Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 8 of 75
Found at i:2129958 original size:21 final size:20
Alignment explanation
Indices: 2129919--2129963 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
2129909 CAATTTTAAA
* **
2129919 TATAAAATATTTATTTTATAT
1 TATAAAAAATTTAAATTAT-T
2129940 TATAAAAAATTTAAATTATT
1 TATAAAAAATTTAAATTATT
2129960 TATA
1 TATA
2129964 TTTTAAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATAAAAAATTTAAATTATT
Found at i:2136357 original size:22 final size:22
Alignment explanation
Indices: 2136331--2136389 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
2136321 ATATCCAAAT
*
2136331 AATAACAATAAAATAGTAGTAA
1 AATAACAATAAAATAGTAGCAA
* * * *
2136353 TATAATAGTAAAATGGTAGCAA
1 AATAACAATAAAATAGTAGCAA
*
2136375 AACAACAATAAAATA
1 AATAACAATAAAATA
2136390 ACAACAACCA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.61, C:0.07, G:0.10, T:0.22
Consensus pattern (22 bp):
AATAACAATAAAATAGTAGCAA
Found at i:2138158 original size:48 final size:47
Alignment explanation
Indices: 2138085--2138355 Score: 258
Period size: 48 Copynumber: 5.5 Consensus size: 47
2138075 GCAACCGCCG
* * **
2138085 CCGCCTCCGAAAGAGACGCAGACGCTGTTTATGCAACAGCCACCGTCT
1 CCGCCTCCGAAAGAAACGCAAACGCTGTTTATGCAACAGCCGGC-TCT
* * *
2138133 GCGCCTCCGAAAGAGACGCAAACGCTGTTTATGCAACCGCCGGCTCCT
1 CCGCCTCCGAAAGAAACGCAAACGCTGTTTATGCAACAGCCGGCT-CT
* * * * * *
2138181 CCGCCTCCTAAGGAAACGCAGACGTTGTTTATGCAGCCGCCGGCTCCT
1 CCGCCTCCGAAAGAAACGCAAACGCTGTTTATGCAACAGCCGGCT-CT
* * *
2138229 TCGCCTCCGAAGGAAACGCAAACGCTGTTTATGCAACCA-CCGGCACCT
1 CCGCCTCCGAAAGAAACGCAAACGCTGTTTATGCAA-CAGCCGGC-TCT
*
2138277 CCGCCTCCGAAAGAAACGCAAACGCAAACGCTGTTTATGCAACCA-CCGGCGCCT
1 CCGCCTCC----GAAA-G-AAACGCAAACGCTGTTTATGCAA-CAGCCGGC-TCT
2138331 CCGCCTCCGAAAGAAACGCAAACGC
1 CCGCCTCCGAAAGAAACGCAAACGC
2138356 AAACGCTGTT
Statistics
Matches: 192, Mismatches: 22, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
47 1 0.01
48 139 0.72
49 2 0.01
50 4 0.02
52 3 0.02
53 1 0.01
54 42 0.22
ACGTcount: A:0.26, C:0.36, G:0.23, T:0.15
Consensus pattern (47 bp):
CCGCCTCCGAAAGAAACGCAAACGCTGTTTATGCAACAGCCGGCTCT
Found at i:2138234 original size:96 final size:96
Alignment explanation
Indices: 2138085--2138355 Score: 312
Period size: 96 Copynumber: 2.8 Consensus size: 96
2138075 GCAACCGCCG
* * ** * *
2138085 CCGCCTCCGAAA-GAGACGCAGACGCTGTTTATGCAACAGCCACCGT-CTGCGCCTCCGAAAGAG
1 CCGCCTCC-AAAGGAAACGCAGACGCTGTTTATGCAACCGCCGGC-TCCTCCGCCTCCGAAAGAA
* *
2138148 ACGCAAACGCTGTTTATGCAACCGCCGGCTCCT
64 ACGCAAACGCTGTTTATGCAACCACCGGCACCT
* * * * *
2138181 CCGCCTCCTAAGGAAACGCAGACGTTGTTTATGCAGCCGCCGGCTCCTTCGCCTCCGAAGGAAAC
1 CCGCCTCCAAAGGAAACGCAGACGCTGTTTATGCAACCGCCGGCTCCTCCGCCTCCGAAAGAAAC
2138246 GCAAACGCTGTTTATGCAACCACCGGCACCT
66 GCAAACGCTGTTTATGCAACCACCGGCACCT
* * *
2138277 CCGCCTCCGAAAGAAACGCAAACGCAAACGCTGTTTATGCAACCACCGGCGCCTCCGCCTCCGAA
1 CCGCCTCC-AAAG----G-AAACGCAGACGCTGTTTATGCAACCGCCGGCTCCTCCGCCTCCGAA
2138342 AGAAACGCAAACGC
60 AGAAACGCAAACGC
2138356 AAACGCTGTT
Statistics
Matches: 147, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
95 3 0.02
96 87 0.59
97 3 0.02
101 1 0.01
102 53 0.36
ACGTcount: A:0.26, C:0.36, G:0.23, T:0.15
Consensus pattern (96 bp):
CCGCCTCCAAAGGAAACGCAGACGCTGTTTATGCAACCGCCGGCTCCTCCGCCTCCGAAAGAAAC
GCAAACGCTGTTTATGCAACCACCGGCACCT
Found at i:2138252 original size:54 final size:54
Alignment explanation
Indices: 2138148--2138372 Score: 285
Period size: 48 Copynumber: 4.4 Consensus size: 54
2138138 TCCGAAAGAG
* *
2138148 ACGCAAACGCTGTTTATGCAACCGCCGGCTCCTCCGCCTCC-TAAG----G-AA
1 ACGCAAACGCTGTTTATGCAACCACCGGCTCCTCCGCCTCCGAAAGAAACGCAA
* * * * *
2138196 ACGCAGACGTTGTTTATGCAGCCGCCGGCTCCTTCGCCTCCG-AAG----G-AA
1 ACGCAAACGCTGTTTATGCAACCACCGGCTCCTCCGCCTCCGAAAGAAACGCAA
*
2138244 ACGCAAACGCTGTTTATGCAACCACCGGCACCTCCGCCTCCGAAAGAAACGCAA
1 ACGCAAACGCTGTTTATGCAACCACCGGCTCCTCCGCCTCCGAAAGAAACGCAA
*
2138298 ACGCAAACGCTGTTTATGCAACCACCGGCGCCTCCGCCTCCGAAAGAAACGCAA
1 ACGCAAACGCTGTTTATGCAACCACCGGCTCCTCCGCCTCCGAAAGAAACGCAA
2138352 ACGCAAACGCTGTTTATGCAA
1 ACGCAAACGCTGTTTATGCAA
2138373 TCGCCGCCGA
Statistics
Matches: 159, Mismatches: 11, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
48 79 0.50
49 3 0.02
53 1 0.01
54 76 0.48
ACGTcount: A:0.27, C:0.35, G:0.21, T:0.17
Consensus pattern (54 bp):
ACGCAAACGCTGTTTATGCAACCACCGGCTCCTCCGCCTCCGAAAGAAACGCAA
Found at i:2143841 original size:33 final size:33
Alignment explanation
Indices: 2143792--2143893 Score: 105
Period size: 33 Copynumber: 3.1 Consensus size: 33
2143782 AGAAATCCCG
* * * *
2143792 AAACCTGAACTACCTAAAATGCCCGAGTTGCCA
1 AAACCTGAATTGCCTAAAGTCCCCGAGTTGCCA
* *
2143825 AAACCTGAATTGCCTAAAGTTCCGGAGTTGCCA
1 AAACCTGAATTGCCTAAAGTCCCCGAGTTGCCA
** * * *
2143858 AGGCCCGAATTGCCTAAGGTCCCCGAGTTTCCA
1 AAACCTGAATTGCCTAAAGTCCCCGAGTTGCCA
2143891 AAA
1 AAA
2143894 GTTCCAGAGT
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (33 bp):
AAACCTGAATTGCCTAAAGTCCCCGAGTTGCCA
Found at i:2143904 original size:51 final size:51
Alignment explanation
Indices: 2143840--2143988 Score: 172
Period size: 51 Copynumber: 2.9 Consensus size: 51
2143830 TGAATTGCCT
* * * * *
2143840 AAAGTTCCGGAGTTGCCAAGGCCCGAATTGCCTAAGGTCCCCGAGTTTCCA
1 AAAGTTCCAGAGTTGCCAAAGCCAGAATTACCTAAGGTTCCCGAGTTTCCA
** * * *
2143891 AAAGTTCCAGAGTTGCCAAAATCAGAATTACCCAAGGTTCCTGAGTTTCCG
1 AAAGTTCCAGAGTTGCCAAAGCCAGAATTACCTAAGGTTCCCGAGTTTCCA
* * * *
2143942 AAAGTGCCAGAGTTGCCAAAGCCTGAATTTCCTAAGATTCCCGAGTT
1 AAAGTTCCAGAGTTGCCAAAGCCAGAATTACCTAAGGTTCCCGAGTT
2143989 GAAAAAATCC
Statistics
Matches: 80, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 80 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (51 bp):
AAAGTTCCAGAGTTGCCAAAGCCAGAATTACCTAAGGTTCCCGAGTTTCCA
Found at i:2143909 original size:18 final size:18
Alignment explanation
Indices: 2143882--2143961 Score: 58
Period size: 18 Copynumber: 4.6 Consensus size: 18
2143872 TAAGGTCCCC
*
2143882 GAGTTTCCAAAAGTTCCA
1 GAGTTGCCAAAAGTTCCA
2143900 GAGTTGCCAAAA--T-CA
1 GAGTTGCCAAAAGTTCCA
* * * * *
2143915 GAATTACCCAAGGTTCCT
1 GAGTTGCCAAAAGTTCCA
* * *
2143933 GAGTTTCCGAAAGTGCCA
1 GAGTTGCCAAAAGTTCCA
2143951 GAGTTGCCAAA
1 GAGTTGCCAAA
2143962 GCCTGAATTT
Statistics
Matches: 45, Mismatches: 14, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
15 10 0.22
16 1 0.02
17 1 0.02
18 33 0.73
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.24
Consensus pattern (18 bp):
GAGTTGCCAAAAGTTCCA
Found at i:2144213 original size:99 final size:99
Alignment explanation
Indices: 2144014--2144225 Score: 266
Period size: 99 Copynumber: 2.1 Consensus size: 99
2144004 AGTTAAAGTT
* * * *
2144014 CCAGAGATT-CCCAATGCTCCTAAATTGTCAAAATCTGAAGCACCAAAAGTTCCGGAGTTACCAA
1 CCAGA-ATTACCCAAAGCTCCCAAATTGCCAAAACCTGAAGCACCAAAAGTTCCGGAGTTACCAA
* * *
2144078 AGCCAGAATTTCCTAAAGTTCCTGAAGTGCCCAAG
65 AGCCAGAATTGCCTAAAGTTCCCGAAGTACCCAAG
* * ** *
2144113 CCTGAATTACCCAAAGCTCCCAAGTTGCCAAAACCTGAATTACCAAAAGTTCCTGAGTTACCAAA
1 CCAGAATTACCCAAAGCTCCCAAATTGCCAAAACCTGAAGCACCAAAAGTTCCGGAGTTACCAAA
*
2144178 GCCAGAATTGCCTAAAGTTCCCG-AGTTACCTAAG
66 GCCAGAATTGCCTAAAGTTCCCGAAG-TACCCAAG
*
2144212 CCAGAATTGCCCAA
1 CCAGAATTACCCAA
2144226 GCCTGAATTA
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
98 5 0.05
99 91 0.95
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (99 bp):
CCAGAATTACCCAAAGCTCCCAAATTGCCAAAACCTGAAGCACCAAAAGTTCCGGAGTTACCAAA
GCCAGAATTGCCTAAAGTTCCCGAAGTACCCAAG
Found at i:2144222 original size:33 final size:33
Alignment explanation
Indices: 2144059--2144219 Score: 162
Period size: 33 Copynumber: 4.9 Consensus size: 33
2144049 TGAAGCACCA
* *
2144059 AAAGTTCCGGAGTTACCAAAGCCAGAATTTCCT
1 AAAGTTCCCGAGTTACCAAAGCCAGAATTACCT
* * * * *
2144092 AAAGTTCCTGAAG-TGCCCAAGCCTGAATTACCC
1 AAAGTTCCCG-AGTTACCAAAGCCAGAATTACCT
* * * * * *
2144125 AAAGCTCCCAAGTTGCCAAAACCTGAATTACCA
1 AAAGTTCCCGAGTTACCAAAGCCAGAATTACCT
* *
2144158 AAAGTTCCTGAGTTACCAAAGCCAGAATTGCCT
1 AAAGTTCCCGAGTTACCAAAGCCAGAATTACCT
*
2144191 AAAGTTCCCGAGTTACCTAAGCCAGAATT
1 AAAGTTCCCGAGTTACCAAAGCCAGAATT
2144220 GCCCAAGCCT
Statistics
Matches: 104, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
32 2 0.02
33 100 0.96
34 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (33 bp):
AAAGTTCCCGAGTTACCAAAGCCAGAATTACCT
Found at i:2144237 original size:81 final size:81
Alignment explanation
Indices: 2144137--2144303 Score: 199
Period size: 81 Copynumber: 2.1 Consensus size: 81
2144127 AGCTCCCAAG
* * * ** *
2144137 TTGCCAAAACCTGAATTACCAAAAGTTCCTGAGTTACCAAAGCCAGAATTGCCTAAAGTTCCCGA
1 TTGCCAAAACCTGAATTACCAAAAGCTCCCGAGTTACCAAAACCAGAATCACCAAAAGTTCCCGA
*
2144202 GTTACCTAAGCCAGAA
66 GTTACCAAAGCCAGAA
* * * * * *
2144218 TTGCCCAAGCCTGAATTACCCAAAGCTCCCGAGTTGCCAAAACCTGAATCACCAAAAGTTCCTGA
1 TTGCCAAAACCTGAATTACCAAAAGCTCCCGAGTTACCAAAACCAGAATCACCAAAAGTTCCCGA
* *
2144283 GTTATCAAAGTCAGAA
66 GTTACCAAAGCCAGAA
2144299 TTGCC
1 TTGCC
2144304 TAAAGTTCCT
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 71 1.00
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (81 bp):
TTGCCAAAACCTGAATTACCAAAAGCTCCCGAGTTACCAAAACCAGAATCACCAAAAGTTCCCGA
GTTACCAAAGCCAGAA
Found at i:2144253 original size:114 final size:115
Alignment explanation
Indices: 2144105--2144471 Score: 443
Period size: 114 Copynumber: 3.2 Consensus size: 115
2144095 GTTCCTGAAG
*
2144105 TGCCCAAG-CCTGAATTACCCAAAGCTCCCAAGTTGCCAAAACCTGAATTACCAAAAGTTCCTGA
1 TGCCCAAGCCCTGAATTACCCAAAGCTCCCGAGTTGCCAAAACCTGAATTACCAAAAGTTCCTGA
* * *
2144169 GTTACCAAAGCCAGAATTGCCTAAAGTTCCCGAGTTACCTAAGCCAGAAT
66 GTTACCAAAGCCAGAATTGCCTAAAGTTCCTGAGGTGCCTAAGCCAGAAT
*
2144219 TGCCCAAG-CCTGAATTACCCAAAGCTCCCGAGTTGCCAAAACCTGAATCACCAAAAGTTCCTGA
1 TGCCCAAGCCCTGAATTACCCAAAGCTCCCGAGTTGCCAAAACCTGAATTACCAAAAGTTCCTGA
* *
2144283 GTTATCAAAGTCAGAATTGCCTAAAGTTCCTGAGGTGCCTAAGCCAGAAT
66 GTTACCAAAGCCAGAATTGCCTAAAGTTCCTGAGGTGCCTAAGCCAGAAT
* ** * * * * * * ***
2144333 TGCCCAAAGCTCCTGAATT-GCCAACAATTCCTGAGGTACCAAAACCAGAATTGCCCAAAGCGAC
1 TGCCC-AAGC-CCTGAATTACCCAA-AGCTCCCGAGTTGCCAAAACCTGAATTACCAAAAGTTCC
* * * * *
2144397 TGAGTTGCCAAAACCTGAATTACCAAAAGTTCCTGAGGTGCCTAAGCCAGAAT
63 TGAGTTACCAAAGCCAGAATTGCCTAAAGTTCCTGAGGTGCCTAAGCCAGAAT
*
2144450 TGCCAAAAGCTCCTGAATTACC
1 TGCC-CAAGC-CCTGAATTACC
2144472 AAAACCTCAA
Statistics
Matches: 218, Mismatches: 29, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
114 112 0.51
115 3 0.01
116 4 0.02
117 98 0.45
118 1 0.00
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (115 bp):
TGCCCAAGCCCTGAATTACCCAAAGCTCCCGAGTTGCCAAAACCTGAATTACCAAAAGTTCCTGA
