Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 41 of 770
Found at i:11723365 original size:88 final size:88
Alignment explanation
Indices: 11723200--11723365 Score: 206
Period size: 88 Copynumber: 1.9 Consensus size: 88
11723190 TCAACAGCAG
** * * * *
11723200 ATCTCCTTGAAGTTTCAGTGGAGTAGATCGAGGCTACAAATCTCGTCTCCCTAGAATGGCATTGG
1 ATCTCCTTGAAGTTTCAGCAGAGTAGATCGAAGCTACAAATCTCGTCTCCCTAAAATGACAATGG
* *
11723265 AGCGGATCGAAGCCACCATTCGT
66 AACAGATCGAAGCCACCATTCGT
* * * *
11723288 ATCTCCTTGAAGTTTCAGCAGAGTAGATTGAAGCTACAAATCTCTTCTTCCTAAAATTACAATGG
1 ATCTCCTTGAAGTTTCAGCAGAGTAGATCGAAGCTACAAATCTCGTCTCCCTAAAATGACAATGG
* *
11723353 AATAGATTGAAGC
66 AACAGATCGAAGC
11723366 TAAATAAACA
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
88 64 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (88 bp):
ATCTCCTTGAAGTTTCAGCAGAGTAGATCGAAGCTACAAATCTCGTCTCCCTAAAATGACAATGG
AACAGATCGAAGCCACCATTCGT
Found at i:11726320 original size:131 final size:132
Alignment explanation
Indices: 11726076--11726408 Score: 404
Period size: 131 Copynumber: 2.6 Consensus size: 132
11726066 TAATTATTCA
*
11726076 TTTATAAAATTCTTTAAAACAAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAT
1 TTTATAAAATTCTTTAAAACAAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAT
* * * *
11726141 CGTGTTGGGTTGCAATTTCGCGTTTGTTCAAAATAATCAAATATTCCTTTAGAATTTCACTCATG
66 CGTGCTGGATTGCAATTTCCCGTTTGTTCAAAATAATCAAATACTCCTTTAGAATTTCACTCATG
11726206 TC
131 TC
* * *
11726208 TTTA-AAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTGGTAATTCGGGGAATTGTGCCCTAT
1 TTTATAAAATTCTTTAAAACAAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAT
* * * * * *
11726272 TGTGCTGGATTGCAATTTCCCGTTTGTTCAAAATACTCGAATACTCCTTTGGAATTTCACTCGTT
66 CGTGCTGGATTGCAATTTCCCGTTTGTTCAAAATAATCAAATACTCCTTTAGAATTTCACTCATG
*
11726337 TT
131 TC
* * * * * * * * * *
11726339 TTTTTTAGATTC--TAAAAC-AAGGCAATGGTCAATGTTTGGAAATTTGAGGAATCGTGCCCTAC
1 TTTATAAAATTCTTTAAAACAAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAT
*
11726401 CGTACTGG
66 CGTGCTGG
11726409 GTTTTGATTT
Statistics
Matches: 172, Mismatches: 28, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
129 42 0.24
130 6 0.03
131 115 0.67
132 9 0.05
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (132 bp):
TTTATAAAATTCTTTAAAACAAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAT
CGTGCTGGATTGCAATTTCCCGTTTGTTCAAAATAATCAAATACTCCTTTAGAATTTCACTCATG
TC
Found at i:11727924 original size:19 final size:19
Alignment explanation
Indices: 11727900--11727946 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
11727890 CTTTCTTTCC
11727900 TTTGCATT-CATCCCATGCA
1 TTTGCATTACATCCCAT-CA
**
11727919 TTTGCATTACATTGCATCA
1 TTTGCATTACATCCCATCA
11727938 TTTGCATTA
1 TTTGCATTA
11727947 AATTTTCCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATCCCATCA
Found at i:11731355 original size:131 final size:130
Alignment explanation
Indices: 11731106--11731441 Score: 462
Period size: 131 Copynumber: 2.6 Consensus size: 130
11731096 TTTTATAATT
*
11731106 ATTCATTTATAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGC
1 ATTC-TTTA-AAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTGC
* *
11731171 CCTATCGTGCTGGGTTGCAATTTCACATTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCAC
64 CCTATCGTGCTGGGTTGCAATTTCACATTTGTTCAAAATAATCGAATACTCCTTTAGAATTTCAC
11731236 TC
129 TC
* *
11731238 ATGTCTTTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTGGTAATTCGGGGAATCGTGCC
1 AT-TCTTTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTGCC
* * * *
11731303 CTATTGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATACTCCTTTAGAATTTCGCT
65 CTATCGTGCTGGGTTGCAATTTCACATTTGTTCAAAATAATCGAATACTCCTTTAGAATTTCACT
11731368 C
130 C
* * ** * * * *
11731369 GTTTTTTTTAGATTC--TAAAAC-AAGGCAATGGTCAATGTTTGGAAATTCGAGGAATCGTGCCC
1 ATTCTTTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTGCCC
*
11731431 TACCGTGCTGG
66 TATCGTGCTGG
11731442 CTTTTGATTT
Statistics
Matches: 183, Mismatches: 20, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
127 45 0.25
128 6 0.03
130 9 0.05
131 115 0.63
132 6 0.03
133 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (130 bp):
ATTCTTTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTGCCC
TATCGTGCTGGGTTGCAATTTCACATTTGTTCAAAATAATCGAATACTCCTTTAGAATTTCACTC
Found at i:11735733 original size:14 final size:14
Alignment explanation
Indices: 11735714--11735740 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11735704 TAAATACTTG
11735714 ATTTGTTCTTAATT
1 ATTTGTTCTTAATT
11735728 ATTTGTTCTTAAT
1 ATTTGTTCTTAAT
11735741 GCTTGAGTTA
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:0.22, C:0.07, G:0.07, T:0.63
Consensus pattern (14 bp):
ATTTGTTCTTAATT
Found at i:11736185 original size:13 final size:13
Alignment explanation
Indices: 11736169--11736201 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
11736159 TTTAATTAAA
*
11736169 TTAGTTAATTAGT
1 TTAGATAATTAGT
11736182 TTAGATAATTAGT
1 TTAGATAATTAGT
11736195 TTA-ATAA
1 TTAGATAA
11736202 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:11741317 original size:6 final size:6
Alignment explanation
Indices: 11741299--11741355 Score: 64
Period size: 6 Copynumber: 9.5 Consensus size: 6
11741289 TCCTCCTATC
*
11741299 TTTTTA TTCTTA TTTTTA -TTTTA -TTTTA TTTCTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TT-TTTA TTTTTA TTTTTA
*
11741347 TTTTCA TTT
1 TTTTTA TTT
11741356 CAATTTTATT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
5 10 0.22
6 28 0.62
7 3 0.07
8 4 0.09
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:11741322 original size:5 final size:5
Alignment explanation
Indices: 11741300--11741375 Score: 52
Period size: 5 Copynumber: 14.8 Consensus size: 5
11741290 CCTCCTATCT
*
11741300 TTTTA TTCTTA TTTTTA TTTTA TTTTA -TTT- CTTTA TTTTTA TTTTTA
1 TTTTA TT-TTA -TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA -TTTTA
*
11741347 TTTTCA TTTCAA TTTTA --TTA TTTTA TTTT
1 TTTT-A TTT-TA TTTTA TTTTA TTTTA TTTT
11741376 GAAAGACATA
Statistics
Matches: 59, Mismatches: 3, Indels: 18
0.74 0.04 0.22
Matches are distributed among these distances:
3 3 0.05
4 6 0.10
5 24 0.41
6 24 0.41
7 2 0.03
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:11741340 original size:36 final size:37
Alignment explanation
Indices: 11741299--11741375 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 37
11741289 TCCTCCTATC
* * **
11741299 TTTTTATTCTTATTTTTATTT-TATTTTATTTCTTTA
1 TTTTTATTCTTATTTTCATTTCAATTTTATTATTTTA
*
11741335 TTTTTATTTTTATTTTCATTTCAATTTTATTATTTTA
1 TTTTTATTCTTATTTTCATTTCAATTTTATTATTTTA
11741372 TTTT
1 TTTT
11741376 GAAAGACATA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
36 19 0.54
37 16 0.46
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (37 bp):
TTTTTATTCTTATTTTCATTTCAATTTTATTATTTTA
Found at i:11741370 original size:25 final size:24
Alignment explanation
Indices: 11741300--11741375 Score: 77
Period size: 25 Copynumber: 3.2 Consensus size: 24
11741290 CCTCCTATCT
*
11741300 TTTTA-TTC-TTATTTTTATTTTA
1 TTTTATTTCATTATTATTATTTTA
* *
11741322 TTTTATTTCTTTATTTTTATTTTTA
1 TTTTATTTCATTATTATTA-TTTTA
11741347 TTTTCATTTCAATT-TTATTATTTTA
1 TTTT-ATTTC-ATTATTATTATTTTA
11741372 TTTT
1 TTTT
11741376 GAAAGACATA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.11
23 3 0.06
24 9 0.19
25 18 0.38
26 10 0.21
27 2 0.04
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTATTTCATTATTATTATTTTA
Found at i:11744303 original size:13 final size:13
Alignment explanation
Indices: 11744287--11744319 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
11744277 TTTGATTAAA
*
11744287 TTAGTTAATTAGT
1 TTAGATAATTAGT
11744300 TTAGATAATTAGT
1 TTAGATAATTAGT
11744313 TTA-ATAA
1 TTAGATAA
11744320 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:11749370 original size:46 final size:45
Alignment explanation
Indices: 11749267--11749385 Score: 143
Period size: 46 Copynumber: 2.6 Consensus size: 45
11749257 AGTACCAAGT
* ** *
11749267 CTTATCTCCCTGAAGTTGCAGTGGAGTA-GATCAAAGCCACAATC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGATCAAAAACACAAAC
* * *
11749311 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGAT-AAAAATATGCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGATCAAAAACA--CAAAC
11749357 CTTATCTCCCTGAAGTTGCAGTGGAGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAG
11749386 TTGCAGTAGA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
44 29 0.46
45 3 0.05
46 31 0.49
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGGATCAAAAACACAAAC
Found at i:11749389 original size:14 final size:14
Alignment explanation
Indices: 11749370--11749399 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11749360 ATCTCCCTGA
*
11749370 AGTTGCAGTGGAGC
1 AGTTGCAGTAGAGC
11749384 AGTTGCAGTAGAGC
1 AGTTGCAGTAGAGC
11749398 AG
1 AG
11749400 GATAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.40, T:0.20
Consensus pattern (14 bp):
AGTTGCAGTAGAGC
Found at i:11749417 original size:60 final size:60
Alignment explanation
Indices: 11749324--11749458 Score: 227
Period size: 60 Copynumber: 2.2 Consensus size: 60
11749314 ATCTCTCTGA
* * *
11749324 AGTTGCAGTAGAGCAGGATAAAAATATGCAAACCTTATCTCCCTGAAGTTGCAGTGGAGC
1 AGTTGCAGTAGAGCAGGATAAAAATAAGCAAACCTTATCTCCCTGAAGTTACAGTAGAGC
11749384 AGTTGCAGTAGAGCAGGATAAAAATACAG-AAACCTTATCTCCCTGAAGTTACAGTAGAGC
1 AGTTGCAGTAGAGCAGGATAAAAATA-AGCAAACCTTATCTCCCTGAAGTTACAGTAGAGC
11749444 AGTTGCAGTAGAGCA
1 AGTTGCAGTAGAGCA
11749459 AATTAAGAGC
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
60 70 0.99
61 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (60 bp):
AGTTGCAGTAGAGCAGGATAAAAATAAGCAAACCTTATCTCCCTGAAGTTACAGTAGAGC
Found at i:11750455 original size:4 final size:4
Alignment explanation
Indices: 11750448--11750493 Score: 92
Period size: 4 Copynumber: 11.5 Consensus size: 4
11750438 TTTCTTCTAA
11750448 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT AT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT AT
11750494 ATATATATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.26, C:0.24, G:0.00, T:0.50
Consensus pattern (4 bp):
ATCT
Found at i:11750498 original size:2 final size:2
