Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 118 of 199
Found at i:33689056 original size:84 final size:86
Alignment explanation
Indices: 33688965--33689181 Score: 235
Period size: 84 Copynumber: 2.5 Consensus size: 86
33688955 TTATGTAAGT
* * * * *
33688965 TGTAAGTTATGT-ATTATGTAAGTTATGTGAGTTATTTATTATGCAAATTAAGTAAGTTATGTAA
1 TGTAAGTTATGTAATTATGTAAGTTATGTAAGTTATGTATAATACAAATTAACTAAGTTATGTAA
33689029 TTTACGAATAAT-TTAAAAAA
66 TTTACGAATAATATTAAAAAA
* ** *
33689049 TGTAAGTTATGTAAGT-TGTAAGTTATGTAAGTTATGTATAATATTAATTAACTAATTTATGTAA
1 TGTAAGTTATGTAATTATGTAAGTTATGTAAGTTATGTATAATACAAATTAACTAAGTTATGTAA
* * **
33689113 TTTATGTATAATATTAATTAA
66 TTTACGAATAATATTAAAAAA
*
33689134 T-TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATA
1 TGTAAGTTATGTAA-TTATG--TAA-GTT-ATGTAAGTTATGTATAATA
33689182 TGTATAATAT
Statistics
Matches: 110, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
84 74 0.67
85 10 0.09
86 2 0.02
88 3 0.03
89 2 0.02
90 19 0.17
ACGTcount: A:0.39, C:0.01, G:0.14, T:0.46
Consensus pattern (86 bp):
TGTAAGTTATGTAATTATGTAAGTTATGTAAGTTATGTATAATACAAATTAACTAAGTTATGTAA
TTTACGAATAATATTAAAAAA
Found at i:33689070 original size:16 final size:16
Alignment explanation
Indices: 33689049--33689081 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
33689039 ATTTAAAAAA
33689049 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
33689065 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
33689081 T
1 T
33689082 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:33689109 original size:34 final size:34
Alignment explanation
Indices: 33689067--33689426 Score: 212
Period size: 34 Copynumber: 10.9 Consensus size: 34
33689057 ATGTAAGTTG
*
33689067 TAAGTTATGTAAGTTATGTATAATATTAATTAAC
1 TAAGTTATGTAATTTATGTATAATATTAATTAAC
* *
33689101 TAATTTATGTAATTTATGTATAATATTAATTAAT
1 TAAGTTATGTAATTTATGTATAATATTAATTAAC
*
33689135 TAAGTTATGTAATTTATGTATAATATTAA-T--G
1 TAAGTTATGTAATTTATGTATAATATTAATTAAC
* *
33689166 TAAGTTATGT-ATAATATGTATAATATTAATGTAAGT
1 TAAGTTATGTAAT-TTATGTATAATATTAAT-TAA-C
* * * * * *
33689202 TATGTAAGTTGTAAGTTATGTA-AGTTATGT-ATAATAT
1 TAAGTTA--TGTAATTTATGTATA-ATAT-TAATTA-AC
** *
33689239 TAA-TTAACTAAGTTATG--TAAT-TT-ATGT-A-
1 TAAGTTATGTAATTTATGTATAATATTAAT-TAAC
* * * *
33689267 TAATATTAATGTAAGTTATGTATAATATTAATTCAT
1 TAA-GTT-ATGTAATTTATGTATAATATTAATTAAC
*
33689303 TAAGTTATGTAATTTATGTATAATATTAA-T--G
1 TAAGTTATGTAATTTATGTATAATATTAATTAAC
*
33689334 TAAGTTATG-----TA--T--AATATTAATTAAT
1 TAAGTTATGTAATTTATGTATAATATTAATTAAC
*
33689359 TAAGTTATGTAATTTATGTATAATATTAATTAATTAAT
1 TAAGTTATGTAATTTATGTAT-A-A-T-ATTAATTAAC
33689397 TAAGTTATGTAATTTATGTATAATATTAAT
1 TAAGTTATGTAATTTATGTATAATATTAAT
33689427 GTAAGTTATG
Statistics
Matches: 262, Mismatches: 25, Indels: 78
0.72 0.07 0.21
Matches are distributed among these distances:
22 8 0.03
23 1 0.00
24 1 0.00
25 9 0.03
26 2 0.01
28 3 0.01
29 1 0.00
30 9 0.03
31 45 0.17
32 2 0.01
33 8 0.03
34 99 0.38
35 7 0.03
36 12 0.05
37 7 0.03
38 46 0.18
39 2 0.01
ACGTcount: A:0.40, C:0.01, G:0.11, T:0.48
Consensus pattern (34 bp):
TAAGTTATGTAATTTATGTATAATATTAATTAAC
Found at i:33689173 original size:22 final size:22
Alignment explanation
Indices: 33689141--33689182 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
33689131 TAATTAAGTT
*
33689141 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
33689163 ATGTAAGTTATGTATAATAT
1 ATGTAAGTTATGTATAATAT
33689183 GTATAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:33689179 original size:56 final size:56
Alignment explanation
Indices: 33689107--33689388 Score: 423
Period size: 56 Copynumber: 5.0 Consensus size: 56
33689097 TAACTAATTT
*
33689107 ATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
* *
33689163 ATGTAAGTTATGTATAATATGTATAATATTAATGTAAGTTATGTAA-GT-TG--TAA-GTT-
1 ATGTAAGTTATGTATAATA--T-T-A-ATTAAT-TAAGTTATGTAATTTATGTATAATATTA
*
33689219 ATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
*
33689275 ATGTAAGTTATGTATAATATTAATTCATTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
33689331 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
33689387 AT
1 AT
33689389 TAATTAATTA
Statistics
Matches: 205, Mismatches: 9, Indels: 24
0.86 0.04 0.10
Matches are distributed among these distances:
50 12 0.06
51 6 0.03
52 3 0.01
53 1 0.00
54 4 0.02
55 2 0.01
56 148 0.72
57 2 0.01
58 4 0.02
59 1 0.00
60 3 0.01
61 7 0.03
62 12 0.06
ACGTcount: A:0.40, C:0.01, G:0.12, T:0.48
Consensus pattern (56 bp):
ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
Found at i:33689216 original size:16 final size:16
Alignment explanation
Indices: 33689195--33689227 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
33689185 ATAATATTAA
33689195 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
33689211 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
33689227 T
1 T
33689228 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:33689218 original size:146 final size:138
Alignment explanation
Indices: 33689047--33689482 Score: 527
Period size: 146 Copynumber: 3.0 Consensus size: 138
33689037 TAATTTAAAA
33689047 AATGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAACTAATTTATGTA
1 AATGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAACTAATTTATGTA
* *
33689112 ATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGT-
66 ATTTATGTATAATATTAATT--GTAAGTTATGT-A--TA-ATATAA-ATTAAT-TAAGTTATGTA
33689176 ATAATATGTATAATATT
123 AT-ATATGTATAATATT
*
33689193 AATGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTA
1 AATGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAACTAATTTATGTA
* * *
33689258 ATTTATGTATAATATTAA-TGTAAGTTATGTATAATATTAATTCATTAAGTTATGTAATTTATGT
66 ATTTATGTATAATATTAATTGTAAGTTATGTATAATATAAATTAATTAAGTTATGTAATATATGT
33689322 ATAATATT
131 ATAATATT
* * * *
33689330 AATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATTAATTA
1 AATGTAAGTTATG-----TA--AGTT--GTAAGTTATGTAAGTTATGTATAATATTAATTAACTA
* *
33689395 ATTAAGTTATGTAATTTATGTATAATATTAA-TGTAAGTTATGTATAATATTAATTATTTAAGTT
57 A-T---TTATGTAATTTATGTATAATATTAATTGTAAGTTATGTATAATATAAATTAATTAAGTT
* *
33689459 ATGTAATTTATGTATAATACT
118 ATGTAATATATGTATAATATT
33689480 AAT
1 AAT
33689483 TTATGTATAA
Statistics
Matches: 262, Mismatches: 14, Indels: 24
0.87 0.05 0.08
Matches are distributed among these distances:
137 36 0.14
138 7 0.03
139 4 0.02
140 2 0.01
142 3 0.01
143 10 0.04
144 3 0.01
145 1 0.00
146 117 0.45
150 79 0.30
ACGTcount: A:0.40, C:0.01, G:0.12, T:0.47
Consensus pattern (138 bp):
AATGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAACTAATTTATGTA
ATTTATGTATAATATTAATTGTAAGTTATGTATAATATAAATTAATTAAGTTATGTAATATATGT
ATAATATT
Found at i:33689239 original size:112 final size:112
Alignment explanation
Indices: 33689105--33689463 Score: 441
Period size: 112 Copynumber: 3.1 Consensus size: 112
33689095 ATTAACTAAT
*
33689105 TTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAG
1 TTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAG
*
33689170 TTATGTATAATATGTATAATATTAATGTAAGTTATGTAAGT-TGTAA
66 TTATGTATAATATGTATAATATTAATGTAAGTTATGTAAATATGTAA
*
33689216 GTTATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTAATGTAA
1 -TTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAA
* *
33689281 GTTATGTATAATA--T-T-A-ATTCAT-TAAGTTATGTAATTTATGTATAATA
65 GTTATGTATAATATGTATAATATTAATGTAAGTTATGTAA-ATATG--T-A-A
33689328 TTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAAT-TAA
1 TT-ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAA
33689392 -TTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATAT-TAA
65 GTT-A-T--G-TA--TAA--TATGTATAATATTAATGTAAGTTATGTA-AATATGTAA
*
33689448 TTATTTAAGTTATGTA
1 TTATGTAAGTTATGTA
33689464 ATTTATGTAT
Statistics
Matches: 216, Mismatches: 8, Indels: 39
0.82 0.03 0.15
Matches are distributed among these distances:
106 12 0.06
107 6 0.03
108 3 0.01
109 1 0.00
110 4 0.02
111 7 0.03
112 134 0.62
114 1 0.00
115 2 0.01
117 3 0.01
119 15 0.07
120 3 0.01
121 2 0.01
122 2 0.01
123 1 0.00
124 5 0.02
125 14 0.06
126 1 0.00
ACGTcount: A:0.40, C:0.01, G:0.11, T:0.48
Consensus pattern (112 bp):
TTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAG
TTATGTATAATATGTATAATATTAATGTAAGTTATGTAAATATGTAA
Found at i:33689285 original size:22 final size:22
Alignment explanation
Indices: 33689253--33689298 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
33689243 TAACTAAGTT
*
33689253 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
33689275 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
33689297 AT
1 AT
33689299 TCATTAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:33689334 original size:22 final size:22
Alignment explanation
Indices: 33689309--33689359 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
33689299 TCATTAAGTT
33689309 ATGTAATTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
*
33689331 ATGTAAGTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
33689353 AT-TAATT
1 ATGTAATT
33689360 AAGTTATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (22 bp):
ATGTAATTTATGTATAATATTA
Found at i:33689429 original size:22 final size:22
Alignment explanation
Indices: 33689365--33689448 Score: 99
Period size: 22 Copynumber: 4.1 Consensus size: 22
33689355 TAATTAAGTT
33689365 ATGTAATTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
* *
33689387 AT-TAA-TTA-AT-TAA-GTT-
1 ATGTAATTTATGTATAATATTA
33689403 ATGTAATTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
*
33689425 ATGTAAGTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
33689447 AT
1 AT
33689449 TATTTAAGTT
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
16 2 0.04
17 5 0.10
18 6 0.12
19 2 0.04
20 6 0.12
21 5 0.10
22 25 0.49
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.49
Consensus pattern (22 bp):
ATGTAATTTATGTATAATATTA
Found at i:33689432 original size:94 final size:94
Alignment explanation
Indices: 33689213--33689483 Score: 355
Period size: 94 Copynumber: 2.9 Consensus size: 94
33689203 ATGTAAGTTG
* * *
33689213 TAAGTTATGTAAGTTATGTATAATATTAATTAACTAAGTTATG--TAAT-TT-ATGT-A-TAATA
1 TAAGTTATGTAATTTATGTATAATATTAA-T--GTAAGTTATGTATAATATTAAT-TAATTAA-G
* *
33689272 TTAATGTAAGTTATGTATAATATT----AATTCAT
61 TT-ATGTAATTTATGTATAATATTAATTAATTAAT
33689303 TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATG
1 TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATG
33689368 TAATTTATGTATAATATTAATTAATTAAT
66 TAATTTATGTATAATATTAATTAATTAAT
*
33689397 TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATATTAATTATTTAAGTTATG
1 TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATG
*
33689462 TAATTTATGTATAATACTAATT
66 TAATTTATGTATAATATTAATT
33689484 TATGTATAAT
Statistics
Matches: 164, Mismatches: 7, Indels: 16
0.88 0.04 0.09
Matches are distributed among these distances:
87 9 0.05
89 5 0.03
90 51 0.31
91 5 0.03
92 3 0.02
94 91 0.55
ACGTcount: A:0.40, C:0.01, G:0.10, T:0.48
Consensus pattern (94 bp):
TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATG
TAATTTATGTATAATATTAATTAATTAAT
Found at i:33689438 original size:60 final size:56
Alignment explanation
Indices: 33689365--33689482 Score: 182
Period size: 56 Copynumber: 2.0 Consensus size: 56
33689355 TAATTAAGTT
* *
33689365 ATGTAATTTATGTATAATATTAATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATT-A-T--TTAAGTTATGTAATTTATGTATAATACTA
