Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 117 of 295
Found at i:35206321 original size:45 final size:45
Alignment explanation
Indices: 35206257--35206428 Score: 240
Period size: 45 Copynumber: 3.8 Consensus size: 45
35206247 GGAGTAGACC
*
35206257 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAAGATAGCA
* **
35206302 AGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAGGCAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAAGATAGCA
* * *
35206347 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAAACTGAAA-ATAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACT-AAAGATAGCA
* *
35206392 AGTCTTATCTTCATGAAGTTGCAG-GAAGCAGACTAAA
1 AGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAA
35206429 ATTACAGATC
Statistics
Matches: 111, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
43 3 0.03
44 8 0.07
45 98 0.88
46 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (45 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAAGATAGCA
Found at i:35206410 original size:90 final size:89
Alignment explanation
Indices: 35206257--35206425 Score: 277
Period size: 90 Copynumber: 1.9 Consensus size: 89
35206247 GGAGTAGACC
* * *
35206257 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAGTCTTATCTCCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAAACTAAAGATAGCAAGTCTTATCTCCATGAAGTT
35206322 GCAGTGAAGCAGACTGAAGGCAGCA
66 GCAG-GAAGCAGACTGAAGGCAGCA
*
35206347 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAAACTGAAA-ATAGCAAGTCTTATCTTCATGAAGT
1 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAAACT-AAAGATAGCAAGTCTTATCTCCATGAAGT
35206411 TGCAGGAAGCAGACT
65 TGCAGGAAGCAGACT
35206426 AAAATTACAG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
89 10 0.14
90 61 0.82
91 3 0.04
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (89 bp):
AGTCTTATCTCCCTGAAGTTACAGTGGAGCAAACTAAAGATAGCAAGTCTTATCTCCATGAAGTT
GCAGGAAGCAGACTGAAGGCAGCA
Found at i:35206501 original size:87 final size:88
Alignment explanation
Indices: 35206392--35206562 Score: 265
Period size: 88 Copynumber: 2.0 Consensus size: 88
35206382 GAAAATAGCA
* * *
35206392 AGTCTTATCTTCATGAAGTTGCAGGAAGCAGACT-AAAATTACAGATCTTATCTCCATGTACC-A
1 AGTCTTATCTTCATGAAATTGCAGGAAGCAGACTGAAAATTACAAATCTTATCTCCATATACCGA
35206455 GCTATGGAGCAGATCTCAGCTACT
66 -CTATGGAGCAGATCTCAGCTACT
* *
35206479 AGTCTTATCTTCCTGAAATTGCAGGAAGCAGACTGAAAATTACAAATCTTATCTCCATATATCGA
1 AGTCTTATCTTCATGAAATTGCAGGAAGCAGACTGAAAATTACAAATCTTATCTCCATATACCGA
*
35206544 CTATGGAGCAGCTCTCAGC
66 CTATGGAGCAGATCTCAGC
35206563 CACCAACCTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
87 32 0.42
88 43 0.57
89 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.29
Consensus pattern (88 bp):
AGTCTTATCTTCATGAAATTGCAGGAAGCAGACTGAAAATTACAAATCTTATCTCCATATACCGA
CTATGGAGCAGATCTCAGCTACT
Found at i:35207901 original size:24 final size:26
Alignment explanation
Indices: 35207874--35207935 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
35207864 TATTTCATTA
35207874 TATCTTACTATTT-TTTTAGT-TTTT
1 TATCTTACTATTTATTTTAGTATTTT
* * *
35207898 TATCCTACCATTTATTTTATTATTTT
1 TATCTTACTATTTATTTTAGTATTTT
35207924 TAT-TATACTATT
1 TATCT-TACTATT
35207936 ATCCATTATA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
24 11 0.37
25 6 0.20
26 13 0.43
ACGTcount: A:0.23, C:0.11, G:0.02, T:0.65
Consensus pattern (26 bp):
TATCTTACTATTTATTTTAGTATTTT
Found at i:35214970 original size:4 final size:4
Alignment explanation
Indices: 35214961--35214990 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
35214951 TTTCTAAAAT
35214961 ATTA ATTA ATTA ATTA ATTA ATTCA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATT-A ATTA A
35214991 ATTATTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (4 bp):
ATTA
Found at i:35224864 original size:30 final size:30
Alignment explanation
Indices: 35224774--35224872 Score: 153
Period size: 30 Copynumber: 3.3 Consensus size: 30
35224764 TAGGTACAAG
35224774 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* * *
35224804 AGGTAGTGAAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
35224834 TGGTGGTGGAGTAATTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
35224864 TGGTGGTGG
1 TGGTGGTGG
35224873 CAAAGGCTAG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.18, C:0.05, G:0.48, T:0.28
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:35225915 original size:87 final size:86
Alignment explanation
Indices: 35225612--35226173 Score: 375
Period size: 87 Copynumber: 6.7 Consensus size: 86
35225602 ACGTGAGCCA
* * **
35225612 AGGCTCAACTCACTTCTCGCAATATGAGTTGA--TTTTT-A-AAACAAAATTTGTAAAATAGATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAAAA-TTG-AAAA-AAAAA
* * * **
35225673 TTGAAAATACCTCGGTATGTGACCCA
63 TTGAAAATACCTCAG--CGTGTCCTG
* *
35225699 AGGCTTAACTCACCTCTCGTAATATGAGTTGA--TTTTTG-CAAAGCATAAATTGAAAAAAAAAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAA-CA-AAATTG---AAAAAA-
*
35225761 ATCAATTGAAAATACCTCGGCGTGTGACCTG
60 A--AATTGAAAATACCTCAGCGTGT--CCTG
*
35225792 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGACAAACATAAATTGAAAAAAAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACA-AAATTGAAAAAAAAATT
*
35225857 GAAAATGCCTCAGCGTGTCCTG
65 GAAAATACCTCAGCGTGTCCTG
* * * * *
35225879 AGGCTGAACTCACATCTCGCAATATGAGTTGATTTTTTTG-GAAA-AACA--G------AATTTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAAAATTGAAAAAAAAATTG
** *
35225934 AAAATACCTCAGCGTGTGAGTCA
66 AAAATACCTCAGCGTGT-CCT-G
* *
35225957 AGGCTCAATTCACCAT-TCGCAATATGAGCTGATTTTTTTGA-AACACAGAAATTGAAGAACAAA
1 AGGCTCAACTCACC-TCTCGCAATATGAGTTGATTTTTTTGACAA-ACA-AAATTGAA-AA-AAA
* * *
35226020 AATGGAAAACACCTCAGC--GTCTTG
61 AATTGAAAATACCTCAGCGTGTCCTG
* *
35226044 AGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGA-AAGAC---A--G------AAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAA-ACAAAATTGAAAAAAAAATT
* *
35226097 GAAAATACCTCAACGTGTCTTG
65 GAAAATACCTCAGCGTGTCCTG
35226119 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAAACAAAAATTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAAC-AAAATTGAAA
35226174 TTACCTCAGC
Statistics
Matches: 388, Mismatches: 43, Indels: 93
0.74 0.08 0.18
Matches are distributed among these distances:
73 25 0.06
74 2 0.01
75 36 0.09
76 21 0.05
77 2 0.01
78 36 0.09
79 3 0.01
80 1 0.00
81 3 0.01
82 1 0.00
83 2 0.01
84 2 0.01
85 1 0.00
86 4 0.01
87 116 0.30
88 4 0.01
89 27 0.07
90 4 0.01
91 25 0.06
92 6 0.02
93 48 0.12
95 15 0.04
96 4 0.01
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (86 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAAAATTGAAAAAAAAATTG
AAAATACCTCAGCGTGTCCTG
Found at i:35226451 original size:148 final size:146
Alignment explanation
Indices: 35226014--35226449 Score: 791
Period size: 148 Copynumber: 3.0 Consensus size: 146
35226004 GAAATTGAAG
* **
35226014 AACAAAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
1 AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
35226079 TTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
66 TTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
35226144 GAGTTGATTTTTGACA
131 GAGTTGATTTTTGACA
35226160 AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
1 AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGA--T
* * *
35226225 TTTTTTTAAAGAAAGAAATTTAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
64 TTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
35226290 ATGAGTTGATTTTTGACA
129 ATGAGTTGATTTTTGACA
35226308 AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
1 AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
*
35226373 TTTTGGAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
66 TTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
35226438 GAGTTGATTTTT
131 GAGTTGATTTTT
35226450 TTTGAAACAT
Statistics
Matches: 278, Mismatches: 10, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
146 135 0.49
148 143 0.51
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (146 bp):
AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
TTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTGACA
Found at i:35226689 original size:73 final size:73
Alignment explanation
Indices: 35226563--35226804 Score: 340
Period size: 73 Copynumber: 3.3 Consensus size: 73
35226553 AAGGCAAAAA
* * * *
35226563 TTGAAAAACAGAAATTGAAAACACCTCAGCATGCCCTAAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
35226628 GTTGATTT
66 GTTGATTT
* * *
35226636 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCTGAGGCTCAGCTTACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
35226701 GTTGATTT
66 GTTGATTT
* * * * *
35226709 TTGAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
35226774 GTTGATTTT
66 GTTGA-TTT
* *
35226783 TTGAAAAGCATAAATTGAAAAA
1 TTGAAAAACAGAAATT-AAAAA
35226805 ACGGAATTTG
Statistics
Matches: 150, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
73 128 0.85
74 19 0.13
75 3 0.02
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (73 bp):
TTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:35226812 original size:14 final size:15
Alignment explanation
Indices: 35226797--35226831 Score: 56
Period size: 13 Copynumber: 2.5 Consensus size: 15
35226787 AAAGCATAAA
35226797 TTGAAAAAACGGAAT
1 TTGAAAAAACGGAAT
35226812 TTG--AAAACGGAAT
1 TTGAAAAAACGGAAT
35226825 TTGAAAA
1 TTGAAAA
35226832 GACCTCGGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
13 13 0.72
15 5 0.28
ACGTcount: A:0.51, C:0.06, G:0.20, T:0.23
Consensus pattern (15 bp):
TTGAAAAAACGGAAT
Found at i:35226820 original size:13 final size:13
Alignment explanation
Indices: 35226802--35226831 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
35226792 ATAAATTGAA
35226802 AAAACGGAATTTG
1 AAAACGGAATTTG
35226815 AAAACGGAATTTG
1 AAAACGGAATTTG
35226828 AAAA
1 AAAA
35226832 GACCTCGGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (13 bp):
AAAACGGAATTTG
Found at i:35226949 original size:250 final size:247
Alignment explanation
Indices: 35226342--35227541 Score: 702
Period size: 261 Copynumber: 4.7 Consensus size: 247
35226332 GTCTTGAGGT
* * * * * * *
35226342 TCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGGAAGACAGAAATTGAAAATACCTCAACGT
1 TCAACTCACCTCTCACAATACGAGTTGA--TTTTTGAAAAACAGAAATTAAAAATACCTCAGCGT
* * * **
35226407 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAACATAAATTAAAAAAA
64 GCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTCTTTTG-----------AAAAGCA
35226472 CGAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
117 -G-AAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* * **
35226537 GAAAAGCAGAATTTGTAAGGCAAAAATTGAAAAACAGAAATTGAAAACACCTCAGCATGCCCTAA
180 GAAAAGCAGAAATTGAAAAACAAAAATTGAAAAACAGAAATTGAAAACACCTCAGCATGCCCTAA
*
35226602 GGC
245 GAC
* * *
35226605 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAATACCTCGGCGTGC
1 TCAACTCACCTCTCACAATACGAGTTGATTTTTGAAAAACAGAAATTAAAAATACCTCAGCGTGC
* * * *
35226670 CCTGAGGCTCAGCTTACCTCTCGCAATATGAGTTGA-T-TTTTGAAAAGCATAAATTGAAATTAC
66 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAC
* *
35226733 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCATAAAT
131 CTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTGAAAAGCAGAAAT
** * * * * * *
35226798 TGAAAAAACGGAATTTG-AAAACGGAATTTGAAAAGACCTCGGCGTATGGCCC-GAGAC
193 TG-AAAAACAAAAATTGAAAAACAGAAATTGAAAACACCTCAGC--AT-GCCCTAAGAC
* * * *
35226855 TCAACTCACCTTTCACAATACGAGTTGATTTTTTG-ACAACAGAAATTGAAATTACCTCAGCGTG
1 TCAACTCACCTCTCACAATACGAGTTGA-TTTTTGAAAAACAGAAATTAAAAATACCTCAGCGTG
*
35226919 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGTAGAAATTGAAAAGC
65 CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTC---T------T-----TTGAAAAGC
* *
35226984 AGAAATTGAAAATACCTCAGCACGTGAT-CCAAGGCTCAACTCACCTCTTGCAATATGAGTTGGA
116 AGAAATTGAAAATACCTCAG--CGTG-TCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-GA
* * * * * *
35227048 TTT------------TTG-AAAA-ATAAATTGACAAACGGAAATTGAAAATACCTCAGC--GTCT
177 TTTGAAAAGCAGAAATTGAAAAACAAAAATTGAAAAACAGAAATTGAAAACACCTCAGCATGCCC
* *
35227097 TGAGGC
242 TAAGAC
* * *
35227103 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATTTTTTTTTGAAAGACAGAAATTGAAAA
1 TCAACTCACCTCTCACAATACGAGTTGA--TTTTTGA----------AAA-ACAGAAATTAAAAA
* * * * *
35227168 TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAG
53 TACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGCAG
* * *
35227233 AAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAATTCACTTCTCGCAATATGAGTTGA-TT--
118 AAATTGAAAA-TACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGA
* * * * * * **
35227294 ----C-----TTTAAAAACAGACATT--AAAATAGAAATT-AAACATAGCTCAGCACGTGAGC-A
182 AAAGCAGAAATTGAAAAACAAAAATTGAAAAACAGAAATTGAAA-ACACCTCAGCA--TGCCCTA
*
35227346 AGGC
244 AGAC
* * * * * * *
35227350 TCAACTCACTTCTCGCAATATGAATTGATTTTTTTAAAAGACAGAAATTGAAAATACCTCAACGT
1 TCAACTCACCTCTCACAATACGAGTTGA-TTTTTGAAAA-ACAGAAATTAAAAATACCTCAGCGT
* * * *
