Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 302 of 318
Found at i:94703563 original size:19 final size:18
Alignment explanation
Indices: 94703539--94703592 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
94703529 AACATAAAGA
*
94703539 AAATATATATAAAATAGC
1 AAATATATATAAAATAAC
94703557 TAAATATAATATAATAATAAC
1 -AAATAT-ATATAA-AATAAC
94703578 -AATATATA-AAAATAA
1 AAATATATATAAAATAA
94703593 TAGTGATAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
16 5 0.16
17 2 0.06
18 3 0.09
19 11 0.34
20 6 0.19
21 5 0.16
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (18 bp):
AAATATATATAAAATAAC
Found at i:94704257 original size:16 final size:16
Alignment explanation
Indices: 94704236--94704269 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
94704226 TTGGGGTAAG
94704236 TTTTCTTT-TTCTTTTT
1 TTTTCTTTGTT-TTTTT
94704252 TTTTCTTTGTTTTTTT
1 TTTTCTTTGTTTTTTT
94704268 TT
1 TT
94704270 GGGTTAGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (16 bp):
TTTTCTTTGTTTTTTT
Found at i:94704635 original size:127 final size:121
Alignment explanation
Indices: 94704418--94704642 Score: 299
Period size: 127 Copynumber: 1.8 Consensus size: 121
94704408 CTTCTACAAC
* * * *
94704418 TATTATTATTATATATTAGTGTATATTTTTATGTATATACATATATGTATTTATATATAGTATTG
1 TATTATTATTATATAGTAGTGTATATTTTTATATATATACATATATATATTTATATATAGTATTA
*
94704483 TTTTTTATTACTTTAATTTAATATTTTTATTATATTTGCTTTTTGTATTTCTATATT
66 TTGTTTATTACTTTAA-TTAATATTTTTATTATATTTGCTTTTTGTATTTCTATATT
* *
94704540 TATTATTATTATATAGTAGTGTGTATTTCTATTATATACATATATATATATATATTTATATATAG
1 TATTATTATTATATAGTAGTGTATA-TT-T-TTATAT--ATATACATATATATATTTATATATAG
*
94704605 TATTATTGTTTACTTTACTTTAA-TATTATTTTTATTAT
61 TATTATTGTTTA--TTACTTTAATTAATATTTTTATTAT
94704643 CATTATATCC
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
122 23 0.26
123 2 0.02
124 1 0.01
125 5 0.06
127 48 0.55
129 9 0.10
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.60
Consensus pattern (121 bp):
TATTATTATTATATAGTAGTGTATATTTTTATATATATACATATATATATTTATATATAGTATTA
TTGTTTATTACTTTAATTAATATTTTTATTATATTTGCTTTTTGTATTTCTATATT
Found at i:94707056 original size:19 final size:19
Alignment explanation
Indices: 94707034--94707080 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
94707024 CTTCCTTTCT
94707034 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
*
94707053 TTTGCATTACATTGCAACA
1 TTTGCATTACATTCCAACA
94707072 TTTGCATTA
1 TTTGCATTA
94707081 AACTTTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:94709876 original size:6 final size:6
Alignment explanation
Indices: 94709865--94709916 Score: 104
Period size: 6 Copynumber: 8.7 Consensus size: 6
94709855 AGTTATATGA
94709865 CAAAGG CAAAGG CAAAGG CAAAGG CAAAGG CAAAGG CAAAGG CAAAGG
1 CAAAGG CAAAGG CAAAGG CAAAGG CAAAGG CAAAGG CAAAGG CAAAGG
94709913 CAAA
1 CAAA
94709917 AAAAAAAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.52, C:0.17, G:0.31, T:0.00
Consensus pattern (6 bp):
CAAAGG
Found at i:94709954 original size:14 final size:14
Alignment explanation
Indices: 94709916--94709954 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
94709906 GCAAAGGCAA
94709916 AAAAAAAAAAACAC
1 AAAAAAAAAAACAC
*
94709930 AAAAACAAAAACAC
1 AAAAAAAAAAACAC
94709944 AAAAAAAAAAA
1 AAAAAAAAAAA
94709955 AAAAATTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAACAC
Found at i:94711478 original size:43 final size:43
Alignment explanation
Indices: 94711293--94712237 Score: 578
Period size: 43 Copynumber: 21.7 Consensus size: 43
94711283 ATTCACAAGC
* * *
94711293 CTTAAGCCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGAT
* * * *
94711338 CTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGACGAAGGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAA-GAT
* * * * * *
94711382 CTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTGCAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* * *
94711424 CTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* * * **
94711467 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATTATGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* * * *
94711510 CTTTAA-CCCCTAAGCAGTAGGGTAACA-AGCCAA-ATTTATA-AGC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGA-TGA-AGA-T
* *
94711553 CTTAACCCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGAT
* * *
94711598 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAA-GAT
* * * * * * *
94711642 CTTAAACCCCTAATCGGTAGGGTGACAGACCGAA-TTGCAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* * * * *
94711684 CTTATCTCCCTAAGCAGTAGAGAAACAAATCGAAGATGAAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* * * **
94711727 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* * * * *
94711770 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCAA-ATTTACAAAC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGA-TGA-AGAT
* *
94711814 CTTAACCCCCTAAGCAGTAGGGTAACATGCT-GAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACA-GATCGAAGA-TGA-AGAT
* * * * **
94711859 CTTAACCCCCTAAGTAGTAGGGAAACAGATCAAAGATGATGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* ** * *
94711902 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCTGAATTTACAAG-C
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGAT-GAAGAT
* * *
94711946 CTTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGAT
* ** * * **
94711991 CTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* * *
94712034 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAATTTAT-AA-AC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGA-TCGAA--GATGAAGAT
* * * *
94712078 CTTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAAAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGAT
* * * * *
94712123 CTTAACCCCCTAACCAGTAGGGTAACAGGTTGAA-TTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGA-AGAT
* * * * * * **
94712166 CTTAACCCCTTAAGCAATTGGGAAATAGATCGAAGATGATGGGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGA-AGAT
** *
94712210 CTTAAATCCCTAAGTAGTAGGGTAACAG
1 CTTAACCCCCTAAGCAGTAGGGTAACAG
94712238 GCTGGAAATT
Statistics
Matches: 696, Mismatches: 162, Indels: 85
0.74 0.17 0.09
Matches are distributed among these distances:
41 2 0.00
42 68 0.10
43 269 0.39
44 185 0.27
45 167 0.24
46 5 0.01
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
Found at i:94711750 original size:260 final size:261
Alignment explanation
Indices: 94711292--94712150 Score: 1307
Period size: 260 Copynumber: 3.3 Consensus size: 261
94711282 AATTCACAAG
* *
94711292 CCTTAAGCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGTAGTA
1 CCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTA
94711357 GGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCGAATTGCAG
66 GGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCGAATTGCAG
*
94711422 ATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCCCTAAGCAGTAG
131 ATCTTATCTCCCTAAGCAGTAGGGAAACAAATCGAAGATGAAGATCTTAACCCCCTAAGCAGTAG
*
94711487 GGAAACAGATCGAAGATTATGGGCTTTAA-CCCCTAAGCAGTAGGGTAACAAGCCAAATTTATAA
196 GGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTATAA
*
94711551 G
261 A
94711552 CCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTA
1 CCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTA
*
94711617 GGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTGACAGACCGAATTGCAG
66 GGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCGAATTGCAG
*
94711682 ATCTTATCTCCCTAAGCAGTAGAGAAACAAATCGAAGATGAAGATCTTAACCCCCTAAGCAGTAG
131 ATCTTATCTCCCTAAGCAGTAGGGAAACAAATCGAAGATGAAGATCTTAACCCCCTAAGCAGTAG
* *
94711747 GGAAACAGATCGAAGGTGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAA
196 GGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTATAA
94711812 A
261 A
* *
94711813 CCTTAACCCCCTAAGCAGTAGGGTAACATGCTGAAGATTTACAGATCTTAACCCCCTAAGTAGTA
1 CCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTA
* * * * * * * *
94711878 GGGAAACAGATCAAAGATGATGGG-CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCTGAATTTA
66 GGGAAACAGATCGAAGACGAAGGGTC-TTAAACCCCTAATCGGTAGGGTAACAGA-CCGAA-TTG
* * * ** *
94711941 CA-AGCCTTAAAC-CCCTAAGCAGTAGGGTAAC-AGGCTGAAGATTTACAGATCTTAACCCCCTA
128 CAGA-TCTT-ATCTCCCTAAGCAGTAGGGAAACAAATC-GAAGA-TGA-AGATCTTAACCCCCTA
** * *
94712003 AGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGA
188 AGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAA
94712068 ATTTATAAA
253 ATTTATAAA
* * *
94712077 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAACCAGTA
1 CCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTA
*
94712142 GGGTAACAG
66 GGGAAACAG
94712151 GTTGAATTTA
Statistics
Matches: 551, Mismatches: 39, Indels: 14
0.91 0.06 0.02
Matches are distributed among these distances:
260 219 0.40
261 147 0.27
262 29 0.05
263 4 0.01
264 152 0.28
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (261 bp):
CCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTA
GGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCGAATTGCAG
ATCTTATCTCCCTAAGCAGTAGGGAAACAAATCGAAGATGAAGATCTTAACCCCCTAAGCAGTAG
GGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTATAA
A
Found at i:94711899 original size:132 final size:132
Alignment explanation
Indices: 94711281--94712150 Score: 1118
Period size: 132 Copynumber: 6.6 Consensus size: 132
94711271 TAGAATCAGT
* * *
94711281 GAATTCACAAGCCTTAAGCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
1 GAATTTACAAACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* * * * * *
94711346 CCTAAGTAGTAGGGAAACAGATCGAAGACGAAGGG-TCTTAAACCCCTAATCGGTAGGGTAAC-A
66 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCT-TTAACCCCCTAAGCAGTAGGGTAACAA
94711409 GACC
130 G-CC
* * * * * * * *
94711413 GAA-TTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACA-GATCGAAGA-TGA-AGATCTTAACC
1 GAATTTACAAACCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAGATCTTAACC
*
94711474 CCCTAAGCAGTAGGGAAACAGATCGAAGATTATGGGCTTTAA-CCCCTAAGCAGTAGGGTAACAA
65 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAA
94711538 GCC
130 GCC
* * *
94711541 AAATTTATAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
1 GAATTTACAAACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* * * * * *
94711606 CCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGG-TCTTAAACCCCTAATCGGTAGGGTGAC-A
66 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCT-TTAACCCCCTAAGCAGTAGGGTAACAA
94711669 GACC
130 G-CC
* * * * * * * ** *
94711673 GAA-TTGCAGATCTTATCTCCCTAAGCAGTAGAGAAACA-AATCGAAGA-TGA-AGATCTTAACC
1 GAATTTACAAACCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAGATCTTAACC
*
94711734 CCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAA
65 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAA
94711799 GCC
130 GCC
* *
94711802 AAATTTACAAACCTTAACCCCCTAAGCAGTAGGGTAACATGCTGAAGATTTACAGATCTTAACCC
1 GAATTTACAAACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* *
94711867 CCTAAGTAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
66 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
*
94711932 CT
131 CC
* *
94711934 GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
1 GAATTTACAAACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
** *
94711999 CCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
66 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
94712064 CC
131 CC
* * *
94712066 GAATTTATAAACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCC
1 GAATTTACAAACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* *
94712131 CCTAACCAGTAGGGTAACAG
66 CCTAAGCAGTAGGGAAACAG
94712151 GTTGAATTTA
Statistics
Matches: 639, Mismatches: 82, Indels: 34
0.85 0.11 0.05
Matches are distributed among these distances:
128 22 0.03
129 150 0.23
130 49 0.08
131 115 0.18
132 303 0.47
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (132 bp):
GAATTTACAAACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
CC
Found at i:94712100 original size:175 final size:176
Alignment explanation
Indices: 94711431--94712236 Score: 603
Period size: 175 Copynumber: 4.6 Consensus size: 176