33689425 ATGTAAGTTATGTATAATATTAATTATTTAAGTTATGTAATTTATGTATAATACTA
1 ATGTAAGTTATGTATAATATTAATTATTTAAGTTATGTAATTTATGTATAATACTA
33689481 AT
1 AT
33689483 TTATGTATAA
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
56 30 0.54
58 1 0.02
59 1 0.02
60 24 0.43
ACGTcount: A:0.41, C:0.01, G:0.09, T:0.49
Consensus pattern (56 bp):
ATGTAAGTTATGTATAATATTAATTATTTAAGTTATGTAATTTATGTATAATACTA
Found at i:33691034 original size:11 final size:11
Alignment explanation
Indices: 33691020--33691056 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
33691010 TTGATACTAC
*
33691020 ATTATAATGAA
1 ATTATAATCAA
33691031 ATTATAATCAA
1 ATTATAATCAA
33691042 ATTATAATCAA
1 ATTATAATCAA
33691053 ATTA
1 ATTA
33691057 GAAAAGTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (11 bp):
ATTATAATCAA
Found at i:33692388 original size:8 final size:10
Alignment explanation
Indices: 33692365--33692401 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
33692355 ATTAATAACT
33692365 ATATATATCC
1 ATATATATCC
*
33692375 ATATATATTC
1 ATATATATCC
33692385 ATATATATCC
1 ATATATATCC
33692395 ATATATA
1 ATATATA
33692402 AGTAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATATCC
Found at i:33693072 original size:10 final size:10
Alignment explanation
Indices: 33693057--33693093 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
33693047 ATAACTATAT
33693057 ATATATATCC
1 ATATATATCC
*
33693067 ATATATATTC
1 ATATATATCC
33693077 ATATATATCC
1 ATATATATCC
33693087 ATATATA
1 ATATATA
33693094 AGTAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATATCC
Found at i:33693862 original size:17 final size:17
Alignment explanation
Indices: 33693840--33693872 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
33693830 CAAAAAAAAT
*
33693840 GCCGCTAAAGACCATGC
1 GCCGCTAAAGAACATGC
33693857 GCCGCTAAAGAACATG
1 GCCGCTAAAGAACATG
33693873 TTCTTTAGCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.30, G:0.24, T:0.12
Consensus pattern (17 bp):
GCCGCTAAAGAACATGC
Found at i:33693915 original size:42 final size:42
Alignment explanation
Indices: 33693856--33693968 Score: 199
Period size: 42 Copynumber: 2.7 Consensus size: 42
33693846 AAAGACCATG
33693856 CGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAA
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAA
*
33693898 CGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAA
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAA
* *
33693940 CGCCGCTAAAGAACATGATGTTTAGCGGC
1 CGCCGCTAAAGAACATGTTCTTTAGCGGC
33693969 ATTTTTTACA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAA
Found at i:33694338 original size:21 final size:20
Alignment explanation
Indices: 33694288--33694338 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
33694278 TTTTTGGCCT
*
33694288 GCTCTGCTTCTCTCGCTGCA
1 GCTCTGCTTCCCTCGCTGCA
* *
33694308 GCTTTCGCTTCCCTCGCTGCC
1 GCTCT-GCTTCCCTCGCTGCA
33694329 GCCTCTGCTT
1 G-CTCTGCTT
33694339 TAAGTTGTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 4 0.16
21 18 0.72
22 3 0.12
ACGTcount: A:0.02, C:0.43, G:0.20, T:0.35
Consensus pattern (20 bp):
GCTCTGCTTCCCTCGCTGCA
Found at i:33699876 original size:25 final size:25
Alignment explanation
Indices: 33699845--33699949 Score: 106
Period size: 25 Copynumber: 4.2 Consensus size: 25
33699835 TAATATATAT
*
33699845 TTATGTATTAAGTAAATTATGTAGG
1 TTATGTATTAAGTAAATTATGTAAG
*
33699870 TTATGTACGTGT-A-TAAGTTATGTAAG
1 TTATGTA--T-TAAGTAAATTATGTAAG
* *
33699896 TTTTGTATTAAGTAAACTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
* * *
33699921 TTGTGTATTATGTAACTTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
33699946 TTAT
1 TTAT
33699950 CAAAGTATTG
Statistics
Matches: 65, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.02
24 2 0.03
25 42 0.65
26 17 0.26
27 2 0.03
28 1 0.02
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.46
Consensus pattern (25 bp):
TTATGTATTAAGTAAATTATGTAAG
Found at i:33699895 original size:9 final size:9
Alignment explanation
Indices: 33699856--33700106 Score: 150
Period size: 9 Copynumber: 28.8 Consensus size: 9
33699846 TATGTATTAA
*
33699856 GTAAATTAT
1 GTAAGTTAT
*
33699865 GTAGGTTAT
1 GTAAGTTAT
*
33699874 GTACGTGTA-
1 GTAAGT-TAT
33699883 -TAAGTTAT
1 GTAAGTTAT
*
33699891 GTAAGTTTT
1 GTAAGTTAT
*
33699900 GT-A-TTAA
1 GTAAGTTAT
**
33699907 GTAAACTAT
1 GTAAGTTAT
*
33699916 GTAAGTTGT
1 GTAAGTTAT
33699925 GT-A-TTAT
1 GTAAGTTAT
*
33699932 GTAACTTAT
1 GTAAGTTAT
33699941 GTAAGTTAT
1 GTAAGTTAT
**
33699950 CAAAG-TATT
1 GTAAGTTA-T
*
33699959 GTATGTTAT
1 GTAAGTTAT
33699968 GTAAG-T-T
1 GTAAGTTAT
33699975 GTAAGTTAT
1 GTAAGTTAT
*
33699984 -TATGTATTAT
1 GTAAG--TTAT
* * *
33699994 ATAACTTCT
1 GTAAGTTAT
33700003 GTAAGTTAT
1 GTAAGTTAT
33700012 GTAAGTTAT
1 GTAAGTTAT
*
33700021 GTAAGTTGT
1 GTAAGTTAT
*
33700030 GTAAGCTAT
1 GTAAGTTAT
* *
33700039 TTTAGTTAT
1 GTAAGTTAT
33700048 GTAAGCTT-T
1 GTAAG-TTAT
33700057 GT-A-TTAT
1 GTAAGTTAT
33700064 GTAAGTTAT
1 GTAAGTTAT
* *
33700073 GTAGGTTAA
1 GTAAGTTAT
*
33700082 GTAAGTTGT
1 GTAAGTTAT
*
33700091 GTAAATTAT
1 GTAAGTTAT
33700100 GTAAGTT
1 GTAAGTT
33700107 CTTGTACATA
Statistics
Matches: 181, Mismatches: 43, Indels: 36
0.70 0.17 0.14
Matches are distributed among these distances:
6 2 0.01
7 20 0.11
8 17 0.09
9 130 0.72
10 10 0.06
11 2 0.01
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:33700309 original size:53 final size:53
Alignment explanation
Indices: 33700251--33700386 Score: 193
Period size: 53 Copynumber: 2.6 Consensus size: 53
33700241 TTTATAGCGG
33700251 GTAATGTATTCAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
1 GTAATGTATTCAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
* * * *
33700304 TTAATGTA-ACTGAGTAACATATTTAAGTAAAAAATTTAACGAAATTTTAGTAA
1 GTAATGTATTC-AAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
* **
33700357 GTAATGTATTTAAGTAATTTATTTAAGTAA
1 GTAATGTATTCAAGTAACATATTTAAGTAA
33700387 TATATTCAAG
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
52 1 0.01
53 70 0.99
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (53 bp):
GTAATGTATTCAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
Found at i:33700372 original size:13 final size:13
Alignment explanation
Indices: 33700354--33700405 Score: 77
Period size: 13 Copynumber: 4.0 Consensus size: 13
33700344 GAAATTTTAG
*
33700354 TAAGTAATGTATT
1 TAAGTAATATATT
*
33700367 TAAGTAATTTATT
1 TAAGTAATATATT
33700380 TAAGTAATATATT
1 TAAGTAATATATT
*
33700393 CAAGTAATATATT
1 TAAGTAATATATT
33700406 AAGAGTAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:33700735 original size:100 final size:100
Alignment explanation
Indices: 33700475--33700882 Score: 748
Period size: 100 Copynumber: 4.1 Consensus size: 100
33700465 ATACTTAAAA
*
33700475 ATATATATTTAAGTAATGTAATATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
33700540 TAATAAGTTAAATTAAATTGTAAAAATATTAAC--
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
33700573 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
* *
33700638 CAATAAGTTAAATTAAATTATAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
* *
33700673 ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
33700738 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
*
33700773 ATATATATTTAAGTCATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
33700838 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
33700873 ATATATATTT
1 ATATATATTT
33700883 TTTAATATTA
Statistics
Matches: 298, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
98 95 0.32
100 203 0.68
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (100 bp):
ATATATATTTAAGTAATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
Found at i:33701309 original size:7 final size:7
Alignment explanation
Indices: 33701284--33701348 Score: 78
Period size: 7 Copynumber: 9.3 Consensus size: 7
33701274 CACTTCATTC
33701284 AACAGAA
1 AACAGAA
*
33701291 AATAGCAA
1 AACAG-AA
33701299 AACAGAA
1 AACAGAA
*
33701306 AACAAAA
1 AACAGAA
*
33701313 AATAGAA
1 AACAGAA
33701320 AACAGAA
1 AACAGAA
33701327 AACAGAA
1 AACAGAA
*
33701334 AA-AAAA
1 AACAGAA
33701340 AACAGAA
1 AACAGAA
33701347 AA
1 AA
33701349 TAAAGAAACA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
6 5 0.10
7 37 0.77
8 6 0.12
ACGTcount: A:0.75, C:0.11, G:0.11, T:0.03
Consensus pattern (7 bp):
AACAGAA
Found at i:33701313 original size:21 final size:21
Alignment explanation
Indices: 33701284--33701348 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
33701274 CACTTCATTC
33701284 AACAGAAAATAGCAAAACAGAA
1 AACAGAAAATAG-AAAACAGAA
*
33701306 AACAAAAAATAGAAAACAGAA
1 AACAGAAAATAGAAAACAGAA
*
33701327 AACAGAAAA-AAAAAACAGAA
1 AACAGAAAATAGAAAACAGAA
33701347 AA
1 AA
33701349 TAAAGAAACA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 12 0.30
21 17 0.43
22 11 0.28
ACGTcount: A:0.75, C:0.11, G:0.11, T:0.03
Consensus pattern (21 bp):
AACAGAAAATAGAAAACAGAA
Found at i:33701319 original size:14 final size:14
Alignment explanation
Indices: 33701297--33701363 Score: 82
Period size: 14 Copynumber: 4.8 Consensus size: 14
33701287 AGAAAATAGC
33701297 AAAACAGAAAACAA
1 AAAACAGAAAACAA
* *
33701311 AAAATAGAAAACAG
1 AAAACAGAAAACAA
33701325 AAAACAGAAAA-AA
1 AAAACAGAAAACAA
*
33701338 AAAACAGAAAATAA
1 AAAACAGAAAACAA
*
33701352 AGAAACATAAAA
1 A-AAACAGAAAA
33701364 ATGGTACAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
13 12 0.26
14 25 0.54
15 9 0.20
ACGTcount: A:0.78, C:0.09, G:0.09, T:0.04
Consensus pattern (14 bp):
AAAACAGAAAACAA
Found at i:33701357 original size:28 final size:27
Alignment explanation
Indices: 33701284--33701364 Score: 90
Period size: 28 Copynumber: 2.9 Consensus size: 27
33701274 CACTTCATTC
*
33701284 AACAGAAAATAGCAAAACAGAAAACAAAA
1 AACAGAAAATA-AAAAACAGAAAA-AAAA
* * *
33701313 AATAGAAAACAGAAAACAGAAAAAAAA
1 AACAGAAAATAAAAAACAGAAAAAAAA
*
33701340 AACAGAAAATAAAGAAACATAAAAA
1 AACAGAAAATAAA-AAACAGAAAAA
33701365 TGGTACAGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 14 0.32
28 21 0.48
29 9 0.20
ACGTcount: A:0.75, C:0.10, G:0.10, T:0.05
Consensus pattern (27 bp):
AACAGAAAATAAAAAACAGAAAAAAAA
Found at i:33701394 original size:18 final size:19
Alignment explanation
Indices: 33701352--33701395 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
33701342 CAGAAAATAA
*
33701352 AGAAACATAAAAATGGTAC
1 AGAAACATAAAAATGCTAC
* *
33701371 AGAAACAT-AACATGCTAG
1 AGAAACATAAAAATGCTAC
33701389 AGAAACA
1 AGAAACA
33701396 GAAATTTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.57, C:0.14, G:0.16, T:0.14
Consensus pattern (19 bp):
AGAAACATAAAAATGCTAC
Found at i:33702164 original size:10 final size:10
Alignment explanation
Indices: 33702149--33702173 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
33702139 TTCGACATGG
33702149 TTTTGAACAA
1 TTTTGAACAA
33702159 TTTTGAACAA
1 TTTTGAACAA
33702169 TTTTG
1 TTTTG
33702174 CAATTTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.48
Consensus pattern (10 bp):
TTTTGAACAA
Found at i:33703013 original size:199 final size:198
Alignment explanation
Indices: 33702672--33703084 Score: 603
Period size: 199 Copynumber: 2.1 Consensus size: 198
33702662 TAATTAACCC
** *
33702672 ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTTGTTTCCCGATCAGT
1 ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCATTCCCCGATCAGT
* ** * * * * *
33702737 TAACTCTAAGTCATTGCATTTTAGAGAAAACGGCGTCGTCTCCATAAAAATTAAAACATTTTTGC