GTTACCAAAGCCAGAATTGCCTAAAGTTCCTGAGGTGCCTAAGCCAGAAT
Found at i:2144255 original size:33 final size:33
Alignment explanation
Indices: 2144218--2144356 Score: 116
Period size: 33 Copynumber: 4.2 Consensus size: 33
2144208 TAAGCCAGAA
* * *
2144218 TTGCCCAAGCCTGAATTACCCAAAGCTCCCGAG
1 TTGCCAAAGCCAGAATTACCCAAAGCTCCTGAG
* * * * *
2144251 TTGCCAAAACCTGAATCACCAAAAGTTCCTGAG
1 TTGCCAAAGCCAGAATTACCCAAAGCTCCTGAG
** * * * *
2144284 TTATCAAAGTCAGAATTGCCTAAAGTTCCTGAG
1 TTGCCAAAGCCAGAATTACCCAAAGCTCCTGAG
* * * *
2144317 GTGCCTAAGCCAGAATTGCCCAAAGCTCCTGAA
1 TTGCCAAAGCCAGAATTACCCAAAGCTCCTGAG
2144350 TTGCCAA
1 TTGCCAA
2144357 CAATTCCTGA
Statistics
Matches: 82, Mismatches: 24, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
33 82 1.00
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (33 bp):
TTGCCAAAGCCAGAATTACCCAAAGCTCCTGAG
Found at i:2144351 original size:51 final size:51
Alignment explanation
Indices: 2144296--2144407 Score: 145
Period size: 51 Copynumber: 2.2 Consensus size: 51
2144286 ATCAAAGTCA
* * * *
2144296 GAATTGCCTAA-AGTTCCTGAGGTGCCTAAGCCAGAATTGCCCAAAGCTCCT
1 GAATTGCC-AACAATTCCTGAGGTACCAAAACCAGAATTGCCCAAAGCTCCT
**
2144347 GAATTGCCAACAATTCCTGAGGTACCAAAACCAGAATTGCCCAAAGCGACT
1 GAATTGCCAACAATTCCTGAGGTACCAAAACCAGAATTGCCCAAAGCTCCT
*
2144398 GAGTTGCCAA
1 GAATTGCCAA
2144408 AACCTGAATT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
50 2 0.04
51 51 0.96
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.21
Consensus pattern (51 bp):
GAATTGCCAACAATTCCTGAGGTACCAAAACCAGAATTGCCCAAAGCTCCT
Found at i:2144450 original size:66 final size:65
Alignment explanation
Indices: 2144344--2144524 Score: 209
Period size: 66 Copynumber: 2.7 Consensus size: 65
2144334 GCCCAAAGCT
* * * *
2144344 CCTGAATTGCCAACAATTCCTGAGGTACCAAAACCAGAATTGCCCAAAGCGACTGAGTTGCCAAA
1 CCTGAATTACCAA-AATTCCTGAGGTACCAAAACCAGAATTGCCAAAAGCGACTGAATTACCAAA
2144409 A
65 A
* * * **
2144410 CCTGAATTACCAAAAGTTCCTGAGGTGCCTAAGCCAGAATTGCCAAAAGCTCCTGAATTACCAAA
1 CCTGAATTACCAAAA-TTCCTGAGGTACCAAAACCAGAATTGCCAAAAGCGACTGAATTACCAAA
2144475 A
65 A
* * * * *
2144476 CCTCAATTACCTAAAATTCCCGAGTTAACAAAACCAGAATTGCCTAAAG
1 CCTGAATTACC-AAAATTCCTGAGGTACCAAAACCAGAATTGCCAAAAG
2144525 TTCCAGAGGT
Statistics
Matches: 96, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
65 2 0.02
66 90 0.94
67 4 0.04
ACGTcount: A:0.38, C:0.27, G:0.15, T:0.20
Consensus pattern (65 bp):
CCTGAATTACCAAAATTCCTGAGGTACCAAAACCAGAATTGCCAAAAGCGACTGAATTACCAAAA
Found at i:2144501 original size:99 final size:99
Alignment explanation
Indices: 2144398--2144603 Score: 261
Period size: 99 Copynumber: 2.1 Consensus size: 99
2144388 CAAAGCGACT
* * * * *
2144398 GAGTTGCCAAAACCTGAATTACCAAAAGTTCCTGAGGTGCCTAAGCCAGAATTG-CCAAAAGCTC
1 GAGTTGCCAAAACCAGAATTACCAAAAGTTCCAGAGGTACCGAAACCAGAATTGCCCAAAA-CTC
2144462 CTGAATTACCAAAACCTCAATTACCTAAAATTCCC
65 CTGAATTACCAAAACCTCAATTACCTAAAATTCCC
** * *
2144497 GAGTTAACAAAACCAGAATTGCCTAAAGTTCCAGAGGTACCGAAACCAGAATTGCCCAAAACTCC
1 GAGTTGCCAAAACCAGAATTACCAAAAGTTCCAGAGGTACCGAAACCAGAATTGCCCAAAACTCC
* * * * *
2144562 TGAGTTGCCAAAACCTGAATTACCTAAAGTTCCT
66 TGAATTACCAAAACCTCAATTACCTAAAATTCCC
*
2144596 GAATTGCC
1 GAGTTGCC
2144604 TAACATGCCG
Statistics
Matches: 89, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
99 83 0.93
100 6 0.07
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (99 bp):
GAGTTGCCAAAACCAGAATTACCAAAAGTTCCAGAGGTACCGAAACCAGAATTGCCCAAAACTCC
TGAATTACCAAAACCTCAATTACCTAAAATTCCC
Found at i:2144603 original size:33 final size:33
Alignment explanation
Indices: 2144360--2144603 Score: 182
Period size: 33 Copynumber: 7.4 Consensus size: 33
2144350 TTGCCAACAA
* * * *
2144360 TTCCTGAGGTACCAAAACCAGAATTGCCCAAAG
1 TTCCTGAGTTGCCAAAACCAGAATTACCTAAAG
*** * *
2144393 CGACTGAGTTGCCAAAACCTGAATTACCAAAAG
1 TTCCTGAGTTGCCAAAACCAGAATTACCTAAAG
* * * * *
2144426 TTCCTGAGGTGCCTAAGCCAGAATTGCCAAAAG
1 TTCCTGAGTTGCCAAAACCAGAATTACCTAAAG
* * * ** *
2144459 CTCCTGAATTACCAAAACCTCAATTACCTAAAA
1 TTCCTGAGTTGCCAAAACCAGAATTACCTAAAG
* ** *
2144492 TTCCCGAGTTAACAAAACCAGAATTGCCTAAAG
1 TTCCTGAGTTGCCAAAACCAGAATTACCTAAAG
* * * * * * *
2144525 TTCCAGAGGTACCGAAACCAGAATTGCCCAAAA
1 TTCCTGAGTTGCCAAAACCAGAATTACCTAAAG
* *
2144558 CTCCTGAGTTGCCAAAACCTGAATTACCTAAAG
1 TTCCTGAGTTGCCAAAACCAGAATTACCTAAAG
*
2144591 TTCCTGAATTGCC
1 TTCCTGAGTTGCC
2144604 TAACATGCCG
Statistics
Matches: 159, Mismatches: 52, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
33 159 1.00
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.21
Consensus pattern (33 bp):
TTCCTGAGTTGCCAAAACCAGAATTACCTAAAG
Found at i:2146143 original size:22 final size:21
Alignment explanation
Indices: 2146112--2146167 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
2146102 AGGAGCTGCC
*
2146112 TGTCTTGAGACATTGTGCA-AT
1 TGTCTAGAGACATTG-GCAGAT
2146133 ATGTCTAGAGACAATTGGCAGAT
1 -TGTCTAGAGAC-ATTGGCAGAT
*
2146156 TGTCTCGAGACA
1 TGTCTAGAGACA
2146168 CACTATTCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 1 0.03
22 23 0.77
23 6 0.20
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (21 bp):
TGTCTAGAGACATTGGCAGAT
Found at i:2146692 original size:5 final size:5
Alignment explanation
Indices: 2146670--2146712 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
2146660 ACCTTGTAAT
* *
2146670 ATATA ATAT- GTATG ATATA ATATA ATATA ATATA A-ATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
2146713 TCTTATAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
4 7 0.21
5 26 0.79
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:2146713 original size:21 final size:21
Alignment explanation
Indices: 2146689--2146728 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2146679 GTATGATATA
2146689 ATATAATATAATATAAATAAT
1 ATATAATATAATATAAATAAT
**
2146710 ATATCTTATAATATAAATA
1 ATATAATATAATATAAATA
2146729 TTAAATGACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (21 bp):
ATATAATATAATATAAATAAT
Found at i:2150809 original size:33 final size:33
Alignment explanation
Indices: 2150760--2150861 Score: 105
Period size: 33 Copynumber: 3.1 Consensus size: 33
2150750 AGAAATCCCG
* * * *
2150760 AAACCTGAACTACCTAAAATGCCCGAGTTGCCA
1 AAACCTGAATTGCCTAAAGTCCCCGAGTTGCCA
* *
2150793 AAACCTGAATTGCCTAAAGTTCCGGAGTTGCCA
1 AAACCTGAATTGCCTAAAGTCCCCGAGTTGCCA
** * * *
2150826 AGGCCCGAATTGCCTAAGGTCCCCGAGTTTCCA
1 AAACCTGAATTGCCTAAAGTCCCCGAGTTGCCA
2150859 AAA
1 AAA
2150862 GTTCCAGAGT
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (33 bp):
AAACCTGAATTGCCTAAAGTCCCCGAGTTGCCA
Found at i:2150872 original size:51 final size:51
Alignment explanation
Indices: 2150808--2150956 Score: 172
Period size: 51 Copynumber: 2.9 Consensus size: 51
2150798 TGAATTGCCT
* * * * *
2150808 AAAGTTCCGGAGTTGCCAAGGCCCGAATTGCCTAAGGTCCCCGAGTTTCCA
1 AAAGTTCCAGAGTTGCCAAAGCCAGAATTACCTAAGGTTCCCGAGTTTCCA
** * * *
2150859 AAAGTTCCAGAGTTGCCAAAATCAGAATTACCCAAGGTTCCTGAGTTTCCG
1 AAAGTTCCAGAGTTGCCAAAGCCAGAATTACCTAAGGTTCCCGAGTTTCCA
* * * *
2150910 AAAGTGCCAGAGTTGCCAAAGCCTGAATTTCCTAAGATTCCCGAGTT
1 AAAGTTCCAGAGTTGCCAAAGCCAGAATTACCTAAGGTTCCCGAGTT
2150957 GAAAAAATCC
Statistics
Matches: 80, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 80 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (51 bp):
AAAGTTCCAGAGTTGCCAAAGCCAGAATTACCTAAGGTTCCCGAGTTTCCA
Found at i:2150877 original size:18 final size:18
Alignment explanation
Indices: 2150850--2150929 Score: 58
Period size: 18 Copynumber: 4.6 Consensus size: 18
2150840 TAAGGTCCCC
*
2150850 GAGTTTCCAAAAGTTCCA
1 GAGTTGCCAAAAGTTCCA
2150868 GAGTTGCCAAAA--T-CA
1 GAGTTGCCAAAAGTTCCA
* * * * *
2150883 GAATTACCCAAGGTTCCT
1 GAGTTGCCAAAAGTTCCA
* * *
2150901 GAGTTTCCGAAAGTGCCA
1 GAGTTGCCAAAAGTTCCA
2150919 GAGTTGCCAAA
1 GAGTTGCCAAA
2150930 GCCTGAATTT
Statistics
Matches: 45, Mismatches: 14, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
15 10 0.22
16 1 0.02
17 1 0.02
18 33 0.73
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.24
Consensus pattern (18 bp):
GAGTTGCCAAAAGTTCCA
Found at i:2151112 original size:66 final size:66
Alignment explanation
Indices: 2151027--2151187 Score: 189
Period size: 66 Copynumber: 2.4 Consensus size: 66
2151017 TGAAGCACCA
* * * * * *
2151027 AAAGTTCCGGAGTTACCAAAGCCAGAATTTCCTAAAGTTCCTGAAG-TGCCCAAGCCTGAATTAC
1 AAAGTTCCCGAGTTACCAAAGCCAGAATTACCAAAAGTTCCTG-AGTTACCAAAGCCAGAATTAC
2151091 CC
65 CC
* * * * *
2151093 AAAGCTCCCGAGTTGCCAAAACCTGAATTACCAAAAGTTCCTGAGTTACCAAAGCCAGAATTGCC
1 AAAGTTCCCGAGTTACCAAAGCCAGAATTACCAAAAGTTCCTGAGTTACCAAAGCCAGAATTACC
*
2151158 T
66 C
*
2151159 AAAGTTCCCGAGTTACCTAAGCCAGAATT
1 AAAGTTCCCGAGTTACCAAAGCCAGAATT
2151188 GCCCAAGCCT
Statistics
Matches: 77, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
65 2 0.03
66 75 0.97
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (66 bp):
AAAGTTCCCGAGTTACCAAAGCCAGAATTACCAAAAGTTCCTGAGTTACCAAAGCCAGAATTACC
C
Found at i:2151190 original size:33 final size:33
Alignment explanation
Indices: 2151027--2151187 Score: 171
Period size: 33 Copynumber: 4.9 Consensus size: 33
2151017 TGAAGCACCA
* *
2151027 AAAGTTCCGGAGTTACCAAAGCCAGAATTTCCT
1 AAAGTTCCCGAGTTACCAAAGCCAGAATTACCT
* * * * *
2151060 AAAGTTCCTGAAG-TGCCCAAGCCTGAATTACCC
1 AAAGTTCCCG-AGTTACCAAAGCCAGAATTACCT
* * * * *
2151093 AAAGCTCCCGAGTTGCCAAAACCTGAATTACCA
1 AAAGTTCCCGAGTTACCAAAGCCAGAATTACCT
* *
2151126 AAAGTTCCTGAGTTACCAAAGCCAGAATTGCCT
1 AAAGTTCCCGAGTTACCAAAGCCAGAATTACCT
*
2151159 AAAGTTCCCGAGTTACCTAAGCCAGAATT
1 AAAGTTCCCGAGTTACCAAAGCCAGAATT
2151188 GCCCAAGCCT
Statistics
Matches: 106, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
32 2 0.02
33 102 0.96
34 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (33 bp):
AAAGTTCCCGAGTTACCAAAGCCAGAATTACCT
Found at i:2151205 original size:81 final size:81
Alignment explanation
Indices: 2151105--2151271 Score: 217
Period size: 81 Copynumber: 2.1 Consensus size: 81
2151095 AGCTCCCGAG
* * ** *
2151105 TTGCCAAAACCTGAATTACCAAAAGTTCCTGAGTTACCAAAGCCAGAATTGCCTAAAGTTCCCGA
1 TTGCCAAAACCTGAATTACCAAAAGCTCCTGAGTTACCAAAACCAGAATCACCAAAAGTTCCCGA
*
2151170 GTTACCTAAGCCAGAA
66 GTTACCAAAGCCAGAA
* * * * * *
2151186 TTGCCCAAGCCTGAATTACCCAAAGCTCCTGAGTTGCCAAAACCTGAATCACCAAAAGTTCCTGA
1 TTGCCAAAACCTGAATTACCAAAAGCTCCTGAGTTACCAAAACCAGAATCACCAAAAGTTCCCGA
*
2151251 GTTACCAAAGTCAGAA
66 GTTACCAAAGCCAGAA
2151267 TTGCC
1 TTGCC
2151272 TAAAGTTCCT
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 73 1.00
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (81 bp):
