Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 89 of 240
Found at i:28012288 original size:20 final size:20
Alignment explanation
Indices: 28012238--28012288 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 20
28012228 AATAGTTCTG
28012238 TCTCTTGATGAAC-ATATGTA
1 TCTCTTG-TGAACAATATGTA
28012258 TCT-TT-TGAACAAT-TGTA
1 TCTCTTGTGAACAATATGTA
28012275 TCTCTTGGTGAACA
1 TCTCTT-GTGAACA
28012289 GATTTATTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 12 0.44
18 4 0.15
19 2 0.07
20 9 0.33
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (20 bp):
TCTCTTGTGAACAATATGTA
Found at i:28023245 original size:42 final size:42
Alignment explanation
Indices: 28023111--28023250 Score: 144
Period size: 42 Copynumber: 3.3 Consensus size: 42
28023101 CTCGGTGGAT
* * *
28023111 TCAGCACTTAGCAACCACC-TTAAATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTAAAATCAATAATACGGGGAA
*
28023152 TCAGCACATT-GCAACC-CCTTTCACAATCAA-AGATACGGTGGAA
1 TCAGCAC-TTAGCAACCACCTTT-AAAATCAATA-ATACGG-GGAA
* * *
28023195 TCAGCACTTAGCAACCACCTTTAGAGTCAATAATTCGGGGAA
1 TCAGCACTTAGCAACCACCTTTAAAATCAATAATACGGGGAA
*
28023237 TCAACACTTAGCAA
1 TCAGCACTTAGCAA
28023251 ACCCTCGAGG
Statistics
Matches: 83, Mismatches: 8, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
40 2 0.02
41 15 0.18
42 32 0.39
43 28 0.34
44 6 0.07
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (42 bp):
TCAGCACTTAGCAACCACCTTTAAAATCAATAATACGGGGAA
Found at i:28027875 original size:20 final size:20
Alignment explanation
Indices: 28027850--28027887 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
28027840 CAAATTAAAC
*
28027850 AATAGTTCTGTCTTTTGATG
1 AATAGTTCTATCTTTTGATG
*
28027870 AATAGTTGTATCTTTTGA
1 AATAGTTCTATCTTTTGA
28027888 ACAATTGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.08, G:0.18, T:0.50
Consensus pattern (20 bp):
AATAGTTCTATCTTTTGATG
Found at i:28030505 original size:38 final size:38
Alignment explanation
Indices: 28030462--28030537 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
28030452 AATACAAAAG
28030462 TTAGTGCATTTATACATAACTCTCTTTTGATTCATACA
1 TTAGTGCATTTATACATAACTCTCTTTTGATTCATACA
28030500 TTAGTGCATTTATACATAACTCTCTTTTGATTCATACA
1 TTAGTGCATTTATACATAACTCTCTTTTGATTCATACA
28030538 ACCTTTTCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (38 bp):
TTAGTGCATTTATACATAACTCTCTTTTGATTCATACA
Found at i:28033530 original size:37 final size:37
Alignment explanation
Indices: 28033407--28033531 Score: 135
Period size: 37 Copynumber: 3.3 Consensus size: 37
28033397 AGTTTGCTCA
* * *
28033407 ATTTAAGATTGCGACTGTTATTTTTAAGGTTCGCTAG
1 ATTTAAGATCGCGACTGTTATTTTTAAGGTTCGTTCG
* * *
28033444 ATTTAAGATCGCGATCT-TCGATATTCTAACAGTTCGTTCG
1 ATTTAAGATCGCGA-CTGT-TAT-TTTTAA-GGTTCGTTCG
* *
28033484 ATTTAAGATCGTGACTGTTATTTTTAAGGTTCTTTCG
1 ATTTAAGATCGCGACTGTTATTTTTAAGGTTCGTTCG
28033521 ATTTAAGATCG
1 ATTTAAGATCG
28033532 AGACCTTCGA
Statistics
Matches: 72, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
37 33 0.46
38 9 0.12
39 9 0.12
40 21 0.29
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (37 bp):
ATTTAAGATCGCGACTGTTATTTTTAAGGTTCGTTCG
Found at i:28033575 original size:77 final size:77
Alignment explanation
Indices: 28033264--28033571 Score: 379
Period size: 77 Copynumber: 4.0 Consensus size: 77
28033254 TTTAATATCA
* * * *
28033264 CGACTGTTATTTTTAAGGTT-TGCTCGATTTAAGATTGCGACCTTCGGTATTCTAACAGTTTGCT
1 CGACTGTTATTTTTAAGGTTCT-CTCGATTTAAGATCGAGACCTTCGATATTCTAACAGTTCGCT
*
28033328 CGATTGAAGATTG
65 CGATTTAAGATTG
* * * * * *
28033341 CGACTTTTATTTTTATGGTTCGCTTGATTTAATATC-ATGACCTTC-AGTATTCTAACAGTTTGC
1 CGACTGTTATTTTTAAGGTTCTCTCGATTTAAGATCGA-GACCTTCGA-TATTCTAACAGTTCGC
*
28033404 TCAATTTAAGATTG
64 TCGATTTAAGATTG
* * * * *
28033418 CGACTGTTATTTTTAAGGTTCGCTAGATTTAAGATCGCGATCTTCGATATTCTAACAGTTCGTTC
1 CGACTGTTATTTTTAAGGTTCTCTCGATTTAAGATCGAGACCTTCGATATTCTAACAGTTCGCTC
*
28033483 GATTTAAGATCG
66 GATTTAAGATTG
* * *
28033495 TGACTGTTATTTTTAAGGTTCTTTCGATTTAAGATCGAGACCTTCGATATTCTAACAGTTCACTC
1 CGACTGTTATTTTTAAGGTTCTCTCGATTTAAGATCGAGACCTTCGATATTCTAACAGTTCGCTC
28033560 GATTTAAGATTG
66 GATTTAAGATTG
28033572 TGACCTTCGG
Statistics
Matches: 197, Mismatches: 29, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
77 196 0.99
78 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (77 bp):
CGACTGTTATTTTTAAGGTTCTCTCGATTTAAGATCGAGACCTTCGATATTCTAACAGTTCGCTC
GATTTAAGATTG
Found at i:28033617 original size:194 final size:194
Alignment explanation
Indices: 28033378--28034243 Score: 534
Period size: 194 Copynumber: 4.5 Consensus size: 194
28033368 TTTAATATCA
** * *
28033378 TGACCTTCAGTATTCTAACAGTTTGCTCAATTTAAGATTGCGACTGTTATTTTTAAGGTTCGCT-
1 TGACCTTCAGTATTCTAACAGTTCACTCAATTTAAGATCGCGACTGTCATTTTTAAGGTTCGCTC
* * * **
28033442 AGATTTAAGATCGCGATCTTC-GATATTCTAACAGTTCGTTCGATTTAAGATCGTGACTGTTATT
66 A-ATTTAAGATCGCGACCTTCAG-TATTCTAACAGTTCGCTCGATTGAAGATCAAGACTGTTATT
*
28033506 TTTAAGGTTCT-TTCGATTTAAGATCGAGACCTTCGATATTCTAACAGTTCACTCGATTTAAGAT
129 TTTAAGGTT-TGCTCGATTTAAGATCGAGACCTTCGATATTCTAACAGTTCACTCGATTTAAGAT
28033570 TG
193 TG
* * * * *
28033572 TGACCTTCGGTATTCTAATAGTTCACTCGATTTAAGATCGCGACTGTCATTTTTATGGTTTGCTC
1 TGACCTTCAGTATTCTAACAGTTCACTCAATTTAAGATCGCGACTGTCATTTTTAAGGTTCGCTC
* * * * *
28033637 AATTTAATATCGTGACCTTCAGTATTCTAACAGTTTGCTCGATTGAATATTAAGACTGTTATTTT
66 AATTTAAGATCGCGACCTTCAGTATTCTAACAGTTCGCTCGATTGAAGATCAAGACTGTTATTTT
* * * * * **
28033702 TACGGTTTGCTCGATTTAAGATCGAGACTTTCGGTATTCTAATAGTTCACTCGATTTAATATCA
131 TAAGGTTTGCTCGATTTAAGATCGAGACCTTCGATATTCTAACAGTTCACTCGATTTAAGATTG
** * * * * * * ** * * *
28033766 TGAATTTCA-T-TT-TTA-GGTTCGCTCGATTTAAGATCGTGACCTTTTGTATTCTAATAGTTCA
1 TGACCTTCAGTATTCTAACAGTTCACTCAATTTAAGATCGCGA-CTGTCAT-TTTTAA-GGTTCG
* * * * * * * **
28033827 CTCGATTTAAGAT--TG-TCTGTCA-T-TTTTAA-GGTTCGCTTGATTTAAGATTGAGACCT-TC
63 CTCAATTTAAGATCGCGACCT-TCAGTATTCTAACAGTTCGCTCGATTGAAGATCAAGA-CTGT-
* * * * * * *
28033885 GATATTCTAATAGTTTGCTTGATTTAAGATC-ACGACTTTC-AT-TTGT-AC-GATTCGCTCGAT
125 TAT-TTTTAA-GGTTTGCTCGATTTAAGATCGA-GACCTTCGATATTCTAACAG-TTCACTCGAT