66 AAACTAAAACTCATGGCATTTTAGACAAAACGGCATCGTCTCCATAAAAATTAAAACAATTTTGC
* *
33702802 GGCGTTTACTAAAAGCGCCACTAAAAAGTAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTC
131 GGCGTGTACTAAAAACGCCACTAAAAA-TAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTC
33702867 TGT-A
195 T-TAA
* * *
33702871 CTTTGCGGCGTTTATATACTAGCGCCACTAGTAATATGATCAAACGCTGTCATTCCCCGATTAGT
1 ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCATTCCCCGATCAGT
* *
33702936 AAACTAAAACTCATGGCGTTTTAGACAAAACGGCATCGTCTCCATAAAAATTAAAATAATTTTGC
66 AAACTAAAACTCATGGCATTTTAGACAAAACGGCATCGTCTCCATAAAAATTAAAACAATTTTGC
* * *
33703001 GGCGTGTACTAAAAACGCCACTAAAGATAAATAAGAAAACGGAGCCGTTTTCGTAAACAATTTCT
131 GGCGTGTACTAAAAACGCCACTAAAAATAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTCT
33703066 TAA
196 TAA
*
33703069 AATTGCGGCGTTTATA
1 ATTTGCGGCGTTTATA
33703085 CATAAACGCC
Statistics
Matches: 190, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
197 1 0.01
198 51 0.27
199 138 0.73
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (198 bp):
ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCATTCCCCGATCAGT
AAACTAAAACTCATGGCATTTTAGACAAAACGGCATCGTCTCCATAAAAATTAAAACAATTTTGC
GGCGTGTACTAAAAACGCCACTAAAAATAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTCT
TAA
Found at i:33703560 original size:47 final size:47
Alignment explanation
Indices: 33703472--33703564 Score: 123
Period size: 47 Copynumber: 2.0 Consensus size: 47
33703462 GTTAATTTCG
* **
33703472 GTAATATTTAAAAAAATTAGATAAAATTATCAATCTCAGTTTTTTAA
1 GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTTAA
* * * *
33703519 GTAATATTTATAAAAATTAGGTAAAAATAAAAATTTTAGTTTTTTA
1 GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTTA
33703565 TTTCTTTTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (47 bp):
GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTTAA
Found at i:33703579 original size:18 final size:18
Alignment explanation
Indices: 33703551--33703597 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
33703541 AAAAATAAAA
33703551 ATTTTAGTTTTTTA-TTTC
1 ATTTTA-TTTTTTATTTTC
*
33703569 TTTTTATTTTTTATTTTC
1 ATTTTATTTTTTATTTTC
33703587 ATTTTATTTTT
1 ATTTTATTTTT
33703598 GTAATTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 7 0.27
18 19 0.73
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (18 bp):
ATTTTATTTTTTATTTTC
Found at i:33703663 original size:16 final size:14
Alignment explanation
Indices: 33703634--33703660 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33703624 TTTACAATTC
33703634 CAAATTATTATATT
1 CAAATTATTATATT
33703648 CAAATTATTATAT
1 CAAATTATTATAT
33703661 ATTGCATATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
CAAATTATTATATT
Found at i:33703851 original size:95 final size:96
Alignment explanation
Indices: 33703731--33703918 Score: 240
Period size: 95 Copynumber: 2.0 Consensus size: 96
33703721 TATAAAGAAC
* * * * *
33703731 TTATTTAATATGTTAATAAATAAATACTAATTAATCCAAATCTT-AATCCCTAACCCGA-CTCCA
1 TTATTTAATATATAAATAAATAAATACTAATTAATCCAAACCTTAAAT-CATAACCCAATCT-CA
33703794 AACCCATAA-CCCTAACCCCTAACCCCTAAACT
64 AACCCATAACCCCTAACCCCTAACCCCTAAACT
* *
33703826 TTATTTAATATATAAAATAAA-AAATACTAATTAATCTAAACCTTAAATCATAACCCAATCTCTA
1 TTATTTAATATAT-AAATAAATAAATACTAATTAATCCAAACCTTAAATCATAACCCAATCTCAA
* *
33703890 ACCCCTAACCCCTAACCCTTAACCCCTAA
65 ACCCATAACCCCTAACCCCTAACCCCTAA
33703919 CCCTTAACCC
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
95 50 0.62
96 30 0.38
ACGTcount: A:0.42, C:0.28, G:0.01, T:0.29
Consensus pattern (96 bp):
TTATTTAATATATAAATAAATAAATACTAATTAATCCAAACCTTAAATCATAACCCAATCTCAAA
CCCATAACCCCTAACCCCTAACCCCTAAACT
Found at i:33703899 original size:7 final size:7
Alignment explanation
Indices: 33703887--33703981 Score: 84
Period size: 7 Copynumber: 13.6 Consensus size: 7
33703877 AACCCAATCT
33703887 CTAACCC
1 CTAACCC
33703894 CTAACCC
1 CTAACCC
33703901 CTAACCC
1 CTAACCC
*
33703908 TTAACCC
1 CTAACCC
33703915 CTAACCC
1 CTAACCC
*
33703922 TTAACCC
1 CTAACCC
* *
33703929 TTAACCT
1 CTAACCC
*
33703936 TTAA-CC
1 CTAACCC
33703942 CTAAACCC
1 CT-AACCC
* *
33703950 TTAGCCC
1 CTAACCC
* * *
33703957 ATGACCT
1 CTAACCC
33703964 CTAACCC
1 CTAACCC
33703971 CTAACCC
1 CTAACCC
33703978 CTAA
1 CTAA
33703982 AACTTATTTA
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
6 2 0.03
7 66 0.93
8 3 0.04
ACGTcount: A:0.29, C:0.46, G:0.02, T:0.22
Consensus pattern (7 bp):
CTAACCC
Found at i:33703906 original size:14 final size:14
Alignment explanation
Indices: 33703887--33703977 Score: 96
Period size: 14 Copynumber: 6.5 Consensus size: 14
33703877 AACCCAATCT
*
33703887 CTAACCCCTAACCC
1 CTAACCCTTAACCC
33703901 CTAACCCTTAACCC
1 CTAACCCTTAACCC
33703915 CTAACCCTTAACCC
1 CTAACCCTTAACCC
* *
33703929 TTAACCTTTAA-CC
1 CTAACCCTTAACCC
*
33703942 CTAAACCCTTAGCCC
1 CT-AACCCTTAACCC
* *
33703957 ATGA-CCTCTAACCC
1 CTAACCCT-TAACCC
33703971 CTAACCC
1 CTAACCC
33703978 CTAAAACTTA
Statistics
Matches: 62, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
13 6 0.10
14 51 0.82
15 5 0.08
ACGTcount: A:0.29, C:0.47, G:0.02, T:0.22
Consensus pattern (14 bp):
CTAACCCTTAACCC
Found at i:33703914 original size:21 final size:21
Alignment explanation
Indices: 33703888--33703981 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
33703878 ACCCAATCTC
33703888 TAACCCCTAACCCCTAACCCT
1 TAACCCCTAACCCCTAACCCT
*
33703909 TAACCCCTAACCCTTAACCCT
1 TAACCCCTAACCCCTAACCCT
**
33703930 TAACCTTTAA-CCCTAAACCCT
1 TAACCCCTAACCCCT-AACCCT
* * * * *
33703951 TAGCCCATGACCTCTAACCCC
1 TAACCCCTAACCCCTAACCCT
33703972 TAACCCCTAA
1 TAACCCCTAA
33703982 AACTTATTTA
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
20 3 0.05
21 52 0.90
22 3 0.05
ACGTcount: A:0.30, C:0.46, G:0.02, T:0.22
Consensus pattern (21 bp):
TAACCCCTAACCCCTAACCCT
Found at i:33704097 original size:12 final size:12
Alignment explanation
Indices: 33704080--33704118 Score: 60
Period size: 12 Copynumber: 3.1 Consensus size: 12
33704070 CTCTTAACAT
33704080 CTAACCCCTAAC
1 CTAACCCCTAAC
33704092 CTAACCCCTAACC
1 CTAACCCCTAA-C
33704105 CATAACCCCTAAC
1 C-TAACCCCTAAC
33704118 C
1 C
33704119 CCTAATCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 11 0.44
13 4 0.16
14 10 0.40
ACGTcount: A:0.33, C:0.51, G:0.00, T:0.15
Consensus pattern (12 bp):
CTAACCCCTAAC
Found at i:33704117 original size:21 final size:21
Alignment explanation
Indices: 33704091--33704130 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
33704081 TAACCCCTAA
33704091 CCTAACCCCTAACCCATAACC
1 CCTAACCCCTAACCCATAACC
*
33704112 CCTAACCCCTAATCCATAA
1 CCTAACCCCTAACCCATAA
33704131 ACCTTAAATC
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:0.35, C:0.47, G:0.00, T:0.17
Consensus pattern (21 bp):
CCTAACCCCTAACCCATAACC
Found at i:33704119 original size:14 final size:13
Alignment explanation
Indices: 33704080--33704119 Score: 64
Period size: 14 Copynumber: 3.1 Consensus size: 13
33704070 CTCTTAACAT
33704080 CTAACCCCTAA-C
1 CTAACCCCTAACC
33704092 CTAACCCCTAACC
1 CTAACCCCTAACC
33704105 CATAACCCCTAACC
1 C-TAACCCCTAACC
33704119 C
1 C
33704120 CTAATCCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 11 0.42
13 2 0.08
14 13 0.50
ACGTcount: A:0.33, C:0.53, G:0.00, T:0.15
Consensus pattern (13 bp):
CTAACCCCTAACC
Found at i:33704638 original size:114 final size:113
Alignment explanation
Indices: 33704512--33704729 Score: 246
Period size: 114 Copynumber: 1.9 Consensus size: 113
33704502 GCTTTACCGA
* * *
33704512 AAACGCCGCTAA-TACTATTC-TTTAGCAGCGTTTTACCATAAACGCCACTAAT-TCTAATATAC
1 AAACGCCACTAATTA-TATTCTTTTA-CAGCGTTTTACAAAAAACGCCACTAATAT-TAATATAC
*
33704574 ATCAAAACCAAACACTGCGTTTTGGTTAAGGCAT-TTTGCGGCGCTTCCAAAT
63 ATCAAAACCAAACACTGCGTTTTCGTTAA-G-ATATTTGCGGCGCTTCCAAAT
* * ** * *
33704626 AAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTAAAAAACGCCACTAATATTAATCTACCTC
1 AAACGCCACTAATTATATTCTTTTACAGCGTTTTACAAAAAACGCCACTAATATTAATATACATC
* **
33704691 AAGACCAAACGGTGCGTTTTCGTTAAGATATTTGCGGCG
66 AAAACCAAACACTGCGTTTTCGTTAAGATATTTGCGGCG
33704730 TTTTATCGTA
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
112 2 0.02
113 10 0.11
114 68 0.78
115 7 0.08
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (113 bp):
AAACGCCACTAATTATATTCTTTTACAGCGTTTTACAAAAAACGCCACTAATATTAATATACATC
AAAACCAAACACTGCGTTTTCGTTAAGATATTTGCGGCGCTTCCAAAT
Found at i:33704846 original size:75 final size:74
Alignment explanation
Indices: 33704665--33704902 Score: 277
Period size: 75 Copynumber: 3.2 Consensus size: 74
33704655 GTTTTTTAAA
* * * *
33704665 AAACGCCACTAATAT-TAATCTACCTCAAGACCAAACGGTGCGTTTTCGTTAAGATA-TTTGCGG
1 AAACGCCACTAAT-TCTAATATACCTCAA-ACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGG
** * ***
33704728 CGTTTTATCGT
64 CGCATAAAAAT
33704739 AAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
1 AAACGCCACTAATTCTAATATACCTC-AAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
33704804 GCATAAAAAT
65 GCATAAAAAT
*
33704814 AAACGCCAC-AATGTCTAATATACAATTC-AACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCG
1 AAACGCCACTAAT-TCTAATATAC--CTCAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCG
**
33704877 GCGCATCCAAAT
63 GCGCATAAAAAT
33704889 AAACGCCACTAATT
1 AAACGCCACTAATT
33704903 ATGTTCTTTT
Statistics
Matches: 144, Mismatches: 13, Indels: 13
0.85 0.08 0.08
Matches are distributed among these distances:
73 1 0.01
74 50 0.35
75 88 0.61
76 3 0.02
77 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.29
Consensus pattern (74 bp):
AAACGCCACTAATTCTAATATACCTCAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCG
CATAAAAAT
Found at i:33705007 original size:74 final size:75
Alignment explanation
Indices: 33704928--33705067 Score: 194
Period size: 74 Copynumber: 1.9 Consensus size: 75
33704918 GTTTTTTAAA
* * * *
33704928 AAACGCCACTAATAT-TAATCTACCTCAAGACCAAATGGTGCGTTTCCGTTAAGATA-TTTGCGG
1 AAACGCCACTAAT-TCTAATATACCTCAAAACCAAACGCTGCGTTTCCGTTAAGATATTTTGCGG
33704991 CGTTTTATCGT
65 CGTTTTATCGT
** *
33705002 AAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
1 AAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTCCGTTAAGATATTTTGCGGC
33705067 G
66 G
33705068 CATAAAAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
73 1 0.02
74 47 0.82
75 9 0.16
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (75 bp):
AAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTCCGTTAAGATATTTTGCGGC
GTTTTATCGT
Found at i:33705016 original size:263 final size:262
Alignment explanation
Indices: 33704549--33705090 Score: 989
Period size: 263 Copynumber: 2.1 Consensus size: 262
33704539 GCGTTTTACC
33704549 ATAAACGCCACTAATTCTAATATACATCAAAACCAAACACTGCGTTTTGGTTAAGGCATTTTGCG
1 ATAAACGCCACTAATTCTAATATACATC-AAACCAAACACTGCGTTTTGGTTAAGGCATTTTGCG
*
33704614 GCGCTTCCAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTAAAAAACGCCACTAATA
65 GCGCATCCAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTAAAAAACGCCACTAATA
*
33704679 TTAATCTACCTCAAGACCAAACGGTGCGTTTTCGTTAAGATATTTGCGGCGTTTTATCGTAAACG
130 TTAATCTACCTCAAGACCAAACGGTGCGTTTCCGTTAAGATATTTGCGGCGTTTTATCGTAAACG
33704744 CCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCATA
195 CCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCATA
33704809 AAA
260 AAA
* *
33704812 ATAAACGCCAC-AATGTCTAATATACAATTC-AACCAAACGCTGCGTTTTGGTTAAGGTATTTTG
1 ATAAACGCCACTAAT-TCTAATATAC-A-TCAAACCAAACACTGCGTTTTGGTTAAGGCATTTTG