94711421 GATCTTATCT
* *
94711431 CCCTAAGCAGTAGGGAAACAGATCGAAGA-TGA-AGATCTTAACCCCCTAAGCAGTAGGGAAACA
1 CCCTAAGCAGTAGGGTAACAGAT-GAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACA
* * * * *
94711494 GATCGAAGATTATGGGCTTTAA-CCCCTAAGCAGTAGGGTAACAAGCCAAATTTATAAGCCTTAA
65 GATCAAAAATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTGATAAACCTTAA
* *
94711558 CCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTAC-AGATCTTAACC
130 CCCCCTAAGCAGTAGGGTAACAAGCTGAAGATTTACAAG-CCTTAACC
* ** * * * * **
94711605 CCCTAAGCAGTAGGGAAACAGATCGAAGA-CGA-AGGGTCTTAAACCCCTAATCGGTAGGGTGAC
1 CCCTAAGCAGTAGGGTAACAGAT-GAAGATTTACA-GATCTTAACCCCCTAAGCAGTAGGGAAAC
** * ** * * * * * * * *
94711668 AGA-CCGAATTGCA-GATC-TTATCTCCCTAAGCAGTAGAGAAACAAATCGAAGA-TGA-AGATC
64 AGATCAAAAATG-ATGGGCTTTAACCCCCTAAGCAGTAGGGTAAC-AAGCCAA-ATTGATAAACC
* * * * *** *
94711728 TTAACCCCCTAAGCAGTAGGGAAAC-AGATCGAAG-GTGATGGGCTTTAACC
126 TTAACCCCCTAAGCAGTAGGGTAACAAGCT-GAAGATTTACAAGCCTTAACC
* * *
94711778 CCCTAAGCAGTAGGGTAACA-A-GCCAA-ATTTACAAACCTTAACCCCCTAAGCAGTAGGGTAAC
1 CCCTAAGCAGTAGGGTAACAGATG--AAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAAC
* * * * * ** * * * * * ***
94711840 ATGCTGAAGATTTA-CAGATCTTAACCCCCTAAGTAGTAGGGAAAC-AGATCAAAGATGATGGGC
64 A-GATCAAAAATGATGGGCT-TTAACCCCCTAAGCAGTAGGGTAACAAG-CCAAA-TTGATAAAC
* *
94711903 TTTAACCCCCTAAGCAGTAGGGTAACAAGCTG-A-ATTTACAAGCCTTAAAC
125 CTTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAGATTTACAAGCCTTAACC
*
94711953 CCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACA
1 CCCTAAGCAGTAGGGTAACA-GATGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACA
* * *
94712018 GATAAAAAATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTATAAACCTTAA
65 GATCAAAAATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTGATAAACCTTAA
* * **
94712083 ACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACC
130 CCCCCTAAGCAGTAGGGTAACAAGCTGAAGATTTACAAGCCTTAACC
* * * * * *
94712130 CCCTAACCAGTAGGGTAACAGGTTG-A-ATTTACAGATCTTAACCCCTTAAGCAATTGGGAAATA
1 CCCTAAGCAGTAGGGTAACA-GATGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACA
* * * ** *
94712193 GATCGAAGATGATGGGCCTTAAATCCCTAAGTAGTAGGGTAACA
65 GATCAAAAATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACA
94712237 GGCTGGAAAT
Statistics
Matches: 491, Mismatches: 112, Indels: 57
0.74 0.17 0.09
Matches are distributed among these distances:
170 1 0.00
171 1 0.00
172 27 0.05
173 38 0.08
174 90 0.18
175 191 0.39
176 64 0.13
177 78 0.16
178 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (176 bp):
CCCTAAGCAGTAGGGTAACAGATGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAG
ATCAAAAATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTGATAAACCTTAAC
CCCCTAAGCAGTAGGGTAACAAGCTGAAGATTTACAAGCCTTAACC
Found at i:94712213 original size:132 final size:132
Alignment explanation
Indices: 94711289--94712253 Score: 702
Period size: 132 Copynumber: 7.4 Consensus size: 132
94711279 GTGAATTCAC
* * **
94711289 AAGCCTTAAGCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGTA
1 AAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAACCA
** * * * * * ** *
94711354 GTAGGGAAACAGATCGAAGACGAAG-GGTCTTAAACCCCTAATCGGTAGGGTAAC-AGACCGAAT
66 GTAGGGAAACAGATAAAAAATGAAGAGCT-TTAACCCCCTAAGCAATAGGGTAACAAG-CCGAAA
94711417 TG--
129 TGAT
* * * * * * *
94711419 CAGATCTT-ATCTCCCTAAGCAGTAGGGAAACA-GATCGAAGA-TGA-AGATCTTAACCCCCTAA
1 AAG-CCTTAAAC-CCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAAATCTTAACCCCCTAA
* ** * * * * *
94711480 GCAGTAGGGAAACAGATCGAAGATTATGGGCTTTAA-CCCCTAAGCAGTAGGGTAACAAGCC-AA
63 CCAGTAGGGAAACAGATAAAAAATGAAGAGCTTTAACCCCCTAAGCAATAGGGTAACAAGCCGAA
*
94711543 ATTTAT
128 A-TGAT
* * *
94711549 AAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCA
1 AAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAACCA
** * * * * * ** * *
94711614 GTAGGGAAACAGATCGAAGACGAAG-GGTCTTAAACCCCTAATCGGTAGGGTGAC-AGACCGAAT
66 GTAGGGAAACAGATAAAAAATGAAGAGCT-TTAACCCCCTAAGCAATAGGGTAACAAG-CCGAAA
94711677 TG--
129 TGAT
* * * * * ** * *
94711679 CAGATCTT-ATCTCCCTAAGCAGTAGAGAAACA-AATCGAAGA-TGA-AGATCTTAACCCCCTAA
1 AAG-CCTTAAAC-CCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAAATCTTAACCCCCTAA
* ** ** * * *
94711740 GCAGTAGGGAAACAGATCGAAGGTGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCC-AA
63 CCAGTAGGGAAACAGATAAAAAATGAAGAGCTTTAACCCCCTAAGCAATAGGGTAACAAGCCGAA
* *
94711804 ATTTAC
128 A-TGAT
* * * * **
94711810 AAACCTTAACCCCCTAAGCAGTAGGGTAACATGCTGAAGATTTACAGATCTTAACCCCCTAAGTA
1 AAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAACCA
* * * * * * * *
94711875 GTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCTGAATTT
66 GTAGGGAAACAGATAAAAAATGAAGAGCTTTAACCCCCTAAGCAATAGGGTAACAAGCCGAAATG
*
94711940 AC
131 AT
* *
94711942 AAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCA
1 AAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAACCA
* * * * *
94712007 GTAGGGAAACAGATAAAAAATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTT
66 GTAGGGAAACAGATAAAAAATGAAGAGCTTTAACCCCCTAAGCAATAGGGTAACAAGCCGAAATG
94712072 AT
131 AT
*
94712074 AAACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAACCA
1 AAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAACCA
* * ** * * * * * *
94712139 GTAGGGTAACAGGT-TGAATTTACAGATC-TTAACCCCTTAAGCAATTGGG-AA-ATAGATCGAA
66 GTAGGGAAACAGATAAAAAATGA-AGAGCTTTAACCCCCTAAGCAATAGGGTAACA-AG-CCGAA
94712200 GATGAT
128 -ATGAT
** * *
94712206 GGGCCTTAAATCCCTAAGTAGTAGGGTAACAGGCTGGAA-A-TTACAAAT
1 AAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAAAT
94712254 TTTTTTTTCC
Statistics
Matches: 708, Mismatches: 93, Indels: 67
0.82 0.11 0.08
Matches are distributed among these distances:
127 2 0.00
128 23 0.03
129 141 0.20
130 61 0.09
131 141 0.20
132 333 0.47
133 7 0.01
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (132 bp):
AAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAACCA
GTAGGGAAACAGATAAAAAATGAAGAGCTTTAACCCCCTAAGCAATAGGGTAACAAGCCGAAATG
AT
Found at i:94712504 original size:137 final size:137
Alignment explanation
Indices: 94712257--94712590 Score: 584
Period size: 137 Copynumber: 2.4 Consensus size: 137
94712247 TACAAATTTT
*
94712257 TTTTTCCCTGAAATGGCATTGGAGC-GACTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAAAGG
1 TTTTTCCCTGAAATGGCATTGGAGCAG-CTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGAGG
94712321 ATCTTTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAG
65 ATCTTTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAG
94712386 CAAACCTC
130 CAAACCTC
*
94712394 TTTTTCCCTGAAATGGCATTGGAGCAGCTAAAAGCCACAGTAGATCTCCTTGAAGTTTCAGAGGA
1 TTTTTCCCTGAAATGGCATTGGAGCAGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGAGGA
*
94712459 TCTTTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCATAACAGATCTCCTTGAAGTTTCAGC
66 TCTTTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGC
94712524 AAACCTC
131 AAACCTC
* *
94712531 TTCTT-CCAGAAATGGCATTGGAG-AGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG
1 TTTTTCCCTGAAATGGCATTGGAGCA-GCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG
94712591 TGGAAGAAGA
Statistics
Matches: 189, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
135 1 0.01
136 51 0.27
137 136 0.72
138 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (137 bp):
TTTTTCCCTGAAATGGCATTGGAGCAGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGAGGA
TCTTTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGC
AAACCTC
Found at i:94712590 original size:68 final size:67
Alignment explanation
Indices: 94712263--94712590 Score: 451
Period size: 68 Copynumber: 4.8 Consensus size: 67
94712253 TTTTTTTTTC
* * *
94712263 CCTGAAATGGCATTGGAGCGACTAAAAGCCACAGCAGATCTCCTTGAAGTTTCA-AAGGATCTTT
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGAA--ACCTCT
94712327 TCTT
64 TCTT
* *
94712331 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCAAACCTCTT
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG-AAACCTCTT
*
94712396 TTT
65 CTT
* * * * *
94712399 CCCTGAAATGGCATTGGAGCAGCTAAAAGCCACAGTAGATCTCCTTGAAGTTTCAGAGGATCTTT
1 -CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGA-AACCTCT
94712464 TCTT
64 TCTT
* * *
94712468 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCATAACAGATCTCCTTGAAGTTTCAGCAAACCTCTT
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG-AAACCTCTT
94712533 CTT
65 CTT
* *
94712536 CCAGAAATGGCATTGGAGAGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG
94712591 TGGAAGAAGA
Statistics
Matches: 228, Mismatches: 27, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
68 167 0.73
69 59 0.26
70 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (67 bp):
CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGAAACCTCTTC
TT
Found at i:94712894 original size:132 final size:132
Alignment explanation
Indices: 94712739--94713210 Score: 872
Period size: 132 Copynumber: 3.6 Consensus size: 132
94712729 GTTGAAAACA
* * *
94712739 TCAGCATCGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTATGCT
1 TCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCT
* *
94712804 TATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTACTTACAGTGAAGCAGATCGAAGA
66 TATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGA
94712869 TT
131 TT
*
94712871 TCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCT
1 TCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCT
*
94712936 TATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGA
66 TATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGA
94713001 TT
131 TT
94713003 TCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCT
1 TCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCT
*
94713068 TATAGGGAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGA
66 TATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGA
94713133 TT
131 TT
94713135 TCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCT
1 TCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCT
94713200 TATAGGGAACA
66 TATAGGGAACA
94713211 AGTTGAAAAC
Statistics
Matches: 330, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 330 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.25
Consensus pattern (132 bp):
TCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCT
TATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGA
TT
Found at i:94713254 original size:176 final size:176
Alignment explanation
Indices: 94713009--94713385 Score: 700
Period size: 176 Copynumber: 2.1 Consensus size: 176
94712999 GATTTCAGCA
* *
94713009 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTATGCTTATAGG
94713074 GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
66 GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
* *
94713139 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
131 CATGACATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATT
94713185 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTATGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTATGCTTATAGG
* *
94713250 GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAG
66 GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
94713315 CATGACATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATT
131 CATGACATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATT
94713361 TGGCATCCCTGTGCTTATAGGGAAC
1 TGGCATCCCTGTGCTTATAGGGAAC
94713386 GGATCGAAGA
Statistics
Matches: 195, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
176 195 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (176 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTATGCTTATAGG
GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
CATGACATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATT
Found at i:94713416 original size:44 final size:44
Alignment explanation
Indices: 94712638--94713444 Score: 572
Period size: 44 Copynumber: 18.3 Consensus size: 44
94712628 TGCAGAGGAG
* ** * * *
94712638 CAGACCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
* **
94712682 GCAGATCCAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAA
* * * *
