Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold1423
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1072665
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.29
Warning! 119513 characters in sequence are not A, C, G, or T
File 2 of 3
Found at i:10577 original size:13 final size:13
Alignment explanation
Indices: 10559--10583 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10549 ATTGAAAAAA
10559 AAGTATTAATTTT
1 AAGTATTAATTTT
10572 AAGTATTAATTT
1 AAGTATTAATTT
10584 AAAAAAGAGT
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:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
AAGTATTAATTTT
Found at i:15140 original size:180 final size:180
Alignment explanation
Indices: 14838--15190 Score: 537
Period size: 180 Copynumber: 2.0 Consensus size: 180
14828 AAAGTACCTC
* *
14838 ATATGCAATATTTTGCTAAAAAAAGACTAAGTTCAAAAGCTGGTATTTTTTTCATAAATAATCAG
1 ATATGCAATATTTTGCTAAAAAAAGACTAACTTCAAAAGCTGGTATTTTTTTCACAAATAATCAG
*
14903 AAATAAAAATCCTAAAAATATTCACACCTCTGATACATGTACAATTAATCTGCAAAAGAACAACT
66 AAATAAAAATCCTAAAAATATGCACACCTCTGATACATGTACAATTAATCTGCAAAAGAACAACT
* * *
14968 TTTTATCTAT-AAAACTGTAGGAATAGTTATCCGTACAATGAGGTAACCCT
131 TCTTATCT-TGAAAACTGTAAGAAGAGTTATCCGTACAATGAGGTAACCCT
** *
15018 ATATGCAATATTTTGCTAAAAATTGACTAACTTCAAAAGCTGGTATTTTTTTCACAAATTATCAG
1 ATATGCAATATTTTGCTAAAAAAAGACTAACTTCAAAAGCTGGTATTTTTTTCACAAATAATCAG
* * ** * * *
15083 TAATCAAAATCCTAGCAATATGCACACCTCTGATATATGTATAATTGATCTGCAAAAGAACAACT
66 AAATAAAAATCCTAAAAATATGCACACCTCTGATACATGTACAATTAATCTGCAAAAGAACAACT
*
15148 TCTTATCTTGAAAACTGTAAGAGGAGTTATCCGTACAATGAGG
131 TCTTATCTTGAAAACTGTAAGAAGAGTTATCCGTACAATGAGG
15191 GTACGCTATA
Statistics
Matches: 155, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
179 1 0.01
180 154 0.99
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (180 bp):
ATATGCAATATTTTGCTAAAAAAAGACTAACTTCAAAAGCTGGTATTTTTTTCACAAATAATCAG
AAATAAAAATCCTAAAAATATGCACACCTCTGATACATGTACAATTAATCTGCAAAAGAACAACT
TCTTATCTTGAAAACTGTAAGAAGAGTTATCCGTACAATGAGGTAACCCT
Found at i:15575 original size:179 final size:180
Alignment explanation
Indices: 15275--16018 Score: 1215
Period size: 179 Copynumber: 4.1 Consensus size: 180
15265 TACAAGCAAT
* * * * *
15275 TTTTTTTCATAAATTATC-AGTAACCAAACTCCTAGCAATAAGCACACCTCTGATATATGTATAA
1 TTTTTTTCATAAATTATCGA-AAATCAAAATCCTAGCAATATGCATACCTCTGATATATGTATAA
* * * * *
15339 CTGATCTGCAAAAGAAAAATTTCCTATCTTGAGAACTGTAGGAGGAGTTATCCGTACAATGAGGG
65 CTGATCTGCAAAAGAACAACTTCCTATTTTGAAAACTGTAGGAGGACTTATCCGTACAATGAGGG
*
15404 TACCCTATATGCAATATTTTGCC-AAAAATGACTAAGTTCAAAAGCTGGTA
130 TACCCTATATGCAATATTTTGCCAAAAAATGACCAAGTTCAAAAGCTGGTA
* * *
15454 TTTTTTTCATAAATTATCGAAAATCAAAATCCTAACAATATGCATACCTCTGATATATGTGTAAT
1 TTTTTTTCATAAATTATCGAAAATCAAAATCCTAGCAATATGCATACCTCTGATATATGTATAAC
* *
15519 TGATCTGCAAAAGAACAACTTCCTGTTTTGAAAACTGTAGGAGGACTTATCCGTACAATGAGTGT
66 TGATCTGCAAAAGAACAACTTCCTATTTTGAAAACTGTAGGAGGACTTATCCGTACAATGAGGGT
*
15584 ACCCTATATGCAATATTTTGCCAAAAAATGACAAAGTTCAAAAGCTGGTA
131 ACCCTATATGCAATATTTTGCCAAAAAATGACCAAGTTCAAAAGCTGGTA
15634 -TTTTTTCATAAATTATCGAAAATCAAAATCCTAGCAATATGCATACCTCTGATATATGTATAAC
1 TTTTTTTCATAAATTATCGAAAATCAAAATCCTAGCAATATGCATACCTCTGATATATGTATAAC
15698 TGATCTGCAAAAGAACAACTTCCTATTTTGAAAACTGTAGGAGGACTTATCCGTACAATGAGGGT
66 TGATCTGCAAAAGAACAACTTCCTATTTTGAAAACTGTAGGAGGACTTATCCGTACAATGAGGGT
15763 ACCCTATATGCAATATTTTGCCAAAAAATGACCAAGTTCAAAAGCTGGTA
131 ACCCTATATGCAATATTTTGCCAAAAAATGACCAAGTTCAAAAGCTGGTA
* * *
15813 TTATTTTCATAAATTATCGAAAATCAAAATCCTAGCAATATGCATACCTCTGATATATGTTTAAT
1 TTTTTTTCATAAATTATCGAAAATCAAAATCCTAGCAATATGCATACCTCTGATATATGTATAAC
* * *
15878 TGATCTGCAAAAGAACAACTTCCTGTTTTGAAAACTGTAGGAGGACTTATCCATACAATGATGGT
66 TGATCTGCAAAAGAACAACTTCCTATTTTGAAAACTGTAGGAGGACTTATCCGTACAATGAGGGT
15943 ACCCTATATGCAATATTTTGCCAAAAAATGACCAAGTTCAAAAGCTGGTA
131 ACCCTATATGCAATATTTTGCCAAAAAATGACCAAGTTCAAAAGCTGGTA
*
15993 TTTTGTTTTCCATAAATTATCAAAAA
1 -TTT-TTTT-CATAAATTATCGAAAA
16019 AAATTTTTTT
Statistics
Matches: 529, Mismatches: 30, Indels: 8
0.93 0.05 0.01
Matches are distributed among these distances:
179 308 0.58
180 200 0.38
181 2 0.00
182 4 0.01
183 15 0.03
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (180 bp):
TTTTTTTCATAAATTATCGAAAATCAAAATCCTAGCAATATGCATACCTCTGATATATGTATAAC
TGATCTGCAAAAGAACAACTTCCTATTTTGAAAACTGTAGGAGGACTTATCCGTACAATGAGGGT
ACCCTATATGCAATATTTTGCCAAAAAATGACCAAGTTCAAAAGCTGGTA
Found at i:15937 original size:359 final size:358
Alignment explanation
Indices: 15276--16014 Score: 1257
Period size: 359 Copynumber: 2.1 Consensus size: 358
15266 ACAAGCAATT
* *
15276 TTTTTTCATAAATTATCAGTAACCAAACTCCTAGCAATAAGCACACCTCTGATATATGTATAACT
1 TTTTTTCATAAATTATCAGAAACCAAAATCCTAGCAATAAGCACACCTCTGATATATGTATAACT
* * *
15341 GATCTGCAAAAGAAAAATTTCCTATCTTGAGAACTGTAGGAGGAGTTATCCGTACAATGAGGGTA
66 GATCTGCAAAAGAAAAACTTCCTATCTTGAAAACTGTAGGAGGACTTATCCGTACAATGAGGGTA
* *
15406 CCCTATATGCAATATTTTGCCAAAAATGACTAAGTTCAAAAGCTGGTATTTTTTTCATAAATTAT
131 CCCTATATGCAATATTTTGCCAAAAATGACCAAGTTCAAAAGCTGGTATTATTTTCATAAATTAT
15471 CGAAAATCAAAATCCTAACAATATGCATACCTCTGATATATGTGTAATTGATCTGCAAAAGAACA
196 CGAAAATCAAAATCCTAACAATATGCATACCTCTGATATATGTGTAATTGATCTGCAAAAGAACA
*
15536 ACTTCCTGTTTTGAAAACTGTAGGAGGACTTATCCGTACAATGA-GTGTACCCTATATGCAATAT
261 ACTTCCTGTTTTGAAAACTGTAGGAGGACTTATCCATACAATGATG-GTACCCTATATGCAATAT
15600 TTTGCCAAAAAATGACAAAGTTCAAAAGCTGGTA
325 TTTGCCAAAAAATGACAAAGTTCAAAAGCTGGTA
* * *
15634 TTTTTTCATAAATTATC-GAAAATCAAAATCCTAGCAATATGCATACCTCTGATATATGTATAAC
1 TTTTTTCATAAATTATCAG-AAACCAAAATCCTAGCAATAAGCACACCTCTGATATATGTATAAC
* *
15698 TGATCTGCAAAAGAACAACTTCCTATTTTGAAAACTGTAGGAGGACTTATCCGTACAATGAGGGT
65 TGATCTGCAAAAGAAAAACTTCCTATCTTGAAAACTGTAGGAGGACTTATCCGTACAATGAGGGT
15763 ACCCTATATGCAATATTTTGCCAAAAAATGACCAAGTTCAAAAGCTGGTATTATTTTCATAAATT
130 ACCCTATATGCAATATTTTGCC-AAAAATGACCAAGTTCAAAAGCTGGTATTATTTTCATAAATT
* *
15828 ATCGAAAATCAAAATCCTAGCAATATGCATACCTCTGATATATGTTTAATTGATCTGCAAAAGAA
194 ATCGAAAATCAAAATCCTAACAATATGCATACCTCTGATATATGTGTAATTGATCTGCAAAAGAA
15893 CAACTTCCTGTTTTGAAAACTGTAGGAGGACTTATCCATACAATGATGGTACCCTATATGCAATA
259 CAACTTCCTGTTTTGAAAACTGTAGGAGGACTTATCCATACAATGATGGTACCCTATATGCAATA
*
15958 TTTTGCCAAAAAATGACCAAGTTCAAAAGCTGGTA
324 TTTTGCCAAAAAATGACAAAGTTCAAAAGCTGGTA
15993 TTTTGTTTTCCATAAATTATCA
1 --TT-TTTT-CATAAATTATCA
16015 AAAAAAATTT
Statistics
Matches: 357, Mismatches: 16, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
357 1 0.00
358 139 0.39
359 199 0.56
360 1 0.00
361 2 0.01
362 4 0.01
363 11 0.03
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (358 bp):
TTTTTTCATAAATTATCAGAAACCAAAATCCTAGCAATAAGCACACCTCTGATATATGTATAACT
GATCTGCAAAAGAAAAACTTCCTATCTTGAAAACTGTAGGAGGACTTATCCGTACAATGAGGGTA
CCCTATATGCAATATTTTGCCAAAAATGACCAAGTTCAAAAGCTGGTATTATTTTCATAAATTAT
CGAAAATCAAAATCCTAACAATATGCATACCTCTGATATATGTGTAATTGATCTGCAAAAGAACA
ACTTCCTGTTTTGAAAACTGTAGGAGGACTTATCCATACAATGATGGTACCCTATATGCAATATT
TTGCCAAAAAATGACAAAGTTCAAAAGCTGGTA
Found at i:18622 original size:42 final size:42
Alignment explanation
Indices: 18565--18756 Score: 160
Period size: 42 Copynumber: 4.6 Consensus size: 42
18555 TCCAGTAAAA
* * * *
18565 ATGATTTTTATCTGTGATAAGGTGTGTTTTACCTCTGGCAGG
1 ATGAGTTTTACCTGTGACAAGGTGTGTTTTACCTCTGACAGG
* *
18607 ATGAGTTTTACCTGTGAC-AGGATGAGTTTTTACCTGTGAC-GG
1 ATGAGTTTTACCTGTGACAAGG-TGTG-TTTTACCTCTGACAGG
* * *
18649 -CGAGTTTTTACCCGTGACAGGGTGTGTTTTACC-CGTGACAGG
1 ATGAG-TTTTACCTGTGACAAGGTGTGTTTTACCTC-TGACAGG
* * * * **
18691 GTGTGTTTTACCAGTGACAGGGTGTGTTTTACCAGTGACA-G
1 ATGAGTTTTACCTGTGACAAGGTGTGTTTTACCTCTGACAGG
*
18732 AGTGAATTTTACCTGTGACAAGGTG
1 A-TGAGTTTTACCTGTGACAAGGTG
18757 AGATCCGCCT
Statistics
Matches: 121, Mismatches: 20, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
41 18 0.15
42 88 0.73
43 15 0.12
ACGTcount: A:0.20, C:0.15, G:0.29, T:0.35
Consensus pattern (42 bp):
ATGAGTTTTACCTGTGACAAGGTGTGTTTTACCTCTGACAGG
Found at i:18678 original size:63 final size:63
Alignment explanation
Indices: 18608--18751 Score: 175
Period size: 63 Copynumber: 2.3 Consensus size: 63
18598 TCTGGCAGGA
* * *
18608 TGAGTTTTACCTGTGACAGGATGAGTTTTTACCTGTGAC-GGCGAGT-TTTTACCCGTGACAGGG
1 TGAGTTTTACCTGTGACAGGATGAG-TTTTACCAGTGACAGG-GAGTGTTTTACCAGTGACAGAG
* * * * *
18671 TGTGTTTTACCCGTGACAGGGTGTGTTTTACCAGTGACAGGGTGTGTTTTACCAGTGACAGAG
1 TGAGTTTTACCTGTGACAGGATGAGTTTTACCAGTGACAGGGAGTGTTTTACCAGTGACAGAG
*
18734 TGAATTTTACCTGTGACA
1 TGAGTTTTACCTGTGACA
18752 AGGTGAGATC
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
62 15 0.22
63 53 0.78
ACGTcount: A:0.20, C:0.17, G:0.29, T:0.34
Consensus pattern (63 bp):
TGAGTTTTACCTGTGACAGGATGAGTTTTACCAGTGACAGGGAGTGTTTTACCAGTGACAGAG
Found at i:18757 original size:21 final size:21
Alignment explanation
Indices: 18570--18758 Score: 145
Period size: 21 Copynumber: 9.0 Consensus size: 21
18560 TAAAAATGAT
* * *
18570 TTTTATCTGTGATAAGGTGTG
1 TTTTACCTGTGACAAGGTGAG
* *
18591 TTTTACCTCTGGC-AGGATGAG
1 TTTTACCTGTGACAAGG-TGAG
18612 TTTTACCTGTGAC-AGGATGAG
1 TTTTACCTGTGACAAGG-TGAG
*
18633 TTTTTACCTGTGAC--GGCGAG
1 -TTTTACCTGTGACAAGGTGAG
* * *
18653 TTTTTACCCGTGACAGGGTGTG
1 -TTTTACCTGTGACAAGGTGAG
* * *
18675 TTTTACCCGTGACAGGGTGTG
1 TTTTACCTGTGACAAGGTGAG
* * *
18696 TTTTACCAGTGACAGGGTGTG
1 TTTTACCTGTGACAAGGTGAG
* *
18717 TTTTACCAGTGAC-AGAGTGAA
1 TTTTACCTGTGACAAG-GTGAG
18738 TTTTACCTGTGACAAGGTGAG
1 TTTTACCTGTGACAAGGTGAG
18759 ATCCGCCTCC
Statistics
Matches: 145, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
20 20 0.14
21 106 0.73
22 19 0.13
ACGTcount: A:0.20, C:0.15, G:0.30, T:0.35
Consensus pattern (21 bp):
TTTTACCTGTGACAAGGTGAG
Found at i:24380 original size:168 final size:168
Alignment explanation
Indices: 24067--24384 Score: 388
Period size: 168 Copynumber: 1.9 Consensus size: 168
24057 CACGAACTTG
* * * * *
24067 TACATTTTAACTATATGGCCATATTGGCCCCACCCTAGAGCCTGAACCCCTGACTCAGGGGTCAT
1 TACATTTTAACTATATGGCCATATAGGCCCCACCCTAGAGCATGAACCCCTGACCCAAGGGCCAT
* *** *
24132 GAATTTCACAATTTAGGTAGAGGGCTGAATGTACATCATAATCATGCATTTAGTTTTTAACAAAT
66 GAATTTCACAATTTAGGTAGAGGGCTGAATGGACATCATAATCATGCAACCAGTTTTTAACAAAC
*
24197 ATCTATGGTAGTAGAGAAGAAGATTTTCCAAGATTTTA
131 ATCTATGGGAGTAGAGAAGAAGATTTTCCAAGATTTTA
* * * *
24235 TACATTTTTACTATATGGCCATATAGGCCCCACCTTAGAGTCAT-TATCCCTGACCCAAGGGCCA
1 TACATTTTAACTATATGGCCATATAGGCCCCACCCTAGAG-CATGAACCCCTGACCCAAGGGCCA
* ** ** **
24299 TGAATTTCACAATTTTGGTAGAGGGCTTCATGGACATCATAA-CTATGCAACCAGTTTTTTCCTC
65 TGAATTTCACAATTTAGGTAGAGGGCTGAATGGACATCATAATC-ATGCAACCAGTTTTTAACAA
* *
24363 ACATGTGTGGGAGTAGAGAAGA
129 ACATCTATGGGAGTAGAGAAGA
24385 TTTTTGAAAA
Statistics
Matches: 124, Mismatches: 24, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
167 1 0.01
168 121 0.98
169 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (168 bp):
TACATTTTAACTATATGGCCATATAGGCCCCACCCTAGAGCATGAACCCCTGACCCAAGGGCCAT
GAATTTCACAATTTAGGTAGAGGGCTGAATGGACATCATAATCATGCAACCAGTTTTTAACAAAC
ATCTATGGGAGTAGAGAAGAAGATTTTCCAAGATTTTA
Found at i:26676 original size:37 final size:37