33704875 CGGCGCATCCAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTAAAAAACGCCACTAA
63 CGGCGCATCCAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTAAAAAACGCCACTAA
*
33704940 TATTAATCTACCTCAAGACCAAATGGTGCGTTTCCGTTAAGATATTTGCGGCGTTTTATCGTAAA
128 TATTAATCTACCTCAAGACCAAACGGTGCGTTTCCGTTAAGATATTTGCGGCGTTTTATCGTAAA
33705005 CGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCA
193 CGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCA
33705070 TAAAA
258 TAAAA
33705075 ATAAACGCCACTAATT
1 ATAAACGCCACTAATT
33705091 ATGTTCTTTT
Statistics
Matches: 270, Mismatches: 5, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
262 3 0.01
263 261 0.97
264 4 0.01
265 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.31
Consensus pattern (262 bp):
ATAAACGCCACTAATTCTAATATACATCAAACCAAACACTGCGTTTTGGTTAAGGCATTTTGCGG
CGCATCCAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTAAAAAACGCCACTAATAT
TAATCTACCTCAAGACCAAACGGTGCGTTTCCGTTAAGATATTTGCGGCGTTTTATCGTAAACGC
CACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCATAA
AA
Found at i:33705043 original size:188 final size:188
Alignment explanation
Indices: 33704739--33705202 Score: 632
Period size: 188 Copynumber: 2.5 Consensus size: 188
33704729 GTTTTATCGT
* * * * *
33704739 AAACGCCACTAAT-TCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGG
1 AAACGCCACTAATAT-TAATCTACCTCAAGACCAAACGGTGCGTTTTCGTTAAGATA-TTTGCGG
* * ** *
33704803 CGCATAAAAATAAACGCCAC-AATGTCTAATATACAATTCAACCAAACGCTGCGTTTTGGTTAAG
64 CGCTTTAACGTAAACGCCACTAATGTCTAATATAC-ACTCAACCAAACGCTGCGTTTTGGTTAAG
**
33704867 GTATTTTGCGGCGCATCCAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTT-TAAA
128 GTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTCT-AA
* *
33704928 AAACGCCACTAATATTAATCTACCTCAAGACCAAATGGTGCGTTTCCGTTAAGATATTTGCGGCG
1 AAACGCCACTAATATTAATCTACCTCAAGACCAAACGGTGCGTTTTCGTTAAGATATTTGCGGCG
* *
33704993 TTTTATCGTAAACGCCACTAAT-TCTAATATAC-CTCAAAACCAAACGCTGCGTTTTGGTTAAGG
66 CTTTAACGTAAACGCCACTAATGTCTAATATACACTC--AACCAAACGCTGCGTTTTGGTTAAGG
*
33705056 TATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGTGTTTTTCTAA
129 TATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAA
* * *
33705116 AAACGCCACTAATACTAATCTACCTCAAGACGAAACGGTGCGTTTTCATTAAGATATTTGCGGCG
1 AAACGCCACTAATATTAATCTACCTCAAGACCAAACGGTGCGTTTTCGTTAAGATATTTGCGGCG
* * *
33705181 CTTTACCGAAAACGCCGCTAAT
66 CTTTAACGTAAACGCCACTAAT
33705203 ACTATTCTTT
Statistics
Matches: 244, Mismatches: 26, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
186 2 0.01
188 190 0.78
189 51 0.21
190 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (188 bp):
AAACGCCACTAATATTAATCTACCTCAAGACCAAACGGTGCGTTTTCGTTAAGATATTTGCGGCG
CTTTAACGTAAACGCCACTAATGTCTAATATACACTCAACCAAACGCTGCGTTTTGGTTAAGGTA
TTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAA
Found at i:33705284 original size:227 final size:227
Alignment explanation
Indices: 33704984--33705580 Score: 882
Period size: 227 Copynumber: 2.6 Consensus size: 227
33704974 CGTTAAGATA
* * * *
33704984 TTTGCGGCGTTTTATCGTAAACGCCACTAATTCTAATATAC--CTCAAAACCAAACGCTGCGTTT
1 TTTGCGGCGTTTTATAGAAAACGCCACGAATTCTAATATACAATTC--AACCAAACGCTGCGTTT
*
33705047 TGGTTAAGGTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGTGTTTTT
64 TGGTTAAGGTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTT
* *
33705112 CTAAAAACGCCACTAATACTAATCTACCTCAAGACGAAACGGTGCGTTTTCATTAAGATATTTGC
129 TTAAAAACGCCACTAATACTAATCTACCTCAAGACAAAACGGTGCGTTTTCATTAAGATATTTGC
33705177 GGCGCTTTACCG-AAAACGCCGCTAATACTATTCT
194 GGCGCTTT-CCGTAAAACGCCGCTAATACTATTCT
33705211 TTTGCGGCGTTTTATAGAAAACGCCAC-AATGTCTAATATACAATTCAACCAAACGCTGCGTTTT
1 TTTGCGGCGTTTTATAGAAAACGCCACGAAT-TCTAATATACAATTCAACCAAACGCTGCGTTTT
**
33705275 GGTTAAGGTATTTTGCGGCGCATCCAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTT
65 GGTTAAGGTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTT
* * *
33705340 TAAAAACGCCACTAATATTAATCTACCTCAAGATAAAACGGTGCGTTTTCCTTAAGATATTTGCG
130 TAAAAACGCCACTAATACTAATCTACCTCAAGACAAAACGGTGCGTTTTCATTAAGATATTTGCG
** *
33705405 GCGCTTTTTGTTAAACGCCGCTAATACTATTCT
195 GCGCTTTCCGTAAAACGCCGCTAATACTATTCT
* * * *
33705438 TTCGCGGCGTTTTTTATAAAAAACGCCACGAATTCTAATATACAATTGAACC-AACACTGCGTTT
1 TTTGCGGCG--TTTTATAGAAAACGCCACGAATTCTAATATACAATTCAACCAAACGCTGCGTTT
* * * *
33705502 TGGTTAAGGTGTTTTGCGGCGC-TTACAATAAACGCCACTAATTATGTTCTTTTACAGCGTTTTT
64 TGGTTAAGGTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTT
*
33705566 TTAGAAACGCCACTA
129 TTAAAAACGCCACTA
33705581 GTTCTTCAGG
Statistics
Matches: 339, Mismatches: 24, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
226 4 0.01
227 263 0.78
228 32 0.09
229 37 0.11
230 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (227 bp):
TTTGCGGCGTTTTATAGAAAACGCCACGAATTCTAATATACAATTCAACCAAACGCTGCGTTTTG
GTTAAGGTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTT
AAAAACGCCACTAATACTAATCTACCTCAAGACAAAACGGTGCGTTTTCATTAAGATATTTGCGG
CGCTTTCCGTAAAACGCCGCTAATACTATTCT
Found at i:33705337 original size:114 final size:113
Alignment explanation
Indices: 33704988--33705585 Score: 540
Period size: 114 Copynumber: 5.3 Consensus size: 113
33704978 AAGATATTTG
* *
33704988 CGGCG-TTTTATCGTAAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTT
1 CGGCGTTTTTATAGAAAACGCCACTAATTCTAATATACCTC-AAACCAAACGCTGCGTTTTGGTT
* *
33705052 AAGGTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTA
65 AAGGTATTTTGCGGCGC-TTACAATAAACGCCACTAATTATGTTCTTTTA
* * * * * * **
33705102 CGGTGTTTTTCTA-AAAACGCCACTAATACTAATCTACCTCAAGACGAAACGGTGCGTTTTCATT
1 CGGCGTTTTTATAGAAAACGCCACTAATTCTAATATACCTCAA-ACCAAACGCTGCGTTTTGGTT
* * * * *
33705166 AAGATA-TTTGCGGCGCTTTACCGA-AAACGCCGCTAA-TACTATTCTTTTG
65 AAGGTATTTTGCGGCGC-TTA-CAATAAACGCCACTAATTA-TGTTCTTTTA
*
33705215 CGGCG-TTTTATAGAAAACGCCAC-AATGTCTAATATACAATTC-AACCAAACGCTGCGTTTTGG
1 CGGCGTTTTTATAGAAAACGCCACTAAT-TCTAATATAC--CTCAAACCAAACGCTGCGTTTTGG
* *
33705277 TTAAGGTATTTTGCGGCGCATCCAAATAAACGCCACTAATTATGTTCTTTTA
63 TTAAGGTATTTTGCGGCGCTTAC-AATAAACGCCACTAATTATGTTCTTTTA
* * ** * **
33705329 CGGCGTTTTTTTA-AAAACGCCACTAATAT-TAATCTACCTCAAGATAAAACGGTGCGTTTTCCT
1 CGGCGTTTTTATAGAAAACGCCACTAAT-TCTAATATACCTCAA-ACCAAACGCTGCGTTTTGGT
* **** * * **
33705392 TAAGATA-TTTGCGGCGCTTTTTGTTAAACGCCGCTAA-TACTATTCTTTCG
64 TAAGGTATTTTGCGGCGC-TTACAATAAACGCCACTAATTA-TGTTCTTTTA
* * * ** *
33705442 CGGCGTTTTTTATAAAAAACGCCACGAATTCTAATATACAATTGAACC-AACACTGCGTTTTGGT
1 CGGCG-TTTTTATAGAAAACGCCACTAATTCTAATATAC-CTCAAACCAAACGCTGCGTTTTGGT
*
33705506 TAAGGTGTTTTGCGGCGCTTACAATAAACGCCACTAATTATGTTCTTTTA
64 TAAGGTATTTTGCGGCGCTTACAATAAACGCCACTAATTATGTTCTTTTA
* * *
33705556 CAGCGTTTTTTTAG-AAACGCCACTAGTTCT
1 CGGCGTTTTTATAGAAAACGCCACTAATTCT
33705586 TCAGGTTTTA
Statistics
Matches: 380, Mismatches: 80, Indels: 50
0.75 0.16 0.10
Matches are distributed among these distances:
112 30 0.08
113 121 0.32
114 175 0.46
115 52 0.14
116 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (113 bp):
CGGCGTTTTTATAGAAAACGCCACTAATTCTAATATACCTCAAACCAAACGCTGCGTTTTGGTTA
AGGTATTTTGCGGCGCTTACAATAAACGCCACTAATTATGTTCTTTTA
Found at i:33707611 original size:41 final size:41
Alignment explanation
Indices: 33707566--33707804 Score: 182
Period size: 41 Copynumber: 5.8 Consensus size: 41
33707556 AAAGCCAGAG
* *
33707566 CATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACTAA
1 CATTAGCGGCGCTCAGATAAAAACGCCACTAAAGATACCAA
** * * * *
33707607 CATTAGCGATGCTTAGAAAAAAACGCCGCTAAAG--GCCAGA
1 CATTAGCGGCGCTCAGATAAAAACGCCACTAAAGATACCA-A
* * * * *
33707647 GAATTAGTGGCGCTCAGATAAAAACGCCACTAAAAATACGAG
1 -CATTAGCGGCGCTCAGATAAAAACGCCACTAAAGATACCAA
* * * *
33707689 CATTAGCAGCGCTTAGAGAAAAACGCCACTAAAG--GCCAGA
1 CATTAGCGGCGCTCAGATAAAAACGCCACTAAAGATACCA-A
* * * *
33707729 GCATTAGTGGCGCTCAGATAAAAACGCCGCTAAAGAT-CGGAC
1 -CATTAGCGGCGCTCAGATAAAAACGCCACTAAAGATAC-CAA
* * *
33707771 CATTAGCGGCGCTAAAATAAAAACGCCGCTAAAG
1 CATTAGCGGCGCTCAGATAAAAACGCCACTAAAG
33707805 GTTTAAAAAT
Statistics
Matches: 151, Mismatches: 38, Indels: 18
0.73 0.18 0.09
Matches are distributed among these distances:
39 4 0.03
40 1 0.01
41 142 0.94
42 1 0.01
43 3 0.02
ACGTcount: A:0.40, C:0.23, G:0.22, T:0.16
Consensus pattern (41 bp):
CATTAGCGGCGCTCAGATAAAAACGCCACTAAAGATACCAA
Found at i:33707647 original size:82 final size:82
Alignment explanation
Indices: 33707544--33707805 Score: 368
Period size: 82 Copynumber: 3.2 Consensus size: 82
33707534 ACTTACCTAT
* *
33707544 AAAACGCCGCTAAAAGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACTAACA
1 AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAACA
*
33707609 TTAGCGATGCTTAGAAA
66 TTAGCGACGCTTAGAAA
* * *
33707626 AAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAAACGCCACTAAAAATACGAGCA
1 AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAACA
*
33707691 TTAGC-AGCGCTTAGAGA
66 TTAGCGA-CGCTTAGAAA
* * *
33707708 AAAACGCCACTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCGCTAAAGAT-CGGACC
1 AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATAC-GAAC
* *
33707772 ATTAGCGGCGC-TAAAATA
65 ATTAGCGACGCTTAGAA-A
33707790 AAAACGCCGCTAAAGG
1 AAAACGCCGCTAAAGG
33707806 TTTAAAAATC
Statistics
Matches: 160, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
81 5 0.03
82 155 0.97
ACGTcount: A:0.40, C:0.23, G:0.22, T:0.15
Consensus pattern (82 bp):
AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAACA
TTAGCGACGCTTAGAAA
Found at i:33708412 original size:19 final size:19
Alignment explanation
Indices: 33708390--33708427 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
33708380 AGTGCTAAGT
33708390 GTAACAACTCGATGATTGC
1 GTAACAACTCGATGATTGC
33708409 GTAACAACTCGATGATTGC
1 GTAACAACTCGATGATTGC
33708428 ATTTACTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (19 bp):
GTAACAACTCGATGATTGC
Found at i:33713379 original size:15 final size:15
Alignment explanation
Indices: 33713351--33713387 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
33713341 TACTAGTGCC
* *
33713351 CCACCCCCTTCAAGA
1 CCACCACCTCCAAGA
33713366 CCACCACCTCCAAGA
1 CCACCACCTCCAAGA
33713381 CCACCAC
1 CCACCAC
33713388 GAGTTTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.30, C:0.57, G:0.05, T:0.08
Consensus pattern (15 bp):
CCACCACCTCCAAGA
Found at i:33721779 original size:342 final size:342
Alignment explanation
Indices: 33721154--33721829 Score: 1282
Period size: 342 Copynumber: 2.0 Consensus size: 342
33721144 TTATATATTA
*
33721154 AAAACAAAAATTTAGTTTATATATATATGTCAGGGCATTTTTATAAATATTTCAAAACGAAATAT
1 AAAACAAAAATTTAGTTTATATATATATGTCAGGGCATTTTTATAAATATTTCAAAACGAAATAG
33721219 ATTTACTTTAAATCTAATCCCGATTTAGCCTAATTATTTTTATAATTTCACTCGAATTAATTCGA
66 ATTTACTTTAAATCTAATCCCGATTTAGCCTAATTATTTTTATAATTTCACTCGAATTAATTCGA
* *
33721284 CTTAAATTCGTTTTTTCAAAACAAAAAAAAATCTGACCATAATAAATTGGGTGGAATCAAAACCT
131 CTTAAATTCATTTTTTCAAAAAAAAAAAAAATCTGACCATAATAAATTGGGTGGAATCAAAACCT
*
33721349 ATCGGATTTAAATTTTTTTTCGCGAACCCTAAAATAGAAGAGAGTGAAACTAATTCATGATTGCG
196 ATCGGATTTAAATTTTTTTTCGCGAACCCTAAAATAGAAGAGAGTGAAACTAATTCACGATTGCG
33721414 GGTTTATTCTGCTGGTTAATTTCAATCAATTTCTCGGGCAAATTACCAATAAAAGCCCATTTATT
261 GGTTTATTCTGCTGGTTAATTTCAATCAATTTCTCGGGCAAATTACCAATAAAAGCCCATTTATT
33721479 TTCAAAATTTAGTTTTG
326 TTCAAAATTTAGTTTTG
*
33721496 AAAACAAAAATTTAGTTTATATATATATGTTAGGGCATTTTTATAAATATTTCAAAACGAAATAG
1 AAAACAAAAATTTAGTTTATATATATATGTCAGGGCATTTTTATAAATATTTCAAAACGAAATAG
33721561 ATTTACTTTAAATCTAATCCCGATTTAGCCTAATTATTTTTATAATTTCACTCGAATTAATTCGA