*
28033945 TTAAGATCG
186 TTAAGATTG
* * * * ** *
28033954 TGACCTTCGGTATTCTAATAGTTCATTCGATTTAAGATCGTAACTATCATTTTTACA-GTTCGCT
1 TGACCTTCAGTATTCTAACAGTTCACTCAATTTAAGATCGCGACTGTCATTTTTA-AGGTTCGCT
* * * * * * *
28034018 CAATTTAAGATAGTGACCTTCAGTATTCTAACAATTTC-CTTGATTTAATATCACA-ACTGTCAT
65 CAATTTAAGATCGCGACCTTCAGTATTCTAAC-AGTTCGCTCGATTGAAGATCA-AGACTGTTAT
* ** * * *
28034081 TTTTAAGGTTCGCTTAATTTAAGATCTCA-ACAGTT-GATATTCTAACAGTTCACTTGATTTAAG
128 TTTTAAGGTTTGCTCGATTTAAGATC-GAGAC-CTTCGATATTCTAACAGTTCACTCGATTTAAG
**
28034144 ATCA
191 ATTG
* * * ** * *
28034148 TG-TCTGTCA-T-TTCT-ACAGTTCGCTCAATTTAATATCATGACTTTCATTTTTACA-GTTCAC
1 TGACCT-TCAGTATTCTAACAGTTCACTCAATTTAAGATCGCGACTGTCATTTTTA-AGGTTCGC
* *
28034208 T-AATTTAAGGTCGCGACCTTCCA-TTTTCTAACAGTT
64 TCAATTTAAGATCGCGACCTT-CAGTATTCTAACAGTT
28034244 TGGTTGGTTT
Statistics
Matches: 526, Mismatches: 110, Indels: 77
0.74 0.15 0.11
Matches are distributed among these distances:
187 1 0.00
188 42 0.08
189 32 0.06
190 60 0.11
191 107 0.20
192 42 0.08
193 32 0.06
194 203 0.39
195 7 0.01
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (194 bp):
TGACCTTCAGTATTCTAACAGTTCACTCAATTTAAGATCGCGACTGTCATTTTTAAGGTTCGCTC
AATTTAAGATCGCGACCTTCAGTATTCTAACAGTTCGCTCGATTGAAGATCAAGACTGTTATTTT
TAAGGTTTGCTCGATTTAAGATCGAGACCTTCGATATTCTAACAGTTCACTCGATTTAAGATTG
Found at i:28033642 original size:77 final size:77
Alignment explanation
Indices: 28033552--28034188 Score: 602
Period size: 77 Copynumber: 8.3 Consensus size: 77
28033542 TATTCTAACA
* * *
28033552 GTTCACTCGATTTAAGATTGTGACCTTCGGTATTCTAATAGTTCACTCGATTTAAGATCGCGACT
1 GTTCGCTCGATTTAAGATCGTGACCTTCGGTATTCTAATAGTTCACTCGATTTAAGATCACGACT
*
28033617 GTCATTTTTATG
66 GTCATTTTTACG
* * * * * ** * * * *
28033629 GTTTGCTCAATTTAATATCGTGACCTTCAGTATTCTAACAGTTTGCTCGATTGAATATTAAGACT
1 GTTCGCTCGATTTAAGATCGTGACCTTCGGTATTCTAATAGTTCACTCGATTTAAGATCACGACT
*
28033694 GTTATTTTTACG
66 GTCATTTTTACG
* * * * * *
28033706 GTTTGCTCGATTTAAGATCGAGACTTTCGGTATTCTAATAGTTCACTCGATTTAATATCATGAAT
1 GTTCGCTCGATTTAAGATCGTGACCTTCGGTATTCTAATAGTTCACTCGATTTAAGATCACGACT
*
28033771 TTCATTTTTA-G
66 GTCATTTTTACG
** * *
28033782 GTTCGCTCGATTTAAGATCGTGACCTTTTGTATTCTAATAGTTCACTCGATTTAAGAT--TGTCT
1 GTTCGCTCGATTTAAGATCGTGACCTTCGGTATTCTAATAGTTCACTCGATTTAAGATCACGACT
*
28033845 GTCATTTTTAAG
66 GTCATTTTTACG
* * * * ** *
28033857 GTTCGCTTGATTTAAGATTGAGACCTTCGATATTCTAATAGTTTGCTTGATTTAAGATCACGACT
1 GTTCGCTCGATTTAAGATCGTGACCTTCGGTATTCTAATAGTTCACTCGATTTAAGATCACGACT
* *
28033922 TTCATTTGTACG
66 GTCATTTTTACG
* * ***
28033934 ATTCGCTCGATTTAAGATCGTGACCTTCGGTATTCTAATAGTTCATTCGATTTAAGATCGTAACT
1 GTTCGCTCGATTTAAGATCGTGACCTTCGGTATTCTAATAGTTCACTCGATTTAAGATCACGACT
* *
28033999 ATCATTTTTACA
66 GTCATTTTTACG
* * * * * * * *
28034011 GTTCGCTCAATTTAAGATAGTGACCTTCAGTATTCTAACAATTTC-CTTGATTTAATATCACAAC
1 GTTCGCTCGATTTAAGATCGTGACCTTCGGTATTCTAA-TAGTTCACTCGATTTAAGATCACGAC
*
28034075 TGTCATTTTTAAG
65 TGTCATTTTTACG
** * * * * * * *
28034088 GTTCGCTTAATTTAAGATC-TCAACAGTT-GATATTCTAACAGTTCACTTGATTTAAGATCATGT
1 GTTCGCTCGATTTAAGATCGT-GAC-CTTCGGTATTCTAATAGTTCACTCGATTTAAGATCACGA
* *
28034151 CTGTCATTTCTACA
64 CTGTCATTTTTACG
* * *
28034165 GTTCGCTCAATTTAATATCATGAC
1 GTTCGCTCGATTTAAGATCGTGAC
28034189 TTTCATTTTT
Statistics
Matches: 452, Mismatches: 100, Indels: 16
0.80 0.18 0.03
Matches are distributed among these distances:
74 12 0.03
75 50 0.11
76 58 0.13
77 325 0.72
78 7 0.02
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (77 bp):
GTTCGCTCGATTTAAGATCGTGACCTTCGGTATTCTAATAGTTCACTCGATTTAAGATCACGACT
GTCATTTTTACG
Found at i:28033893 original size:305 final size:306
Alignment explanation
Indices: 28033560--28034159 Score: 717
Period size: 305 Copynumber: 2.0 Consensus size: 306
28033550 CAGTTCACTC
* * * *
28033560 GATTTAAGATTGTGACCTTCGGTATTCTAATAGTTCACTCGATTTAAGATCGCGACTGTCATTTT
1 GATTTAAGATTGAGACCTTCGATATTCTAATAGTTCACTCGATTTAAGATCACGACTGTCATTTG
* * * * ** *
28033625 TATGGTTTGCTCAATTTAATATCGTGACCTTCAGTATTCTAACAGTTTGCTCGATTGAATAT-TA
66 TACGATTCGCTCAATTTAAGATCGTGACCTTCAGTATTCTAACAGTTCACTCGATTGAAGATCT-
* * * * * * * * *
28033689 AGACTGTTATTTTTACGGTTTGCTCGATTTAAGATCGAGACTTTCGGTATTCTAA-TAGTTCACT
130 A-ACTATCATTTTTACAGTTCGCTCAATTTAAGATAGAGACCTTCAGTATTCTAACAAGTTC-CT
* * * * * **
28033753 CGATTTAATATCATGAA-TTTCATTTTT-AGGTTCGCTCGATTTAAGATCGTGACCTTTTG-TAT
193 CGATTTAATATCA-CAACTGTCATTTTTAAGGTTCGCTCAATTTAAGATC-TCAACAGTTGATAT
*
28033815 TCTAATAGTTCACTCGATTTAAGAT-TGTCTGTCATTTTTAAGGTTCGCTT
256 TCTAACAGTTCACTCGATTTAAGATATGTCTGTCATTTTTAAGGTTCGCTT
** * *
28033865 GATTTAAGATTGAGACCTTCGATATTCTAATAGTTTGCTTGATTTAAGATCACGACTTTCATTTG
1 GATTTAAGATTGAGACCTTCGATATTCTAATAGTTCACTCGATTTAAGATCACGACTGTCATTTG
* * * * *
28033930 TACGATTCGCTCGATTTAAGATCGTGACCTTCGGTATTCTAATAGTTCATTCGATTTAAGATCGT
66 TACGATTCGCTCAATTTAAGATCGTGACCTTCAGTATTCTAACAGTTCACTCGATTGAAGATC-T
* * *
28033995 AACTATCATTTTTACAGTTCGCTCAATTTAAGATAGTGACCTTCAGTATTCTAACAATTTCCTTG
130 AACTATCATTTTTACAGTTCGCTCAATTTAAGATAGAGACCTTCAGTATTCTAACAAGTTCCTCG
*
28034060 ATTTAATATCACAACTGTCATTTTTAAGGTTCGCTTAATTTAAGATCTCAACAGTTGATATTCTA
195 ATTTAATATCACAACTGTCATTTTTAAGGTTCGCTCAATTTAAGATCTCAACAGTTGATATTCTA
*
28034125 ACAGTTCACTTGATTTAAGATCATGTCTGTCATTT
260 ACAGTTCACTCGATTTAAGAT-ATGTCTGTCATTT
28034160 CTACAGTTCG
Statistics
Matches: 245, Mismatches: 42, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
304 2 0.01
305 180 0.73
306 50 0.20
307 1 0.00
308 12 0.05
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (306 bp):
GATTTAAGATTGAGACCTTCGATATTCTAATAGTTCACTCGATTTAAGATCACGACTGTCATTTG
TACGATTCGCTCAATTTAAGATCGTGACCTTCAGTATTCTAACAGTTCACTCGATTGAAGATCTA
ACTATCATTTTTACAGTTCGCTCAATTTAAGATAGAGACCTTCAGTATTCTAACAAGTTCCTCGA
TTTAATATCACAACTGTCATTTTTAAGGTTCGCTCAATTTAAGATCTCAACAGTTGATATTCTAA
CAGTTCACTCGATTTAAGATATGTCTGTCATTTTTAAGGTTCGCTT
Found at i:28033993 original size:40 final size:40
Alignment explanation
Indices: 28033285--28034048 Score: 340
Period size: 40 Copynumber: 19.9 Consensus size: 40
28033275 TTTAAGGTTT
* * * *
28033285 GCTCGATTTAAGATTGCGACCTTCGGTATTCTAACAGTTT
