCAGCACACAAGGATGGAAATCAAGAGTGAACTGCATGGTCAATG
AGCTGAAACTCCACACAATGGTTCCCAAAGAAAGGCGCCATTGAACACCTAGAACCAGATCAACC
AACAATAA
Found at i:33023793 original size:17 final size:17
Alignment explanation
Indices: 33023767--33023800 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
33023757 ATACTTCCTA
33023767 AAAAAATGTGTTTTATT
1 AAAAAATGTGTTTTATT
*
33023784 AAAAATTGTGTTTTATT
1 AAAAAATGTGTTTTATT
33023801 TTCAAAAGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (17 bp):
AAAAAATGTGTTTTATT
Found at i:33024507 original size:11 final size:11
Alignment explanation
Indices: 33024491--33024516 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33024481 TTCAAGCTAC
33024491 TTTCTGTAAAG
1 TTTCTGTAAAG
33024502 TTTCTGTAAAG
1 TTTCTGTAAAG
33024513 TTTC
1 TTTC
33024517 CATATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.12, G:0.15, T:0.50
Consensus pattern (11 bp):
TTTCTGTAAAG
Found at i:33026415 original size:248 final size:248
Alignment explanation
Indices: 33025977--33026468 Score: 851
Period size: 248 Copynumber: 2.0 Consensus size: 248
33025967 AAAAATTTAT
* * *
33025977 TATTTTTATTGCCTTTTTATTGATCCCTTCAAGATGTTTCACTATGTTAAGAGGAGCTTCAGGAT
1 TATTTTTACTGCCTTTTTATTGATCCCTTCAAGATGTTTCACTATGATAAGAGGAGCTTCACGAT
33026042 GTACTTCCTAATGATCATTCCTGAATATGATTTGTAAATTAGCAAAGATGAAAATTTTATATCAA
66 GTACTTCCTAATGATCATTCCTGAATATGATTTGTAAATTAGCAAAGATGAAAATTTTATATCAA
* * *
33026107 CTTAATTACGTATAGTGGTTTCTTATGTAATGAGATATTAGGAAGTCTGGAAGAGAAAATATTGG
131 CTCAATTACGTATAGTAGTTTCTTATGTAATGAGATATTAGAAAGTCTGGAAGAGAAAATATTGG
33026172 GAAAGTTCTCTAGGAAACATCAAAAAGATGAGATGAACGGGTACCTAATGAGA
196 GAAAGTTCTCTAGGAAACATCAAAAAGATGAGATGAACGGGTACCTAATGAGA
* *
33026225 TATTTTTACTGCCTTTTTGTTGATCCCTTCAAGATGTTTCACTATGATAATAGGAGCTTCACGAT
1 TATTTTTACTGCCTTTTTATTGATCCCTTCAAGATGTTTCACTATGATAAGAGGAGCTTCACGAT
*
33026290 GTACTTCCTAATGATCATTCCTGAATATGATTTGTAAATTAGCAAATATG-AAATTTTCATATCA
66 GTACTTCCTAATGATCATTCCTGAATATGATTTGTAAATTAGCAAAGATGAAAATTTT-ATATCA
* *
33026354 GCTCAATTACGTATAGTATTTTCTTATGTAATGAGATATTAGAAAGTCTGGAAGAGAAAATATTG
130 ACTCAATTACGTATAGTAGTTTCTTATGTAATGAGATATTAGAAAGTCTGGAAGAGAAAATATTG
* *
33026419 GGAAAGTTCTCTAGGAAACATCAAAAAGATGAGATGAACTGGTACTTAAT
195 GGAAAGTTCTCTAGGAAACATCAAAAAGATGAGATGAACGGGTACCTAAT
33026469 AAATGTATCG
Statistics
Matches: 230, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
247 7 0.03
248 223 0.97
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.35
Consensus pattern (248 bp):
TATTTTTACTGCCTTTTTATTGATCCCTTCAAGATGTTTCACTATGATAAGAGGAGCTTCACGAT
GTACTTCCTAATGATCATTCCTGAATATGATTTGTAAATTAGCAAAGATGAAAATTTTATATCAA
CTCAATTACGTATAGTAGTTTCTTATGTAATGAGATATTAGAAAGTCTGGAAGAGAAAATATTGG
GAAAGTTCTCTAGGAAACATCAAAAAGATGAGATGAACGGGTACCTAATGAGA
Found at i:33029433 original size:12 final size:11
Alignment explanation
Indices: 33029405--33029472 Score: 52
Period size: 12 Copynumber: 6.0 Consensus size: 11
33029395 AAATAGCATG
33029405 TGAAAAAGAAA
1 TGAAAAAGAAA
33029416 --AAAAAGAAA
1 TGAAAAAGAAA
33029425 TTGAAAAAGAAAA
1 -TGAAAAAG-AAA
* *
33029438 TGAACATGAAA
1 TGAAAAAGAAA
33029449 -GAAAACAAGAAA
1 TG-AAA-AAGAAA
33029461 TTGAAAAAGAAA
1 -TGAAAAAGAAA
33029473 ATGAGAGTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 15
0.70 0.06 0.23
Matches are distributed among these distances:
9 9 0.20
10 1 0.02
11 5 0.11
12 23 0.51
13 6 0.13
14 1 0.02
ACGTcount: A:0.71, C:0.03, G:0.16, T:0.10