35227415 GTCTTGAGGCTCAACTCACCTCCTTGCAATATGAGTTGA-T-TTTTGAAAACAGAATTTGAAAAA
64 GCCCTGAGGCTCAACTCACCT-CTCGCAATATGAGTTGATTCTTTTG-AAA-AGCA---G-----
*
35227478 CAAATTTTGAAAATACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTAGATTT
118 -AAA--TTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
35227542 TTTTGAAAAC
Statistics
Matches: 779, Mismatches: 89, Indels: 153
0.76 0.09 0.15
Matches are distributed among these distances:
235 5 0.01
236 54 0.07
237 18 0.02
240 1 0.00
243 5 0.01
244 23 0.03
245 93 0.12
246 19 0.02
247 92 0.12
248 84 0.11
249 19 0.02
250 89 0.11
251 16 0.02
252 27 0.03
254 3 0.00
255 1 0.00
258 6 0.01
259 1 0.00
260 2 0.00
261 127 0.16
263 27 0.03
266 30 0.04
268 34 0.04
269 3 0.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (247 bp):
TCAACTCACCTCTCACAATACGAGTTGATTTTTGAAAAACAGAAATTAAAAATACCTCAGCGTGC
CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAC
CTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGCAGAAATTGA
AAAACAAAAATTGAAAAACAGAAATTGAAAACACCTCAGCATGCCCTAAGAC
Found at i:35226980 original size:14 final size:14
Alignment explanation
Indices: 35226961--35226995 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
35226951 GTTGATTCTT
*
35226961 TTGAAAAGTAGAAA
1 TTGAAAAGCAGAAA
35226975 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
35226989 TTGAAAA
1 TTGAAAA
35226996 TACCTCAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.20, T:0.20
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:35227213 original size:86 final size:84
Alignment explanation
Indices: 35226886--35227384 Score: 418
Period size: 86 Copynumber: 5.9 Consensus size: 84
35226876 GAGTTGATTT
* * *
35226886 TTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
35226951 GTTGATTCTTTTGAAAAGTAGAA
66 GTTGATTTTTTTG-AAA-T--AA
* * *
35226974 ATTGAAAAGCAGAAATTGAAAATACCTCAGCACGTGATCC-AAGGCTCAACTCACCTCTTGCAAT
1 TTTGAAAA-CAGAAATTGAAAATACCTCA--ACGTG-TCCTGAGGCTCAACTCACCTCTCGCAAT
***
35227038 ATGAGTTGGATTTTTGAAAAATAA
62 ATGAGTT-GATTTTTTTGAAATAA
* * * *
35227062 ATTGACAAACGGAAATTGAAAATACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTTGA-AAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
** **
35227125 AGTTGATTTTTTTGATTTTTT
65 AGTTGATTTTTTTGA-AATAA
*
35227146 TTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
35227211 AGTTGATTTTTTTG-----A
65 AGTTGATTTTTTTGAAATAA
* * *
35227226 ----AAAACAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAATTCACTTCTCGCAATATG
1 TTTGAAAACAGAAATTGAAAA-TACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
* ** *
35227286 AGTTGATTCTTTAAAAACAGA
65 AGTTGATTTTTTTGAAATA-A
* * * ** * *
35227307 CATT-AAAATAGAAATT-AAACATAGCTCAGCACGTGAGC-AAGGCTCAACTCACTTCTCGCAAT
1 -TTTGAAAACAGAAATTGAAA-ATACCTCA--ACGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
*
35227369 ATGAATTGATTTTTTT
62 ATGAGTTGATTTTTTT
35227385 AAAAGACAGA
Statistics
Matches: 343, Mismatches: 43, Indels: 52
0.78 0.10 0.12
Matches are distributed among these distances:
74 4 0.01
75 59 0.17
76 3 0.01
81 1 0.00
83 12 0.03
84 55 0.16
85 22 0.06
86 83 0.24
87 5 0.01
88 31 0.09
89 22 0.06
90 1 0.00
91 36 0.10
92 9 0.03
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (84 bp):
TTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTGAAATAA
Found at i:35227227 original size:75 final size:75
Alignment explanation
Indices: 35227142--35227476 Score: 292
Period size: 75 Copynumber: 4.3 Consensus size: 75
35227132 TTTTTTGATT
*
35227142 TTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAA
1 TTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAA
35227207 TATGAGTTGA
66 TATGAGTTGA
* * * *
35227217 TTTTTTTGAAAAACAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAATTCACTTCTCGCA
1 TTTTTTTGAAAAACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCA
35227281 ATATGAGTTGA
65 ATATGAGTTGA
* * ** * * * **
35227292 -TTCTTT-AAAAACAGACATT-AAAATAGAAATTAAACATAG-CTCAGCACGTGAGCAAGGCTCA
1 TTTTTTTGAAAAACAGAAATTGAAAAT---ACCTCAACGT-GTCT-TG-A-G-GCTCAA--CTC-
*
35227353 ACTCACTTCTCGCAATATGAATTGA
55 A--C-C-TCTCGCAATATGAGTTGA
*
35227378 TTTTTTT-AAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCCTTGC
1 TTTTTTTGAAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCT-CTCGC
35227442 AATATGAGTTGA
64 AATATGAGTTGA
*
35227454 --TTTTTG-AAAACAGAATTTGAAAA
1 TTTTTTTGAAAAACAGAAATTGAAAA
35227477 ACAAATTTTG
Statistics
Matches: 207, Mismatches: 31, Indels: 46
0.73 0.11 0.16
Matches are distributed among these distances:
72 1 0.00
73 29 0.14
74 17 0.08
75 72 0.35
76 18 0.09
77 2 0.01
78 1 0.00
79 5 0.02
80 3 0.01
81 2 0.01
82 5 0.02
83 1 0.00
84 2 0.01
85 2 0.01
86 25 0.12
87 9 0.04
88 8 0.04
89 5 0.02
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.30
Consensus pattern (75 bp):
TTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAA
TATGAGTTGA
Found at i:35227293 original size:161 final size:161
Alignment explanation
Indices: 35226854--35227556 Score: 707
Period size: 161 Copynumber: 4.3 Consensus size: 161
35226844 TGGCCCGAGA
* * * * *
35226854 CTCAACTCACCTTTCACAATACGAGTTGA-TTTTTTG-ACAACAGAAATTGAAATTACCTCAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCG
*
35226917 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGTAGAAATTGAAAA
66 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTT-AAAA-CAGAAATTGAAAA
35226982 GCAGAAATTGAAAATACCTCAGCACGTGATCCAAGG
128 -CAGAAATTGAAAATACCTCA-CACGTGATCCAAGG
* * *
35227018 CTCAACTCACCTCTTGCAATATGAGTTGGATTTTTGAAAAATAAATTGACAAACGGAAATTGAAA
1 CTCAACTCACCTCTCGCAATATGAGTT-GA-TTTT------T---TTGAAAAACAGAAATTGAAA
* ** ******
35227083 ATACCTCAGC--GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATTTTTT
55 ATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAACAGAA
* **
35227146 TTTGAAAGACAGAAATTGAAAATACCTCA-ACGTG-TCTTGAGG
120 ATTGAAA-ACAGAAATTGAAAATACCTCACACGTGATC-CAAGG
35227188 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATT-AAAATTACCTCAGC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAA-TACCTCAGC
* * * * *
35227252 GTGTCCTGAGGCTCAATTCACTTCTCGCAATATGAGTTGATTCTTTAAAAACAGACATT-AAAAT
65 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTAAAACAGAAATTGAAAAC
* *
35227316 AGAAATT-AAACATAGCTCAGCACGTGA-GCAAGG
129 AGAAATTGAAA-ATACCTCA-CACGTGATCCAAGG
* * *
35227349 CTCAACTCACTTCTCGCAATATGAATTGATTTTTTT-AAAAGACAGAAATTGAAAATACCTCAAC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA-ACAGAAATTGAAAATACCTCAGC
* * * *
35227413 GTGTCTTGAGGCTCAACTCACCTCCTTGCAATATGAGTTGATTTTTGAAAACAGAATTTGAAAAA
65 GTGTCCTGAGGCTCAACTCACCT-CTCGCAATATGAGTTGATTTTTTAAAACAGAAATTG-AAAA
* * * *
35227478 CA-AATTTTGAAAATACCTCA-GCGTG-CCCGAGG
128 CAGAA-ATTGAAAATACCTCACACGTGATCCAAGG
*
35227510 CTCAACTCACCTCTCGCAATATGAGTAGATTTTTTTG-AAAACAGAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA
35227557 AAAACATCAA
Statistics
Matches: 448, Mismatches: 59, Indels: 68
0.78 0.10 0.12
Matches are distributed among these distances:
158 4 0.01
159 26 0.06
160 26 0.06
161 171 0.38
162 36 0.08
163 14 0.03
164 26 0.06
165 2 0.00
167 3 0.01
168 4 0.01
169 4 0.01
170 34 0.08
172 27 0.06
173 3 0.01
174 4 0.01
175 39 0.09
176 3 0.01
177 22 0.05
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (161 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCG
TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAACAGAAATTGAAAACAG
AAATTGAAAATACCTCACACGTGATCCAAGG
Found at i:35227535 original size:247 final size:243
Alignment explanation
Indices: 35226854--35227543 Score: 711
Period size: 247 Copynumber: 2.8 Consensus size: 243
35226844 TGGCCCGAGA
* * * * * *
35226854 CTCAACTCACCTT-TCACAATACGAGTTGA-TTTTTTGACA-ACAGAAATTGAAATTACCTCAGC
1 CTCAACTCA-CTTCTCGCAATATGAATTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAAC
* *
35226916 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGTAGAAATTGAAA
65 GTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T-TTTTGAAAA--AGAATTTGAAA
* * * *
35226981 AGCAGAAATTGAAAATACCTCAGCACGTGATCCAAGGCTCAACTCACCTCTTGCAATATGAGTTG
126 AACAGAAATTGAAAATACCTCAG--CGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-
* * **
35227046 GATTTTTGAAAAATA-AATTGACAAACGGAAATTGAAAATACCTCAGCGTCTTGAGG
188 GATTTTT-AAAAACAGAATTGACAAACAGAAATTGAAAATACCTCAGCGTCGAGAGG
*
35227102 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATTTTTTTTTGAAAGACAGAAATTGAAA
1 CTCAACTCACTTCTCGCAATATGA----A-----TTGA--TTTTTTTGAAAGACAGAAATTGAAA
35227167 ATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT---------T
55 ATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAGAAT
* * * *
35227222 TTGAAAAACAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAATTCACTTCTCGCAATATG
120 TTGAAAAACAGAAATTGAAAA-TACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
* *
35227286 AGTTGATTCTTTAAAAACAGACATT-A-AAATAGAAATT-AAACATAGCTCAGCACGT-GAGCAA
184 AGTTGATT-TTTAAAAACAGA-ATTGACAAACAGAAATTGAAA-ATACCTCAG--CGTCGAG--A
35227347 GG
242 GG
*
35227349 CTCAACTCACTTCTCGCAATATGAATTGATTTTTTTAAAAGACAGAAATTGAAAATACCTCAACG
1 CTCAACTCACTTCTCGCAATATGAATTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAACG
*
35227414 TGTCTTGAGGCTCAACTCACCTCCTTGCAATATGAGTTGATTTTTGAAAACAGAATTTGAAAAAC
66 TGTCTTGAGGCTCAACTCACCT-CTCGCAATATGAGTTGATTTTTGAAAA-AGAATTTGAAAAAC
* *
35227479 A-AATTTTGAAAATACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTAGATTT
129 AGAA-ATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
35227542 TT
193 TT
35227544 TTGAAAACAG
Statistics
Matches: 374, Mismatches: 31, Indels: 76
0.78 0.06 0.16
Matches are distributed among these distances:
236 57 0.15
237 16 0.04
238 8 0.02
243 4 0.01
244 27 0.07
245 38 0.10
246 13 0.03
247 87 0.23
248 43 0.11
249 4 0.01
257 4 0.01
258 4 0.01
260 9 0.02
261 60 0.16
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (243 bp):
CTCAACTCACTTCTCGCAATATGAATTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAACG
TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAGAATTTGAAAAACAG
AAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTA
AAAACAGAATTGACAAACAGAAATTGAAAATACCTCAGCGTCGAGAGG
Found at i:35227549 original size:87 final size:87
Alignment explanation
Indices: 35227397--35227555 Score: 241
Period size: 87 Copynumber: 1.8 Consensus size: 87
35227387 AAGACAGAAA
** * *
35227397 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCCTTGCAATATGAGTTGATTTTTGAA
1 TTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCCTCGCAATATGAGTAGATTTTTGAA
35227462 AACAGAATTTGAAAAACAAATT
66 AACAGAATTTGAAAAACAAATT
*
35227484 TTGAAAATACCTCAGCGTG-CCCGAGGCTCAACTCACCT-CTCGCAATATGAGTAGATTTTTTTG
1 TTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCCTCGCAATATGAGTAGA--TTTTTG
35227547 AAAACAGAA
64 AAAACAGAA
35227556 AAAAACATCA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
85 15 0.23
86 17 0.26
87 33 0.51
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (87 bp):
TTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCCTCGCAATATGAGTAGATTTTTGAA
AACAGAATTTGAAAAACAAATT
Found at i:35234232 original size:16 final size:15
Alignment explanation
Indices: 35234206--35234240 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
35234196 TGATGTGAAT
35234206 AATATAAAATATTAA
1 AATATAAAATATTAA
*
35234221 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
35234237 AATA
1 AATA
35234241 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:35234411 original size:20 final size:20
Alignment explanation
Indices: 35234354--35234413 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
35234344 AATACTACAT
35234354 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
35234373 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
35234396 AAATATGTACATAATATA
1 AAATATGTACATAATATA
35234414 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:35234452 original size:22 final size:23
Alignment explanation
Indices: 35234391--35234477 Score: 86
Period size: 25 Copynumber: 3.6 Consensus size: 23
35234381 ACGTGATAAT
*
35234391 ATTAAAAATATGTACATAATATA
1 ATTAAAAATATATACATAATATA
* *
35234414 GTGTAAAAAATACATACATAATATA
1 AT-T-AAAAATATATACATAATATA
*
35234439 ATT-AAAATATATACATAAGATAA
1 ATTAAAAATATATACATAATAT-A
35234462 CATGTAAAAATATATA
1 -AT-TAAAAATATATA
35234478 TATATAAATA
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
22 16 0.31
23 2 0.04
24 4 0.08
25 20 0.38
26 10 0.19
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (23 bp):
ATTAAAAATATATACATAATATA
Found at i:35234500 original size:15 final size:14
Alignment explanation
Indices: 35234469--35234533 Score: 55
Period size: 14 Copynumber: 4.6 Consensus size: 14
35234459 TAACATGTAA
35234469 AAATATATATATAT
1 AAATATATATATAT
35234483 AAATA-ATATAGTATT
1 AAATATATATA-TA-T
* *
35234498 AAAGATATATACAT
1 AAATATATATATAT
35234512 AAA-ATAGTATA-AT
1 AAATATA-TATATAT
*
35234525 ATATATATA
1 AAATATATA
35234534 CGTAATATAG
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
13 14 0.33
14 18 0.42
15 6 0.14
16 5 0.12
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (14 bp):