1 GCTCGATTTAAGATCGTGACCTTCGGTATTCTAATAGTTC
* * * * * * *
28033325 GCTCGATTGAAGATTGCGA-CTT--TTATTTTTATGGTTC
1 GCTCGATTTAAGATCGTGACCTTCGGTATTCTAATAGTTC
* * * * * *
28033362 GCTTGATTTAATATCATGACCTTCAGTATTCTAACAGTTT
1 GCTCGATTTAAGATCGTGACCTTCGGTATTCTAATAGTTC
* * * * * *
28033402 GCTCAATTTAAGATTGCGA-C-T-GTTATTTTTAA-GGTTC
1 GCTCGATTTAAGATCGTGACCTTCGGTA-TTCTAATAGTTC
* * * * *
28033439 GCTAGATTTAAGATCGCGATCTTCGATATTCTAACAGTTC
1 GCTCGATTTAAGATCGTGACCTTCGGTATTCTAATAGTTC
* * * *
28033479 GTTCGATTTAAGATCGTGA-C-T-GTTATTTTTAA-GGTTC
1 GCTCGATTTAAGATCGTGACCTTCGGTA-TTCTAATAGTTC
** * * *
28033516 TTTCGATTTAAGATCGAGACCTTCGATATTCTAACAGTTC
1 GCTCGATTTAAGATCGTGACCTTCGGTATTCTAATAGTTC
* *
28033556 ACTCGATTTAAGATTGTGACCTTCGGTATTCTAATAGTTC
1 GCTCGATTTAAGATCGTGACCTTCGGTATTCTAATAGTTC
* * * * * *
28033596 ACTCGATTTAAGATCGCGA-C-T--GTCATTTTTATGGTTT
1 GCTCGATTTAAGATCGTGACCTTCGGT-ATTCTAATAGTTC
* * * * *
28033633 GCTCAATTTAATATCGTGACCTTCAGTATTCTAACAGTTT
1 GCTCGATTTAAGATCGTGACCTTCGGTATTCTAATAGTTC
* * *** * * * ** *
28033673 GCTCGATTGAATATTAAGA-C-T-GTTATTTTTACGGTTT
1 GCTCGATTTAAGATCGTGACCTTCGGTATTCTAATAGTTC
* *
28033710 GCTCGATTTAAGATCGAGACTTTCGGTATTCTAATAGTTC
1 GCTCGATTTAAGATCGTGACCTTCGGTATTCTAATAGTTC
* * * ** *
28033750 ACTCGATTTAATATCATGAATTTC---ATT-T-TTAGGTTC
1 GCTCGATTTAAGATCGTGACCTTCGGTATTCTAATA-GTTC
**
28033786 GCTCGATTTAAGATCGTGACCTTTTGTATTCTAATAGTTC
1 GCTCGATTTAAGATCGTGACCTTCGGTATTCTAATAGTTC
* * * * *
28033826 ACTCGATTTAAGAT--TG-TCTGTC-AT-TTTTAA-GGTTC
1 GCTCGATTTAAGATCGTGACCT-TCGGTATTCTAATAGTTC
* * * * *
28033861 GCTTGATTTAAGATTGAGACCTTCGATATTCTAATAGTTT
1 GCTCGATTTAAGATCGTGACCTTCGGTATTCTAATAGTTC
* ** * * * **
28033901 GCTTGATTTAAGATCACGACTTTC-AT-TTGTACGA-TTC
1 GCTCGATTTAAGATCGTGACCTTCGGTATTCTAATAGTTC
28033938 GCTCGATTTAAGATCGTGACCTTCGGTATTCTAATAGTTC
1 GCTCGATTTAAGATCGTGACCTTCGGTATTCTAATAGTTC
** * * * *
28033978 ATTCGATTTAAGATCGT-AACTATC---ATTTTTACAGTTC
1 GCTCGATTTAAGATCGTGACCT-TCGGTATTCTAATAGTTC
* * *
28034015 GCTCAATTTAAGATAGTGACCTTCAGTATTCTAA
1 GCTCGATTTAAGATCGTGACCTTCGGTATTCTAA
28034049 CAATTTCCTT
Statistics
Matches: 539, Mismatches: 143, Indels: 84
0.70 0.19 0.11
Matches are distributed among these distances:
35 18 0.03
36 30 0.06
37 173 0.32
38 36 0.07
39 39 0.07
40 239 0.44
41 4 0.01
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.41
Consensus pattern (40 bp):
GCTCGATTTAAGATCGTGACCTTCGGTATTCTAATAGTTC
Found at i:28034024 original size:37 final size:37
Alignment explanation
Indices: 28033983--28034216 Score: 113
Period size: 37 Copynumber: 6.2 Consensus size: 37
28033973 AGTTCATTCG
* *
28033983 ATTTAAGATCGTAACTATCATTTTTACAGTTCGCTCA
1 ATTTAAGATCATAACTATCATTTTTACAGTTCGCTTA
* * * *
28034020 ATTTAAGAT-AGTGACCT-TCAGTATTCTAACAATTTC-CTTG
1 ATTTAAGATCA-T-AACTATCA-T-TT-TTAC-AGTTCGCTTA
* * *
28034060 ATTTAATATCACAACTGTCATTTTTA-AGGTTCGCTTA
1 ATTTAAGATCATAACTATCATTTTTACA-GTTCGCTTA
* * * *
28034097 ATTTAAGATC-TCAACAGTTGAT-ATTCTAACAGTTCACTTG
1 ATTTAAGATCAT-AAC---T-ATCATTTTTACAGTTCGCTTA
** * * *
28034137 ATTTAAGATCATGTCTGTCATTTCTACAGTTCGCTCA
1 ATTTAAGATCATAACTATCATTTTTACAGTTCGCTTA
* * * *
28034174 ATTTAATATCATGACTTTCATTTTTACAGTTCAC-TA
1 ATTTAAGATCATAACTATCATTTTTACAGTTCGCTTA
28034210 ATTTAAG
1 ATTTAAG
28034217 GTCGCGACCT
Statistics
Matches: 144, Mismatches: 35, Indels: 37
0.67 0.16 0.17
Matches are distributed among these distances:
35 1 0.01
36 11 0.08
37 72 0.50
38 6 0.04
39 6 0.04
40 40 0.28
41 8 0.06
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.41
Consensus pattern (37 bp):
ATTTAAGATCATAACTATCATTTTTACAGTTCGCTTA
Found at i:28040802 original size:32 final size:33
Alignment explanation
Indices: 28040555--28040803 Score: 183
Period size: 32 Copynumber: 7.8 Consensus size: 33
28040545 TACAGCAATG
* * * * *
28040555 TGATTGGCCCAAAGCCATTAGTAGCAGTGA-TA
1 TGATCGGCACAAAGCCATCAGTAACGGTGACTA
* *
28040587 TGATCGGTACACAA-CCATCAGTAACGGTAAC-A
1 TGATCGGCACA-AAGCCATCAGTAACGGTGACTA
* * * * *
28040619 TGATCAGCACAAAGCCATTAGTAGCAGTGA-TT
1 TGATCGGCACAAAGCCATCAGTAACGGTGACTA
* * ** *
28040651 TGATCAGCACACAGCCATCAGTAACAATGA-AA
1 TGATCGGCACAAAGCCATCAGTAACGGTGACTA
* * * *
28040683 TGGTCGGCACACAA-CCATCGGTAATGGT-AATA
1 TGATCGGCACA-AAGCCATCAGTAACGGTGACTA
* * * *
28040715 TGATTGGTACAAAGCCATCAATAACGAT-ACTA
1 TGATCGGCACAAAGCCATCAGTAACGGTGACTA
28040747 TGATCGGCACAAAGCCATCAGTAACGGT-ACTA
1 TGATCGGCACAAAGCCATCAGTAACGGTGACTA
*
28040779 TGATCGGAACAAAGCCATCAGTAAC
1 TGATCGGCACAAAGCCATCAGTAAC
28040804 ATCGCAGCAA
Statistics
Matches: 169, Mismatches: 41, Indels: 14
0.75 0.18 0.06
Matches are distributed among these distances:
31 5 0.03
32 161 0.95
33 3 0.02
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (33 bp):
TGATCGGCACAAAGCCATCAGTAACGGTGACTA
Found at i:28040835 original size:26 final size:26
Alignment explanation
Indices: 28040804--28040857 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
28040794 CATCAGTAAC
28040804 ATCGCAGCAAAGCTGCTAGCAATAGT
1 ATCGCAGCAAAGCTGCTAGCAATAGT
* *
28040830 ATCGCAGCAAAGTTGCTAGTAATAGT
1 ATCGCAGCAAAGCTGCTAGCAATAGT
28040856 AT
1 AT
28040858 ACGTGGCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCTAGCAATAGT
Found at i:28045500 original size:43 final size:42
Alignment explanation
Indices: 28045453--28045533 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 42
28045443 GGGTAACTCT
* * *
28045453 AACAACCC-ATGTTTATCTTCTCCTCTTTTTAAATTATTTTTTC
1 AACAACCCAATATTT-TCTTCTCCT-TTTTAAAACTATTTTTTC
28045496 AACAACCCAATATTTTCTTCTCCTTTTTAAAACTATTT
1 AACAACCCAATATTTTCTTCTCCTTTTTAAAACTATTT
28045534 ATTTTCTAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
42 12 0.35
43 17 0.50
44 5 0.15
ACGTcount: A:0.27, C:0.23, G:0.01, T:0.48
Consensus pattern (42 bp):
AACAACCCAATATTTTCTTCTCCTTTTTAAAACTATTTTTTC
Found at i:28048529 original size:18 final size:16
Alignment explanation
Indices: 28048495--28048526 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
28048485 CTCCTTTTAG
28048495 GTTGTGGAATTTTTTT
1 GTTGTGGAATTTTTTT
28048511 GTTGTGGAATTTTTTT
1 GTTGTGGAATTTTTTT