Consensus pattern (11 bp):
TGAAAAAGAAA
Found at i:33029519 original size:46 final size:45
Alignment explanation
Indices: 33029446--33029563 Score: 112
Period size: 46 Copynumber: 2.6 Consensus size: 45
33029436 AATGAACATG
* *
33029446 AAAGAAAACAAGAAATTGAAAAAGAAAATGAGAGTGAGAAAAAGA-A
1 AAAGAAAAAAAGAAATTGAAAAAGAAAAAG-GA-TGAGAAAAAGAGA
** ** *
33029492 AAAGAAAAAAAGAAATTGTGATTGAAAAAGGATGTGAAAAAGAGA
1 AAAGAAAAAAAGAAATTGAAAAAGAAAAAGGATGAGAAAAAGAGA
***
33029537 AAATCGAAAAAGAAATTGAAGAAAGAA
1 AAAGAAAAAAAGAAATTGAA-AAAGAA
33029564 GAGAAAATGA
Statistics
Matches: 56, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
44 10 0.18
45 18 0.32
46 28 0.50
ACGTcount: A:0.64, C:0.02, G:0.22, T:0.12
Consensus pattern (45 bp):
AAAGAAAAAAAGAAATTGAAAAAGAAAAAGGATGAGAAAAAGAGA
Found at i:33036780 original size:27 final size:26
Alignment explanation
Indices: 33036732--33036782 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
33036722 TAGAATTAAT
*
33036732 TTGTTATTCATCATTTGCTTTGTATA
1 TTGTTAATCATCATTTGCTTTGTATA
33036758 TTGTTAATCGATCATATTG-TTTGTA
1 TTGTTAATC-ATCAT-TTGCTTTGTA
33036783 AGAATTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 8 0.36
27 11 0.50
28 3 0.14
ACGTcount: A:0.22, C:0.10, G:0.14, T:0.55
Consensus pattern (26 bp):
TTGTTAATCATCATTTGCTTTGTATA
Found at i:33052007 original size:20 final size:20
Alignment explanation
Indices: 33051979--33052016 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
33051969 GCTGAAATAA
33051979 AGCTAAGTTGAGCTCAAACG
1 AGCTAAGTTGAGCTCAAACG
*
33051999 AGCTTAGTTGAGCTCAAA
1 AGCTAAGTTGAGCTCAAA
33052017 TGAACTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (20 bp):
AGCTAAGTTGAGCTCAAACG
Found at i:33053023 original size:15 final size:15
Alignment explanation
Indices: 33052999--33053033 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
33052989 TAAGTAATTT
* *
33052999 AATAATTAAAACCAA
1 AATAAGTAAAAACAA
33053014 AATAAGTAAAAACAA
1 AATAAGTAAAAACAA
33053029 AATAA
1 AATAA
33053034 TTATTCTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.71, C:0.09, G:0.03, T:0.17
Consensus pattern (15 bp):
AATAAGTAAAAACAA
Found at i:33073117 original size:33 final size:34
Alignment explanation
Indices: 33073068--33073144 Score: 113
Period size: 33 Copynumber: 2.3 Consensus size: 34
33073058 AAATTTAAAC
33073068 AAATTAATTTCTAACACTTATTTAAGCTGAACTA
1 AAATTAATTTCTAACACTTATTTAAGCTGAACTA
* *
33073102 AAATTAA-TTCTAACACTTATTTTAGTTGAACT-
1 AAATTAATTTCTAACACTTATTTAAGCTGAACTA
33073134 AAATGTAATTT
1 AAAT-TAATTT
33073145 AGCTAAACTA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
32 4 0.10
33 26 0.67
34 9 0.23
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (34 bp):
AAATTAATTTCTAACACTTATTTAAGCTGAACTA
Found at i:33074960 original size:18 final size:18
Alignment explanation
Indices: 33074937--33074975 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
33074927 CTCTTTTTGC
33074937 TCTTTTTC-ATTCTCTTTT
1 TCTTTTTCGATT-TCTTTT
33074955 TCTTTTTCGATTTCTTTT
1 TCTTTTTCGATTTCTTTT
33074973 TCT
1 TCT
33074976 GTGTTCCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.05, C:0.21, G:0.03, T:0.72
Consensus pattern (18 bp):
TCTTTTTCGATTTCTTTT
Found at i:33076040 original size:19 final size:18
Alignment explanation
Indices: 33076018--33076059 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
33076008 ATTTTTTAAA
*
33076018 TTTTT-AATTGATTTTGTC
1 TTTTTCAATT-ATTTTGAC