Alignment explanation
Indices: 26616--26972 Score: 430
Period size: 37 Copynumber: 9.7 Consensus size: 37
26606 GGATAGTTCC
* *
26616 AGGATAACA-AATTACAGATTGGATAGTTGATTGGATG
1 AGGATAACATAA-GACAGATTGGATAGTTCATTGGATG
* * ** *
26653 AGAATTACATATTACAGATTGGATAGTTGATTGGATG
1 AGGATAACATAAGACAGATTGGATAGTTCATTGGATG
* ** *
26690 GGGATAACATAAGACAGACGGGATACTTCATTGGATG
1 AGGATAACATAAGACAGATTGGATAGTTCATTGGATG
** *
26727 AGGATATTATAAGACAGATTGGATAATTCATTGGATG
1 AGGATAACATAAGACAGATTGGATAGTTCATTGGATG
*
26764 AGGATAACATAAGACAGATTGAATAGTTCATTGGATG
1 AGGATAACATAAGACAGATTGGATAGTTCATTGGATG
*
26801 AGGATAACATAAGACAGATTGAATAGTTCATTGGATG
1 AGGATAACATAAGACAGATTGGATAGTTCATTGGATG
26838 AGGATAACA-AAGACAGATTGGATAGTTCATTGGATG
1 AGGATAACATAAGACAGATTGGATAGTTCATTGGATG
* ** * * **
26874 AGGATAAAATATTAAAGATTGGATAATTCATTTTATG
1 AGGATAACATAAGACAGATTGGATAGTTCATTGGATG
** *
26911 AGGATAACATAAGGTAGATTGGATAGTCCATTGGATG
1 AGGATAACATAAGACAGATTGGATAGTTCATTGGATG
* * *
26948 AGGATAATATAAGATATATTGGATA
1 AGGATAACATAAGACAGATTGGATA
26973 ATGTGGAATC
Statistics
Matches: 276, Mismatches: 42, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
36 34 0.12
37 241 0.87
38 1 0.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.29
Consensus pattern (37 bp):
AGGATAACATAAGACAGATTGGATAGTTCATTGGATG
Found at i:26920 original size:147 final size:148
Alignment explanation
Indices: 26616--26961 Score: 453
Period size: 147 Copynumber: 2.3 Consensus size: 148
26606 GGATAGTTCC
* * * * ** *
26616 AGGATAACA-AATTACAGATTGGATAGTTGATTGGATGAGAATTACATATTACAGATTGGATAGT
1 AGGATAACATAA-GACAGATTGGATAGTTCATTGGATGAGGATAACATAAGACAGATTGAATAGT
* * ** *
26680 TGATTGGATGGGGATAACATAAGACAGACGGGATACTTCATTGGATGAGGATATTATAAGACAGA
65 TCATTGGATGAGGATAACATAAGACAGACGGGATACTTCATTGGATGAGGATAAAATAAGAAAGA
26745 TTGGATAATTCATTGGATG
130 TTGGATAATTCATTGGATG
*
26764 AGGATAACATAAGACAGATTGAATAGTTCATTGGATGAGGATAACATAAGACAGATTGAATAGTT
1 AGGATAACATAAGACAGATTGGATAGTTCATTGGATGAGGATAACATAAGACAGATTGAATAGTT
** * **
26829 CATTGGATGAGGATAACA-AAGACAGATTGGATAGTTCATTGGATGAGGATAAAATATTAAAGAT
66 CATTGGATGAGGATAACATAAGACAGACGGGATACTTCATTGGATGAGGATAAAATAAGAAAGAT
**
26893 TGGATAATTCATTTTATG
131 TGGATAATTCATTGGATG
** * *
26911 AGGATAACATAAGGTAGATTGGATAGTCCATTGGATGAGGATAATATAAGA
1 AGGATAACATAAGACAGATTGGATAGTTCATTGGATGAGGATAACATAAGA
26962 TATATTGGAT
Statistics
Matches: 172, Mismatches: 25, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
147 100 0.58
148 70 0.41
149 2 0.01
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.29
Consensus pattern (148 bp):
AGGATAACATAAGACAGATTGGATAGTTCATTGGATGAGGATAACATAAGACAGATTGAATAGTT
CATTGGATGAGGATAACATAAGACAGACGGGATACTTCATTGGATGAGGATAAAATAAGAAAGAT
TGGATAATTCATTGGATG
Found at i:27247 original size:37 final size:37
Alignment explanation
Indices: 27187--27470 Score: 261
Period size: 37 Copynumber: 7.6 Consensus size: 37
27177 GGAATCCACA
** * *
27187 ATAGTTCACAGGATGAGTATAACATAAGTTAGATTGG
1 ATAGTTCATTGGATGAGGATAACATAAGATAGATTGG
* * * * *
27224 ACAGATCATTGGATGAAGATAACATAAAACAGATTGG
1 ATAGTTCATTGGATGAGGATAACATAAGATAGATTGG
* * **
27261 ATATTTCATTGGATGAGGATTACAT-ATTTCAGATTGG
1 ATAGTTCATTGGATGAGGATAACATAAGAT-AGATTGG
** *
27298 ATAGTTCATTGGATGAGGATTGCATATGATAGATTGG
1 ATAGTTCATTGGATGAGGATAACATAAGATAGATTGG
* *
27335 ATAGTTCCTTGGATGAGGATTACATACA-ATAGATTGG
1 ATAGTTCATTGGATGAGGATAACATA-AGATAGATTGG
*
27372 ATAGTTCATTGGATGAGGATAACATATTGCA-A-ATTGG
1 ATAGTTCATTGGATGAGGATAACATA-AG-ATAGATTGG
* *
27409 ATAGTTCATTGGATGAGAATATTAAACATAAGACAGATTGG
1 ATAGTTCATTGGATGAG--GA-T-AACATAAGATAGATTGG
* *
27450 AAAGTTCACTGGATGAGGATA
1 ATAGTTCATTGGATGAGGATA
27471 CTTGATGGAT
Statistics
Matches: 202, Mismatches: 34, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
36 1 0.00
37 165 0.82
38 3 0.01
39 4 0.02
40 3 0.01
41 26 0.13
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.31
Consensus pattern (37 bp):
ATAGTTCATTGGATGAGGATAACATAAGATAGATTGG
Found at i:27381 original size:111 final size:111
Alignment explanation
Indices: 27216--27425 Score: 321
Period size: 111 Copynumber: 1.9 Consensus size: 111
27206 TAACATAAGT
*
27216 TAGATTGGACAGATCATTGGATGAAGATAACATAAAACAGATTGGATATTTCATTGGATGAGGAT
1 TAGATTGGACAGATCATTGGATGAAGATAACATAAAACAGATTGGATAGTTCATTGGATGAGGAT
* * *
27281 TACATATTTCAGATTGGATAGTTCATTGGATGAGGATTGCATATGA
66 AACATATTGCAAATTGGATAGTTCATTGGATGAGGATTGCATATGA
* * * * * * *
27327 TAGATTGGATAGTTCCTTGGATGAGGATTACATACAATAGATTGGATAGTTCATTGGATGAGGAT
1 TAGATTGGACAGATCATTGGATGAAGATAACATAAAACAGATTGGATAGTTCATTGGATGAGGAT
27392 AACATATTGCAAATTGGATAGTTCATTGGATGAG
66 AACATATTGCAAATTGGATAGTTCATTGGATGAG
27426 AATATTAAAC
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
111 88 1.00
ACGTcount: A:0.34, C:0.08, G:0.25, T:0.33
Consensus pattern (111 bp):
TAGATTGGACAGATCATTGGATGAAGATAACATAAAACAGATTGGATAGTTCATTGGATGAGGAT
AACATATTGCAAATTGGATAGTTCATTGGATGAGGATTGCATATGA
Found at i:31950 original size:31 final size:32
Alignment explanation
Indices: 31914--31989 Score: 118
Period size: 31 Copynumber: 2.4 Consensus size: 32
31904 GAAACATTGC
*
31914 GGTGCGAACCATCTCAGCGCGAAACA-GAATA
1 GGTGCGAACCATCTCAGCGCAAAACATGAATA
*
31945 GGTGCGAACCATCTCAGCGCAAAACATGTATA
1 GGTGCGAACCATCTCAGCGCAAAACATGAATA
*
31977 GGTGCGAAACATC
1 GGTGCGAACCATC
31990 CCGTACCCGT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 25 0.61
32 16 0.39
ACGTcount: A:0.34, C:0.25, G:0.25, T:0.16
Consensus pattern (32 bp):
GGTGCGAACCATCTCAGCGCAAAACATGAATA
Found at i:47600 original size:47 final size:48
Alignment explanation
Indices: 47529--47632 Score: 138
Period size: 47 Copynumber: 2.1 Consensus size: 48
47519 TTATTTAATC
* *
47529 ATCACATATTTTTATTAGAATTTTTCCTCTC-ATAATTAATCAACAATA
1 ATCA-ATATTTTCATTAGAATTTTTCCTCTCTATAATTAACCAACAATA
* * *
47577 ATCAATATTTTCATTAGATTTTTTCCTCTCTTATAATTGACCAATAATA
1 ATCAATATTTTCATTAGAATTTTTCCTCTC-TATAATTAACCAACAATA
47626 ATCAATA
1 ATCAATA
47633 AAACAATAGT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
47 24 0.49
48 4 0.08
49 21 0.43
ACGTcount: A:0.37, C:0.16, G:0.03, T:0.44
Consensus pattern (48 bp):
ATCAATATTTTCATTAGAATTTTTCCTCTCTATAATTAACCAACAATA
Found at i:50922 original size:18 final size:18
Alignment explanation
Indices: 50896--50956 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 18
50886 GGTGGATTTA
50896 GTGGAGGAGGCTTTGGAG
1 GTGGAGGAGGCTTTGGAG
*
50914 GTGGGGGAGGCTTTGGAG
1 GTGGAGGAGGCTTTGGAG
* * *
50932 GAGGAGGTGGATTTGGAG
1 GTGGAGGAGGCTTTGGAG
*
50950 GAGGAGG
1 GTGGAGG
50957 TGGATTTGGT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.18, C:0.03, G:0.59, T:0.20
Consensus pattern (18 bp):
GTGGAGGAGGCTTTGGAG
Found at i:50938 original size:36 final size:36
Alignment explanation
Indices: 50907--50992 Score: 118
Period size: 36 Copynumber: 2.4 Consensus size: 36
50897 TGGAGGAGGC
* *
50907 TTTGGAGGTGGGGGAGGCTTTGGAGGAGGAGGTGGA
1 TTTGGAGGAGGGGGAGGATTTGGAGGAGGAGGTGGA
* * * *
50943 TTTGGAGGAGGAGGTGGATTTGGTGGAGGCGGTGGA
1 TTTGGAGGAGGGGGAGGATTTGGAGGAGGAGGTGGA
50979 TTTGGAGGAGGGGG
1 TTTGGAGGAGGGGG
50993 CGGTGGCGGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.16, C:0.02, G:0.58, T:0.23
Consensus pattern (36 bp):
TTTGGAGGAGGGGGAGGATTTGGAGGAGGAGGTGGA
Found at i:50957 original size:18 final size:18
Alignment explanation
Indices: 50925--50989 Score: 112
Period size: 18 Copynumber: 3.6 Consensus size: 18
50915 TGGGGGAGGC
50925 TTTGGAGGAGGAGGTGGA
1 TTTGGAGGAGGAGGTGGA
50943 TTTGGAGGAGGAGGTGGA
1 TTTGGAGGAGGAGGTGGA
* *
50961 TTTGGTGGAGGCGGTGGA
1 TTTGGAGGAGGAGGTGGA
50979 TTTGGAGGAGG
1 TTTGGAGGAGG
50990 GGGCGGTGGC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.18, C:0.02, G:0.55, T:0.25
Consensus pattern (18 bp):
TTTGGAGGAGGAGGTGGA
Found at i:51004 original size:36 final size:36
Alignment explanation
Indices: 50931--51005 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 36
50921 AGGCTTTGGA
* **
50931 GGAGGAGGTGGATTTGGAGGAGGAGGTGGATTTGGT
1 GGAGGAGGTGGATTTGGAGGAGGAGGCGGATGCGGT
* *
50967 GGAGGCGGTGGATTTGGAGGAGGGGGCGG-TGGCGGT
1 GGAGGAGGTGGATTTGGAGGAGGAGGCGGAT-GCGGT
51003 GGA
1 GGA
51006 TTTGGAGGAG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
35 1 0.03
36 32 0.97
ACGTcount: A:0.16, C:0.04, G:0.60, T:0.20
Consensus pattern (36 bp):
GGAGGAGGTGGATTTGGAGGAGGAGGCGGATGCGGT
Found at i:51017 original size:3 final size:3
Alignment explanation
Indices: 51009--51038 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
50999 CGGTGGATTT
51009 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA
51039 NNNNNNNNNN
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:51295 original size:15 final size:15
Alignment explanation
Indices: 51275--51319 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
51265 NNNNNNCGGC
51275 GGTGGTGGAGGAGGA
1 GGTGGTGGAGGAGGA
*
51290 GGTGGTGGTGGAGGA
1 GGTGGTGGAGGAGGA
*
51305 GGAT-TTGGAGGAGGA
1 GG-TGGTGGAGGAGGA
51320 TTTCGTTCGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 25 0.96
16 1 0.04
ACGTcount: A:0.20, C:0.00, G:0.62, T:0.18
Consensus pattern (15 bp):
GGTGGTGGAGGAGGA
Found at i:51313 original size:12 final size:12
Alignment explanation
Indices: 51298--51322 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51288 GAGGTGGTGG
51298 TGGAGGAGGATT
1 TGGAGGAGGATT
51310 TGGAGGAGGATT
1 TGGAGGAGGATT
51322 T
1 T
51323 CGTTCGTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.48, T:0.28
Consensus pattern (12 bp):
TGGAGGAGGATT
Found at i:52253 original size:3 final size:3
Alignment explanation
Indices: 52245--52271 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
52235 NNNNNNNNNN
52245 GGA GGA GGA GGA GGA GGA GGA GGA GGA
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA
52272 TTTGGAGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:52668 original size:18 final size:18
Alignment explanation
Indices: 52408--52669 Score: 157
Period size: 18 Copynumber: 14.6 Consensus size: 18
52398 TATGGTGGTC
*
52408 CTGGTGGATTCGGAGTTG
1 CTGGTGGATTCGGAGGTG
** * *
52426 GAGGTGGTTTCGGTGGTG
1 CTGGTGGATTCGGAGGTG
* ** *
52444 CCGGTGGAGACGGGGGTG
1 CTGGTGGATTCGGAGGTG
* * *
52462 CCGGCGGATTTGGAGGTG
1 CTGGTGGATTCGGAGGTG
* * *
52480 CTGGAGGATTTGGGGGTG
1 CTGGTGGATTCGGAGGTG
* *
52498 CTGGGGGATTCGGGGGTG
1 CTGGTGGATTCGGAGGTG
* * *
52516 GTGGTGGATTTGGAGGGG
1 CTGGTGGATTCGGAGGTG
* * *
52534 CCGGCGGAGAT-GGAGGTG
1 CTGGTGGA-TTCGGAGGTG
*
52552 CCGGTGGATTCGGAGGTG
1 CTGGTGGATTCGGAGGTG
* * * *
52570 GTGGAGGATTTGGAGGGG
1 CTGGTGGATTCGGAGGTG
* * *
52588 CCGGCGGATTCGGAGGGG
1 CTGGTGGATTCGGAGGTG
* ** *
52606 CTGGCGGAGACGGAGGGG
1 CTGGTGGATTCGGAGGTG
*
52624 CCGGTGGATTCGGAGGTG
1 CTGGTGGATTCGGAGGTG
* *
52642 CTGGAGGATTCGGGGGTG
1 CTGGTGGATTCGGAGGTG
*
52660 GTGGTGGATT
1 CTGGTGGATT
52670 TGTTGGATTC
Statistics
Matches: 187, Mismatches: 55, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
17 1 0.01
18 185 0.99
19 1 0.01
ACGTcount: A:0.11, C:0.11, G:0.55, T:0.22
Consensus pattern (18 bp):
CTGGTGGATTCGGAGGTG
Found at i:53499 original size:2 final size:2