66 ATTTACTTTAAATCTAATCCCGATTTAGCCTAATTATTTTTATAATTTCACTCGAATTAATTCGA
33721626 CTTAAATTCATTTTTTCAAAATAAAAAAAAAATCTGACCATAATAAATTGGGTGGAATCAAAACC
131 CTTAAATTCATTTTTTCAAAA-AAAAAAAAAATCTGACCATAATAAATTGGGTGGAATCAAAACC
33721691 TATCGGATTTAAA-TTTTTTTCGCGAACCCTAAAATAGAAGAGAGTGAAACTAATTCACGATTGC
195 TATCGGATTTAAATTTTTTTTCGCGAACCCTAAAATAGAAGAGAGTGAAACTAATTCACGATTGC
*
33721755 GGGTTTATTCTGCTGGTTAATTTCAATCAATTTCTCGGGCAAATTACCAATAAAAGCCCCTTTAT
260 GGGTTTATTCTGCTGGTTAATTTCAATCAATTTCTCGGGCAAATTACCAATAAAAGCCCATTTAT
33721820 TTTCAAAATT
325 TTTCAAAATT
33721830 ACCGAAATGG
Statistics
Matches: 327, Mismatches: 6, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
342 272 0.83
343 55 0.17
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.37
Consensus pattern (342 bp):
AAAACAAAAATTTAGTTTATATATATATGTCAGGGCATTTTTATAAATATTTCAAAACGAAATAG
ATTTACTTTAAATCTAATCCCGATTTAGCCTAATTATTTTTATAATTTCACTCGAATTAATTCGA
CTTAAATTCATTTTTTCAAAAAAAAAAAAAATCTGACCATAATAAATTGGGTGGAATCAAAACCT
ATCGGATTTAAATTTTTTTTCGCGAACCCTAAAATAGAAGAGAGTGAAACTAATTCACGATTGCG
GGTTTATTCTGCTGGTTAATTTCAATCAATTTCTCGGGCAAATTACCAATAAAAGCCCATTTATT
TTCAAAATTTAGTTTTG
Found at i:33722543 original size:24 final size:21
Alignment explanation
Indices: 33722496--33722545 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 21
33722486 CTACTAATGT
*
33722496 GTTCACACAACAATTAAAAGG
1 GTTCACACAAAAATTAAAAGG
*
33722517 GTTCACACTAAAACATTAAAGATG
1 GTTCACAC-AAAA-ATTAAA-AGG
33722541 GTTCA
1 GTTCA
33722546 TGAATTCGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.33
22 3 0.12
23 6 0.25
24 7 0.29
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (21 bp):
GTTCACACAAAAATTAAAAGG
Found at i:33724038 original size:83 final size:83
Alignment explanation
Indices: 33723943--33724106 Score: 294
Period size: 83 Copynumber: 2.0 Consensus size: 83
33723933 GTGTTTAGGG
*
33723943 TTTTAAGAGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTGAATTAATTATAAAATTTT
1 TTTTAAGAGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT-AAATTTT
33724008 AAAAAAATTAGATTAGGAT
65 AAAAAAATTAGATTAGGAT
*
33724027 TTTTAAG-GAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAATTAATTATAAATTTTA
1 TTTTAAGAGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTA
33724091 AAAAAATTAGATTAGG
66 AAAAAATTAGATTAGG
33724107 GTTTAGTGTT
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
82 24 0.31
83 47 0.60
84 7 0.09
ACGTcount: A:0.45, C:0.02, G:0.17, T:0.36
Consensus pattern (83 bp):
TTTTAAGAGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTA
AAAAAATTAGATTAGGAT
Found at i:33724068 original size:179 final size:186
Alignment explanation
Indices: 33723745--33724173 Score: 568
Period size: 179 Copynumber: 2.3 Consensus size: 186
33723735 GGTTTTAGAT
* * * *
33723745 TTTAAGGTTTTAAGGAAAAATTAAATAAATAAGGGTTTAGGGTTTCTTAATTAAATTAATTATAA
1 TTTAGGGTTTTAAGGAAAAATTAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAA
* *
33723810 ATTTTTAAAAAATAGATTAGGGTTTAGTGTTGATGGTTTTTAAGAAAAAAATCAAATAAATTAGG
66 AATTTTAAAAAATAGATTA-GGATTAG-G-TGA--GTTTTTAAGAAAAAAATCAAATAAATTAGG
* *
33723875 GTTTAGGATTACTTGAGTAAATTAATTATAAATTTTTAAAAATTTAGATTAGGATTTAGTG
126 GTTTAGGATTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGATTTAGTG
* * *
33723936 TTTAGGGTTTTAAGAGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTGAATTAATTATA
1 TTTAGGGTTTTAAG-GAAAAATTAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATA
*
33724001 AAATTTT-AAAAA-A-ATTA-GATTA-G-GA-TTTTTAAG-GAAAAATCAAATAAATTAGGGTTT
65 AAATTTTAAAAAATAGATTAGGATTAGGTGAGTTTTTAAGAAAAAAATCAAATAAATTAGGGTTT
* * *
33724058 GGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGTG
130 AGGATTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGATTTAGTG
* * * *
33724115 TTTATGGTTTTTAAGTAAAAATTAAATAAATTAGGGTTTAGAGTTACTTAATTAAATTA
1 TTTA-GGGTTTTAAGGAAAAATTAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTA
33724174 TTTGTTAATT
Statistics
Matches: 214, Mismatches: 22, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
179 117 0.55
180 17 0.08
183 2 0.01
185 1 0.00
187 4 0.02
189 4 0.02
190 1 0.00
191 18 0.08
192 50 0.23
ACGTcount: A:0.41, C:0.02, G:0.17, T:0.39
Consensus pattern (186 bp):
TTTAGGGTTTTAAGGAAAAATTAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAA
AATTTTAAAAAATAGATTAGGATTAGGTGAGTTTTTAAGAAAAAAATCAAATAAATTAGGGTTTA
GGATTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGATTTAGTG
Found at i:33724190 original size:96 final size:95
Alignment explanation
Indices: 33723731--33724190 Score: 522
Period size: 96 Copynumber: 4.9 Consensus size: 95
33723721 GGTTAGGGTT
* * * *
33723731 TTAGGGTTTTAGAT-TTTAAGG-TTTTAAGGAAAAATTAAATAAATAAGGGTTTAGGGTTTCTTA
1 TTAGGG-TTTAG-TGTTT-AGGTTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTG
* *
33723794 ATTAAATTAATTATAAATTTTTAAAAAA-TAGA
63 AGTAAATTAATTATAAATTTTAAAAAAATTAGA
* * *
33723826 TTAGGGTTTAGTGTTGATGGTTTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGGATTACTTGA
1 TTAGGGTTTAGTGTTTA-GGTTTTTAAG-GAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGA
* *
33723891 GTAAATTAATTATAAATTTTTAAAAATTTAGA
64 GTAAATTAATTATAAATTTTAAAAAAATTAGA
* *
33723923 TTAGGATTTAGTGTTTAGGGTTTTAAGAGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAG
1 TTAGGGTTTAGTGTTTAGGTTTTTAAG-GAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAG
*
33723988 TGAATTAATTATAAAATTTTAAAAAAATTAG-
65 TAAATTAATTAT-AAATTTTAAAAAAATTAGA
*
33724019 --A----TTAG-G---A--TTTTTAAGGAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGT
1 TTAGGGTTTAGTGTTTAGGTTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGT
33724072 AAATTAATTATAAATTTTAAAAAAATTAGA
66 AAATTAATTATAAATTTTAAAAAAATTAGA
* * * * *
33724102 TTAGGGTTTAGTGTTTATGGTTTTTAAGTAAAAATTAAATAAATTAGGGTTTAGAGTTACTTAAT
1 TTAGGGTTTAGTGTTTA-GGTTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAG
* * *
33724167 TAAATTATTTGTTAA-TTTAAAAAA
65 TAAATTAATTATAAATTTTAAAAAA
33724191 GCTTTCACAT
Statistics
Matches: 316, Mismatches: 29, Indels: 40
0.82 0.08 0.10
Matches are distributed among these distances:
82 18 0.06
83 47 0.15
84 7 0.02
85 1 0.00
86 1 0.00
89 5 0.02
90 5 0.02
93 3 0.01
94 10 0.03
95 22 0.07
96 162 0.51
97 35 0.11
ACGTcount: A:0.41, C:0.02, G:0.17, T:0.40
Consensus pattern (95 bp):
TTAGGGTTTAGTGTTTAGGTTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGT
AAATTAATTATAAATTTTAAAAAAATTAGA
Found at i:33724441 original size:126 final size:124
Alignment explanation
Indices: 33724200--33724462 Score: 402
Period size: 126 Copynumber: 2.1 Consensus size: 124
33724190 AGCTTTCACA
* * *
33724200 TGGAAGCTCTTTTGCTACAATAGTTCTTGAAAAAATAATTTTGAGAAGATGTTTCTGCAAATAGT
1 TGGACGCTCTTTTGCCACAATAGTTCTTGAAAAAATAATTTTGAGAAGATATTTCTGCAAATAGT
* * * *
33724265 GTCAAAAACGCTTTAAGCAGGATGTATTGTCAGGAAAAATACTGAAAGAAGCTCCCACG
66 GTCAAAAACGCTTCAAGCAGGATGCAATGTCAGCAAAAATACTGAAAGAAGCTCCCACG
*
33724324 TGGACGCTCTTTTGCCACAGTAGTT-TCTGAAAAAATAATTTTGAGAAGATATTTCTGAGCAAAT
1 TGGACGCTCTTTTGCCACAATAGTTCT-TGAAAAAATAATTTTGAGAAGATATTTCT--GCAAAT
* *
33724388 AGTGTCAAAAATGCTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAGAAGCTCCCACG
63 AGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAGCAAAAATACTGAAAGAAGCTCCCACG
33724450 TGGACGCTCTTTT
1 TGGACGCTCTTTT
33724463 ACGTCAGTAG
Statistics
Matches: 126, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
123 1 0.01
124 50 0.40
126 75 0.60
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.29
Consensus pattern (124 bp):
TGGACGCTCTTTTGCCACAATAGTTCTTGAAAAAATAATTTTGAGAAGATATTTCTGCAAATAGT
GTCAAAAACGCTTCAAGCAGGATGCAATGTCAGCAAAAATACTGAAAGAAGCTCCCACG
Found at i:33737451 original size:15 final size:15
Alignment explanation
Indices: 33737433--33737469 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
33737423 AAATAATTAA
*
33737433 TTTTAATATTTATAT
1 TTTTAATATTTAAAT
*
33737448 TTTTAAAATTTAAAT
1 TTTTAATATTTAAAT
33737463 TTTTAAT
1 TTTTAAT
33737470 CTTGATTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTAATATTTAAAT
Found at i:33740810 original size:40 final size:40
Alignment explanation
Indices: 33740755--33740841 Score: 156
Period size: 40 Copynumber: 2.2 Consensus size: 40
33740745 CTAAGTGCCT
33740755 AACCAATATGCCATCATTTGACACCACAAATCATACACTA
1 AACCAATATGCCATCATTTGACACCACAAATCATACACTA
*
33740795 AACCAATATGCCATCATTTGGCACCACAAATCATACACTA
1 AACCAATATGCCATCATTTGACACCACAAATCATACACTA
*
33740835 AATCAAT
1 AACCAAT
33740842 CCAATTTCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.43, C:0.29, G:0.06, T:0.23
Consensus pattern (40 bp):
AACCAATATGCCATCATTTGACACCACAAATCATACACTA
Found at i:33750973 original size:13 final size:13
Alignment explanation
Indices: 33750955--33750979 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33750945 GATCGAGTCC
33750955 ATAAATATTATTA
1 ATAAATATTATTA
33750968 ATAAATATTATT
1 ATAAATATTATT
33750980 GATTTAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATAAATATTATTA
Found at i:33759386 original size:13 final size:13
Alignment explanation
Indices: 33759370--33759394 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33759360 TTTCTATTCA
33759370 TAACATATTTTCT
1 TAACATATTTTCT
33759383 TAACATATTTTC
1 TAACATATTTTC
33759395 AATTTATTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (13 bp):
TAACATATTTTCT
Found at i:33760214 original size:94 final size:95
Alignment explanation
Indices: 33760050--33760241 Score: 289
Period size: 94 Copynumber: 2.0 Consensus size: 95
33760040 ATATCAACTC
* * * **
33760050 TGTAAATATTCCTATTTTATATTTACGAACTTGGTTTACGGTTTATGGAAATGGGGTTCTAAAAT
1 TGTAAATATTCCTATTTTATACTTACGAACTTGGTTTACAGTTTACGGAAATGAAGTTCTAAAAT
*
33760115 CATATTTTTCAACACCACT-AAAATCGAGT
66 AATATTTTTCAACACCACTGAAAATCGAGT
* *
33760144 TGTAAATATTCCTATTTTATACTTAC-AGACTTGGTTTACAGTTTACGGAAATGAAGTTTTGAAA
1 TGTAAATATTCCTATTTTATACTTACGA-ACTTGGTTTACAGTTTACGGAAATGAAGTTCTAAAA
33760208 TAATATTTTTCAACACCACTGAAAATCGAGT
65 TAATATTTTTCAACACCACTGAAAATCGAGT
33760239 TGT
1 TGT
33760242 TACAAATCAA
Statistics
Matches: 88, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
93 1 0.01
94 74 0.84
95 13 0.15
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.39
Consensus pattern (95 bp):
TGTAAATATTCCTATTTTATACTTACGAACTTGGTTTACAGTTTACGGAAATGAAGTTCTAAAAT
AATATTTTTCAACACCACTGAAAATCGAGT
Found at i:33760764 original size:17 final size:17
Alignment explanation
Indices: 33760735--33760767 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
33760725 TTAAATTGTA
33760735 GTTTGAAAAAACAAAAC
1 GTTTGAAAAAACAAAAC
33760752 GTTT-AAAAGAACAAAA
1 GTTTGAAAA-AACAAAA
33760768 AAAATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.61, C:0.09, G:0.12, T:0.18
Consensus pattern (17 bp):
GTTTGAAAAAACAAAAC
Found at i:33762754 original size:32 final size:32
Alignment explanation
Indices: 33762718--33762778 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
33762708 TCTTTTTACC
* *
33762718 ATTTTAGAATAATCATGAATGTAGTTTACTAT
1 ATTTTAGAATAACCATAAATGTAGTTTACTAT
* *
33762750 ATTTTAGAGTGACCATAAATGTAGTTTAC
1 ATTTTAGAATAACCATAAATGTAGTTTAC
33762779 CCTAATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (32 bp):
ATTTTAGAATAACCATAAATGTAGTTTACTAT
Found at i:33767308 original size:22 final size:21
Alignment explanation
Indices: 33767280--33767343 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
33767270 AGAGAATATT
*
33767280 TACTATTCATGCTAGAGAATC
1 TACTATTCATGCCAGAGAATC
*