*
33076036 TTTTTCAATTTTTTTGAC
1 TTTTTCAATTATTTTGAC
33076054 TTTTTC
1 TTTTTC
33076060 TACTGATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.14, C:0.10, G:0.07, T:0.69
Consensus pattern (18 bp):
TTTTTCAATTATTTTGAC
Found at i:33103433 original size:45 final size:45
Alignment explanation
Indices: 33103369--33103460 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
33103359 TTAAGTAAAA
33103369 AAGTTTTTGGTTTATCAAATGGTTGTTCTCAAAGGTTGATAGTTT
1 AAGTTTTTGGTTTATCAAATGGTTGTTCTCAAAGGTTGATAGTTT
33103414 AAGTTTTTGGTTTATCAAATGGTTGTTCTCAAAGGTTGATAGTTT
1 AAGTTTTTGGTTTATCAAATGGTTGTTCTCAAAGGTTGATAGTTT
33103459 AA
1 AA
33103461 AACAAAGGAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.26, C:0.07, G:0.22, T:0.46
Consensus pattern (45 bp):
AAGTTTTTGGTTTATCAAATGGTTGTTCTCAAAGGTTGATAGTTT
Found at i:33103982 original size:34 final size:34
Alignment explanation
Indices: 33103926--33103991 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
33103916 TTAATTAATT
*
33103926 AGCTTGACAATTGAAGTCCCCGAACAGTCATTGA
1 AGCTTGACAATTAAAGTCCCCGAACAGTCATTGA
* *
33103960 AGCTTGACACTTAAAGTTCCCGAACAGTCATT
1 AGCTTGACAATTAAAGTCCCCGAACAGTCATT
33103992 AGAGTGGACT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (34 bp):
AGCTTGACAATTAAAGTCCCCGAACAGTCATTGA
Found at i:33112314 original size:121 final size:121
Alignment explanation
Indices: 33112100--33112342 Score: 441
Period size: 121 Copynumber: 2.0 Consensus size: 121
33112090 ATTTGAAAAC
*
33112100 ATTTTATTTTGGATTGATAAAATTCATTATTGAAATTCTATATGCTATTTGGCTAATACTCTATT
1 ATTTTATTTTGGAATGATAAAATTCATTATTGAAATTCTATATGCTATTTGGCTAATACTCTATT
*
33112165 TGTAATGACCTCAACTCGATCTGGTTAACCAGATTCAGATTTTGGGTGTTACTGTA
66 TGTAATGACCTCAACTCGATCTGGTTAACCAGATTCAGATCTTGGGTGTTACTGTA
33112221 ATTTTATTTTGGAATGATAAAATTCATTATTGAAATTCTATATGCTATTTGGCTAATACTCTATT
1 ATTTTATTTTGGAATGATAAAATTCATTATTGAAATTCTATATGCTATTTGGCTAATACTCTATT
* **
33112286 TGTAATGACCTCAACTCGATCTGGTTAACTAGATTTGGATCTTGGGTGTTACTGTA
66 TGTAATGACCTCAACTCGATCTGGTTAACCAGATTCAGATCTTGGGTGTTACTGTA
33112342 A
1 A
33112343 CACCCCAAAC
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 117 1.00
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.43
Consensus pattern (121 bp):
ATTTTATTTTGGAATGATAAAATTCATTATTGAAATTCTATATGCTATTTGGCTAATACTCTATT
TGTAATGACCTCAACTCGATCTGGTTAACCAGATTCAGATCTTGGGTGTTACTGTA
Found at i:33113045 original size:26 final size:26
Alignment explanation
Indices: 33112976--33113061 Score: 91
Period size: 26 Copynumber: 3.3 Consensus size: 26
33112966 CAGCCAACAC
* * *
33112976 AACAATATCGCAGCAAAATTGCTAGT
1 AACAGTATCGCAGCAAAGTTGCCAGT
* * *
33113002 AATAGGATCGCGGCAAAGTTGCCAGT
1 AACAGTATCGCAGCAAAGTTGCCAGT
* *
33113028 AACAGTATCGCAGCAAAGCTACCAGT
1 AACAGTATCGCAGCAAAGTTGCCAGT
*
33113054 CACAGTAT
1 AACAGTAT
33113062 ACTTCCTCCA
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (26 bp):
AACAGTATCGCAGCAAAGTTGCCAGT
Found at i:33115454 original size:28 final size:28
Alignment explanation
Indices: 33115395--33115517 Score: 140
Period size: 28 Copynumber: 4.4 Consensus size: 28
33115385 ATACGACATG
* * * *
33115395 CAGTAACAGTCTGGGCCTAAGCCCTAA-G
1 CAGTAATAGTATGGGCCTTAGCCC-AATA
*
33115423 CAGTATTAGTATGGGCCTTAGCCCAATA
1 CAGTAATAGTATGGGCCTTAGCCCAATA
* *
33115451 CAGTAGTAGTGTGGGCCTTAGCCCAATA
1 CAGTAATAGTATGGGCCTTAGCCCAATA
* * *
33115479 TAGTAACAGTGTGGGCCTTAGCCCAATA
1 CAGTAATAGTATGGGCCTTAGCCCAATA