Alignment explanation
Indices: 53492--53559 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
53482 AAATAAGTTG
53492 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
53534 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
53560 ATGAGAATAT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:54787 original size:15 final size:15
Alignment explanation
Indices: 54723--54780 Score: 73
Period size: 15 Copynumber: 3.9 Consensus size: 15
54713 CAGAGCATAA
*
54723 CGGACCAGGACCTTT
1 CGGACCAGGGCCTTT
54738 CGGACC-GGGACCTTT
1 CGGACCAGGG-CCTTT
*
54753 CGGACCGGGGCCTTT
1 CGGACCAGGGCCTTT
*
54768 GGGACCAGGGCCT
1 CGGACCAGGGCCT
54781 ATTGGACGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
14 2 0.05
15 33 0.87
16 3 0.08
ACGTcount: A:0.14, C:0.33, G:0.36, T:0.17
Consensus pattern (15 bp):
CGGACCAGGGCCTTT
Found at i:54803 original size:30 final size:28
Alignment explanation
Indices: 54769--54847 Score: 86
Period size: 30 Copynumber: 2.7 Consensus size: 28
54759 GGGGCCTTTG
*
54769 GGACCAGGGCCTATTGGACGTGAAGATTTT
1 GGACCAGGGCCTATTGGACGT-AA-ATTTA
* *
54799 GGACCAGGGCCCATGGGACCCGTAAATTTA
1 GGACCAGGGCCTATTGGA--CGTAAATTTA
*
54829 GGACCAGGGCATATTGGAC
1 GGACCAGGGCCTATTGGAC
54848 ATAGAAATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
28 1 0.02
30 35 0.85
31 2 0.05
32 3 0.07
ACGTcount: A:0.25, C:0.22, G:0.33, T:0.20
Consensus pattern (28 bp):
GGACCAGGGCCTATTGGACGTAAATTTA
Found at i:56441 original size:57 final size:57
Alignment explanation
Indices: 56353--56472 Score: 204
Period size: 57 Copynumber: 2.1 Consensus size: 57
56343 GCTAGCAGCT
* * *
56353 CTGGTGGCCCAGCAGTTTTCTCAGCGCCACTTGCAGCAGCCAGTTCGCTCCTTGGCG
1 CTGGTGGCCCAGCAATTTTCTCAGCACCACTTGCAGCAGCCAGTTCGCTCCATGGCG
*
56410 CTGGTGGCCCAGCAATTTTCTCAGCACCACTTGCAGCAGCCGGTTCGCTCCATGGCG
1 CTGGTGGCCCAGCAATTTTCTCAGCACCACTTGCAGCAGCCAGTTCGCTCCATGGCG
56467 CTGGTG
1 CTGGTG
56473 ACCCGTCAGT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.13, C:0.34, G:0.28, T:0.24
Consensus pattern (57 bp):
CTGGTGGCCCAGCAATTTTCTCAGCACCACTTGCAGCAGCCAGTTCGCTCCATGGCG
Found at i:65427 original size:54 final size:54
Alignment explanation
Indices: 64980--65503 Score: 565
Period size: 54 Copynumber: 9.7 Consensus size: 54
64970 CTTCTTCGTC
*
64980 CATTTCTTTGAACTCAGGATCTGGGGGATACTCAGGATTCCCCTCACCTGCAGG
1 CATTTCTTTGAACTCAGGATCTGGGGGATACTCAGGATTTCCCTCACCTGCAGG
*
65034 CATTTCTTTGAACTCAGGATCTGGGGGATACTCAGGATTCCCCTCACCTGCAGG
1 CATTTCTTTGAACTCAGGATCTGGGGGATACTCAGGATTTCCCTCACCTGCAGG
*
65088 CATTTCTTTGAACTCAGGATCTGGGGGATACTCAGGATTCCCCTCACCTGCAGG
1 CATTTCTTTGAACTCAGGATCTGGGGGATACTCAGGATTTCCCTCACCTGCAGG
* ***
65142 CATTTCTTTGAACTCAGGATATGGGGGATACTCAGGATTTGATTCACCTGCAGG
1 CATTTCTTTGAACTCAGGATCTGGGGGATACTCAGGATTTCCCTCACCTGCAGG
**
65196 CATTTCTTTGAACTCAGGATCTGGGGGATACTCAGGATTTGACTCACCTGCAGG
1 CATTTCTTTGAACTCAGGATCTGGGGGATACTCAGGATTTCCCTCACCTGCAGG
* * ** * * * *
65250 CATTTCTTTAAACTCAGGATCAGCTGGCTATTCGGGATTTCCATCACCTGCAGG
1 CATTTCTTTGAACTCAGGATCTGGGGGATACTCAGGATTTCCCTCACCTGCAGG
* * * * *** *
65304 CATTTCTGT-AGACTCGGGATCTGGAGGCTACTCAGGATTTGGTTCATCTGCAGG
1 CATTTCTTTGA-ACTCAGGATCTGGGGGATACTCAGGATTTCCCTCACCTGCAGG
* * * * * * *
65358 CATTTCTTTGGACTC-GATATCAGGTGGCTACAT-GGGATTCCCCTCACCTGCAGG
1 CATTTCTTTGAACTCAG-GATCTGGGGGATAC-TCAGGATTTCCCTCACCTGCAGG
* * * * * * *
65412 CATTTCTTTGAACTCGGGTTCAGGTGGCTATA-T-GGGATTTTCATCACCTGCAGG
1 CATTTCTTTGAACTCAGGATCTGG-GG-GATACTCAGGATTTCCCTCACCTGCAGG
* ** *
65466 CATTTCTTTGGACTTGGGATCTGCGGGATA-TGCAGGAT
1 CATTTCTTTGAACTCAGGATCTGGGGGATACT-CAGGAT
65504 CACAGTGGGC
Statistics
Matches: 406, Mismatches: 55, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
52 4 0.01
53 4 0.01
54 393 0.97
55 3 0.01
56 2 0.00
ACGTcount: A:0.20, C:0.24, G:0.25, T:0.31
Consensus pattern (54 bp):
CATTTCTTTGAACTCAGGATCTGGGGGATACTCAGGATTTCCCTCACCTGCAGG
Found at i:65887 original size:21 final size:21
Alignment explanation
Indices: 65863--66007 Score: 186
Period size: 21 Copynumber: 6.9 Consensus size: 21
65853 ATAGAAAACC
65863 ATACAATACAAATGAAAAATT
1 ATACAATACAAATGAAAAATT
*
65884 ATACAACACAAAT-AGAAAATT
1 ATACAATACAAATGA-AAAATT
*
65905 ATACAATACAAATGGAAAATT
1 ATACAATACAAATGAAAAATT
* *
65926 ATAGAATACAAATGGAAAATT
1 ATACAATACAAATGAAAAATT
65947 ATACAATACAAAT-AGAAAATT
1 ATACAATACAAATGA-AAAATT
* * *
65968 AAACAATACAAATGAATATTT
1 ATACAATACAAATGAAAAATT
*
65989 ATATAATACAAATGAAAAA
1 ATACAATACAAATGAAAAA
66008 GATCGTATTG
Statistics
Matches: 107, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
20 1 0.01
21 105 0.98
22 1 0.01
ACGTcount: A:0.61, C:0.09, G:0.07, T:0.23
Consensus pattern (21 bp):
ATACAATACAAATGAAAAATT
Found at i:65958 original size:63 final size:63
Alignment explanation
Indices: 65867--66007 Score: 221
Period size: 63 Copynumber: 2.2 Consensus size: 63
65857 AAAACCATAC
*
65867 AATACAAATGAAAAATTATACAACACAAATAGAAAATTATACAATACAAATGGAA-AATTATAG
1 AATACAAATGAAAAATTATACAACACAAATAGAAAATTAAACAATACAAAT-GAATAATTATAG
* * * *
65930 AATACAAATGGAAAATTATACAATACAAATAGAAAATTAAACAATACAAATGAATATTTATAT
1 AATACAAATGAAAAATTATACAACACAAATAGAAAATTAAACAATACAAATGAATAATTATAG
65993 AATACAAATGAAAAA
1 AATACAAATGAAAAA
66008 GATCGTATTG
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
62 3 0.04
63 68 0.96
ACGTcount: A:0.61, C:0.09, G:0.07, T:0.23
Consensus pattern (63 bp):
AATACAAATGAAAAATTATACAACACAAATAGAAAATTAAACAATACAAATGAATAATTATAG
Found at i:66970 original size:2 final size:2
Alignment explanation
Indices: 66963--67056 Score: 154
Period size: 2 Copynumber: 47.0 Consensus size: 2
66953 AAATTGTTTC
*
66963 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT TT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
67005 CT CT CT CT CT CT CT C- CT CAN CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT C-T CT CT CT CT CT CT CT CT CT CT CT
67047 CT CT CT CT CT
1 CT CT CT CT CT
67057 GTTAATGACA
Statistics
Matches: 86, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.01
2 84 0.98
3 1 0.01
ACGTcount: A:0.01, C:0.49, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:69614 original size:3 final size:3
Alignment explanation
Indices: 69606--69641 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
69596 AGGTGGATTT
69606 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA
69642 NNNNNNNNNN
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:70036 original size:3 final size:3
Alignment explanation
Indices: 70023--70083 Score: 59
Period size: 3 Copynumber: 20.3 Consensus size: 3
70013 NNNNNNNNNN
* * * * *
70023 GAG GCG GAG GAG GAG GAG GAG GTG GAG GAG GTG GTG GTG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
* *
70071 GCG GTG GAG GAG G
1 GAG GAG GAG GAG G
70084 GGGGGGTGGA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.21, C:0.03, G:0.67, T:0.08
Consensus pattern (3 bp):
GAG
Found at i:70049 original size:15 final size:15
Alignment explanation
Indices: 70031--70093 Score: 81
Period size: 15 Copynumber: 4.2 Consensus size: 15
70021 NNGAGGCGGA
70031 GGAGGAGGAGGAGGT
1 GGAGGAGGAGGAGGT
* *
70046 GGAGGAGGTGGTGGT
1 GGAGGAGGAGGAGGT
*
70061 GGAGGAGGAGGCGGT
1 GGAGGAGGAGGAGGT
* *
70076 GGAGGAGGGGGGGGT
1 GGAGGAGGAGGAGGT
70091 GGA
1 GGA
70094 TTTGGTTACC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 42 1.00
ACGTcount: A:0.19, C:0.02, G:0.70, T:0.10
Consensus pattern (15 bp):
GGAGGAGGAGGAGGT
Found at i:78840 original size:158 final size:158
Alignment explanation
Indices: 78662--78978 Score: 634
Period size: 158 Copynumber: 2.0 Consensus size: 158
78652 ATATATATAT
78662 ATATATATAAAACCTTCTTTGAGCAACACATTTTGTTTCATATATAATACAGTAGCTTTGAAAAT
1 ATATATATAAAACCTTCTTTGAGCAACACATTTTGTTTCATATATAATACAGTAGCTTTGAAAAT
78727 CCATATACTGAGTAATGCTATATTGGTGAACACAGCATTCCACTTGAAGTAATTGCAAAAGCATA
66 CCATATACTGAGTAATGCTATATTGGTGAACACAGCATTCCACTTGAAGTAATTGCAAAAGCATA
78792 CATCTAGAAAAGAGAAGTGACCTTTCGG
131 CATCTAGAAAAGAGAAGTGACCTTTCGG
78820 ATATATATAAAACCTTCTTTGAGCAACACATTTTGTTTCATATATAATACAGTAGCTTTGAAAAT
1 ATATATATAAAACCTTCTTTGAGCAACACATTTTGTTTCATATATAATACAGTAGCTTTGAAAAT
78885 CCATATACTGAGTAATGCTATATTGGTGAACACAGCATTCCACTTGAAGTAATTGCAAAAGCATA
66 CCATATACTGAGTAATGCTATATTGGTGAACACAGCATTCCACTTGAAGTAATTGCAAAAGCATA
78950 CATCTAGAAAAGAGAAGTGACCTTTCGG
131 CATCTAGAAAAGAGAAGTGACCTTTCGG
78978 A
1 A
78979 CATTACTGAC
Statistics
Matches: 159, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
158 159 1.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (158 bp):
ATATATATAAAACCTTCTTTGAGCAACACATTTTGTTTCATATATAATACAGTAGCTTTGAAAAT
CCATATACTGAGTAATGCTATATTGGTGAACACAGCATTCCACTTGAAGTAATTGCAAAAGCATA
CATCTAGAAAAGAGAAGTGACCTTTCGG
Found at i:79276 original size:34 final size:34
Alignment explanation
Indices: 79232--79701 Score: 823
Period size: 34 Copynumber: 13.8 Consensus size: 34
79222 TATATGATAC
*
79232 CCCAGGCGAGGATATACATGTACCCGTGCGATGT
1 CCCAGGCGAGGATATACATGTACCCGCGCGATGT
*
79266 TCCAGGCGAGGATATACATGTACCCGCGCGATGT
1 CCCAGGCGAGGATATACATGTACCCGCGCGATGT
79300 CCCAGGCGAGGATATACATGTACCCGCGCGATGT
1 CCCAGGCGAGGATATACATGTACCCGCGCGATGT
* *
79334 TCCAGGCGAGGATATACATGTACTCGCGCGATGT
1 CCCAGGCGAGGATATACATGTACCCGCGCGATGT
*
79368 TCCAGGCGAGGATATACATGTACCCGCGCGATGT
1 CCCAGGCGAGGATATACATGTACCCGCGCGATGT
* *
79402 TCCAGGCGAGGATATTCATGTACCCGCGCGATGT
1 CCCAGGCGAGGATATACATGTACCCGCGCGATGT
*
79436 CCCAGGCGAGGATATACATGTACTCGCGCGATGT
1 CCCAGGCGAGGATATACATGTACCCGCGCGATGT
*
79470 TCCAGGCGAGGATATACATGTACCCGCGCGATGT
1 CCCAGGCGAGGATATACATGTACCCGCGCGATGT
*
79504 CCCAGGCGAGGATATACATGTACTCGCGCGATGT
1 CCCAGGCGAGGATATACATGTACCCGCGCGATGT
* *
79538 TCCAGGCGAGGATATACATGTACCCCCGCGATGT
1 CCCAGGCGAGGATATACATGTACCCGCGCGATGT
*
79572 CCCAGGCGAGGATATACATGTACCCACGCGATGT
1 CCCAGGCGAGGATATACATGTACCCGCGCGATGT
79606 CCCAGGCGAGGATATACATGTACCCGCGCGATGT
1 CCCAGGCGAGGATATACATGTACCCGCGCGATGT
79640 CCCAGGCGAGGATATACATGTACCCGCGCGATGT
1 CCCAGGCGAGGATATACATGTACCCGCGCGATGT
79674 CCCAGGCGAGGATATACATGTACCCGCG
1 CCCAGGCGAGGATATACATGTACCCGCG
79702 TAGAGATACC
Statistics
Matches: 416, Mismatches: 20, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 416 1.00
ACGTcount: A:0.24, C:0.28, G:0.29, T:0.20
Consensus pattern (34 bp):
CCCAGGCGAGGATATACATGTACCCGCGCGATGT
Found at i:80369 original size:37 final size:33
Alignment explanation
Indices: 80319--80434 Score: 105
Period size: 31 Copynumber: 3.5 Consensus size: 33
80309 GTATTCCACA
*
80319 ATCTGTTGAAGACTGTTTTGTGCACTTGGTACCAACG
1 ATCTGTAGAAGACTGTTTTGTG----TGGTACCAACG
*
80356 ATCTGTAGAAGACTG--TTATGTGGTACCAACG
1 ATCTGTAGAAGACTGTTTTGTGTGGTACCAACG
* * *
80387 ATCTGTAAAAGACTG--TTATGTGGTACCCACG
1 ATCTGTAGAAGACTGTTTTGTGTGGTACCAACG
* *
80418 ATCAGTAGAGGACTGTT
1 ATCTGTAGAAGACTGTT
80435 ATGGGGGACT
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
31 52 0.74
35 4 0.06
37 14 0.20
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (33 bp):
ATCTGTAGAAGACTGTTTTGTGTGGTACCAACG
Found at i:80380 original size:31 final size:31
Alignment explanation