94712726 CA-AGTTGAAAACATCAGCATC--GCATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAG-ATCTGGCATCCCTGTGCTTATAGGGAA
* * * * * *
94712769 CA-AGTTGAAAACAACAGATTTGGCATCCCTATGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
* * * * *
94712813 CAGATCGAAGATAGCAGATCTGACATTCCTGTACTTACAGTGAA
1 CAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
**
94712857 GCAGATCGAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAA
* * * *
94712901 CA-AGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
* * * * *
94712945 CAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
* **
94712989 GCAGATCAAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAA
* * * * *
94713033 CA-AGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
* * * * *
94713077 CGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
* **
94713121 GCAGATCAAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAA
* * * * *
94713165 CA-AGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
* * * * * *
94713209 CA-AGTTGAAAACAACAGATTTGGCATCCCTATGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
* * * * *
94713253 CGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
* ** *
94713297 GTAGATCGAAGATTTCAG--CATGACATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAA
* * * *
94713341 CA-AGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
* * * * * *
94713385 CGGATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
*
94713429 GCAGATCAAAGATAGC
1 -CAGATCGAAGATAGC
94713445 GGATATCGCC
Statistics
Matches: 602, Mismatches: 127, Indels: 66
0.76 0.16 0.08
Matches are distributed among these distances:
42 7 0.01
43 92 0.15
44 417 0.69
45 85 0.14
46 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (44 bp):
CAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
Found at i:94713828 original size:22 final size:22
Alignment explanation
Indices: 94713788--94713829 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
94713778 TGGCCACCCA
*
94713788 CCTTGGCCACCAACTCCACCAC
1 CCTTGGCCACCAACACCACCAC
94713810 CCTTGGCCACCTAA-ACCACC
1 CCTTGGCCACC-AACACCACC
94713830 CCAACCACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.24, C:0.52, G:0.10, T:0.14
Consensus pattern (22 bp):
CCTTGGCCACCAACACCACCAC
Found at i:94713972 original size:20 final size:21
Alignment explanation
Indices: 94713928--94713976 Score: 82
Period size: 20 Copynumber: 2.3 Consensus size: 21
94713918 TTGTTCTTTG
94713928 TTTTGGAAGAGTTTTTTTTGTT
1 TTTTGG-AGAGTTTTTTTTGTT
94713950 TTTTGGAG-GTTTTTTTTGTT
1 TTTTGGAGAGTTTTTTTTGTT
94713970 TTTTGGA
1 TTTTGGA
94713977 AAGAAGGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 19 0.70
21 2 0.07
22 6 0.22
ACGTcount: A:0.10, C:0.00, G:0.24, T:0.65
Consensus pattern (21 bp):
TTTTGGAGAGTTTTTTTTGTT
Found at i:94713984 original size:25 final size:25
Alignment explanation
Indices: 94713933--94714004 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 25
94713923 CTTTGTTTTG
94713933 GAAGAGTTTTTTTTGTTTTTT-G---
1 GAAG-GTTTTTTTTGTTTTTTGGAAA
94713955 G-AGGTTTTTTTTGTTTTTTGGAAA
1 GAAGGTTTTTTTTGTTTTTTGGAAA
* *
94713979 GAAGGTTGTTTTTGTTTCTTGGAAA
1 GAAGGTTTTTTTTGTTTTTTGGAAA
94714004 G
1 G
94714005 GCTAGTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
20 16 0.37
21 3 0.07
22 1 0.02
24 1 0.02
25 22 0.51
ACGTcount: A:0.17, C:0.01, G:0.26, T:0.56
Consensus pattern (25 bp):
GAAGGTTTTTTTTGTTTTTTGGAAA
Found at i:94714320 original size:3 final size:3
Alignment explanation
Indices: 94714312--94714392 Score: 62
Period size: 3 Copynumber: 26.3 Consensus size: 3
94714302 GTTTTATTTT
* *
94714312 TTA TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TT- TCTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T-T-A
94714358 TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
94714393 ATATGCTCTC
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
2 5 0.08
3 50 0.78
4 7 0.11
5 2 0.03
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:94714326 original size:12 final size:12
Alignment explanation
Indices: 94714305--94714392 Score: 78
Period size: 12 Copynumber: 7.3 Consensus size: 12
94714295 GAGCTTTGTT
94714305 TTATT-TTT-TA
1 TTATTATTTATA
*
94714315 TTATTATTTTTA
1 TTATTATTTATA
*
94714327 CTATTATTTATA
1 TTATTATTTATA
94714339 TTATTA-TTATTA
1 TTATTATTTA-TA
94714351 TT-TCTCATGTATATA
1 TTAT-T-AT-T-TATA
94714366 TTATTATTTATA
1 TTATTATTTATA
94714378 TTATTA-TTATA
1 TTATTATTTATA
94714389 TTAT
1 TTAT
94714393 ATATGCTCTC
Statistics
Matches: 66, Mismatches: 3, Indels: 17
0.77 0.03 0.20
Matches are distributed among these distances:
10 5 0.08
11 16 0.24
12 32 0.48
13 2 0.03
14 2 0.03
15 6 0.09
16 3 0.05
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (12 bp):
TTATTATTTATA
Found at i:94714367 original size:21 final size:18
Alignment explanation
Indices: 94714312--94714396 Score: 88
Period size: 18 Copynumber: 4.7 Consensus size: 18
94714302 GTTTTATTTT
94714312 TTATTA-TTAT-TT-TTA
1 TTATTATTTATATTATTA
*
94714327 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
94714345 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
94714366 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
94714384 TTA-TATTATATAT
1 TTATTATT-TATAT
94714397 GCTCTCTCCA
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
15 5 0.08
16 4 0.07
17 6 0.10
18 22 0.37
19 5 0.08
20 5 0.08
21 12 0.20
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.64
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:94714682 original size:118 final size:118
Alignment explanation
Indices: 94714558--94714773 Score: 269
Period size: 121 Copynumber: 1.8 Consensus size: 118
94714548 TAATATATTA
* *
94714558 TTAATA-TTACTCATATTTTCATTATT-T-TTGCTAT-TACTATTATTATTATATATTAGTGTAT
1 TTAATATTTA-TCATATTTGC-TTATTGTATTGCTATAT-CTATTATTATTATATAGTAGTGTAT
* *
94714619 ATTTTTATGTATATACATATATATATTTATATATAGTATTGTTTTTATTACTTTAAT
63 ATTTCTAT-TATATACATATATATATATATATATAGTATTGTTTTTATTACTTTAAT
* * * * *
94714676 TTAATATTTTTATTATATTTGCTTTTTGTATTTCTATATTTATTATTATTATATAGTAGTGTGTA
1 TTAATA--TTTATCATATTTGCTTATTGTATTGCTATATCTATTATTATTATATAGTAGTGTATA
94714741 TTTCTATTATATACATATATATATATATATATA
64 TTTCTATTATATACATATATATATATATATATA
94714774 TTTATATATA
Statistics
Matches: 83, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
118 6 0.07
119 4 0.05
120 34 0.41
121 38 0.46
122 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.06, T:0.58
Consensus pattern (118 bp):
TTAATATTTATCATATTTGCTTATTGTATTGCTATATCTATTATTATTATATAGTAGTGTATATT
TCTATTATATACATATATATATATATATATAGTATTGTTTTTATTACTTTAAT
Found at i:94714753 original size:2 final size:2
Alignment explanation
Indices: 94714748--94714783 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
94714738 GTATTTCTAT
* *
94714748 TA TA TA CA TA TA TA TA TA TA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
94714784 GTATTATTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:94715086 original size:47 final size:48
Alignment explanation
Indices: 94715017--94715111 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 48
94715007 GCCCTAACTT
94715017 ACTGGGTATGGCATTTTGTTACCTC-AAATAAGATTTTTGCAAGTAAA
1 ACTGGGTATGGCATTTTGTTACCTCGAAATAAGATTTTTGCAAGTAAA
94715064 ACTGGGTATGGCATTTTGTTACCTCGAAATAAGATTTTTGCAAGTAAA
1 ACTGGGTATGGCATTTTGTTACCTCGAAATAAGATTTTTGCAAGTAAA
94715112 GGCAATATTC
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 25 0.53
48 22 0.47
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.36
Consensus pattern (48 bp):
ACTGGGTATGGCATTTTGTTACCTCGAAATAAGATTTTTGCAAGTAAA
Found at i:94716219 original size:28 final size:29
Alignment explanation
Indices: 94716178--94716239 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 29
94716168 AGATAAACCA
94716178 ATCATAATTAAAAAAAAATATTATATTAT
1 ATCATAATTAAAAAAAAATATTATATTAT
94716207 ATCATAATT-AAAAAAAATATTATATTAT
1 ATCATAATTAAAAAAAAATATTATATTAT
94716235 ATCAT
1 ATCAT
94716240 TTTAAAGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 24 0.73
29 9 0.27
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (29 bp):
ATCATAATTAAAAAAAAATATTATATTAT
Found at i:94716293 original size:34 final size:32
Alignment explanation
Indices: 94716249--94716327 Score: 79
Period size: 34 Copynumber: 2.4 Consensus size: 32
94716239 TTTTAAAGTT
* *
94716249 AATAATAAAAAATAAAACAAAATAAACAAAATGA
1 AATAAGAAAAAATAAAA-AAAATAAAAAAAAT-A
* *
94716283 AATAAGAAAAAAATCAAAAAAGTAAAAAAAATA
1 AATAAG-AAAAAATAAAAAAAATAAAAAAAATA
*
94716316 AA-AAGATAAAAT
1 AATAAGAAAAAAT
94716328 TTATTAAGGA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
31 6 0.15
32 3 0.08
33 3 0.08
34 17 0.44
35 10 0.26
ACGTcount: A:0.77, C:0.04, G:0.05, T:0.14
Consensus pattern (32 bp):
AATAAGAAAAAATAAAAAAAATAAAAAAAATA
Found at i:94716303 original size:9 final size:8
Alignment explanation
Indices: 94716255--94716326 Score: 54
Period size: 9 Copynumber: 8.4 Consensus size: 8
94716245 AGTTAATAAT
94716255 AAAAAATAA
1 AAAAAAT-A
94716264 AACAAAATA
1 AA-AAAATA
*
94716273 AACAAAATG
1 AA-AAAATA
* *
94716282 AAATAAGA
1 AAAAAATA
94716290 AAAAAATCA
1 AAAAAAT-A
*
94716299 AAAAAGTAA
1 AAAAAAT-A
94716308 AAAAAATA
1 AAAAAATA
*
94716316 AAAAGATA
1 AAAAAATA
94716324 AAA
1 AAA
94716327 TTTATTAAGG
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
8 19 0.37
9 27 0.53
10 5 0.10
ACGTcount: A:0.79, C:0.04, G:0.06, T:0.11
Consensus pattern (8 bp):
AAAAAATA
Found at i:94716376 original size:17 final size:17
Alignment explanation
Indices: 94716354--94716413 Score: 83
Period size: 17 Copynumber: 3.8 Consensus size: 17
94716344 TAAAAAAGTA
94716354 AAAATAAAAGAAATATG
1 AAAATAAAAGAAATATG
94716371 AAAATAAAAG-AA-A--
1 AAAATAAAAGAAATATG
*
94716384 AAAACAAAAGAAATATG
1 AAAATAAAAGAAATATG
94716401 AAAATAAAAGAAA
1 AAAATAAAAGAAA
94716414 AAGGAAACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
13 9 0.24
14 2 0.05
15 2 0.05
16 2 0.05
17 22 0.59
ACGTcount: A:0.77, C:0.02, G:0.10, T:0.12
Consensus pattern (17 bp):
AAAATAAAAGAAATATG
Found at i:94716420 original size:17 final size:17
Alignment explanation
Indices: 94716354--94716420 Score: 70
Period size: 17 Copynumber: 4.2 Consensus size: 17
94716344 TAAAAAAGTA
*
94716354 AAAATAAAAGAAATATG
1 AAAATAAAAGAAAAATG
94716371 AAAATAAAAG--AAA--
1 AAAATAAAAGAAAAATG
* *
94716384 AAAACAAAAGAAATATG
1 AAAATAAAAGAAAAATG
*
94716401 AAAATAAAAGAAAAAGG
1 AAAATAAAAGAAAAATG
94716418 AAA
1 AAA
94716421 CAAAAAGGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
13 9 0.22
15 4 0.10
17 27 0.68
ACGTcount: A:0.76, C:0.01, G:0.12, T:0.10
Consensus pattern (17 bp):
AAAATAAAAGAAAAATG
Found at i:94717851 original size:20 final size:18
Alignment explanation
Indices: 94717826--94717893 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 18
94717816 ATCGCAAAAT
94717826 AATTCAAAATCATTTTCAAA
1 AATTCAAAAT-ATTTT-AAA
94717846 AATTCAAAATAATTTT-AA
1 AATTCAAAAT-ATTTTAAA
* *
94717864 AAGTCAAAATATTTAGAAA
1 AATTCAAAATATTT-TAAA
94717883 AATTCCAAAAT
1 AATT-CAAAAT
94717894 TTATATTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.10
18 11 0.27
19 5 0.12
20 21 0.51
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.32
Consensus pattern (18 bp):
AATTCAAAATATTTTAAA
Found at i:94717870 original size:18 final size:19
Alignment explanation
Indices: 94717829--94717874 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
94717819 GCAAAATAAT
* *
94717829 TCAAAATCATTTTCAAAAAT
1 TCAAAATAATTTT-AAAAAG
94717849 TCAAAATAATTTT-AAAAG
1 TCAAAATAATTTTAAAAAG
94717867 TCAAAATA
1 TCAAAATA
94717875 TTTAGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 12 0.50
20 12 0.50
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.33
Consensus pattern (19 bp):
TCAAAATAATTTTAAAAAG
Found at i:94729831 original size:12 final size:12
Alignment explanation
Indices: 94729814--94729840 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
94729804 CATTGCCTAT
94729814 ATATAGAGAGAG
1 ATATAGAGAGAG
94729826 ATATAGAGAGAG
1 ATATAGAGAGAG
94729838 ATA
1 ATA
94729841 GCATTTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.30, T:0.19
Consensus pattern (12 bp):