TTGCCAAAACCTGAATTACCAAAAGCTCCTGAGTTACCAAAACCAGAATCACCAAAAGTTCCCGA
GTTACCAAAGCCAGAA
Found at i:2151220 original size:114 final size:114
Alignment explanation
Indices: 2151073--2151386 Score: 405
Period size: 114 Copynumber: 2.7 Consensus size: 114
2151063 GTTCCTGAAG
*
2151073 TGCCCAAGCCTGAATTACCCAAAGCTCCCGAGTTGCCAAAACCTGAATTACCAAAAGTTCCTGAG
1 TGCCCAAGCCTGAATTACCCAAAGCTCCTGAGTTGCCAAAACCTGAATTACCAAAAGTTCCTGAG
* *
2151138 TTACCAAAGCCAGAATTGCCTAAAGTTCCCGAGTTACCTAAGCCAGAAT
66 TTACCAAAGCCAGAATTGCCTAAAGTTCCCAAGGTACCTAAGCCAGAAT
*
2151187 TGCCCAAGCCTGAATTACCCAAAGCTCCTGAGTTGCCAAAACCTGAATCACCAAAAGTTCCTGAG
1 TGCCCAAGCCTGAATTACCCAAAGCTCCTGAGTTGCCAAAACCTGAATTACCAAAAGTTCCTGAG
* * * * *
2151252 TTACCAAAGTCAGAATTGCCTAAAGTTCCTAAGGTGCCTAAGTCGGAAT
66 TTACCAAAGCCAGAATTGCCTAAAGTTCCCAAGGTACCTAAGCCAGAAT
* * ** ** * * *
2151301 TGCCCAAAGCTCCTGAATTGCCAAAAATTCCTGAGTTAACAAAATCGGAATTGCCTAAAA-TTCC
1 TGCCC-AAG--CCTGAATTACCCAAAGCTCCTGAGTTGCCAAAACCTGAATTACC-AAAAGTTCC
* *
2151365 TGAGGTACCAAAACCAGAATTG
62 TGAGTTACCAAAGCCAGAATTG
2151387 TCCAAAGCGA
Statistics
Matches: 174, Mismatches: 22, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
114 110 0.63
115 3 0.02
117 57 0.33
118 4 0.02
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.22
Consensus pattern (114 bp):
TGCCCAAGCCTGAATTACCCAAAGCTCCTGAGTTGCCAAAACCTGAATTACCAAAAGTTCCTGAG
TTACCAAAGCCAGAATTGCCTAAAGTTCCCAAGGTACCTAAGCCAGAAT
Found at i:2151223 original size:33 final size:33
Alignment explanation
Indices: 2151186--2151325 Score: 118
Period size: 33 Copynumber: 4.2 Consensus size: 33
2151176 TAAGCCAGAA
*
2151186 TTGCCCAAGCCTGAATTACCCAAAGCTCCTGAG
1 TTGCCAAAGCCTGAATTACCCAAAGCTCCTGAG
* * * *
2151219 TTGCCAAAACCTGAATCACCAAAAGTTCCTGAG
1 TTGCCAAAGCCTGAATTACCCAAAGCTCCTGAG
* * * * * * *
2151252 TTACCAAAGTCAGAATTGCCTAAAGTTCCTAAG
1 TTGCCAAAGCCTGAATTACCCAAAGCTCCTGAG
* * * * * *
2151285 GTGCCTAAGTCGGAATTGCCCAAAGCTCCTGAA
1 TTGCCAAAGCCTGAATTACCCAAAGCTCCTGAG
2151318 TTGCCAAA
1 TTGCCAAA
2151326 AATTCCTGAG
Statistics
Matches: 84, Mismatches: 23, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
33 84 1.00
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (33 bp):
TTGCCAAAGCCTGAATTACCCAAAGCTCCTGAG
Found at i:2151227 original size:99 final size:98
Alignment explanation
Indices: 2151023--2151209 Score: 236
Period size: 99 Copynumber: 1.9 Consensus size: 98
2151013 AATCTGAAGC
* * * *
2151023 ACCAAAAGTTCCGGAGTTACCAAAGCCAGAATTTCCTAAAGTTCCTGAAGTGCCCAAGCCTGAAT
1 ACCAAAAGTTCCGGAGTTACCAAAGCCAGAATTGCCTAAAGTTCCCGAAGTACCCAAGCCAGAAT
* *
2151088 TACCCAAAGCTCCCGAGTTGCCAAAACCTGAATT
66 TACCCAAAGC-CCCGAATTCCCAAAACCTGAATT
* *
2151122 ACCAAAAGTTCCTGAGTTACCAAAGCCAGAATTGCCTAAAGTTCCCG-AGTTACCTAAGCCAGAA
1 ACCAAAAGTTCCGGAGTTACCAAAGCCAGAATTGCCTAAAGTTCCCGAAG-TACCCAAGCCAGAA
* *
2151186 TTGCCC-AAG-CCTGAATTACCCAAA
65 TTACCCAAAGCCCCGAATT-CCCAAA
2151210 GCTCCTGAGT
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
96 6 0.08
97 5 0.07
98 5 0.07
99 60 0.79
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (98 bp):
ACCAAAAGTTCCGGAGTTACCAAAGCCAGAATTGCCTAAAGTTCCCGAAGTACCCAAGCCAGAAT
TACCCAAAGCCCCGAATTCCCAAAACCTGAATT
Found at i:2151361 original size:33 final size:33
Alignment explanation
Indices: 2151315--2151598 Score: 221
Period size: 33 Copynumber: 8.6 Consensus size: 33
2151305 CAAAGCTCCT
* * * *
2151315 GAATTGCCAAAAATTCCTGAGTTAACAAAATCG
1 GAATTGCCTAAAATTCCTGAGTTACCAAAACCA
*
2151348 GAATTGCCTAAAATTCCTGAGGTACCAAAACCA
1 GAATTGCCTAAAATTCCTGAGTTACCAAAACCA
**** * *
2151381 GAATTGTCC-AAAGCGACTGAGTTGCCAAAACCT
1 GAATTG-CCTAAAATTCCTGAGTTACCAAAACCA
* * * * * * *
2151414 GAATTACCCAAAGTTCCTGAGGTGCCTAAGCCA
1 GAATTGCCTAAAATTCCTGAGTTACCAAAACCA
* * *
2151447 GAATTGCC-AAAAGCTCCTGAATTACCAAAACCT
1 GAATTGCCTAAAA-TTCCTGAGTTACCAAAACCA
* * * *
2151480 CAATTACCTAAAATTCCCGAGTTAACAAAACCA
1 GAATTGCCTAAAATTCCTGAGTTACCAAAACCA
* * * *
2151513 GAATTGCCTAAAGTTCCAGAGGTACCGAAACCA
1 GAATTGCCTAAAATTCCTGAGTTACCAAAACCA
* * * *
2151546 GAATTGCCCAAAACTCCTGAGTTGCCAAAACCT
1 GAATTGCCTAAAATTCCTGAGTTACCAAAACCA
* *
2151579 GAATTACCTAAAGTTCCTGA
1 GAATTGCCTAAAATTCCTGA
2151599 ATTGCCTAAC
Statistics
Matches: 192, Mismatches: 55, Indels: 8
0.75 0.22 0.03
Matches are distributed among these distances:
32 5 0.03
33 181 0.94
34 6 0.03
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (33 bp):
GAATTGCCTAAAATTCCTGAGTTACCAAAACCA
Found at i:2151385 original size:66 final size:66
Alignment explanation
Indices: 2151315--2151598 Score: 255
Period size: 66 Copynumber: 4.3 Consensus size: 66
2151305 CAAAGCTCCT
* * * * * *
2151315 GAATTGCCAAAAATTCCTGAGTTAACAAAATCGGAATTGCCTAAAATTCCTGAGGTACCAAAACC
1 GAATTGCCAAAAGTTCCTGAGTTACCAAAACCTGAATTACCCAAAATTCCTGAGGTACCAAAACC
2151380 A
66 A
*** * * * * *
2151381 GAATTGTCC-AAAGCGACTGAGTTGCCAAAACCTGAATTACCCAAAGTTCCTGAGGTGCCTAAGC
1 GAATTG-CCAAAAGTTCCTGAGTTACCAAAACCTGAATTACCCAAAATTCCTGAGGTACCAAAAC
2151445 CA
65 CA
* * * * * * *
2151447 GAATTGCCAAAAGCTCCTGAATTACCAAAACCTCAATTACCTAAAATTCCCGAGTTAACAAAACC
1 GAATTGCCAAAAGTTCCTGAGTTACCAAAACCTGAATTACCCAAAATTCCTGAGGTACCAAAACC
2151512 A
66 A
* * * * * * * * *
2151513 GAATTGCCTAAAGTTCCAGAGGTACCGAAACCAGAATTGCCCAAAACTCCTGAGTTGCCAAAACC
1 GAATTGCCAAAAGTTCCTGAGTTACCAAAACCTGAATTACCCAAAATTCCTGAGGTACCAAAACC
*
2151578 T
66 A
* *
2151579 GAATTACCTAAAGTTCCTGA
1 GAATTGCCAAAAGTTCCTGA
2151599 ATTGCCTAAC
Statistics
Matches: 172, Mismatches: 44, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
65 2 0.01
66 168 0.98
67 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (66 bp):
GAATTGCCAAAAGTTCCTGAGTTACCAAAACCTGAATTACCCAAAATTCCTGAGGTACCAAAACC
A
Found at i:2151385 original size:84 final size:84
Alignment explanation
Indices: 2151228--2151410 Score: 213
Period size: 84 Copynumber: 2.2 Consensus size: 84
2151218 GTTGCCAAAA
** * * * * * *
2151228 CCTGAATCACCAAAAGTTCCTGAGTTACCAAAGTCAGAATTGCCTAAAGTTCCTAAGGTGCCTAA
1 CCTGAATTGCCAAAAATTCCTGAGTTAACAAAATCAGAATTGCCTAAAATTCCTAAGGTACCAAA
** * *
2151293 GTCGGAATTGCCCAAAGCT
66 ACCAGAATTGCCCAAAGCG
* *
2151312 CCTGAATTGCCAAAAATTCCTGAGTTAACAAAATCGGAATTGCCTAAAATTCCTGAGGTACCAAA
1 CCTGAATTGCCAAAAATTCCTGAGTTAACAAAATCAGAATTGCCTAAAATTCCTAAGGTACCAAA
*
2151377 ACCAGAATTGTCCAAAGCG
66 ACCAGAATTGCCCAAAGCG
* *
2151396 ACTGAGTTGCCAAAA
1 CCTGAATTGCCAAAA
2151411 CCTGAATTAC
Statistics
Matches: 82, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
84 82 1.00
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (84 bp):
CCTGAATTGCCAAAAATTCCTGAGTTAACAAAATCAGAATTGCCTAAAATTCCTAAGGTACCAAA
ACCAGAATTGCCCAAAGCG
Found at i:2151502 original size:99 final size:99
Alignment explanation
Indices: 2151399--2151604 Score: 261
Period size: 99 Copynumber: 2.1 Consensus size: 99
2151389 CAAAGCGACT
* * * * *
2151399 GAGTTGCCAAAACCTGAATTACCCAAAGTTCCTGAGGTGCCTAAGCCAGAATTG-CCAAAAGCTC
1 GAGTTGCCAAAACCAGAATTACCCAAAGTTCCAGAGGTACCGAAACCAGAATTGCCCAAAA-CTC
2151463 CTGAATTACCAAAACCTCAATTACCTAAAATTCCC
65 CTGAATTACCAAAACCTCAATTACCTAAAATTCCC
** * *
2151498 GAGTTAACAAAACCAGAATTGCCTAAAGTTCCAGAGGTACCGAAACCAGAATTGCCCAAAACTCC
1 GAGTTGCCAAAACCAGAATTACCCAAAGTTCCAGAGGTACCGAAACCAGAATTGCCCAAAACTCC
* * * * *
2151563 TGAGTTGCCAAAACCTGAATTACCTAAAGTTCCT
66 TGAATTACCAAAACCTCAATTACCTAAAATTCCC
*
2151597 GAATTGCC
1 GAGTTGCC
2151605 TAACATGCCG
Statistics
Matches: 89, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
99 83 0.93
100 6 0.07
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.22
Consensus pattern (99 bp):
GAGTTGCCAAAACCAGAATTACCCAAAGTTCCAGAGGTACCGAAACCAGAATTGCCCAAAACTCC
TGAATTACCAAAACCTCAATTACCTAAAATTCCC
Found at i:2153366 original size:7 final size:7
Alignment explanation
Indices: 2153354--2153416 Score: 51
Period size: 7 Copynumber: 8.7 Consensus size: 7
2153344 CAGAACCTTG
2153354 TAATATA
1 TAATATA
2153361 TAATATA
1 TAATATA
2153368 T-ATGATA
1 TAAT-ATA
*
2153375 TAAAATA
1 TAATATA
2153382 CTAATATA
1 -TAATATA
2153390 TAA-ATAA
1 TAATAT-A
2153397 TATATATTA
1 TA-ATA-TA
2153406 TAATATA
1 TAATATA
2153413 -AATA
1 TAATA
2153417 NNNNNNNNNN
Statistics
Matches: 47, Mismatches: 2, Indels: 15
0.73 0.03 0.23
Matches are distributed among these distances:
6 8 0.17
7 23 0.49
8 11 0.23
9 4 0.09
10 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (7 bp):
TAATATA
Found at i:2156731 original size:16 final size:15
Alignment explanation
Indices: 2156705--2156781 Score: 67
Period size: 15 Copynumber: 5.3 Consensus size: 15
2156695 TTTTATTATT
2156705 TTATTTCTTTAATTA
1 TTATTTCTTTAATTA
2156720 TTATTTCTTTTAATTA
1 TTATTTC-TTTAATTA
2156736 TTATTAT-TATT-ATTA
1 TTATT-TCT-TTAATTA
*
2156751 TTA-TT-ATT-ATTA
1 TTATTTCTTTAATTA
2156763 TTATTTCTGTTAA-TA
1 TTATTTCT-TTAATTA
2156778 TTAT
1 TTAT
2156782 GATGGTTACT
Statistics
Matches: 53, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
12 9 0.17
13 3 0.06
14 1 0.02
15 23 0.43
16 16 0.30
17 1 0.02
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (15 bp):
TTATTTCTTTAATTA
Found at i:2156738 original size:3 final size:3
Alignment explanation
Indices: 2156732--2156767 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
2156722 ATTTCTTTTA
2156732 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2156768 TCTGTTAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:2157933 original size:21 final size:21
Alignment explanation
Indices: 2157838--2157993 Score: 67
Period size: 20 Copynumber: 7.4 Consensus size: 21
2157828 GGAAAATACA
*
2157838 AGGAAGTACAAAAAAA-TATG
1 AGGAAATACAAAAAAATTATG
** * *
2157858 AGGCTATACAGAAAAAACTAAG
1 AGGAAATACA-AAAAAATTATG
2157880 A-G-AATA-ATAAAAAATTATG
1 AGGAAATACA-AAAAAATTATG
** * *
2157899 AATAAGTAC-TAAAAATTATG
1 AGGAAATACAAAAAAATTATG
2157919 AGGAAATAC-AAAAAA-TATTG
1 AGGAAATACAAAAAAATTA-TG
* *
2157939 AGGGAATATAGAAAAAAAAAATATG
1 A-GGAA-AT--ACAAAAAAATTATG
*
2157964 A-GAGATTACAAAAAAATTATG
1 AGGA-AATACAAAAAAATTATG
*
2157985 AAGAAATAC
1 AGGAAATAC
2157994 GAAATACCAC
Statistics
Matches: 102, Mismatches: 20, Indels: 27
0.68 0.13 0.18
Matches are distributed among these distances:
19 13 0.13
20 34 0.33
21 31 0.30
22 8 0.08
23 3 0.03
24 2 0.02
25 9 0.09
26 2 0.02
ACGTcount: A:0.60, C:0.05, G:0.15, T:0.20
Consensus pattern (21 bp):
AGGAAATACAAAAAAATTATG
Found at i:2158365 original size:19 final size:20
Alignment explanation
Indices: 2158343--2158382 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
2158333 TGAAGTATGG
* *
2158343 AAAATTATAAATATA-TAAA
1 AAAATTAAAAAAATACTAAA
2158362 AAAATTAAAAAAATACTAAA
1 AAAATTAAAAAAATACTAAA
2158382 A
1 A