28048527 TTGGTAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.25, T:0.62
Consensus pattern (16 bp):
GTTGTGGAATTTTTTT
Found at i:28050166 original size:24 final size:25
Alignment explanation
Indices: 28050128--28050177 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
28050118 AATCTTTTAG
* *
28050128 AAACTAAATATAACTAAGTTAAATA
1 AAACTAAATAGAACTAAGTAAAATA
28050153 AAACT-AATAGAACTAAGTAAAATA
1 AAACTAAATAGAACTAAGTAAAATA
28050177 A
1 A
28050178 CAAAACCAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.62, C:0.08, G:0.06, T:0.24
Consensus pattern (25 bp):
AAACTAAATAGAACTAAGTAAAATA
Found at i:28063725 original size:20 final size:21
Alignment explanation
Indices: 28063700--28063739 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
28063690 GAGTTTTATT
28063700 TATTTTA-TGTACTAA-TTAGA
1 TATTTTAGTGT-CTAAGTTAGA
28063720 TATTTTAGTGTCTAAGTTAG
1 TATTTTAGTGTCTAAGTTAG
28063740 GACTGATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.30, C:0.05, G:0.15, T:0.50
Consensus pattern (21 bp):
TATTTTAGTGTCTAAGTTAGA
Found at i:28070211 original size:14 final size:14
Alignment explanation
Indices: 28070187--28070222 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
28070177 AATCGAATAT
28070187 AATTA-GGTTACAC
1 AATTAGGGTTACAC
28070200 AATTAGGGTTACAC
1 AATTAGGGTTACAC
*
28070214 AATTTGGGT
1 AATTAGGGT
28070223 CGGGTCAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 5 0.24
14 16 0.76
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (14 bp):
AATTAGGGTTACAC
Found at i:28077732 original size:7 final size:6
Alignment explanation
Indices: 28077687--28077753 Score: 56
Period size: 6 Copynumber: 12.0 Consensus size: 6
28077677 GACCCATTTT
* *
28077687 ATTAAA A-T-AA A-TAAA ACTAAC ATTAAA ATTAAA ATTAAA GATT-AA
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA -ATTAAA
*
28077732 ATTGAA ATT--A ATTAAA ATTAAA
1 ATTAAA ATTAAA ATTAAA ATTAAA
28077754 GACAAAGATA
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
4 8 0.15
5 7 0.13
6 34 0.65
7 3 0.06
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (6 bp):
ATTAAA
Found at i:28086796 original size:45 final size:45
Alignment explanation
Indices: 28086754--28086932 Score: 225
Period size: 45 Copynumber: 4.0 Consensus size: 45
28086744 ATTCACACTG
* * *
28086754 TATTATTAACTTTTATTTGCATCGAA-TAGTGGTTTATCCACACCA
1 TATTAGTAACTTTTATCTACATC-AAGTAGTGGTTTATCCACACCA
* * *
28086799 TATTAGCAACATTTATCTACACCAAGTAGTGGTTTATCCACACCA
1 TATTAGTAACTTTTATCTACATCAAGTAGTGGTTTATCCACACCA
* * * *
28086844 TATTTGTAACTTTTATCTACATCAAGTAGTGGTTTATCCATATCG
1 TATTAGTAACTTTTATCTACATCAAGTAGTGGTTTATCCACACCA
* * *
28086889 TATTAGTAGCTTTTATCTACATCAATTAGTGGTCTATCCACACC
1 TATTAGTAACTTTTATCTACATCAAGTAGTGGTTTATCCACACC
28086933 GTACTAGCAA
Statistics
Matches: 114, Mismatches: 19, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
44 2 0.02
45 112 0.98
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (45 bp):
TATTAGTAACTTTTATCTACATCAAGTAGTGGTTTATCCACACCA
Found at i:28086836 original size:21 final size:21
Alignment explanation
Indices: 28086810--28086881 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
28086800 ATTAGCAACA
28086810 TTTATCTACACCAAGTAGTGG
1 TTTATCTACACCAAGTAGTGG
* * * **
28086831 TTTATCCACACCATATTTGTAACT
1 TTTATCTACACCA-AGTAGT--GG
*
28086855 TTTATCTACATCAAGTAGTGG
1 TTTATCTACACCAAGTAGTGG
28086876 TTTATC
1 TTTATC
28086882 CATATCGTAT
Statistics
Matches: 37, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
21 18 0.49
22 4 0.11
23 4 0.11
24 11 0.30
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.40
Consensus pattern (21 bp):
TTTATCTACACCAAGTAGTGG
Found at i:28088636 original size:5 final size:5
Alignment explanation
Indices: 28088626--28088656 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
28088616 GTGTATCTTG
28088626 TTATA TTATA TTATA TTATA TTATA TTATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA T
28088657 AAAAAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:28092934 original size:28 final size:28
Alignment explanation
Indices: 28092901--28092994 Score: 122
Period size: 28 Copynumber: 3.4 Consensus size: 28
28092891 GTGTTTAGGA
28092901 TTAGGGTTTTTGAAAAAAAAATTAGAGT
1 TTAGGGTTTTTGAAAAAAAAATTAGAGT
*
28092929 TTAGGGTTTTTG-AAAAAAATTTA-AGGT
1 TTAGGGTTTTTGAAAAAAAAATTAGA-GT
* *
28092956 TTAGGG-TTTTAAAAAAATAAATTTGAGT
1 TTAGGGTTTTTGAAAAAA-AAATTAGAGT
28092984 TTAGGGTTTTT
1 TTAGGGTTTTT
28092995 AATTGGTAAG
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
26 5 0.09
27 23 0.40
28 24 0.42
29 5 0.09
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.41
Consensus pattern (28 bp):
TTAGGGTTTTTGAAAAAAAAATTAGAGT
Found at i:28093022 original size:36 final size:37
Alignment explanation
Indices: 28092982--28093085 Score: 122
Period size: 36 Copynumber: 2.9 Consensus size: 37
28092972 ATAAATTTGA
28092982 GTTTAGGGTTTTTAATTGGTAAGTGATGTGTTTAG-G
1 GTTTAGGGTTTTTAATTGGTAAGTGATGTGTTTAGAG
**** * * *
28093018 GTTTAGGGTTTTTAAAAAATAAAT-TTGGGTTTAGAG
1 GTTTAGGGTTTTTAATTGGTAAGTGATGTGTTTAGAG
*
28093054 TTTTAGGGTTTTTAATTGGTAAGTGATGTGTT
1 GTTTAGGGTTTTTAATTGGTAAGTGATGTGTT
28093086 CTGAAAAAAT
Statistics
Matches: 51, Mismatches: 15, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
35 8 0.16
36 38 0.75
37 5 0.10
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (37 bp):
GTTTAGGGTTTTTAATTGGTAAGTGATGTGTTTAGAG
Found at i:28093755 original size:10 final size:9
Alignment explanation
Indices: 28093740--28093765 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
28093730 ACCTAAATAA
28093740 TTTTTTTTC
1 TTTTTTTTC
28093749 TTTTTTTTC
1 TTTTTTTTC
28093758 TTTTTTTT
1 TTTTTTTT
28093766 AACCTTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:28096340 original size:14 final size:15
Alignment explanation
Indices: 28096321--28096349 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
28096311 TCACGAAACT
28096321 TTCACACAT-ATAAA
1 TTCACACATAATAAA
28096335 TTCACACATAATAAA
1 TTCACACATAATAAA
28096350 CACAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:28096589 original size:86 final size:87