ATATAGAGAGAG
Found at i:94735419 original size:9 final size:9
Alignment explanation
Indices: 94735405--94735429 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
94735395 GCTCAATTGT
94735405 TTTATTTTA
1 TTTATTTTA
94735414 TTTATTTTA
1 TTTATTTTA
94735423 TTTATTT
1 TTTATTT
94735430 AGATAACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTATTTTA
Found at i:94735737 original size:6 final size:6
Alignment explanation
Indices: 94735718--94735753 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
94735708 AAGTAAGTAC
* *
94735718 AATACA AATGCA AATACA AATACA AATGCA AATACA
1 AATACA AATACA AATACA AATACA AATACA AATACA
94735754 TGTATATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.61, C:0.17, G:0.06, T:0.17
Consensus pattern (6 bp):
AATACA
Found at i:94735741 original size:18 final size:18
Alignment explanation
Indices: 94735718--94735753 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
94735708 AAGTAAGTAC
94735718 AATACAAATGCAAATACA
1 AATACAAATGCAAATACA
94735736 AATACAAATGCAAATACA
1 AATACAAATGCAAATACA
94735754 TGTATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.17, G:0.06, T:0.17
Consensus pattern (18 bp):
AATACAAATGCAAATACA
Found at i:94740292 original size:25 final size:25
Alignment explanation
Indices: 94740260--94740378 Score: 113
Period size: 25 Copynumber: 4.8 Consensus size: 25
94740250 GGCTCTTCGT
94740260 GAGCTTCCTGATTAATGGCTCTCTA
1 GAGCTTCCTGATTAATGGCTCTCTA
* * *
94740285 GAGCTTCCTGA-TATTGGCTCACTT
1 GAGCTTCCTGATTAATGGCTCTCTA
* * *
94740309 GACCCTTCCTGA-TATTGGCTC-GTA
1 GA-GCTTCCTGATTAATGGCTCTCTA
*
94740333 TGAGCTTCCCG-TTAATGGCTCTCTA
1 -GAGCTTCCTGATTAATGGCTCTCTA
94740358 GAGCTTCCT-ATTATATGGCTC
1 GAGCTTCCTGATTA-ATGGCTC
94740379 GAAAGAGCTT
Statistics
Matches: 77, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
24 38 0.49
25 39 0.51
ACGTcount: A:0.18, C:0.26, G:0.20, T:0.36
Consensus pattern (25 bp):
GAGCTTCCTGATTAATGGCTCTCTA
Found at i:94740351 original size:24 final size:24
Alignment explanation
Indices: 94740324--94740417 Score: 73
Period size: 25 Copynumber: 3.8 Consensus size: 24
94740314 TTCCTGATAT
* *
94740324 TGGCTCGTATGAGCTTCCCGTTAA
1 TGGCTCGAATGAGCTTCCCATTAA
** *
94740348 TGGCTC-TCTAGAGCTTCCTATTATA
1 TGGCTCGAAT-GAGCTTCCCATTA-A
* * *
94740373 TGGCTCGAAAGAGCTTCCTATTTA
1 TGGCTCGAATGAGCTTCCCATTAA
94740397 TGTGCTCGAATGAGCATTCCC
1 TG-GCTCGAATGAGC-TTCCC
94740418 GAATATAAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
23 2 0.04
24 20 0.36
25 30 0.54
26 4 0.07
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.34
Consensus pattern (24 bp):
TGGCTCGAATGAGCTTCCCATTAA
Found at i:94740377 original size:49 final size:49
Alignment explanation
Indices: 94740226--94740390 Score: 142
Period size: 49 Copynumber: 3.3 Consensus size: 49
94740216 ACACACCATA
* *
94740226 GCTCTTATGAGCGTCCCGATACATGGCTCTTCGTGAGCTTCCTGATTA-ATG
1 GCTCGTATGAGCTTCCCGATA-ATGGCTC-TC-TGAGCTTCCTGATTATATG
* * * * *
94740277 GCTC-TCTAGAGCTTCCTGATATTGGCTCACTTGACCCTTCCTGA-TAT-TG
1 GCTCGTAT-GAGCTTCCCGATAATGGCTCTC-TGA-GCTTCCTGATTATATG
*
94740326 GCTCGTATGAGCTTCCCGTTAATGGCTCTCTAGAGCTTCCT-ATTATATG
1 GCTCGTATGAGCTTCCCGATAATGGCTCTCT-GAGCTTCCTGATTATATG
* *
94740375 GCTCGAAAGAGCTTCC
1 GCTCGTATGAGCTTCC
94740391 TATTTATGTG
Statistics
Matches: 92, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
47 1 0.01
48 10 0.11
49 48 0.52
50 18 0.20
51 15 0.16
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (49 bp):
GCTCGTATGAGCTTCCCGATAATGGCTCTCTGAGCTTCCTGATTATATG
Found at i:94740390 original size:73 final size:75
Alignment explanation
Indices: 94740259--94740419 Score: 181
Period size: 73 Copynumber: 2.2 Consensus size: 75
94740249 TGGCTCTTCG
* **
94740259 TGAGCTTCCTGATTAATGGCTCTCTAGAGCTTCCTGATATTGGCTCACTTGACCCTTCCTGATAT
1 TGAGCTTCCCGATTAATGGCTCTCTAGAGCTTCCTGATATTGGCTCACAAGACCCTTCCT-ATAT
*
94740324 -TG-GCTCGTA
65 ATGTGCTCGAA
*
94740333 TGAGCTTCCCG-TTAATGGCTCTCTAGAGCTTCCT-ATTATATGGCTCGA-AAGA-GCTTCCTAT
1 TGAGCTTCCCGATTAATGGCTCTCTAGAGCTTCCTGA-TAT-TGGCTC-ACAAGACCCTTCCTAT
*
94740394 TTATGTGCTCGAA
63 ATATGTGCTCGAA
94740407 TGAGCATTCCCGA
1 TGAGC-TTCCCGA
94740420 ATATAAATTG
Statistics
Matches: 74, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
72 4 0.05
73 34 0.46
74 29 0.39
75 7 0.09
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (75 bp):
TGAGCTTCCCGATTAATGGCTCTCTAGAGCTTCCTGATATTGGCTCACAAGACCCTTCCTATATA
TGTGCTCGAA
Found at i:94740416 original size:26 final size:25
Alignment explanation
Indices: 94740357--94740416 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
94740347 ATGGCTCTCT
94740357 AGAGCTTCCTATTATATGGCTCGAA
1 AGAGCTTCCTATTATATGGCTCGAA
94740382 AGAGCTTCCTATT-TATGTGCTCGAA
1 AGAGCTTCCTATTATATG-GCTCGAA
*
94740407 TGAGCATTCC
1 AGAGC-TTCC
94740417 CGAATATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 4 0.12
25 24 0.75
26 4 0.12
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (25 bp):
AGAGCTTCCTATTATATGGCTCGAA
Found at i:94742316 original size:28 final size:27
Alignment explanation
Indices: 94742277--94742330 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
94742267 TGTAAACCCT
94742277 AAAAAAGAAAAACATTAAACATTAAAC
1 AAAAAAGAAAAACATTAAACATTAAAC
* * *
94742304 AAAAAATACAAAACCTTAAACCTTAAA
1 AAAAAAGA-AAAACATTAAACATTAAA
94742331 AAACCTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.67, C:0.15, G:0.02, T:0.17
Consensus pattern (27 bp):
AAAAAAGAAAAACATTAAACATTAAAC
Found at i:94742335 original size:17 final size:18
Alignment explanation
Indices: 94742313--94742351 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
94742303 CAAAAAATAC
94742313 AAAACC-TTAAACCTTAA
1 AAAACCTTTAAACCTTAA
94742330 AAAACCTTTAAACCTTAA
1 AAAACCTTTAAACCTTAA
94742348 AAAA
1 AAAA
94742352 ACAAAGAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.56, C:0.21, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAACCTTTAAACCTTAA
Found at i:94743015 original size:14 final size:13
Alignment explanation
Indices: 94742996--94743030 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
94742986 GTATTTAAGT
94742996 AAAAAAAGCAAAAA
1 AAAAAAAG-AAAAA
94743010 AAAAAAAGAAAAA
1 AAAAAAAGAAAAA
*
94743023 GAAAAAAG
1 AAAAAAAG
94743031 GTCAAATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAAA
Found at i:94744030 original size:21 final size:22
Alignment explanation
Indices: 94744006--94744051 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
94743996 TTTACTATTA
* *
94744006 TATTTTTTATTGT-TTTTTCAC
1 TATTTTTTACTGTCATTTTCAC
94744027 TA-TTTTTACTGTCATTTTCAC
1 TATTTTTTACTGTCATTTTCAC
94744048 TATT
1 TATT
94744052 ATGTTATTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
20 9 0.43
21 11 0.52
22 1 0.05
ACGTcount: A:0.17, C:0.13, G:0.04, T:0.65
Consensus pattern (22 bp):
TATTTTTTACTGTCATTTTCAC
Found at i:94749247 original size:30 final size:30
Alignment explanation
Indices: 94749213--94749274 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
94749203 CTTATTTTAC
*
94749213 TGTTAATTTTGTTATTATTTTAAAGATATT
1 TGTTAATTTTGTTATTATTTTAAAGACATT
*
94749243 TGTTAATTTTGTTATTATTTTAGAGACATT
1 TGTTAATTTTGTTATTATTTTAAAGACATT
94749273 TG
1 TG
94749275 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (30 bp):
TGTTAATTTTGTTATTATTTTAAAGACATT
Found at i:94749697 original size:73 final size:73
Alignment explanation
Indices: 94749578--94749724 Score: 267
Period size: 73 Copynumber: 2.0 Consensus size: 73
94749568 CACCTCTAGC
*
94749578 TGTAACGTTCTTTGGGCGTCTCTCTATTATATGATAATATCTTCCACAATTAAAACGTATGTTTG
1 TGTAACGTTCTTTGGGCGTCTCTCTATTATATGATAATATCTTCCACAATTAAAACATATGTTTG
94749643 ATAGTGAT
66 ATAGTGAT
* *
94749651 TGTAATGTTCTTTGGGCGTCTCTCTATTATATGATAATATCTTCCACAATTAAAATATATGTTTG
1 TGTAACGTTCTTTGGGCGTCTCTCTATTATATGATAATATCTTCCACAATTAAAACATATGTTTG
94749716 ATAGTGAT
66 ATAGTGAT
94749724 T
1 T
94749725 CATACTCCAT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.43
Consensus pattern (73 bp):
TGTAACGTTCTTTGGGCGTCTCTCTATTATATGATAATATCTTCCACAATTAAAACATATGTTTG
ATAGTGAT
Found at i:94750570 original size:42 final size:42
Alignment explanation
Indices: 94750517--94750599 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
94750507 CAGACCTTAA
94750517 CTTAATTTAAAAAAATCGAGATTTTTAAAACCAATAAACTTC
1 CTTAATTTAAAAAAATCGAGATTTTTAAAACCAATAAACTTC
94750559 CTTAATTTAAAAAAATCGAGATTTTTAAAACCAATAAACTT
1 CTTAATTTAAAAAAATCGAGATTTTTAAAACCAATAAACTT
94750600 ACTTGTTTCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (42 bp):
CTTAATTTAAAAAAATCGAGATTTTTAAAACCAATAAACTTC
Found at i:94751162 original size:31 final size:31
Alignment explanation
Indices: 94751126--94751185 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
94751116 TTTTATTTTA
* *
94751126 AAAGAGTAAATTAGTCTCTGTATGT-TAAATG
1 AAAGAGCAAATCAGTC-CTGTATGTATAAATG
*
94751157 AAAGAGCAAATCAGTCCTTTATGTATAAA
1 AAAGAGCAAATCAGTCCTGTATGTATAAA
94751186 AACTTCACCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.32
Consensus pattern (31 bp):
AAAGAGCAAATCAGTCCTGTATGTATAAATG
Found at i:94754780 original size:46 final size:46
Alignment explanation
Indices: 94754728--94755137 Score: 554
Period size: 46 Copynumber: 8.8 Consensus size: 46
94754718 AGTGTGCTCT
*
94754728 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
94754774 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
94754820 GTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
94754866 CTGATAT-AGAATGTGTAAGACAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGA-AATGTGT---A-AGACCATGGTTGAAAGATACCATGGCAAC
*
94754916 GTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
94754962 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
94755008 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** **
94755054 ATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
94755101 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATAC
94755138 TATGACATCA
Statistics
Matches: 337, Mismatches: 20, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
46 250 0.74
47 43 0.13
49 1 0.00
50 42 0.12
51 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:94755001 original size:142 final size:138
Alignment explanation
Indices: 94754728--94755137 Score: 563
Period size: 142 Copynumber: 2.9 Consensus size: 138
94754718 AGTGTGCTCT
* * * *
94754728 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAG
* *
94754793 ACCATGGTTGAAAGATACCATGGCAACGTGATATGGAATGTGTAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAGTAAGACCATGGTTGAAAGATACC
94754858 ATGGCAAC
131 ATGGCAAC
* * *
94754866 CTGATAT-AGAATGTGTAAGACAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGT
1 CTGACATGA-AATGAGT---A-AGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGT
*
94754930 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAG
61 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAGTAAGACCATGGTTGAAAG
94754995 ATACCATGGCAAC
126 ATACCATGGCAAC
*** **
94755008 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAA
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG-AAATGTGTAA
* * * * *
94755073 GACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATA
65 GACCATGGTTGAAAGATACCATGGCAACGTGATATG-AAATGAGTAAGACCATGGTTGAAAGATA
94755137 C
129 C
94755138 TATGACATCA
Statistics
Matches: 245, Mismatches: 19, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
138 48 0.20
139 66 0.27
141 1 0.00
142 129 0.53
143 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (138 bp):
CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAG
ACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAGTAAGACCATGGTTGAAAGATACC
ATGGCAAC
Found at i:94757826 original size:30 final size:30
Alignment explanation
Indices: 94757790--94757850 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
94757780 TCCTTAACTC
94757790 AAACTTTGGAAAATTTACAATTTTGCCCCT
1 AAACTTTGGAAAATTTACAATTTTGCCCCT
* * * * *
94757820 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTGGAAAATTTACAATTTTGCCCCT
94757850 A
1 A
94757851 GGCTCGGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.41
Consensus pattern (30 bp):
AAACTTTGGAAAATTTACAATTTTGCCCCT