2158383 TTATGAGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (20 bp):
AAAATTAAAAAAATACTAAA
Found at i:2159277 original size:73 final size:73
Alignment explanation
Indices: 2159153--2159292 Score: 219
Period size: 73 Copynumber: 1.9 Consensus size: 73
2159143 AAATTATTAC
* * * *
2159153 AGTTGTGTGACTCGAATCTCGTTTGATTCGGTCTGAAAAGTTCGAAGTGCAACTCACTTGTTAAA
1 AGTTGTGTGACCCGAATCCCGTTTGATTCGGTCTAAAAAGTTCGAAGTGCAACTCACTTATTAAA
2159218 AACTGTTG
66 AACTGTTG
*
2159226 AGTTGTGTGACCCGAATCCCGTTTGATTCGGTCTAAAAAGTTTG-AGATGCAACTCACTTATTAA
1 AGTTGTGTGACCCGAATCCCGTTTGATTCGGTCTAAAAAGTTCGAAG-TGCAACTCACTTATTAA
2159290 AAA
65 AAA
2159293 AACAAAATAG
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
72 2 0.03
73 59 0.97
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (73 bp):
AGTTGTGTGACCCGAATCCCGTTTGATTCGGTCTAAAAAGTTCGAAGTGCAACTCACTTATTAAA
AACTGTTG
Found at i:2159828 original size:17 final size:17
Alignment explanation
Indices: 2159734--2159828 Score: 55
Period size: 18 Copynumber: 5.2 Consensus size: 17
2159724 CCTGGGTGGC
2159734 ATATATTTATTATATTT
1 ATATATTTATTATATTT
* *
2159751 ATATTATTTTTTATACTATG
1 ATA-TATTTATTATA-T-TT
* **
2159771 ATTGTATTTAAAATATTAT
1 A-TATATTTATTATATT-T
* ** *
2159790 ATAAATTTTATTACGTTC
1 ATATA-TTTATTATATTT
2159808 ATATATTTATTATATTT
1 ATATATTTATTATATTT
2159825 ATAT
1 ATAT
2159829 TAGTTTCTTA
Statistics
Matches: 54, Mismatches: 18, Indels: 12
0.64 0.21 0.14
Matches are distributed among these distances:
17 16 0.30
18 17 0.31
19 10 0.19
20 10 0.19
21 1 0.02
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (17 bp):
ATATATTTATTATATTT
Found at i:2160520 original size:15 final size:15
Alignment explanation
Indices: 2160500--2160559 Score: 57
Period size: 15 Copynumber: 3.8 Consensus size: 15
2160490 TACCTAAAAT
*
2160500 GCCTGAGTTGCCAAA
1 GCCTGAATTGCCAAA
2160515 GCCTGAATTGCCTAAA
1 GCCTGAATTGCC-AAA
* *
2160531 GTTCCGGAGTTGCCAAA
1 G--CCTGAATTGCCAAA
*
2160548 ACCTGAATTGCC
1 GCCTGAATTGCC
2160560 TAAGGTTCCC
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
15 20 0.56
16 4 0.11
17 3 0.08
18 9 0.25
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (15 bp):
GCCTGAATTGCCAAA
Found at i:2160529 original size:33 final size:33
Alignment explanation
Indices: 2160492--2160562 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
2160482 ACTCGAAATA
* *
2160492 CCTAAAATGCCTGAGTTGCCAAAGCCTGAATTG
1 CCTAAAATGCCGGAGTTGCCAAAACCTGAATTG
* *
2160525 CCTAAAGTTCCGGAGTTGCCAAAACCTGAATTG
1 CCTAAAATGCCGGAGTTGCCAAAACCTGAATTG
2160558 CCTAA
1 CCTAA
2160563 GGTTCCCGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (33 bp):
CCTAAAATGCCGGAGTTGCCAAAACCTGAATTG
Found at i:2160568 original size:33 final size:33
Alignment explanation
Indices: 2160504--2160574 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
2160494 TAAAATGCCT
* *
2160504 GAGTTGCCAAAGCCTGAATTGCCTAAAGTTCCG
1 GAGTTGCCAAAACCTGAATTGCCTAAAGTTCCC
*
2160537 GAGTTGCCAAAACCTGAATTGCCTAAGGTTCCC
1 GAGTTGCCAAAACCTGAATTGCCTAAAGTTCCC
2160570 GAGTT
1 GAGTT
2160575 TCCGAAAGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (33 bp):
GAGTTGCCAAAACCTGAATTGCCTAAAGTTCCC
Found at i:2160592 original size:51 final size:51
Alignment explanation
Indices: 2160528--2160676 Score: 226
Period size: 51 Copynumber: 2.9 Consensus size: 51
2160518 TGAATTGCCT
* * * *
2160528 AAAGTTCCGGAGTTGCCAAAACCTGAATTGCCTAAGGTTCCCGAGTTTCCG
1 AAAGTGCCAGAGTTGCCAAAACCTGAATTACCTAAGGTTCCCGAGTTTCCA
* *
2160579 AAAGTGCCAGAGTTGCCAAAACCTGAACTACCTAAGGTTCCTGAGTTTCCA
1 AAAGTGCCAGAGTTGCCAAAACCTGAATTACCTAAGGTTCCCGAGTTTCCA
* *
2160630 AAAGTGCCAGAGTTGCCAAAGCCTGAATTTCCTAAGGTTCCCGAGTT
1 AAAGTGCCAGAGTTGCCAAAACCTGAATTACCTAAGGTTCCCGAGTT
2160677 GAAAAAACCT
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 88 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (51 bp):
AAAGTGCCAGAGTTGCCAAAACCTGAATTACCTAAGGTTCCCGAGTTTCCA
Found at i:2160807 original size:33 final size:33
Alignment explanation
Indices: 2160765--2160829 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2160755 TGAAGCACCA
2160765 AAAGTTCCCG-GGTTACCAAAGCCAGAGTTGCCT
1 AAAGTTCCCGAGG-TACCAAAGCCAGAGTTGCCT
* *
2160798 AAAGTTCCCGAGGTGCCCAAGCCAGAGTTGCC
1 AAAGTTCCCGAGGTACCAAAGCCAGAGTTGCC
2160830 CAAGGCTCCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.26, C:0.29, G:0.26, T:0.18
Consensus pattern (33 bp):
AAAGTTCCCGAGGTACCAAAGCCAGAGTTGCCT
Found at i:2160840 original size:33 final size:33
Alignment explanation
Indices: 2160783--2160847 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
2160773 CGGGTTACCA
* *
2160783 AAGCCAGAGTTGCCTAAAGTTCCCGAGGTGCCC
1 AAGCCAGAGTTGCCCAAAGCTCCCGAGGTGCCC
* *
2160816 AAGCCAGAGTTGCCCAAGGCTCCCGAGTTGCC
1 AAGCCAGAGTTGCCCAAAGCTCCCGAGGTGCC
2160848 AAAAGTTCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.23, C:0.32, G:0.28, T:0.17
Consensus pattern (33 bp):
AAGCCAGAGTTGCCCAAAGCTCCCGAGGTGCCC
Found at i:2160865 original size:51 final size:51
Alignment explanation
Indices: 2160789--2160889 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
2160779 ACCAAAGCCA
* * * *
2160789 GAGTTGCCTAAAGTTCCCGAGGTGCCCAAGCCAGAGTTGCCCAAGGCTCCC
1 GAGTTGCCAAAAGTTCCCGAGGTGCCCAAGCCAGAATTGCCAAAAGCTCCC
* *
2160840 GAGTTGCCAAAAGTTCCTGAGGTGCCTAAGCCAGAATTGCCAAAAGCTCC
1 GAGTTGCCAAAAGTTCCCGAGGTGCCCAAGCCAGAATTGCCAAAAGCTCC
2160890 TGAATTACCG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.26, C:0.30, G:0.26, T:0.19
Consensus pattern (51 bp):
GAGTTGCCAAAAGTTCCCGAGGTGCCCAAGCCAGAATTGCCAAAAGCTCCC
Found at i:2160937 original size:33 final size:33
Alignment explanation
Indices: 2160891--2161001 Score: 105
Period size: 33 Copynumber: 3.4 Consensus size: 33
2160881 AAAAGCTCCT
* * *
2160891 GAATTACCGAAAATTCCCGAATTAACAAAACCA
1 GAATTACCTAAAATTCCTGAATTACCAAAACCA
* * * *
2160924 GAATTGCCTAAAATTCCTGAAGTGCCGAAACCA
1 GAATTACCTAAAATTCCTGAATTACCAAAACCA
* * * * *
2160957 GAATTGCCCAAAGTTCCTGAGTTACCCAAACCA
1 GAATTACCTAAAATTCCTGAATTACCAAAACCA
*
2160990 GAAATACCTAAA
1 GAATTACCTAAA
2161002 TTACCCAACC
Statistics
Matches: 62, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
33 62 1.00
ACGTcount: A:0.41, C:0.25, G:0.14, T:0.20
Consensus pattern (33 bp):
GAATTACCTAAAATTCCTGAATTACCAAAACCA
Found at i:2178802 original size:26 final size:26
Alignment explanation
Indices: 2178769--2178821 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
2178759 GTGAAAAAAT
2178769 TTCAAGTTAATCGAGTTGACAAGTCA
1 TTCAAGTTAATCGAGTTGACAAGTCA
2178795 TTCAAGTTAATCGAGTTGACAAGTCA
1 TTCAAGTTAATCGAGTTGACAAGTCA
2178821 T
1 T
2178822 ATTTTATCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (26 bp):
TTCAAGTTAATCGAGTTGACAAGTCA
Found at i:2179298 original size:171 final size:167
Alignment explanation
Indices: 2179016--2179357 Score: 578
Period size: 171 Copynumber: 2.0 Consensus size: 167
2179006 TCTGAAAACT
*
2179016 TTTTCAAAGCAAAATAAGAAAAAAAAGATACAATACATTTGAATAATTAATTAACTTATTTAGGT
1 TTTTCAAAGCAAAAAAAGAAAAAAAAGATACAATACATTTGAATAATTAATTAACTTATTTAGGT
**
2179081 CCCAAAATTATTATTTTAGAAAATTTTTAAAATTTTAATTTTCTTTATATATTCTTTAGAATTTT
66 CCCAAAATTATTATTTTAGAAAAAATTTAAAATTTTAATTTTCTTTATATATTCTTTAGAATTTT
*
2179146 TT-AAAAGAATTTTATATTCTTTTAAAAAAGATATAAA
131 TTCAAAA-AAATTTATATTCTTTTAAAAAAGATATAAA
2179183 GTTTTCAAAGCAAAAAAAAGAAAAAAAGAAGATACAATACATTTGAATAATTAATTAACTTATTT
1 -TTTTCAAAGC-AAAAAAAG-AAAAAA-AAGATACAATACATTTGAATAATTAATTAACTTATTT
*
2179248 AGGTCCCAAAATTATTATTTTAGAAAAAATTTAAAATTTTAATTTTCTTTATATGTTCTTTAGAA
62 AGGTCCCAAAATTATTATTTTAGAAAAAATTTAAAATTTTAATTTTCTTTATATATTCTTTAGAA
*
2179313 TTTTTTCAAAAAAATTTATATTCTTTTAGAAAAGATATAAA
127 TTTTTTCAAAAAAATTTATATTCTTTTAAAAAAGATATAAA
2179354 TTTT
1 TTTT
2179358 AGAATTTTTA
Statistics
Matches: 164, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
168 10 0.06
169 7 0.04
170 10 0.06
171 133 0.81
172 4 0.02
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.42
Consensus pattern (167 bp):
TTTTCAAAGCAAAAAAAGAAAAAAAAGATACAATACATTTGAATAATTAATTAACTTATTTAGGT
CCCAAAATTATTATTTTAGAAAAAATTTAAAATTTTAATTTTCTTTATATATTCTTTAGAATTTT
TTCAAAAAAATTTATATTCTTTTAAAAAAGATATAAA
Found at i:2180563 original size:33 final size:33
Alignment explanation
Indices: 2180461--2180572 Score: 109
Period size: 33 Copynumber: 3.4 Consensus size: 33
2180451 CCAGAAATCT
* * *
2180461 CAAAACCTGAAATACCTAAAATGCCAGAGTTGT-
1 CAAAACCTGAATTGCCTAAAGTGCCAGAGTT-TC
* * * *
2180494 CAAGACCTGAATTGCCTAAAGTTCCGGAGTTGC
1 CAAAACCTGAATTGCCTAAAGTGCCAGAGTTTC
* *
2180527 CAAAACCTGAGTTGCCTAAAGTGCCAAAGTTTC
1 CAAAACCTGAATTGCCTAAAGTGCCAGAGTTTC
* *
2180560 CAAAGCCAGAATT
1 CAAAACCTGAATT
2180573 TCCAAAAGCT
Statistics
Matches: 62, Mismatches: 16, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
33 62 1.00
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (33 bp):
CAAAACCTGAATTGCCTAAAGTGCCAGAGTTTC
Found at i:2180746 original size:33 final size:33
Alignment explanation
Indices: 2180668--2181178 Score: 210
Period size: 33 Copynumber: 15.5 Consensus size: 33
2180658 CCAAAGGTGC
* * *
2180668 CCAAA-CCAGAATTACCTAAAA-CTCCTGAGCTA
1 CCAAAGCCAGAATTACC-AAAAGTTCTTGAGTTA
* * * * *
2180700 CTAAAACCTGAATTACCGAAAGTTCTTCAGTTA
1 CCAAAGCCAGAATTACCAAAAGTTCTTGAGTTA
* * ** *** * *
2180733 CCAAAGCAAGAATTGCCTAAACTTTCCCAAGGTG
1 CCAAAGCCAGAATTACC-AAAAGTTCTTGAGTTA
* * * * *
2180767 CCCAAGCTAGAATTACCCAAAGTTCCTGAGTTG
1 CCAAAGCCAGAATTACCAAAAGTTCTTGAGTTA
* ** *
2180800 CCAAAACTTGAATTACCAAAAGCTCTTGAGTTA
1 CCAAAGCCAGAATTACCAAAAGTTCTTGAGTTA
* * * *
2180833 CCAAAGCCAGAATTATCTAAAA-CTCCTGAGTTG
1 CCAAAGCCAGAATTA-CCAAAAGTTCTTGAGTTA
* * *
2180866 CCAAAACCTGAATTACTAAAAGTTCTTGAGTTA
1 CCAAAGCCAGAATTACCAAAAGTTCTTGAGTTA
* * * *
2180899 CCAAAGCCAGAATTGCCTATAGTTCATGAGGTGT-
1 CCAAAGCCAGAATTACCAAAAGTTCTTGA-GT-TA
* * * *
2180933 CC-AAGCCAGAATTACCTAAAGCTCCTGAGTTG
1 CCAAAGCCAGAATTACCAAAAGTTCTTGAGTTA
* * *
2180965 CCAAAACTC-GAATTATCAAAATTTCTTGAGTTA
1 CCAAAGC-CAGAATTACCAAAAGTTCTTGAGTTA
* * * * * * *
2180998 CCAAAGTCTGAATTGCCTAAAGTTCCTGAGGTG
1 CCAAAGCCAGAATTACCAAAAGTTCTTGAGTTA
* * * * * * *
2181031 CCCAAGTCAAAATTACCCAAAGCTCCTGAGTTG
1 CCAAAGCCAGAATTACCAAAAGTTCTTGAGTTA
* * * *
2181064 CCAAA-ACATGAATCACCAAAAGTTCCTAAGTTA
1 CCAAAGCCA-GAATTACCAAAAGTTCTTGAGTTA
* * ** * * * *
2181097 CCAATGCCTGAATTGTCTAGAGTTCCTGAAG-TG
1 CCAAAGCCAGAATTACCAAAAGTTCTTG-AGTTA
* * * * *
2181130 CCCAAGCCAAAATTACCCAAAGCTCTTGAATTA
1 CCAAAGCCAGAATTACCAAAAGTTCTTGAGTTA
*
2181163 CCAAAGCCTGAATTAC
1 CCAAAGCCAGAATTAC
2181179 GTAAAATTCA
Statistics
Matches: 350, Mismatches: 114, Indels: 29
0.71 0.23 0.06