Alignment explanation
Indices: 11750491--11750521 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11750481 TCTATCTATC
11750491 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11750522 GTTTTTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11751347 original size:128 final size:127
Alignment explanation
Indices: 11751187--11751525 Score: 398
Period size: 126 Copynumber: 2.7 Consensus size: 127
11751177 GTCGACTTTA
* * * *
11751187 TAAAACAAATGTGATGTTTGATGTTTGAAAATTCGGGAAATTGTGCCCTAATGTGCTGGGTTTTG
1 TAAAACAAAGGTGATGTTTGATGTTTGAAAATTCGGGAAATCGTGCCCTAACGTGCTGGGTTTCG
* * ** *
11751252 ATTTTTCTGTTTGTCCAAATAATCAAATATCCTTTTAAATTTTTGTCCGCGTTTTCTGAACTT
66 A-TTTTCTGTTTGTCCAAATAATCAAATATCCCTTTAAAATTTCATCCGCGTTTTCTAAACTT
* *
11751315 TAAAACAAAGGTGATGTTTGATATTTTG-AAATTCGGGAAATCGTGCCCTAACGTGTTGGGTTTC
1 TAAAACAAAGGTGATGTTTGAT-GTTTGAAAATTCGGGAAATCGTGCCCTAACGTGCTGGGTTTC
* * *
11751379 GATTTTCTGTTTGTCCAAATAATTAAATATCCCTTTAAAATTTCATCCGTGTTTTCTAAATTT
65 GATTTTCTGTTTGTCCAAATAATCAAATATCCCTTTAAAATTTCATCCGCGTTTTCTAAACTT
* * * * * *
11751442 TAAAA-AAAGTTAATGTTCT-TTGTTTGGAAA-TCTGAGAAATCGTGCCCTAACGTGTTGGGTTT
1 TAAAACAAAGGTGATGTT-TGATGTTTGAAAATTC-GGGAAATCGTGCCCTAACGTGCTGGGTTT
* * * *
11751504 CGCTTTTTTGTTGGACCAAATA
64 CGATTTTCTGTTTGTCCAAATA
11751526 TGCGAACATC
Statistics
Matches: 184, Mismatches: 23, Indels: 10
0.85 0.11 0.05
Matches are distributed among these distances:
125 6 0.03
126 60 0.33
127 59 0.32
128 55 0.30
129 4 0.02
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (127 bp):
TAAAACAAAGGTGATGTTTGATGTTTGAAAATTCGGGAAATCGTGCCCTAACGTGCTGGGTTTCG
ATTTTCTGTTTGTCCAAATAATCAAATATCCCTTTAAAATTTCATCCGCGTTTTCTAAACTT
Found at i:11753075 original size:40 final size:39
Alignment explanation
Indices: 11753031--11753215 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 39
11753021 GCTACTCTTT
* *
11753031 CAAATGCCTTCAGGACCTAGCCCGG-TTATAGTAGCTCGTA
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGTA
* *
11753071 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGTA
1 CAAATGCC-TTCGGACTTAGCCCGGATTTAGTAACTCGTA
* * * * *
11753111 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTTGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGTA
* * * * *
11753150 CGAATGCCTTCGGATCTTAGCCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGTA
11753191 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
11753216 CATCATTCGA
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 37 0.30
40 71 0.58
41 14 0.11
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGTA
Found at i:11753142 original size:79 final size:80
Alignment explanation
Indices: 11753033--11753215 Score: 178
Period size: 79 Copynumber: 2.3 Consensus size: 80
11753023 TACTCTTTCA
* * * * * *
11753033 AATGCCTTCAGGACCTAGCCCGG-TTATAGTAGCTCGTACAAATGCCTTTGGGA-CTTAACCCGG
1 AATGCCTTC-GGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCC-TTCGGATCTTAACCCGG
*
11753096 ATTTAGTAACTCGTA-C-C
64 ATATAGTAACT--TAGCAC
* * *
11753113 AATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTTGCACGAATGCCTTCGGATCTTAGCCCGGAT
1 AATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
*
11753177 ATAGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
11753192 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGA
11753216 CATCATTCGA
Statistics
Matches: 86, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
77 2 0.02
78 6 0.07
79 57 0.66
80 21 0.24
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
AATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:11756055 original size:21 final size:20
Alignment explanation
Indices: 11756018--11756059 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
11756008 TTCTCAAGGA
*
11756018 AAGCCGATTGATCCATCTAAG
1 AAGCCGATTCATCCATC-AAG
11756039 AAGCCTGATTCAT-CATCAAG
1 AAGCC-GATTCATCCATCAAG
11756059 A
1 A
11756060 CTGAACACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 9 0.47
22 6 0.32
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.24
Consensus pattern (20 bp):
AAGCCGATTCATCCATCAAG
Found at i:11765009 original size:39 final size:40
Alignment explanation
Indices: 11764965--11765046 Score: 121
Period size: 40 Copynumber: 2.1 Consensus size: 40
11764955 AATTGAAGAG
* *
11764965 AAAAGAGAAGAGGAAGA-GGTGAATGACTAGGGTAGGGAA
1 AAAAGAGAAGAGGAAGAGGGTGAACGACTAGGATAGGGAA
* *
11765004 AAAAGAGGAGAGGAGGAGGGTGAACGACTAGGATAGGGAA
1 AAAAGAGAAGAGGAAGAGGGTGAACGACTAGGATAGGGAA
11765044 AAA
1 AAA
11765047 TTAACTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
39 15 0.39
40 23 0.61
ACGTcount: A:0.46, C:0.04, G:0.41, T:0.09
Consensus pattern (40 bp):
AAAAGAGAAGAGGAAGAGGGTGAACGACTAGGATAGGGAA
Found at i:11770086 original size:20 final size:20
Alignment explanation
Indices: 11770048--11770095 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
11770038 TAAATTCTAA
* **
11770048 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
11770068 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
11770088 AAA-ATAAA
1 AAAGATAAA
11770096 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:11770120 original size:27 final size:26
Alignment explanation
Indices: 11770090--11770152 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
11770080 AGATAATTAA
11770090 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
11770117 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
11770144 AATATAAAT
1 AATA-AAAT
11770153 AAAATGGACT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:11770139 original size:15 final size:15
Alignment explanation
Indices: 11770119--11770148 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11770109 ATAATCCTAA
*
11770119 TAATTATCTTAATAT
1 TAATTATCCTAATAT
11770134 TAATTATCCTAATAT
1 TAATTATCCTAATAT
11770149 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:11770737 original size:9 final size:9
Alignment explanation
Indices: 11770723--11770753 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
11770713 TTATTTATTG
*
11770723 TTTTTTCTC
1 TTTTTTTTC
11770732 TTTTTTTTC
1 TTTTTTTTC
11770741 TTTTTTTTC
1 TTTTTTTTC
11770750 TTTT
1 TTTT
11770754 ACTTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:11771806 original size:6 final size:6
Alignment explanation
Indices: 11771767--11771833 Score: 72
Period size: 6 Copynumber: 11.5 Consensus size: 6
11771757 ATCTGAAAAT
11771767 AATAAA TAAT-AA AATAATA AGAT-AA AAT--A AATAAA AATAAA AAT-AA
1 AATAAA -AATAAA AATAA-A A-ATAAA AATAAA AATAAA AATAAA AATAAA
11771813 AATAAA AATAAA AATAAA AAT
1 AATAAA AATAAA AATAAA AAT
11771834 TGGGTTGCCT
Statistics
Matches: 54, Mismatches: 0, Indels: 13
0.81 0.00 0.19
Matches are distributed among these distances:
4 4 0.07
5 10 0.19
6 32 0.59
7 6 0.11
8 2 0.04
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.21
Consensus pattern (6 bp):
AATAAA
Found at i:11771830 original size:23 final size:23
Alignment explanation
Indices: 11771767--11771833 Score: 86
Period size: 23 Copynumber: 2.9 Consensus size: 23
11771757 ATCTGAAAAT
11771767 AATAAATAAT-AAAATAATAAGATAA
1 AATAAA-AATAAAAATAA-AA-ATAA
11771792 AAT--AAATAAAAATAAAAATAA
1 AATAAAAATAAAAATAAAAATAA
11771813 AATAAAAATAAAAATAAAAAT
1 AATAAAAATAAAAATAAAAAT
11771834 TGGGTTGCCT
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
21 7 0.18
22 5 0.13
23 24 0.62
25 3 0.08
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.21
Consensus pattern (23 bp):
AATAAAAATAAAAATAAAAATAA
Found at i:11771831 original size:17 final size:17
Alignment explanation
Indices: 11771767--11771831 Score: 89
Period size: 17 Copynumber: 3.8 Consensus size: 17
11771757 ATCTGAAAAT
11771767 AATAAATAATAAAATAATA
1 AATAAA-AATAAAATAA-A
11771786 AGAT-AAAAT-AAATAAA
1 A-ATAAAAATAAAATAAA
11771802 AATAAAAATAAAATAAA
1 AATAAAAATAAAATAAA
11771819 AATAAAAATAAAA
1 AATAAAAATAAAA
11771832 ATTGGGTTGC
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
15 2 0.05
16 7 0.16
17 26 0.60
18 3 0.07
19 3 0.07
20 2 0.05
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (17 bp):
AATAAAAATAAAATAAA
Found at i:11775533 original size:10 final size:10
Alignment explanation
Indices: 11775518--11775549 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
11775508 TAAATACATT
11775518 TAATTAAAGA
1 TAATTAAAGA
11775528 TAATTAAAGA
1 TAATTAAAGA
11775538 TAATTAAA-A
1 TAATTAAAGA
11775547 TAA
1 TAA
11775550 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:11775594 original size:15 final size:15
Alignment explanation
Indices: 11775574--11775603 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11775564 ATAATCTTAA
*
11775574 TAATTATCTTAATAT
1 TAATTATCCTAATAT
11775589 TAATTATCCTAATAT
1 TAATTATCCTAATAT
11775604 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:11776529 original size:177 final size:178
Alignment explanation
Indices: 11776215--11776757 Score: 682
Period size: 177 Copynumber: 3.1 Consensus size: 178
11776205 CTATTTTCTC
* * * * * * * * * *
11776215 AAGGATATAAGATCTACGATCATCAGTCTGCTTTCTTGTTACCTCAAGATGATAAGACTACAATC
1 AAGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACATCAGGAAGATAAGACTACAACC
* * * * *
11776280 GCCAATCTACTCTCTTGCTACTTCAGAGAGATAAGGCT-AGTGGCTAAAATCTACTCCATT-TCT
66 ACCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGA-TGGCTAAAATCTGCTCCATTGTCT
* ** *
11776343 GAAACATGGAGATAAGATTCACTGTCTTCTGATCTGCTCCACTACTGCTT
130 GATACATGGAGATAAGATTCACCATCTTC-GATCTGCTCCACAACTGCTT
* * * *
11776393 AGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACT-CAGCC
1 AAGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACATCAGGAAGATAAGACTACAACC
***
11776457 TTTAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGATGGCTAAAATCTGCTCCATTGTC-G
66 ACCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGATGGCTAAAATCTGCTCCATTGTCTG
* **
11776521 ATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCTGCAACTGCTT
131 ATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCACAACTGCTT
*
11776569 AAGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACATCAGGAAGATAAGACTACAATC
1 AAGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACATCAGGAAGATAAGACTACAACC
* *
11776634 ACCAACCTGCTTTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTG-CTG