Found at i:94758320 original size:261 final size:260
Alignment explanation
Indices: 94757846--94758372 Score: 973
Period size: 261 Copynumber: 2.0 Consensus size: 260
94757836 ACACTTTTTC
94757846 CCCTAGGCTCGGAATTAAACTTCATCCCTTATTCTTATGTTTTATGACATGCTGATCATTTTTCC
1 CCCTAGGCTCGGAATTAAACTTCATCCCTTATTCTTATGTTTTATGACATGCTGATCATTTTTCC
*
94757911 CTTCTATGGAAACATCAAATTCTCACTCTAACACGTAGTTATAAACAATAACAACTTTTACCGAT
66 CTTCTATGGAAACATCAAATTCTCACTCTAACACATAGTTATAAACAATAACAACTTTTACCGAT
* * *
94757976 TAAGTCGTTTTACTCATTTTTGCTTAAAACTGCTTAGCAAAAGTTGTTTAACATAATTTCAGCCT
131 TAAGCCGTTTTACTCATTTTTGCTTAAAACCGCTTAGCAAAAGTTGTTTAAAATAATTTCAGCCT
*
94758041 TCATATTCTACCATAAAACATCAAAATAAACATATTTCACCTATGGGTATTTTTCCAAATATGAA
196 TCATATTCTACCATAAAACATCAAAATAAACACATTTCACCTATGGGTATTTTTCCAAATATGAA
94758106 CCCTAGGCTCGGGAATTAAACTTCATCCCTTATTCTTATGTTTTATGACATGCTGATCATTTTTC
1 CCCTAGGCTC-GGAATTAAACTTCATCCCTTATTCTTATGTTTTATGACATGCTGATCATTTTTC
*
94758171 CCTTCTATGGAAACATCAAATTCTCACTCTAACACATAGTTATAAATAATAACAACTTTTACCGA
65 CCTTCTATGGAAACATCAAATTCTCACTCTAACACATAGTTATAAACAATAACAACTTTTACCGA
*
94758236 TTAAGCCGTTTTACTCATTTTTGCTTAAAACCGCTTAGCAAAAGTTGTTTAAAATATTTTCAGCC
130 TTAAGCCGTTTTACTCATTTTTGCTTAAAACCGCTTAGCAAAAGTTGTTTAAAATAATTTCAGCC
*
94758301 TTTATATTCTACCATAAAACATCAAAATAAACACATTTCACCTATGGGTATTTTTCCAAATATGA
195 TTCATATTCTACCATAAAACATCAAAATAAACACATTTCACCTATGGGTATTTTTCCAAATATGA
94758366 A
260 A
94758367 CCCTAG
1 CCCTAG
94758373 CTTAAATTAT
Statistics
Matches: 258, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
260 10 0.04
261 248 0.96
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.37
Consensus pattern (260 bp):
CCCTAGGCTCGGAATTAAACTTCATCCCTTATTCTTATGTTTTATGACATGCTGATCATTTTTCC
CTTCTATGGAAACATCAAATTCTCACTCTAACACATAGTTATAAACAATAACAACTTTTACCGAT
TAAGCCGTTTTACTCATTTTTGCTTAAAACCGCTTAGCAAAAGTTGTTTAAAATAATTTCAGCCT
TCATATTCTACCATAAAACATCAAAATAAACACATTTCACCTATGGGTATTTTTCCAAATATGAA
Found at i:94759605 original size:24 final size:25
Alignment explanation
Indices: 94759577--94759674 Score: 81
Period size: 22 Copynumber: 4.2 Consensus size: 25
94759567 AAAATTTTGA
94759577 AATATATA-TTTGAAA-TATTTTATT
1 AATATATATTTTGAAATTATTTT-TT
94759601 AATATATATTTTGAAATTATTTTTT
1 AATATATATTTTGAAATTATTTTTT
*
94759626 -A-A-A-ATTTTAAATATTATTTTTT
1 AATATATATTTTGAA-ATTATTTTTT
*
94759648 -A-A-A-ATTTTAAATATTATTTTTT
1 AATATATATTTTGAA-ATTATTTTTT
94759670 AATAT
1 AATAT
94759675 TTAAATATTT
Statistics
Matches: 67, Mismatches: 1, Indels: 11
0.85 0.01 0.14
Matches are distributed among these distances:
21 7 0.10
22 33 0.49
23 2 0.03
24 10 0.15
25 9 0.13
26 6 0.09
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
AATATATATTTTGAAATTATTTTTT
Found at i:94759612 original size:38 final size:33
Alignment explanation
Indices: 94759570--94759645 Score: 89
Period size: 38 Copynumber: 2.2 Consensus size: 33
94759560 AACTTTAAAA
94759570 ATTTTGAAATATATATTTGAAATATTTTATTAATATAT
1 ATTTTGAAAT-TATATTTGAAA-ATTTTA--AATAT-T
* *
94759608 ATTTTGAAATTATTTTTTAAAATTTTAAATATT
1 ATTTTGAAATTATATTTGAAAATTTTAAATATT
94759641 ATTTT
1 ATTTT
94759646 TTAAAATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
33 6 0.17
34 5 0.14
36 6 0.17
37 9 0.25
38 10 0.28
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (33 bp):
ATTTTGAAATTATATTTGAAAATTTTAAATATT
Found at i:94759621 original size:26 final size:23
Alignment explanation
Indices: 94759577--94759685 Score: 76
Period size: 22 Copynumber: 4.9 Consensus size: 23
94759567 AAAATTTTGA
94759577 AATATATATTTGAAATATTTTATT
1 AATATATATTTGAAATATTTT-TT
94759601 AATATATATTTTGAAATTATTTTTT
1 AATATATA-TTTGAAA-TATTTTTT
*
94759626 AA-A-AT-TTTAAATATTATTTTTT
1 AATATATATTTGAA-A-TATTTTTT
94759648 AA-A-AT-TTT-AAATATTATTTT
1 AATATATATTTGAAATATT-TTTT
*
94759668 -TTA-ATATTT-AAATATTTT
1 AATATATATTTGAAATATTTT
94759686 AAACTTTCAA
Statistics
Matches: 77, Mismatches: 2, Indels: 16
0.81 0.02 0.17
Matches are distributed among these distances:
19 4 0.05
20 10 0.13
21 17 0.22
22 18 0.23
23 2 0.03
24 9 0.12
25 11 0.14
26 6 0.08
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
AATATATATTTGAAATATTTTTT
Found at i:94759632 original size:21 final size:22
Alignment explanation
Indices: 94759608--94759683 Score: 120
Period size: 22 Copynumber: 3.5 Consensus size: 22
94759598 ATTAATATAT
*
94759608 ATTTTGAA-ATTATTTTTTAAA
1 ATTTTAAATATTATTTTTTAAA
94759629 ATTTTAAATATTATTTTTTAAA
1 ATTTTAAATATTATTTTTTAAA
*
94759651 ATTTTAAATATTATTTTTTAAT
1 ATTTTAAATATTATTTTTTAAA
94759673 A-TTTAAATATT
1 ATTTTAAATATT
94759684 TTAAACTTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
21 17 0.33
22 35 0.67
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (22 bp):
ATTTTAAATATTATTTTTTAAA
Found at i:94759723 original size:36 final size:38
Alignment explanation
Indices: 94759645--94759724 Score: 94
Period size: 36 Copynumber: 2.2 Consensus size: 38
94759635 AATATTATTT
* * *
94759645 TTTAAAATTTTAAATATTATTTTTTAATATTTAAATAT
1 TTTAAAATTTCAAATATTATTTATTAATATTTAAATAA
*
94759683 TTTAAACTTTCAAAT-TTA-TTATTAAT-TTTATAATAA
1 TTTAAAATTTCAAATATTATTTATTAATATTTA-AATAA
94759719 TTTAAA
1 TTTAAA
94759725 TATTATTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
35 4 0.11
36 17 0.46
37 3 0.08
38 13 0.35
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (38 bp):
TTTAAAATTTCAAATATTATTTATTAATATTTAAATAA
Found at i:94759732 original size:22 final size:21
Alignment explanation
Indices: 94759616--94759732 Score: 112
Period size: 22 Copynumber: 5.3 Consensus size: 21
94759606 ATATTTTGAA
94759616 ATTATTTTTTAAAATTTTAAAT
1 ATTATTTTTTAAAA-TTTAAAT
94759638 ATTATTTTTTAAAATTTTAAAT
1 ATTATTTTTTAAAA-TTTAAAT
*
94759660 ATTATTTTTTAATATTTAAAT
1 ATTATTTTTTAAAATTTAAAT
* * *
94759681 ATT-TTAAACTTTCAAATTT-ATT
1 ATTATT---TTTTAAAATTTAAAT
*
94759703 ATTAATTTTATAATAATTTAAAT
1 ATT-ATTTTTTAA-AATTTAAAT
94759726 ATTATTT
1 ATTATTT
94759733 AATTTGTTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
20 2 0.03
21 13 0.16
22 49 0.62
23 13 0.16
24 2 0.03
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTATTTTTTAAAATTTAAAT
Found at i:94760058 original size:20 final size:21
Alignment explanation
Indices: 94760014--94760073 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
94760004 ATATCTTTAA
94760014 AAATAAT-TTAAAAATCATAATT
1 AAATAATATTAAAAAT-A-AATT
*
94760036 TAA-AATATTATAAAATAAATT
1 AAATAATATTA-AAAATAAATT
94760057 AAATAATATTAAAAATA
1 AAATAATATTAAAAATA
94760074 TTAACAAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
21 15 0.45
22 13 0.39
23 5 0.15
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
AAATAATATTAAAAATAAATT
Found at i:94760185 original size:22 final size:21
Alignment explanation
Indices: 94760138--94760197 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
94760128 TTATATTATT
**
94760138 AAAAATATATATTTAATGTTTAA
1 AAAAATA-ATATTTAAAATTT-A
*
94760161 AAAAATAATATTTAAAATTTT
1 AAAAATAATATTTAAAATTTA
94760182 AAAAAT-A-ATTTAAAAT
1 AAAAATAATATTTAAAAT
94760198 AATATTTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 9 0.26
20 1 0.03
21 6 0.18
22 11 0.32
23 7 0.21
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
AAAAATAATATTTAAAATTTA
Found at i:94760189 original size:21 final size:21
Alignment explanation
Indices: 94760122--94760197 Score: 66
Period size: 23 Copynumber: 3.6 Consensus size: 21
94760112 AAAATATTTA
* *
94760122 AATATTTTATATTATTAAAAAT
1 AATATTTAAAATT-TTAAAAAT
** *
94760144 ATATATTTAATGTTTAAAAAAAT
1 A-ATATTTAAAATTT-TAAAAAT
94760167 AATATTTAAAATTTTAAAAAT
1 AATATTTAAAATTTTAAAAAT
94760188 -A-ATTTAAAAT
1 AATATTTAAAAT
94760198 AATATTTAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
19 9 0.20
20 1 0.02
21 6 0.13
22 13 0.28
23 17 0.37
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (21 bp):
AATATTTAAAATTTTAAAAAT
Found at i:94760203 original size:53 final size:53
Alignment explanation
Indices: 94760114--94760215 Score: 127
Period size: 53 Copynumber: 1.9 Consensus size: 53
94760104 ATATTTTTAA
* * **
94760114 AATATTTAAATATTTTATATTATTAAAAATATATATTTAATGTTTAAAAAAAT
1 AATATTTAAATATTTTAAATAATTAAAAATATATATTTAAAATTTAAAAAAAT
*
94760167 AATATTTAAA-ATTTTAAAAATAATTTAAAATA-ATATTTAAAATTTAAAA
1 AATATTTAAATATTTT--AAATAATTAAAAATATATATTTAAAATTTAAAA
94760216 TATATATATT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
52 5 0.12
53 25 0.60
54 12 0.29
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (53 bp):
AATATTTAAATATTTTAAATAATTAAAAATATATATTTAAAATTTAAAAAAAT
Found at i:94760291 original size:22 final size:21
Alignment explanation
Indices: 94760261--94760302 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
94760251 AAATTTTTTA
*
94760261 AAATTAATAACAAAAAATAAAT
1 AAATAAATAA-AAAAAATAAAT
*
94760283 AAATAAATAAACAAAATAAA
1 AAATAAATAAAAAAAATAAA
94760303 ACAAGAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (21 bp):
AAATAAATAAAAAAAATAAAT
Found at i:94760339 original size:19 final size:21
Alignment explanation
Indices: 94760317--94760357 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
94760307 GAAAAAATAT
94760317 AAAACTTAAA-AAAAGA-AAA
1 AAAACTTAAAGAAAAGACAAA
*
94760336 AAAATTTAAAGAAAAGACAAA
1 AAAACTTAAAGAAAAGACAAA
94760357 A
1 A
94760358 GATAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 6 0.32
21 4 0.21
ACGTcount: A:0.76, C:0.05, G:0.07, T:0.12
Consensus pattern (21 bp):
AAAACTTAAAGAAAAGACAAA
Found at i:94760554 original size:22 final size:23
Alignment explanation
Indices: 94760502--94760554 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
94760492 ATATCTTTAA
94760502 AAATAAT-TTAAAAATCATAATT
1 AAATAATATTAAAAATCATAATT
*
94760524 TAA-AATATTATAAAA-CA-AATT
1 AAATAATATTA-AAAATCATAATT
94760545 AAATAATATT
1 AAATAATATT
94760555 TACATTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 9 0.35
22 13 0.50
23 4 0.15
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (23 bp):
AAATAATATTAAAAATCATAATT
Found at i:94760621 original size:22 final size:21
Alignment explanation
Indices: 94760594--94760635 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
94760584 AAAAGTTTAA
94760594 AATATTTAAATATTAAAAAAAT
1 AATATTTAAA-ATTAAAAAAAT
*
94760616 AATATTTAAAATTTAAAAAA
1 AATATTTAAAATTAAAAAAA
94760636 GTAACTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
AATATTTAAAATTAAAAAAAT
Found at i:94760720 original size:14 final size:15
Alignment explanation
Indices: 94760697--94760725 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
94760687 TTTTAAAATT
94760697 AATAATAATAAATAA
1 AATAATAATAAATAA
94760712 AATAA-AATAAATAA
1 AATAATAATAAATAA
94760726 TGAGAAAAAG
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAATAAATAA
Found at i:94763881 original size:27 final size:28
Alignment explanation
Indices: 94763842--94763896 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
94763832 ATATAATTAA
*
94763842 AATTAATTAATTT-TTATATAAATTTTT
1 AATTAATTAATTTATTACATAAATTTTT
*
94763869 AATTAA-TATATTTATTACATACATTTTT
1 AATTAATTA-ATTTATTACATAAATTTTT
94763897 TATTCAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 2 0.08
27 10 0.42
28 12 0.50
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (28 bp):
AATTAATTAATTTATTACATAAATTTTT
Found at i:94768300 original size:20 final size:22
Alignment explanation
Indices: 94768257--94768299 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
94768247 AATATTAAAA
94768257 TATATATTTTTAATTAATATTT
1 TATATATTTTTAATTAATATTT
94768279 TATAT-TTTTATAATTAA-ATTT
1 TATATATTTT-TAATTAATATTT
94768300 AATTAATAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TATATATTTTTAATTAATATTT
Found at i:94770635 original size:30 final size:31
Alignment explanation
Indices: 94770562--94770625 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
94770552 TTATAGAATT
* ** *
94770562 GTCATTGAACTATTTGAAAGTTTTCATTTAA
1 GTCACTGAACTATTCAAAAGTTTTCATTCAA
94770593 GTCACTGAACTATTCAAAAGTTTT-ATTCAA
1 GTCACTGAACTATTCAAAAGTTTTCATTCAA
94770623 GTC
1 GTC
94770626 CTTAGACTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 8 0.28
31 21 0.72
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (31 bp):