Matches are distributed among these distances:
31 1 0.00
32 21 0.06
33 292 0.83
34 35 0.10
35 1 0.00
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.25
Consensus pattern (33 bp):
CCAAAGCCAGAATTACCAAAAGTTCTTGAGTTA
Found at i:2180812 original size:100 final size:99
Alignment explanation
Indices: 2180629--2180853 Score: 279
Period size: 100 Copynumber: 2.3 Consensus size: 99
2180619 AAAGTTTCAG
* *
2180629 AGTTACCAAAGCAAGAATTACCTAGAGTTCCAAAGGTGCCCAAACCAGAATTACCTAAAACTCCT
1 AGTTACCAAAGCAAGAATTACCTAAAGTTCCAAAGGTGCCCAAACCAGAATTACCCAAAACTCCT
* * *
2180694 GAGCTACTAAAACCTGAATTACCGAAAGTTCTTC
66 GAGCTACCAAAACCTGAATTACCAAAAGCTCTTC
* * * * * **
2180728 AGTTACCAAAGCAAGAATTGCCTAAACTTTCCCAAGGTGCCCAAGCTAGAATTACCCAAAGTTCC
1 AGTTACCAAAGCAAGAATTACCTAAA-GTTCCAAAGGTGCCCAAACCAGAATTACCCAAAACTCC
* * * *
2180793 TGAGTTGCCAAAACTTGAATTACCAAAAGCTCTTG
65 TGAGCTACCAAAACCTGAATTACCAAAAGCTCTTC
* *
2180828 AGTTACCAAAGCCAGAATTATCTAAA
1 AGTTACCAAAGCAAGAATTACCTAAA
2180854 ACTCCTGAGT
Statistics
Matches: 106, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
99 24 0.23
100 82 0.77
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.23
Consensus pattern (99 bp):
AGTTACCAAAGCAAGAATTACCTAAAGTTCCAAAGGTGCCCAAACCAGAATTACCCAAAACTCCT
GAGCTACCAAAACCTGAATTACCAAAAGCTCTTC
Found at i:2180833 original size:18 final size:18
Alignment explanation
Indices: 2180806--2180903 Score: 57
Period size: 18 Copynumber: 5.8 Consensus size: 18
2180796 GTTGCCAAAA
2180806 CTTGAATTACCAAAAGCT
1 CTTGAATTACCAAAAGCT
*
2180824 CTTGAGTTACC-AAAGC-
1 CTTGAATTACCAAAAGCT
* *
2180840 C-AGAATTATCTAAAA-CT
1 CTTGAATTA-CCAAAAGCT
* * *
2180857 CCTGAGTTGCCAAAA-C-
1 CTTGAATTACCAAAAGCT
* *
2180873 C-TGAATTACTAAAAGTT
1 CTTGAATTACCAAAAGCT
*
2180890 CTTGAGTTACCAAA
1 CTTGAATTACCAAA
2180904 GCCAGAATTG
Statistics
Matches: 59, Mismatches: 14, Indels: 14
0.68 0.16 0.16
Matches are distributed among these distances:
15 15 0.25
16 4 0.07
17 16 0.27
18 24 0.41
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (18 bp):
CTTGAATTACCAAAAGCT
Found at i:2180860 original size:66 final size:66
Alignment explanation
Indices: 2180628--2181177 Score: 291
Period size: 66 Copynumber: 8.3 Consensus size: 66
2180618 CAAAGTTTCA
* * * ** * * *
2180628 GAGTTACCAAAGCAAGAATTACCTAGAGTTCCAAAGGTGCCCAAACCAGAATTACCTAAAA-CTC
1 GAGTTACCAAAGCCAGAATTATCTAAAGTTCCTGAGTTGCCAAAACCTGAATTACC-AAAAGCTC
2180692 CT
65 CT
* * * * * * * * * * ** * *
2180694 GAGCTACTAAAACCTGAATTACCGAAAGTTCTTCAGTTACCAAAGCAAGAATTGCCTAAA-CTTT
1 GAGTTACCAAAGCCAGAATTATCTAAAGTTCCTGAGTTGCCAAAACCTGAATTACCAAAAGC--T
*
2180758 CCC
64 CCT
* * * * * * * * *
2180761 AAGGTGCCCAAGCTAGAATTACCCAAAGTTCCTGAGTTGCCAAAACTTGAATTACCAAAAGCTCT
1 GAGTTACCAAAGCCAGAATTATCTAAAGTTCCTGAGTTGCCAAAACCTGAATTACCAAAAGCTCC
2180826 T
66 T
** * * *
2180827 GAGTTACCAAAGCCAGAATTATCTAAAACTCCTGAGTTGCCAAAACCTGAATTACTAAAAGTTCT
1 GAGTTACCAAAGCCAGAATTATCTAAAGTTCCTGAGTTGCCAAAACCTGAATTACCAAAAGCTCC
2180892 T
66 T
** * * * * * *
2180893 GAGTTACCAAAGCCAGAATTGCCTATAGTTCATGAGGTGTCC-AAGCCAGAATTACCTAAAGCTC
1 GAGTTACCAAAGCCAGAATTATCTAAAGTTCCTGAGTTG-CCAAAACCTGAATTACCAAAAGCTC
2180957 CT
65 CT
* * * * * * ** * * *
2180959 GAGTTGCCAAAACTC-GAATTATCAAAATTTCTTGAGTTACCAAAGTCTGAATTGCCTAAAGTTC
1 GAGTTACCAAAGC-CAGAATTATCTAAAGTTCCTGAGTTGCCAAAACCTGAATTACCAAAAGCTC
2181023 CT
65 CT
* * * * * * * * * * *
2181025 GAGGTGCCCAAGTCAAAATTACCCAAAGCTCCTGAGTTGCCAAAACATGAATCACCAAAAGTTCC
1 GAGTTACCAAAGCCAGAATTATCTAAAGTTCCTGAGTTGCCAAAACCTGAATTACCAAAAGCTCC
2181090 T
66 T
* * * * * * * ** *
2181091 AAGTTACCAATGCCTGAATTGTCTAGAGTTCCTGAAG-TGCCCAAGCCAAAATTACCCAAAGCTC
1 GAGTTACCAAAGCCAGAATTATCTAAAGTTCCTG-AGTTGCCAAAACCTGAATTACCAAAAGCTC
*
2181155 TT
65 CT
* *
2181157 GAATTACCAAAGCCTGAATTA
1 GAGTTACCAAAGCCAGAATTA
2181178 CGTAAAATTC
Statistics
Matches: 357, Mismatches: 119, Indels: 16
0.73 0.24 0.03
Matches are distributed among these distances:
65 7 0.02
66 298 0.83
67 51 0.14
68 1 0.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (66 bp):
GAGTTACCAAAGCCAGAATTATCTAAAGTTCCTGAGTTGCCAAAACCTGAATTACCAAAAGCTCC
T
Found at i:2180952 original size:99 final size:99
Alignment explanation
Indices: 2180776--2181184 Score: 426
Period size: 99 Copynumber: 4.1 Consensus size: 99
2180766 GCCCAAGCTA
** * * * * * * * * * * *
2180776 GAATTACCCAAAGTTCCTGAGTTGCCAAAACTTGAATTACCAAAAGCTCTTGAGTTACCAAAGCC
1 GAATTACTAAAAGTTCTTGAGTTACCAAAGCCTGAATTGCCTAAAGTTCCTGAGGTGCCCAAGCC
* * * *
2180841 AGAATTATCTAAAACTCCTGAGTTGCCAAAACCT
66 AAAATTACCCAAAGCTCCTGAGTTGCCAAAACCT
* * * *
2180875 GAATTACTAAAAGTTCTTGAGTTACCAAAGCCAGAATTGCCTATAGTTCATGAGGTGTCCAAGCC
1 GAATTACTAAAAGTTCTTGAGTTACCAAAGCCTGAATTGCCTAAAGTTCCTGAGGTGCCCAAGCC
* *
2180940 AGAATTACCTAAAGCTCCTGAGTTGCCAAAA-CT
66 AAAATTACCCAAAGCTCCTGAGTTGCCAAAACCT
* *
2180973 CGAATTA-TCAAAATTTCTTGAGTTACCAAAGTCTGAATTGCCTAAAGTTCCTGAGGTGCCCAAG
1 -GAATTACT-AAAAGTTCTTGAGTTACCAAAGCCTGAATTGCCTAAAGTTCCTGAGGTGCCCAAG
* *
2181037 TCAAAATTACCCAAAGCTCCTGAGTTGCCAAAACAT
64 CCAAAATTACCCAAAGCTCCTGAGTTGCCAAAACCT
* * * * * * * *
2181073 GAATCACCAAAAGTTCCTAAGTTACCAATGCCTGAATTGTCTAGAGTTCCTGAAGTGCCCAAGCC
1 GAATTACTAAAAGTTCTTGAGTTACCAAAGCCTGAATTGCCTAAAGTTCCTGAGGTGCCCAAGCC
* * * *
2181138 AAAATTACCCAAAGCTCTTGAATTACCAAAGCCT
66 AAAATTACCCAAAGCTCCTGAGTTGCCAAAACCT
2181172 GAATTACGTAAAA
1 GAATTAC-TAAAA
2181185 TTCAATCAAA
Statistics
Matches: 259, Mismatches: 46, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
98 3 0.01
99 251 0.97
100 5 0.02
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (99 bp):
GAATTACTAAAAGTTCTTGAGTTACCAAAGCCTGAATTGCCTAAAGTTCCTGAGGTGCCCAAGCC
AAAATTACCCAAAGCTCCTGAGTTGCCAAAACCT
Found at i:2181176 original size:15 final size:17
Alignment explanation
Indices: 2181140--2181178 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
2181130 CCCAAGCCAA
2181140 AATTACCCAAAGCTCTTG
1 AATTA-CCAAAGCTCTTG
2181158 AATTACCAAAGC-C-TG
1 AATTACCAAAGCTCTTG
2181173 AATTAC
1 AATTAC
2181179 GTAAAATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.38
16 1 0.05
17 7 0.33
18 5 0.24
ACGTcount: A:0.38, C:0.26, G:0.10, T:0.26
Consensus pattern (17 bp):
AATTACCAAAGCTCTTG
Found at i:2183508 original size:66 final size:66
Alignment explanation
Indices: 2183413--2183576 Score: 211
Period size: 66 Copynumber: 2.5 Consensus size: 66
2183403 CGAAAATTCT
* * * * *
2183413 CAAGTTACCAAAGCCAGAATTGTCTAAAGTTCCTGAGATGCCCAAGCCAGAATTGCCCAAAGCTC
1 CAAGTTACCAAAGCCAAAATTGCCAAAAGTTCCTGAGACGCCCAAGCCAAAATTGCCCAAAGCTC
2183478 C
66 C
** * * *
2183479 TGAGTTACCGAAGCCAAAATTGCCCAAAGTTCCTGAGGCGCCCAAGCCAAAATTGCCCAAAGCTC
1 CAAGTTACCAAAGCCAAAATTGCCAAAAGTTCCTGAGACGCCCAAGCCAAAATTGCCCAAAGCTC
2183544 C
66 C
* * *
2183545 CAAGTTACCAAATCCTAAATTACCAAAAGTTC
1 CAAGTTACCAAAGCCAAAATTGCCAAAAGTTC
2183577 TCGAGTTACC
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
66 82 1.00
ACGTcount: A:0.35, C:0.29, G:0.16, T:0.20
Consensus pattern (66 bp):
CAAGTTACCAAAGCCAAAATTGCCAAAAGTTCCTGAGACGCCCAAGCCAAAATTGCCCAAAGCTC
C
Found at i:2183596 original size:66 final size:66
Alignment explanation
Indices: 2183346--2183606 Score: 179
Period size: 66 Copynumber: 3.9 Consensus size: 66
2183336 AATGATCCAG
* * * * * * * **
2183346 AGTTACCAAAGCCAGAATTACCTAAAGTTCATGAGATTC-CCAAAGCTCCTAAATTACCGAAAAT
1 AGTTACCAAAGCCAAAATTACCAAAAGTTCCTGAG--GCACCAAAG--CCAAAATTGCCCAAAGC
*
2183410 TCTCA
62 TCCCA
* ** * *
2183415 AGTTACCAAAGCCAGAATTGTCTAAAGTTCCTGAGATGC-CC-AAGCCAGAATTGCCCAAAGCTC
1 AGTTACCAAAGCCAAAATTACCAAAAGTTCCTGAG--GCACCAAAGCCAAAATTGCCCAAAGCTC
**
2183478 CTG
64 CCA
* * * * *
2183481 AGTTACCGAAGCCAAAATTGCCCAAAGTTCCTGAGGCGCCCAAGCCAAAATTGCCCAAAGCTCCC
1 AGTTACCAAAGCCAAAATTACCAAAAGTTCCTGAGGCACCAAAGCCAAAATTGCCCAAAGCTCCC
2183546 A
66 A
* * ** * *
2183547 AGTTACCAAATCCTAAATTACCAAAAGTT-CTCGAGTTACCAAAGTCAAAATTGCCTAAAG
1 AGTTACCAAAGCCAAAATTACCAAAAGTTCCT-GAGGCACCAAAGCCAAAATTGCCCAAAG
2183607 TTCCTAAGCT
Statistics
Matches: 158, Mismatches: 31, Indels: 9
0.80 0.16 0.05
Matches are distributed among these distances:
64 2 0.01
65 4 0.03
66 112 0.71
68 3 0.02
69 37 0.23
ACGTcount: A:0.36, C:0.27, G:0.15, T:0.21
Consensus pattern (66 bp):
AGTTACCAAAGCCAAAATTACCAAAAGTTCCTGAGGCACCAAAGCCAAAATTGCCCAAAGCTCCC
A
Found at i:2183596 original size:99 final size:99
Alignment explanation
Indices: 2183480--2183741 Score: 276
Period size: 99 Copynumber: 2.6 Consensus size: 99
2183470 CAAAGCTCCT
* *
2183480 GAGTTACCGAAGCCAAAATTGCCCAAAGTTCCTGAGGC-GCCCAAGCCAAAATTGCCCAAAGCTC
1 GAGTTACCAAAGCCAAAATTGCCCAAAGTTCCT-AAGCTGCCCAAGCCAAAATTGCCCAAAGCTC
* * * *
2183544 CCAAGTTACCAAATCCTAAATTACCAAAAGTTCTC
65 CCAAATTACCAAAACCTAAATTACCAAAAATTCCC
* * * *
2183579 GAGTTACCAAAGTCAAAATTGCCTAAAGTTCCTAAGCTGCTCAAGCCAGAATTGCCCAAAGCTCC
1 GAGTTACCAAAGCCAAAATTGCCCAAAGTTCCTAAGCTGCCCAAGCCAAAATTGCCCAAAGCTCC
* ** *
2183644 TAAATTGTCAAAACCTGAATTACCAAAAATTCCC
66 CAAATTACCAAAACCTAAATTACCAAAAATTCCC
* * * * * * * * * *
2183678 GAGTTAACAAAACCAGAATTGTCTAAAGTGCTCAAAG-TGCCAAAACCAGAATTGCCCAAAGCTC
1 GAGTTACCAAAGCCAAAATTGCCCAAAGTTC-CTAAGCTGCCCAAGCCAAAATTGCCCAAAGCTC
2183742 TTGAGTTGCC
Statistics
Matches: 137, Mismatches: 24, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
98 3 0.02
99 130 0.95
100 4 0.03
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.21
Consensus pattern (99 bp):
GAGTTACCAAAGCCAAAATTGCCCAAAGTTCCTAAGCTGCCCAAGCCAAAATTGCCCAAAGCTCC
CAAATTACCAAAACCTAAATTACCAAAAATTCCC
Found at i:2183645 original size:33 final size:33
Alignment explanation
Indices: 2183414--2183646 Score: 164
Period size: 33 Copynumber: 7.1 Consensus size: 33
2183404 GAAAATTCTC
* * * *
2183414 AAGTTACCAAAGCCAGAATTGTCTAAAGTTCCT
1 AAGTTACCAAAGCCAAAATTGCCCAAAGCTCCT
* * * * *
2183447 GAGATGCCCAAGCCAGAATTGCCCAAAGCTCCT
1 AAGTTACCAAAGCCAAAATTGCCCAAAGCTCCT
* * *
2183480 GAGTTACCGAAGCCAAAATTGCCCAAAGTTCCT
1 AAGTTACCAAAGCCAAAATTGCCCAAAGCTCCT
* *** * *
2183513 GAGGCGCCCAAGCCAAAATTGCCCAAAGCTCCC
1 AAGTTACCAAAGCCAAAATTGCCCAAAGCTCCT
* * * * *
2183546 AAGTTACCAAATCCTAAATTACCAAAAG-TTCT
1 AAGTTACCAAAGCCAAAATTGCCCAAAGCTCCT
* * * *
2183578 CGAGTTACCAAAGTCAAAATTGCCTAAAGTTCCT
1 -AAGTTACCAAAGCCAAAATTGCCCAAAGCTCCT
* * *
2183612 AAGCTGCTC-AAGCCAGAATTGCCCAAAGCTCCT
1 AAGTTAC-CAAAGCCAAAATTGCCCAAAGCTCCT
2183645 AA
1 AA
2183647 ATTGTCAAAA
Statistics
Matches: 154, Mismatches: 43, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
32 2 0.01
33 148 0.96
34 4 0.03
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.21
Consensus pattern (33 bp):
AAGTTACCAAAGCCAAAATTGCCCAAAGCTCCT
Found at i:2186626 original size:37 final size:37