AAATATATATATAT
Found at i:35234513 original size:25 final size:25
Alignment explanation
Indices: 35234477--35234607 Score: 100
Period size: 25 Copynumber: 5.6 Consensus size: 25
35234467 AAAAATATAT
*
35234477 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
35234502 ATATATACATAAAATAGTA-TAATAT
1 ATATATACATAATATAGTATTAA-AG
* * *
35234527 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
*
35234551 A-ATATACCT-A-ATA-TATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
35234572 A-ATATATATAATATAATATT-AAG
1 ATATATACATAATATAGTATTAAAG
*
35234595 AAATATA-ATAATA
1 ATATATACATAATA
35234608 ACAAAAAAAG
Statistics
Matches: 86, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
20 3 0.03
21 12 0.14
22 2 0.02
23 20 0.23
24 14 0.16
25 34 0.40
26 1 0.01
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:35234595 original size:23 final size:23
Alignment explanation
Indices: 35234479--35234607 Score: 70
Period size: 23 Copynumber: 5.5 Consensus size: 23
35234469 AAATATATAT
* *
35234479 ATATAAATAATATAGTATTAAAGA
1 ATATATATAATATAATATT-AAGA
* * * *
35234503 TATATACATAAAATAGTA-TAATA
1 -ATATATATAATATAATATTAAGA
*
35234526 TATATATACGTAATATAGA-ATTTAGA
1 -ATATATA--TAATATA-ATATTAAGA
** *
35234552 ATATACCTAATAT-AT-TAAAGA
1 ATATATATAATATAATATTAAGA
35234573 ATATATATAATATAATATTAAGA
1 ATATATATAATATAATATTAAGA
35234596 A-ATATAATAATA
1 ATATAT-ATAATA
35234608 ACAAAAAAAG
Statistics
Matches: 81, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
21 16 0.20
22 6 0.07
23 28 0.35
24 1 0.01
25 27 0.33
26 3 0.04
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (23 bp):
ATATATATAATATAATATTAAGA
Found at i:35234599 original size:24 final size:23
Alignment explanation
Indices: 35234563--35234607 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
35234553 TATACCTAAT
35234563 ATATTAAAGAATATATATAATATA
1 ATATTAAAGAATATA-ATAATATA
35234587 ATATT-AAGAAATATAATAATA
1 ATATTAAAG-AATATAATAATA
35234608 ACAAAAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (23 bp):
ATATTAAAGAATATAATAATATA
Found at i:35235127 original size:30 final size:30
Alignment explanation
Indices: 35235086--35235184 Score: 162
Period size: 30 Copynumber: 3.3 Consensus size: 30
35235076 TAGGTACAAG
*
35235086 TGGTGGTGGAGCAAGTGTGGCTAATGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
35235116 AGGTAGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
35235146 TTGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
35235176 TGGTGGTGG
1 TGGTGGTGG
35235185 CAAAGGCTAA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.18, C:0.06, G:0.48, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:35236093 original size:90 final size:88
Alignment explanation
Indices: 35235901--35236381 Score: 380
Period size: 90 Copynumber: 5.4 Consensus size: 88
35235891 ACGTGAGCCA
* * * *
35235901 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT-AAAACA-AAATTTGTAAAACAGAT-TT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGCAAACATAAATTT-TAAAACAAATAAT
* ** *
35235963 TGAAAATACCTTGGTATGTAACCCG
65 TGAAAATACCTCGGCGTGT-ACCTG
* *
35235988 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGCAAAGCATAAATTTTAAAAAAAATCAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGCAAA-CATAAATTTTAAAACAAAT-AA
35236053 TTGAAAATACCTCGGCGTGTGACCTG
64 TTGAAAATACCTCGGCGTGT-ACCTG
* *
35236079 AGG-TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAA-TTGAAAACAAAGA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG-CAAACATAAATTTTAAAACAAA-T
**
35236142 AATTGAAAATACCTCAACGTGT-CCTG
62 AATTGAAAATACCTCGGCGTGTACCTG
* * * *
35236168 AGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAA-AAAAATTTGAAAAACAGAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGCAAACATAAATTT-TAAAACA-AAT
* * * *
35236232 --TTAAAAATACCTCAGCGTGTGA-GTCA
62 AATTGAAAATACCTCGGCGTGT-ACCT-G
* * * * * *
35236258 AGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTG-AAACACAGAAATTGAAGAACAGA-
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGCAAACATA-AATTTTAA-AACAAAT
* * * *
35236321 AATGGAAAACACCTCAGC--GT-CTTG
62 AATTGAAAATACCTCGGCGTGTACCTG
* *
35236345 AGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
35236382 TGAAAGACAG
Statistics
Matches: 332, Mismatches: 40, Indels: 46
0.79 0.10 0.11
Matches are distributed among these distances:
85 5 0.02
87 65 0.20
88 26 0.08
89 28 0.08
90 116 0.35
91 76 0.23
92 12 0.04
93 4 0.01
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (88 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGCAAACATAAATTTTAAAACAAATAATT
GAAAATACCTCGGCGTGTACCTG
Found at i:35236268 original size:180 final size:175
Alignment explanation
Indices: 35235864--35236382 Score: 545
Period size: 180 Copynumber: 2.9 Consensus size: 175
35235854 ACTAGACATT
* * ** *
35235864 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAACAGAATTTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
** ** *
35235929 TTGA--TTTTT-AAAACAAAATTTGTAAAACAGATTTTGAAAATACCTTGGTATGTAACCCGAGG
66 TTGATTTTTTTGAAAACAAAA-TTG-AAAACAGAAATTGAAAATACCTCAG--TGT--CCTGAGG
* * *
35235991 CTCAACTCACCTCTCGTAATATGAGTTGA--TTTTTGCAAAGCATAAATTTT
125 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGCAAA-CAAAAATTTG
* *
35236041 AAAAA-A-AATCAATTGAAAATACCTCGGCGTGTGA-CCTGAGG-TCAACTCACCTCTCGCAATA
1 AAAAACAGAAT---TTGAAAATACCTCAGCGTGTGAGCC-AAGGCTCAACTCACCTCTCGCAATA
35236102 TGAGTTGATTTTTTTGACAAACATAAATTGAAAACAAAGAAATTGAAAATACCTCAACGTGTCCT
62 TGAGTTGATTTTTTTGA-AAACA-AAATTGAAAAC--AGAAATTGAAAATACCTC-A-GTGTCCT
* *
35236167 GAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAA-AAAAATTTG
121 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGCAAACAAAAATTTG
* * *
35236221 AAAAACAGAATTTAAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGCAATATGAG
1 AAAAACAGAATTTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
* * * * * *
35236286 CTGATTTTTTTGAAACACAGAAATTGAAGAACAGAAATGGAAAACACCTCAGCGTCTTGAGGTTC
66 TTGATTTTTTTGAAA-ACA-AAATTGAA-AACAGAAATTGAAAATACCTCAGTGTCCTGAGGCTC
*
35236351 AACTCACCTCTCGCAATATGAGCTGATTTTTT
128 AACTCACCTCTCGCAATATGAGTTGATTTTTT
35236383 GAAAGACAGA
Statistics
Matches: 290, Mismatches: 31, Indels: 42
0.80 0.09 0.12
Matches are distributed among these distances:
175 2 0.01
176 1 0.00
177 75 0.26
178 22 0.08
179 46 0.16
180 98 0.34
181 12 0.04
182 33 0.11
184 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (175 bp):
AAAAACAGAATTTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTTGAAAACAAAATTGAAAACAGAAATTGAAAATACCTCAGTGTCCTGAGGCTCAAC
TCACCTCTCGCAATATGAGTTGATTTTTTTGCAAACAAAAATTTG
Found at i:35236604 original size:145 final size:146
Alignment explanation
Indices: 35236331--35237082 Score: 653
Period size: 146 Copynumber: 4.9 Consensus size: 146
35236321 AATGGAAAAC
*
35236331 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGA-TTTTTTGAAAGACAGAAA
1 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGAAAGAAA
35236395 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGCA-TTTTGAC
66 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTGAC
35236459 AAACAAAAATTGAAATT
130 AAACAAAAATTGAAATT
*
35236476 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTTAAAGAAAGAAA
1 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGAAAGAAA
35236541 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGACA
66 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
35236605 AACAAAAATTGAAATT
131 AACAAAAATTGAAATT
* * * * * *
35236621 ACTTCAGCATGTCCTAAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAACAGA
1 ACCTCAGC--GTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTG---AA-AGA
* * *
35236686 AATTGAAAATAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATG
60 AA--G-AAAT-----T-GAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
* * *
35236749 AGCTGATTTTTTTTGA-AACACATAAATTAAAAAAAAATT
116 AGTTGA---TTTTTGACAA-ACAAAAATT-----GAAATT
*** ** * * * * * * * * ** * *
35236788 AAAAACAGAAT-TTGAAAGG---ACCTCGACGTATGGCCCAAGACTCAACTCA-CCTCTCGCAAT
1 -ACCTCAGCGTCTTG--AGGTTCAACTC-ACCTCT--CGCAATA-TGAGCTGATTTTTTTG-AA-
35236848 ATGAGCTAATTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACC
57 A-GA---AA------G--------AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACC
35236913 TCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATT
104 TCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATT
*
35236956 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAA
1 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGAAAGAAA
*
35237021 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAGTTTTT
66 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
35237083 TTTTAAAACA
Statistics
Matches: 488, Mismatches: 62, Indels: 112
0.74 0.09 0.17
Matches are distributed among these distances:
145 78 0.16
146 129 0.26
147 45 0.09
150 2 0.00
151 5 0.01
153 1 0.00
154 5 0.01
158 37 0.08
159 2 0.00
160 11 0.02
161 2 0.00
162 14 0.03
163 2 0.00
164 5 0.01
165 16 0.03
166 14 0.03
167 21 0.04
168 20 0.04
169 6 0.01
173 18 0.04
174 12 0.02
175 2 0.00
176 37 0.08
180 4 0.01
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (146 bp):
ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGAAAGAAA
TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
AACAAAAATTGAAATT
Found at i:35236657 original size:72 final size:72
Alignment explanation
Indices: 35236339--35236696 Score: 425
Period size: 75 Copynumber: 4.9 Consensus size: 72
35236329 ACACCTCAGC
* * *
35236339 GTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTGA-AAGACAGAAATTGAAAAT
1 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTGACAA-ACAAAAATTGAAAAT
35236403 ACCTCAACGT
63 ACCTCAACGT
*
35236413 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGCATTTTGACAAACAAAAATTGAAATTAC
1 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTGACAAACAAAAATTGAAAATAC
*
35236478 CTC-A-GC
65 CTCAACGT
* * *** *
35236484 GTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTTAAAGAAAGAAATTGAAAAT
1 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGACAAA-CAA-AAATTGAAAAT
35236549 ACCTCAACGT
63 ACCTCAACGT
* *
35236559 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAAAAATTGAAATTACT
1 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAAAAATTGAAAATACC
* *
35236624 TCAGCAT
66 TCAACGT
* * * * *
35236631 GTCCTAAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAT
1 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTGACAAACAAAAATTGAAAAT
35236696 A
63 A
35236697 GAAATGGAAA
Statistics
Matches: 245, Mismatches: 29, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
70 1 0.00
71 43 0.18
72 55 0.22
73 41 0.17
74 45 0.18
75 60 0.24
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (72 bp):
GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAAAAATTGAAAATACC
TCAACGT
Found at i:35236995 original size:71 final size:74
Alignment explanation
Indices: 35236828--35237083 Score: 385
Period size: 73 Copynumber: 3.5 Consensus size: 74
35236818 TGGCCCAAGA
*
35236828 CTCAACTCACCTCTCGCAATATGAGCTAATTTTTTGAAAGACAGAAATTGAAAATACCTCAACGT
1 CTCAACTCACCTCTCGCAATATGAGCTGATTTTTTGAAAGACAGAAATTGAAAATACCTCAACGT
35236893 GTCTTGAGG
66 GTCTTGAGG
* * *
35236902 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAA-ACAAAAATTGAAATTACCTC-A-G
1 CTCAACTCACCTCTCGCAATATGAGCTGATTTTTTGA-AAGACAGAAATTGAAAATACCTCAACG
*
35236963 CGTCTTGAGG
65 TGTCTTGAGG
*
35236973 TTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAACG
1 CTCAACTCACCTCTCGCAATATGAGCTGA-TTTTTTGAAAGACAGAAATTGAAAATACCTCAACG
35237038 TGTCTTGAGG
65 TGTCTTGAGG
* *
35237048 CTCAACTCACTTCTCGCAATATGAGTTGAGTTTTTT
1 CTCAACTCACCTCTCGCAATATGAGCTGA-TTTTTT
35237084 TTTAAAACAT
Statistics
Matches: 162, Mismatches: 14, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
71 37 0.23
72 3 0.02
73 50 0.31
74 30 0.19
75 42 0.26
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.31
Consensus pattern (74 bp):
CTCAACTCACCTCTCGCAATATGAGCTGATTTTTTGAAAGACAGAAATTGAAAATACCTCAACGT
GTCTTGAGG
Found at i:35237308 original size:14 final size:13
Alignment explanation
Indices: 35237273--35237317 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
35237263 TTTATTTTTG
35237273 AAAAACAGAAATT
1 AAAAACAGAAATT
*
35237286 AAAAGCAGAAATT
1 AAAAACAGAAATT
35237299 GAAAAACAGAAATT
1 -AAAAACAGAAATT
35237313 AAAAA
1 AAAAA
35237318 TACCTTGGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.69, C:0.07, G:0.11, T:0.13
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:35237353 original size:100 final size:101
Alignment explanation
Indices: 35237101--35237389 Score: 415
Period size: 100 Copynumber: 2.9 Consensus size: 101
35237091 CATAAATTAA
35237101 AAAAAC-GAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
35237165 TGA--TTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
65 TGATTTTTGAAAAGCAGAAATTGAAAAGCAAAAATTG
*
35237200 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
35237265 TATTTTTGAAAAACAGAAATT-AAAAGCAGAAATTG