66 ACCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGATGGCTAAAATCTGCTCCATTGTCTG
* * * * *
11776698 ATACATGGAGATAAGATTCGCCATTTTCGATCTACTCTACTACTGCTT
131 ATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCACAACTGCTT
* *
11776746 CAGGAGACAAGA
1 AAGGAGATAAGA
11776758 CCTTTGAATT
Statistics
Matches: 319, Mismatches: 42, Indels: 9
0.86 0.11 0.02
Matches are distributed among these distances:
176 74 0.23
177 193 0.61
178 52 0.16
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (178 bp):
AAGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACATCAGGAAGATAAGACTACAACC
ACCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGATGGCTAAAATCTGCTCCATTGTCTG
ATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCACAACTGCTT
Found at i:11776633 original size:44 final size:45
Alignment explanation
Indices: 11776572--11776668 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 45
11776562 ACTGCTTAAG
* ** **
11776572 GAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACATCAG-
1 GAGATAAGATCTACAATCACCAACCTGCTTCCTTGCTACATCAGA
* *
11776616 GAAGATAAGA-CTACAATCACCAACCTGCTTTCTTGCTACCTCAGA
1 G-AGATAAGATCTACAATCACCAACCTGCTTCCTTGCTACATCAGA
11776661 GAGATAAG
1 GAGATAAG
11776669 GCTGGTGGCT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
44 35 0.80
45 9 0.20
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (45 bp):
GAGATAAGATCTACAATCACCAACCTGCTTCCTTGCTACATCAGA
Found at i:11777912 original size:10 final size:11
Alignment explanation
Indices: 11777892--11777916 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11777882 TGGCCTCTCC
11777892 TTTTTCTTTTT
1 TTTTTCTTTTT
11777903 TTTTTCTTTTT
1 TTTTTCTTTTT
11777914 TTT
1 TTT
11777917 ACTTCATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:11787939 original size:28 final size:28
Alignment explanation
Indices: 11787896--11787952 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
11787886 GTACATGTGT
11787896 TAGAGTGCAACCAGGAGGATACTGAGGG
1 TAGAGTGCAACCAGGAGGATACTGAGGG
*
11787924 TAGAGTGCAACTAGGAGGATACTGAGGG
1 TAGAGTGCAACCAGGAGGATACTGAGGG
11787952 T
1 T
11787953 CTTCATTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.12, G:0.39, T:0.18
Consensus pattern (28 bp):
TAGAGTGCAACCAGGAGGATACTGAGGG
Found at i:11792275 original size:2 final size:2
Alignment explanation
Indices: 11792270--11792296 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11792260 TAAAAAACTC
11792270 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
11792297 AATTTTAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11795309 original size:27 final size:26
Alignment explanation
Indices: 11795279--11795334 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 26
11795269 ATGGACGCAT
*
11795279 ACAAAAGCACAATCCTAGTGACACTAG
1 ACAAAA-CACAATCCTAGCGACACTAG
11795306 AC-AAACACAATCCTAGCGACACTAG
1 ACAAAACACAATCCTAGCGACACTAG
11795331 ACAA
1 ACAA
11795335 CTCTAATAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 21 0.78
26 4 0.15
27 2 0.07
ACGTcount: A:0.46, C:0.29, G:0.12, T:0.12
Consensus pattern (26 bp):
ACAAAACACAATCCTAGCGACACTAG
Found at i:11795318 original size:25 final size:25
Alignment explanation
Indices: 11795286--11795334 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
11795276 CATACAAAAG
*
11795286 CACAATCCTAGTGACACTAGACAAA
1 CACAATCCTAGCGACACTAGACAAA
11795311 CACAATCCTAGCGACACTAGACAA
1 CACAATCCTAGCGACACTAGACAA
11795335 CTCTAATAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.43, C:0.31, G:0.12, T:0.14
Consensus pattern (25 bp):
CACAATCCTAGCGACACTAGACAAA
Found at i:11802871 original size:18 final size:18
Alignment explanation
Indices: 11802850--11802887 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
11802840 ATTGTTCATC
*
11802850 TATAGCACTATTCACGTA
1 TATAGCACTATTCACATA
*
11802868 TATAGTACTATTCACATA
1 TATAGCACTATTCACATA
11802886 TA
1 TA
11802888 CAGTAGTTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (18 bp):
TATAGCACTATTCACATA
Found at i:11802892 original size:18 final size:18
Alignment explanation
Indices: 11802856--11802892 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11802846 CATCTATAGC
* *
11802856 ACTATTCACGTATATAGT
1 ACTATTCACATATACAGT
11802874 ACTATTCACATATACAGT
1 ACTATTCACATATACAGT
11802892 A
1 A
11802893 GTTGGGATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (18 bp):
ACTATTCACATATACAGT
Found at i:11812687 original size:27 final size:28
Alignment explanation
Indices: 11812647--11812703 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
11812637 TAATTAAACC
11812647 AAAAAATATATAAATACT-ACAA-AATTA
1 AAAAAATATATAAAT-CTCACAAGAATTA
11812674 AAAAAATA-ATTAAATCTCACAAGAATTA
1 AAAAAATATA-TAAATCTCACAAGAATTA
11812702 AA
1 AA
11812704 CATCAAAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 3 0.11
27 17 0.63
28 7 0.26
ACGTcount: A:0.65, C:0.09, G:0.02, T:0.25
Consensus pattern (28 bp):
AAAAAATATATAAATCTCACAAGAATTA
Found at i:11814441 original size:13 final size:13
Alignment explanation
Indices: 11814423--11814448 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11814413 TTATTAAATA
11814423 ATTTGAGATTTAT
1 ATTTGAGATTTAT
11814436 ATTTGAGATTTAT
1 ATTTGAGATTTAT
11814449 TTAATTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
ATTTGAGATTTAT
Found at i:11823200 original size:40 final size:40
Alignment explanation
Indices: 11823145--11823354 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
11823135 AACATTGGAA
11823145 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
11823185 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
11823225 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
11823265 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
11823304 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
11823345 CTATATCCGG
1 ATATATCCGG
11823355 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:11826884 original size:42 final size:43
Alignment explanation
Indices: 11826825--11826914 Score: 128
Period size: 42 Copynumber: 2.1 Consensus size: 43
11826815 ACGGCTAAGC
* *
11826825 CACACGCCCGTGTGCCACACTATGT-AACACTCGAAATGGCCT
1 CACACGCCCGTGTGCCACACCATGTAAACACTCGAAATAGCCT
* * *
11826867 CACACGCCTGTGTGCCACGCCGTGTAAACACTCGAAATAGCCT
1 CACACGCCCGTGTGCCACACCATGTAAACACTCGAAATAGCCT
11826910 CACAC
1 CACAC
11826915 ACTCTTGTGG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 21 0.50
43 21 0.50
ACGTcount: A:0.27, C:0.37, G:0.19, T:0.18
Consensus pattern (43 bp):
CACACGCCCGTGTGCCACACCATGTAAACACTCGAAATAGCCT
Found at i:11826932 original size:43 final size:43
Alignment explanation
Indices: 11826850--11826936 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
11826840 CACACTATGT
* * *
11826850 AACACTCGAAATGGCCTCACACGCCTGTGTGCCACGCCGTGTA
1 AACACTCGAAATAGCCTCACACACCTGTGTGCAACGCCGTGTA
* *
11826893 AACACTCGAAATAGCCTCACACACTCT-TGTGGAAGGCCGTGTA
1 AACACTCGAAATAGCCTCACACAC-CTGTGTGCAACGCCGTGTA
11826936 A
1 A
11826937 CTTAAAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
43 36 0.95
44 2 0.05
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.20
Consensus pattern (43 bp):
AACACTCGAAATAGCCTCACACACCTGTGTGCAACGCCGTGTA
Found at i:11829542 original size:30 final size:30
Alignment explanation
Indices: 11829490--11829559 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
11829480 GTTGTAATTG
11829490 TCCCTTTTCA-TATTCAATGGTCGAAACCA
1 TCCCTTTTCATTATTCAATGGTCGAAACCA
* **
11829519 TCCCTTTTCATTAATT-GATGGTCGTCACCA
1 TCCCTTTTCATT-ATTCAATGGTCGAAACCA
11829549 TCCCTTTTCAT
1 TCCCTTTTCAT
11829560 AGCTGATGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 10 0.28
30 23 0.64
31 3 0.08
ACGTcount: A:0.21, C:0.29, G:0.10, T:0.40
Consensus pattern (30 bp):
TCCCTTTTCATTATTCAATGGTCGAAACCA
Found at i:11829667 original size:29 final size:29
Alignment explanation
Indices: 11829490--11829710 Score: 127
Period size: 29 Copynumber: 7.6 Consensus size: 29
11829480 GTTGTAATTG
* *
11829490 TCCCTTTTCATATTCAATGGTCGA-AACCA
1 TCCCTTTTCATATTCGATGGTC-ATCACCA
*
11829519 TCCCTTTTCATTAATT-GATGGTCGTCACCA
1 TCCCTTTTCA-T-ATTCGATGGTCATCACCA
* ** *
11829549 TCCCTTTTCATA-GCTGATGGTCATTTCTA
1 TCCCTTTTCATATTC-GATGGTCATCACCA
* * * * * *
11829578 TCCCTTTTTACAATCGATAG-C-TGAAGCTA
1 TCCCTTTTCATATTCGATGGTCAT-CA-CCA
* * * *
11829607 TCCCTTTTCACATTCGATAGCCGA--AGCTA
1 TCCCTTTTCATATTCGATGGTC-ATCA-CCA
11829636 TCCCTTTTCATATTCGATGGTCATCACCA
1 TCCCTTTTCATATTCGATGGTCATCACCA
*
11829665 TCCCTTTTCATAGTT-GATGGTCGTCACCA
1 TCCCTTTTCATA-TTCGATGGTCATCACCA
*
11829694 T-CCTTTTCATAATCGAT
1 TCCCTTTTCATATTCGAT
11829711 AGCCAAAGCA
Statistics
Matches: 155, Mismatches: 22, Indels: 31
0.75 0.11 0.15
Matches are distributed among these distances:
27 2 0.01
28 16 0.10
29 108 0.70
30 26 0.17
31 3 0.02
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (29 bp):
TCCCTTTTCATATTCGATGGTCATCACCA
Found at i:11832843 original size:40 final size:40
Alignment explanation
Indices: 11832788--11832869 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
11832778 CAAGCAAACA
11832788 TATTCATGGAAAAACCTAATCCTTTAATAGTTTTGAAAAT
1 TATTCATGGAAAAACCTAATCCTTTAATAGTTTTGAAAAT
11832828 TATTCATGGAAAAACCTAATCCTTTAATAGTTTTGAAAAT
1 TATTCATGGAAAAACCTAATCCTTTAATAGTTTTGAAAAT
11832868 TA
1 TA
11832870 GTCCCTAGGC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (40 bp):
TATTCATGGAAAAACCTAATCCTTTAATAGTTTTGAAAAT
Found at i:11835215 original size:44 final size:42
Alignment explanation
Indices: 11835152--11835307 Score: 165
Period size: 44 Copynumber: 3.6 Consensus size: 42
11835142 TATGTGTTTT
11835152 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TT-TGATTTA
*
11835196 CGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTT-
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTTGATTTA
*** * * *
11835238 CGTGTAAGACCTTATCTAGGATAG-TGGCATCAATATTTGA-TTA
1 CGTGTAAGACCACGTCTGGGA-CGTTGGCATC--GATTTGATTTA
*
11835281 CATGTAAGACCACGTCTGGGACGTTGG
1 CGTGTAAGACCACGTCTGGGACGTTGG
11835308 AATTGTACGA
Statistics
Matches: 92, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
42 27 0.29
43 31 0.34
44 33 0.36
45 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGATTTA
Found at i:11835266 original size:42 final size:42