Alignment explanation
Indices: 2186578--2186648 Score: 99
Period size: 38 Copynumber: 1.9 Consensus size: 37
2186568 ATCACCCTAA
* * *
2186578 TAAAAAATTATAAAAATA-TTTAAAAGTAAAATATTT
1 TAAAAAATTATAAAAACAGTTCAAAAATAAAATATTT
2186614 TAAAAAATTTATAAAAACAGTTCAAAAATAAAATA
1 TAAAAAA-TTATAAAAACAGTTCAAAAATAAAATA
2186649 AAATGAAGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 7 0.23
37 10 0.33
38 13 0.43
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (37 bp):
TAAAAAATTATAAAAACAGTTCAAAAATAAAATATTT
Found at i:2190289 original size:32 final size:32
Alignment explanation
Indices: 2190248--2190313 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
2190238 AATTAGATGC
2190248 ATCTTTTAATTTATTTTTTATATAAATAAGTT
1 ATCTTTTAATTTATTTTTTATATAAATAAGTT
2190280 ATCTTTTAATTTATTTTTTATATAAATAAGTT
1 ATCTTTTAATTTATTTTTTATATAAATAAGTT
2190312 AT
1 AT
2190314 AAATTTGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (32 bp):
ATCTTTTAATTTATTTTTTATATAAATAAGTT
Found at i:2192198 original size:65 final size:65
Alignment explanation
Indices: 2192105--2192237 Score: 189
Period size: 65 Copynumber: 2.0 Consensus size: 65
2192095 TTTCAAATAT
* * * *
2192105 TAATCTAGTTGTGTTATAATAATAATATTAAA-AGTAAACTACT-TTCAAGGTTGCTATATTATT
1 TAATCTAGTTGTGCTATAATAATAATATTAAAGA-TAAACTA-TATCCAAGGTCGCTATATTATA
2192168 AG
64 AG
*
2192170 TAATCTAGTTGTGCTATAATAGTAATATTAAAGATAAACTATATCCAAGGTCGCTATATTATAAG
1 TAATCTAGTTGTGCTATAATAATAATATTAAAGATAAACTATATCCAAGGTCGCTATATTATAAG
2192235 TAA
1 TAA
2192238 GTCCGTATTT
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
64 1 0.02
65 59 0.97
66 1 0.02
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (65 bp):
TAATCTAGTTGTGCTATAATAATAATATTAAAGATAAACTATATCCAAGGTCGCTATATTATAAG
Found at i:2198356 original size:13 final size:13
Alignment explanation
Indices: 2198340--2198364 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2198330 AAAATTATTT
2198340 TAAAAATAAAAAA
1 TAAAAATAAAAAA
2198353 TAAAAATAAAAA
1 TAAAAATAAAAA
2198365 TATTTTAAAA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:2200930 original size:17 final size:19
Alignment explanation
Indices: 2200897--2200931 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
2200887 ATTATTTGGA
2200897 TATTGTATAACTCTTGTTT
1 TATTGTATAACTCTTGTTT
2200916 TATTGT-TAA-TCTTGTT
1 TATTGTATAACTCTTGTT
2200932 ACTATTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.20, C:0.09, G:0.11, T:0.60
Consensus pattern (19 bp):
TATTGTATAACTCTTGTTT
Found at i:2201111 original size:5 final size:5
Alignment explanation
Indices: 2201103--2201129 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
2201093 AGGCGGGTCG
2201103 GGCTC GGCTC GGCTC GGCTC GGCTC GG
1 GGCTC GGCTC GGCTC GGCTC GGCTC GG
2201130 ATTTTAGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.37, G:0.44, T:0.19
Consensus pattern (5 bp):
GGCTC
Found at i:2208651 original size:13 final size:13
Alignment explanation
Indices: 2208633--2208660 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2208623 CTTATTATTT
2208633 TGTTTATAGTTCA
1 TGTTTATAGTTCA
2208646 TGTTTATAGTTCA
1 TGTTTATAGTTCA
2208659 TG
1 TG
2208661 GGAAAAACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.18, T:0.54
Consensus pattern (13 bp):
TGTTTATAGTTCA
Found at i:2211295 original size:23 final size:23
Alignment explanation
Indices: 2211269--2211312 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
2211259 ATGTTCATAA
* *
2211269 TTCACGAATATTAAACAAACATG
1 TTCACAAATAATAAACAAACATG
*
2211292 TTCATAAATAATAAACAAACA
1 TTCACAAATAATAAACAAACA
2211313 ATAAATAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.55, C:0.16, G:0.05, T:0.25
Consensus pattern (23 bp):
TTCACAAATAATAAACAAACATG
Found at i:2212370 original size:223 final size:224
Alignment explanation
Indices: 2211982--2212429 Score: 880
Period size: 223 Copynumber: 2.0 Consensus size: 224
2211972 AATTTTATTT
2211982 CAAATTTCTCTCATCAAAACAAATTCTCATTTTCGGTATTGAAATAAACTTTAACCTTCTTTGCC
1 CAAATTTCTCTCATCAAAACAAATTCTCATTTTCGGTATTGAAATAAACTTTAACCTTCTTTGCC
2212047 ACTAAAACAAACCTTCATTTTTAATATTAAGAACTCAAAAAATATTGTAGAAATGGAAACCCTCA
66 ACTAAAACAAACCTTCATTTTTAATATTAAGAACTCAAAAAATATTGTAGAAATGGAAACCCTCA
2212112 TTTTTACTATTTTGAAATCATGAGGTTTTTGATATCATATATGACTAAGAAGTTGAATATAAGAG
131 TTTTTACTATTTTGAAATCATGAGGTTTTTGATATCATATATGACTAAGAAGTTGAATATAAGAG
2212177 AAAATAAAAAAGATCAA-TTATATTTGTA
196 AAAATAAAAAAGATCAATTTATATTTGTA
2212205 CAAATTTCTCTCATCAAAACAAATTCTCATTTTCGGTATTGAAATAAACTTTAACCTTCTTTGCC
1 CAAATTTCTCTCATCAAAACAAATTCTCATTTTCGGTATTGAAATAAACTTTAACCTTCTTTGCC
2212270 ACTAAAACAAACCTTCATTTTTAATATTAAGAACTCAAAAAATATTGTAGAAATGGAAACCCTCA
66 ACTAAAACAAACCTTCATTTTTAATATTAAGAACTCAAAAAATATTGTAGAAATGGAAACCCTCA
2212335 TTTTTACTATTTTGAAATCATGAGGTTTTTGATATCATATATGACTAAGAAGTTGAATATAAGAG
131 TTTTTACTATTTTGAAATCATGAGGTTTTTGATATCATATATGACTAAGAAGTTGAATATAAGAG
2212400 AAAATAAAAAAGATCAATTTTATATTTGTA
196 AAAATAAAAAAGATCAA-TTTATATTTGTA
2212430 ATTTAATTTA
Statistics
Matches: 223, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
223 212 0.95
225 11 0.05
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.36
Consensus pattern (224 bp):
CAAATTTCTCTCATCAAAACAAATTCTCATTTTCGGTATTGAAATAAACTTTAACCTTCTTTGCC
ACTAAAACAAACCTTCATTTTTAATATTAAGAACTCAAAAAATATTGTAGAAATGGAAACCCTCA
TTTTTACTATTTTGAAATCATGAGGTTTTTGATATCATATATGACTAAGAAGTTGAATATAAGAG
AAAATAAAAAAGATCAATTTATATTTGTA
Found at i:2212779 original size:22 final size:23
Alignment explanation
Indices: 2212737--2212779 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
2212727 TCATTTATTT
*
2212737 ATAATTAATATAAAATGATAATA
1 ATAATTAATATAAAATAATAATA
2212760 ATAA-TAATATAGAAA-AATAA
1 ATAATTAATATA-AAATAATAA
2212780 GAAATAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (23 bp):
ATAATTAATATAAAATAATAATA
Found at i:2213033 original size:21 final size:21
Alignment explanation
Indices: 2213004--2213046 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
2212994 TTTTCACTTC
*
2213004 TTTAAATAT-TCATATATTTTA
1 TTTAAATATAT-ATATATATTA
*
2213025 TTTATATATATATATATATTA
1 TTTAAATATATATATATATTA
2213046 T
1 T
2213047 CCCCACATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTAAATATATATATATATTA
Found at i:2224884 original size:5 final size:5
Alignment explanation
Indices: 2224874--2224902 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
2224864 AAAATGACAA
2224874 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
2224903 AGCAAGGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:2249376 original size:19 final size:20
Alignment explanation
Indices: 2249354--2249391 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2249344 TTAAAAAATA
2249354 TATAAAT-TTTGGAATTTTT
1 TATAAATATTTGGAATTTTT
*
2249373 TATAAATATTTTGAATTTT
1 TATAAATATTTGGAATTTT
2249392 AAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
TATAAATATTTGGAATTTTT
Found at i:2249390 original size:20 final size:21
Alignment explanation
Indices: 2249359--2249432 Score: 84
Period size: 20 Copynumber: 3.7 Consensus size: 21
2249349 AAATATATAA
2249359 ATTTTGGAATTTTTTATAAA-T
1 ATTTT-GAATTTTTTATAAATT
*
2249380 ATTTTGAA--TTTTAAAAATT
1 ATTTTGAATTTTTTATAAATT
* *
2249399 ATTTTAAATTTTTGA-AAATT
1 ATTTTGAATTTTTTATAAATT
2249419 ATTTTGAATTTTTT
1 ATTTTGAATTTTTT
2249433 TTTGTAATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
18 8 0.18
19 8 0.18
20 20 0.44
21 9 0.20
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTTTGAATTTTTTATAAATT
Found at i:2258076 original size:14 final size:15
Alignment explanation
Indices: 2258051--2258115 Score: 53
Period size: 14 Copynumber: 4.3 Consensus size: 15
2258041 AAAAGTACAT
2258051 AAATTGAAATTGATC
1 AAATTGAAATTGATC
2258066 AAATT-AAATTGA-C
1 AAATTGAAATTGATC
* * ** *
2258079 CAATTCAAAAAGTATAT
1 AAATTGAAATTG-AT-C
2258096 AAATTGAAATTGATC
1 AAATTGAAATTGATC
2258111 AAATT
1 AAATT
2258116 AAAGTATAGG
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
13 5 0.14
14 11 0.30
15 11 0.30
16 2 0.05
17 8 0.22
ACGTcount: A:0.51, C:0.08, G:0.09, T:0.32
Consensus pattern (15 bp):
AAATTGAAATTGATC
Found at i:2258077 original size:45 final size:45
Alignment explanation
Indices: 2258026--2258118 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
2258016 ATAAGGGCTA
2258026 AAATTGACAAATTCAAAAAGTACATAAATTGAAATTGATCAAATT
1 AAATTGACAAATTCAAAAAGTACATAAATTGAAATTGATCAAATT
* *
2258071 AAATTGACCAATTCAAAAAGTATATAAATTGAAATTGATCAAATT
1 AAATTGACAAATTCAAAAAGTACATAAATTGAAATTGATCAAATT
2258116 AAA
1 AAA
2258119 GTATAGGGAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.29
Consensus pattern (45 bp):
AAATTGACAAATTCAAAAAGTACATAAATTGAAATTGATCAAATT
Found at i:2258098 original size:25 final size:24
Alignment explanation
Indices: 2258026--2258106 Score: 73
Period size: 25 Copynumber: 3.5 Consensus size: 24
2258016 ATAAGGGCTA
*
2258026 AAATTGACAAATTCAAAAAGTACAT
1 AAATTGAC-AATTCAAAAAGTATAT
* **
2258051 AAATTGA-AATTGATCAA--AT-T
1 AAATTGACAATTCAAAAAGTATAT
2258071 AAATTGACCAATTCAAAAAGTATAT
1 AAATTGA-CAATTCAAAAAGTATAT
2258096 AAATTGA-AATT
1 AAATTGACAATT
2258107 GATCAAATTA
Statistics
Matches: 44, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
20 8 0.18
21 1 0.02
22 7 0.16
23 11 0.25
24 2 0.05
25 15 0.34
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.30
Consensus pattern (24 bp):
AAATTGACAATTCAAAAAGTATAT
Found at i:2259765 original size:22 final size:22
Alignment explanation
Indices: 2259740--2259782 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
2259730 GATGTCATTG
2259740 GCATGTTAATAGAGTGAAAGTC
1 GCATGTTAATAGAGTGAAAGTC
* *
2259762 GCATGTTCATAGAGTGGAAGT
1 GCATGTTAATAGAGTGAAAGT
2259783 GTTTCATTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (22 bp):
GCATGTTAATAGAGTGAAAGTC
Found at i:2264362 original size:25 final size:25
Alignment explanation
Indices: 2264334--2264493 Score: 165
Period size: 25 Copynumber: 6.6 Consensus size: 25
2264324 ACTTTAGCGC
2264334 GCTCTCTGATTATTAGCACATCAGT
1 GCTCTCTGATTATTAGCACATCAGT
*
2264359 GCTCTCTGATTATTAACACATCAGT
1 GCTCTCTGATTATTAGCACATCAGT
* *
2264384 GATCTCTAATTATTAGCACATCAGT
1 GCTCTCTGATTATTAGCACATCAGT
* * *
2264409 GCTCTCTGATTATTAGCACGTTAAT
1 GCTCTCTGATTATTAGCACATCAGT
*
2264434 GCTCT-TCG---ATTAGCACATCTGT
1 GCTCTCT-GATTATTAGCACATCAGT
* *
2264456 GCTCTCTG--TA-TAGCACTTTAGT
1 GCTCTCTGATTATTAGCACATCAGT
2264478 GCTCTCTG-TTCATTAG
1 GCTCTCTGATT-ATTAG
2264494 TGCATAATAA
Statistics
Matches: 113, Mismatches: 16, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