33767301 ATACTATTTC-TGCCAGAGATTTC
1 -TACTA-TTCATGCCAGAGA-ATC
*
33767324 TACTGTTCATGCCAGAGAAT
1 TACTATTCATGCCAGAGAAT
33767344 ATTTCCTGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
21 4 0.11
22 26 0.74
23 5 0.14
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (21 bp):
TACTATTCATGCCAGAGAATC
Found at i:33771226 original size:15 final size:15
Alignment explanation
Indices: 33771206--33771241 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
33771196 ATGTTGTATG
33771206 TAATTCGTCTATTTA
1 TAATTCGTCTATTTA
*
33771221 TAATTCGTCTATTTG
1 TAATTCGTCTATTTA
33771236 TAATTC
1 TAATTC
33771242 ATCTGTTTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.25, C:0.14, G:0.08, T:0.53
Consensus pattern (15 bp):
TAATTCGTCTATTTA
Found at i:33774582 original size:9 final size:9
Alignment explanation
Indices: 33774566--33774837 Score: 94
Period size: 9 Copynumber: 29.0 Consensus size: 9
33774556 CGGTCCAATT
33774566 TAATTTTTA
1 TAATTTTTA
*
33774575 TGATTTTTA
1 TAATTTTTA
33774584 TAATTTTTA
1 TAATTTTTA
* *
33774593 TAAGTCTATA
1 TAA-TTTTTA
*
33774603 TCAATTTTAA
1 T-AATTTTTA
*
33774613 TATTTTTTTA
1 TA-ATTTTTA
33774623 TAAATTTTTA
1 T-AATTTTTA
*
33774633 CAATTTTTA
1 TAATTTTTA
*
33774642 TTATTTTTAA
1 TAATTTTT-A
* * *
33774652 GAACTTTAA
1 TAATTTTTA
*
33774661 TACTTTTT-
1 TAATTTTTA
*
33774669 TAAAATTTTA
1 T-AATTTTTA
*
33774679 -AATATTTAAAA
1 TAAT-TTT--TA
* *
33774690 TAAGTTTAA
1 TAATTTTTA
33774699 TTAA-TTTTA
1 -TAATTTTTA
33774708 TAAATTTTTTA
1 T-AA-TTTTTA
33774719 TAATTTTT-
1 TAATTTTTA
*
33774727 TAATATTTA
1 TAATTTTTA
*
33774736 TAAGTTTTCA
1 TAA-TTTTTA
33774746 TAATTTTTTTA
1 TAA--TTTTTA
*
33774757 TAATTTTAA
1 TAATTTTTA
*
33774766 TAAGTTTATA
1 TAA-TTTTTA
*
33774776 TCAATTTATA
1 T-AATTTTTA
* *
33774786 TTAGTTTTA
1 TAATTTTTA
33774795 -ATATTTTT-
1 TA-ATTTTTA
33774803 TAA-TTTT-
1 TAATTTTTA
33774810 TAATATTTT-
1 TAAT-TTTTA
33774819 TAATATTTTA
1 TAAT-TTTTA
*
33774829 TGATTTTTA
1 TAATTTTTA
33774838 ATCATTATTT
Statistics
Matches: 197, Mismatches: 41, Indels: 50
0.68 0.14 0.17
Matches are distributed among these distances:
7 7 0.04
8 12 0.06
9 100 0.51
10 53 0.27
11 23 0.12
12 2 0.01
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (9 bp):
TAATTTTTA
Found at i:33774717 original size:11 final size:10
Alignment explanation
Indices: 33774703--33774763 Score: 56
Period size: 11 Copynumber: 6.2 Consensus size: 10
33774693 GTTTAATTAA
33774703 TTTTATAAATT
1 TTTTAT-AATT
33774714 TTTTATAA-T
1 TTTTATAATT
33774723 TTTT-TAA-T
1 TTTTATAATT
* *
33774731 ATTTATAAGT
1 TTTTATAATT
*
33774741 TTTCATAATTT
1 TTTTATAA-TT
33774752 TTTTATAATT
1 TTTTATAATT
33774762 TT
1 TT
33774764 AATAAGTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
8 7 0.17
9 8 0.19
10 13 0.31
11 14 0.33
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (10 bp):
TTTTATAATT
Found at i:33774774 original size:38 final size:37
Alignment explanation
Indices: 33774619--33774775 Score: 103
Period size: 38 Copynumber: 4.2 Consensus size: 37
33774609 TTAATATTTT
* * *
33774619 TTTATAAATTTT-TACAA-TTTTTATTATTTTTAAGAAC
1 TTTAT-AATTTTATA-AATTTTTTATAATTTTTAATAAG
* * * *
33774656 TTTAATACTTTTTTAAA-ATTTTA-AATATTTAAAATAAG
1 TTT-ATAATTTTATAAATTTTTTATAAT-TTT-TAATAAG
33774694 TTTAATTAATTTTATAAATTTTTTATAATTTTTTAAT-A-
1 TTT-A-TAATTTTATAAATTTTTTATAA-TTTTTAATAAG
*
33774732 TTTATAAGTTTTCATAATTTTTTTATAA-TTTTAATAAG
1 TTTATAA-TTTT-ATAAATTTTTTATAATTTTTAATAAG
33774770 TTTATA
1 TTTATA
33774776 TCAATTTATA
Statistics
Matches: 97, Mismatches: 11, Indels: 23
0.74 0.08 0.18
Matches are distributed among these distances:
36 12 0.12
37 24 0.25
38 36 0.37
39 11 0.11
40 8 0.08
41 5 0.05
42 1 0.01
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (37 bp):
TTTATAATTTTATAAATTTTTTATAATTTTTAATAAG
Found at i:33774812 original size:17 final size:17
Alignment explanation
Indices: 33774790--33774839 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
33774780 TTTATATTAG
33774790 TTTTAATATTTTTTAAT-
1 TTTTAATA-TTTTTAATA
33774807 TTTTAATATTTTTAATA
1 TTTTAATATTTTTAATA
33774824 TTTT-ATGATTTTTAAT
1 TTTTAAT-ATTTTTAAT
33774840 CATTATTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.32
17 21 0.68
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (17 bp):
TTTTAATATTTTTAATA
Found at i:33774819 original size:26 final size:27
Alignment explanation
Indices: 33774790--33774848 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 27
33774780 TTTATATTAG
*
33774790 TTTTAATATTTTTTAATTTTTAAT-AT
1 TTTTAATATTTTATAATTTTTAATCAT
*
33774816 TTTTAATATTTTATGATTTTTAATCAT
1 TTTTAATATTTTATAATTTTTAATCAT
33774843 TATTTA
1 T-TTTA
33774849 TGGAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 22 0.76
27 3 0.10
28 4 0.14
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (27 bp):
TTTTAATATTTTATAATTTTTAATCAT
Found at i:33775643 original size:202 final size:201
Alignment explanation
Indices: 33775320--33775854 Score: 720
Period size: 201 Copynumber: 2.7 Consensus size: 201
33775310 AATGTTGAAA
* * * * * *
33775320 ATTTTTAACTCTATAAACAGGCAGGCTTAAGAGACTGAAAAGTGTAAGAAAAAAATTAGTAAAAA
1 ATTTTTAACTCTATAAACAAGCAGTCTTAAGAGACTGATAAGTATGAGAAAATAATTAGTAAAAA
* * * * * *
33775385 -AACTGTGGTTGTTATTATTTTGCAACTATCACTTGCTTATAATACGTAACTATAAAAACTTACT
66 GTAC-CTGG-AGTTGTTATTTTACAACTATCACTTGCTTATAATACATAACTATAAAAACTTACT
* *
33775449 AAATC-TTTTTCATTTATCATTTAATAGAAAATATATACTCCACTTAATACATTGGATTATTATT
129 AAATCGTTTTT-ATTTATCATTTAATAAAAAATATATACTCCACTTAATACATTGGAGTATTATT
33775513 TGATACACAC
193 TGAT-CACAC
** *
33775523 ATTTTTAACTCTATAAACAAATAGTCTTAAGAGACTGATAAGTATGAGAAAATAATTACTAAAAA
1 ATTTTTAACTCTATAAACAAGCAGTCTTAAGAGACTGATAAGTATGAGAAAATAATTAGTAAAAA
* *
33775588 GTACCTGGAGTTGTTATTTTACAACGATCACTTGTTTATAATACATAACTATAAAAACTTACTAA
66 GTACCTGGAGTTGTTATTTTACAACTATCACTTGCTTATAATACATAACTATAAAAACTTACTAA
*
33775653 ATCGTTTTTATTTATCATTTAATAAAAAATATATACTCCACTTAATACATTTGAGTATTATTTGA
131 ATCGTTTTTATTTATCATTTAATAAAAAATATATACTCCACTTAATACATTGGAGTATTATTTGA
*
33775718 TTACAC
196 TCACAC
*
33775724 ATTTTTAACTCTATAAACAAGCGGAT-TTAAGAGACTGATAAGTATGAGAAAATAATTAGTAAAA
1 ATTTTTAACTCTATAAACAAGCAG-TCTTAAGAGACTGATAAGTATGAGAAAATAATTAGTAAAA
** * * * * *
33775788 AGTATTTGGGGTTGTTATTTCACAA-TAGTCACTTACTTATAATTCATAACTATAAATACTTA-T
65 AGTACCTGGAGTTGTTATTTTACAACTA-TCACTTGCTTATAATACATAACTATAAAAACTTACT
33775851 AAAT
129 AAAT
33775855 TGAAGTAGGG
Statistics
Matches: 294, Mismatches: 34, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
200 6 0.02
201 113 0.38
202 109 0.37
203 64 0.22
204 2 0.01
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.37
Consensus pattern (201 bp):
ATTTTTAACTCTATAAACAAGCAGTCTTAAGAGACTGATAAGTATGAGAAAATAATTAGTAAAAA
GTACCTGGAGTTGTTATTTTACAACTATCACTTGCTTATAATACATAACTATAAAAACTTACTAA
ATCGTTTTTATTTATCATTTAATAAAAAATATATACTCCACTTAATACATTGGAGTATTATTTGA
TCACAC
Found at i:33775940 original size:19 final size:20
Alignment explanation
Indices: 33775918--33775956 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
33775908 AGCACACAAC
*
33775918 ACATA-CTGGCGCACGAAGT
1 ACATATCTGGCACACGAAGT
33775937 ACATATCTGGCACACGAAGT
1 ACATATCTGGCACACGAAGT
33775957 GCATCCTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.33, C:0.26, G:0.23, T:0.18
Consensus pattern (20 bp):
ACATATCTGGCACACGAAGT
Found at i:33782615 original size:3 final size:3
Alignment explanation
Indices: 33782607--33782643 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
33782597 ATTTCAATTA
33782607 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
33782644 GAAGGAAACG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:33783337 original size:22 final size:22
Alignment explanation
Indices: 33783300--33783383 Score: 77
Period size: 22 Copynumber: 3.9 Consensus size: 22
33783290 CTTTGCTTAT
*
33783300 TTGAATCGATT-GTTTTGTTGA
1 TTGAATCGATTCTTTTTGTTGA
* *
33783321 TTGACTCGATTCTTTTTGTTGT
1 TTGAATCGATTCTTTTTGTTGA
* *
33783343 TTGAATCGA-T-TGTTTATT-A
1 TTGAATCGATTCTTTTTGTTGA
33783362 TTTGAATCGATTCTTTGTTGTT
1 -TTGAATCGATTCTTT-TTGTT
33783384 TAACTCGATT
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
20 15 0.31
21 12 0.24
22 18 0.37
23 4 0.08
ACGTcount: A:0.17, C:0.08, G:0.19, T:0.56
Consensus pattern (22 bp):
TTGAATCGATTCTTTTTGTTGA
Found at i:33783351 original size:43 final size:43
Alignment explanation
Indices: 33783282--33783383 Score: 122
Period size: 42 Copynumber: 2.4 Consensus size: 43
33783272 ATTTGTTTTA
* * *
33783282 AATCGATTCTTTG--CTTATTTGAATCGATTGTTTTGTTGA-TTG
1 AATCGATTCTTTGTTGTTGTTTGAATCGATTG-TTTATT-ATTTG
*
33783324 ACTCGATTCTTT-TTGTTGTTTGAATCGATTGTTTATTATTTG
1 AATCGATTCTTTGTTGTTGTTTGAATCGATTGTTTATTATTTG
33783366 AATCGATTCTTTGTTGTT
1 AATCGATTCTTTGTTGTT
33783384 TAACTCGATT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.02
42 30 0.59
43 20 0.39
ACGTcount: A:0.18, C:0.10, G:0.18, T:0.55
Consensus pattern (43 bp):
AATCGATTCTTTGTTGTTGTTTGAATCGATTGTTTATTATTTG
Found at i:33783391 original size:20 final size:20
Alignment explanation
Indices: 33783282--33783394 Score: 111
Period size: 20 Copynumber: 5.5 Consensus size: 20
33783272 ATTTGTTTTA
*
33783282 AATCGATTCTTTGCTTATTTG
1 AATCGATTCTTTG-TTGTTTG
* *
33783303 AATCGATTGTTTTGTTGATTG
1 AATCGATT-CTTTGTTGTTTG
*
33783324 ACTCGATTCTTTTTGTTGTTTG
1 AATCGATTC--TTTGTTGTTTG
* * *
33783346 AATCGATTGTTTATTATTTG
1 AATCGATTCTTTGTTGTTTG
33783366 AATCGATTCTTTGTTGTTT-
1 AATCGATTCTTTGTTGTTTG
33783385 AACTCGATTC
1 AA-TCGATTC
33783395 AAACGCCAAC
Statistics
Matches: 75, Mismatches: 13, Indels: 9
0.77 0.13 0.09
Matches are distributed among these distances:
19 2 0.03
20 32 0.43
21 20 0.27
22 21 0.28
ACGTcount: A:0.19, C:0.12, G:0.17, T:0.53
Consensus pattern (20 bp):
AATCGATTCTTTGTTGTTTG
Found at i:33783501 original size:21 final size:20
Alignment explanation
Indices: 33783476--33783532 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
33783466 GTTTCTTTTG
33783476 AATCGATTTTTTGTTATCTTA
1 AATCGATTTTTTGTTAT-TTA
* ** *
33783497 AATCGATCTTTACTTATTTG
1 AATCGATTTTTTGTTATTTA
33783517 AATCGATTGTTTTGTT
1 AATCGATT-TTTTGTT
33783533 GATTGACTCA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
20 9 0.32
21 19 0.68
ACGTcount: A:0.23, C:0.11, G:0.12, T:0.54
Consensus pattern (20 bp):
AATCGATTTTTTGTTATTTA
Found at i:33783560 original size:22 final size:22
Alignment explanation
Indices: 33783526--33783571 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
33783516 GAATCGATTG
* *
33783526 TTTTGTTGATTGACTCAATTCT
1 TTTTATTGATTGAATCAATTCT
* *
33783548 TTTTATTGTTTGAATCGATTCT
1 TTTTATTGATTGAATCAATTCT
33783570 TT
1 TT
33783572 GTTGTTTAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.17, C:0.11, G:0.13, T:0.59
Consensus pattern (22 bp):
TTTTATTGATTGAATCAATTCT
Found at i:33783578 original size:20 final size:20
Alignment explanation
Indices: 33783472--33783588 Score: 76
Period size: 20 Copynumber: 5.7 Consensus size: 20
33783462 TGTTGTTTCT
* *
33783472 TTTGAATCGATTTTTTGTTA
1 TTTGAATCGATTCTTTGTTG
* * *
33783492 TCTTAAATCGA-TCTTTACTTA
1 T-TTGAATCGATTCTTT-GTTG
*
33783513 TTTGAATCGATTGTTTTGTTG
1 TTTGAATCGATT-CTTTGTTG
* * * *
33783534 ATTGACTCAATTCTTTTTATTG
1 TTTGAATCGATTC--TTTGTTG
33783556 TTTGAATCGATTCTTTGTTG
1 TTTGAATCGATTCTTTGTTG
33783576 TTT-AACTCGATTC
1 TTTGAA-TCGATTC
33783589 AAAGGTCAAC
Statistics
Matches: 74, Mismatches: 16, Indels: 14
0.71 0.15 0.13
Matches are distributed among these distances:
19 2 0.03
20 29 0.39
21 24 0.32