33115507 CAGTAATAGTA
1 CAGTAATAGTA
33115518 CAATGTAGTA
Statistics
Matches: 81, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 2 0.02
28 79 0.98
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (28 bp):
CAGTAATAGTATGGGCCTTAGCCCAATA
Found at i:33115885 original size:27 final size:27
Alignment explanation
Indices: 33115855--33116087 Score: 276
Period size: 27 Copynumber: 8.6 Consensus size: 27
33115845 CATCTTTTAT
* *
33115855 GGGTATATCAGTCATTTTACCCTAT-GG
1 GGGTATTTCAGTCATTTTACCCT-TCGA
* * *
33115882 GGGTATTTCGGTCATTTTACACTTCGG
1 GGGTATTTCAGTCATTTTACCCTTCGA
* * *
33115909 GGGTATTT-TGATCATTTTACCTTTCGG
1 GGGTATTTCAG-TCATTTTACCCTTCGA
* *
33115936 GGGTATTTCAGTCATTTTACCTTTTGA
1 GGGTATTTCAGTCATTTTACCCTTCGA
*
33115963 GGGTATTTTAGTCATTTTACCCTTCGA
1 GGGTATTTCAGTCATTTTACCCTTCGA
33115990 GGGTATTTC-GATCATTTTACCCTTCGA
1 GGGTATTTCAG-TCATTTTACCCTTCGA
*
33116017 GAGTATTTCCA-TCATTTTACCCTTCGA
1 GGGTATTT-CAGTCATTTTACCCTTCGA
* *
33116044 GGGTATTTTAGTCATGTTACCCTTCGA
1 GGGTATTTCAGTCATTTTACCCTTCGA
33116071 GGGTATTTCAGTCATTT
1 GGGTATTTCAGTCATTT
33116088 GCCCACGAAT
Statistics
Matches: 180, Mismatches: 19, Indels: 14
0.85 0.09 0.07
Matches are distributed among these distances:
26 4 0.02
27 174 0.97
28 2 0.01
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.43
Consensus pattern (27 bp):
GGGTATTTCAGTCATTTTACCCTTCGA
Found at i:33115977 original size:81 final size:81
Alignment explanation
Indices: 33115855--33116087 Score: 308
Period size: 81 Copynumber: 2.9 Consensus size: 81
33115845 CATCTTTTAT
* * * ** * * *
33115855 GGGTATATCAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACACTTCGGGGGTATTTTGA
1 GGGTATTTCAGTCATTTTACCCTTTGAGGGTATTTTAGTCATTTTACCCTTCGAGGGTATTTCGA
* *
33115920 TCATTTTACCTTTCGG
66 TCATTTTACCCTTCGA
*
33115936 GGGTATTTCAGTCATTTTACCTTTTGAGGGTATTTTAGTCATTTTACCCTTCGAGGGTATTTCGA
1 GGGTATTTCAGTCATTTTACCCTTTGAGGGTATTTTAGTCATTTTACCCTTCGAGGGTATTTCGA
33116001 TCATTTTACCCTTCGA
66 TCATTTTACCCTTCGA
* * *
33116017 GAGTATTTCCA-TCATTTTACCCTTCGAGGGTATTTTAGTCATGTTACCCTTCGAGGGTATTTC-
1 GGGTATTT-CAGTCATTTTACCCTTTGAGGGTATTTTAGTCATTTTACCCTTCGAGGGTATTTCG
33116080 AGTCATTT
65 A-TCATTT
33116088 GCCCACGAAT
Statistics
Matches: 135, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
80 1 0.01
81 132 0.98
82 2 0.01
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.43
Consensus pattern (81 bp):
GGGTATTTCAGTCATTTTACCCTTTGAGGGTATTTTAGTCATTTTACCCTTCGAGGGTATTTCGA
TCATTTTACCCTTCGA
Found at i:33120113 original size:47 final size:47
Alignment explanation
Indices: 33120055--33120405 Score: 549
Period size: 47 Copynumber: 7.5 Consensus size: 47
33120045 ATTCAGCCAA
33120055 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
33120102 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
33120149 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * *
33120196 GAAAGTGTATATGTGTGATAAGGCCTAATAGCTGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
33120243 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
33120290 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * * * *
33120337 GAAAGTGTATATATGTCACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
33120384 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
33120406 TCCCAAAGGG
Statistics
Matches: 281, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 281 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:33120580 original size:37 final size:37