Alignment explanation
Indices: 11835149--11835302 Score: 132
Period size: 43 Copynumber: 3.6 Consensus size: 42
11835139 CGATATGTGT
* *
11835149 TTTCGTGTAAGACCACGTCTGGGAC-GTTGGCATCG-ACTTATGA
1 TTTCGTGTAAGACCACATCTAGGACAG-TGGCATCGTA-TT-TGA
* * *
11835192 TTTACGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGA
1 TTT-CGTGTAAGACCACATCTAGGACAGTGGCATCGTATTTGA
** * *
11835235 TTTCGTGTAAGACCTTATCTAGGATAGTGGCATCAATATTTGA
1 TTTCGTGTAAGACCACATCTAGGACAGTGGCATC-GTATTTGA
* * * *
11835278 TTACATGTAAGACCACGTCTGGGAC
1 TTTCGTGTAAGACCACATCTAGGAC
11835303 GTTGGAATTG
Statistics
Matches: 92, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
42 25 0.27
43 34 0.37
44 32 0.35
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (42 bp):
TTTCGTGTAAGACCACATCTAGGACAGTGGCATCGTATTTGA
Found at i:11837331 original size:40 final size:40
Alignment explanation
Indices: 11837287--11837509 Score: 228
Period size: 40 Copynumber: 5.7 Consensus size: 40
11837277 GCTACTCGTT
* *
11837287 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACATAGCCCGGATT-TAGTAACTCGCA
* *
11837327 CAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCGCA
* *
11837367 CAAATGCCTTC--GATCTTAG-TCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CATAGCCCGGATTTAGTAACTCGCA
* *
11837405 C-AATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CATAGCCCGGATTTAGTAACTCGCA
* * * *
11837444 CAATTGCCTTC-GGATCTTAGTCCGGATTTAGTAACTTAGCA
1 CAAATGCCTTCGGGA-CATAGCCCGGATTTAGTAAC-TCGCA
*
11837485 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAGCCCGGA
11837510 CATCATTCGA
Statistics
Matches: 165, Mismatches: 11, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
37 9 0.05
38 29 0.18
39 23 0.14
40 92 0.56
41 12 0.07
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCGCA
Found at i:11837433 original size:77 final size:79
Alignment explanation
Indices: 11837315--11837509 Score: 281
Period size: 77 Copynumber: 2.5 Consensus size: 79
11837305 AGCCCGGTTA
*
11837315 TAGTAGCTCGCACAAATGCCTTCGGGACTTA-TCCCGGATTTAGTAACTCGCACAAATGCCTTC-
1 TAGTAACTCGCAC-AATGCCTTCGGGACTTAGT-CCGGATTTAGTAACTCGCACAAATGCCTTCG
11837378 GATCTTAGT-CGGATT
64 GATCTTAGTCCGGATT
*
11837393 TAGTAACTCGCACAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACAATTGCCTTCGG
1 TAGTAACTCGCACAATGCCTTCGGGA-CTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGG
11837457 ATCTTAGTCCGGATT
65 ATCTTAGTCCGGATT
* * *
11837472 TAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 TAGTAAC-TCGCACAATGCCTTCGGGACTTAGTCCGGA
11837510 CATCATTCGA
Statistics
Matches: 106, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
76 3 0.03
77 42 0.40
78 22 0.21
79 13 0.12
80 23 0.22
81 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.29
Consensus pattern (79 bp):
TAGTAACTCGCACAATGCCTTCGGGACTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGA
TCTTAGTCCGGATT
Found at i:11845394 original size:40 final size:40
Alignment explanation
Indices: 11845350--11845575 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
11845340 GCTACTCGTT
* * *
11845350 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
11845390 CAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
11845430 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* **
11845470 CAATTGCCTTC-GGATCTTAGTTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * *
11845510 CAATTGCCTTC-GGATCTTAGTCCGGATTTAGTAACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
11845551 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
11845576 CATCATTCGA
Statistics
Matches: 170, Mismatches: 12, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
39 3 0.02
40 155 0.91
41 12 0.07
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:11854463 original size:27 final size:28
Alignment explanation
Indices: 11854433--11854532 Score: 109
Period size: 27 Copynumber: 3.7 Consensus size: 28
11854423 TTTAGTTTAC
11854433 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
11854460 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
11854487 TAAATTTACCGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
11854514 TAAAATTACC-AAAGTACCC
1 TAAAATTACCGAAA-TACCC
11854533 CCGATTTACA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.11
27 52 0.85
28 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTAGATTTG
Found at i:11854532 original size:54 final size:54
Alignment explanation
Indices: 11854433--11854539 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
11854423 TTTAGTTTAC
* * *
11854433 TAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* * *
11854487 TAAATTTACCGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTT
11854540 ACAGAATTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 8 0.18
54 37 0.82
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:11854550 original size:54 final size:53
Alignment explanation
Indices: 11854435--11854551 Score: 121
Period size: 54 Copynumber: 2.2 Consensus size: 53
11854425 TAGTTTACTA
* * * **
11854435 AAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTGT
1 AAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTAC
* *
11854488 AAATTTACCGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTTAC
1 AAA-TTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTTAC
11854542 AGAATTACCG
1 A-AATTACCG
11854552 TTTTACCCCT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
53 11 0.21
54 40 0.75
55 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (53 bp):
AAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTAC
Found at i:11854558 original size:27 final size:27
Alignment explanation
Indices: 11854528--11854737 Score: 248
Period size: 27 Copynumber: 7.8 Consensus size: 27
11854518 ATTACCAAAG
*
11854528 TACCCCCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
11854555 TACCC-CTAATTTACATAATTACCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* *
11854582 TACCC-CTGATTTACATG-ATTATCATTT
1 TACCCTC-GATTTACA-GAATTACCGTTT
*
11854609 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
11854636 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * **
11854663 TACCCTCAATTTATAGAATTAATGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
11854690 TACCCTTGATTTACA-AATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
11854716 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
11854738 TAAAATACCC
Statistics
Matches: 159, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
26 26 0.16
27 132 0.83
28 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:11854746 original size:27 final size:27
Alignment explanation
Indices: 11854690--11854937 Score: 146
Period size: 27 Copynumber: 9.1 Consensus size: 27
11854680 ATTAATGTTT
*****
11854690 TACCCTTGATTTAC-AAATTACTGTTT
1 TACCCTTGATTTACAAAATTACCAAAA
* *
11854716 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* **
11854743 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
**
11854770 TACCCTT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTACAAAATTACCAAAA
* *** *
11854797 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGATTTACAAAATTACCAAAA
** ** *
11854824 TACCCTCAATTTGTAAAATAACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* *
11854851 TACCCCTGATTTACAAAGTTA-CAGAAA
1 TACCCTTGATTTACAAAATTACCA-AAA
*
11854878 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACCA-AAA
* * **
11854907 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACCAAAA
11854934 TACC
1 TACC
11854938 TTTGGTTTGT
Statistics
Matches: 180, Mismatches: 33, Indels: 17
0.78 0.14 0.07
Matches are distributed among these distances:
26 15 0.08
27 139 0.77
28 7 0.04
29 19 0.11
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACCAAAA
Found at i:11854747 original size:53 final size:54
Alignment explanation
Indices: 11854636--11854750 Score: 133
Period size: 53 Copynumber: 2.1 Consensus size: 54
11854626 ATTACCGTTT
* * * ****
11854636 TACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAGAATTAATGTTT
1 TACCCTTGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTAATAAAA
* * *
11854690 TACCCTTGATTTACA-AATTACTGTTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTAATAAAA
11854743 TACCCTTG
1 TACCCTTG
11854751 GTTTGTAAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
53 37 0.73
54 14 0.27
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (54 bp):
TACCCTTGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTAATAAAA
Found at i:11854788 original size:54 final size:54
Alignment explanation
Indices: 11854730--11854968 Score: 203
Period size: 54 Copynumber: 4.4 Consensus size: 54
11854720 CTCGATTTAC
* **
11854730 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTTAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTAGTTTGT
*** * * *
11854784 AAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTAGTTTGT
* * * * * *
11854838 AAAATAACCAAAATACCCCTGATTTACAAAGTTA-CAGAAATACCCTTGACTTTCT
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCA-AAATACCCTT-AGTTTGT
* * ** * *
11854893 AAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCTTTGGTTTGT
1 -AAAATTACCA-AAATACCCTTGGTTTACAAAATTACCAAAATACCCTTAGTTTGT
** * *
11854948 TGATTTACCAAAACACCCTTG
1 AAAATTACCAAAATACCCTTG
11854969 TAGGATGAAA
Statistics
Matches: 145, Mismatches: 34, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
53 1 0.01
54 98 0.68
55 11 0.08
56 35 0.24
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTAGTTTGT
Found at i:11854942 original size:27 final size:27
Alignment explanation
Indices: 11854729--11854946 Score: 163
Period size: 27 Copynumber: 8.0 Consensus size: 27
11854719 CCTCGATTTA
*
11854729 CAAAATTACTAAAATACCCTTGGTTTG
1 CAAAATTACCAAAATACCCTTGGTTTG
* *
11854756 TAAAATTACCAAAATACCCTTAGTTTG
1 CAAAATTACCAAAATACCCTTGGTTTG
*
11854783 TAAAATTACCAAAATACCCTTGGTTTG
1 CAAAATTACCAAAATACCCTTGGTTTG
** * ***
11854810 TGAAATTACCGAAATACCCTCAATTTG
1 CAAAATTACCAAAATACCCTTGGTTTG
* * * * *
11854837 TAAAATAACCAAAATACCCCTGATTTA
1 CAAAATTACCAAAATACCCTTGGTTTG
* *
11854864 CAAAGTTA-CAGAAATACCCTTGACTTT-
1 CAAAATTACCA-AAATACCCTTG-GTTTG
* * *
11854891 CTAAAAATTA-TAGAAATACCATTGGTTTA
1 C--AAAATTACCA-AAATACCCTTGGTTTG
** *
11854920 CAAAATTACTGAAATACCTTTGGTTTG