66 GATTTTTGAAAAGCAGAAATTGAAAAGCAAAAATTG
* ** * * *
35237300 AAAAACAGAAATTAAAAATACCTTGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
35237365 GATTTTTGAAAAGCATAAATTGAAA
66 GATTTTTGAAAAGCAGAAATTGAAA
35237390 TTACCTCAGC
Statistics
Matches: 169, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
99 63 0.37
100 88 0.52
101 18 0.11
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (101 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAGCAGAAATTGAAAAGCAAAAATTG
Found at i:35237420 original size:73 final size:74
Alignment explanation
Indices: 35237297--35237465 Score: 232
Period size: 73 Copynumber: 2.3 Consensus size: 74
35237287 AAAGCAGAAA
* * * ** *
35237297 TTGAAAAACAGAAATTAAAAATACCTTGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
35237362 GTTGA-TTT
66 GTTGATTTT
* * * *
35237370 TTGAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGG
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
35237435 GTTGATTTTT
66 GTTGA-TTTT
35237445 TTGAAAAGCATAAATTGAAAA
1 TTGAAAAGCATAAATTGAAAA
35237466 AACAGAAATT
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
73 60 0.72
75 23 0.28
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28
Consensus pattern (74 bp):
TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTT
Found at i:35238450 original size:42 final size:41
Alignment explanation
Indices: 35238369--35238456 Score: 113
Period size: 43 Copynumber: 2.1 Consensus size: 41
35238359 TGTATTAATC
35238369 AAGACGCCCTTTTCGGGTTTTCACCTTGATCCCTTTTTTTTT
1 AAGACGCCCTTTTCGGGTTTTCACCTTGAT-CCTTTTTTTTT
* * **
35238411 AAGATGCCCTTTTTCGGGTTTTCATCTTGATTTTCTTTTTTTT
1 AAGACGCCC-TTTTCGGGTTTTCACCTTGATCCT-TTTTTTTT
35238454 AAG
1 AAG
35238457 CATAATTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
42 9 0.22
43 31 0.77
ACGTcount: A:0.14, C:0.20, G:0.15, T:0.51
Consensus pattern (41 bp):
AAGACGCCCTTTTCGGGTTTTCACCTTGATCCTTTTTTTTT
Found at i:35244224 original size:16 final size:15
Alignment explanation
Indices: 35244198--35244232 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
35244188 TGATGTGAAT
35244198 AATATAAAATATTAA
1 AATATAAAATATTAA
*
35244213 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
35244229 AATA
1 AATA
35244233 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:35244413 original size:48 final size:49
Alignment explanation
Indices: 35244360--35244463 Score: 115
Period size: 48 Copynumber: 2.1 Consensus size: 49
35244350 GTACATATAT
* * * * *
35244360 AAAAATAAATACGTGATA-ATATTAAAAATATGTACATAATAT-A-GTGTA
1 AAAAATAAATACATAATATA-ATT-AAAATAAGTACATAAGATAACATGTA
*
35244408 AAAAATACATACATAATATAATTAAAATAAGTACATAAGATAACATGTA
1 AAAAATAAATACATAATATAATTAAAATAAGTACATAAGATAACATGTA
35244457 AAAAATA
1 AAAAATA
35244464 TATATATATA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
47 16 0.34
48 19 0.40
49 12 0.26
ACGTcount: A:0.59, C:0.06, G:0.08, T:0.28
Consensus pattern (49 bp):
AAAAATAAATACATAATATAATTAAAATAAGTACATAAGATAACATGTA
Found at i:35244442 original size:22 final size:24
Alignment explanation
Indices: 35244382--35244460 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 24
35244372 GTGATAATAT
* *
35244382 TAAAAATATGTACATAATATAGTG
1 TAAAAATAAGTACATAATATAATG
35244406 TAAAAAATACA-TACATAATATAAT-
1 T-AAAAATA-AGTACATAATATAATG
*
35244430 T-AAAATAAGTACATAAGATAACATG
1 TAAAAATAAGTACATAATAT-A-ATG
35244455 TAAAAA
1 TAAAAA
35244461 ATATATATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
21 1 0.02
22 15 0.33
23 1 0.02
24 4 0.09
25 20 0.44
26 4 0.09
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.28
Consensus pattern (24 bp):
TAAAAATAAGTACATAATATAATG
Found at i:35244490 original size:15 final size:14
Alignment explanation
Indices: 35244459--35244519 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 14
35244449 AACATGTAAA
35244459 AAATATATATATAT
1 AAATATATATATAT
35244473 AAATA-ATATAGTATT
1 AAATATATATA-TA-T
* *
35244488 AAAGATATATACAT
1 AAATATATATATAT
35244502 AAAATAGTATAATATAT
1 -AAATA-TAT-ATATAT
35244519 A
1 A
35244520 TACGTAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
13 5 0.14
14 8 0.22
15 10 0.27
16 9 0.24
17 5 0.14
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (14 bp):
AAATATATATATAT
Found at i:35244495 original size:25 final size:24
Alignment explanation
Indices: 35244467--35244590 Score: 103
Period size: 23 Copynumber: 5.3 Consensus size: 24
35244457 AAAAATATAT
*
35244467 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATT-AAG
* *
35244492 ATATATACATAAAATAGTA-TAAT
1 ATATATACATAATATAGTATTAAG
* * *
35244515 ATATATACGTAATATAGAATTTAG
1 ATATATACATAATATAGTATTAAG
* * *
35244539 A-ATATACCTAATATATTA-AAAG
1 ATATATACATAATATAGTATTAAG
* *
35244561 A-ATATATATAATATAATATTAAG
1 ATATATACATAATATAGTATTAAG
*
35244584 AAATATA
1 ATATATA
35244591 ACAATAACAA
Statistics
Matches: 79, Mismatches: 17, Indels: 7
0.77 0.17 0.07
Matches are distributed among these distances:
22 17 0.22
23 36 0.46
24 9 0.11
25 17 0.22
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (24 bp):
ATATATACATAATATAGTATTAAG
Found at i:35245114 original size:30 final size:30
Alignment explanation
Indices: 35245073--35245171 Score: 153
Period size: 30 Copynumber: 3.3 Consensus size: 30
35245063 TAGGTACAAG
35245073 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* * *
35245103 AGGTAGTGGAGCAAGCGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
35245133 TTGTGGTGGAGCAAGTGTGGCTAATGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
35245163 TGGTGGTGG
1 TGGTGGTGG
35245172 CAAAGGCTAA
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 60 1.00
ACGTcount: A:0.18, C:0.07, G:0.48, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:35245729 original size:21 final size:21
Alignment explanation
Indices: 35245700--35245739 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
35245690 ATCCTCGATC
35245700 AGCTCCACTGTAACTTCAATT
1 AGCTCCACTGTAACTTCAATT
*
35245721 AGCTTCACTGTAACTTCAA
1 AGCTCCACTGTAACTTCAA
35245740 GGATATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.28, G:0.10, T:0.33
Consensus pattern (21 bp):
AGCTCCACTGTAACTTCAATT
Found at i:35246191 original size:90 final size:86
Alignment explanation
Indices: 35245798--35246394 Score: 438
Period size: 90 Copynumber: 6.7 Consensus size: 86
35245788 CAGCATGTGA
* ** * * * *
35245798 TCCTGA-GCTTAACTCATTTCTCGCAATATGAATTGACTCTTT-AAAACTAGACATT-AAAAACA
1 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAC-A-AAATTGAAAAACA
*
35245860 GAAATTGAAAATAGCTCAGCACGTG
64 GAAATTGAAAATACCTCA--ACGTG
* * * * *
35245885 AGCC-AATGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTT-AAAACAAAATTTGTAAAACA
1 -TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAAAA-TTGAAAAACA
** * * *
35245947 GATTTTGAAAATACCTCGGTATGTA
64 GAAATTGAAAATACCTC--AACGTG
* * * * * * * *
35245972 ACCCGAGGCTCAACTCACCTCTCGTAATATGAGTAGA-TTTTTGCAAAGTATAAATTTAAAAAAA
1 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAA--ACAAAATTGAAAAAC
* **
35246036 AAATCAATTGAAAATACCTCGGCGTG
63 AGA--AATTGAAAATACCTCAACGTG
*
35246062 TGACCTGAGGCTCAACTCACCTCTCGCAATATGATTTGATTTTTTTGACAAACATAAATTGAAAA
1 T--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGA-AAACA-AAATTG-AAA
*
35246127 AAAAGAAATTGAAAATACCTCAACGTG
60 AACAGAAATTGAAAATACCTCAACGTG
* *
35246154 TCCTGATGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAAACAAAATTTGAAAAA
1 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT-G-AAAACAAAA-TTGAAAAA
* *
35246219 CAGAATTTGAAAATACCTCAGCGTG
62 CAGAAATTGAAAATACCTCAACGTG
** * * * *
35246244 TGAGTCAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTGAAACACAGAAATTGAAGAA
1 T-CCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAA-ACA-AAATTGAAAAA
* * *
35246309 CAGAAATAGAAAACACCTC-A-GCG
62 CAGAAATTGAAAATACCTCAACGTG
* * *
35246332 TCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAA
1 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACA-AAATTGAAAA
35246395 TACCTCAACG
Statistics
Matches: 413, Mismatches: 69, Indels: 55
0.77 0.13 0.10
Matches are distributed among these distances:
85 2 0.00
86 35 0.08
87 90 0.22
88 32 0.08
89 6 0.01
90 108 0.26
91 23 0.06
92 96 0.23
93 5 0.01
94 16 0.04
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (86 bp):
TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAAAATTGAAAAACAGA
AATTGAAAATACCTCAACGTG
Found at i:35246231 original size:13 final size:14
Alignment explanation
Indices: 35246199--35246231 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
35246189 GATTTTTTTG
35246199 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
35246213 GAAAAACAGAATTT
1 GAAAAACAAAATTT
35246227 GAAAA
1 GAAAA
35246232 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:35246231 original size:182 final size:177
Alignment explanation
Indices: 35245840--35246394 Score: 459
Period size: 182 Copynumber: 3.1 Consensus size: 177
35245830 TTGACTCTTT
* * * ** *
35245840 AAAACTAGACATT-AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGC-CAATGCTCAACTCAC
1 AAAAC-AGAAATTGAAAAACAGAATTTGAAAATACCTCAGCGTGTGA-CTCAAGGCTCAACTCAC
** * * * ** * *
35245903 TTCTCGCAATATGAGTTGA-TTTTT-AAA-ACA-AAATTTGTAAAACAGATTTTGAAAATACCTC
64 CACTCGCAATATGAGCTGATTTTTTGAAACACAGAAA-TTGAAAAAAAGAAATAGAAAACACCTC
* * * * *
35245964 GGTATGTAACCCGAGGCTCAACTCACCTCTCGTAATATGAG-TAGA--TTTTTGC
128 AG--CGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGCT-GATTTTTTTGA
** * * * * * *
35246016 AAAGTATAAATTTAAAAAAAAAATCAATTGAAAATACCTCGGCGTGTGAC-CTGAGGCTCAACTC
1 AAAACAGAAATTGAAAAACAGAAT---TTGAAAATACCTCAGCGTGTGACTC-AAGGCTCAACTC
* ** * * *
35246080 ACCTCTCGCAATATGATTTGATTTTTTTGACAA-ACATAAATTGAAAAAAAAGAAATTGAAAATA
62 ACCACTCGCAATATGAGCTGA-TTTTTTGA-AACACAGAAATTG-AAAAAAAGAAATAGAAAACA
* * * *
35246144 CCTCAACGTGTCCTGATGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGA
124 CCTC-A-GCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTT-GA
*
35246201 AAAACA-AAATTTGAAAAACAGAATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACC
1 AAAACAGAAA-TTGAAAAACAGAATTTGAAAATACCTCAGCGTGTGACTCAAGGCTCAACTCACC
* *
35246265 ACTCGCAATATGAGCTGATTTTTTGAAACACAGAAATTGAAGAACAGAAATAGAAAACACCTCAG
65 ACTCGCAATATGAGCTGATTTTTTGAAACACAGAAATTGAAAAAAAGAAATAGAAAACACCTCAG
* *
35246330 CGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGA
130 CGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGA
*
35246378 AAGACAGAAATTGAAAA
1 AAAACAGAAATTGAAAA
35246395 TACCTCAACG
Statistics
Matches: 310, Mismatches: 48, Indels: 41
0.78 0.12 0.10
Matches are distributed among these distances:
175 5 0.02
176 11 0.04
177 14 0.05
178 46 0.15
179 48 0.15
180 22 0.07
181 22 0.07
182 81 0.26
183 10 0.03
184 34 0.11
185 16 0.05
186 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (177 bp):
AAAACAGAAATTGAAAAACAGAATTTGAAAATACCTCAGCGTGTGACTCAAGGCTCAACTCACCA
CTCGCAATATGAGCTGATTTTTTGAAACACAGAAATTGAAAAAAAGAAATAGAAAACACCTCAGC
GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGA
Found at i:35246431 original size:75 final size:74
Alignment explanation
Indices: 35246301--35246690 Score: 508
Period size: 73 Copynumber: 5.3 Consensus size: 74
35246291 AACACAGAAA
* * * *
35246301 TTGAAGAACAGAAATAGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAA-AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
35246364 GCTGATTTTT
65 GTTGATTTTT
*
35246374 TTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACATCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
35246439 GTTGA--TTT
65 GTTGATTTTT
* * * * *
35246447 TTGACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGG
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
35246510 GCTGATTTTT
65 GTTGATTTTT
*
35246520 TTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCGCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
35246585 GTTGA--TTT
65 GTTGATTTTT
* * * * *
35246593 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
35246658 GTTGATTTTT
65 GTTGATTTTT
35246668 TTGAAAAACAGAAATTGAAAATA
1 TTG-AAAACAGAAATTGAAAATA
35246691 GAAATGGAAG
Statistics
Matches: 276, Mismatches: 28, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
71 35 0.13
72 4 0.01
73 137 0.50
74 6 0.02
75 93 0.34
76 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (74 bp):
TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTT
Found at i:35246587 original size:146 final size:146
Alignment explanation
Indices: 35246323--35246690 Score: 646
Period size: 146 Copynumber: 2.5 Consensus size: 146
35246313 AATAGAAAAC
35246323 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAA
1 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAA
*
35246388 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGACA
66 TTGAAAATACCTCAACGTGTCTTGAGGCGCAACTCACATCTCGCAATATGAGTTGATTTTTGACA
35246453 AACAAAAATTGAAATT
131 AACAAAAATTGAAATT
*
35246469 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGGGCTGATTTTTTTGAAAGACAGAAA
1 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAA
*