Alignment explanation
Indices: 33120524--33120602 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
33120514 CCGAGCTCTA
* *
33120524 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
33120561 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
33120598 AAGAC
1 AAGAC
33120603 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:33127276 original size:28 final size:28
Alignment explanation
Indices: 33127245--33127326 Score: 88
Period size: 28 Copynumber: 3.2 Consensus size: 28
33127235 GAGTCCTAAG
*
33127245 CAGTATCAATGTGGGCCTTAGCCCAATA
1 CAGTAGCAATGTGGGCCTTAGCCCAATA
*
33127273 CAGTAGC-A-GT--G---TAGCCTAATA
1 CAGTAGCAATGTGGGCCTTAGCCCAATA
*
33127294 TAGTAGCAATGTGGGCCTTAGCCCAATA
1 CAGTAGCAATGTGGGCCTTAGCCCAATA
33127322 CAGTA
1 CAGTA
33127327 ACAGTATAGT
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
21 15 0.36
22 1 0.02
23 2 0.05
24 1 0.02
25 1 0.02
26 2 0.05
27 1 0.02
28 19 0.45
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.24
Consensus pattern (28 bp):
CAGTAGCAATGTGGGCCTTAGCCCAATA
Found at i:33130026 original size:43 final size:42
Alignment explanation
Indices: 33129902--33130047 Score: 148
Period size: 43 Copynumber: 3.4 Consensus size: 42
33129892 CAATGGCATA
* * * * * *
33129902 TCCCAGATATGGTCTTACATGTTATCACATATTAATGCCATTG
1 TCCCAGACATGGTCTTATACGTAATCACATA-CAATGCCAATG
** * * * * *
33129945 TCTTACACAGGGTCTTATACGAAATCATATAACGATGCCAATG
1 TCCCAGACATGGTCTTATACGTAATCACAT-ACAATGCCAATG
33129988 TCCCAGACATGGTCTTATACGTAATCACAATACAATGCCAATG
1 TCCCAGACATGGTCTTATACGTAATCAC-ATACAATGCCAATG
33130031 TCCCAGACATGGTCTTA
1 TCCCAGACATGGTCTTA
33130048 CATGTTATCA
Statistics
Matches: 81, Mismatches: 20, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
43 78 0.96
44 3 0.04
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (42 bp):
TCCCAGACATGGTCTTATACGTAATCACATACAATGCCAATG
Found at i:33130998 original size:32 final size:32
Alignment explanation
Indices: 33130957--33131159 Score: 282
Period size: 32 Copynumber: 6.4 Consensus size: 32
33130947 GCTGCGATGC
* * *
33130957 TACTGATGGCTTTGTGTCGGTCATATTACTGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
33130989 TACTGATGGCTTTGTGCCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
*
33131021 TACTGATGGTTTTGTGCCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * *
33131053 TATTGATGGTTTTGTGCCGATCTTATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
*
33131085 TACTGATGGCTTTGTGCCGATCATATTACCAT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * * *
33131117 TATTGATGGCTTTGTGCCAAACATATTACTG-
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
*
33131148 TACTTATGGCTT
1 TACTGATGGCTT
33131160 GTAACCATTC
Statistics
Matches: 154, Mismatches: 17, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
31 10 0.06
32 144 0.94
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.41
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACCGT
Found at i:33139599 original size:36 final size:35
Alignment explanation
Indices: 33139542--33139610 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 35
33139532 GATCATATGC
*
33139542 CATGAAAACATATCCACATATTTACTATCACAAGG
1 CATGAAAACATATCCACATATTCACTATCACAAGG
* *
33139577 CATGAATAACATACTCTA-ATATTCACTTTCACAA
1 CATGAA-AACATA-TCCACATATTCACTATCACAA
33139611 CGGTCATCAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
35 6 0.21