1 CAAAATTACCAAAATACCCTTGGTTTG
11854947 TTGATTTACC
Statistics
Matches: 157, Mismatches: 28, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
26 2 0.01
27 129 0.82
28 7 0.04
29 19 0.12
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
CAAAATTACCAAAATACCCTTGGTTTG
Found at i:11855063 original size:27 final size:27
Alignment explanation
Indices: 11854999--11855063 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
11854989 ACCCCTAAAA
*
11854999 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
11855026 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
11855053 GGTAAAATGAC
1 GGTAAAATGAC
11855064 GAATATGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:11856235 original size:25 final size:24
Alignment explanation
Indices: 11856202--11856249 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
11856192 TTATAACATG
* * *
11856202 AAAATGACCGTTTTGCCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
11856226 AAAAGTGACCATTATACCCCTAGG
1 AAAA-TGACCATTATACCCCTAGG
11856250 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGGT
Found at i:11856300 original size:9 final size:9
Alignment explanation
Indices: 11856288--11856344 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
11856278 TTTGATAAAC
11856288 ATGATATGT
1 ATGATATGT
*
11856297 ATGATATGCAC
1 ATGATATG--T
*
11856308 ATGACATGT
1 ATGATATGT
*
11856317 ATGATATGCAC
1 ATGATATG--T
11856328 ATGATATGT
1 ATGATATGT
11856337 ATGATATG
1 ATGATATG
11856345 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:11856311 original size:20 final size:20
Alignment explanation
Indices: 11856286--11856356 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
11856276 ATTTTGATAA
11856286 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
11856306 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
11856326 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
11856346 ACATGAGATGT
1 ACATGATATGT
11856357 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:11856333 original size:11 final size:11
Alignment explanation
Indices: 11856297--11856351 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
11856287 CATGATATGT
11856297 ATGATATGCAC
1 ATGATATGCAC
* *
11856308 ATGACATG--T
1 ATGATATGCAC
11856317 ATGATATGCAC
1 ATGATATGCAC
*
11856328 ATGATATG--T
1 ATGATATGCAC
11856337 ATGATATGCAC
1 ATGATATGCAC
11856348 ATGA
1 ATGA
11856352 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:11856481 original size:24 final size:23
Alignment explanation
Indices: 11856402--11856612 Score: 293
Period size: 23 Copynumber: 9.0 Consensus size: 23
11856392 GAGGAAGTGC
11856402 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
11856425 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
11856448 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
11856471 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
11856495 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* *
11856519 TAAAGGGCTTATG-CCCAGTGAT
1 AAAAGGGCTTATGCCCCAGTTAT
11856541 CAAAAGGGCTTATGCCCCAGTTA-
1 -AAAAGGGCTTATGCCCCAGTTAT
*
11856564 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
11856588 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
11856612 A
1 A
11856613 TGATAAAGCA
Statistics
Matches: 172, Mismatches: 9, Indels: 13
0.89 0.05 0.07
Matches are distributed among these distances:
22 29 0.17
23 69 0.40
24 64 0.37
25 10 0.06
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:11859739 original size:26 final size:27
Alignment explanation
Indices: 11859664--11859761 Score: 112
Period size: 27 Copynumber: 3.7 Consensus size: 27
11859654 TTTAGTTTAC
*
11859664 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATA-CCTTCGATTTG
* * *
11859691 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCTTCGATTTG
*
11859718 T-AAATTACCGAAATACCTTCGACTTG
1 TAAAATTACCGAAATACCTTCGATTTG
11859744 TAAAATTACC-AAAGTACC
1 TAAAATTACCGAAA-TACC
11859762 CCGATTTACA
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
26 29 0.48
27 31 0.52
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
TAAAATTACCGAAATACCTTCGATTTG
Found at i:11859762 original size:53 final size:52
Alignment explanation
Indices: 11859666--11859768 Score: 129
Period size: 53 Copynumber: 2.0 Consensus size: 52
11859656 TAGTTTACTA
* *
11859666 AAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTGT
1 AAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCC-CGATTTGT
* *
11859719 AAATTACCGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCGATTT
1 AAATTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCGATTT
11859769 ACAGAATTAC
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
52 14 0.32
53 30 0.68
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (52 bp):
AAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCGATTTGT
Found at i:11859777 original size:53 final size:53
Alignment explanation
Indices: 11859666--11859780 Score: 128
Period size: 53 Copynumber: 2.2 Consensus size: 53
11859656 TAGTTTACTA
* * **
11859666 AAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTGT
1 AAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCTCGATTTAC
* *
11859719 AAATTACCGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCC-CGATTTAC
1 AAATTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCTCGATTTAC
11859771 AGAATTACCG
1 A-AATTACCG
11859781 TTTTACCCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
52 15 0.28
53 38 0.72
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (53 bp):
AAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCTCGATTTAC
Found at i:11859861 original size:27 final size:27
Alignment explanation
Indices: 11859758--11859964 Score: 296
Period size: 27 Copynumber: 7.8 Consensus size: 27
11859748 ATTACCAAAG
11859758 TACCC-CGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
11859784 TACCC-CTATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
11859810 TACCCT-GATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
11859836 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
11859863 TACCCTCGATTTACAGAATTA-CGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
11859889 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
11859916 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
11859943 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
11859965 TAAAATACCC
Statistics
Matches: 164, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
26 78 0.48
27 86 0.52
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:11859888 original size:53 final size:54
Alignment explanation
Indices: 11859758--11859964 Score: 296
Period size: 53 Copynumber: 3.9 Consensus size: 54
11859748 ATTACCAAAG
* *
11859758 TACCC-CGATTTACAGAATTACCGTTTTACCC-CTATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
* * *
11859810 TACCCT-GATTTACATAATTATCGTTTTACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
* *
11859863 TACCCTCGATTTACAGAATTA-CGTTTTACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
* * *
11859916 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTAC
11859965 TAAAATACCC
Statistics
Matches: 138, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
52 28 0.20
53 73 0.53
54 37 0.27
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
Found at i:11859973 original size:27 final size:27
Alignment explanation
Indices: 11859863--11860162 Score: 121
Period size: 27 Copynumber: 11.1 Consensus size: 27
11859853 ATTACCGTTT
* **
11859863 TACCCTCGATTTACAGAATTACGT--TT
1 TACCCTCGATTTACAAAATTAC-TAAAA
* * ****
11859889 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ****
11859916 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
11859943 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* * ** *
11859970 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* * *
11859997 TACCCTAG-TTT-TAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* * *** **
11860022 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
11860049 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
*
11860076 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
*
11860103 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
11860132 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
11860159 TACC
1 TACC
11860163 TTTGGTTTGT
Statistics
Matches: 229, Mismatches: 32, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
25 22 0.10
26 29 0.13
27 152 0.66
28 7 0.03
29 19 0.08
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.34
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:11859990 original size:54 final size:54
Alignment explanation
Indices: 11859943--11860162 Score: 212
Period size: 54 Copynumber: 4.1 Consensus size: 54
11859933 ATTACTGTTT
* * *
11859943 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAA
* *
11859997 TACCCTAG-TTT-TAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAA
* * * * ** * *
11860049 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTACAGAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAA
* * * * ** *
11860103 TACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGA-TTTAT-AAAATTACCA-AAATACCCTTGGTTTGTAAAATTACCGAAA
11860159 TACC
1 TACC
11860163 TTTGGTTTGT
Statistics
Matches: 138, Mismatches: 23, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
52 43 0.31
53 6 0.04
54 48 0.35
55 5 0.04
56 36 0.26
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAA
Found at i:11860029 original size:52 final size:54
Alignment explanation
Indices: 11859943--11860080 Score: 199
Period size: 52 Copynumber: 2.6 Consensus size: 54
11859933 ATTACTGTTT
* ** *
11859943 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * *
11859997 TACCCT-AGTTT-TAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
11860049 TACCCTCAATTTGTAAAATTACCAAAATACCC
1 TACCCTCAATTTGTAAAATTACCAAAATACCC
11860081 CTGATTTACA
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
52 43 0.57
53 7 0.09
54 25 0.33
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
Found at i:11860042 original size:79 final size:81
Alignment explanation
Indices: 11859958--11860110 Score: 206
Period size: 79 Copynumber: 1.9 Consensus size: 81