35246534 TTGAAAATACCTCAACGTGTCTTGAGGCGCAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
66 TTGAAAATACCTCAACGTGTCTTGAGGCGCAACTCACATCTCGCAATATGAGTTGATTTTTGACA
35246599 AACAAAAATTGAAATT
131 AACAAAAATTGAAATT
* * * * *
35246615 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAACAGA
1 ACCTCAGC--GTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGA
35246680 AATTGAAAATA
64 AATTGAAAATA
35246691 GAAATGGAAG
Statistics
Matches: 211, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
146 151 0.72
148 60 0.28
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (146 bp):
ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAA
TTGAAAATACCTCAACGTGTCTTGAGGCGCAACTCACATCTCGCAATATGAGTTGATTTTTGACA
AACAAAAATTGAAATT
Found at i:35246982 original size:77 final size:76
Alignment explanation
Indices: 35246820--35247158 Score: 433
Period size: 75 Copynumber: 4.5 Consensus size: 76
35246810 TGGCCCGAGA
* * *
35246820 CTCAACTCACCTCTTGCAATATGAGTTGATTCTTTTG-AAAAGCAGAAATTGAAAATACCTCAGC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAACAGAAATTGAAAATACCTCAGC
*
35246884 ATGTCCTGAGG
66 GTGTCCTGAGG
* * *
35246895 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAATAGAATTTGAAAATATCTCAG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AAAAACAGAAATTGAAAATACCTCAG
35246960 CGTGTCCTGAGG
65 CGTGTCCTGAGG
* * * *
35246972 CTCAACTCACCTCTCACAATATGAGTTGA--TTTTTG-ACAAACAAAAATTGAAATTACCTCAGC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAACAGAAATTGAAAATACCTCAGC
* *
35247034 --CTCTTGAGG
66 GTGTCCTGAGG
* * * *
35247043 TTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTG-AAAGACAGAAATTGAAAATACCTCAAC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAACAGAAATTGAAAATACCTCAGC
35247107 GTG-CCTTGAGG
66 GTGTCC-TGAGG
*
35247118 CTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAA
35247159 CATAAATTAA
Statistics
Matches: 226, Mismatches: 29, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
71 33 0.15
73 49 0.22
74 1 0.00
75 72 0.32
76 8 0.04
77 63 0.28
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (76 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAACAGAAATTGAAAATACCTCAGC
GTGTCCTGAGG
Found at i:35247280 original size:99 final size:99
Alignment explanation
Indices: 35247169--35247385 Score: 328
Period size: 99 Copynumber: 2.2 Consensus size: 99
35247159 CATAAATTAA
*
35247169 AAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAAAAATTGAAAATACCTCAGCGTATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * *
35247234 GA-TTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
66 GATTTTGAAAAACAGAAATT-AAAAGCAAAAATTG
*
35247268 AAAAACATAAATTGAAAATACCTCAGCGTATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAAAAATTGAAAATACCTCAGCGTATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
35247333 GATTTTTGAAAAACAGAAATTAAAAGCAGAAATTG
66 GA-TTTTGAAAAACAGAAATTAAAAGCAAAAATTG
* *
35247368 AAAAGCAGAAATTGAAAA
1 AAAAACAAAAATTGAAAA
35247386 ACAGAAATTA
Statistics
Matches: 107, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
99 65 0.61
100 27 0.25
101 15 0.14
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.24
Consensus pattern (99 bp):
AAAAACAAAAATTGAAAATACCTCAGCGTATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTGAAAAACAGAAATTAAAAGCAAAAATTG
Found at i:35247373 original size:14 final size:14
Alignment explanation
Indices: 35247338--35247399 Score: 92
Period size: 14 Copynumber: 4.6 Consensus size: 14
35247328 GAGTTGATTT
35247338 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
35247352 TT-AAAAGCAGAAA
1 TTGAAAAACAGAAA
*
35247365 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
35247379 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
35247393 TT-AAAAA
1 TTGAAAAA
35247400 TACCTCGGCG
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
13 17 0.38
14 28 0.62
ACGTcount: A:0.63, C:0.06, G:0.15, T:0.16
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:35247376 original size:27 final size:28
Alignment explanation
Indices: 35247338--35247399 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 28
35247328 GAGTTGATTT
*
35247338 TTGAAAAACAGAAATT-AAAAGCAGAAA
1 TTGAAAAACAGAAATTGAAAAACAGAAA
*
35247365 TTGAAAAGCAGAAATTGAAAAACAGAAA
1 TTGAAAAACAGAAATTGAAAAACAGAAA
35247393 TT-AAAAA
1 TTGAAAAA
35247400 TACCTCGGCG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 19 0.61
28 12 0.39
ACGTcount: A:0.63, C:0.06, G:0.15, T:0.16
Consensus pattern (28 bp):
TTGAAAAACAGAAATTGAAAAACAGAAA
Found at i:35247440 original size:114 final size:114
Alignment explanation
Indices: 35247240--35247467 Score: 330
Period size: 114 Copynumber: 2.0 Consensus size: 114
35247230 AGTTGATTTG
* * * * * * *
35247240 AAAAGCAGAATTTGTAAGGCAAAAATTGAAAAACATAAATTGAAAATACCTCAGCGTATCCTGAG
1 AAAAGCAGAAATTGAAAAGCAAAAATTGAAAAACAGAAATTAAAAATACCTCAGCGTACCCCGAG
*
35247305 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT
66 GCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATT
* * *
35247354 AAAAGCAGAAATTGAAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAG
1 AAAAGCAGAAATTGAAAAGCAAAAATTGAAAAACAGAAATTAAAAATACCTCAGCGTACCCCGAG
* * *
35247419 GCTCAGCTCACCTCTCACAATATGAGTTGATTTTTGAAAAGCATAAATT
66 GCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATT
35247468 GAAATTACCT
Statistics
Matches: 100, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
114 100 1.00
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.24
Consensus pattern (114 bp):
AAAAGCAGAAATTGAAAAGCAAAAATTGAAAAACAGAAATTAAAAATACCTCAGCGTACCCCGAG
GCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATT
Found at i:35247502 original size:73 final size:74
Alignment explanation
Indices: 35247379--35247547 Score: 223
Period size: 73 Copynumber: 2.3 Consensus size: 74
35247369 AAAGCAGAAA
* * * * *
35247379 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCACAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAATATGA
35247444 GTTGA-TTT
66 GTTGATTTT
* * ** * *
35247452 TTGAAAAGCATAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGG
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAATATGA
35247517 GTTGATTTTT
66 GTTGA-TTTT
35247527 TTGAAAAGCATAAATTGAAAA
1 TTGAAAAGCATAAATTGAAAA
35247548 AAAAAGGAAA
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
73 59 0.72
75 23 0.28
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (74 bp):
TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAATATGA
GTTGATTTT
Found at i:35255443 original size:18 final size:18
Alignment explanation
Indices: 35255420--35255473 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
35255410 ACAAGTGGTG
35255420 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
35255438 GT-G-G--AGT-AGG-TA
1 GTGGAGCAAGTGTGGCTA
35255450 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
35255468 GTGGAG
1 GTGGAG
35255474 TTTGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 4 0.14
13 3 0.11
14 4 0.14
16 4 0.14
17 3 0.11
18 10 0.36
ACGTcount: A:0.22, C:0.07, G:0.48, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:35255456 original size:30 final size:30
Alignment explanation
Indices: 35255415--35255513 Score: 162
Period size: 30 Copynumber: 3.3 Consensus size: 30
35255405 TAGGTACAAG
35255415 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
35255445 AGGTAGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
35255475 TTGTGGTGGAGCAATTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
35255505 TGGTGGTGG
1 TGGTGGTGG
35255514 CAAAAGCTAG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.17, C:0.06, G:0.48, T:0.28
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:35255503 original size:18 final size:18
Alignment explanation
Indices: 35255448--35255503 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
35255438 GTGGAGTAGG
*
35255448 TAGTGGAGCAAGTGTGGC
1 TAGTGGAGCAATTGTGGC
35255466 TAGTGGAG---TT-T-G-
1 TAGTGGAGCAATTGTGGC
*
35255478 TGGTGGAGCAATTGTGGC
1 TAGTGGAGCAATTGTGGC
35255496 TAGTGGAG
1 TAGTGGAG
35255504 TTGGTGGTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 12
0.66 0.07 0.27
Matches are distributed among these distances:
12 7 0.24
13 1 0.03
14 1 0.03
15 3 0.10
16 1 0.03
17 1 0.03
18 15 0.52
ACGTcount: A:0.20, C:0.07, G:0.45, T:0.29
Consensus pattern (18 bp):
TAGTGGAGCAATTGTGGC
Found at i:35257521 original size:12 final size:12
Alignment explanation
Indices: 35257506--35257591 Score: 52
Period size: 12 Copynumber: 7.0 Consensus size: 12
35257496 AATAATATTT
35257506 TTATTTTTTAAA
1 TTATTTTTTAAA
*
35257518 TTATTATTTAAA
1 TTATTTTTTAAA
**
35257530 GAATTTTAATTAACTGA
1 TTATTTT--TTAA---A
**
35257547 TTATTTTTTATT
1 TTATTTTTTAAA
35257559 TTA-TTTTTAAA
1 TTATTTTTTAAA
35257570 -TA-TTTTTAAA
1 TTATTTTTTAAA
*
35257580 TTATATTTTAAA
1 TTATTTTTTAAA
35257592 GAAGTTAAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
10 10 0.18
11 8 0.14
12 25 0.45
14 4 0.07
15 3 0.05
17 6 0.11
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.60
Consensus pattern (12 bp):
TTATTTTTTAAA
Found at i:35257576 original size:11 final size:11
Alignment explanation
Indices: 35257559--35257591 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
35257549 ATTTTTTATT
35257559 TTATTTTTAAA
1 TTATTTTTAAA
35257570 -TATTTTTAAA
1 TTATTTTTAAA
35257580 TTATATTTTAAA
1 TTAT-TTTTAAA
35257592 GAAGTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 3 0.15
12 7 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TTATTTTTAAA
Found at i:35260543 original size:12 final size:12
Alignment explanation
Indices: 35260526--35260559 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
35260516 AAAACTTCAA
35260526 TTCTTTTTTTTC
1 TTCTTTTTTTTC
35260538 TTC-TTTTTTTC
1 TTCTTTTTTTTC
*
35260549 TTGTTTTTTTT
1 TTCTTTTTTTT
35260560 AAACTAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (12 bp):
TTCTTTTTTTTC
Found at i:35261627 original size:15 final size:14
Alignment explanation
Indices: 35261603--35261634 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
35261593 AAACTAAGTG
35261603 AAATAAAATAAAAT
1 AAATAAAATAAAAT
35261617 AAATAAAAATAAAAT
1 AAAT-AAAATAAAAT
35261632 AAA
1 AAA
35261635 GCATTTGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:35261628 original size:20 final size:20
Alignment explanation
Indices: 35261581--35261634 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
35261571 ACTTAAAAAT
* * *
35261581 TAAAAACAAAATAAACTAAG
1 TAAAAATAAAATAAAATAAA
*
35261601 T-GAAATAAAATAAAATAAA
1 TAAAAATAAAATAAAATAAA
35261620 TAAAAATAAAATAAA
1 TAAAAATAAAATAAA
35261635 GCATTTGGGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.19
Consensus pattern (20 bp):
TAAAAATAAAATAAAATAAA
Found at i:35268700 original size:21 final size:20
Alignment explanation
Indices: 35268659--35268708 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
35268649 ATGTGTTATA
35268659 AAAATAAACATATTATGAAATT
1 AAAATAAA-ATATTATGAAA-T
* *
35268681 AAAATAAAATTTTATTAAAT
1 AAAATAAAATATTATGAAAT
35268701 -AAATAAAA
1 AAAATAAAA
35268709 AGCATATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 8 0.31
20 1 0.04
21 9 0.35
22 8 0.31
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAATAAAATATTATGAAAT
Found at i:35268880 original size:31 final size:29
Alignment explanation
Indices: 35268814--35268888 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 29
35268804 AGTGTGTTTT
* *
35268814 TATTTTGGTCACTCAAGTTTAAAAATTTT
1 TATTTTAGTCACTCAAGTTTAAAAATTTA
*
35268843 TATTTTAGTCACT-AACGTTGTCAAAATTTAA
1 TATTTTAGTCACTCAA-GTT-TAAAAATTT-A
*
35268874 TATTTTAGACACTCA
1 TATTTTAGTCACTCA
35268889 TCCTTTAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
28 2 0.05
29 15 0.39
30 8 0.21
31 12 0.32
32 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.44
Consensus pattern (29 bp):
TATTTTAGTCACTCAAGTTTAAAAATTTA
Found at i:35269735 original size:15 final size:15
Alignment explanation
Indices: 35269715--35269747 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
35269705 AGATTTAAAA
35269715 AAATTTATTATTTAT
1 AAATTTATTATTTAT
*
35269730 AAATTTATTATTTTT
1 AAATTTATTATTTAT
35269745 AAA
1 AAA
35269748 AATAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
AAATTTATTATTTAT
Found at i:35275851 original size:16 final size:18
Alignment explanation
Indices: 35275821--35275856 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
35275811 TATCTTATTA
35275821 TTATTATTTTCTTTCTAT
1 TTATTATTTTCTTTCTAT
35275839 TTATT-TTTT-TTTCTAT
1 TTATTATTTTCTTTCTAT
35275855 TT
1 TT
35275857 TCGAATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
17 4 0.22
18 5 0.28
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (18 bp):
TTATTATTTTCTTTCTAT
Found at i:35275961 original size:13 final size:13
Alignment explanation
Indices: 35275945--35275976 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
35275935 GACGGCGACT
35275945 GGCGGCGACATAC
1 GGCGGCGACATAC
35275958 GGCGGCGACATAC
1 GGCGGCGACATAC
*
35275971 GACGGC
1 GGCGGC