GTCACTGAACTATTCAAAAGTTTTCATTCAA
Found at i:94778926 original size:60 final size:60
Alignment explanation
Indices: 94778795--94778951 Score: 181
Period size: 60 Copynumber: 2.6 Consensus size: 60
94778785 TTTGAGTTAT
* * * * *
94778795 TGTCTTTTGTTATTACCCTATGTGCTAGGTTTATTATGTGATTGCTTTTGATTTATTGCCATC
1 TGTCTTTTGTTACT--CC-ATGTGCTAGGTTTATCATGTGATTGCTTTTGATGTATTGCAATA
* *
94778858 CG-CTTTTTGTTACTCCATGTGCTAGGTTTATCATGTGATTGCTTTTGATGTGTTGCAATA
1 TGTC-TTTTGTTACTCCATGTGCTAGGTTTATCATGTGATTGCTTTTGATGTATTGCAATA
* * *
94778918 TGTCTTTTGTTACACTATGTGCTAGATTTATCAT
1 TGTCTTTTGTTACTCCATGTGCTAGGTTTATCAT
94778952 TATGTTTAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
60 67 0.83
61 3 0.04
62 1 0.01
63 10 0.12
ACGTcount: A:0.17, C:0.15, G:0.18, T:0.50
Consensus pattern (60 bp):
TGTCTTTTGTTACTCCATGTGCTAGGTTTATCATGTGATTGCTTTTGATGTATTGCAATA
Found at i:94796147 original size:21 final size:20
Alignment explanation
Indices: 94796123--94796168 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
94796113 GAGTTCAACG
94796123 TATAATAGAGTAATATACCAT
1 TATAATA-AGTAATATACCAT
*
94796144 TATAA-ATGTAATATACCAT
1 TATAATAAGTAATATACCAT
94796163 T-TAATA
1 TATAATA
94796169 TATTACAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 3 0.13
19 14 0.61
20 1 0.04
21 5 0.22
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.37
Consensus pattern (20 bp):
TATAATAAGTAATATACCAT
Found at i:94798916 original size:63 final size:63
Alignment explanation
Indices: 94798720--94798917 Score: 236
Period size: 64 Copynumber: 3.1 Consensus size: 63
94798710 AATTAAAAAC
* * *
94798720 TTTTTTCATTTTTTTCGTAAATTGTAAATATGTATATTATTGATGTAAAAATACAATACAAACAA
1 TTTTTTCA--TTTTTCATAAATTGTAAATAAGTATATTATTGATGTAAAAATACAATACAAACAT
* * * * * * *
94798785 TTTTTGCAATTTTCTTAAATTGTAAAAAAAGTATATTATTGATATAAAAATACAATAAAAATAT
1 TTTTTTCATTTTTCATAAATTGT-AAATAAGTATATTATTGATGTAAAAATACAATACAAACAT
* * *
94798849 TTTTTTCATTTTTCATAAATTATAAATAAGTATATTATTGATGTAAAAAAATAA-ACAAACACT
1 TTTTTTCATTTTTCATAAATTGTAAATAAGTATATTATTGATGTAAAAATACAATACAAACA-T
94798912 TTTTTT
1 TTTTTT
94798918 ATAAGATGTG
Statistics
Matches: 112, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
62 5 0.04
63 47 0.42
64 53 0.47
65 7 0.06
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.44
Consensus pattern (63 bp):
TTTTTTCATTTTTCATAAATTGTAAATAAGTATATTATTGATGTAAAAATACAATACAAACAT
Found at i:94801487 original size:35 final size:35
Alignment explanation
Indices: 94801417--94801515 Score: 92
Period size: 35 Copynumber: 2.8 Consensus size: 35
94801407 AATATAATTA
* *
94801417 TAATTATAATTTAAAATTATTAATT-CACATATAAAAT
1 TAATTATAATAT-AAATTA-TAATTACA-ATATAAAAC
* *
94801454 TAATTATAATATACATTATAATTACAATTTAAAAC
1 TAATTATAATATAAATTATAATTACAATATAAAAC
* ** *
94801489 TAATTATAGTATATGTAATAATTACAA
1 TAATTATAATATAAATTATAATTACAA
94801516 ATTATAAACA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
35 35 0.66
36 7 0.13
37 11 0.21
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (35 bp):
TAATTATAATATAAATTATAATTACAATATAAAAC
Found at i:94807945 original size:13 final size:13
Alignment explanation
Indices: 94807927--94807954 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
94807917 ATGCGACATG
94807927 TTAGTACAATCCA
1 TTAGTACAATCCA
94807940 TTAGTACAATCCA
1 TTAGTACAATCCA
94807953 TT
1 TT
94807955 CTCTTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (13 bp):
TTAGTACAATCCA
Found at i:94808390 original size:19 final size:19
Alignment explanation
Indices: 94808347--94808391 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
94808337 CAAATATATA
* *
94808347 ATTATATTTTTTTAAAAGT
1 ATTATATTATCTTAAAAGT
* *
94808366 AATATATTATCTTAAAATT
1 ATTATATTATCTTAAAAGT
94808385 ATTATAT
1 ATTATAT
94808392 AATTATATTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (19 bp):
ATTATATTATCTTAAAAGT
Found at i:94808424 original size:19 final size:18
Alignment explanation
Indices: 94808395--94808437 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
94808385 ATTATATAAT
94808395 TATATTTTAAAAATAAAA
1 TATATTTTAAAAATAAAA
*
94808413 TATATGTTTAAAATTAAAA
1 TATAT-TTTAAAAATAAAA
94808432 TATATT
1 TATATT
94808438 ATTATTGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
TATATTTTAAAAATAAAA
Found at i:94808424 original size:43 final size:43
Alignment explanation
Indices: 94808339--94808454 Score: 110
Period size: 43 Copynumber: 2.6 Consensus size: 43
94808329 TCTAATAACA
* *
94808339 AATATATAATTATATTTTTTTAAAAGTAATATATTATCTTAAAATT
1 AATATATAATTATA---TTTTAAAAATAAAATATTATCTTAAAATT
* *
94808385 ATTATATAATTATATTTTAAAAATAAAATA-TATGTTTAAAATT
1 AATATATAATTATATTTTAAAAATAAAATATTAT-CTTAAAATT
*
94808428 AAAATAT-ATTATTATTGTATAAAAATA
1 AATATATAATTA-TATT-T-TAAAAATA
94808455 GCTTTTGTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
42 7 0.12
43 31 0.52
44 1 0.02
45 8 0.13
46 13 0.22
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.47
Consensus pattern (43 bp):
AATATATAATTATATTTTAAAAATAAAATATTATCTTAAAATT
Found at i:94809572 original size:22 final size:22
Alignment explanation
Indices: 94809547--94809590 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
94809537 TAATCTTATA
*
94809547 ATAAATTATTAATATAATAAAT
1 ATAAATTAGTAATATAATAAAT
* *
94809569 ATAAATTAGTATTTTAATAAAT
1 ATAAATTAGTAATATAATAAAT
94809591 TATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
ATAAATTAGTAATATAATAAAT
Found at i:94809626 original size:13 final size:14
Alignment explanation
Indices: 94809610--94809651 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
94809600 TTTTAATTTT
94809610 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
94809623 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
94809638 ATTTTAAATAATAT
1 ATTTT-AATAATAT
94809652 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:94809636 original size:16 final size:16
Alignment explanation
Indices: 94809614--94809650 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
94809604 AATTTTATTT
94809614 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
94809631 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
94809646 TAATA
1 TAATA
94809651 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:94812828 original size:26 final size:26
Alignment explanation
Indices: 94812791--94812874 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
94812781 CATGATATTC
94812791 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
94812817 TTATCATTAAACATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
94812843 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
94812869 TTATCA
1 TTATCA
94812875 ATTTGTATCA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.36
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:94830110 original size:35 final size:35
Alignment explanation
Indices: 94830066--94830232 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
94830056 TCCTCATTGA
** *
94830066 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
94830101 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
94830141 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
94830176 AATACCATACCTAAATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
94830211 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
94830233 CTTTGCCATG
Statistics
Matches: 115, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
35 85 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:94830149 original size:75 final size:73
Alignment explanation
Indices: 94830061--94830232 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
94830051 GGTTTTCCTC
** * * * **
94830061 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTAAATTTCACAAC
94830125 TCAGTATGG
65 TCAGTATGG
*
94830134 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTAAATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTAAATTTCACAA
94830199 CTCAGTATGG
64 CTCAGTATGG
94830209 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
94830233 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTAAATTTCACAACT
CAGTATGG
Found at i:94833778 original size:20 final size:19
Alignment explanation
Indices: 94833747--94833799 Score: 88
Period size: 19 Copynumber: 2.7 Consensus size: 19
94833737 TCGACCTTCT
94833747 TTTTGTTTAAAAAAATAAA
1 TTTTGTTTAAAAAAATAAA
94833766 TTTTGTTTAAAAAAATAAA
1 TTTTGTTTAAAAAAATAAA
*
94833785 TTTTCTTTTAAAAAA
1 TTTT-GTTTAAAAAA
94833800 GAGGATTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 23 0.72
20 9 0.28
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (19 bp):
TTTTGTTTAAAAAAATAAA
Found at i:94836985 original size:22 final size:22
Alignment explanation
Indices: 94836957--94837011 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
94836947 ATCCATGACT
*
94836957 AACATTCATTCGTCATTTATTC
1 AACATTCATTCGTCATTCATTC
*
94836979 AACATTCATTTGTCATTCATTC
1 AACATTCATTCGTCATTCATTC
*
94837001 ATTCATTCATT
1 A-ACATTCATT
94837012 GCATATATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 21 0.72
23 8 0.28
ACGTcount: A:0.27, C:0.22, G:0.04, T:0.47
Consensus pattern (22 bp):
AACATTCATTCGTCATTCATTC
Found at i:94845353 original size:75 final size:75
Alignment explanation
Indices: 94845250--94845640 Score: 425
Period size: 75 Copynumber: 5.1 Consensus size: 75
94845240 TGATGTTTTT
* * * *
94845250 ATTTCTGTTTTCAAAAAAATCACCTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACATGTTGA
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGA
94845314 GGTATTTTCA
66 GGTATTTTCA
94845324 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTG
1 ATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTG
*
94845388 AGGTAATGTT-A
65 AGGT-ATTTTCA
* * *
94845399 ATTTCTGTTCTTCAGTTTGTGTTTCAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGTCTTA
1 ATTTCTGTT-TTCA-----------AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
**
94845464 GGTCACACATTGAGGTATTTTCA
54 GG-CACACGCTGAGGTATTTTCA
* *
94845487 ATTTATG-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGCTG
*
94845549 AGGTATTTTTA
65 AGGTATTTTCA
* * *
94845560 ATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTCACACACT
1 ATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGCT
*
94845625 TAGGTATTTTCA
64 GAGGTATTTTCA
94845637 ATTT
1 ATTT
94845641 TTACCTTTTC
Statistics
Matches: 270, Mismatches: 26, Indels: 39
0.81 0.08 0.12
Matches are distributed among these distances:
73 61 0.23
74 9 0.03
75 72 0.27
76 4 0.01
77 60 0.22
86 42 0.16
87 5 0.02
88 17 0.06
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (75 bp):
ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGA
GGTATTTTCA
Found at i:94845541 original size:73 final size:74
Alignment explanation
Indices: 94845409--94845640 Score: 324
Period size: 73 Copynumber: 3.1 Consensus size: 74
94845399 ATTTCTGTTC
* * *
94845409 TTCAGTTTGTGTTTCAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTCACACAT
1 TTCAATTTATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTCACACAT
94845474 TGAGGTATT
66 TGAGGTATT
* ** **
94845483 TTCAATTTATGTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGC
1 TTCAATTTATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTCACACAT
94845547 TGAGGTATT
66 TGAGGTATT
* *
94845556 TTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTCACA
1 TTCAATTTATG--TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTCACA
94845621 CACTT-AGGTATT
63 CA-TTGAGGTATT
94845633 TTCAATTT
1 TTCAATTT
94845641 TTACCTTTTC
Statistics
Matches: 137, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
73 61 0.45
74 13 0.09
75 4 0.03
77 58 0.42
78 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (74 bp):
TTCAATTTATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTCACACAT
TGAGGTATT
Found at i:94845547 original size:161 final size:154
Alignment explanation
Indices: 94845258--94845640 Score: 478
Period size: 161 Copynumber: 2.5 Consensus size: 154
94845248 TTATTTCTGT
* * * * **
94845258 TTTCAAAAAAATCACCTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACATGTTGAGGTATTT
1 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTCACACATTGAGGTATTT
*