11859948 TCGATTTACA
* *** *
11859958 AAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATA-CCCTAGTTTTA-AAA-TTACCA-
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTTACAAAGTTA-CAG
11860019 AAATACCCTTGGTTTGTG
64 AAATACCCTTGGTTTGTG
*
11860037 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTACAGAA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTACAGAA
11860102 ATACCCTTG
66 ATACCCTTG
11860111 ACTTTCTAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 41 0.64
80 9 0.14
81 14 0.22
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTACAGAA
ATACCCTTGGTTTGTG
Found at i:11860167 original size:27 final size:27
Alignment explanation
Indices: 11859943--11860170 Score: 151
Period size: 27 Copynumber: 8.4 Consensus size: 27
11859933 ATTACTGTTT
* * *
11859943 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
**
11859970 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* *
11859997 TACCC-TAGTTT-TAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*** *
11860022 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*** **
11860049 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* * *
11860076 TACCCCTGATTTACAAAGTTA-CAGAAA
1 TACCCTTGGTTTACAAAATTACCA-AAA
* *
11860103 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAC--AAAATTACCA-AAA
* **
11860132 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*
11860159 TACCTTTGGTTT
1 TACCCTTGGTTT
11860171 GTTGATTTAC
Statistics
Matches: 165, Mismatches: 28, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
25 19 0.12
26 12 0.07
27 108 0.65
28 7 0.04
29 19 0.12
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACCAAAA
Found at i:11860288 original size:27 final size:27
Alignment explanation
Indices: 11860224--11860288 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
11860214 ACCCCTAAAA
*
11860224 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
11860251 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
11860278 GGTAAAATGAC
1 GGTAAAATGAC
11860289 GAATATGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:11861457 original size:24 final size:24
Alignment explanation
Indices: 11861425--11861471 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
11861415 TTATAACATG
* * *
11861425 AAAATGACCGTTTTGCCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
11861449 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
11861472 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGGT
Found at i:11861522 original size:9 final size:9
Alignment explanation
Indices: 11861510--11861566 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
11861500 TTTGATAAAC
11861510 ATGATATGT
1 ATGATATGT
*
11861519 ATGATATGCAC
1 ATGATATG--T
*
11861530 ATGACATGT
1 ATGATATGT
*
11861539 ATGATATGCAC
1 ATGATATG--T
11861550 ATGATATGT
1 ATGATATGT
11861559 ATGATATG
1 ATGATATG
11861567 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:11861533 original size:20 final size:20
Alignment explanation
Indices: 11861508--11861578 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
11861498 ATTTTGATAA
11861508 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
11861528 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
11861548 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
11861568 ACATGAGATGT
1 ACATGATATGT
11861579 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:11861555 original size:11 final size:11
Alignment explanation
Indices: 11861519--11861573 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
11861509 CATGATATGT
11861519 ATGATATGCAC
1 ATGATATGCAC
* *
11861530 ATGACATG--T
1 ATGATATGCAC
11861539 ATGATATGCAC
1 ATGATATGCAC
*
11861550 ATGATATG--T
1 ATGATATGCAC
11861559 ATGATATGCAC
1 ATGATATGCAC
11861570 ATGA
1 ATGA
11861574 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:11861680 original size:24 final size:24
Alignment explanation
Indices: 11861623--11861812 Score: 246
Period size: 24 Copynumber: 8.0 Consensus size: 24
11861613 GGAGGAAGTG
11861623 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
11861647 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
11861670 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
11861694 TAAAAGGGCTTATG-CCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* * *
11861717 -TAAAGGGCTTATGCCCTAGTGAT
1 CAAAAGGGCTTATGCCCCAGTTAT
11861740 CAAAAGGGCTTATGCCCCAGTTA-
1 CAAAAGGGCTTATGCCCCAGTTAT
*
11861763 CAAAAAGGGCTTTTGCCCCAGTTAT
1 C-AAAAGGGCTTATGCCCCAGTTAT
* *
11861788 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
11861813 ATGATAAAGC
Statistics
Matches: 146, Mismatches: 13, Indels: 13
0.85 0.08 0.08
Matches are distributed among these distances:
22 12 0.08
23 39 0.27
24 84 0.58
25 11 0.08
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:11861742 original size:70 final size:71
Alignment explanation
Indices: 11861624--11861791 Score: 284
Period size: 70 Copynumber: 2.4 Consensus size: 71
11861614 GAGGAAGTGC
*
11861624 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTATGCCCCA
**
11861689 GTTATT
66 GTTACA
*
11861695 AAAAGGGCTTATG-CCCAGTTATTAAAGGGCTTATGCCCTAGTGATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTATGCCCCA
11861759 GTTACA
66 GTTACA
*
11861765 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
11861792 AGAGGCTAGG
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
70 65 0.71
71 26 0.29
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTATGCCCCA
GTTACA
Found at i:11862039 original size:31 final size:31
Alignment explanation
Indices: 11862004--11862069 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
11861994 ACCGTTTATA
*
11862004 GAAAAGGCTTCGGCCCAGTAATATGAAATTT
1 GAAAAGGCTTCGGCCCAGTAATATGAAATAT
**
11862035 GAAAAGGCTTCGGCCCAGTGTTATGAAATAT
1 GAAAAGGCTTCGGCCCAGTAATATGAAATAT
11862066 GAAA
1 GAAA
11862070 TATGAAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.24
Consensus pattern (31 bp):
GAAAAGGCTTCGGCCCAGTAATATGAAATAT
Found at i:11862068 original size:7 final size:7
Alignment explanation
Indices: 11862056--11862083 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
11862046 GGCCCAGTGT
11862056 TATGAAA
1 TATGAAA
11862063 TATGAAA
1 TATGAAA
11862070 TATGAAA
1 TATGAAA
11862077 TATGAAA
1 TATGAAA
11862084 AGGGCTATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (7 bp):
TATGAAA
Found at i:11862489 original size:57 final size:57
Alignment explanation
Indices: 11862401--11862513 Score: 226
Period size: 57 Copynumber: 2.0 Consensus size: 57
11862391 TTTTAATAAC
11862401 TTCAAACCTGGTTGATAATTGTTCAAATGGGCTAGACTTAAGACGTGTTTTCAAAGG
1 TTCAAACCTGGTTGATAATTGTTCAAATGGGCTAGACTTAAGACGTGTTTTCAAAGG
11862458 TTCAAACCTGGTTGATAATTGTTCAAATGGGCTAGACTTAAGACGTGTTTTCAAAG
1 TTCAAACCTGGTTGATAATTGTTCAAATGGGCTAGACTTAAGACGTGTTTTCAAAG
11862514 CGATACTTGT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (57 bp):
TTCAAACCTGGTTGATAATTGTTCAAATGGGCTAGACTTAAGACGTGTTTTCAAAGG
Found at i:11864268 original size:6 final size:6
Alignment explanation
Indices: 11864253--11864433 Score: 133
Period size: 6 Copynumber: 29.8 Consensus size: 6
11864243 AACCAAAATG
* *
11864253 AGAATT AGAATC AGAATC AGTAA-C AGAATC AGAATC A-ATATT AGTAA-C
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGA-ATC AG-AATC
* * *
11864301 AGAATC AGAATC AGAATC AGACTT AG-GTGAC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * *
11864350 AGTAA-C AGAATT AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
* * *
11864398 AGAATC AAAATT AG-GTGAC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAAT
11864434 GTGAATGCAA
Statistics
Matches: 139, Mismatches: 20, Indels: 32
0.73 0.10 0.17
Matches are distributed among these distances:
5 11 0.08
6 115 0.83
7 10 0.07
8 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:11864280 original size:24 final size:24
Alignment explanation
Indices: 11864253--11864399 Score: 154
Period size: 24 Copynumber: 5.8 Consensus size: 24
11864243 AACCAAAATG
*
11864253 AGAATTAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
*
11864277 AGAATCAGAATCA-ATATTAGTAAC
1 AGAATCAGAATCAGA-ATCAGTAAC
11864301 AGAATCAGAATCAGAATCAGACTTAGGTGAC
1 AGAATCAGAATCAGAATCAG---TA----AC
11864332 AGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
* **
11864356 AGAATTAGAATCAGAATCAGTATT
1 AGAATCAGAATCAGAATCAGTAAC
11864380 AGTAA-CAGAATCAGAATCAG
1 AG-AATCAGAATCAGAATCAG
11864400 AATCAAAATT
Statistics
Matches: 106, Mismatches: 7, Indels: 20
0.80 0.05 0.15
Matches are distributed among these distances:
23 1 0.01
24 76 0.72
25 3 0.03
27 2 0.02
28 2 0.02
31 22 0.21
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.21
Consensus pattern (24 bp):
AGAATCAGAATCAGAATCAGTAAC
Found at i:11864346 original size:79 final size:80
Alignment explanation
Indices: 11864253--11864433 Score: 274
Period size: 85 Copynumber: 2.2 Consensus size: 80
11864243 AACCAAAATG
*
11864253 AGAATTAGAATCAGAATCAGTAAC-AGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAA
1 AGAATCAGAATCAGAATCAGTAACAAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAA
* *
11864317 TCAGACTTAGGTGAC
66 TCAAAATTAGGTGAC
*
11864332 AGAATCAGAATCAGAATCAGTAACAGAATTAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAAC---A--AGAATCAGAATCAATATTAGTAACAGAATCAGAAT
11864397 CAGAATCAAAATTAGGTGAC
61 CAGAATCAAAATTAGGTGAC
11864417 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
11864434 GTGAATGCAA
Statistics
Matches: 92, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
79 23 0.25
85 69 0.75
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (80 bp):
AGAATCAGAATCAGAATCAGTAACAAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAA
TCAAAATTAGGTGAC
Found at i:11864384 original size:85 final size:85
Alignment explanation
Indices: 11864277--11864433 Score: 287
Period size: 85 Copynumber: 1.8 Consensus size: 85
11864267 AATCAGTAAC
* *
11864277 AGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAGACTTAGGTGACAGAATCAGAA
1 AGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAAAATTAGGTGACAGAATCAGAA
11864342 TCAGAATCAGTAACAGAATT
66 TCAGAATCAGTAACAGAATT
*
11864362 AGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCAAAATTAGGTGACAGAATCAGAA