35275977 TTGCTCGCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.22, C:0.31, G:0.41, T:0.06
Consensus pattern (13 bp):
GGCGGCGACATAC
Found at i:35276488 original size:9 final size:9
Alignment explanation
Indices: 35276476--35276545 Score: 50
Period size: 9 Copynumber: 7.0 Consensus size: 9
35276466 TTTTCTTTAT
35276476 TTAATATTA
1 TTAATATTA
35276485 TTAATATTA
1 TTAATATTA
35276494 TCTCTAATATTAA
1 --T-TAATATT-A
*
35276507 TCTAATCACTA
1 T-TAAT-ATTA
*
35276518 TTATTATTA
1 TTAATATTA
*
35276527 TTATTATTA
1 TTAATATTA
35276536 TTATATATTA
1 TTA-ATATTA
35276546 GTGTATATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
9 24 0.47
10 8 0.16
11 9 0.18
12 9 0.18
13 1 0.02
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (9 bp):
TTAATATTA
Found at i:35276524 original size:3 final size:3
Alignment explanation
Indices: 35276516--35276545 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
35276506 ATCTAATCAC
35276516 TAT TAT TAT TAT TAT TAT TAT TAT ATAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA
35276546 GTGTATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:35276720 original size:133 final size:135
Alignment explanation
Indices: 35276516--35276909 Score: 476
Period size: 136 Copynumber: 2.9 Consensus size: 135
35276506 ATCTAATCAC
* * *
35276516 TATTATTATTATTATTATTATTATATATTAGTGTATATTTTTATTATATATGTATAAGTATATAT
1 TATTATCAATATTATTATTATTAT-TATTAGTGTATA--TTT-TTATATATGTATATGTATATAT
35276581 ATTTATACATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTATA-TT
62 ATTTATACATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTATATTT
* *
35276645 -AGCT-TTTT
127 CA-ATATTAT
*
35276653 GTATT-TCAATATTATTATTATTATTATTATTGTATATTTTTATATATGTATATGTATATATATT
1 -TATTATCAATATTATTATTATTATTATTAGTGTATATTTTTATATATGTATATGTATATATATT
* *
35276717 TATACATAGTATTATTTTTTTAATTACTTTATTTTAATATTTTTATTATATTTACTTTTTGTATT
65 TATACATAGTATTA-TTTTTTAATTACTTTATTTTAATATTTTTATTATA-TTA--TATTATATT
35276782 TCAATATTAT
126 TCAATATTAT
* * * * * * *
35276792 TATTATTATTATTATTATTATTAATATTAGTGTATATGTTTAT-TATATATATATATGTATATTT
1 TATTATCAATATTATTATTATTATTATTAGTGTATATTTTTATATATGTATATGTATATATATTT
* * * * *
35276856 ATATATAGTACTA-TTTTTAGTTACTTTATTTTAACATTATTATTATATTATATT
66 ATACATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATT
35276910 TGCTTTTTTT
Statistics
Matches: 226, Mismatches: 22, Indels: 21
0.84 0.08 0.08
Matches are distributed among these distances:
133 41 0.18
134 38 0.17
135 6 0.03
136 42 0.19
137 22 0.10
138 40 0.18
139 37 0.16
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (135 bp):
TATTATCAATATTATTATTATTATTATTAGTGTATATTTTTATATATGTATATGTATATATATTT
ATACATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTATATTTCAAT
ATTAT
Found at i:35276794 original size:3 final size:3
Alignment explanation
Indices: 35276786--35276820 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
35276776 TGTATTTCAA
*
35276786 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAA TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
35276821 GTGTATATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:35276843 original size:25 final size:25
Alignment explanation
Indices: 35276806--35276853 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
35276796 ATTATTATTA
35276806 TTATTATTAATAT-TAGTGTATATGT
1 TTATTATTAATATATA-TGTATATGT
35276831 TTATTA-TATATATATATGTATAT
1 TTATTATTA-ATATATATGTATAT
35276854 TTATATATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 2 0.10
25 17 0.81
26 2 0.10
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.56
Consensus pattern (25 bp):
TTATTATTAATATATATGTATATGT
Found at i:35276860 original size:16 final size:16
Alignment explanation
Indices: 35276839--35276871 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
35276829 GTTTATTATA
35276839 TATATATATGTA-TATT
1 TATATATA-GTACTATT
35276855 TATATATAGTACTATT
1 TATATATAGTACTATT
35276871 T
1 T
35276872 TTAGTTACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (16 bp):
TATATATAGTACTATT
Found at i:35282865 original size:20 final size:20
Alignment explanation
Indices: 35282840--35282878 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
35282830 CTTGAAAACA
35282840 GGGACACGCCCGTGTGGCCC
1 GGGACACGCCCGTGTGGCCC
* *
35282860 GGGACATGCTCGTGTGGCC
1 GGGACACGCCCGTGTGGCC
35282879 AGCCCGTGGG
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:0.10, C:0.33, G:0.41, T:0.15
Consensus pattern (20 bp):
GGGACACGCCCGTGTGGCCC
Found at i:35302529 original size:20 final size:20
Alignment explanation
Indices: 35302504--35302543 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
35302494 ATGAGTTCAT
35302504 TTTCAATCTAAATAGATGGG
1 TTTCAATCTAAATAGATGGG
35302524 TTTCAATCTAAATAGATGGG
1 TTTCAATCTAAATAGATGGG
35302544 AACATCATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (20 bp):
TTTCAATCTAAATAGATGGG
Found at i:35307950 original size:22 final size:21
Alignment explanation
Indices: 35307922--35307963 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
35307912 AGACCAAACT
*
35307922 AATAAGAAGATAAAGAAAAATA
1 AATAAGAAGACAAA-AAAAATA
*
35307944 AATAAGAGGACAAAAAAAAT
1 AATAAGAAGACAAAAAAAAT
35307964 TATAAACTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.71, C:0.02, G:0.14, T:0.12
Consensus pattern (21 bp):
AATAAGAAGACAAAAAAAATA
Found at i:35310157 original size:3 final size:3
Alignment explanation
Indices: 35310080--35310141 Score: 72
Period size: 3 Copynumber: 20.7 Consensus size: 3
35310070 TATTTATCGA
* * *
35310080 TAT TAT TAT TAT TAT TAT TA- TATT TAC TAC TAT TAA TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
*
35310125 TAT CAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
35310142 CCGTATATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
2 2 0.04
3 47 0.92
4 2 0.04
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:35310209 original size:27 final size:25
Alignment explanation
Indices: 35310179--35310279 Score: 74
Period size: 23 Copynumber: 4.2 Consensus size: 25
35310169 TATACACTCT
35310179 TTATATATAGTATTATTTTTAATATTA
1 TTATAT-TA-TATTATTTTTAATATTA
*
35310206 TTAT-TTAT-TTATTTTTAACA-TA
1 TTATATTATATTATTTTTAATATTA
35310228 -TATATGTATA-TATTTATGTAATATTA
1 TTATAT-TATATTATTT-T-TAATATTA
* *
35310254 TTA-A-TA-ATTGTTTTTAACATTA
1 TTATATTATATTATTTTTAATATTA
35310276 TTAT
1 TTAT
35310280 TATTTCTTAG
Statistics
Matches: 61, Mismatches: 4, Indels: 22
0.70 0.05 0.25
Matches are distributed among these distances:
21 3 0.05
22 13 0.21
23 21 0.34
24 8 0.13
25 6 0.10
26 4 0.07
27 6 0.10
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (25 bp):
TTATATTATATTATTTTTAATATTA
Found at i:35310253 original size:48 final size:45
Alignment explanation
Indices: 35310180--35310273 Score: 118
Period size: 47 Copynumber: 2.0 Consensus size: 45
35310170 ATACACTCTT
* *
35310180 TATATATAGTATTATTTTTAATATTATTATTTATTTATTTTTAACA
1 TATATATAGTATTATTTTTAATATTATTA-ATAATTATTTTTAACA
*
35310226 TATATAT-GTATATATTTATGTAATATTATTAATAATTGTTTTTAACA
1 TATATATAGTAT-TATTT-T-TAATATTATTAATAATTATTTTTAACA
35310273 T
1 T
35310274 TATTATTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
45 4 0.10
46 12 0.29
47 15 0.36
48 11 0.26
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (45 bp):
TATATATAGTATTATTTTTAATATTATTAATAATTATTTTTAACA
Found at i:35310424 original size:23 final size:23
Alignment explanation
Indices: 35310392--35310447 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
35310382 TCATATGTAT
35310392 ATATT-TTATGTACATACTTTTA
1 ATATTATTATGTACATACTTTTA
** *
35310414 ATATTATTATGTATTTATTTTTA
1 ATATTATTATGTACATACTTTTA
35310437 ATA-TA-TATGTA
1 ATATTATTATGTA
35310448 TACATTTAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.20
22 7 0.23
23 17 0.57
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.57
Consensus pattern (23 bp):
ATATTATTATGTACATACTTTTA
Found at i:35310444 original size:51 final size:50
Alignment explanation
Indices: 35310389--35310657 Score: 120
Period size: 51 Copynumber: 5.1 Consensus size: 50
35310379 ATATCATATG
*
35310389 TATATATTTTATGTACATACTTTTAATATTATTATGTATTTATTTTTAATA
1 TATATATTTTATGTACATA-TTTTAATATTATTATGTATATATTTTTAATA
* * ** * *
35310440 TATATGTATACATTTAGGTA-GTATTATTAATAGTCGTTCT-T-T-TATTTCTAATA
1 TATA--TAT---TTTATGTACATATT-TTAATA-TTATTATGTATATATTTTTAATA
* * * **
35310493 TGTATATATATTATGTAAATATTTTAATACTGTATTATTTATATATTTTTCTTA
1 --TATATATTTTATGTACATATTTTAATA-T-TATTATGTATATATTTTTAATA
* * * *
35310547 CATATTATCTTATGTATATATTTTTAATAACTATATTATGTATGTATTTTTAATA
1 TATA-TATTTTATGTACATA-TTTTAAT-A-T-TATTATGTATATATTTTTAATA
* * * *
35310602 -CTATA--TTACGTACATACTTTTAATATCATTATTATGTATAAATTTTCAATA
1 TATATATTTTATGTACATA-TTTT-A-AT-ATTATTATGTATATATTTTTAATA
35310653 TATAT
1 TATAT
35310658 GCGTATATTT
Statistics
Matches: 165, Mismatches: 33, Indels: 39
0.70 0.14 0.16
Matches are distributed among these distances:
50 13 0.08
51 43 0.26
52 9 0.05
53 35 0.21
54 20 0.12
55 34 0.21
56 11 0.07
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (50 bp):
TATATATTTTATGTACATATTTTAATATTATTATGTATATATTTTTAATA
Found at i:35310454 original size:21 final size:23
Alignment explanation
Indices: 35310392--35310454 Score: 60
Period size: 23 Copynumber: 2.9 Consensus size: 23
35310382 TCATATGTAT
* * *
35310392 ATATT-TTATGTACATACTTTTA
1 ATATTATTATGTATACATTTTTA
**
35310414 ATATTATTATGTATTTATTTTTA
1 ATATTATTATGTATACATTTTTA
35310437 ATA-TA-TATGTATACATTT
1 ATATTATTATGTATACATTT
35310455 AGGTAGTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 11 0.31
22 7 0.20
23 17 0.49
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (23 bp):
ATATTATTATGTATACATTTTTA
Found at i:35310604 original size:25 final size:25
Alignment explanation
Indices: 35310499--35310657 Score: 135
Period size: 26 Copynumber: 6.2 Consensus size: 25
35310489 AATATGTATA
*
35310499 TATATTATGTAAATA-TTTTAATAC
1 TATATTATGTATATATTTTTAATAC
* * *
35310523 TGTATTATTTATATATTTTTCTTACATAT
1 TATATTATGTATATA--TTT-TTA-ATAC
*
35310552 TATCTTATGTATATATTTTTAATAAC
1 TATATTATGTATATATTTTTAAT-AC
*
35310578 TATATTATGTATGTATTTTTAATAC
1 TATATTATGTATATATTTTTAATAC
* * *
35310603 TATATTACGTACATACTTTTAATA-
1 TATATTATGTATATATTTTTAATAC
* *
35310627 TCATTATTATGTATAAATTTTCAATA-
1 T-A-TATTATGTATATATTTTTAATAC
35310653 TATAT
1 TATAT
35310658 GCGTATATTT
Statistics
Matches: 108, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
24 16 0.15
25 26 0.24
26 43 0.40
27 5 0.05
28 3 0.03
29 15 0.14
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.53
Consensus pattern (25 bp):
TATATTATGTATATATTTTTAATAC
Found at i:35310718 original size:11 final size:11
Alignment explanation
Indices: 35310702--35310742 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
35310692 TTATTTCTAA
35310702 TATGTATATAT
1 TATGTATATAT
35310713 TATGTATATAT
1 TATGTATATAT
* *
35310724 T-TTTA-ATAC
1 TATGTATATAT
35310733 TATGTATATA
1 TATGTATATA
35310743 CATTTTATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
9 4 0.16
10 6 0.24
11 15 0.60
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (11 bp):
TATGTATATAT
Found at i:35314705 original size:22 final size:22
Alignment explanation
Indices: 35314680--35314734 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
35314670 ATTCATGACT
*
35314680 AACATTCATTTGTCATTTATTC
1 AACATTCATTTGTCATTCATTC
35314702 AACATTCATTTGTCATTCATTC
1 AACATTCATTTGTCATTCATTC
*
35314724 ATTCATTCATT
1 A-ACATTCATT
35314735 CATTCATTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 22 0.73
23 8 0.27
ACGTcount: A:0.27, C:0.20, G:0.04, T:0.49
Consensus pattern (22 bp):
AACATTCATTTGTCATTCATTC
Found at i:35314721 original size:4 final size:4
Alignment explanation
Indices: 35314714--35314746 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
35314704 CATTCATTTG
35314714 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT T
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT T
35314747 GCATGTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TCAT
Found at i:35323154 original size:14 final size:14
Alignment explanation
Indices: 35323135--35323164 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
35323125 CACTGAGGTA
*
35323135 TTTTCAATTTCTGT
1 TTTTCAATTTATGT
35323149 TTTTCAATTTATGT
1 TTTTCAATTTATGT
35323163 TT
1 TT
35323165 CAAAAATCAA
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:0.17, C:0.10, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTTCAATTTATGT
Found at i:35323209 original size:85 final size:85
Alignment explanation
Indices: 35322996--35323832 Score: 712
Period size: 85 Copynumber: 9.9 Consensus size: 85
35322986 AATTTCTATT
* * ** *
35322996 TTTCAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCAGGACACGTTGAGGTATTTTTAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTATTTTCAA
*
35323061 TATTC------TCAATTTTTG
66 T-TTCTGTTTTTCAATTTATG
*
35323076 TTTGTCAAAAATCAACTCATATTGCAAGA-GTGAGTTGAGCCTCGGGACACACTGAGGTATTTTC
1 -TT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTATTTTC
35323140 AATTTCTGTTTTTCAATTTATG
64 AATTTCTGTTTTTCAATTTATG