Indices: 80345--80437 Score: 150
Period size: 31 Copynumber: 3.0 Consensus size: 31
80335 TTTGTGCACT
80345 TGGTACCAACGATCTGTAGAAGACTGTTATG
1 TGGTACCAACGATCTGTAGAAGACTGTTATG
*
80376 TGGTACCAACGATCTGTAAAAGACTGTTATG
1 TGGTACCAACGATCTGTAGAAGACTGTTATG
* * *
80407 TGGTACCCACGATCAGTAGAGGACTGTTATG
1 TGGTACCAACGATCTGTAGAAGACTGTTATG
80438 GGGGACTTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (31 bp):
TGGTACCAACGATCTGTAGAAGACTGTTATG
Found at i:80481 original size:31 final size:31
Alignment explanation
Indices: 80440--80508 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
80430 CTGTTATGGG
* *
80440 GGACTTTAATGTGGTACCCACGATCAGTAGA
1 GGACTGTAATGTAGTACCCACGATCAGTAGA
*
80471 GGACTGTAATGTAGTACCCACGATCTGTAGA
1 GGACTGTAATGTAGTACCCACGATCAGTAGA
*
80502 AGACTGT
1 GGACTGT
80509 TATGGAGGAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
GGACTGTAATGTAGTACCCACGATCAGTAGA
Found at i:80517 original size:44 final size:44
Alignment explanation
Indices: 80469--80556 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
80459 ACGATCAGTA
*
80469 GAGGACTGTAATGTAGTACCCACGATCTGTAGAAGACTGTTATG
1 GAGGACTGTAATGTAGTACCCACGATCAGTAGAAGACTGTTATG
* * * *
80513 GAGGACTTTTATGTGGTACCCACGATCAGTAGAGGACTGTTATG
1 GAGGACTGTAATGTAGTACCCACGATCAGTAGAAGACTGTTATG
80557 TAGTACCCAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (44 bp):
GAGGACTGTAATGTAGTACCCACGATCAGTAGAAGACTGTTATG
Found at i:80556 original size:31 final size:31
Alignment explanation
Indices: 80516--80740 Score: 164
Period size: 31 Copynumber: 7.1 Consensus size: 31
80506 TGTTATGGAG
* * *
80516 GACTTTTATGTGGTACCCACGATCAGTAGAG
1 GACTGTTATGTGGTACCCACGATCTGTAGAA
* * *
80547 GACTGTTATGTAGTACCCACGATTTGCAGAA
1 GACTGTTATGTGGTACCCACGATCTGTAGAA
* * * * * *
80578 GACTATTCTAT-GTATTCCACAATCTGTTGAA
1 GACTGTTATGTGGTA-CCCACGATCTGTAGAA
* *
80609 GACTGTTCTGTGCACTTGGTATCCACGATCTGTAGAA
1 GACTG-T-TATG----TGGTACCCACGATCTGTAGAA
* ** **
80646 GACTGTAATGTGGTACAAACGATCCATAGAA
1 GACTGTTATGTGGTACCCACGATCTGTAGAA
* *
80677 GATTGTTATGTGGTACCCACGATCTGTAGAG
1 GACTGTTATGTGGTACCCACGATCTGTAGAA
* * *
80708 GACTTTTCTTTGGTACCCACGATCTGTAGAA
1 GACTGTTATGTGGTACCCACGATCTGTAGAA
80739 GA
1 GA
80741 TTATTCTGTA
Statistics
Matches: 148, Mismatches: 38, Indels: 16
0.73 0.19 0.08
Matches are distributed among these distances:
30 3 0.02
31 116 0.78
32 1 0.01
33 2 0.01
35 2 0.01
36 1 0.01
37 20 0.14
38 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (31 bp):
GACTGTTATGTGGTACCCACGATCTGTAGAA
Found at i:80578 original size:75 final size:75
Alignment explanation
Indices: 80366--80581 Score: 315
Period size: 75 Copynumber: 2.9 Consensus size: 75
80356 ATCTGTAGAA
* * * * * * * *
80366 GACTGTTATGTGGTACCAACGATCTGTAAAAGACTGTTATGTGGTACCCACGATCAGTAGAGGAC
1 GACTTTTATGTGGTACCCACGATCAGTAGAGGACTGTTATGTAGTACCCACGATCTGTAGAAGAC
*
80431 TGTTATGGGG
66 TGTTATGGAG
* *
80441 GACTTTAATGTGGTACCCACGATCAGTAGAGGACTGTAATGTAGTACCCACGATCTGTAGAAGAC
1 GACTTTTATGTGGTACCCACGATCAGTAGAGGACTGTTATGTAGTACCCACGATCTGTAGAAGAC
80506 TGTTATGGAG
66 TGTTATGGAG
* *
80516 GACTTTTATGTGGTACCCACGATCAGTAGAGGACTGTTATGTAGTACCCACGATTTGCAGAAGAC
1 GACTTTTATGTGGTACCCACGATCAGTAGAGGACTGTTATGTAGTACCCACGATCTGTAGAAGAC
80581 T
66 T
80582 ATTCTATGTA
Statistics
Matches: 126, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 126 1.00
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.28
Consensus pattern (75 bp):
GACTTTTATGTGGTACCCACGATCAGTAGAGGACTGTTATGTAGTACCCACGATCTGTAGAAGAC
TGTTATGGAG
Found at i:80722 original size:62 final size:62
Alignment explanation
Indices: 80625--80760 Score: 146
Period size: 62 Copynumber: 2.2 Consensus size: 62
80615 TCTGTGCACT
* *
80625 TGGTATCCACGATCTGTAGAAGACTGTAATGTGGTACAAACGATCCATAGAAGATTGTTATG
1 TGGTAACCACGATCTGTAGAAGACTGTAATGTGGTACAAACGATCCATAGAAGATTATTATG
* * * ** * ** ** *
80687 TGGTACCCACGATCTGTAGAGGACTTTTCTTTGGTACCCACGATCTGTAGAAGATTATTCTG
1 TGGTAACCACGATCTGTAGAAGACTGTAATGTGGTACAAACGATCCATAGAAGATTATTATG
*
80749 TAGTAACCACGA
1 TGGTAACCACGA
80761 CTTATATGGG
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (62 bp):
TGGTAACCACGATCTGTAGAAGACTGTAATGTGGTACAAACGATCCATAGAAGATTATTATG
Found at i:80759 original size:31 final size:30
Alignment explanation
Indices: 80625--80760 Score: 119
Period size: 31 Copynumber: 4.4 Consensus size: 30
80615 TCTGTGCACT
* * **
80625 TGGTATCCACGATCTGTAGAAGACTGTAATG
1 TGGTACCCACGATCTGTAGAAGA-TTTTCTG
** ** *
80656 TGGTACAAACGATCCATAGAAGATTGTTATG
1 TGGTACCCACGATCTGTAGAAGATT-TTCTG
* *
80687 TGGTACCCACGATCTGTAGAGGACTTTTCTT
1 TGGTACCCACGATCTGTAGAAGA-TTTTCTG
80718 TGGTACCCACGATCTGTAGAAGATTATTCTG
1 TGGTACCCACGATCTGTAGAAGATT-TTCTG
* *
80749 TAGTAACCACGA
1 TGGTACCCACGA
80761 CTTATATGGG
Statistics
Matches: 84, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
30 3 0.04
31 79 0.94
32 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (30 bp):
TGGTACCCACGATCTGTAGAAGATTTTCTG
Found at i:81080 original size:1 final size:1
Alignment explanation
Indices: 81076--81111 Score: 72
Period size: 1 Copynumber: 36.0 Consensus size: 1
81066 CCCCCCCCAC
81076 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
81112 NNNNNNNNNN
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:81197 original size:14 final size:14
Alignment explanation
Indices: 81178--81221 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
81168 CCCCCCCCCC
81178 CAAAAAAAAAAAAA
1 CAAAAAAAAAAAAA
*
81192 CAAAAAAACAAAAA
1 CAAAAAAAAAAAAA
*
81206 CAAAACAAAACAAAA
1 CAAAA-AAAAAAAAA
81221 C
1 C
81222 GTAGTAGGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 18 0.69
15 8 0.31
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (14 bp):
CAAAAAAAAAAAAA
Found at i:82469 original size:2 final size:2
Alignment explanation
Indices: 82464--82533 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
82454 AATGTGTGTT
82464 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
82506 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
82534 CACATATGTN
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:82581 original size:2 final size:2
Alignment explanation
Indices: 82569--82603 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
82559 NNNNNNNNNN
*
82569 GA GA TA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
82604 TACAAATGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.49, T:0.03
Consensus pattern (2 bp):
GA
Found at i:84659 original size:15 final size:15
Alignment explanation
Indices: 84639--84697 Score: 82
Period size: 15 Copynumber: 3.9 Consensus size: 15
84629 ATAGAGTCAA
84639 TGTACCGCAGAACAG
1 TGTACCGCAGAACAG
* * *
84654 TGTACCACAAAACAA
1 TGTACCGCAGAACAG
84669 TGTACCGCAGAACAG
1 TGTACCGCAGAACAG
*
84684 TGTGCCGCAGAACA
1 TGTACCGCAGAACA
84698 ACCAGATCCC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.37, C:0.27, G:0.22, T:0.14
Consensus pattern (15 bp):
TGTACCGCAGAACAG
Found at i:87105 original size:2 final size:2
Alignment explanation
Indices: 87098--87137 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
87088 GTAAATAAAT
87098 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
87138 ATTACTTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:88737 original size:26 final size:26
Alignment explanation
Indices: 88708--88790 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 26
88698 ACACGACAAG
* *
88708 TTTACATTTGACTTCACAGA-CTAGAC
1 TTTACATTTGACCTCA-AGATCTAGAA
*
88734 TTTACTTTTGACCTCAAGATCTAGAA
1 TTTACATTTGACCTCAAGATCTAGAA
* *
88760 TTTAC-CTTGACCTCAAGACCTA-AA
1 TTTACATTTGACCTCAAGATCTAGAA
88784 GTTTACA
1 -TTTACA
88791 GTTAACCCCG
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
24 2 0.04
25 23 0.47
26 24 0.49
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (26 bp):
TTTACATTTGACCTCAAGATCTAGAA
Found at i:88788 original size:25 final size:25
Alignment explanation
Indices: 88741--88789 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
88731 GACTTTACTT
*
88741 TTGACCTCAAGATCTAGAATTTACC
1 TTGACCTCAAGACCTAGAATTTACC
88766 TTGACCTCAAGACCTA-AAGTTTAC
1 TTGACCTCAAGACCTAGAA-TTTAC
88790 AGTTAACCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (25 bp):
TTGACCTCAAGACCTAGAATTTACC
Found at i:92805 original size:2 final size:2
Alignment explanation
Indices: 92798--92845 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
92788 TAACTTATGA
92798 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
92840 TC TC TC
1 TC TC TC
92846 ATAGATAGAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:95671 original size:77 final size:77
Alignment explanation
Indices: 95544--96000 Score: 905
Period size: 77 Copynumber: 5.9 Consensus size: 77
95534 NNNNNNNNNN
95544 GACACAATGCTAGTAACTTGATAACACACGGAAGTTCCAGGACGGACAGTCCGATGTTATTGTAG
1 GACACAATGCTAGTAACTTGATAACACACGGAAGTTCCAGGACGGACAGTCCGATGTTATTGTAG
95609 TACTGTTATACC
66 TACTGTTATACC
95621 GACACAATGCTAGTAACTTGATAACACACGGAAGTTCCAGGACGGACAGTCCGATGTTATTGTAG
1 GACACAATGCTAGTAACTTGATAACACACGGAAGTTCCAGGACGGACAGTCCGATGTTATTGTAG
95686 TACTGTTATACC
66 TACTGTTATACC
95698 GACACAATGCTAGTAACTTGATAACACACGGAAGTTCCAGGACGGACAGTCCGATGTTATTGTAG
1 GACACAATGCTAGTAACTTGATAACACACGGAAGTTCCAGGACGGACAGTCCGATGTTATTGTAG
95763 TACTGTTATACC
66 TACTGTTATACC
95775 GACACAATGCTAGTAACTTGATAACACACGGAAGTTCCAGGACGGACAGTCCGATGTTATTGTAG
1 GACACAATGCTAGTAACTTGATAACACACGGAAGTTCCAGGACGGACAGTCCGATGTTATTGTAG
95840 TACTGTTATACC
66 TACTGTTATACC
95852 GACACAATGCTAGTAACTTGATAACACACGGAAGTTCCAGGACGGACAGTCCGATGTTATTGTAG
1 GACACAATGCTAGTAACTTGATAACACACGGAAGTTCCAGGACGGACAGTCCGATGTTATTGTAG
95917 TACTGTTATACC
66 TACTGTTATACC
*
95929 GACACAATGCTAGAAACTTGATAACACACGGAAGTTCCAGGACGGACAGTCCGATGTTATTGTAG
1 GACACAATGCTAGTAACTTGATAACACACGGAAGTTCCAGGACGGACAGTCCGATGTTATTGTAG
95994 TACTGTT
66 TACTGTT
96001 TACAGAATCG
Statistics
Matches: 379, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 379 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (77 bp):
GACACAATGCTAGTAACTTGATAACACACGGAAGTTCCAGGACGGACAGTCCGATGTTATTGTAG
TACTGTTATACC
Found at i:98170 original size:1 final size:1
Alignment explanation
Indices: 98164--98207 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
98154 TAATCGGCCC
* * * *
98164 GGGGGGGGGGGGGGNGTGGTGTGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
98208 TAGTATGCCT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.91, T:0.07
Consensus pattern (1 bp):
G
Found at i:98841 original size:62 final size:62
Alignment explanation
Indices: 98743--98866 Score: 214
Period size: 62 Copynumber: 2.0 Consensus size: 62
98733 CTGATTGACT
*
98743 GAGATACATGACCAGGCAGACTTACCAGAATCTCAGCACTGCAGCCCATGTCCAGGGAGACA
1 GAGATACATGACCAGACAGACTTACCAGAATCTCAGCACTGCAGCCCATGTCCAGGGAGACA
*
98805 GAGATACATGTA-CAGACAGACTTACCAGAATTTCAGCACTGCAGCCCATGTCCAGGGAGACA
1 GAGATACATG-ACCAGACAGACTTACCAGAATCTCAGCACTGCAGCCCATGTCCAGGGAGACA
98867 ATCAACATCT
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
62 58 0.98
63 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.23, T:0.16