1 AGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAAAATTAGGTGACAGAATCAGAA
11864427 TCAGAAT
66 TCAGAAT
11864434 GTGAATGCAA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 69 1.00
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (85 bp):
AGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAAAATTAGGTGACAGAATCAGAA
TCAGAATCAGTAACAGAATT
Found at i:11864588 original size:27 final size:26
Alignment explanation
Indices: 11864551--11864616 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
11864541 AGCATGGCTG
* *
11864551 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCATGACAGAGCCA
* *
11864577 CCAGATACAGATATTATGGCAGAGCCA
1 CCAGA-ACAGATATCATGACAGAGCCA
11864604 CCAGAATCAGATA
1 CCAGAA-CAGATA
11864617 ATGTGGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCATGACAGAGCCA
Found at i:11864623 original size:27 final size:27
Alignment explanation
Indices: 11864551--11864624 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
11864541 AGCATGGCTG
* *
11864551 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
* *
11864577 CCAG-ATACAGATATTATGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
11864604 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
11864625 AACCCACCTA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.11
27 30 0.79
28 3 0.08
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:11864631 original size:27 final size:27
Alignment explanation
Indices: 11864575--11864632 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
11864565 GTGACAGAGT
* * *
11864575 CACCAGATACAGATATTATGGCAGAGC
1 CACCAGATACAGATAATATGGCAAACC
*
11864602 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATATGGCAAACC
11864629 CACC
1 CACC
11864633 TAACAGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.38, C:0.28, G:0.19, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATATGGCAAACC
Found at i:11864810 original size:22 final size:22
Alignment explanation
Indices: 11864762--11864820 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
11864752 ACAAATACGT
*
11864762 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
11864784 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
11864806 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
11864821 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:11864990 original size:27 final size:26
Alignment explanation
Indices: 11864908--11864977 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
11864898 TCGATCGGTC
* * *
11864908 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
11864934 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
11864961 AACAGATATTTGTGGCA
1 AACAGATA-TTGTGGCA
11864978 TAGCTGCCAG
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 8 0.21
27 31 0.79
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:11865219 original size:27 final size:27
Alignment explanation
Indices: 11865189--11865411 Score: 320
Period size: 27 Copynumber: 8.3 Consensus size: 27
11865179 GGGGCAAAAT
* * *
11865189 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
11865216 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
11865243 GGTATTTCTACCCTACAAGAGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
11865270 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
11865297 GGTAATTCTACCCTACAAGGGTATTGC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
11865324 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
11865351 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
11865378 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
11865405 GGTAATT
1 GGTAATT
11865412 TTGTAAATCG
Statistics
Matches: 176, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 176 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:11865255 original size:54 final size:54
Alignment explanation
Indices: 11865189--11865411 Score: 356
Period size: 54 Copynumber: 4.1 Consensus size: 54
11865179 GGGGCAAAAT
* * * * *
11865189 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
* *
11865243 GGTATTTCTACCCTACAAGAGTATTTCGATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
*
11865297 GGTAATTCTACCCTACAAGGGTATTGCGATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
* *
11865351 GGTAATTCTACCTTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
11865405 GGTAATT
1 GGTAATT
11865412 TTGTAAATCG
Statistics
Matches: 156, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 156 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.34
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
Found at i:11865426 original size:27 final size:27
Alignment explanation
Indices: 11865396--11865708 Score: 272
Period size: 27 Copynumber: 11.6 Consensus size: 27
11865386 TACCCTACAG
* ** *
11865396 GGGTATTTCGGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCAA
*** * *
11865423 GGGTAAAATGGTAATTCTATAAATCAA
1 GGGTATTTTGGTAATTTTACAAATCAA
* * *
11865450 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAATCAA
*** ** *
11865477 GGGTATTTCAATAATTTTACAGGTCGA
1 GGGTATTTTGGTAATTTTACAAATCAA
** * *
11865504 GGGTATTTCAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAATCAA
*
11865531 GGGTATTTTGGTAATTTTACAAA-CTAG
1 GGGTATTTTGGTAATTTTACAAATC-AA
* *
11865558 GGGTATTTTGATAA-TTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCAA
* *
11865584 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCAA
* * *
11865611 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATCAA
* * *
11865638 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCAA
* *
11865665 GGGTATTTTAGTAATTTTACAAA-CTAG
1 GGGTATTTTGGTAATTTTACAAATC-AA
11865692 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
11865709 GGTAAACTAA
Statistics
Matches: 238, Mismatches: 44, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
26 24 0.10
27 214 0.90
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCAA
Found at i:11865642 original size:134 final size:134
Alignment explanation
Indices: 11865447--11865708 Score: 337
Period size: 134 Copynumber: 2.0 Consensus size: 134
11865437 TTCTATAAAT
** * ***
11865447 CAAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTT
1 CAAGGGTACTTTGGTAATTTTACAAACCAAGGGTATTTCAATAATTTTACAAACCGAGGGTATTT
* * *
11865512 CAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTAC
66 CAGTAATTTCACAAACCAAGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGATAATTTAC
11865577 AAAC
131 AAAC
* * * *
11865581 CAAGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACC-AGGGGTATT
1 CAAGGGTACTTTGGTAATTTTACAAACCAAGGGTATTTCAATAATTTTACAAACCGA-GGGTATT
** * * * *
11865645 TTGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTT
65 TCAGTAATTTCACAAACCAAGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGATAATTT
11865709 GGTAAACTAA
Statistics
Matches: 108, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
133 1 0.01
134 107 0.99
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (134 bp):
CAAGGGTACTTTGGTAATTTTACAAACCAAGGGTATTTCAATAATTTTACAAACCGAGGGTATTT
CAGTAATTTCACAAACCAAGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGATAATTTAC
AAAC
Found at i:11865715 original size:54 final size:54
Alignment explanation
Indices: 11865431--11865708 Score: 310
Period size: 54 Copynumber: 5.2 Consensus size: 54
11865421 GAGGGTAAAA
* * * * **
11865431 TGGTAATTCTATAAATCAAGGGTACTTTGGTAATTTTACAAGTC-GAGGGTATTT
1 TGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG-GGGTATTT
*** * *** * * * *
11865485 CAATAATTTTACAGGTCGAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTT
1 TGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
* * * *
11865539 TGGTAATTTTACAAACTAGGGGTATTTT-GATAA-TTTACAAACCAAGGGTATTT
1 TGGTAATTTTATAAACCAAGGGTATTTTAG-TAATTTTACAAACCAGGGGTATTT
11865592 TGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
1 TGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
* *
11865646 TGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAGGGGTATTT
1 TGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
11865700 TGGTAATTT
1 TGGTAATTT
11865709 GGTAAACTAA
Statistics
Matches: 187, Mismatches: 33, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
53 46 0.25
54 140 0.75
55 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (54 bp):
TGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
Found at i:11868452 original size:45 final size:45
Alignment explanation
Indices: 11868300--11868470 Score: 133
Period size: 45 Copynumber: 3.9 Consensus size: 45
11868290 ATCTCGTATT
* * *
11868300 GATGCC-ACTGTCCCAAACAGGGTCTTACACG-AATCA-A-ATA-C
1 GATGCCAAC-GTCCCAGACATGGTCTTACACGAAAACACATATATC
* * * * * * *
11868341 GATGTCGATGTCCTAGACATGGTCTTACTCGTAACCACATAT-T-
1 GATGCCAACGTCCCAGACATGGTCTTACACGAAAACACATATATC
* * ** *
11868384 AAAGCCAACACCCCAGACGTGGTCTTACACGAAAACACATATATC
1 GATGCCAACGTCCCAGACATGGTCTTACACGAAAACACATATATC
11868429 GATGCCAACGTCCCAGACATGGTCTTACAC-AAAGACACATAT
1 GATGCCAACGTCCCAGACATGGTCTTACACGAAA-ACACATAT
11868471 CTGAATCCTA
Statistics
Matches: 98, Mismatches: 24, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
41 23 0.23
42 5 0.05
43 31 0.32
44 6 0.06
45 33 0.34
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (45 bp):
GATGCCAACGTCCCAGACATGGTCTTACACGAAAACACATATATC
Found at i:11876648 original size:43 final size:45
Alignment explanation
Indices: 11876612--11876698 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
11876602 CATATCAAAG
* *
11876612 CCAACGTCCTAGACGTGGTCTTACATGAAAACACATATATAGATA
1 CCAACGTCCCAGACGTGGTCTTACAGGAAAACACATATATAGATA
11876657 CCAACGTCCCAGACGTGGTCTTACAGGAAAACACATAT-TAGA
1 CCAACGTCCCAGACGTGGTCTTACAGGAAAACACATATATAGA
11876699 ATCCTATGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 4 0.10
45 36 0.90
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (45 bp):
CCAACGTCCCAGACGTGGTCTTACAGGAAAACACATATATAGATA
Found at i:11877814 original size:14 final size:15
Alignment explanation
Indices: 11877797--11877825 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11877787 TCACGAAAAT
11877797 TTCACACAT-ATAAA
1 TTCACACATAATAAA
11877811 TTCACACATAATAAA
1 TTCACACATAATAAA
11877826 GACATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:11881677 original size:42 final size:43