22 19 0.26
ACGTcount: A:0.21, C:0.12, G:0.14, T:0.54
Consensus pattern (20 bp):
TTTGAATCGATTCTTTGTTG
Found at i:33784836 original size:7 final size:7
Alignment explanation
Indices: 33784824--33784850 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
33784814 GTTGAAGGGA
33784824 AAATGGT
1 AAATGGT
33784831 AAATGGT
1 AAATGGT
33784838 AAATGGT
1 AAATGGT
33784845 AAATGG
1 AAATGG
33784851 GTTAAGAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (7 bp):
AAATGGT
Found at i:33789601 original size:17 final size:18
Alignment explanation
Indices: 33789587--33789670 Score: 80
Period size: 19 Copynumber: 4.4 Consensus size: 18
33789577 ATAATCTTCG
33789587 AGGATATGCAATCTTAGA
1 AGGATATGCAATCTTAGA
*
33789605 TATGATATGCAATCTTAGA
1 -AGGATATGCAATCTTAGA
*
33789624 TATGATATATGCAATCTTAGA
1 -A-G-GATATGCAATCTTAGA
* *
33789645 TATGATATGTAATCTTAGA
1 -AGGATATGCAATCTTAGA
33789664 A-GATATG
1 AGGATATG
33789671 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
17 6 0.11
18 1 0.02
19 33 0.58
21 17 0.30
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (18 bp):
AGGATATGCAATCTTAGA
Found at i:33789613 original size:19 final size:19
Alignment explanation
Indices: 33789589--33789663 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
33789579 AATCTTCGAG
33789589 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33789608 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33789627 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
33789648 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
33789664 AGATATGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 34 0.64
21 19 0.36
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:33789635 original size:21 final size:21
Alignment explanation
Indices: 33789590--33789652 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
33789580 ATCTTCGAGG
33789590 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
33789609 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
33789630 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
33789651 AT
1 AT
33789653 GTAATCTTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.45
21 23 0.55
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:33789682 original size:23 final size:22
Alignment explanation
Indices: 33789602--33789686 Score: 81
Period size: 21 Copynumber: 4.0 Consensus size: 22
33789592 ATGCAATCTT
*
33789602 AGATATGATATGCAATCTTAG-
1 AGATATGATATGTAATCTTAGA
* *
33789623 ATATGAT-ATATGCAATCTT---
1 AGAT-ATGATATGTAATCTTAGA
33789642 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
33789664 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
33789687 GATTTAATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.04
19 14 0.26
21 15 0.28
22 10 0.19
23 13 0.24
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:33789696 original size:22 final size:23
Alignment explanation
Indices: 33789652--33789696 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
33789642 AGATATGATA
*
33789652 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
33789675 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
33789697 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:33789885 original size:18 final size:21
Alignment explanation
Indices: 33789861--33789899 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
33789851 TGGCTTACTG
*
33789861 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
33789880 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
33789900 TTGAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:33790314 original size:4 final size:4
Alignment explanation
Indices: 33790287--33790328 Score: 52
Period size: 4 Copynumber: 11.0 Consensus size: 4
33790277 AATTATTTCT
* *
33790287 TTTA TTT- TTTA ATTA GTT- TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
33790329 AAACAAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
3 5 0.15
4 28 0.85
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:33790328 original size:12 final size:11
Alignment explanation
Indices: 33790287--33790327 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
33790277 AATTATTTCT
33790287 TTTATTTTTTA
1 TTTATTTTTTA
* *
33790298 ATTAGTTTTTA
1 TTTATTTTTTA
33790309 TTTATTTATTTA
1 TTTATTT-TTTA
33790321 TTTATTT
1 TTTATTT
33790328 AAAACAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (11 bp):
TTTATTTTTTA
Found at i:33790673 original size:98 final size:100
Alignment explanation
Indices: 33790519--33790721 Score: 383
Period size: 100 Copynumber: 2.0 Consensus size: 100
33790509 AAATGTTTTG
*
33790519 TTTATATCCATATGGATATTTATTCTTTTTTTAAAAAAGGGGCTC-AA-ATATATATATTTTTAA
1 TTTATATCCATATGGATATTTATTCTTTTTTAAAAAAAGGGGCTCAAATATATATATATTTTTAA
33790582 ATACCTATTTTATAATCTATATATGTTTATCTATT
66 ATACCTATTTTATAATCTATATATGTTTATCTATT
33790617 TTTATATCCATATGGATATTTATTCTTTTTTAAAAAAAGGGGCTCAAATATATATATATTTTTAA
1 TTTATATCCATATGGATATTTATTCTTTTTTAAAAAAAGGGGCTCAAATATATATATATTTTTAA
33790682 ATACCTATTTTATAATCTATATATGTTTATCTATT
66 ATACCTATTTTATAATCTATATATGTTTATCTATT
33790717 TTTAT
1 TTTAT
33790722 TTATATTCAT
Statistics
Matches: 102, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
98 44 0.43
99 2 0.02
100 56 0.55
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (100 bp):
TTTATATCCATATGGATATTTATTCTTTTTTAAAAAAAGGGGCTCAAATATATATATATTTTTAA
ATACCTATTTTATAATCTATATATGTTTATCTATT
Found at i:33791010 original size:19 final size:20
Alignment explanation
Indices: 33790969--33791010 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
33790959 ATTTCTATGC
* *
33790969 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
33790989 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
33791008 CAT
1 CAT
33791011 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:33793296 original size:15 final size:15
Alignment explanation
Indices: 33793272--33793303 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
33793262 TATGCATGCA
*
33793272 AAATATAAAAGACAT
1 AAATACAAAAGACAT
33793287 AAATACAAAAGACAT
1 AAATACAAAAGACAT
33793302 AA
1 AA
33793304 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:33796253 original size:40 final size:40
Alignment explanation
Indices: 33796170--33796352 Score: 124
Period size: 40 Copynumber: 4.6 Consensus size: 40
33796160 TTGAATGCTG
* * * * *
33796170 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGA-T-ATTAAA
* *
33796210 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATATTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTCGTGCGAGATATTAAA
** * *
33796250 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATATTAAA
** * * * *
33796290 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATA-TTAAA
* *
33796330 T-CGGGCTATGTCCCGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATT
33796353 TGAATGAGGA
Statistics
Matches: 123, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
39 30 0.24
40 82 0.67
41 10 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATATTAAA
Found at i:33796340 original size:39 final size:40
Alignment explanation
Indices: 33796223--33796352 Score: 138
Period size: 40 Copynumber: 3.3 Consensus size: 40
33796213 GGACTAAGAT
* * * * * * *
33796223 CCGAAGGCCTTTGTGCGAGATATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTCTAAAATCCGGGCTATGTC
* * *
33796263 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTCTAAAATCCGGGCTATGTC
*
33796303 CCGAAGGCATT-GTGTGAGTTACTAAAAT-CGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTT-CTAAAATCCGGGCTATGTC
33796342 CCGAAGGCATT
1 CCGAAGGCATT
33796353 TGAATGAGGA
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 29 0.36
40 51 0.64
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTCTAAAATCCGGGCTATGTC
Found at i:33804114 original size:41 final size:40
Alignment explanation
Indices: 33804030--33804213 Score: 124
Period size: 40 Copynumber: 4.6 Consensus size: 40
33804020 TTGAATGCTG
* * * * *
33804030 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGA-T-ATTAAA
* *
33804070 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATATTAAAA
1 TCCGGACTAAG-TCCCGAAGGCATTCGTGCGAGATATT-AAA
** * *
33804111 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATATTAAA
** * * * *
33804151 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATATTAAA
* * *
33804190 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATT
33804214 TGAACGAGGA
Statistics
Matches: 123, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 34 0.28
40 47 0.38
41 41 0.33
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATATTAAA
Found at i:33804154 original size:81 final size:81
Alignment explanation
Indices: 33804030--33804213 Score: 189
Period size: 81 Copynumber: 2.3 Consensus size: 81
33804020 TTGAATGCTG
* * *
33804030 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAG-TCCCGAAGG-CA
*
33804093 TTGTGCGAGATATTAAAA
64 TTGTGCGAGATACTAAAA
* * * ** *
33804111 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTATGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAG-TGAATAAATCCGGACTAAGTCCCGAAGGCAT
* *
33804174 TGTGTGAGTTACTAAAA
65 TGTGCGAGATACTAAAA
*
33804191 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
33804214 TGAACGAGGA
Statistics
Matches: 86, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
79 21 0.24
80 17 0.20
81 40 0.47
82 8 0.09
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGTCCCGAAGGCATT
GTGCGAGATACTAAAA
Found at i:33804195 original size:39 final size:39
Alignment explanation
Indices: 33804083--33804213 Score: 163
Period size: 39 Copynumber: 3.3 Consensus size: 39
33804073 GGACTAAGAT
* * *
33804083 CCGAAGGCCTTTGTGCGAGATATTAAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTATTAAAA-CCGGGTTATGTC
* *
33804124 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTATTAAAACCGGGTTATGTC
* * *
33804164 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTATTAAAACCGGGTTATGTC
33804203 CCGAAGGCATT
1 CCGAAGGCATT
33804214 TGAACGAGGA
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 34 0.43
40 25 0.32
41 20 0.25
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTATTAAAACCGGGTTATGTC
Found at i:33809616 original size:21 final size:22
Alignment explanation
Indices: 33809592--33809632 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
33809582 TAAAAAAAAA
*
33809592 TATAATTTTTA-AATATTTTTT
1 TATAAATTTTATAATATTTTTT
*
33809613 TATAAATTTTATATTATTTT
1 TATAAATTTTATAATATTTT
33809633 ATCACGTGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
TATAAATTTTATAATATTTTTT
Found at i:33810836 original size:23 final size:24
Alignment explanation
Indices: 33810795--33810839 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
33810785 TTTAATACAG
33810795 TATTTTTATTTTCAGAAATTTAGT
1 TATTTTTATTTTCAGAAATTTAGT
*
33810819 TATTTTTATTTTTA-AAATTTA
1 TATTTTTATTTTCAGAAATTTA
33810840 AAAATTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (24 bp):
TATTTTTATTTTCAGAAATTTAGT
Found at i:33810846 original size:23 final size:24
Alignment explanation
Indices: 33810796--33810846 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
33810786 TTAATACAGT
***
33810796 ATTTTTATTTTCAGAAATTTAGTT
1 ATTTTTATTTTCAGAAATTTAAAA
*
33810820 ATTTTTATTTTTA-AAATTTAAAA
1 ATTTTTATTTTCAGAAATTTAAAA
33810843 ATTT
1 ATTT
33810847 AATTATAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (24 bp):
ATTTTTATTTTCAGAAATTTAAAA
Found at i:33816523 original size:21 final size:22