Consensus pattern (62 bp):
GAGATACATGACCAGACAGACTTACCAGAATCTCAGCACTGCAGCCCATGTCCAGGGAGACA
Found at i:106052 original size:12 final size:12
Alignment explanation
Indices: 106016--106053 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
106006 AAACACGGTC
106016 GCCCCCACCCAG
1 GCCCCCACCCAG
* *
106028 GCCCCAACTCAG
1 GCCCCCACCCAG
106040 GCCCCCACCCAG
1 GCCCCCACCCAG
106052 GC
1 GC
106054 ACCTACCACG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.18, C:0.61, G:0.18, T:0.03
Consensus pattern (12 bp):
GCCCCCACCCAG
Found at i:108601 original size:16 final size:15
Alignment explanation
Indices: 108572--108623 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 15
108562 TATGTCTTTG
108572 AAACAAAAGAAAAAA
1 AAACAAAAGAAAAAA
**
108587 AAACAAAA-AGCAAA
1 AAACAAAAGAAAAAA
**
108601 AATTAAAAGAAAACAA
1 AAACAAAAGAAAA-AA
108617 AAACAAA
1 AAACAAA
108624 CGACCGTGTA
Statistics
Matches: 27, Mismatches: 8, Indels: 3
0.71 0.21 0.08
Matches are distributed among these distances:
14 10 0.37
15 10 0.37
16 7 0.26
ACGTcount: A:0.81, C:0.10, G:0.06, T:0.04
Consensus pattern (15 bp):
AAACAAAAGAAAAAA
Found at i:108816 original size:2 final size:2
Alignment explanation
Indices: 108809--108864 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
108799 TTTTAGAAAA
108809 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
108851 CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT
108865 TAGAGAAATG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:111119 original size:12 final size:12
Alignment explanation
Indices: 111102--111148 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
111092 GCGTTCGTCA
111102 GTCCGTCTGTCT
1 GTCCGTCTGTCT
*
111114 GTCCGT-TCGTCC
1 GTCCGTCT-GTCT
*
111126 GTCCTTCTGTCT
1 GTCCGTCTGTCT
*
111138 GTCTGTCTGTC
1 GTCCGTCTGTC
111149 CCACTTCAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
11 1 0.04
12 26 0.93
13 1 0.04
ACGTcount: A:0.00, C:0.34, G:0.23, T:0.43
Consensus pattern (12 bp):
GTCCGTCTGTCT
Found at i:111120 original size:24 final size:24
Alignment explanation
Indices: 111093--111140 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
111083 CTTTCCTCTG
111093 CGTTCGTCAGTCCGTCTGTCTGTC
1 CGTTCGTCAGTCCGTCTGTCTGTC
* *
111117 CGTTCGTCCGTCCTTCTGTCTGTC
1 CGTTCGTCAGTCCGTCTGTCTGTC
111141 TGTCTGTCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.02, C:0.35, G:0.23, T:0.40
Consensus pattern (24 bp):
CGTTCGTCAGTCCGTCTGTCTGTC
Found at i:112181 original size:17 final size:18
Alignment explanation
Indices: 112154--112187 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
112144 CGTCAATATT
112154 TTTTCTTGTTTCGTTTTG
1 TTTTCTTGTTTCGTTTTG
*
112172 TTTT-TTGTTTTGTTTT
1 TTTTCTTGTTTCGTTTT
112188 TTGCAATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.00, C:0.06, G:0.15, T:0.79
Consensus pattern (18 bp):
TTTTCTTGTTTCGTTTTG
Found at i:112183 original size:12 final size:12
Alignment explanation
Indices: 112166--112190 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
112156 TTCTTGTTTC
112166 GTTTTGTTTTTT
1 GTTTTGTTTTTT
112178 GTTTTGTTTTTT
1 GTTTTGTTTTTT
112190 G
1 G
112191 CAATCATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (12 bp):
GTTTTGTTTTTT
Found at i:114431 original size:12 final size:12
Alignment explanation
Indices: 114414--114463 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
114404 CACGGCCGCC
114414 CCCACCCAGGCA
1 CCCACCCAGGCA
114426 CCCACCCAGGC-
1 CCCACCCAGGCA
* *
114437 CCCAACTCAGGCC
1 CCC-ACCCAGGCA
114450 CCCACCCAGGCA
1 CCCACCCAGGCA
114462 CC
1 CC
114464 TACCACGGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 3 0.09
12 27 0.82
13 3 0.09
ACGTcount: A:0.22, C:0.60, G:0.16, T:0.02
Consensus pattern (12 bp):
CCCACCCAGGCA
Found at i:119378 original size:16 final size:17
Alignment explanation
Indices: 119359--119391 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
119349 TGAGTGTAAC
119359 CAGTTTT-ATATTTTAA
1 CAGTTTTGATATTTTAA
119375 CAGTTTTGATATTTTAA
1 CAGTTTTGATATTTTAA
119392 TGGGAGGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (17 bp):
CAGTTTTGATATTTTAA
Found at i:123260 original size:2 final size:2
Alignment explanation
Indices: 123253--123279 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
123243 GTATGTTTAG
123253 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
123280 GAATTTTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:125851 original size:2 final size:2
Alignment explanation
Indices: 125844--125870 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
125834 GTATGTTTAG
125844 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
125871 GAATTTTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:143484 original size:1 final size:1
Alignment explanation
Indices: 143478--143517 Score: 80
Period size: 1 Copynumber: 40.0 Consensus size: 1
143468 CCTACATGGC
143478 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
143518 AGAGAGAGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:143522 original size:2 final size:2
Alignment explanation
Indices: 143517--143560 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
143507 GGGGGGGGGG
143517 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
143559 GA
1 GA
143561 TTGTTTTATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:151695 original size:180 final size:183
Alignment explanation
Indices: 151386--151757 Score: 597
Period size: 180 Copynumber: 2.0 Consensus size: 183
151376 GGCTGCCAAA
* *
151386 AGGGTACCCTCATTGTACGGATAATTCCTCCTACAGTTTTCAAGATAGGAAGTTGTCCTTTTGCA
1 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTTTCAAGATAAGAAGTTGTCCTTTTGCA
* *
151451 GATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTCCGATAATTTATGAA
66 AATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTCCGATAACTTATGAA
*
151516 AAAAATA-CCAACTTTTGAAC-T-TAGTCATTTTTTGGCAAAATATTGCATAT
131 AAAAAAACCCAACTTTTGAACTTATAGTCATTTTTTGGCAAAATATTGCATAT
*
151566 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTTTCAAGATAAGAAGTTGTTCTTTTGCA
1 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTTTCAAGATAAGAAGTTGTCCTTTTGCA
* * * **
151631 AATCAATTGTACTTATATTAGAGGTGTGTATATTGCTAGGATTTTGATTTTTGATAACTTATGAA
66 AATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTCCGATAACTTATGAA
*
151696 AAAAAAACCCAGCTTTTGAACTTATATAGTCATTTTTTGGCAAAATATTGCATAT
131 AAAAAAACCCAACTTTTGAAC-T-TATAGTCATTTTTTGGCAAAATATTGCATAT
151751 AGGGTAC
1 AGGGTAC
151758 TCCATTTCAC
Statistics
Matches: 175, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
180 126 0.72
181 12 0.07
184 1 0.01
185 36 0.21
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (183 bp):
AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTTTCAAGATAAGAAGTTGTCCTTTTGCA
AATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTCCGATAACTTATGAA
AAAAAAACCCAACTTTTGAACTTATAGTCATTTTTTGGCAAAATATTGCATAT
Found at i:155157 original size:18 final size:18
Alignment explanation
Indices: 155134--155194 Score: 97
Period size: 18 Copynumber: 3.4 Consensus size: 18
155124 CAAGGATATG
*
155134 ACACTGATATCACAAATA
1 ACACTGATATCACAAGTA
155152 ACACTGAT-TACACAAGTA
1 ACACTGATAT-CACAAGTA
155170 ACACTGATATCACAAGTA
1 ACACTGATATCACAAGTA
155188 ACACTGA
1 ACACTGA
155195 AAACACAATG
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
17 1 0.03
18 38 0.95
19 1 0.03
ACGTcount: A:0.46, C:0.23, G:0.10, T:0.21
Consensus pattern (18 bp):
ACACTGATATCACAAGTA
Found at i:155201 original size:18 final size:18
Alignment explanation
Indices: 155134--155202 Score: 93
Period size: 18 Copynumber: 3.8 Consensus size: 18
155124 CAAGGATATG
* *
155134 ACACTGATATCACAAATA
1 ACACTGATAACACAAGTA
*
155152 ACACTGATTACACAAGTA
1 ACACTGATAACACAAGTA
*
155170 ACACTGATATCACAAGTA
1 ACACTGATAACACAAGTA
*
155188 ACACTGAAAACACAA
1 ACACTGATAACACAA
155203 TGATGGATAC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.49, C:0.23, G:0.09, T:0.19
Consensus pattern (18 bp):
ACACTGATAACACAAGTA
Found at i:155201 original size:36 final size:36
Alignment explanation
Indices: 155134--155202 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
155124 CAAGGATATG
**
155134 ACACTGATATCACAAATAACACTGATTACACAAGTA
1 ACACTGATATCACAAATAACACTGAAAACACAAGTA
*
155170 ACACTGATATCACAAGTAACACTGAAAACACAA
1 ACACTGATATCACAAATAACACTGAAAACACAA
155203 TGATGGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.49, C:0.23, G:0.09, T:0.19
Consensus pattern (36 bp):
ACACTGATATCACAAATAACACTGAAAACACAAGTA
Found at i:155640 original size:34 final size:34
Alignment explanation
Indices: 155186--155712 Score: 615
Period size: 34 Copynumber: 15.4 Consensus size: 34
155176 ATATCACAAG
* * *
155186 TAACACTGAAAACACAATGATGGATACAATGGTA
1 TAACACTGATATCACAGTGATGGATACAATGGTA
* * *
155220 TAACACTGATGTCACAGTGATGAATACTATGGTA
1 TAACACTGATATCACAGTGATGGATACAATGGTA
* *
155254 TAACACTGATATCACAGTGATGAATACATTGGTA
1 TAACACTGATATCACAGTGATGGATACAATGGTA
*
155288 TAACACTGATATCACAGTGATGAATACAATGGTA
1 TAACACTGATATCACAGTGATGGATACAATGGTA
155322 TAACACTGATATCACAGTGATGGATACAATGGTA
1 TAACACTGATATCACAGTGATGGATACAATGGTA
* *
155356 TCACACTAATATCACAGTGATGGATACAATGGTA
1 TAACACTGATATCACAGTGATGGATACAATGGTA
155390 TAACACTGATATCACAGTGATGGATACAATGGTA
1 TAACACTGATATCACAGTGATGGATACAATGGTA
* *
155424 TCACACTAATATCACAGTGATGGATACAATGGTA
1 TAACACTGATATCACAGTGATGGATACAATGGTA
* *
155458 TCACACTAATATCACAGTGATGGATACAATGGTA
1 TAACACTGATATCACAGTGATGGATACAATGGTA
*
155492 TAACACTAAATATCACAGTGATGGATACAATGGTA
1 TAACACT-GATATCACAGTGATGGATACAATGGTA
*
155527 TAACACTAAATATCACAGTGATGGATACAATGGTA
1 TAACACT-GATATCACAGTGATGGATACAATGGTA
* * * * * * ** *
155562 TTACACAGACATCTCAATTATAAATACAACGGTA
1 TAACACTGATATCACAGTGATGGATACAATGGTA
* * * ** *
155596 TACCACTGATATCACAATAATATATATAATGGTA
1 TAACACTGATATCACAGTGATGGATACAATGGTA
* * * * * *
155630 TAACAATGATATTAAAATGATGAATGA-TATGGTA
1 TAACACTGATATCACAGTGATGGAT-ACAATGGTA
* * * * ** *
155664 TAACACTGAAAACACAATGATGAATACGTTGGTG
1 TAACACTGATATCACAGTGATGGATACAATGGTA
155698 TAACACTGATATCAC
1 TAACACTGATATCAC
155713 TATGATGAAT
Statistics
Matches: 435, Mismatches: 55, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
33 1 0.00
34 366 0.84
35 68 0.16
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (34 bp):
TAACACTGATATCACAGTGATGGATACAATGGTA
Found at i:160592 original size:35 final size:34
Alignment explanation
Indices: 160499--160648 Score: 246
Period size: 35 Copynumber: 4.4 Consensus size: 34
160489 NNNNNNNNNN
* *
160499 ATGGTCTAACGCTAATATCACAGTGATGGATACA
1 ATGGTATAACACTAATATCACAGTGATGGATACA
*
160533 ATGGTATCACACTAATATCACAGTGATGGATACA
1 ATGGTATAACACTAATATCACAGTGATGGATACA
160567 ATGGTATAACACTAAATATCACAGTGATGGATACA
1 ATGGTATAACACT-AATATCACAGTGATGGATACA
160602 ATGGTATAACACTAAATATCACAGTGATGGATACA
1 ATGGTATAACACT-AATATCACAGTGATGGATACA
*
160637 ATGGTATTACAC
1 ATGGTATAACAC
160649 AGACATCTCA
Statistics
Matches: 110, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
34 43 0.39
35 67 0.61