36 20 0.69
37 3 0.10
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.29
Consensus pattern (35 bp):
CATGAAAACATATCCACATATTCACTATCACAAGG
Found at i:33141085 original size:30 final size:30
Alignment explanation
Indices: 33141069--33141178 Score: 139
Period size: 30 Copynumber: 3.7 Consensus size: 30
33141059 AGCTTCGGCT
* * * *
33141069 ATCGAATTATGAAAAGGGATGGTGACAACA
1 ATCGAACTATGAAAAGGGATGCTGACGACC
* * *
33141099 ATCAAACAATGAAAAGGGATGGTGACGACC
1 ATCGAACTATGAAAAGGGATGCTGACGACC
* *
33141129 GTCGAACAATGAAAAGGGATGCTGACGACC
1 ATCGAACTATGAAAAGGGATGCTGACGACC
33141159 ATCGAACTATGAAAAGGGAT
1 ATCGAACTATGAAAAGGGAT
33141179 AGCTTCGGCT
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 70 1.00
ACGTcount: A:0.42, C:0.15, G:0.27, T:0.16
Consensus pattern (30 bp):
ATCGAACTATGAAAAGGGATGCTGACGACC
Found at i:33141201 original size:60 final size:59
Alignment explanation
Indices: 33141032--33141202 Score: 173
Period size: 60 Copynumber: 2.8 Consensus size: 59
33141022 ACAGCGTATC
* * *
33141032 GACAATCATCAACTAATGGAAAGGGATAGCTTCGGCTATCGAATTATGAAAAGGGATGGT
1 GACAACCATCAACT-ATGAAAAGGGATAGCTTCGGCTATCGAATTATGAAAAGGGATGCT
* * * * * ** **
33141092 GACAACAATCAAACAATGAAAAGGGAT-GGTGACGACCGTCGAACAATGAAAAGGGATGCT
1 GACAACCATC-AACTATGAAAAGGGATAGCT-TCGGCTATCGAATTATGAAAAGGGATGCT
* *
33141152 GACGACCATCGAACTATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAA
1 GACAACCATC-AACTATGAAAAGGGATAGCTTCGGCTATCGAATTATGAAA
33141203 TAACTTCGTG
Statistics
Matches: 84, Mismatches: 24, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
59 2 0.02
60 77 0.92
61 5 0.06
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.19
Consensus pattern (59 bp):
GACAACCATCAACTATGAAAAGGGATAGCTTCGGCTATCGAATTATGAAAAGGGATGCT
Found at i:33144608 original size:3 final size:3
Alignment explanation
Indices: 33144600--33144642 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
33144590 TGTTGCTGAA
* * *
33144600 TAT TAT TAT TAT CAT TAT TAT TAC TAC TAT TAT TAT T-T TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
33144643 ATTACTTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:33145950 original size:14 final size:14
Alignment explanation
Indices: 33145931--33145959 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
33145921 TATTCTCGTA
33145931 CCACAAGCTTAAAT
1 CCACAAGCTTAAAT
33145945 CCACAAGCTTAAAT
1 CCACAAGCTTAAAT
33145959 C
1 C
33145960 ATGGTCAAAG
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:0.41, C:0.31, G:0.07, T:0.21
Consensus pattern (14 bp):
CCACAAGCTTAAAT
Found at i:33150213 original size:27 final size:27
Alignment explanation
Indices: 33150175--33150343 Score: 175
Period size: 27 Copynumber: 6.3 Consensus size: 27
33150165 TACCTGTACA
*
33150175 ATCATTTTACCCTATATGGGTAATTTG
1 ATCATTTTACCCTATAGGGGTAATTTG
33150202 ATCATTTTACCCTAT-GGGG-ATATTTCG
1 ATCATTTTACCCTATAGGGGTA-ATTT-G
* * *
33150229 GTCATTTTATCCTATAGGGGTATTTTG
1 ATCATTTTACCCTATAGGGGTAATTTG
* *
33150256 GTCATTTTACCCTATGGGGGT-ATTTCG
1 ATCATTTTACCCTATAGGGGTAATTT-G
* *
33150283 GTCATTTTACCCTAT-GAGGGTATTTTG
1 ATCATTTTACCCTATAG-GGGTAATTTG
* * *
33150310 ATCATTTTACCCTATAAGGGTATTTTA
1 ATCATTTTACCCTATAGGGGTAATTTG
33150337 ATCATTT
1 ATCATTT
33150344 CACCTATTTT
Statistics
Matches: 123, Mismatches: 11, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
25 1 0.01
26 11 0.09
27 100 0.81
28 10 0.08