94845321 TCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
65 TCAATTTATG-CTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
94845386 TGAGGTAATGTTAATTTCTGTTCTTCA
128 TGAGGTAATGTTAATTTCTGTTCTTCA
*
94845413 GTTTGTGTTTCAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTCACACATTGAG
1 -------TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTCACACATTGAG
*
94845478 GTATTTTCAATTTATG-TTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
59 GTATTTTCAATTTATGCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--
* * *
94845541 ACACGCTGAGGTATTTTTAATTTCTGTTTTTCA
122 ACACGCTGAGGTAATGTTAATTTCTGTTCTTCA
94845574 ----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTCACACACTT-AGGTATTT
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTCACACA-TTGAGGTATTT
94845634 TCAATTT
65 TCAATTT
94845641 TTACCTTTTC
Statistics
Matches: 203, Mismatches: 13, Indels: 22
0.85 0.05 0.09
Matches are distributed among these distances:
150 63 0.31
151 2 0.01
159 40 0.20
161 71 0.35
162 4 0.02
163 23 0.11
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (154 bp):
TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTCACACATTGAGGTATTTT
CAATTTATGCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
GGTAATGTTAATTTCTGTTCTTCA
Found at i:94847348 original size:3 final size:3
Alignment explanation
Indices: 94847337--94847389 Score: 51
Period size: 3 Copynumber: 18.3 Consensus size: 3
94847327 TTTTATTTAT
*
94847337 TTA TT- TTA TTA TTA TTA TT- TATA CTA TTA -TA TT- TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA -TTA
94847380 TTA TTA TTA T
1 TTA TTA TTA T
94847390 ATCCATTCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
2 7 0.17
3 32 0.76
4 3 0.07
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:94847355 original size:22 final size:21
Alignment explanation
Indices: 94847324--94847389 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 21
94847314 CACTTTTCCT
*
94847324 TTTTTTTATTTATTTATTTTA
1 TTTTATTATTTATTTATTTTA
* *
94847345 TTATTATTATTTATACTATTATA
1 TT-TTATTATTTAT-TTATTTTA
94847368 TTTTATTATTTA-TTATTATTA
1 TTTTATTATTTATTTATT-TTA
94847389 T
1 T
94847390 ATCCATTCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
20 4 0.11
21 5 0.14
22 20 0.54
23 8 0.22
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTATTATTTATTTATTTTA
Found at i:94847356 original size:18 final size:18
Alignment explanation
Indices: 94847333--94847389 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
94847323 TTTTTTTTAT
94847333 TTATTTATTTTATTATTA
1 TTATTTATTTTATTATTA
**
94847351 TTATTTATACTATTA-TA
1 TTATTTATTTTATTATTA
*
94847368 TTTTATTA-TTTATTATTA
1 TTAT-TTATTTTATTATTA
94847386 TTAT
1 TTAT
94847390 ATCCATTCTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
17 10 0.32
18 21 0.68
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATTTATTTTATTATTA
Found at i:94847546 original size:23 final size:23
Alignment explanation
Indices: 94847519--94848129 Score: 147
Period size: 23 Copynumber: 26.3 Consensus size: 23
94847509 ATCATTTCTA
*
94847519 ATATATATATATCGTATATGTTTTT
1 ATATATAT-TAT-GTATATATTTTT
94847544 ATATATATTATGTATATATTTTT
1 ATATATATTATGTATATATTTTT
94847567 A-ATATTATTA-GTTATATATCTTTT
1 ATATA-TATTATG-TATATAT-TTTT
94847591 ATACTAT-TTCATGTATATATTTTT
1 ATA-TATATT-ATGTATATATTTTT
** *
94847615 ATAT-TATCCT-TAT-TATTATT
1 ATATATATTATGTATATATTTTT
*
94847635 AT-TA-A-TAT-TAGTATATGTTT
1 ATATATATTATGTA-TATATTTTT
*
94847655 -TAT-TA-TATGTATATATCTTT
1 ATATATATTATGTATATATTTTT
*
94847675 A-ATATATATATGTATATATTTAT
1 ATATATAT-TATGTATATATTTTT
*
94847698 GTA-ATATTAT-TA-ATAGTTGTTT
1 ATATATATTATGTATATA-TT-TTT
* *
94847720 -TTTAACATTAT-TAT-TATTTCTAAT
1 ATAT-ATATTATGTATATATTT-T--T
* * **
94847744 ATGCATATACTATGTAAATATTTCA
1 AT--ATATATTATGTATATATTTTT
*
94847769 ATACTATATTATGTATACATTTTTT
1 ATA-TATATTATGTATATA-TTTTT
*
94847794 ATATATATTACGTATATATATCTTT
1 ATATATATTATGTATATAT-T-TTT
* *
94847819 TTA-ATA-T-TGTAT-T-TTTAT
1 ATATATATTATGTATATATTTTT
* * *
94847837 ATATGTCATGTA--TATAT-TTCTA
1 ATATAT-AT-TATGTATATATTTTT
*
94847859 ATACTATATTA--CAT-T-TTTTT
1 ATA-TATATTATGTATATATTTTT
*
94847879 ACATATTATCTTATGTATATATATTTTTT
1 --ATA-TATATTATG--TATATA-TTTTT
* *
94847908 AAAACTATATTATGTATGTATTTTT
1 -ATA-TATATTATGTATATATTTTT
* * * *
94847933 AACACTATATTACGTACATACTTTTA
1 -ATA-TATATTATGTATATA-TTTTT
94847959 ATATCATTATTATGTATATATTTTT
1 ATAT-A-TATTATGTATATATTTTT
*
94847984 A-ATATATATATGTGTATA--TTT
1 ATATATAT-TATGTATATATTTTT
*
94848005 ATGTAGTATTAT-TA-ATAGTTGTTT
1 ATATA-TATTATGTATATA-TT-TTT
* *
94848029 TTA-ATATTAT-TAT-TATTTCTA
1 ATATATATTATGTATATATTT-TT
*
94848050 ATATGTATATAT-TATATATATTTT
1 ATATATAT-TATGTATATAT-TTTT
* *
94848074 -CA-ATACTATGTATATACTTTTT
1 ATATATATTATGTATATA-TTTTT
* *
94848096 AATACTATTATTATGTTTATATTTTA
1 -ATA-TA-TATTATGTATATATTTTT
94848122 ATATATAT
1 ATATATAT
94848130 ATATACGTAT
Statistics
Matches: 438, Mismatches: 73, Indels: 152
0.66 0.11 0.23
Matches are distributed among these distances:
18 7 0.02
19 6 0.01
20 41 0.09
21 34 0.08
22 69 0.16
23 83 0.19
24 62 0.14
25 66 0.15
26 35 0.08
27 15 0.03
28 15 0.03
29 5 0.01
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (23 bp):
ATATATATTATGTATATATTTTT
Found at i:94847617 original size:71 final size:63
Alignment explanation
Indices: 94847526--94847709 Score: 160
Period size: 65 Copynumber: 2.8 Consensus size: 63
94847516 CTAATATATA
*
94847526 TATATCGTATATGTTTTTATATATATTATGTATATATTTTTAATATTATTAGTTATATATCTTTT
1 TATAT-GTATATATTTTTATATATATTATGTATATATTTTTAATATTATTAG---TATATCTTTT
94847591 AT
62 AT
** * * * *
94847593 ACTATTTCATGTATATATTTTTATAT-TATCCT-TAT-TATTATTATTAATATTAGTATATGTTT
1 --TA--T-ATGTATATATTTTTATATATATTATGTATATATTTTTAATATTATTAGTATATCTTT
94847655 TAT
61 TAT
*
94847658 TATATGTATATATCTTTA-ATATATATATGTATATATTTATGTAATATTATTA
1 TATATGTATATATTTTTATATATAT-TATGTATATATTT-T-TAATATTATTA
94847710 ATAGTTGTTT
Statistics
Matches: 93, Mismatches: 13, Indels: 22
0.73 0.10 0.17
Matches are distributed among these distances:
59 2 0.02
60 17 0.18
61 2 0.02
62 3 0.03
63 6 0.06
64 1 0.01
65 20 0.22
68 15 0.16
69 5 0.05
70 4 0.04
71 16 0.17
72 2 0.02
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (63 bp):
TATATGTATATATTTTTATATATATTATGTATATATTTTTAATATTATTAGTATATCTTTTAT
Found at i:94847939 original size:25 final size:25
Alignment explanation
Indices: 94847896--94848004 Score: 98
Period size: 25 Copynumber: 4.4 Consensus size: 25
94847886 ATCTTATGTA
94847896 TATATATTTTTTAAAACTATATTATG
1 TATATA-TTTTTAAAACTATATTATG
* * *
94847922 TATGTATTTTTAACACTATATTACG
1 TATATATTTTTAAAACTATATTATG
* * *
94847947 TACATACTTTTAATA-TCATTATTATG
1 TATATATTTTTAAAACT-A-TATTATG
*
94847973 TATATATTTTTAATA-TATA-TATG
1 TATATATTTTTAAAACTATATTATG
*
94847996 TGTATATTT
1 TATATATTT
94848005 ATGTAGTATT
Statistics
Matches: 70, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
23 12 0.17
24 3 0.04
25 30 0.43
26 25 0.36
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (25 bp):
TATATATTTTTAAAACTATATTATG
Found at i:94848089 original size:20 final size:21
Alignment explanation
Indices: 94848064--94848103 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
94848054 GTATATATTA
94848064 TATATA-TTTTCAATACTATG
1 TATATACTTTTCAATACTATG
*
94848084 TATATACTTTTTAATACTAT
1 TATATACTTTTCAATACTAT
94848104 TATTATGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TATATACTTTTCAATACTATG
Found at i:94853465 original size:21 final size:20
Alignment explanation
Indices: 94853435--94853483 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
94853425 ACATAAATAT
* * *
94853435 ATATACACATATATATTAAA
1 ATATATACATACATAATAAA
94853455 GATATATACATACATAATAAA
1 -ATATATACATACATAATAAA
*
94853476 ACATATAC
1 ATATATAC
94853484 CCATATTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (20 bp):
ATATATACATACATAATAAA
Found at i:94853590 original size:24 final size:24
Alignment explanation
Indices: 94853535--94853647 Score: 81
Period size: 24 Copynumber: 4.6 Consensus size: 24
94853525 CGGGACATAG
*
94853535 TATATAAAAAATACATAACTAATA
1 TATATAAAAAATATATAACTAATA
*
94853559 -ATACTAAAAAATATAT-ACATGATA
1 TATA-TAAAAAATATATAAC-TAATA
*
94853583 TATATAAAAACATATACGATAAATATATA
1 TATATAAAAA-ATAT---ATAACTA-ATA
* * *
94853612 TATATTAGAAAT-GATAA-TAATA
1 TATATAAAAAATATATAACTAATA
94853634 TATATAAAAAATAT
1 TATATAAAAAATAT
94853648 TAATACACTA
Statistics
Matches: 69, Mismatches: 10, Indels: 21
0.69 0.10 0.21
Matches are distributed among these distances:
22 13 0.19
23 7 0.10
24 25 0.36
25 7 0.10
28 5 0.07
29 12 0.17
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (24 bp):
TATATAAAAAATATATAACTAATA
Found at i:94853608 original size:21 final size:22
Alignment explanation
Indices: 94853565--94853609 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
94853555 AATAATACTA
* *
94853565 AAAAATATATACATGATATATAT
1 AAAAACATATACA-GATAAATAT
94853588 AAAAACATATAC-GATAAATAT
1 AAAAACATATACAGATAAATAT
94853609 A
1 A
94853610 TATATATTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
23 11 0.55
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.29
Consensus pattern (22 bp):
AAAAACATATACAGATAAATAT
Found at i:94853652 original size:22 final size:23
Alignment explanation
Indices: 94853535--94853645 Score: 59
Period size: 22 Copynumber: 4.5 Consensus size: 23
94853525 CGGGACATAG
*
94853535 TATATAAAAAATACATAACTA-ATA
1 TATATAAAAAAT-GATAA-TATATA
*
94853559 -ATACTAAAAAAT-ATATACATGATA
1 TATA-TAAAAAATGATA-ATAT-ATA
94853583 TATATAAAAACATATACGATAAATATATA
1 TATAT-AAAA-A-AT--GAT-AATATATA
* *
94853612 TATATTAGAAATGATAATA-ATA
1 TATATAAAAAATGATAATATATA
94853634 TATATAAAAAAT
1 TATATAAAAAAT
94853646 ATTAATACAC
Statistics
Matches: 69, Mismatches: 6, Indels: 26
0.68 0.06 0.26
Matches are distributed among these distances:
22 17 0.25
23 8 0.12
24 15 0.22
25 7 0.10
26 3 0.04
27 3 0.04
28 2 0.03
29 8 0.12
30 5 0.07
31 1 0.01
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (23 bp):
TATATAAAAAATGATAATATATA
Found at i:94853736 original size:21 final size:21
Alignment explanation
Indices: 94853712--94853754 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
94853702 ATACTAGTAC
**
94853712 TAATAATGTTAATAATAAATA
1 TAATAATAATAATAATAAATA
94853733 TAATAATAATAATAATAAATA
1 TAATAATAATAATAATAAATA
94853754 T
1 T
94853755 GTATGCATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
TAATAATAATAATAATAAATA
Found at i:94853970 original size:12 final size:12
Alignment explanation
Indices: 94853955--94853991 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
94853945 TAGTAGTGAA
*
94853955 AATAATGAGTAT
1 AATAATGAATAT
94853967 AATAATGAATAT
1 AATAATGAATAT
94853979 AATAAT-AATAT
1 AATAATGAATAT
94853990 AA
1 AA
94853992 AAAATAATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 7 0.29
12 17 0.71
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
AATAATGAATAT
Found at i:94854143 original size:24 final size:24
Alignment explanation
Indices: 94854093--94854150 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
94854083 ATACAATAAT
*
94854093 AATATGTATATAACGTAGCATTAA
1 AATATGTATATAACATAGCATTAA
* * * *
94854117 AATATGTGTATAATATAGTATTTA
1 AATATGTATATAACATAGCATTAA
*
94854141 AATATATATA
1 AATATGTATA
94854151 CATAATAGAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (24 bp):
AATATGTATATAACATAGCATTAA
Found at i:94855006 original size:21 final size:22
Alignment explanation
Indices: 94854980--94855028 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
94854970 CGAAGAAAAG
94854980 AGAGAAAA-ATAAAATAAAATAA
1 AGAGAAAAGA-AAAATAAAATAA
*
94855002 A-AGAAAAGAAAAATAAACTAA
1 AGAGAAAAGAAAAATAAAATAA
94855023 AGAGAA
1 AGAGAA
94855029 GATCGAGGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (22 bp):
AGAGAAAAGAAAAATAAAATAA
Found at i:94856178 original size:15 final size:15
Alignment explanation
Indices: 94856158--94856191 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
94856148 ATTTTTAAAA
* *
94856158 AAAAAATATAAATTG
1 AAAAAATAGAAACTG
94856173 AAAAAATAGAAACTG
1 AAAAAATAGAAACTG
94856188 AAAA
1 AAAA