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (34 bp):
ATGGTATAACACTAATATCACAGTGATGGATACA
Found at i:160670 original size:69 final size:69
Alignment explanation
Indices: 160528--160715 Score: 207
Period size: 69 Copynumber: 2.7 Consensus size: 69
160518 ACAGTGATGG
* * *
160528 ATACAATGGTATCACACTAATATCACAGTGATGGATACAATGGTATAACACTAAATATCACAGTG
1 ATACAATGGTATAACACTAATATCACAGTGATGGATACAATGGTATAACACTAAACATCACAATG
**
160593 ATGG
66 ATAA
* * *
160597 ATACAATGGTATAACACTAAATATCACAGTGATGGATACAATGGTATTACAC-AGACATCTCAAT
1 ATACAATGGTATAACACT-AATATCACAGTGATGGATACAATGGTATAACACTAAACATCACAAT
*
160661 TATAA
65 GATAA
* * * * * ** *
160666 ATACAACGGTATACCACTGATATCACAATAATATATATAATGGTATAACA
1 ATACAATGGTATAACACTAATATCACAGTGATGGATACAATGGTATAACA
160716 ATGATATTAA
Statistics
Matches: 100, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
68 25 0.25
69 43 0.43
70 32 0.32
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (69 bp):
ATACAATGGTATAACACTAATATCACAGTGATGGATACAATGGTATAACACTAAACATCACAATG
ATAA
Found at i:161419 original size:34 final size:34
Alignment explanation
Indices: 161376--161467 Score: 139
Period size: 34 Copynumber: 2.7 Consensus size: 34
161366 AAATATAATG
*
161376 GTATAACACTAATATCTCAATGATGAATACAATT
1 GTATAACACTGATATCTCAATGATGAATACAATT
* *
161410 GTATAACACTGGTATCTCGATGATGAATACAATT
1 GTATAACACTGATATCTCAATGATGAATACAATT
* *
161444 GTATACCACTGATATCACAATGAT
1 GTATAACACTGATATCTCAATGAT
161468 ACTATTGTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 51 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (34 bp):
GTATAACACTGATATCTCAATGATGAATACAATT
Found at i:163462 original size:2 final size:2
Alignment explanation
Indices: 163455--163550 Score: 90
Period size: 2 Copynumber: 48.5 Consensus size: 2
163445 GTCAAAATTA
**
163455 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG TCT
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG -AG
* ** * *
163498 CG -G TC A- AA ATT A- AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG A-G AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
163538 AG AG AG AG AG AG A
1 AG AG AG AG AG AG A
163551 TATTTCAAGA
Statistics
Matches: 83, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
1 3 0.04
2 79 0.95
3 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.44, T:0.05
Consensus pattern (2 bp):
AG
Found at i:165835 original size:2 final size:2
Alignment explanation
Indices: 165828--165887 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
165818 TTTCTTGTTT
165828 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
165870 GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA
165888 TTTGCATGTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:170392 original size:18 final size:18
Alignment explanation
Indices: 170369--170409 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
170359 AAATACAATG
170369 ACATTAATGATATGTAAT
1 ACATTAATGATATGTAAT
*
170387 ACATTAATTATATGTAAT
1 ACATTAATGATATGTAAT
170405 ACATT
1 ACATT
170410 TATCCTGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (18 bp):
ACATTAATGATATGTAAT
Found at i:174221 original size:65 final size:64
Alignment explanation
Indices: 174091--174253 Score: 195
Period size: 65 Copynumber: 2.5 Consensus size: 64
174081 ATTCATTACA
* *
174091 AAACCCTCCAAAGGGGGCACTAGAAAA-AAAAATAAAACACTGACAGAAACTCAGCTCATCATG
1 AAACCCTCCAGAGGGGGCACTAGAAAACAAAAATAAAACACTGACAGAAACTCAACTCATCATG
* * *
174154 AAACCCTCCAGAGGGGGCACTAGAAAACAAATATTAAAACATTGACAGCAACTCAACTCATTC-T
1 AAACCCTCCAGAGGGGGCACTAGAAAACAAA-AATAAAACACTGACAGAAACTCAACTCA-TCAT
174218 G
64 G
174219 AAACCCTCTACATGTAGAGGGGGCACTAGAAAACA
1 AAACCCTC--C----AGAGGGGGCACTAGAAAACA
174254 TATACATGTA
Statistics
Matches: 86, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
63 26 0.30
64 3 0.03
65 34 0.40
66 2 0.02
67 1 0.01
71 20 0.23
ACGTcount: A:0.44, C:0.24, G:0.17, T:0.15
Consensus pattern (64 bp):
AAACCCTCCAGAGGGGGCACTAGAAAACAAAAATAAAACACTGACAGAAACTCAACTCATCATG
Found at i:174432 original size:42 final size:42
Alignment explanation
Indices: 174385--174684 Score: 421
Period size: 42 Copynumber: 7.1 Consensus size: 42
174375 TGTAGGTACC
174385 GGTACATTTTAGTTATACTGAAAAGTTTTTAAGTTCAATGTA
1 GGTACATTTTAGTTATACTGAAAAGTTTTTAAGTTCAATGTA
*
174427 GGTACATTTCAGTTATACTGAAAA-TTTTCTAAGTTCAATGTA
1 GGTACATTTTAGTTATACTGAAAAGTTTT-TAAGTTCAATGTA
* * *
174469 GGTACATTTCAGTTATACTTAAAAGTTTCTAAGTTCAATGTA
1 GGTACATTTTAGTTATACTGAAAAGTTTTTAAGTTCAATGTA
*
174511 GGTACATTTCAGTTATACTGAAAA-TTTTCTAAGTTCAATGTA
1 GGTACATTTTAGTTATACTGAAAAGTTTT-TAAGTTCAATGTA
*
174553 GGTACATTTTAGTTATACTGAAAAGTTTCTAAGTTCAATGTA
1 GGTACATTTTAGTTATACTGAAAAGTTTTTAAGTTCAATGTA
* *
174595 GGTACATTTTAGTTATACT-AAGAAATTTCTAAGTTCAATGTA
1 GGTACATTTTAGTTATACTGAA-AAGTTTTTAAGTTCAATGTA
* * *
174637 GGTACATTTTAGTTATAGTGCAAAAAG--TTTAAGTCCAATCTA
1 GGTACATTTTAGTTATACTG--AAAAGTTTTTAAGTTCAATGTA
174679 GGTACA
1 GGTACA
174685 AAAAAGTTAT
Statistics
Matches: 237, Mismatches: 13, Indels: 16
0.89 0.05 0.06
Matches are distributed among these distances:
41 9 0.04
42 218 0.92
43 6 0.03
44 2 0.01
45 2 0.01
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.40
Consensus pattern (42 bp):
GGTACATTTTAGTTATACTGAAAAGTTTTTAAGTTCAATGTA
Found at i:174596 original size:126 final size:125
Alignment explanation
Indices: 174385--174684 Score: 467
Period size: 126 Copynumber: 2.4 Consensus size: 125
174375 TGTAGGTACC
174385 GGTACATTTTAGTTATACTGAAAAGTTTTTAAGTTCAATGTAGGTACATTTCAGTTATACTGAAA
1 GGTACATTTTAGTTATACTGAAAA-TTTTTAAGTTCAATGTAGGTACATTTCAGTTATACTGAAA
* *
174450 ATTTTCTAAGTTCAATGTAGGTACATTTCAGTTATACTTAA-AAGTTTCTAAGTTCAATGTA
65 AGTTTCTAAGTTCAATGTAGGTACATTTCAGTTATAC-TAAGAAATTTCTAAGTTCAATGTA
* *
174511 GGTACATTTCAGTTATACTGAAAATTTTCTAAGTTCAATGTAGGTACATTTTAGTTATACTGAAA
1 GGTACATTTTAGTTATACTGAAAATTTT-TAAGTTCAATGTAGGTACATTTCAGTTATACTGAAA
*
174576 AGTTTCTAAGTTCAATGTAGGTACATTTTAGTTATACTAAGAAATTTCTAAGTTCAATGTA
65 AGTTTCTAAGTTCAATGTAGGTACATTTCAGTTATACTAAGAAATTTCTAAGTTCAATGTA
* ** * *
174637 GGTACATTTTAGTTATAGTGCAAAAAGTTTAAGTCCAATCTAGGTACA
1 GGTACATTTTAGTTATACTG-AAAATTTTTAAGTTCAATGTAGGTACA
174685 AAAAAGTTAT
Statistics
Matches: 160, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
125 7 0.04
126 147 0.92
127 6 0.04
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.40
Consensus pattern (125 bp):
GGTACATTTTAGTTATACTGAAAATTTTTAAGTTCAATGTAGGTACATTTCAGTTATACTGAAAA
GTTTCTAAGTTCAATGTAGGTACATTTCAGTTATACTAAGAAATTTCTAAGTTCAATGTA
Found at i:174650 original size:21 final size:21
Alignment explanation
Indices: 174584--174650 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
174574 AAAGTTTCTA
174584 AGTTCAATGTAGGTACATTTT
1 AGTTCAATGTAGGTACATTTT
* * *
174605 AGTT--ATACTAAG-AAATTTCT
1 AGTTCAAT-GTAGGTACATTT-T
174625 AAGTTCAATGTAGGTACATTTT
1 -AGTTCAATGTAGGTACATTTT
174647 AGTT
1 AGTT
174651 ATAGTGCAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
19 7 0.21
20 4 0.12
21 12 0.35
22 4 0.12
23 7 0.21
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (21 bp):
AGTTCAATGTAGGTACATTTT
Found at i:174695 original size:84 final size:84
Alignment explanation
Indices: 174385--174684 Score: 480
Period size: 84 Copynumber: 3.6 Consensus size: 84
174375 TGTAGGTACC
*
174385 GGTACATTTTAGTTATACTGAAAAGTTTTTAAGTTCAATGTAGGTACATTTCAGTTATACTGAAA
1 GGTACATTTTAGTTATACTGAAAAGTTTCTAAGTTCAATGTAGGTACATTTCAGTTATACTGAAA
174450 ATTTTCTAAGTTCAATGTA
66 ATTTTCTAAGTTCAATGTA
* *
174469 GGTACATTTCAGTTATACTTAAAAGTTTCTAAGTTCAATGTAGGTACATTTCAGTTATACTGAAA
1 GGTACATTTTAGTTATACTGAAAAGTTTCTAAGTTCAATGTAGGTACATTTCAGTTATACTGAAA
174534 ATTTTCTAAGTTCAATGTA
66 ATTTTCTAAGTTCAATGTA
*
174553 GGTACATTTTAGTTATACTGAAAAGTTTCTAAGTTCAATGTAGGTACATTTTAGTTATACT-AAG
1 GGTACATTTTAGTTATACTGAAAAGTTTCTAAGTTCAATGTAGGTACATTTCAGTTATACTGAA-
*
174617 AAATTTCTAAGTTCAATGTA
65 AATTTTCTAAGTTCAATGTA
* * *
174637 GGTACATTTTAGTTATAGTGCAAAAAG-TT-TAAGTCCAATCTAGGTACA
1 GGTACATTTTAGTTATACTG--AAAAGTTTCTAAGTTCAATGTAGGTACA
174685 AAAAAGTTAT
Statistics
Matches: 203, Mismatches: 10, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
83 2 0.01
84 194 0.96
85 2 0.01
86 5 0.02
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.40
Consensus pattern (84 bp):
GGTACATTTTAGTTATACTGAAAAGTTTCTAAGTTCAATGTAGGTACATTTCAGTTATACTGAAA
ATTTTCTAAGTTCAATGTA
Found at i:175140 original size:54 final size:54
Alignment explanation
Indices: 174983--175133 Score: 284
Period size: 54 Copynumber: 2.8 Consensus size: 54
174973 TAAAAATCAA
*
174983 CCCATACTTCCATATTTTACATACAGGTACAAATTTATAATTCAGTCATTCTAT
1 CCCATACTTCCATATTTTACATACTGGTACAAATTTATAATTCAGTCATTCTAT
175037 CCCATACTTCCATATTTTACATACTGGTACAAATTTATAATTCAGTCATTCTAT
1 CCCATACTTCCATATTTTACATACTGGTACAAATTTATAATTCAGTCATTCTAT
*
175091 CCCATACTTCCATATTTTACATACTCGTACAAATTTATAATTC
1 CCCATACTTCCATATTTTACATACTGGTACAAATTTATAATTC
175134 TATCATTTGT
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 95 1.00
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (54 bp):
CCCATACTTCCATATTTTACATACTGGTACAAATTTATAATTCAGTCATTCTAT
Found at i:177557 original size:15 final size:15
Alignment explanation
Indices: 177537--177565 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
177527 ATATTTAATC
177537 TATCATTTCTAAAAT
1 TATCATTTCTAAAAT
177552 TATCATTTCTAAAA
1 TATCATTTCTAAAA
177566 ATCATGGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (15 bp):
TATCATTTCTAAAAT
Found at i:178224 original size:46 final size:46
Alignment explanation
Indices: 178157--178253 Score: 169
Period size: 46 Copynumber: 2.1 Consensus size: 46
178147 AGAGGTAAAA
*
178157 CAGTGTTTTTGACATACTTTAGACTAGCAACGTTTAGCAATTTATT
1 CAGTGTTTTTGACATAATTTAGACTAGCAACGTTTAGCAATTTATT
*
178203 CAGTGTTTTTGATATAATTTAGACTAGCAACGTTTAGCAATTTATT
1 CAGTGTTTTTGACATAATTTAGACTAGCAACGTTTAGCAATTTATT
178249 C-GTGT
1 CAGTGT
178254 AAGAAATACA
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 4 0.08
46 45 0.92
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.42
Consensus pattern (46 bp):
CAGTGTTTTTGACATAATTTAGACTAGCAACGTTTAGCAATTTATT
Found at i:182078 original size:22 final size:22
Alignment explanation
Indices: 182050--182123 Score: 94
Period size: 22 Copynumber: 3.4 Consensus size: 22
182040 TCATATGCAT
182050 TCACTGTTGGCTCAGAGTGCGC
1 TCACTGTTGGCTCAGAGTGCGC
* *
182072 TCACTGTTGGCTCAGAGTACAC
1 TCACTGTTGGCTCAGAGTGCGC
* * * *
182094 TCACCGTTCGCTCAGAATGGGC
1 TCACTGTTGGCTCAGAGTGCGC
182116 TCACTGTT
1 TCACTGTT
182124 AACTCACCGT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.18, C:0.28, G:0.26, T:0.28
Consensus pattern (22 bp):
TCACTGTTGGCTCAGAGTGCGC
Found at i:212485 original size:18 final size:18
Alignment explanation
Indices: 212440--212485 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
212430 TCTCTTTCTT
212440 GATCGTGACCTTTTCCTA
1 GATCGTGACCTTTTCCTA
* *
212458 GACCTTGACCTTTTCCTA
1 GATCGTGACCTTTTCCTA
*
212476 GATCGAGACC
1 GATCGTGACC
212486 GTCGTGACCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.20, C:0.30, G:0.17, T:0.33