Alignment explanation
Indices: 28096487--28096661 Score: 271
Period size: 87 Copynumber: 2.0 Consensus size: 87
28096477 GCAAGATGCA
* * *
28096487 CTGTTAGCAAAAGTACTGAAAAAAGCTCCCAGCTGG-CGCTCTTTTTGTACAATAGTTTCTGAAA
1 CTGTCAGCAAAAGTACTAAAAAAAGCTCCCAACTGGACGCTCTTTTTGTACAATAGTTTCTGAAA
28096551 AAATAACTTTGAGAAGATGTTT
66 AAATAACTTTGAGAAGATGTTT
* * * *
28096573 CTGTCAGCAAAAGTACTAAAAAAATCTCCCAACTGGATGCTCTTTTTGTACAGTAGTTTCTGAAC
1 CTGTCAGCAAAAGTACTAAAAAAAGCTCCCAACTGGACGCTCTTTTTGTACAATAGTTTCTGAAA
*
28096638 AAATAATTTTGAGAAGATGTTT
66 AAATAACTTTGAGAAGATGTTT
28096660 CT
1 CT
28096662 AAAAGAATAG
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
86 32 0.40
87 48 0.60
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Consensus pattern (87 bp):
CTGTCAGCAAAAGTACTAAAAAAAGCTCCCAACTGGACGCTCTTTTTGTACAATAGTTTCTGAAA
AAATAACTTTGAGAAGATGTTT
Found at i:28096709 original size:126 final size:125
Alignment explanation
Indices: 28096573--28096879 Score: 452
Period size: 126 Copynumber: 2.4 Consensus size: 125
28096563 GAAGATGTTT
*
28096573 CTGTCAGCAAAAGTACTAAAAAAATCTCCCAACTGGATGCTCTTTTTGTACAGTAGTTTCTGAAC
1 CTGTCAGCAAAAGTACTAAAAAAA-CTCCCAACTGGATGCTCTTTTTGTACAGTAGTTTCTGAAA
*
28096638 AAATAATTTTGAGAAGATGTTTCTAAAAGAATAGGTAGAAAAACGCTTCAAACAGGATGCA
65 AAATAATTTTGAGAAGATGTTTCTAAAAAAATAGGTAGAAAAACGCTTCAAACAGGATGCA
* * * * * *
28096699 CTGTCAGCAAAAGTACTGAAATAAACTCCTAGCTTGAAGCTCTTTTTGTATAGTAGTTTCTGAAA
1 CTGTCAGCAAAAGTACT-AAAAAAACTCCCAACTGGATGCTCTTTTTGTACAGTAGTTTCTGAAA
* * **
28096764 AAATAATTTTGAGAAGATGTTTCTAAAAAAATAGGTTGAAAAATGCTTCAAGTAGGATGCA
65 AAATAATTTTGAGAAGATGTTTCTAAAAAAATAGGTAGAAAAACGCTTCAAACAGGATGCA
* * *
28096825 CTGTTAGCAAAAGTACTGAGAAAACCTCCCAACTGGATGCTCTTTTTGTACAGTA
1 CTGTCAGCAAAAGTACT-AAAAAAACTCCCAACTGGATGCTCTTTTTGTACAGTA
28096880 CATCCTACTT
Statistics
Matches: 159, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
126 153 0.96
127 6 0.04
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (125 bp):
CTGTCAGCAAAAGTACTAAAAAAACTCCCAACTGGATGCTCTTTTTGTACAGTAGTTTCTGAAAA
AATAATTTTGAGAAGATGTTTCTAAAAAAATAGGTAGAAAAACGCTTCAAACAGGATGCA
Found at i:28100437 original size:39 final size:39
Alignment explanation
Indices: 28100380--28100458 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
28100370 TATTAAAGTC
*
28100380 TGTTTATTAAGGGTTGTGTAATAGCTTATAATATTTAGA
1 TGTTTATTAAGGGATGTGTAATAGCTTATAATATTTAGA
28100419 TGTTTATTAAGGGATGTGTAATAGCTTATAATATTTAGA
1 TGTTTATTAAGGGATGTGTAATAGCTTATAATATTTAGA
28100458 T
1 T
28100459 AAAGTGTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.46
Consensus pattern (39 bp):
TGTTTATTAAGGGATGTGTAATAGCTTATAATATTTAGA
Found at i:28101003 original size:33 final size:32
Alignment explanation
Indices: 28100931--28101003 Score: 74
Period size: 33 Copynumber: 2.2 Consensus size: 32
28100921 ATTTTTAAAT
* * * *
28100931 GTAAGACCATAGCTGGGCTATGGCATTTTAAT
1 GTAAGACCATAACTGGGCTATGGCACTTGAAC
* *
28100963 GAAAAGACCATAACTGGGTTATGGCACCTTGAAC
1 G-TAAGACCATAACTGGGCTATGGCA-CTTGAAC
28100997 GTAAGAC
1 GTAAGAC
28101004 TATGGTTGGA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
32 1 0.03
33 26 0.81
34 5 0.16
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (32 bp):
GTAAGACCATAACTGGGCTATGGCACTTGAAC
Found at i:28107516 original size:33 final size:32
Alignment explanation
Indices: 28107444--28107520 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 32
28107434 TAGATACATG
* **
28107444 TGTAAGACCATAACTGGGCTATGACATTCTGA
1 TGTAAGACCATAACTGGGCTATGACATACAAA
*
28107476 TGATAAGACCATAACTGGGTTATGGA-ACTACAAA
1 TG-TAAGACCATAACTGGGCTAT-GACA-TACAAA
28107510 TGTAAGACCAT
1 TGTAAGACCAT
28107521 GGCAGGGCCA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
32 2 0.05
33 29 0.76
34 7 0.18
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (32 bp):
TGTAAGACCATAACTGGGCTATGACATACAAA
Found at i:28111667 original size:33 final size:32
Alignment explanation
Indices: 28111623--28111747 Score: 108
Period size: 33 Copynumber: 3.8 Consensus size: 32
28111613 TAGATACATG
*
28111623 TGTAAGACCATAGTTGGGCTATGGCATTCTGA
1 TGTAAGACCATAGTTGGGCTATGGCATACTGA
** * **
28111655 TGATAAGACCATAACTGGGTTATGGCACTACAAA
1 TG-TAAGACCATAGTTGGGCTATGGCA-TACTGA
* * * *
28111689 TGTAAGACCATGGTAGGGCCATGGCAATGCATG-
1 TGTAAGACCATAGTTGGGCTATGGC-ATAC-TGA
*
28111722 TGTAAGACCATAGTTGGACTATGGCA
1 TGTAAGACCATAGTTGGGCTATGGCA
28111748 CAAAAAGAAT
Statistics
Matches: 70, Mismatches: 19, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
32 3 0.04
33 61 0.87
34 6 0.09
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (32 bp):
TGTAAGACCATAGTTGGGCTATGGCATACTGA
Found at i:28111745 original size:66 final size:66
Alignment explanation
Indices: 28111623--28111748 Score: 148
Period size: 66 Copynumber: 1.9 Consensus size: 66
28111613 TAGATACATG
* * * **
28111623 TGTAAGACCATAGTTGGGCTATGGCATTCTGATGATAAGACCATAACTGGGTTATGGCACTACAA
1 TGTAAGACCATAGTAGGGCCATGGCATGCTGATGATAAGACCATAACTGGACTATGGCACTACAA
28111688 A
66 A
* **
28111689 TGTAAGACCATGGTAGGGCCATGGCAATGCATG-TG-TAAGACCATAGTTGGACTATGGCAC
1 TGTAAGACCATAGTAGGGCCATGGC-ATGC-TGATGATAAGACCATAACTGGACTATGGCAC
28111749 AAAAAGAATT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
66 43 0.86
67 5 0.10
68 2 0.04
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.25
Consensus pattern (66 bp):
TGTAAGACCATAGTAGGGCCATGGCATGCTGATGATAAGACCATAACTGGACTATGGCACTACAA
A
Found at i:28118498 original size:8 final size:8
Alignment explanation
Indices: 28118487--28118617 Score: 52
Period size: 8 Copynumber: 14.8 Consensus size: 8
28118477 AATTAGAAAA
28118487 AAAATTAT
1 AAAATTAT
*
28118495 AAAA-AATT
1 AAAATTA-T
28118503 AAAATATAT
1 AAAAT-TAT
28118512 AAATATTATT
1 AAA-ATTA-T
*
28118522 AAATTTTAAT
1 AAA-ATT-AT
*
28118532 AAAAATTTT
1 -AAAATTAT
*
28118541 AAATATTAA
1 AAA-ATTAT
28118550 AAAATTGCA-
1 AAAATT--AT
*
28118559 AAAATTGT
1 AAAATTAT
28118567 AAAAAATTAT
1 -AA-AATTAT
28118577 AAAATTAT
1 AAAATTAT
28118585 AAAATATAT
1 AAAAT-TAT
28118594 AGAAA-TAT
1 A-AAATTAT
28118602 AAAATTTTAT
1 AAAA--TTAT