29 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.18, T:0.44
Consensus pattern (27 bp):
ATCATTTTACCCTATAGGGGTAATTTG
Found at i:33150261 original size:54 final size:54
Alignment explanation
Indices: 33150176--33150324 Score: 237
Period size: 54 Copynumber: 2.8 Consensus size: 54
33150166 ACCTGTACAA
* *
33150176 TCATTTTACCCTATATGGGTAATTTGATCATTTTACCCTATGGGGATATTTCGG
1 TCATTTTACCCTATAGGGGTATTTTGATCATTTTACCCTATGGGGATATTTCGG
* * *
33150230 TCATTTTATCCTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTTTGATCATTTTACCCTATGGGGATATTTCGG
33150284 TCATTTTACCCTAT-GAGGGTATTTTGATCATTTTACCCTAT
1 TCATTTTACCCTATAG-GGGTATTTTGATCATTTTACCCTAT
33150325 AAGGGTATTT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 1 0.01
54 86 0.99
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.44
Consensus pattern (54 bp):
TCATTTTACCCTATAGGGGTATTTTGATCATTTTACCCTATGGGGATATTTCGG
Found at i:33150342 original size:81 final size:81
Alignment explanation
Indices: 33150174--33150343 Score: 227
Period size: 81 Copynumber: 2.1 Consensus size: 81
33150164 TTACCTGTAC
* * *
33150174 AATCATTTTACCCTATATGGGTAATTTGATCATTTTACCCTATGGGGATATTTCGGTCATTTTAT
1 AATCATTTTACCCTATAGGGGTAATTTGATCATTTTACCCTATGGGGATATTTCGATCATTTTAC
*
33150239 CCTATAGGGGTATTTT
66 CCTATAAGGGTATTTT
** * * *
33150255 GGTCATTTTACCCTATGGGGGT-ATTTCGGTCATTTTACCCTATGAGGG-TATTTTGATCATTTT
1 AATCATTTTACCCTATAGGGGTAATTT-GATCATTTTACCCTATG-GGGATATTTCGATCATTTT
33150318 ACCCTATAAGGGTATTTT
64 ACCCTATAAGGGTATTTT
33150336 AATCATTT
1 AATCATTT
33150344 CACCTATTTT
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
80 4 0.05
81 69 0.91
82 3 0.04
ACGTcount: A:0.22, C:0.15, G:0.18, T:0.44
Consensus pattern (81 bp):
AATCATTTTACCCTATAGGGGTAATTTGATCATTTTACCCTATGGGGATATTTCGATCATTTTAC
CCTATAAGGGTATTTT
Found at i:33158178 original size:22 final size:22
Alignment explanation
Indices: 33158153--33158199 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
33158143 CTAAGAGCCG
* *
33158153 TAAACAGGATAGCTATAAGCTA
1 TAAACAGAATAGCTACAAGCTA
*
33158175 TAAACAGAATGGCTACAAGCTA
1 TAAACAGAATAGCTACAAGCTA
33158197 TAA
1 TAA
33158200 GTACAGTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.21
Consensus pattern (22 bp):
TAAACAGAATAGCTACAAGCTA
Found at i:33158253 original size:26 final size:26
Alignment explanation
Indices: 33158233--33158286 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
33158223 AGCCATCAGT
*
33158233 AGCATCGCAGCAAAGCTGCCAGCAAC
1 AGCATCACAGCAAAGCTGCCAGCAAC
* *
33158259 AGTATCACAGCAAAGCTGCCAGTAAC
1 AGCATCACAGCAAAGCTGCCAGCAAC
33158285 AG
1 AG
33158287 TGTATGTGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.30, G:0.22, T:0.11
Consensus pattern (26 bp):
AGCATCACAGCAAAGCTGCCAGCAAC
Found at i:33158307 original size:27 final size:27
Alignment explanation
Indices: 33158277--33158341 Score: 91
Period size: 27 Copynumber: 2.4 Consensus size: 27
33158267 AGCAAAGCTG
33158277 CCAGTAACAGTG-TATGTGGCCA-AGCCA
1 CCAGTAACAGTGAT-TGTGG-CAGAGCCA
33158304 CCAGTAACAGTGATTGTGGCAGAGCCA
1 CCAGTAACAGTGATTGTGGCAGAGCCA
33158331 CCAGT-ACAGTG
1 CCAGTAACAGTG
33158342 CTTCCTCCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
26 8 0.22
27 27 0.75
28 1 0.03
ACGTcount: A:0.29, C:0.25, G:0.28, T:0.18
Consensus pattern (27 bp):
CCAGTAACAGTGATTGTGGCAGAGCCA
Found at i:33158447 original size:24 final size:24
Alignment explanation
Indices: 33158420--33158489 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 24