Consensus pattern (18 bp):
GATCGTGACCTTTTCCTA
Found at i:212530 original size:18 final size:18
Alignment explanation
Indices: 212440--212530 Score: 62
Period size: 18 Copynumber: 5.2 Consensus size: 18
212430 TCTCTTTCTT
* *
212440 GATCGTGACCTTTTCCTA
1 GATCTTGACCGTTTCCTA
* *
212458 GACCTTGACCTTTTCCTA
1 GATCTTGACCGTTTCCTA
** *
212476 GATCGAGACCG--TCGT-
1 GATCTTGACCGTTTCCTA
* *
212491 GACCTTGACCGTTTTCTA
1 GATCTTGACCGTTTCCTA
* *
212509 GATCTTGATCGTTTCCTT
1 GATCTTGACCGTTTCCTA
212527 GATC
1 GATC
212531 GACTTCTTTT
Statistics
Matches: 54, Mismatches: 16, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
15 8 0.15
16 3 0.06
17 2 0.04
18 41 0.76
ACGTcount: A:0.16, C:0.27, G:0.19, T:0.37
Consensus pattern (18 bp):
GATCTTGACCGTTTCCTA
Found at i:215862 original size:436 final size:436
Alignment explanation
Indices: 215165--216166 Score: 1411
Period size: 436 Copynumber: 2.3 Consensus size: 436
215155 CATTCCTGCG
* * * * *
215165 ATCAACAACTTTGTTTCAATAATGCATCACAAAATCTTGATCGTTTTTATGGTATGTGTAATAGA
1 ATCAACAACTTTGCTTCTATAATGCATCACAAAATCTTTATCGTTTTTAAGATATGTGTAATAGA
* * * * * * ** *
215230 GTATAGGAGTCTAC-TGGCCCTTAATTTAAGGGGCCAGCCCCTTTTTCTTGGTTTAATACGAAAG
66 GTTTACGAGTGT-CTTGGCCCCTAATTTAAAGGGCCAGCCCCTTTTTCTTGATTTTGT-TGAAAG
* * ** * ** *
215294 GTCTCATGAATAGTAACATTTTTTTTTCTTACACCTATCTTAGATTGTTGTTCATTTTTGAGATA
129 GTCTCAAGAATACTAACACATTTTGTTCTTACACCTATCAGAAATTGTTGTTCATTTTTGAGATA
* *
215359 AAAATGAGTGAATATTTTAGGGGCCAGCCTTCTAGATCCTTAATGGGGACAGACATTGGTTTTTT
194 AAAATGAGTGAATATTTAAGGGGCCAGCCTTCTAGATCCTTAATGGGGACAGACATTGGTGTTTT
* *
215424 GATTAGTGGAATCGATTAGAATCATCAATGCAAACATTTTCTCTTCTACAATGCTTAAC-AAA-A
259 GATTAGTGGAATCGATTAGAATCATCAATGCAAACATTTTCTATTCTACAATGCCTAACAAAATA
* * * *
215487 TGTTTCCTTCTCTAGATATATTGCGTCAAAGTTTAAGTACTTTGGCCCCTAAAAATCCCTAATTA
324 TGTTTCCTTCTCTAAATAGATTGCATCAAAGTTTAAGTACTTTGGCCACTAAAAATCCCTAATTA
* * * *
215552 CGTTATAAATGGGCGTGGCATTGA-TTAATCTGATAGATATTGTTACA
389 CGTAATAAATGGGCATGGCATTAATTTAATCTGATAGATAGTGTTACA
* * * *
215599 ATCAACAACTTTGCTTCTATAATGCATTACAAAATCTTTTTCGTTTTTAAGTTATTTGTAATAGA
1 ATCAACAACTTTGCTTCTATAATGCATCACAAAATCTTTATCGTTTTTAAGATATGTGTAATAGA
*
215664 GTTTACGAGTGTCTTGGCCCCTAATTTAAAGGGCCAGCCCCTTTTTTTTTTGATTTTGTTGAAAA
66 GTTTACGAGTGTCTTGGCCCCTAATTTAAAGGGCCAGCCCC--TTTTTCTTGATTTTGTTG-AAA
* ** *
215729 GGTCTTAAGAATACTAACACATTTTGTTCTTGTACTTATCAGAAATTGTTGTTCATTTTTGAGAT
128 GGTCTCAAGAATACTAACACATTTTGTTCTTACACCTATCAGAAATTGTTGTTCATTTTTGAGAT
* * * *
215794 ACAAATGATTGATTATTTAAGGGGCCAGCCCTT-TAGATCCTTAATGGGGACAGCCATTGGTGTT
193 AAAAATGAGTGAATATTTAAGGGGCCAG-CCTTCTAGATCCTTAATGGGGACAGACATTGGTGTT
* *
215858 TTGATTGGTGGAATCGATTAGAATCATTAATGCAAACATTTTCTATTCTACAATGCCTAACAAAA
257 TTGATTAGTGGAATCGATTAGAATCATCAATGCAAACATTTTCTATTCTACAATGCCTAACAAAA
*
215923 TATGTTTCCTTCTCTAAATAGATTGCATCAAAGTTTCAGTACTTTGGCCACTAAAAATCCCTAAT
322 TATGTTTCCTTCTCTAAATAGATTGCATCAAAGTTTAAGTACTTTGGCCACTAAAAATCCCTAAT
** *
215988 TACGTAATAAATGGGCATGGCATTAATTTTTTCTGATAGATAGTGTTACG
387 TACGTAATAAATGGGCATGGCATTAATTTAATCTGATAGATAGTGTTACA
*
216038 ATCAACAACTTTGCTTCTATAATGCATCACAAAATCTTTATGGTTTTTAAGATATGTGTAATAGA
1 ATCAACAACTTTGCTTCTATAATGCATCACAAAATCTTTATCGTTTTTAAGATATGTGTAATAGA
*
216103 GTTTACGAGTGTATTGGCCCCTAATTTAAAGGGCCAGCCCCTTTTTCTTGATTTTGTTGGAAAG
66 GTTTACGAGTGTCTTGGCCCCTAATTTAAAGGGCCAGCCCCTTTTTCTTGATTTTGTT-GAAAG
216167 AACTTTTTAT
Statistics
Matches: 500, Mismatches: 59, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
433 1 0.00
434 91 0.18
435 1 0.00
436 178 0.36
437 27 0.05
438 83 0.17
439 119 0.24
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (436 bp):
ATCAACAACTTTGCTTCTATAATGCATCACAAAATCTTTATCGTTTTTAAGATATGTGTAATAGA
GTTTACGAGTGTCTTGGCCCCTAATTTAAAGGGCCAGCCCCTTTTTCTTGATTTTGTTGAAAGGT
CTCAAGAATACTAACACATTTTGTTCTTACACCTATCAGAAATTGTTGTTCATTTTTGAGATAAA
AATGAGTGAATATTTAAGGGGCCAGCCTTCTAGATCCTTAATGGGGACAGACATTGGTGTTTTGA
TTAGTGGAATCGATTAGAATCATCAATGCAAACATTTTCTATTCTACAATGCCTAACAAAATATG
TTTCCTTCTCTAAATAGATTGCATCAAAGTTTAAGTACTTTGGCCACTAAAAATCCCTAATTACG
TAATAAATGGGCATGGCATTAATTTAATCTGATAGATAGTGTTACA
Found at i:217449 original size:59 final size:59
Alignment explanation
Indices: 217360--217474 Score: 212
Period size: 59 Copynumber: 1.9 Consensus size: 59
217350 AAAAAAAAAA
* *
217360 AATAATAAACAGTACGAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCTTAATAAT
1 AATAAGAAACAGTACGAAAACAATAAGGTCTTCCGCTGGAAACGGAAGACCTTAATAAT
217419 AATAAGAAACAGTACGAAAACAATAAGGTCTTCCGCTGGAAACGGAAGACCTTAAT
1 AATAAGAAACAGTACGAAAACAATAAGGTCTTCCGCTGGAAACGGAAGACCTTAAT
217475 TATCCTTCAG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.45, C:0.17, G:0.18, T:0.20
Consensus pattern (59 bp):
AATAAGAAACAGTACGAAAACAATAAGGTCTTCCGCTGGAAACGGAAGACCTTAATAAT
Found at i:218356 original size:2 final size:2
Alignment explanation
Indices: 218351--218387 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
218341 TATATATATA
218351 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
218388 ATTAAAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:221899 original size:18 final size:18
Alignment explanation
Indices: 221876--221911 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
221866 AAGATAATCT
221876 CAAGTCCCGTGTTACTAG
1 CAAGTCCCGTGTTACTAG
*
221894 CAAGTCCTGTGTTACTAG
1 CAAGTCCCGTGTTACTAG
221912 GGGTAGTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (18 bp):
CAAGTCCCGTGTTACTAG
Found at i:225677 original size:23 final size:23
Alignment explanation
Indices: 225647--225690 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
225637 ATTTCTCCAA
**
225647 GAGAAAACGTACTTTAGGAATTG
1 GAGAAAACGTACCCTAGGAATTG
225670 GAGAAAACGTACCCTAGGAAT
1 GAGAAAACGTACCCTAGGAAT
225691 GGGGTACGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.20
Consensus pattern (23 bp):
GAGAAAACGTACCCTAGGAATTG
Found at i:226041 original size:21 final size:21
Alignment explanation
Indices: 226017--226057 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
226007 TTGGTACCCC
*
226017 AAGGATATCCCTAGGAACACA
1 AAGGATATCCCTAAGAACACA
*
226038 AAGGATATCCGTAAGAACAC
1 AAGGATATCCCTAAGAACAC
226058 CATGGAACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.20, T:0.15
Consensus pattern (21 bp):
AAGGATATCCCTAAGAACACA
Found at i:226831 original size:13 final size:13
Alignment explanation
Indices: 226813--226839 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
226803 ATGAAAACTC
226813 ACAGAAATTGACA
1 ACAGAAATTGACA
226826 ACAGAAATTGACA
1 ACAGAAATTGACA
226839 A
1 A
226840 GCATGGAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.15, G:0.15, T:0.15
Consensus pattern (13 bp):
ACAGAAATTGACA
Found at i:231547 original size:32 final size:33
Alignment explanation
Indices: 231509--231579 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 33
231499 GTTCAGTGGT
231509 TAGGGTACTTGACATAAACTAACCTTATATATC
1 TAGGGTACTTGACATAAACTAACCTTATATATC
*
231542 T-GGGTACTTGACATAAGCTAACCTTATATATC
1 TAGGGTACTTGACATAAACTAACCTTATATATC
231574 TAGGGT
1 TAGGGT
231580 TTTTATGTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
32 31 0.86
33 5 0.14
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (33 bp):
TAGGGTACTTGACATAAACTAACCTTATATATC
Found at i:235790 original size:15 final size:16
Alignment explanation
Indices: 235770--235799 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
235760 TTTATTTAGT
235770 TATTTCATAA-ATTTA
1 TATTTCATAAGATTTA
235785 TATTTCATAAGATTT
1 TATTTCATAAGATTT
235800 GTAACAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (16 bp):
TATTTCATAAGATTTA
Found at i:242939 original size:20 final size:20
Alignment explanation
Indices: 242910--242947 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
242900 GCAATAGTTG
*
242910 AATGCGATAGGACGAGCGCT
1 AATGCAATAGGACGAGCGCT
242930 AATGCAATAGGACGAGCG
1 AATGCAATAGGACGAGCG
242948 GCGCTCGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.18, G:0.34, T:0.13
Consensus pattern (20 bp):
AATGCAATAGGACGAGCGCT
Found at i:243116 original size:21 final size:21
Alignment explanation
Indices: 243090--243133 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
243080 ATAAAACTCA
* *
243090 TGCAACGAATGCGAGAGCTCG
1 TGCAACGAATGAGAAAGCTCG
*
243111 TGCAACGCATGAGAAAGCTCG
1 TGCAACGAATGAGAAAGCTCG
243132 TG
1 TG
243134 GGAATCTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.23, G:0.32, T:0.16
Consensus pattern (21 bp):
TGCAACGAATGAGAAAGCTCG
Found at i:260662 original size:59 final size:56
Alignment explanation
Indices: 260550--260700 Score: 245
Period size: 59 Copynumber: 2.7 Consensus size: 56
260540 NNNNNNNNNN
260550 AACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCC---TAATAAAAAAAGACAAA
1 AACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAATAATAAAAAAAGACAAA
260603 AACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAATAATAATAAAAAAAGACAAA
1 AACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCC---TAATAATAAAAAAAGACAAA
*
260662 AACAATAGGTCTTTTCGACCGGAAGTCGAAAAGCCCTAA
1 AACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAA
260701 CTAGACCTAT
Statistics
Matches: 91, Mismatches: 1, Indels: 9
0.90 0.01 0.09
Matches are distributed among these distances:
53 36 0.40
56 3 0.03
59 52 0.57
ACGTcount: A:0.46, C:0.19, G:0.16, T:0.19
Consensus pattern (56 bp):
AACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAATAATAAAAAAAGACAAA
Found at i:269442 original size:59 final size:56
Alignment explanation
Indices: 269369--269732 Score: 440
Period size: 49 Copynumber: 6.9 Consensus size: 56
269359 TATAATAATA
*
269369 AAAAAAGACGAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAATAAAACC
1 AAAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAAT-AAA-C
269427 AAAAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCC---T----
1 -AAAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAATAAAC
269477 AAAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAA-AAAC
1 AAAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAATAAAC
* *
269532 ---AGA-ACAAAAACAATAGGTCTTTTCGACGGAAAGTCGAAAAG-CC-------C
1 AAAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAATAAAC
269576 AAAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAATAAAC
1 AAAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAATAAAC
* *
269632 --AGAAG--AATAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAAT-AA-
1 AAAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAATAAAC
* * *
269682 AACAGA-ACGAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAAT
1 AAAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAAT
269733 TAGCAGATTC
Statistics
Matches: 270, Mismatches: 12, Indels: 52
0.81 0.04 0.16
Matches are distributed among these distances:
44 1 0.00
47 2 0.01
48 37 0.14
49 50 0.19
50 2 0.01
51 39 0.14
52 45 0.17
53 41 0.15
54 4 0.01
56 2 0.01
59 47 0.17
ACGTcount: A:0.47, C:0.20, G:0.16, T:0.16
Consensus pattern (56 bp):
AAAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAATAAAC
Found at i:269482 original size:49 final size:50
Alignment explanation
Indices: 269427--269731 Score: 492
Period size: 49 Copynumber: 6.0 Consensus size: 50
269417 TAATAAAACC
*
269427 AAAAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
1 AAAAACAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
269477 AAAAA-AGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
1 AAAAACAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
*
269526 AAAAACAGAACAAAAACAATAGGTCTTTTCGACGGAAAGTCGAAAAGCCC-
1 AAAAACAG-ACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
269576 AAAAA-AGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
1 AAAAACAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
269625 AATAAACAGA-AGAATAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
1 AA-AAACAGACA-AA-AACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
*
269677 AATAAAACAGAACGAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
1 -A-AAAACAG-ACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
269730 AA
1 AA
269732 TTAGCAGATT
Statistics
Matches: 241, Mismatches: 3, Indels: 21
0.91 0.01 0.08
Matches are distributed among these distances:
48 40 0.17
49 53 0.22
50 16 0.07
51 46 0.19
52 38 0.16
53 44 0.18
54 4 0.02
ACGTcount: A:0.47, C:0.20, G:0.17, T:0.16
Consensus pattern (50 bp):
AAAAACAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
Found at i:269608 original size:99 final size:101
Alignment explanation
Indices: 269369--269732 Score: 561
Period size: 100 Copynumber: 3.5 Consensus size: 101
269359 TATAATAATA
* *
269369 AAAAAAGACGAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAATAAAACCAAAAAAA
1 AAAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAAT-AAA-C----AGA
269434 GACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
60 -ACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
269477 AAAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAA-AAACAGAACAAAA
1 AAAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAATAAACAGAACAAAA
*
269541 ACAATAGGTCTTTTCGACGGAAAGTCGAAAAGCCC-
66 ACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
* *
269576 AAAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAATAAACAGAAGAATA
1 AAAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAATAAACAGAACAAAA
269641 ACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
66 ACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
*
269677 AATAAAACAGAACGAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAAT
1 -A-AAAA-AG-ACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAAT
269733 TAGCAGATTC
Statistics
Matches: 243, Mismatches: 7, Indels: 15
0.92 0.03 0.06
Matches are distributed among these distances:
99 51 0.21
100 85 0.35
101 2 0.01
102 1 0.00
103 4 0.02
104 2 0.01
105 45 0.19
106 3 0.01
108 50 0.21
ACGTcount: A:0.47, C:0.20, G:0.16, T:0.16
Consensus pattern (101 bp):
AAAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAATAAACAGAACAAAA
ACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
Found at i:273108 original size:31 final size:31
Alignment explanation
Indices: 273070--273129 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
273060 ACTAGTATCA
*
273070 GAAAAATGACCCCCTGGTCAATATTCAACGT
1 GAAAAATGACCCCCGGGTCAATATTCAACGT
*
273101 GAAAAATGACCCCCGGGTCAATTTTCAAC
1 GAAAAATGACCCCCGGGTCAATATTCAAC
273130 CCGGGACAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.22
Consensus pattern (31 bp):
GAAAAATGACCCCCGGGTCAATATTCAACGT
Found at i:274716 original size:2 final size:2
Alignment explanation
Indices: 274709--274760 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
274699 ACGGAGAATA
274709 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
274751 TC TC TC TC TC
1 TC TC TC TC TC
274761 ATGTTTTTAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:289746 original size:49 final size:49
Alignment explanation
Indices: 289693--290041 Score: 621
Period size: 49 Copynumber: 7.0 Consensus size: 49
289683 TATAATAATA
*
289693 AAAAAAGACGAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
1 AAAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
289742 AAAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
1 AAAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
289791 AAAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
1 AAAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
289840 -AAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
1 AAAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
289888 AAAAACAGAACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
1 AAAAA-AG-ACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
289939 -AAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
1 AAAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
289987 AATAAAACAGAACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
1 -A-AAAA-AG-ACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
290040 AA
1 AA
290042 CTAGAACTTT
Statistics
Matches: 291, Mismatches: 1, Indels: 14
0.95 0.00 0.05
Matches are distributed among these distances:
48 90 0.31
49 103 0.35
50 6 0.02
51 47 0.16
52 3 0.01
53 42 0.14
ACGTcount: A:0.47, C:0.21, G:0.16, T:0.16
Consensus pattern (49 bp):
AAAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
Found at i:289949 original size:99 final size:99
Alignment explanation
Indices: 289703--290041 Score: 637
Period size: 99 Copynumber: 3.4 Consensus size: 99
289693 AAAAAAGACG
289703 AAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAAAAAAGACAAAAACAATAGGTCTTT
1 AAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT-AAAAAGACAAAAACAATAGGTCTTT
289768 TCGACCGAAAGTCGAAAAGCCCTAAAAA-AG-ACA
65 TCGACCGAAAGTCGAAAAGCCCTAAAAACAGAACA
289801 AAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAAAAAGACAAAAACAATAGGTCTTTT
1 AAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAAAAAGACAAAAACAATAGGTCTTTT
289866 CGACCGAAAGTCGAAAAGCCCTAAAAACAGAACA
66 CGACCGAAAGTCGAAAAGCCCTAAAAACAGAACA
289900 AAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAAAAAGACAAAAACAATAGGTCTTTT
1 AAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAAAAAGACAAAAACAATAGGTCTTTT
289965 CGACCGAAAGTCGAAAAGCCCTAATAAAACAGAACA
66 CGACCGAAAGTCGAAAAGCCCT-A-AAAACAGAACA
290001 AAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAA
1 AAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAA
290042 CTAGAACTTT
Statistics
Matches: 237, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
97 53 0.22
98 41 0.17
99 90 0.38
100 1 0.00
101 52 0.22
ACGTcount: A:0.46, C:0.21, G:0.16, T:0.17
Consensus pattern (99 bp):
AAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCTAAAAAGACAAAAACAATAGGTCTTTT
CGACCGAAAGTCGAAAAGCCCTAAAAACAGAACA
Found at i:294902 original size:3 final size:3
Alignment explanation
Indices: 294894--294922 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
294884 TGTCGAGAAA
294894 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
294923 AAAAAGACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:294993 original size:48 final size:48
Alignment explanation
Indices: 294923--295020 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
294913 ATAATAATAA
294923 AAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
1 AAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
294971 AAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
1 AAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
295019 AA
1 AA
295021 TTATTCCAGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.47, C:0.20, G:0.16, T:0.16
Consensus pattern (48 bp):
AAAAAGACAAAAACAATAGGTCTTTTCGACCGAAAGTCGAAAAGCCCT
Found at i:296018 original size:2 final size:2
Alignment explanation
Indices: 296011--296054 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
296001 ACTGAAAATA
296011 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
296053 TC
1 TC
296055 ATGTTTTTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:306191 original size:5 final size:5
Alignment explanation
Indices: 306181--306206 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
306171 TGGTACTTTG
306181 CGGAA CGGAA CGGAA CGGAA CGGAA C
1 CGGAA CGGAA CGGAA CGGAA CGGAA C
306207 CAGTTAAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.23, G:0.38, T:0.00
Consensus pattern (5 bp):
CGGAA
Found at i:307389 original size:16 final size:16
Alignment explanation
Indices: 307368--307398 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
307358 AAGAAATTAC
*
307368 TTCGTTATATCCGTAA
1 TTCGTTATAACCGTAA
307384 TTCGTTATAACCGTA
1 TTCGTTATAACCGTA
307399 TAAGAAATTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (16 bp):
TTCGTTATAACCGTAA
Found at i:321590 original size:31 final size:31
Alignment explanation
Indices: 321552--321614 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
321542 AAGATTAACA
*
321552 ACCAGTGTTAATACTAAATCTCAATGGATAC
1 ACCAGTGTTAATACTAAATCTCAATGCATAC
321583 ACCAGTGTTAATACTAAATCTCAATGCATAC
1 ACCAGTGTTAATACTAAATCTCAATGCATAC
321614 A
1 A
321615 GAGTATTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.29
Consensus pattern (31 bp):
ACCAGTGTTAATACTAAATCTCAATGCATAC
Found at i:331201 original size:2 final size:2
Alignment explanation
Indices: 331194--331231 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
331184 ATTAGGTGTG
*
331194 CT CT CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
331232 GTACAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:340859 original size:2 final size:2
Alignment explanation
Indices: 340852--340881 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
340842 NNNNNNNNNN
*
340852 AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
340882 GGTCCGCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:341309 original size:49 final size:51
Alignment explanation
Indices: 341193--341317 Score: 134
Period size: 49 Copynumber: 2.5 Consensus size: 51
341183 GTCCGTGTTA
* * *
341193 CAACGCACTTTG-AAAAAAA-ATTCAAAGTGCGTTAATTTTGGGACCAAGT
1 CAACGCACTTTGAAAAAAAATATTCAAAGTGCGTTAATTATGCGACCAAAT
* * *
341242 CAACGCACTTTAAAAAAAAAATATTCAAAGTGCGTTGA-TAT-CGACGATAAT
1 CAACGCACTTT-GAAAAAAAATATTCAAAGTGCGTTAATTATGCGACCA-AAT
*
341293 -AACGCACTTTGAAAAAAAATGTTCA
1 CAACGCACTTTGAAAAAAAATATTCA
341318 GGGTTTAACC
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
49 24 0.38
50 14 0.22
51 11 0.17
52 15 0.23
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.26
Consensus pattern (51 bp):
CAACGCACTTTGAAAAAAAATATTCAAAGTGCGTTAATTATGCGACCAAAT
Found at i:342399 original size:1 final size:1
Alignment explanation
Indices: 342393--342432 Score: 62
Period size: 1 Copynumber: 40.0 Consensus size: 1
342383 GCCGTGCGCC
* *
342393 AAAAAAAAGAAAAAAAAAAAAAAACAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
342433 CCAAGAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.95, C:0.03, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Done.