Alignment explanation
Indices: 33816484--33816524 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
33816474 TCATAAAAAA
* *
33816484 TTTAAAATTATTAACAATATAT
1 TTTAAAAGTATTAAAAATATAT
33816506 TTTAAAAGTA-TAAAAATAT
1 TTTAAAAGTATTAAAAATAT
33816525 TAAACTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
TTTAAAAGTATTAAAAATATAT
Found at i:33816547 original size:9 final size:9
Alignment explanation
Indices: 33816509--33816632 Score: 58
Period size: 9 Copynumber: 13.4 Consensus size: 9
33816499 AATATATTTT
*
33816509 AAAAGTATA
1 AAAATTATA
*
33816518 AAAA-TATT
1 AAAATTATA
*
33816526 AAACTTATA
1 AAAATTATA
33816535 AAAATTATAAA
1 AAAATTAT--A
33816546 AAAATTCATAA
1 AAAATT-AT-A
* *
33816557 AAAATAAGA
1 AAAATTATA
33816566 AAAATCTA-A
1 AAAAT-TATA
*
33816575 TAAATTATAA
1 AAAATTAT-A
33816585 AAATATTATA
1 AAA-ATTATA
* *
33816595 ATAACTA-A
1 AAAATTATA
*
33816603 AACATT-TA
1 AAAATTATA
*
33816611 AAAGTTATA
1 AAAATTATA
*
33816620 AAAGTTATA
1 AAAATTATA
33816629 AAAA
1 AAAA
33816633 AAATTCATAA
Statistics
Matches: 88, Mismatches: 17, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
8 17 0.19
9 42 0.48
10 8 0.09
11 19 0.22
12 2 0.02
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (9 bp):
AAAATTATA
Found at i:33816556 original size:21 final size:21
Alignment explanation
Indices: 33816532--33816595 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
33816522 TATTAAACTT
33816532 ATAAAAATTATAAAAAAATTC
1 ATAAAAATTATAAAAAAATTC
33816553 ATAAAAA--ATAAGAAAAA-TC
1 ATAAAAATTATAA-AAAAATTC
*
33816572 -TAATAAATTATAAAAATATT-
1 ATAA-AAATTATAAAAAAATTC
33816592 ATAA
1 ATAA
33816596 TAACTAAAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
18 3 0.08
19 9 0.25
20 9 0.25
21 15 0.42
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (21 bp):
ATAAAAATTATAAAAAAATTC
Found at i:33816596 original size:21 final size:19
Alignment explanation
Indices: 33816509--33816632 Score: 57
Period size: 17 Copynumber: 6.7 Consensus size: 19
33816499 AATATATTTT
* *
33816509 AAAAGTATAAAAA-TAT-T
1 AAAATTATAAAAATTATAA
*
33816526 AAACTTATAAAAATTATAAA
1 AAAATTATAAAAATTAT-AA
*
33816546 AAAATTCATAAAAAATA-AGA
1 AAAATT-ATAAAAATTATA-A
*
33816566 AAAATCTA-ATAAATTATAA
1 AAAAT-TATAAAAATTATAA
* *
33816585 AAATATTATAATAA--CTAA
1 AAA-ATTATAAAAATTATAA
* *
33816603 AACATT-TAAAAGTTAT-A
1 AAAATTATAAAAATTATAA
*
33816620 AAAGTTATAAAAA
1 AAAATTATAAAAA
33816633 AAATTCATAA
Statistics
Matches: 78, Mismatches: 17, Indels: 23
0.66 0.14 0.19
Matches are distributed among these distances:
16 4 0.05
17 19 0.24
18 14 0.18
19 13 0.17
20 18 0.23
21 10 0.13
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (19 bp):
AAAATTATAAAAATTATAA
Found at i:33816721 original size:16 final size:16
Alignment explanation
Indices: 33816700--33816731 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
33816690 TATTTTTTAG
*
33816700 AAAATATAAAATATTA
1 AAAATATAAAAAATTA
33816716 AAAATATAAAAAATTA
1 AAAATATAAAAAATTA
33816732 TTTATTGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAATATAAAAAATTA
Found at i:33818445 original size:27 final size:27
Alignment explanation
Indices: 33818415--33818592 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33818405 ATATTGAGTC
* * * *
33818415 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
33818442 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
33818469 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
33818497 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
33818524 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
33818551 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
33818578 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33818593 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:33818554 original size:82 final size:81
Alignment explanation
Indices: 33818436--33818591 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33818426 TGCTATATAA
* *
33818436 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
33818501 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
33818518 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
33818582 CACTTAGTGC
65 CACTTAGTGC
33818592 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:33839719 original size:14 final size:15
Alignment explanation
Indices: 33839700--33839729 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
33839690 ATATTTGACT
33839700 TGTTCTTAATT-ATG
1 TGTTCTTAATTCATG
33839714 TGTTCTTAATTCATG
1 TGTTCTTAATTCATG
33839729 T
1 T
33839730 TTTAATATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.20, C:0.10, G:0.13, T:0.57
Consensus pattern (15 bp):
TGTTCTTAATTCATG
Found at i:33841578 original size:93 final size:93
Alignment explanation
Indices: 33841470--33841640 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
33841460 CGCCCCTAGT
* * *
33841470 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
33841534 ACGAGTTTGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
*
33841563 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
33841628 CGAGTTCGGATGC
66 CGAGTTCGGATGC
33841641 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:33841634 original size:46 final size:46
Alignment explanation
Indices: 33841467--33841637 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
33841457 ACCCGCCCCT
* * *
33841467 AGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGTATCCATA
* * * * *
33841513 AGTGAACTCGGACTCAACTCAACGAGTTTGG--ATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTA--TCCA--TA
* *
33841561 A-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGTATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCATA
33841606 AGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGA
33841638 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
44 3 0.03
45 4 0.04
46 59 0.58
47 29 0.28
48 2 0.02
49 5 0.05
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCATA
Found at i:33841656 original size:46 final size:46
Alignment explanation
Indices: 33841464--33841656 Score: 127
Period size: 46 Copynumber: 4.2 Consensus size: 46
33841454 GTAACCCGCC
** * *
33841464 CCTAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTC--GCAT
1 CCTAGTGAACTCGGACTCAACTCAACGAG-TTCGGATGCTCAACCAT
*
33841508 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGC-CTAGTTA-CAT
1 CC-T-AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCAT
* * * *
33841558 -CTCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGT-ATCCAT
1 CCT-AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-TCAACCAT
*
33841605 --AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 CCTAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
33841649 CCTAGTGA
1 CCTAGTGA
33841657 CATGTCACGT
Statistics
Matches: 116, Mismatches: 15, Indels: 34
0.70 0.09 0.21
Matches are distributed among these distances:
43 1 0.01
44 10 0.09
45 5 0.04
46 61 0.53
47 29 0.25
48 2 0.02
49 5 0.04
50 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCTAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
Found at i:33843898 original size:23 final size:24
Alignment explanation
Indices: 33843872--33843917 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
33843862 CTTCGCTGTC
*
33843872 TCAA-ATTCAAGTCTTTTGTGACA
1 TCAAGATTCAAGACTTTTGTGACA
*
33843895 TCAAGTATTTAAGACTTTTGTGA
1 TCAAG-ATTCAAGACTTTTGTGA
33843918 TCGGTATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
25 15 0.79
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.41
Consensus pattern (24 bp):
TCAAGATTCAAGACTTTTGTGACA
Found at i:33845067 original size:14 final size:14
Alignment explanation
Indices: 33845045--33845089 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
33845035 TTAAAGAAGC
33845045 AACTCATTAAATTA
1 AACTCATTAAATTA
*
33845059 AATTCATTAAA-TA
1 AACTCATTAAATTA
*
33845072 AACTCATTTAATTA
1 AACTCATTAAATTA
33845086 AACT
1 AACT
33845090 AAGATGAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:33845136 original size:41 final size:41
Alignment explanation
Indices: 33845072--33845172 Score: 175
Period size: 41 Copynumber: 2.4 Consensus size: 41
33845062 TCATTAAATA
33845072 AACTCATTTAATTAAACTAAGATGAGTTGTATTAATGACCAGC
1 AACTCATTT-ATT-AACTAAGATGAGTTGTATTAATGACCAGC
33845115 AACTCATTTATTAACTAAGATGAGTTGTATTAATGACCAGC
1 AACTCATTTATTAACTAAGATGAGTTGTATTAATGACCAGC
*
33845156 AACTCATTTATAAACTA
1 AACTCATTTATTAACTA
33845173 GAGGCTTAAA
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
41 45 0.79
42 3 0.05
43 9 0.16
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.34
Consensus pattern (41 bp):
AACTCATTTATTAACTAAGATGAGTTGTATTAATGACCAGC
Found at i:33857528 original size:15 final size:14
Alignment explanation
Indices: 33857492--33857546 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
33857482 TCTATTGATC
33857492 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
33857506 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
33857520 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
33857535 GAAAGAAAAGAA
1 GAGA-AAAAGAA
33857547 TGAGGAGAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:33888375 original size:49 final size:49
Alignment explanation
Indices: 33888298--33888393 Score: 167
Period size: 49 Copynumber: 2.0 Consensus size: 49
33888288 ATGATTCATC
*
33888298 TTATGCATTGCTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTGT
1 TTATACATTGCTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTGT
33888347 TTATACATTGCTAAAC-TGAGTCTTCCACTGTCTACACTCTTATCACT
1 TTATACATTGCTAAACTTG-GTCTTCCACTGTCTACACTCTTATCACT
33888394 AATTATCCCT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
48 2 0.04
49 43 0.96
ACGTcount: A:0.23, C:0.27, G:0.10, T:0.40
Consensus pattern (49 bp):
TTATACATTGCTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTGT
Found at i:33888792 original size:30 final size:30
Alignment explanation
Indices: 33888735--33888792 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
33888725 TGGCTTGGGC
* * * *
33888735 CACATGCCTATGTTTGTTGCCCGTGTGTCA
1 CACATACCCATGTGTGTTGCCCATGTGTCA
*
33888765 CACATACCCATGTGTGTTGCCTATGTGT
1 CACATACCCATGTGTGTTGCCCATGTGT
33888793 GACCCATCCC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.16, C:0.26, G:0.22, T:0.36
Consensus pattern (30 bp):
CACATACCCATGTGTGTTGCCCATGTGTCA
Found at i:33892935 original size:25 final size:25
Alignment explanation
Indices: 33892897--33892957 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
33892887 TGCATTAATC
33892897 AATTTATTCTTACATAAAGAGCACCA
1 AATTTA-TCTTACATAAAGAGCACCA
*
33892923 AATTTATCTTACATAAGGAGCACCA
1 AATTTATCTTACATAAAGAGCACCA
33892948 AATTTATCTT
1 AATTTATCTT
33892958 CTAAAAGTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 28 0.82
26 6 0.18
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.34
Consensus pattern (25 bp):
AATTTATCTTACATAAAGAGCACCA
Found at i:33898418 original size:5 final size:5
Alignment explanation
Indices: 33898361--33898414 Score: 65
Period size: 5 Copynumber: 10.8 Consensus size: 5
33898351 TATATTATTT
* * *
33898361 CATTC CATTC CATTC CATAC CATTC CATTC CATAT- CATTC CATTT CATTT
1 CATTC CATTC CATTC CATTC CATTC CATTC CAT-TC CATTC CATTC CATTC
33898411 CATT
1 CATT
33898415 TCATCAAGCA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
4 1 0.02
5 42 0.95
6 1 0.02
ACGTcount: A:0.24, C:0.33, G:0.00, T:0.43
Consensus pattern (5 bp):
CATTC
Done.