33158410 GTCATACCAT
33158420 TCACAGACAAATCAATCATTTAAA
1 TCACAGACAAATCAATCATTTAAA
* * * **
33158444 TCACAAATAAATCAGTCATTTCCA
1 TCACAGACAAATCAATCATTTAAA
33158468 TCAC-GAACAAATCAATCATTTA
1 TCACAG-ACAAATCAATCATTTA
33158490 CACTTGAGGG
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.46, C:0.23, G:0.04, T:0.27
Consensus pattern (24 bp):
TCACAGACAAATCAATCATTTAAA
Found at i:33158585 original size:27 final size:27
Alignment explanation
Indices: 33158555--33159293 Score: 804
Period size: 27 Copynumber: 27.5 Consensus size: 27
33158545 TTACATGGGC
*
33158555 ATTTCGGTCATTTAACCCTATGAGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* * *
33158582 ATTTCGATCATTTTATCCTATGGGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* *
33158609 ATTTCGGTCATTTTACCCAATGGGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* * *
33158636 ACTTCAGTCATTTTACCCTATGATGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* *
33158663 ATTTCAGTCATTTAACCCTATGAGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
** *
33158690 ATTTCAATCATTTTACCTTATG-GGGCT
1 ATTTCGGTCATTTTACCCTATGAGGG-T
*
33158717 A-TTCGGTTATTTTACCCTATG-GGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
33158742 ATTTCGGTCATTTTACCCTATGAGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* * * *
33158769 ATTTCGATCATTCTATCCTATGGGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* * * * * *
33158796 ATTTTGTTCATTTAAACTTATGGGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* *
33158823 ATTTTGGTCATTTTACCCTATGGGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* *
33158850 ATTTCAGTCATTTAACCCTATGAGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* * * *
33158877 ATTTCGATCACTTTACCTTATGGGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* * *
33158904 A-TTCGATTATTTTACCCTATGGGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
33158930 ATTTCGGTCATTTTACCCTATGAGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* * * * *
33158957 ATTTCGATCATTCTATCCTATGGGGGC
1 ATTTCGGTCATTTTACCCTATGAGGGT
* * * * *
33158984 ATTTTGGTCATTTAAACTTATGGGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* *
33159011 ATTTTGGTCATTTTACCCTATGGGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* * * *
33159038 ATTTCGATCATTCTATCCTATGAAGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
*
33159065 ATTTCGGTCATTCTACCCTATGAGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* *
33159092 ATTTCGGTCATTCTACCCTATGAAGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* *
33159119 ATTTCAGTCATTTAACCCTATGAGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* * *
33159146 ATTTCGATCATTCTACCCTATGGGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
*
33159173 ATTTCGATCATTTTACCCTATG-GAGGT
1 ATTTCGGTCATTTTACCCTATGAG-GGT
* * *
33159200 ATTTCGATCATTCTACCCTATGAGAGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* *
33159227 ATTTCAGTCATTCTACCCTATGAGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* * *
33159254 ATTTCGATAATTTTACCCTTTGAGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
33159281 ATTTCGGTCATTT
1 ATTTCGGTCATTT
33159294 AAAAACCTTT
Statistics
Matches: 606, Mismatches: 100, Indels: 12
0.84 0.14 0.02
Matches are distributed among these distances:
25 2 0.00
26 65 0.11
27 538 0.89
28 1 0.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (27 bp):
ATTTCGGTCATTTTACCCTATGAGGGT
Done.