28118612 AAAATT
1 AAAATT
28118618 TTATAAAGTT
Statistics
Matches: 96, Mismatches: 9, Indels: 36
0.68 0.06 0.26
Matches are distributed among these distances:
7 4 0.04
8 32 0.33
9 27 0.28
10 29 0.30
11 4 0.04
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (8 bp):
AAAATTAT
Found at i:28118519 original size:16 final size:16
Alignment explanation
Indices: 28118487--28118588 Score: 53
Period size: 19 Copynumber: 5.8 Consensus size: 16
28118477 AATTAGAAAA
28118487 AAAATTATAAAAAATT
1 AAAATTATAAAAAATT
*
28118503 AAAATATATAAATATTATT
1 AAAAT-TATAAA-A-AATT
* *
28118522 AAATTTTAATAAAAATTT
1 AAA-ATT-ATAAAAAATT
*
28118540 TAAA-TATTAAAAAATT
1 AAAATTA-TAAAAAATT
*
28118556 GCAAAAATTGTAAAAAATTAT
1 ---AAAATTATAAAAAA-T-T
28118577 AAAATTATAAAA
1 AAAATTATAAAA
28118589 TATATAGAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 22
0.67 0.10 0.23
Matches are distributed among these distances:
15 1 0.02
16 14 0.22
17 6 0.09
18 16 0.25
19 18 0.28
20 8 0.12
21 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (16 bp):
AAAATTATAAAAAATT
Found at i:28118542 original size:19 final size:20
Alignment explanation
Indices: 28118510--28118553 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
28118500 ATTAAAATAT
* *
28118510 ATAAATATTATTAAATTTTA
1 ATAAAAATTATTAAATATTA
28118530 ATAAAAATT-TTAAATATTA
1 ATAAAAATTATTAAATATTA
28118549 A-AAAA
1 ATAAAA
28118554 TTGCAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 4 0.18
19 10 0.45
20 8 0.36
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
ATAAAAATTATTAAATATTA
Found at i:28118588 original size:17 final size:17
Alignment explanation
Indices: 28118487--28118617 Score: 74
Period size: 17 Copynumber: 7.4 Consensus size: 17
28118477 AATTAGAAAA
*
28118487 AAAATTATAAAAAAT-T
1 AAAATTATAAAAATTAT
*
28118503 AAAATATATAAATATTATT
1 AAAAT-TATAAAAATTA-T
* *
28118522 AAATTTTAATAAAAATTTT
1 AAA-ATT-ATAAAAATTAT
28118541 AAATATTA-AAAAATTGCA-
1 AAA-ATTATAAAAATT--AT
*
28118559 AAAATTGTAAAAAATTAT
1 AAAATTAT-AAAAATTAT
28118577 AAAATTAT-AAAATATAT
1 AAAATTATAAAAAT-TAT
*
28118594 AGAAA-TATAAAATTTTAT
1 A-AAATTATAAAA-ATTAT
28118612 AAAATT
1 AAAATT
28118618 TTATAAAGTT
Statistics
Matches: 90, Mismatches: 10, Indels: 28
0.70 0.08 0.22
Matches are distributed among these distances:
16 10 0.11
17 29 0.32
18 22 0.24
19 20 0.22
20 9 0.10
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (17 bp):
AAAATTATAAAAATTAT
Found at i:28118599 original size:10 final size:8
Alignment explanation
Indices: 28118569--28118617 Score: 55
Period size: 8 Copynumber: 5.8 Consensus size: 8
28118559 AAAATTGTAA
28118569 AAAATTAT
1 AAAATTAT
28118577 AAAATTAT
1 AAAATTAT
28118585 AAAATATAT
1 AAAAT-TAT
28118594 AGAAA-TAT
1 A-AAATTAT
28118602 AAAATTTTAT
1 AAAA--TTAT
28118612 AAAATT
1 AAAATT
28118618 TTATAAAGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
7 3 0.08
8 19 0.53
9 4 0.11
10 10 0.28
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (8 bp):
AAAATTAT
Found at i:28118618 original size:10 final size:10
Alignment explanation
Indices: 28118599--28118624 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
28118589 TATATAGAAA
28118599 TATAAAATTT
1 TATAAAATTT
28118609 TATAAAATTT
1 TATAAAATTT
28118619 TATAAA
1 TATAAA
28118625 GTTGTAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TATAAAATTT
Found at i:28118840 original size:19 final size:19
Alignment explanation
Indices: 28118804--28118839 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
28118794 ATATTTTTAT
28118804 TAAAATTTAATAAATTTTC
1 TAAAATTTAATAAATTTTC
28118823 TAAAATTTAAT-AATTTT
1 TAAAATTTAATAAATTTT
28118840 TTTATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
TAAAATTTAATAAATTTTC
Found at i:28119064 original size:3 final size:3
Alignment explanation
Indices: 28119056--28119088 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
28119046 ACGAGGGACT
28119056 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
28119089 GTTTGAGAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:28119998 original size:3 final size:3
Alignment explanation
Indices: 28119990--28120018 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
28119980 GGGTTTTCAT
28119990 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
28120019 GTTTATGGCT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:28120707 original size:15 final size:15
Alignment explanation
Indices: 28120689--28120722 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
28120679 AATTAAATGC
28120689 TGAAAAAATAAGTAT
1 TGAAAAAATAAGTAT
**
28120704 TGAAAATTTAAGTAT
1 TGAAAAAATAAGTAT
28120719 TGAA
1 TGAA
28120723 CTTAAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.32
Consensus pattern (15 bp):
TGAAAAAATAAGTAT
Found at i:28122091 original size:11 final size:11
Alignment explanation
Indices: 28122036--28122113 Score: 68
Period size: 11 Copynumber: 6.9 Consensus size: 11
28122026 TTCCACTTTT
*
28122036 TCAATTCACTC
1 TCAATTCTCTC
28122047 TCAACTCTCTCTC
1 TCAA-T-TCTCTC
28122060 TCAATTCAT-TC
1 TCAATTC-TCTC
*
28122071 TCAATCCTCTC
1 TCAATTCTCTC
*
28122082 TCAGTTCTCTC
1 TCAATTCTCTC
* *
28122093 TTAATTCTCAC
1 TCAATTCTCTC
*
28122104 TTAATTCTCT
1 TCAATTCTCT
28122114 TAGTTCAGTC
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
10 1 0.02
11 42 0.76
12 3 0.05
13 9 0.16
ACGTcount: A:0.21, C:0.35, G:0.01, T:0.44
Consensus pattern (11 bp):
TCAATTCTCTC
Found at i:28123437 original size:23 final size:22
Alignment explanation
Indices: 28123390--28123439 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
28123380 AGTATACATA
* *
28123390 TTTTGAAAATTTATTTTCAATT
1 TTTTAAAAATTTATTTTCAAGT
28123412 TTTTAAAATATTTATTTT-AACGT
1 TTTTAAAA-ATTTATTTTCAA-GT
28123435 TTTTA
1 TTTTA
28123440 GTATTTTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTTAAAAATTTATTTTCAAGT
Found at i:28123480 original size:11 final size:11
Alignment explanation
Indices: 28123464--28123494 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
28123454 TATATATATT
28123464 TAAAAATTATA
1 TAAAAATTATA
*