* *
35323162 TTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTATTTTCAA
*
35323227 TTTCTATTTTTCAATTTATG
66 TTTCTGTTTTTCAATTTATG
* *** * *
35323247 TTTCAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGACTCACATGCTGAGTTATGTTC
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACA--CTGAGGTATTTTC
*
35323312 AATTTCTGTTTTTTTTTTTAATTTATG
64 AATTTCTG-----TTTTTCAATTTATG
* *
35323339 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTT
1 --TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACA--CTGAGGTATTT
*
35323404 TCAAATTT-TGTTTTT-AATTTCTATT
62 TC-AATTTCTGTTTTTCAA-TT-TATG
* * ** *** *
35323429 TTTCAAAAAACAACGCATATTATGAGAGGTGAGTTGAGCCTC-ATTCACACGTTTAGGTATTTTC
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACAC--TGAGGTATTTTC
*
35323493 AATTTCTGTCTTTC-----A--
64 AATTTCTGTTTTTCAATTTATG
* * ** ***
35323508 ----AAAAATCAACTCATATTACAAGAATTGAGTTGAGCCTCAGGG-CATGTTGAGGTAATTTT-
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGACACACTGAGGT-ATTTTC
**
35323567 AATTTCTGTTCATCAA---A--
64 AATTTCTGTTTTTCAATTTATG
* * * ** * * **
35323584 ---AAAAAATCAAATCATACTGCGAGATATGAGTTGATCCTTGGCTCACATGCTGAGGTATTTTC
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACA--CTGAGGTATTTTC
*
35323646 AATTTCTGTTTTTCAATTTCTG
64 AATTTCTGTTTTTCAATTTATG
* * *
35323668 TTCGTC-AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
1 TT--TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTATTTTC
* *
35323732 AATTTTTGTTCTTCAATTTATG
64 AATTTCTGTTTTTCAATTTATG
* *
35323754 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTATTTTCAA
**
35323819 TTTCCATTTTTCAA
66 TTTCTGTTTTTCAA
35323833 AAAAATCAAG
Statistics
Matches: 623, Mismatches: 88, Indels: 86
0.78 0.11 0.11
Matches are distributed among these distances:
74 16 0.03
75 37 0.06
76 5 0.01
77 32 0.05
78 5 0.01
79 20 0.03
80 3 0.00
81 37 0.06
82 24 0.04
84 25 0.04
85 169 0.27
86 48 0.08
87 39 0.06
88 74 0.12
89 7 0.01
90 3 0.00
92 13 0.02
94 61 0.10
95 5 0.01
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (85 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTATTTTCAA
TTTCTGTTTTTCAATTTATG
Found at i:35323571 original size:74 final size:73
Alignment explanation
Indices: 35323415--35323575 Score: 180
Period size: 74 Copynumber: 2.2 Consensus size: 73
35323405 CAAATTTTGT
* * ** * *
35323415 TTTTAATTTCTATTTTTCAAAAAACAACGCATATTATGAGAGGTGAGTTGAGCCTCATTCACACG
1 TTTTAATTTCTGTCTTTCAAAAAACAACGCATATTACAAGAAGTGAGTTGAGCCTCATGCACACG
*
35323480 TTTAGGTA
66 TTGAGGTA
* * **
35323488 TTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTACAAGAATTGAGTTGAGCCTCA-GGGCA
1 TTTT-AATTTCTGTCTTTCAAAAAA-CAACGCATATTACAAGAAGTGAGTTGAGCCTCATGCACA
*
35323552 TGTTGAGGTAA
64 CGTTGAGGT-A
35323563 TTTTAATTTCTGT
1 TTTTAATTTCTGT
35323576 TCATCAAAAA
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
73 4 0.05
74 36 0.49
75 33 0.45
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (73 bp):
TTTTAATTTCTGTCTTTCAAAAAACAACGCATATTACAAGAAGTGAGTTGAGCCTCATGCACACG
TTGAGGTA
Found at i:35323660 original size:14 final size:14
Alignment explanation
Indices: 35323641--35323669 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
35323631 TGCTGAGGTA
35323641 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
35323655 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
35323669 T
1 T
35323670 CGTCAAAATC
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:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:35325687 original size:27 final size:27
Alignment explanation
Indices: 35325656--35325833 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
35325646 ATATTGAGTC
* *
35325656 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
35325683 TGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
35325710 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
35325738 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
35325765 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
35325792 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
35325819 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35325834 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:35333894 original size:27 final size:27
Alignment explanation
Indices: 35333829--35334005 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
35333819 ATATTGAGTC
* * * *
35333829 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
35333856 -GCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35333882 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
35333910 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
35333937 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
35333964 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35333991 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35334006 GTACAATTTA
Statistics
Matches: 128, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 22 0.17
27 82 0.64
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:35347270 original size:3 final size:3
Alignment explanation
Indices: 35347172--35347254 Score: 114
Period size: 3 Copynumber: 27.7 Consensus size: 3
35347162 TTATCGATGA
35347172 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * * *
35347217 TAC TAC TAT TAA TAT TAT TAT TAT CAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
35347255 CCGTATATTT
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
2 2 0.03
3 68 0.94
4 2 0.03
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:35347324 original size:27 final size:25
Alignment explanation
Indices: 35347294--35347394 Score: 74
Period size: 23 Copynumber: 4.2 Consensus size: 25
35347284 TATACACTCT
35347294 TTATATATAGTATTATTTTTAATATTA
1 TTATAT-TA-TATTATTTTTAATATTA
*
35347321 TTAT-TTAT-TTATTTTTAACA-TA
1 TTATATTATATTATTTTTAATATTA
35347343 -TATATGTATA-TATTTATGTAATATTA
1 TTATAT-TATATTATTT-T-TAATATTA
* *
35347369 TTA-A-TA-ATTGTTTTTAACATTA
1 TTATATTATATTATTTTTAATATTA
35347391 TTAT
1 TTAT
35347395 TATTTCTTAG
Statistics
Matches: 61, Mismatches: 4, Indels: 22
0.70 0.05 0.25
Matches are distributed among these distances:
21 3 0.05
22 13 0.21
23 21 0.34
24 8 0.13
25 6 0.10
26 4 0.07
27 6 0.10
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (25 bp):
TTATATTATATTATTTTTAATATTA
Found at i:35347347 original size:48 final size:47
Alignment explanation
Indices: 35347295--35347388 Score: 113
Period size: 47 Copynumber: 2.0 Consensus size: 47
35347285 ATACACTCTT
* *
35347295 TATATATAGTAT-TATTT-T-TAATATTATTATTTATTTATTTTTAACA
1 TATATATA-TATATATTTATGTAATATTATTA-ATAATTATTTTTAACA
* *
35347341 TATATATGTATATATTTATGTAATATTATTAATAATTGTTTTTAACA
1 TATATATATATATATTTATGTAATATTATTAATAATTATTTTTAACA
35347388 T
1 T
35347389 TATTATTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
45 3 0.07
46 12 0.29
47 15 0.37
48 11 0.27
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (47 bp):
TATATATATATATATTTATGTAATATTATTAATAATTATTTTTAACA
Found at i:35347539 original size:23 final size:23
Alignment explanation
Indices: 35347507--35347562 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
35347497 TCATATGTAT
35347507 ATATT-TTATGTACATACTTTTA
1 ATATTATTATGTACATACTTTTA
** *
35347529 ATATTATTATGTATTTATTTTTA
1 ATATTATTATGTACATACTTTTA
35347552 ATA-TA-TATGTA
1 ATATTATTATGTA
35347563 TACATTTAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.20
22 7 0.23
23 17 0.57
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.57
Consensus pattern (23 bp):
ATATTATTATGTACATACTTTTA
Found at i:35347569 original size:21 final size:23
Alignment explanation
Indices: 35347507--35347569 Score: 60
Period size: 23 Copynumber: 2.9 Consensus size: 23
35347497 TCATATGTAT
* * *
35347507 ATATT-TTATGTACATACTTTTA
1 ATATTATTATGTATACATTTTTA
**
35347529 ATATTATTATGTATTTATTTTTA
1 ATATTATTATGTATACATTTTTA
35347552 ATA-TA-TATGTATACATTT
1 ATATTATTATGTATACATTT
35347570 AGGTAGTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 11 0.31
22 7 0.20
23 17 0.49
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (23 bp):
ATATTATTATGTATACATTTTTA
Found at i:35347719 original size:25 final size:25
Alignment explanation
Indices: 35347614--35347780 Score: 135
Period size: 26 Copynumber: 6.6 Consensus size: 25
35347604 AATATGTATA
* *
35347614 TATATTATGTAAATATTTAT-ATAC
1 TATATTATGTATATATTTTTAATAC
* *
35347638 TATATTATTTATATATTTTTCTTACATAT
1 TATATTATGTATATA--TTT-TTA-ATAC
*
35347667 TATCTTATGTATATATTTTTAATAAC
1 TATATTATGTATATATTTTTAAT-AC
*
35347693 TATATTATGTATGTATTTTTAATAC
1 TATATTATGTATATATTTTTAATAC
* * *
35347718 TATATTACGTACATACTTTTAATA-
1 TATATTATGTATATATTTTTAATAC
* *
35347742 TCATTATTATGTATAAATTTTCAATA-
1 T-A-TATTATGTATATATTTTTAATAC
*
35347768 TATA-TACGTATAT
1 TATATTATGTATAT
35347781 TTATGTATAG
Statistics
Matches: 115, Mismatches: 20, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
23 7 0.06
24 16 0.14
25 26 0.23
26 46 0.40
27 4 0.03
29 16 0.14
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (25 bp):
TATATTATGTATATATTTTTAATAC
Found at i:35347832 original size:11 final size:11
Alignment explanation
Indices: 35347816--35347856 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
35347806 TTATTTCTAA
35347816 TATGTATATAT
1 TATGTATATAT
35347827 TATGTATATAT
1 TATGTATATAT
* *
35347838 T-TTTA-ATAC
1 TATGTATATAT
35347847 TATGTATATA
1 TATGTATATA
35347857 CATTTTATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
9 4 0.16
10 6 0.24
11 15 0.60
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (11 bp):
TATGTATATAT
Found at i:35349216 original size:27 final size:27
Alignment explanation
Indices: 35349185--35349298 Score: 133
Period size: 27 Copynumber: 4.2 Consensus size: 27
35349175 GTGACGAAGT
*
35349185 CACCAGATACAGAT-ATTGTGGTAGAGC
1 CACCAGAT-CAGATAATTGTGGCAGAGC
* * * *
35349212 TACCAAAACAGAT-ATATGCGGCAGAGC
1 CACCAGATCAGATAAT-TGTGGCAGAGC
*
35349239 CACCAGATCAGATAATTGTGGCATAGC
1 CACCAGATCAGATAATTGTGGCAGAGC
*
35349266 CACCAGATCAGATAATTGTGGCATAGC
1 CACCAGATCAGATAATTGTGGCAGAGC
35349293 CACCAG
1 CACCAG
35349299 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
26 7 0.09
27 66 0.88
28 2 0.03
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (27 bp):
CACCAGATCAGATAATTGTGGCAGAGC
Found at i:35357190 original size:27 final size:27
Alignment explanation
Indices: 35357124--35357211 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
35357114 GTGACGAAGT
35357124 CACCAGATACAGATAT-TGTGGCAGAGC
1 CACCAGAT-CAGATATATGTGGCAGAGC
* * **
35357151 CAGCAAAAGAGATATATGTGGCAGAGC
1 CACCAGATCAGATATATGTGGCAGAGC
*
35357178 CACCAGATCAGATA-ATTGTGGCATAGC
1 CACCAGATCAGATATA-TGTGGCAGAGC
35357205 CACCAGA
1 CACCAGA
35357212 ACGCTTCCTC
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
26 7 0.14
27 43 0.86
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (27 bp):
CACCAGATCAGATATATGTGGCAGAGC
Found at i:35358841 original size:26 final size:26
Alignment explanation
Indices: 35358806--35358913 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
35358796 TGAAATTATC
35358806 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
35358832 ATCATTGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
35358858 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
35358884 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
35358910 ATCA
1 ATCA
35358914 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:35366529 original size:46 final size:46
Alignment explanation
Indices: 35366451--35366564 Score: 183
Period size: 46 Copynumber: 2.5 Consensus size: 46
35366441 ACATTCGCAT
*
35366451 GACTCAACTCAACGAGTTCGGATATTCACATCCATAAGTGAACTCA
1 GACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCA
* * * *
35366497 GACTCAACTCAACGAGTTTGGACGTTCGCATCCATAAGTGAACTCG
1 GACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCA
35366543 GACTCAACTCAACGAGTTCGGA
1 GACTCAACTCAACGAGTTCGGA
35366565 TGCTCAAATA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 62 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (46 bp):
GACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCA
Found at i:35384375 original size:23 final size:23
Alignment explanation
Indices: 35384349--35384450 Score: 79
Period size: 23 Copynumber: 4.4 Consensus size: 23
35384339 AACACTACTC
*
35384349 AAATATGTACATGGAACA-ATATA
1 AAATATATACATGGAA-ATATATA
35384372 AAATATATACATGGAAATATATA
1 AAATATATACATGGAAATATATA
35384395 AGTAATATATA-ACT---AATAATATCA
1 A--AATATATACA-TGGAAAT-ATAT-A
* *
35384419 AAATATATACATAGTAATATATA
1 AAATATATACATGGAAATATATA
*
35384442 AAAGATATA
1 AAATATATA
35384451 TGAATATAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 20
0.75 0.02 0.22
Matches are distributed among these distances:
22 13 0.19
23 35 0.52
24 7 0.10
25 12 0.18
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.30
Consensus pattern (23 bp):
AAATATATACATGGAAATATATA
Found at i:35384496 original size:24 final size:23
Alignment explanation
Indices: 35384366--35384498 Score: 73
Period size: 24 Copynumber: 5.6 Consensus size: 23