94856192 TACCCCAGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.09, T:0.18
Consensus pattern (15 bp):
AAAAAATAGAAACTG
Found at i:94856364 original size:73 final size:73
Alignment explanation
Indices: 94856212--94856488 Score: 339
Period size: 75 Copynumber: 3.7 Consensus size: 73
94856202 TGTGAGCCGG
94856212 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAATT-CCTCA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAA-CAGAAATTG-AAATTACCTCA
*
94856276 GCGTGCCATGA
63 GTGTGCCATGA
* *
94856287 GGCTCAACTCATCTCTCGCAATATGAGTTGA-TTTTTGACAAACAGAAGTTGAAATTACCTCAGT
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAACAGAAATTGAAATTACCTCAGT
*
94856351 GT-CTCCTGA
65 GTGC-CATGA
* *
94856360 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATACCTCAA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAATTACCTC-A
* *
94856425 CT-TGCCTTGA
63 GTGTGCCATGA
* * *
94856435 GGCTCAACTCACCTCTAGCAATATGAATTGA-TTTTTGAAAAACATAAATTGAAA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACAGAAATTGAAA
94856489 AATAGAATTT
Statistics
Matches: 179, Mismatches: 14, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
72 6 0.03
73 74 0.41
74 8 0.04
75 88 0.49
76 3 0.02
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (73 bp):
GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGTG
TGCCATGA
Found at i:94856487 original size:148 final size:152
Alignment explanation
Indices: 94856212--94856643 Score: 556
Period size: 148 Copynumber: 2.8 Consensus size: 152
94856202 TGTGAGCCGG
* *
94856212 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-AGCAGAAATTGAAAATTCCTCA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGA-TAGAAATTGAAAATACCTCA
* * * * * *
94856276 GCGTGCCATGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAGTTG-A-
65 ACTTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAG
*
94856339 AA-T-TACCTCAGTGTCTCCTGA
130 AATTATACCTCAGCGTCTCCTGA
94856360 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATACCTCAA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATACCTCAA
* * *
94856425 CTTGCCTTGAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTTGAAAAACATAAATTGAAAA
66 CTTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG----
*
94856490 ATAGAATTTGAAAATACCTCAGCGTGTCCTGA
127 A-AGAA-TT----ATACCTCAGCGTCTCCTGA
94856522 GGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAGATAGAAATTGAAAATACCTCAA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATACCTCAA
** *
94856586 -TGTTTCTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAAT
66 CT-TGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAAT
94856644 AAAAACATCA
Statistics
Matches: 249, Mismatches: 19, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
148 113 0.45
149 1 0.00
154 1 0.00
155 2 0.01
157 1 0.00
160 11 0.04
161 73 0.29
162 47 0.19
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (152 bp):
GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATACCTCAA
CTTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAGA
ATTATACCTCAGCGTCTCCTGA
Found at i:94856543 original size:87 final size:88
Alignment explanation
Indices: 94856396--94856577 Score: 260
Period size: 87 Copynumber: 2.1 Consensus size: 88
94856386 GTTGATTTTT
* *
94856396 TTGAAAGATAGAAATTGAAAATACCTCAACTTGCCTTGAGGCTCAACTCACCTCTAGCAATATGA
1 TTGAAAAATAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTAGCAATATGA
*
94856461 ATTGA-TTTTTGAAAAACATAAA
66 ATTGATTTTTTGAAAAACAGAAA
* * *
94856483 TTGAAAAATAGAATTTGAAAATACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAATAGAAATTGAAAATACCTCAACGTG-CCTTGAGGCTCAACTCACCTCTAGCAATATG
* * *
94856547 AGTTGATTTTTTGAAAGATAGAAA
65 AATTGATTTTTTGAAAAACAGAAA
94856571 TTGAAAA
1 TTGAAAA
94856578 TACCTCAATG
Statistics
Matches: 84, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
87 61 0.73
88 23 0.27
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.29
Consensus pattern (88 bp):
TTGAAAAATAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTAGCAATATGA
ATTGATTTTTTGAAAAACAGAAA
Found at i:94856604 original size:74 final size:72
Alignment explanation
Indices: 94856487--94856643 Score: 233
Period size: 74 Copynumber: 2.2 Consensus size: 72
94856477 CATAAATTGA
* * *
94856487 AAAATAGAATTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAATAGAAATTGAAAATACCTCAACGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTG
94856552 ATTTTTTG
66 A-TTTTTG
* * *
94856560 AAAGATAGAAATTGAAAATACCTCAATGTTTCTTGAAGCTCAACTCACCTCTCGCAATATGAGTT
1 AAA-ATAGAAATTGAAAATACCTCAACGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTT
94856625 GATTTTTG
65 GATTTTTG
*
94856633 AAAACAGAAAT
1 AAAATAGAAAT
94856644 AAAAACATCA
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
72 7 0.09
73 12 0.16
74 57 0.75
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (72 bp):
AAAATAGAAATTGAAAATACCTCAACGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTG
Found at i:94856619 original size:161 final size:162
Alignment explanation
Indices: 94856321--94856636 Score: 510
Period size: 161 Copynumber: 2.0 Consensus size: 162
94856311 GAGTTGATTT
* * *
94856321 TTGACAAACAGAAGTTGAAATTACCTCAGTGTCTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAGTTGAAAATACCTCAGCGTCTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
94856386 GTTGATTTTTTTGAAAGATAGAAATTGAAAATACCTCAACTTGCCTTGAGGCTCAACTCACCTCT
66 GTTGATTTTTTTGAAAGATAGAAATTGAAAATACCTCAACTTGCCTTGAAGCTCAACTCACCTCT
94856451 AGCAATATGAATTGATTTTTGAAAAACATAAA
131 AGCAATATGAATTGATTTTTGAAAAACATAAA
* * *
94856483 TTGAAAAATAGAATTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAGTTGAAAATACCTCAGCGTCTCCTGAGGCTCAACTCACCTCTCGCAATATGA
**
94856548 GTTGA-TTTTTTGAAAGATAGAAATTGAAAATACCTCAA-TGTTTCTTGAAGCTCAACTCACCTC
66 GTTGATTTTTTTGAAAGATAGAAATTGAAAATACCTCAACT-TGCCTTGAAGCTCAACTCACCTC
* *
94856611 TCGCAATATGAGTTGATTTTTGAAAA
130 TAGCAATATGAATTGATTTTTGAAAA
94856637 CAGAAATAAA
Statistics
Matches: 142, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
160 1 0.01
161 77 0.54
162 64 0.45
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (162 bp):
TTGAAAAACAGAAGTTGAAAATACCTCAGCGTCTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTGAAAGATAGAAATTGAAAATACCTCAACTTGCCTTGAAGCTCAACTCACCTCT
AGCAATATGAATTGATTTTTGAAAAACATAAA
Found at i:94874420 original size:21 final size:20
Alignment explanation
Indices: 94874396--94874434 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
94874386 TAATATTAAT
94874396 TTCAAAAAGAAAATAAAAAAA
1 TTCAAAAA-AAAATAAAAAAA
* *
94874417 TTCACAAAAAAGTAAAAA
1 TTCAAAAAAAAATAAAAA
94874435 GATTGGAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (20 bp):
TTCAAAAAAAAATAAAAAAA
Found at i:94877039 original size:20 final size:21
Alignment explanation
Indices: 94876995--94877048 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
94876985 TACTATTTAA
94876995 TTTAATAA--AAAATTAATAT
1 TTTAATAATTAAAATTAATAT
*
94877014 TGTTAATAATTAAACTTAA-AT
1 T-TTAATAATTAAAATTAATAT
94877035 TTTAA-AATTTAAAA
1 TTTAATAA-TTAAAA
94877049 AAAAACTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
19 3 0.10
20 16 0.55
21 3 0.10
22 7 0.24
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
TTTAATAATTAAAATTAATAT
Found at i:94881482 original size:13 final size:13
Alignment explanation
Indices: 94881464--94881488 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94881454 CAGTAAAAGA
94881464 CAAAAAAAATTTG
1 CAAAAAAAATTTG
94881477 CAAAAAAAATTT
1 CAAAAAAAATTT
94881489 AATTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.04, T:0.24
Consensus pattern (13 bp):
CAAAAAAAATTTG
Found at i:94881672 original size:11 final size:11
Alignment explanation
Indices: 94881656--94881686 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
94881646 TATATATATT
94881656 TAAAAATTATA
1 TAAAAATTATA
*
94881667 TAAAAATAATA
1 TAAAAATTATA
94881678 TAAAAATTA
1 TAAAAATTA
94881687 ATACGGGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:94883783 original size:123 final size:123
Alignment explanation
Indices: 94883559--94883800 Score: 326
Period size: 124 Copynumber: 2.0 Consensus size: 123
94883549 AAATTTTTTT
* * * *
94883559 AAAAAATACAAGTTAGTATAATGGTATATTTGCAATTTAACCCCTCCAAAAATCTATGATTCATC
1 AAAAAATACAAGTTAGTATAATGATAAATTTGCAAGTTAACCCCTCAAAAAATCTATGATTCATC
* *
94883624 TTTGACCCTCTTAAATCAATTTGCTTTGCAACTGATTTGCTTTGTAGCCTCTTTAATA
66 TCTGACCCTCTTAAAGCAATTTGCTTTGCAACTGATTTGCTTTGTAGCCTCTTTAATA
* * * *
94883682 AAAAAATTATAAGTTAGTATAATGATAAAATTT-CAAGTTGACCCTTCAAAAAATTTATGATTCA
1 AAAAAA-TACAAGTTAGTATAATGAT-AAATTTGCAAGTTAACCCCTCAAAAAATCTATGATTCA
** **
94883746 TCTCTGGTCCT-TTAAAGCAATTTGCTTTGCCCCTGATTTGCTTTGTAGCCTCTTT
64 TCTCTGACCCTCTTAAAGCAATTTGCTTTGCAACTGATTTGCTTTGTAGCCTCTTT
94883801 GATTTTTTTT
Statistics
Matches: 103, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
123 47 0.46
124 51 0.50
125 5 0.05
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.39
Consensus pattern (123 bp):
AAAAAATACAAGTTAGTATAATGATAAATTTGCAAGTTAACCCCTCAAAAAATCTATGATTCATC
TCTGACCCTCTTAAAGCAATTTGCTTTGCAACTGATTTGCTTTGTAGCCTCTTTAATA
Found at i:94883888 original size:127 final size:126
Alignment explanation
Indices: 94883424--94883895 Score: 431
Period size: 127 Copynumber: 3.7 Consensus size: 126
94883414 CTCTTTCAAA
* * * *
94883424 TTTT-AAAATTATAAGTTAGTATAATGGTAAATTTGT-ATTTTTAATCCTTCCAAAAAATTATGA
1 TTTTAAAAATTATAAGTTAGTATAATGGTAAATTT-TCA-GTTTAACCCCTCCAAAAATTTATGA
* * * * * *
94883487 TTTATCTTTGACCCCTTTAAGCAATTTTCTGGCTT-CACCTTTGATTTACTTTGTAGCC-CTTTA
64 TTCATCTTTGACCTCTTAAAGCAATTTGCT---TTGC-CC-CTGATTTGCTTTGTAGCCTCTTT-
94883550 AATTT
123 -ATTT
* * * * * *
94883555 TTTTAAAAAATACAAGTTAGTATAATGGTATATTTGCAATTTAACCCCTCCAAAAATCTATGATT
1 TTTTAAAAATTATAAGTTAGTATAATGGTAAATTTTCAGTTTAACCCCTCCAAAAATTTATGATT
* **
94883620 CATCTTTGACCCTCTTAAATCAATTTGCTTTGCAACTGATTTGCTTTGTAGCCTCTTTA---
66 CATCTTTGA-CCTCTTAAAGCAATTTGCTTTGCCCCTGATTTGCTTTGTAGCCTCTTTATTT
* ** * * * * *
94883679 ATAAAAAAATTATAAGTTAGTATAATGATAAAATTTCAAG-TTGACCCTTCAAAAAATTTATGAT
1 TTTTAAAAATTATAAGTTAGTATAATGGTAAATTTTC-AGTTTAACCCCTCCAAAAATTTATGAT
* *
94883743 TCATCTCTGGTCCT-TTAAAGCAATTTGCTTTGCCCCTGATTTGCTTTGTAGCCTCTTTGATTT
65 TCATCT-TTGACCTCTTAAAGCAATTTGCTTTGCCCCTGATTTGCTTTGTAGCCTCTTT-ATTT
*** *
94883806 TTTTTTTAATTATAAGTTAGTATAATGGTAAATTTTCAGTTTGACCCCTCCAAAAATTTATGATT
1 TTTTAAAAATTATAAGTTAGTATAATGGTAAATTTTCAGTTTAACCCCTCCAAAAATTTATGATT
* * * *
94883871 AATCTTTTATCTCTTAAAACAATTT
66 CATCTTTGACCTCTTAAAGCAATTT
94883896 TTTTGGCTTC
Statistics
Matches: 275, Mismatches: 53, Indels: 30
0.77 0.15 0.08
Matches are distributed among these distances:
123 41 0.15
124 58 0.21
125 3 0.01
126 5 0.02
127 68 0.25
128 16 0.06
129 6 0.02
130 1 0.00
131 34 0.12
132 43 0.16
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.43
Consensus pattern (126 bp):
TTTTAAAAATTATAAGTTAGTATAATGGTAAATTTTCAGTTTAACCCCTCCAAAAATTTATGATT
CATCTTTGACCTCTTAAAGCAATTTGCTTTGCCCCTGATTTGCTTTGTAGCCTCTTTATTT
Found at i:94885111 original size:21 final size:21
Alignment explanation
Indices: 94885087--94885126 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
94885077 ACATTATATA
*
94885087 TATTGATTAATTATAATAAAT
1 TATTAATTAATTATAATAAAT
* *
94885108 TATTAATTTATTATTATAA
1 TATTAATTAATTATAATAA
94885127 TTAAGTCATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (21 bp):
TATTAATTAATTATAATAAAT
Found at i:94885460 original size:18 final size:18
Alignment explanation
Indices: 94885437--94885479 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
94885427 ATTTAAGGTG
94885437 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
94885455 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
94885473 TAATTAA
1 TAATTAA
94885480 AAATCTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:94887169 original size:13 final size:13
Alignment explanation
Indices: 94887151--94887175 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94887141 TTAATTCATA
94887151 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
94887164 TTTTTCTTTTTT
1 TTTTTCTTTTTT
94887176 CTGATTTCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TTTTTCTTTTTTT
Done.