28123475 TAAAAATAATA
1 TAAAAATTATA
28123486 TAAAAATTA
1 TAAAAATTA
28123495 ATATGGGTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:28123491 original size:12 final size:11
Alignment explanation
Indices: 28123464--28123498 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
28123454 TATATATATT
*
28123464 TAAAAATTATA
1 TAAAAATAATA
28123475 TAAAAATAATA
1 TAAAAATAATA
28123486 TAAAAATTAATA
1 TAAAAA-TAATA
28123498 T
1 T
28123499 GGGTGGGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:28129933 original size:16 final size:16
Alignment explanation
Indices: 28129908--28129938 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
28129898 TACGTCTTTA
28129908 ATTTTCATAACTCAAC
1 ATTTTCATAACTCAAC
*
28129924 ATTTTTATAACTCAA
1 ATTTTCATAACTCAA
28129939 AAATGCCTTC
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:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTTTCATAACTCAAC
Found at i:28139095 original size:50 final size:50
Alignment explanation
Indices: 28139039--28139213 Score: 235
Period size: 50 Copynumber: 3.5 Consensus size: 50
28139029 TGGGCCTTGG
* *
28139039 GCCTTTGTGGCAAGTTATCTGAAAAGCCTATGTGGCGTATTACTTGGGGA
1 GCCTTTGTGGCAAGTTATTTGAAAAGCCTATGTGGCATATTACTTGGGGA
* * *
28139089 ACCTTTGTGGCAAGTTATTTAAAAAGTCTATGTGGCATATTAC-TGGGGTA
1 GCCTTTGTGGCAAGTTATTTGAAAAGCCTATGTGGCATATTACTTGGGG-A
* * *
28139139 GCCTTTGTGGTAAGTTATTTGAAAAGCCTATGTGGCATATTATTTGGCGA
1 GCCTTTGTGGCAAGTTATTTGAAAAGCCTATGTGGCATATTACTTGGGGA
* *
28139189 GCCCTTGTGGCAAGTCATTTAGAAA
1 GCCTTTGTGGCAAGTTATTT-GAAA
28139214 GCATTTATGG
Statistics
Matches: 108, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
49 5 0.05
50 95 0.88
51 8 0.07
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.34
Consensus pattern (50 bp):
GCCTTTGTGGCAAGTTATTTGAAAAGCCTATGTGGCATATTACTTGGGGA
Found at i:28139181 original size:25 final size:25
Alignment explanation
Indices: 28139039--28139184 Score: 84
Period size: 25 Copynumber: 5.8 Consensus size: 25
28139029 TGGGCCTTGG
* *
28139039 GCCTTTGTGGCAAGTTATCTGAAAA
1 GCCTATGTGGCAAGTTATTTGAAAA
* * **
28139064 GCCTATGTGGCGTA-TTACTTGGGGAA
1 GCCTATGTGGC-AAGTTA-TTTGAAAA
* *
28139090 -CCTTTGTGGCAAGTTATTTAAAAA
1 GCCTATGTGGCAAGTTATTTGAAAA
* * * ***
28139114 GTCTATGTGGCATA-TTACTGGGGTA
1 GCCTATGTGGCA-AGTTATTTGAAAA
* *
28139139 GCCTTTGTGGTAAGTTATTTGAAAA
1 GCCTATGTGGCAAGTTATTTGAAAA
28139164 GCCTATGTGGCATA-TTATTTG
1 GCCTATGTGGCA-AGTTATTTG
28139185 GCGAGCCCTT
Statistics
Matches: 84, Mismatches: 30, Indels: 14
0.66 0.23 0.11
Matches are distributed among these distances:
24 6 0.07
25 71 0.85
26 7 0.08
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.36
Consensus pattern (25 bp):
GCCTATGTGGCAAGTTATTTGAAAA
Found at i:28143277 original size:42 final size:42
Alignment explanation
Indices: 28143231--28143327 Score: 131
Period size: 42 Copynumber: 2.3 Consensus size: 42
28143221 TTCCCACCCA
* *
28143231 TGTAACTCACTGAGTAGCCTCACATGCCCGTGTGCTAAGCTG
1 TGTAACTCACTGAGTAGCCACACATGCCCGTGTGCTAAGCCG
* * * * *
28143273 TGTAACTCTCTGAGTTGCCACACATGCCTGTGTGTTAGGCCG
1 TGTAACTCACTGAGTAGCCACACATGCCCGTGTGCTAAGCCG
28143315 TGTAACTCACTGA
1 TGTAACTCACTGA
28143328 CTTAAACACT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.29
Consensus pattern (42 bp):
TGTAACTCACTGAGTAGCCACACATGCCCGTGTGCTAAGCCG
Found at i:28152600 original size:22 final size:22
Alignment explanation
Indices: 28152575--28152618 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
28152565 CCTTACCGTC
28152575 CAATTATGGTCTAATTGTTATT
1 CAATTATGGTCTAATTGTTATT
28152597 CAATTATGGTCTAATTGTTATT
1 CAATTATGGTCTAATTGTTATT
28152619 TTAGACCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.09, G:0.14, T:0.50
Consensus pattern (22 bp):
CAATTATGGTCTAATTGTTATT
Found at i:28156329 original size:27 final size:27
Alignment explanation
Indices: 28156044--28156319 Score: 410
Period size: 27 Copynumber: 10.2 Consensus size: 27
28156034 AGCGGTCAAT
* * *
28156044 AAATGACCAAAATATCCCCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
28156071 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
* * *
28156098 AAATGATCGAAATACCCTCATAAGGTT
1 AAATGATCGAAATACCCCCATAGGGTA
*
28156125 AAATGATCGAAATACCCTCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
* * * * *
28156152 AAATGACCAAAATATCCCTATTGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
28156179 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
*
28156206 AAATGATCAAAATACCCCCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
*
28156233 AAATGATCAAAATACCCCCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
28156260 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
28156287 AAATGA-CTGAAATACCCCCATAGGGTA
1 AAATGATC-GAAATACCCCCATAGGGTA
28156314 AAATGA
1 AAATGA
28156320 CTATTATACC
Statistics
Matches: 227, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
26 1 0.00
27 226 1.00
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (27 bp):
AAATGATCGAAATACCCCCATAGGGTA
Found at i:28156675 original size:28 final size:27
Alignment explanation
Indices: 28156638--28156715 Score: 77
Period size: 28 Copynumber: 2.9 Consensus size: 27
28156628 GTATTGTTAT
*
28156638 TGTATTGGGCTAATGCCCACACTATTA
1 TGTATCGGGCTAATGCCCACACTATTA
* * * *
28156665 TGGTATGGGGCTAAAGCTCACACTGTTA
1 T-GTATCGGGCTAATGCCCACACTATTA
*
28156693 CTGTATCGGGCTAGT-CCCACACT
1 -TGTATCGGGCTAATGCCCACACT
28156716 GTACTGATAC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
27 8 0.20
28 32 0.78
29 1 0.02
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.29
Consensus pattern (27 bp):
TGTATCGGGCTAATGCCCACACTATTA
Found at i:28158270 original size:25 final size:25
Alignment explanation
Indices: 28158237--28158284 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
28158227 TTAAAGTGTG
28158237 AAAATTAGTTTAATCTGCTACACTA
1 AAAATTAGTTTAATCTGCTACACTA
28158262 AAAATTAGTTTAATCTGCTACAC
1 AAAATTAGTTTAATCTGCTACAC
28158285 CGAATTATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (25 bp):
AAAATTAGTTTAATCTGCTACACTA
Found at i:28169620 original size:30 final size:30