35384356 TACATGGAAC
*
35384366 AATATAAAATATATACATGGAA-AT
1 AATATAAAATATATATAT--AATAT
*
35384390 -ATAT-AAGTA-ATATATAACTAAT
1 AATATAAAATATATATATAA-T-AT
35384412 AATATCAAAATATATACATAGTAATAT
1 AATAT-AAAATATAT--ATA-TAATAT
35384439 -ATA-AAAGATATATGAATATAATAT
1 AATATAAA-ATATAT--ATATAATAT
**
35384463 AATA-GGAATATATATATAATAT
1 AATATAAAATATATATATAATAT
35384485 AATATTAAAATATA
1 AATA-TAAAATATA
35384499 ATAATGTAAC
Statistics
Matches: 86, Mismatches: 9, Indels: 28
0.70 0.07 0.23
Matches are distributed among these distances:
19 2 0.02
21 5 0.06
22 19 0.22
23 8 0.09
24 21 0.24
25 17 0.20
26 5 0.06
27 2 0.02
28 4 0.05
29 3 0.03
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (23 bp):
AATATAAAATATATATATAATAT
Found at i:35384497 original size:22 final size:22
Alignment explanation
Indices: 35384399--35384515 Score: 85
Period size: 21 Copynumber: 5.0 Consensus size: 22
35384389 TATATAAGTA
*
35384399 ATATATAACTAATAATATCAAAAT
1 ATATATAA-T-ATAATATTAAAAT
* *
35384423 ATATA-CATAGTAATATATAAAAG
1 ATATATAATA-TAATAT-TAAAAT
35384446 ATATATGAATATAATATAATAGGAATAT
1 ATATAT-AATATAATAT--TA--AA-AT
35384474 ATATATAATATAATATTAAAAT
1 ATATATAATATAATATTAAAAT
* *
35384496 ATA-ATAATGTAACATTAAAA
1 ATATATAATATAATATTAAAA
35384516 AATACATGAT
Statistics
Matches: 78, Mismatches: 7, Indels: 19
0.75 0.07 0.18
Matches are distributed among these distances:
21 16 0.21
22 12 0.15
23 12 0.15
24 11 0.14
25 8 0.10
27 12 0.15
28 7 0.09
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.34
Consensus pattern (22 bp):
ATATATAATATAATATTAAAAT
Found at i:35384512 original size:21 final size:22
Alignment explanation
Indices: 35384454--35384515 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 22
35384444 AGATATATGA
* ** *
35384454 ATATAATATAATAGGAATATAT
1 ATATAATATAACATTAAAATAT
*
35384476 ATATAATATAATATTAAAATAT
1 ATATAATATAACATTAAAATAT
*
35384498 A-ATAATGTAACATTAAAA
1 ATATAATATAACATTAAAA
35384516 AATACATGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
21 15 0.43
22 20 0.57
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (22 bp):
ATATAATATAACATTAAAATAT
Found at i:35384593 original size:26 final size:24
Alignment explanation
Indices: 35384545--35384593 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
35384535 GTATAGTATT
*
35384545 AAGAATACACATATATAATATATG
1 AAGAATACACATATATAAAATATG
*
35384569 AAGAATATACATAATACTAAAATAT
1 AAGAATACACAT-ATA-TAAAATAT
35384594 TTAGGTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 11 0.52
25 3 0.14
26 7 0.33
ACGTcount: A:0.57, C:0.08, G:0.06, T:0.29
Consensus pattern (24 bp):
AAGAATACACATATATAAAATATG
Found at i:35384713 original size:3 final size:3
Alignment explanation
Indices: 35384705--35384746 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
35384695 AAGCATAAAC
*
35384705 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
35384747 CATTGAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:35384877 original size:3 final size:3
Alignment explanation
Indices: 35384846--35384908 Score: 72
Period size: 3 Copynumber: 20.3 Consensus size: 3
35384836 ATATATTTAC
* *
35384846 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
35384893 CTA ATA ATA CTA ATA A
1 ATA ATA ATA ATA ATA A
35384909 CATAAAAATC
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
3 44 0.88
4 6 0.12
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:35387055 original size:54 final size:54
Alignment explanation
Indices: 35386968--35387075 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
35386958 GTGTCCTAAG
* **
35386968 GCTCAACTCACTTCTCACAATATGAGTTCATTTTTGGGAAACAGAAATTAAAAA
1 GCTCAACTCACCTCTCACAATATGAGTTCATTTTTGAAAAACAGAAATTAAAAA
* * * *
35387022 GCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTGAAAAACATAAATTAAAAA
1 GCTCAACTCACCTCTCACAATATGAGTTCATTTTTGAAAAACAGAAATTAAAAA
35387076 TAGAAATTGA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.30
Consensus pattern (54 bp):
GCTCAACTCACCTCTCACAATATGAGTTCATTTTTGAAAAACAGAAATTAAAAA
Found at i:35387134 original size:140 final size:141
Alignment explanation
Indices: 35386881--35387135 Score: 390
Period size: 140 Copynumber: 1.8 Consensus size: 141
35386871 GTGACCCGAG
*
35386881 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATGAAAACTGAAAAATAGAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATCAAAACTGAAAAATAGAAATTGA
35386946 AAATACCTCAGCGTGTCCTAAGGCTCAACTCACTTCTCACAATATGAGTTCATTTTTGGGAAACA
66 AAATACCTCAGCGTGTCCTAAGGCTCAACTCACTTCTCACAATATGAGTTCATTTTTGGGAAACA
35387011 GAAATTAAAAA
131 GAAATTAAAAA
* *
35387022 GCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTGAAAAA-CATAAA-TTAAAAATAGAAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATCA-AAACTGAAAAATAGAAATTG
* ** * * *
35387085 AAGATTTCTCAGCGTTTCTTGAA-GCTCAACTCACTTCTCGCAATATGAGTT
65 AAAATACCTCAGCGTGTCCT-AAGGCTCAACTCACTTCTCACAATATGAGTT
35387136 AAATTTTGAA
Statistics
Matches: 103, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
140 58 0.56
141 45 0.44
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (141 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATCAAAACTGAAAAATAGAAATTGA
AAATACCTCAGCGTGTCCTAAGGCTCAACTCACTTCTCACAATATGAGTTCATTTTTGGGAAACA
GAAATTAAAAA
Found at i:35387304 original size:79 final size:78
Alignment explanation
Indices: 35387173--35387484 Score: 303
Period size: 79 Copynumber: 3.9 Consensus size: 78
35387163 AAATTGGAAG
*
35387173 AACAGAAATTGAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
35387238 TTTTGAAAAGCAGA
66 TTTTGAAAAG-AGA
*
35387252 AACAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACATCTCGCAATATGAGTTGA
1 AACAGAAATTGAAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
35387316 TTCTTTTGAAACATAAATTGAAA
65 -T-TTTTG----A-AAA--GAGA
* * * * * *
35387339 GAACAGAAATTGGAAATACCTCAGTATGTGAACC-GAGGTTCAACTCATCTCTCGCAATGTGAGT
1 -AACAGAAATTGAAAATACCTCAG--CGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
** *
35387403 TGATTTTT---TTGAAA
62 TGATTTTTGAAAAGAGA
* * *
35387417 AATAGAAATT-AAAATTACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AACAGAAATTGAAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
35387481 TTTT
65 TTTT
35387485 CGAGAACATG
Statistics
Matches: 197, Mismatches: 19, Indels: 38
0.78 0.07 0.15
Matches are distributed among these distances:
74 2 0.01
75 37 0.19
76 3 0.02
77 17 0.09
78 8 0.04
79 57 0.29
80 1 0.01
81 5 0.03
85 1 0.01
86 3 0.02
87 2 0.01
88 23 0.12
89 4 0.02
90 32 0.16
91 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (78 bp):
AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTGAAAAGAGA
Found at i:35387454 original size:165 final size:165
Alignment explanation
Indices: 35387157--35387482 Score: 460
Period size: 165 Copynumber: 2.0 Consensus size: 165
35387147 TCATGAATTA
* *
35387157 AAACAGAAATTGGAAGAACAGAAATTGAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCT
1 AAACAGAAATTGAAAGAACAGAAATTGAAAATACCTCAGTGTGACCTGAGGCTCAACTCACCTCT
* * *
35387222 CGCAATATGAGTTGATTTTTGAAAAGCAGAAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGG
66 CGCAATATGAGTTGATTTTT--AAAGCAAAAACAGAAATTAAAATTACCTCAGCGTGCCCCGAGG
35387287 CTCAACTCACATCTCGCAATATGAGTTGATTCTTTTG
129 CTCAACTCACATCTCGCAATATGAGTTGATTCTTTTG
* * * *
35387324 AAACATAAATTGAAAGAACAGAAATTGGAAATACCTCAGTATGTGAACC-GAGGTTCAACTCATC
1 AAACAGAAATTGAAAGAACAGAAATTGAAAATACCTCAG--TGTG-ACCTGAGGCTCAACTCACC
* ** *
35387388 TCTCGCAATGTGAGTTGATTTTT-TTG-AAAAATAGAAATTAAAATTACCTCAGCGTGCCCCGAG
63 TCTCGCAATATGAGTTGATTTTTAAAGCAAAAACAGAAATTAAAATTACCTCAGCGTGCCCCGAG
*
35387451 GCTCAACTCACCTCTCGCAATATGAGTTGATT
128 GCTCAACTCACATCTCGCAATATGAGTTGATT
35387483 TTCGAGAACA
Statistics
Matches: 142, Mismatches: 14, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
165 64 0.45
166 1 0.01
167 36 0.25
169 39 0.27
170 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (165 bp):
AAACAGAAATTGAAAGAACAGAAATTGAAAATACCTCAGTGTGACCTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTAAAGCAAAAACAGAAATTAAAATTACCTCAGCGTGCCCCGAGGCT
CAACTCACATCTCGCAATATGAGTTGATTCTTTTG
Found at i:35389759 original size:80 final size:79
Alignment explanation
Indices: 35389675--35389846 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 79
35389665 GGACTAAGAT
* *
35389675 CCGAAGGCATTTGTGTGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
35389739 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
35389755 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
35389820 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
35389834 CCGAAGGCATTTG
1 CCGAAGGCATTTG
35389847 AACGAGGAGC
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 38 0.49
80 37 0.47
81 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:35389826 original size:39 final size:39
Alignment explanation
Indices: 35389622--35389844 Score: 200
Period size: 40 Copynumber: 5.6 Consensus size: 39
35389612 TTGAATGCTG
* * * * *
35389622 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
** *
35389662 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
35389701 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
35389742 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
35389782 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
35389821 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
35389845 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 40 0.26
40 102 0.66
41 12 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:35389864 original size:79 final size:80
Alignment explanation
Indices: 35389702--35389879 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
35389692 AGATACAAAT
* * * *
35389702 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
35389767 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
35389782 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
35389846 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
35389861 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
35389880 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:35399825 original size:40 final size:40
Alignment explanation
Indices: 35399744--35399967 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
35399734 TTGAATGATG
* * * *
35399744 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
35399783 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATATTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35399823 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35399862 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35399902 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35399943 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35399968 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
39 54 0.33
40 108 0.66
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35399947 original size:80 final size:80
Alignment explanation
Indices: 35399744--35399967 Score: 278
Period size: 79 Copynumber: 2.8 Consensus size: 80
35399734 TTGAATGATG
* * * * *
35399744 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-TCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
* *
35399806 TTGTGCGAGATATTAAT
64 TTGTGCGAGATACTAAA
* *
35399823 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATT
*
35399886 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* *
35399902 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
35399967 G
66 G
35399968 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
78 16 0.13
79 59 0.47
80 48 0.38
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:35399985 original size:80 final size:80
Alignment explanation
Indices: 35399744--35400000 Score: 224
Period size: 79 Copynumber: 3.2 Consensus size: 80
35399734 TTGAATGATG
* * * * * * *
35399744 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATTCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
** * *
35399806 TTGTGCGAGAT-ATTAAT
64 TTGAACGAG-TGACTAAA
* *
35399823 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
** *
35399887 GTGCGAGTTACTAAA
66 GAACGAGTGACTAAA
* *
35399902 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
35399966 TGAACGAG-GAGCTATA
65 TGAACGAGTGA-CTAAA
* *
35399982 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
35400001 TACGTGATTT
Statistics
Matches: 152, Mismatches: 19, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
78 16 0.11
79 75 0.49
80 59 0.39
81 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:35407831 original size:24 final size:22
Alignment explanation
Indices: 35407804--35407858 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 22
35407794 ATTTACATAG
35407804 TAATATATA-AAAGATATATGAATA
1 TAATATATAGAAA-ATATAT--ATA
35407828 TAATATAATAGGAAAATATATATA
1 TAATAT-ATA-GAAAATATATATA
35407852 TAATATA
1 TAATATA
35407859 ATATTAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
23 1 0.04
24 15 0.54
25 3 0.11
26 6 0.21
27 3 0.11
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (22 bp):
TAATATATAGAAAATATATATA
Done.