22 33 0.29
23 3 0.03
24 2 0.02
25 75 0.66
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACATCAGT
Found at i:2264469 original size:22 final size:22
Alignment explanation
Indices: 2264444--2264486 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2264434 GCTCTTCGAT
2264444 TAGCACATCT-GTGCTCTCTGTA
1 TAGCAC-TCTAGTGCTCTCTGTA
*
2264466 TAGCACTTTAGTGCTCTCTGT
1 TAGCACTCTAGTGCTCTCTGT
2264487 TCATTAGTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.40
Consensus pattern (22 bp):
TAGCACTCTAGTGCTCTCTGTA
Found at i:2269606 original size:1 final size:1
Alignment explanation
Indices: 2269600--2269630 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
2269590 AGAATGCTGC
2269600 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2269631 TATATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2284698 original size:27 final size:27
Alignment explanation
Indices: 2284640--2284698 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
2284630 TTTTAACATA
* * *
2284640 ATATTTATATTAAAGAATGATATATAT
1 ATATATATATTAAAGAATGAAATAAAT
* *
2284667 ATATATATATTAAATAATTAAATAAAT
1 ATATATATATTAAAGAATGAAATAAAT
*
2284694 TTATA
1 ATATA
2284699 ATTTTTTTGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (27 bp):
ATATATATATTAAAGAATGAAATAAAT
Found at i:2289349 original size:28 final size:28
Alignment explanation
Indices: 2289317--2289371 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
2289307 TTGCCACTTC
*
2289317 ACTTTTGCATGATTGAATTATGAAATTA
1 ACTTTTGCATGATTGAATTACGAAATTA
*
2289345 ACTTTTGTATGATTGAATTACGAAATT
1 ACTTTTGCATGATTGAATTACGAAATT
2289372 GACATTTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.44
Consensus pattern (28 bp):
ACTTTTGCATGATTGAATTACGAAATTA
Found at i:2289379 original size:28 final size:28
Alignment explanation
Indices: 2289320--2289379 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
2289310 CCACTTCACT
* *
2289320 TTTGCATGATTGAATTATGAAATTAACT
1 TTTGCATGATTGAATTACGAAATTAACA
* *
2289348 TTTGTATGATTGAATTACGAAATTGACA
1 TTTGCATGATTGAATTACGAAATTAACA
2289376 TTTG
1 TTTG
2289380 ATTTTTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (28 bp):
TTTGCATGATTGAATTACGAAATTAACA
Found at i:2289505 original size:20 final size:20
Alignment explanation
Indices: 2289469--2289506 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2289459 TTAAAAAATC
*
2289469 AAATAAAAAGTTATTTATGA
1 AAATAAAAAATTATTTATGA
2289489 AAATAAAATAATT-TTTAT
1 AAATAAAA-AATTATTTAT
2289507 ATATTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (20 bp):
AAATAAAAAATTATTTATGA
Found at i:2294566 original size:25 final size:25
Alignment explanation
Indices: 2294519--2294567 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
2294509 GAAGCTTTTC
* * *
2294519 TGAGTCATATAATGGGAAGCTCATG
1 TGAGTCATATAACGAGAAACTCATG
2294544 TGAGTCATATAACGAGAAACTCAT
1 TGAGTCATATAACGAGAAACTCAT
2294568 AAGAGACATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (25 bp):
TGAGTCATATAACGAGAAACTCATG
Found at i:2294620 original size:24 final size:24
Alignment explanation
Indices: 2294532--2294623 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
2294522 GTCATATAAT
** *
2294532 GGGAAGCTCATGTGAGTCATATAAC
1 GGGAAGCTCATACGAGCCATA-AAC
* * * * *
2294557 GAGAAACTCATAAGAGACATAATC
1 GGGAAGCTCATACGAGCCATAAAC
2294581 GGGAAGCTCATACGAGCCATAAAC
1 GGGAAGCTCATACGAGCCATAAAC
* *
2294605 GGGAATCTCATGCGAGCCA
1 GGGAAGCTCATACGAGCCA
2294624 ATATCGACAA
Statistics
Matches: 54, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
24 38 0.70
25 16 0.30
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (24 bp):
GGGAAGCTCATACGAGCCATAAAC
Found at i:2308174 original size:34 final size:34
Alignment explanation
Indices: 2308131--2308199 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 34
2308121 CATTTTTATA
2308131 ATTTGTGACAAAAATATA-ATTTTTTAGTGAATT
1 ATTTGTGACAAAAATATATATTTTTTAGTGAATT
*
2308164 ATTTGGTGACAAAAATATATTTTTTTTAGTGAATT
1 ATTT-GTGACAAAAATATATATTTTTTAGTGAATT
2308199 A
1 A
2308200 CAATAATTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
33 4 0.12
34 14 0.42
35 15 0.45
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.46
Consensus pattern (34 bp):
ATTTGTGACAAAAATATATATTTTTTAGTGAATT
Found at i:2312903 original size:2 final size:2
Alignment explanation
Indices: 2312863--2312890 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2312853 TCTTTAATTG
2312863 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2312891 TAAGGGAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2312984 original size:17 final size:18
Alignment explanation
Indices: 2312962--2312999 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
2312952 ATTTTTAAAC
2312962 ATTTGGT-AATTACTTTT
1 ATTTGGTAAATTACTTTT
*
2312979 ATTTGGTAAATTATTTTT
1 ATTTGGTAAATTACTTTT
2312997 ATT
1 ATT
2313000 GAATTAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.26, C:0.03, G:0.11, T:0.61
Consensus pattern (18 bp):
ATTTGGTAAATTACTTTT
Found at i:2319164 original size:30 final size:30
Alignment explanation
Indices: 2319128--2319184 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
2319118 AGAGTCAGTG
2319128 CAACATAAGCAAGCCATGAAAACAATATTC
1 CAACATAAGCAAGCCATGAAAACAATATTC
2319158 CAACATAAGCAAGCCATGAAAACAATA
1 CAACATAAGCAAGCCATGAAAACAATA
2319185 ATCAAGGAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.53, C:0.23, G:0.11, T:0.14
Consensus pattern (30 bp):
CAACATAAGCAAGCCATGAAAACAATATTC
Found at i:2332904 original size:20 final size:19
Alignment explanation
Indices: 2332882--2332951 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 19
2332872 CTCTCTCAAC
2332882 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
2332901 CAAAAATTCAAAATAAATTTT
1 -AAAAATTCAAAAT-AATTTT
*
2332922 -AACATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
2332940 AAAAATTTCAAA
1 AAAAA-TTCAAA
2332952 TTTTATATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
17 4 0.09
18 1 0.02
19 14 0.32
20 19 0.43
21 6 0.14
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:2332977 original size:25 final size:24
Alignment explanation
Indices: 2332932--2332980 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
2332922 AACATTCAAA
* * *
2332932 ATATTTATAAAAATTTCAAATTTT
1 ATATTTAAAAAAATATAAAATTTT
2332956 ATATTTAAAAAAAATATAAAATTTT
1 ATATTT-AAAAAAATATAAAATTTT
2332981 TAAAAAATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
ATATTTAAAAAAATATAAAATTTT
Found at i:2338025 original size:29 final size:28
Alignment explanation
Indices: 2337993--2338051 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
2337983 TAATATTTTT
* **
2337993 TAAAAAATACCAAAAATTTATTTTAAAAA
1 TAAAAAATA-AAAAAAAGTATTTTAAAAA
2338022 TAAAAAATAAAAAAAAGTATTTTAAAAA
1 TAAAAAATAAAAAAAAGTATTTTAAAAA
2338050 TA
1 TA
2338052 TTTTAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (28 bp):
TAAAAAATAAAAAAAAGTATTTTAAAAA
Found at i:2342873 original size:21 final size:21
Alignment explanation
Indices: 2342849--2342903 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
2342839 AACAGCGGTG
*
2342849 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
2342870 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
2342891 GCGGTGAGATTAG
1 GCGGTGAGATTAG
2342904 AAACAATGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.22, C:0.09, G:0.40, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:2343950 original size:13 final size:13
Alignment explanation
Indices: 2343932--2344066 Score: 76
Period size: 13 Copynumber: 9.6 Consensus size: 13
2343922 ATTCCCCTCC
*
2343932 TCCCATTTCTCAT
1 TCCCATTTCCCAT
2343945 TCCCATTTCCCAT
1 TCCCATTTCCCAT
*
2343958 TCCCATTTCCCCTCT
1 TCCCATTT-CCC-AT
* *
2343973 TCGACC-GTGCCC-T
1 TC--CCATTTCCCAT
2343986 CCTCCCATTTCCCAT
1 --TCCCATTTCCCAT
*
2344001 TCCCATTTCCCCT
1 TCCCATTTCCCAT
* *
2344014 CTTCCATCGATTCCCCT
1 -TCCCAT---TTCCCAT
*
2344031 CCTCCCATTTCTCAT
1 --TCCCATTTCCCAT
2344046 TCCCATTTCCCAT
1 TCCCATTTCCCAT
2344059 TCCCATTT
1 TCCCATTT
2344067 ACGATTACTT
Statistics
Matches: 97, Mismatches: 12, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
13 55 0.57
14 12 0.12
15 14 0.14
16 1 0.01
17 9 0.09
18 6 0.06
ACGTcount: A:0.12, C:0.47, G:0.03, T:0.38
Consensus pattern (13 bp):
TCCCATTTCCCAT
Found at i:2343954 original size:7 final size:7
Alignment explanation
Indices: 2343932--2344066 Score: 52
Period size: 7 Copynumber: 19.1 Consensus size: 7
2343922 ATTCCCCTCC
2343932 TCCCATT
1 TCCCATT
*
2343939 TCTCA-T
1 TCCCATT
2343945 TCCCATT
1 TCCCATT
2343952 TCCCA-T
1 TCCCATT
2343958 TCCCATT
1 TCCCATT
*
2343965 TCCCCTCT
1 TCCCAT-T
*
2343973 TCGACC-GT
1 TC--CCATT
* *
2343981 GCCC-TCC
1 TCCCAT-T
2343988 TCCCATT
1 TCCCATT
2343995 TCCCA-T
1 TCCCATT
2344001 TCCCATT
1 TCCCATT
*
2344008 TCCCCTCT
1 TCCCAT-T
2344016 T-CCATCGAT
1 TCCCAT---T
* *
2344025 TCCCCTCC
1 TCCCAT-T
2344033 TCCCATT
1 TCCCATT
*
2344040 TCTCA-T
1 TCCCATT
2344046 TCCCATT
1 TCCCATT
2344053 TCCCA-T
1 TCCCATT
2344059 TCCCATT
1 TCCCATT
2344066 T
1 T
2344067 ACGATTACTT
Statistics
Matches: 95, Mismatches: 19, Indels: 28
0.67 0.13 0.20
Matches are distributed among these distances:
6 30 0.32
7 45 0.47
8 13 0.14
9 2 0.02
10 5 0.05
ACGTcount: A:0.12, C:0.47, G:0.03, T:0.38
Consensus pattern (7 bp):
TCCCATT
Found at i:2343995 original size:43 final size:44
Alignment explanation
Indices: 2343945--2344056 Score: 172
Period size: 43 Copynumber: 2.5 Consensus size: 44
2343935 CATTTCTCAT
* *
2343945 TCCCATTTCCCATTCCCATTTCCCCTCTTCGACCG-TGCCCTCC
1 TCCCATTTCCCATTCCCATTTCCCCTCTTCCACCGATCCCCTCC
*
2343988 TCCCATTTCCCATTCCCATTTCCCCTCTTCCATCGATTCCCCTCC
1 TCCCATTTCCCATTCCCATTTCCCCTCTTCCACCGA-TCCCCTCC
*
2344033 TCCCATTTCTCATTCCCATTTCCC
1 TCCCATTTCCCATTCCCATTTCCC
2344057 ATTCCCATTT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
43 33 0.52
45 30 0.48
ACGTcount: A:0.11, C:0.50, G:0.04, T:0.36
Consensus pattern (44 bp):
TCCCATTTCCCATTCCCATTTCCCCTCTTCCACCGATCCCCTCC
Found at i:2348670 original size:29 final size:29
Alignment explanation
Indices: 2348605--2348663 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
2348595 GTGGACCAGT
2348605 TTTAACAAATGGAAAACATAGAAAAACTA
1 TTTAACAAATGGAAAACATAGAAAAACTA
2348634 TTTAACAAATGGAAAACATAGAAAAACTA
1 TTTAACAAATGGAAAACATAGAAAAACTA
2348663 T
1 T
2348664 GTTACAAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.58, C:0.10, G:0.10, T:0.22
Consensus pattern (29 bp):
TTTAACAAATGGAAAACATAGAAAAACTA
Found at i:2350325 original size:20 final size:20
Alignment explanation