Alignment explanation
Indices: 11881630--11881744 Score: 128
Period size: 42 Copynumber: 2.7 Consensus size: 43
11881620 GACGATGGAT
*
11881630 TTTGATTTCGTGTAAGACCACGTCTGGGA-TGATGGCACCG-TA
1 TTTGATTTCGTGTAAGACCACGTCTGGGACAG-TGGCACCGATA
* * **
11881672 TTTGATTTCGTGTAAGACC-CTATCTAGGACAGTGGCATTGATA
1 TTTGATTTCGTGTAAGACCAC-GTCTGGGACAGTGGCACCGATA
* *
11881715 TTTGATTACATGTAAGACCACGTCTGGGAC
1 TTTGATTTCGTGTAAGACCACGTCTGGGAC
11881745 GTTGGCATTA
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.02
42 31 0.52
43 27 0.45
44 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TTTGATTTCGTGTAAGACCACGTCTGGGACAGTGGCACCGATA
Found at i:11881751 original size:43 final size:41
Alignment explanation
Indices: 11881630--11881753 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 41
11881620 GACGATGGAT
* **
11881630 TTTGATTTCGTGTAAGACCACGTCTGGGATGATGGCACCGTA
1 TTTGATTTCGTGTAAGACCACGTCTGGGACG-TGGCATTGTA
* *
11881672 TTTGATTTCGTGTAAGACC-CTATCTAGGACAGTGGCATTGATA
1 TTTGATTTCGTGTAAGACCAC-GTCTGGGAC-GTGGCATTG-TA
* *
11881715 TTTGATTACATGTAAGACCACGTCTGGGACGTTGGCATT
1 TTTGATTTCGTGTAAGACCACGTCTGGGACG-TGGCATT
11881754 ATACGAGCTT
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
41 1 0.01
42 32 0.47
43 34 0.50
44 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (41 bp):
TTTGATTTCGTGTAAGACCACGTCTGGGACGTGGCATTGTA
Found at i:11883934 original size:43 final size:44
Alignment explanation
Indices: 11883813--11883934 Score: 151
Period size: 43 Copynumber: 2.8 Consensus size: 44
11883803 ATCGAGATGT
* *
11883813 GATTACATGTAAGACCATGTCTGGGACATTGGCAT-TGTATTTA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCTGTAATTA
*
11883856 GATTACGTGTAAGACCATGTATGGGACATTGGCATCAT-TAATTA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATC-TGTAATTA
* * * *
11883900 -ATTTCGTGTAAGACCCTGTCTGGGATAATGGCATC
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATC
11883935 GATATGTGAT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
43 63 0.91
44 5 0.07
45 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.33
Consensus pattern (44 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCTGTAATTA
Found at i:11891113 original size:46 final size:45
Alignment explanation
Indices: 11891060--11891235 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
11891050 TATTTGGGCA
11891060 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
11891106 TCCGAACTCGTTCAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
11891153 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
11891199 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11891236 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:11891216 original size:93 final size:93
Alignment explanation
Indices: 11891056--11891227 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
11891046 AGGATATTTG
* *
11891056 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTCAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTCAG
11891121 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
11891149 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTCAG
11891214 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
11891228 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTCAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:11893542 original size:30 final size:30
Alignment explanation
Indices: 11893487--11893617 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
11893477 ATAGTGAATC
*
11893487 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
11893516 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
11893546 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
11893574 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
11893604 CGCACACTTAGTGC
1 CGCACACTTAGTGC
11893618 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:11893597 original size:58 final size:58
Alignment explanation
Indices: 11893486--11893617 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
11893476 TATAGTGAAT
* * * * *
11893486 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
11893545 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
11893603 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
11893618 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:11897480 original size:50 final size:50
Alignment explanation
Indices: 11897405--11897581 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
11897395 CCATGGCAAC
*
11897405 AAGTGATAAGTGATAGTTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
11897455 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGA-CTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATC-AAGGACAAATGA
* *
11897505 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATAA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
11897555 CAAGTGAAAAGTGGTAGCTTTGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
11897582 CTGATCAGTG
Statistics
Matches: 114, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
49 1 0.01
50 89 0.78
51 24 0.21
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:11897595 original size:31 final size:31
Alignment explanation
Indices: 11897557--11897704 Score: 199
Period size: 31 Copynumber: 4.8 Consensus size: 31
11897547 ACAAATAACA
11897557 AGTGAAAAGTGGTAGCTTTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTTGGCTACCTGATC
11897588 AGTGAAAAGTGGTAGCTTCT-GCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-TGGCTACCTGATC
* ** * *
11897619 AGTGAAAAGTGGTGGCTCCGGCTACTTGGTC
1 AGTGAAAAGTGGTAGCTTTGGCTACCTGATC
* *
11897650 AGTGAAAAATGGTAGCTCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTTGGCTACCTGATC
* *
11897681 AGTGAATAGTGGTAGCTTCGGCTA
1 AGTGAAAAGTGGTAGCTTTGGCTA
11897705 AGAGTGACAA
Statistics
Matches: 101, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
31 100 0.99
32 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTTGGCTACCTGATC
Found at i:11897877 original size:42 final size:42
Alignment explanation
Indices: 11897776--11897909 Score: 137
Period size: 42 Copynumber: 3.1 Consensus size: 42
11897766 CTACTGTAAT
* * * *
11897776 AGACCATAACTGGGATATGGCATCAGTGAGATATGTGAT-TCGTGCA
1 AGACCATAACTGGGCTATGGCATC---GATATATG-AATAT-GTGTA
*
11897822 AGACCATAGCTGGGCTATGGCATCGATATATGAATATGTGTA
1 AGACCATAACTGGGCTATGGCATCGATATATGAATATGTGTA
* *
11897864 AGACCATAACTGGGCTATGGCATC-ATTATCTGAAGATGTGTA
1 AGACCATAACTGGGCTATGGCATCGA-TATATGAATATGTGTA
11897906 AGAC
1 AGAC
11897910 TATAGTTGAA
Statistics
Matches: 78, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
41 1 0.01
42 47 0.60
43 8 0.10
46 22 0.28
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (42 bp):
AGACCATAACTGGGCTATGGCATCGATATATGAATATGTGTA
Found at i:11897952 original size:56 final size:56
Alignment explanation
Indices: 11897866--11897978 Score: 217
Period size: 56 Copynumber: 2.0 Consensus size: 56
11897856 TATGTGTAAG
*
11897866 ACCATAACTGGGCTATGGCATCATTATCTGAAGATGTGTAAGACTATAGTTGAACT
1 ACCATAACTGGGCTATGGCATCATTATCTGAAGATGTGTAAGACCATAGTTGAACT
11897922 ACCATAACTGGGCTATGGCATCATTATCTGAAGATGTGTAAGACCATAGTTGAACT
1 ACCATAACTGGGCTATGGCATCATTATCTGAAGATGTGTAAGACCATAGTTGAACT
11897978 A
1 A
11897979 TGGCATCGAG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (56 bp):
ACCATAACTGGGCTATGGCATCATTATCTGAAGATGTGTAAGACCATAGTTGAACT
Found at i:11901236 original size:68 final size:70
Alignment explanation
Indices: 11901164--11901361 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
11901154 ACACCCTGTA
* * * *
11901164 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
11901226 ATAAAT
65 ATAAAT
*
11901232 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
11901297 ATAAAT
65 ATAAAT
*
11901303 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
11901362 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:11901275 original size:41 final size:41
Alignment explanation
Indices: 11901230--11901347 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
11901220 TGAAAGATAA
11901230 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
11901271 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
11901301 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
11901342 ATGTAG
1 ATGTAG
11901348 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:11901287 original size:71 final size:71
Alignment explanation
Indices: 11901198--11901361 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
11901188 GAGATGTATC
11901198 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
11901263 AGGACA
66 AGGACA
11901269 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
11901334 AGGACA
66 AGGACA
11901340 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
11901362 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:11907350 original size:64 final size:64
Alignment explanation
Indices: 11907269--11907452 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
11907259 AGACATTATG
* *
11907269 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
11907333 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
11907398 AA
63 AA
* * * * *
11907400 ACTG--GCTAGGTCACACGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
11907453 CGAACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 21 0.22
65 8 0.08
66 15 0.15
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:11909146 original size:26 final size:26
Alignment explanation
Indices: 11909117--11909176 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
11909107 TCCCTTTGAA
* * *
11909117 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
11909143 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
11909171 CCATTC
1 TCATTC
11909177 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:11909162 original size:28 final size:28
Alignment explanation
Indices: 11909131--11909202 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
11909121 TCGATATTTT
*
11909131 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
11909159 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
11909187 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
11909203 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Done.