Indices: 2350300--2350341 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2350290 TTACTTTTTT
*
2350300 TTTTTTATAA-TTCTTGATAA
1 TTTTTTACAATTTCTT-ATAA
2350320 TTTTTTACAATTTCTTATAA
1 TTTTTTACAATTTCTTATAA
2350340 TT
1 TT
2350342 CAAATAGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTTTACAATTTCTTATAA
Found at i:2350510 original size:11 final size:10
Alignment explanation
Indices: 2350491--2350558 Score: 61
Period size: 10 Copynumber: 6.7 Consensus size: 10
2350481 TATATATTCT
2350491 TTTTTAATAA
1 TTTTTAATAA
2350501 TTTTTAAATAA
1 TTTTT-AATAA
*
2350512 -TGTTAATATA
1 TTTTTAATA-A
2350522 TTTTT-ATAA
1 TTTTTAATAA
2350531 TTTTTAAATAA
1 TTTTT-AATAA
2350542 TTTTGT-ATAA
1 TTTT-TAATAA
*
2350552 TTATTAA
1 TTTTTAA
2350559 AAAACCAGCG
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
9 11 0.23
10 20 0.42
11 16 0.33
12 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:2350540 original size:21 final size:21
Alignment explanation
Indices: 2350516--2350559 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2350506 AAATAATGTT
*
2350516 AATATATTTT-TATAATTTTTA
1 AATA-ATTTTGTATAATTATTA
2350537 AATAATTTTGTATAATTATTA
1 AATAATTTTGTATAATTATTA
2350558 AA
1 AA
2350560 AAACCAGCGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
AATAATTTTGTATAATTATTA
Found at i:2357329 original size:19 final size:21
Alignment explanation
Indices: 2357291--2357331 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
2357281 AGATGGAAAG
2357291 GTTTTCTATGTGGTTGCATGT
1 GTTTTCTATGTGGTTGCATGT
*
2357312 GTTTTC-ATGTTG-TGCATGT
1 GTTTTCTATGTGGTTGCATGT
2357331 G
1 G
2357332 CGTGTTCTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 5 0.26
21 6 0.32
ACGTcount: A:0.10, C:0.10, G:0.29, T:0.51
Consensus pattern (21 bp):
GTTTTCTATGTGGTTGCATGT
Found at i:2365642 original size:30 final size:30
Alignment explanation
Indices: 2365596--2365654 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
2365586 GAATACCAAA
*
2365596 TTTTAAAAATTTACAATATGATCACTAATG
1 TTTTAAAAAGTTACAATATGATCACTAATG
* *
2365626 TTTTTAAAAGTTACAATATGATTACTAAT
1 TTTTAAAAAGTTACAATATGATCACTAAT
2365655 ATTACATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (30 bp):
TTTTAAAAAGTTACAATATGATCACTAATG
Found at i:2366315 original size:17 final size:17
Alignment explanation
Indices: 2366277--2366315 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
2366267 ACCACTCATT
*
2366277 ATATTACTATTATTTTA
1 ATATTACTATTATTTGA
* *
2366294 TTATTATTATTATTTGA
1 ATATTACTATTATTTGA
2366311 ATATT
1 ATATT
2366316 GTATGAGTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (17 bp):
ATATTACTATTATTTGA
Found at i:2372584 original size:18 final size:18
Alignment explanation
Indices: 2372557--2372609 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
2372547 TAATTGTAAG
*
2372557 AAACAAGGAGCATGCATT
1 AAACAAGGAGCATGCATC
* *
2372575 AAACACGGAGCGTGCATC
1 AAACAAGGAGCATGCATC
*
2372593 AAACAAAGAGCATGCAT
1 AAACAAGGAGCATGCAT
2372610 GATGCATGCA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.13
Consensus pattern (18 bp):
AAACAAGGAGCATGCATC
Found at i:2376271 original size:30 final size:30
Alignment explanation
Indices: 2376232--2376334 Score: 120
Period size: 30 Copynumber: 3.4 Consensus size: 30
2376222 CAAATTTTAT
*
2376232 TTTTTTAAAATTACATTTTAACCTCTAAAC
1 TTTTCTAAAATTACATTTTAACCTCTAAAC
* * *
2376262 TTTTCTAAAATTACATTTTGACCCCTCAAC
1 TTTTCTAAAATTACATTTTAACCTCTAAAC
* *
2376292 TTTTC-AAAATTTCATTTTTAAACTCTAAAC
1 TTTTCTAAAATTACA-TTTTAACCTCTAAAC
2376322 -TTTCTTAAAATTA
1 TTTTC-TAAAATTA
2376335 TAGATTGACC
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
29 12 0.20
30 42 0.70
31 6 0.10
ACGTcount: A:0.35, C:0.18, G:0.01, T:0.46
Consensus pattern (30 bp):
TTTTCTAAAATTACATTTTAACCTCTAAAC
Found at i:2376331 original size:60 final size:60
Alignment explanation
Indices: 2376233--2376368 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 60
2376223 AAATTTTATT
* * * ** *
2376233 TTTTTAAAATTACA-TTTTAACCTCTAAACTTTTCTAAAATTACATTTTGACCCCTCAAC
1 TTTTCAAAATTTCATTTTTAAACTCTAAACTTTTCTAAAATTACAGATTGACCCCTAAAC
*
2376292 TTTTCAAAATTTCATTTTTAAACTCTAAAC-TTTCTTAAAATTATAGATTGACCCCTAAAC
1 TTTTCAAAATTTCATTTTTAAACTCTAAACTTTTC-TAAAATTACAGATTGACCCCTAAAC
*
2376352 -TTCCAAAATTTTCATTT
1 TTTTCAAAA-TTTCATTT
2376369 GACACCTAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
59 23 0.35
60 43 0.65
ACGTcount: A:0.35, C:0.20, G:0.02, T:0.43
Consensus pattern (60 bp):
TTTTCAAAATTTCATTTTTAAACTCTAAACTTTTCTAAAATTACAGATTGACCCCTAAAC
Found at i:2376607 original size:22 final size:21
Alignment explanation
Indices: 2376582--2376623 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
2376572 AGGAGGGGAG
2376582 AACAAAAAAAAAAGCAAAAAAC
1 AACAAAAAAAAAA-CAAAAAAC
**
2376604 AACAGCAAAAAAACAAAAAA
1 AACAAAAAAAAAACAAAAAA
2376624 AAGCAAGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.81, C:0.14, G:0.05, T:0.00
Consensus pattern (21 bp):
AACAAAAAAAAAACAAAAAAC
Found at i:2382665 original size:110 final size:107
Alignment explanation
Indices: 2382473--2382668 Score: 293
Period size: 110 Copynumber: 1.8 Consensus size: 107
2382463 AAACTTGGCA
2382473 ATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAA
1 ATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAA
* *
2382538 AATATTGCCTTATTTTGAAATTTTTATGAAGGATATTAAGCC
66 AATATTGCCTCAATTTGAAATTTTTATGAAGGATATTAAGCC
* * * * *
2382580 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAATG
1 ATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGCACG-TTCCTCGAATTTCCAAACG
*
2382645 CTAAATATTGCCTCAATTTGAAAT
63 CAAAATATTGCCTCAATTTGAAAT
2382669 ATTCTCCCTT
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
107 14 0.18
109 26 0.33
110 38 0.49
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (107 bp):
ATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAA
AATATTGCCTCAATTTGAAATTTTTATGAAGGATATTAAGCC
Found at i:2383192 original size:17 final size:17
Alignment explanation
Indices: 2383170--2383202 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2383160 GAGTTTATAC
2383170 ATATAATGAT-TTAAAAT
1 ATATAAT-ATATTAAAAT
2383187 ATATAATATATTAAAA
1 ATATAATATATTAAAA
2383203 GAATTAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
ATATAATATATTAAAAT
Found at i:2405620 original size:25 final size:24
Alignment explanation
Indices: 2405590--2405650 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 24
2405580 TTGTAATTAC
2405590 TTATTATATAAGAAAATATTATAT
1 TTATTATATAAGAAAATATTATAT
** *
2405614 TATATTATATTATTAAAGTATTATAT
1 T-TATTATA-TAAGAAAATATTATAT
*
2405640 TTATTAAATAA
1 TTATTATATAA
2405651 TAAACAAAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
24 3 0.10
25 13 0.43
26 14 0.47
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (24 bp):
TTATTATATAAGAAAATATTATAT
Found at i:2405637 original size:16 final size:17
Alignment explanation
Indices: 2405616--2405647 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2405606 TATTATATTA
2405616 TATTATA-TTATTAAAG
1 TATTATATTTATTAAAG
2405632 TATTATATTTATTAAA
1 TATTATATTTATTAAA
2405648 TAATAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TATTATATTTATTAAAG
Found at i:2405690 original size:17 final size:17
Alignment explanation
Indices: 2405668--2405702 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2405658 AACATAATTT
*
2405668 AAAAGAATAAAAGAAAC
1 AAAAGAAGAAAAGAAAC
*
2405685 AAAAGAAGAAAATAAAC
1 AAAAGAAGAAAAGAAAC
2405702 A
1 A
2405703 GAATAGGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.77, C:0.06, G:0.11, T:0.06
Consensus pattern (17 bp):
AAAAGAAGAAAAGAAAC
Found at i:2406421 original size:12 final size:12
Alignment explanation
Indices: 2406400--2406446 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
2406390 GTGAGGTAAC
*
2406400 TATTAATATTAG
1 TATTATTATTAG
*
2406412 TATTAGTATTAG
1 TATTATTATTAG
2406424 TATTATTATTAG
1 TATTATTATTAG
2406436 TATTATTATTA
1 TATTATTATTA
2406447 TGAGTGGGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (12 bp):
TATTATTATTAG
Found at i:2406447 original size:6 final size:6
Alignment explanation
Indices: 2406400--2406446 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
2406390 GTGAGGTAAC
* * *
2406400 TATTAA TATTAG TATTAG TATTAG TATTAT TATTAG TATTAT TATTA
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTA
2406447 TGAGTGGGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (6 bp):
TATTAG
Found at i:2407742 original size:123 final size:122
Alignment explanation
Indices: 2407519--2407742 Score: 376
Period size: 123 Copynumber: 1.8 Consensus size: 122
2407509 GTGAATGTGG
* *
2407519 AATGAATTGGTTGATTTGGTTATATTTGGAAAAGATATGGTTTTAATTGCAGGGGGTTCTATGTA
1 AATGAATTGATTGATTTGGTTATATTTGGAAAAGATATGATTTTAATTGCAGGGGGTTCTATGTA
2407584 AAAATAAGCAGAAATGCTGCCGAAATTTTTATAAAATTTATAATAATAATAAAAACA
66 AAAATAAGCAGAAATGCTGCCGAAATTTTTATAAAATTTATAATAATAATAAAAACA
* * *
2407641 AATGAATTGATTGATTTGGTTATATTTGGAAATGTTATGAATTTTAATTGCAGGGGGTTGTATGT
1 AATGAATTGATTGATTTGGTTATATTTGGAAAAGATATG-ATTTTAATTGCAGGGGGTTCTATGT
* *
2407706 AAAAATAAGCAGAAATGCTGCCGAATTTTTTTTAAAA
65 AAAAATAAGCAGAAATGCTGCCGAAATTTTTATAAAA
2407743 ATGAATGAAA
Statistics
Matches: 94, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
122 36 0.38
123 58 0.62
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.37
Consensus pattern (122 bp):
AATGAATTGATTGATTTGGTTATATTTGGAAAAGATATGATTTTAATTGCAGGGGGTTCTATGTA
AAAATAAGCAGAAATGCTGCCGAAATTTTTATAAAATTTATAATAATAATAAAAACA
Found at i:2408011 original size:19 final size:19
Alignment explanation
Indices: 2407989--2408055 Score: 73
Period size: 19 Copynumber: 3.3 Consensus size: 19
2407979 AGGAAGAAAG
2407989 AAGAAAAAAAGAAAGAAGA
1 AAGAAAAAAAGAAAGAAGA
*
2408008 AAGAAAAGAAGAAA-AAGA
1 AAGAAAAAAAGAAAGAAGA
2408026 AAGAAAAGATAAAGAAAGAGAGA
1 AAG-AAA-A-AAAGAAAGA-AGA
2408049 AGAGAAA
1 A-AGAAA
2408056 GGAAAGGATA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
18 7 0.17
19 16 0.40
20 1 0.03
21 6 0.15
22 1 0.03
23 7 0.17
24 2 0.05
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (19 bp):
AAGAAAAAAAGAAAGAAGA
Found at i:2408014 original size:18 final size:19
Alignment explanation
Indices: 2407989--2408034 Score: 76
Period size: 18 Copynumber: 2.5 Consensus size: 19
2407979 AGGAAGAAAG
*
2407989 AAGAAAAAAAGAAAGAAGA
1 AAGAAAAGAAGAAAGAAGA
2408008 AAGAAAAGAAGAAA-AAGA
1 AAGAAAAGAAGAAAGAAGA
2408026 AAGAAAAGA
1 AAGAAAAGA
2408035 TAAAGAAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (19 bp):
AAGAAAAGAAGAAAGAAGA
Done.