Alignment explanation
Indices: 28169574--28169697 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
28169564 TTTTATTATG
*
28169574 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
28169605 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
28169635 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
28169665 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
28169695 CCA
1 CCA
28169698 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:28169629 original size:15 final size:15
Alignment explanation
Indices: 28169584--28169691 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
28169574 CCAATATCTC
28169584 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
28169599 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
28169614 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
28169629 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
28169644 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
28169659 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
28169674 GATACCCATATCTTT
1 GATACCCATATCTTT
28169689 GAT
1 GAT
28169692 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:28174313 original size:30 final size:30
Alignment explanation
Indices: 28174267--28174360 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
28174257 TTTTATTATG
*
28174267 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
28174298 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
28174328 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
28174358 CCA
1 CCA
28174361 TAAATATGGA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 51 0.88
31 7 0.12
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:28174322 original size:15 final size:15
Alignment explanation
Indices: 28174277--28174354 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
28174267 CCAATATCTC
28174277 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
28174292 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
28174307 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
28174322 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
28174337 GATACCCATATCTTT
1 GATACCCATATCTTT
28174352 GAT
1 GAT
28174355 TTTCCATAAA
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:28188497 original size:13 final size:13
Alignment explanation
Indices: 28188479--28188504 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
28188469 TGGAAATAAC
28188479 GAAACAACTTTGG
1 GAAACAACTTTGG
28188492 GAAACAACTTTGG
1 GAAACAACTTTGG
28188505 CTTGCCCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (13 bp):
GAAACAACTTTGG
Found at i:28189789 original size:26 final size:26
Alignment explanation
Indices: 28189743--28189792 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
28189733 CTAGTTAACG
*
28189743 TTTCTTCTTCTTTTTTATTTTTTTAA
1 TTTCTTCTTCTTATTTATTTTTTTAA
*
28189769 TTTCTTCTT-TCTATTTCTTTTTTT
1 TTTCTTCTTCT-TATTTATTTTTTT
28189793 CTTTTTCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 20 0.95
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (26 bp):
TTTCTTCTTCTTATTTATTTTTTTAA
Found at i:28189799 original size:14 final size:14
Alignment explanation
Indices: 28189776--28189816 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
28189766 TAATTTCTTC
*
28189776 TTTCTATTTCTTTT
1 TTTCTTTTTCTTTT
*
28189790 TTTCTTTTTCATTT
1 TTTCTTTTTCTTTT
*
28189804 TTTCTTCTTCTTT
1 TTTCTTTTTCTTT
28189817 ACTTTCAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTCTTTTTCTTTT
Found at i:28193959 original size:20 final size:20
Alignment explanation
Indices: 28193934--28193975 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
28193924 ACACAATTCG
28193934 CATATCATATTTACACGCGA
1 CATATCATATTTACACGCGA
28193954 CATATCATATTTACACGCGA
1 CATATCATATTTACACGCGA
28193974 CA
1 CA
28193976 AGTTTTTGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.29
Consensus pattern (20 bp):
CATATCATATTTACACGCGA
Found at i:28197466 original size:41 final size:40
Alignment explanation
Indices: 28197409--28197607 Score: 213
Period size: 41 Copynumber: 4.9 Consensus size: 40
28197399 GAATATAATA
* * *
28197409 CAGACGTTACGTCTAGCAGGCTTAATGCCGGTGAAGTATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGAA-CATTT
28197450 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA-ACATTT
* *
28197491 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA-ACATTT
* * * *
28197532 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTGTAC-TGAAT
1 CAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTGAACAT--TT
* * **
28197573 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGAA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGAA
28197608 TCTGTTTAAA
Statistics
Matches: 140, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
39 1 0.01
40 5 0.04
41 131 0.94
42 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (40 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGAACATTT
Found at i:28198616 original size:19 final size:20
Alignment explanation
Indices: 28198592--28198639 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
28198582 AATACTAGCG
28198592 CACAAAGTGCAT-TCTGGCA
1 CACAAAGTGCATATCTGGCA
* *
28198611 CACAAAGCGCATATTTGGCA
1 CACAAAGTGCATATCTGGCA
28198631 CACAAAGTG
1 CACAAAGTG
28198640 TATTGCGTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (20 bp):
CACAAAGTGCATATCTGGCA
Found at i:28200916 original size:297 final size:288
Alignment explanation
Indices: 28200129--28201027 Score: 859
Period size: 294 Copynumber: 3.1 Consensus size: 288
28200119 CTGGTTGACT
* * *
28200129 CATGACACCAACTCAGTTAAGGATTTTATTAATAGTATAGATATATACAATTGATG-GAGAAAAT
1 CATGACACCAACTCAGTTAGGGATTTTATTAATAGTATA-ATATATACAACTGATGTGAGATAAT
* * ** *
28200193 AAATTGTGC-TGTTAAATAAAAATGTATAAAATAAATTAAAATGAAGGTTTGATTTAGTGGTAAA
65 AAATTGTGCATATT--A-AAAAATGTATAAAAGAAATTAAAAT-AAATTTTG-TTGAGTGGTAAA
* * * * * *
28200257 TTTAAGGTTTTACCAATGCAATTGGTTTGGGTTTAAATCTTAT-ACAT--ATATTTTTATTGGTT
125 TTTAAGGTTTTA-CTATTCAATTGGTGTGGGTTCAAATCTTATCATATACATATTTTTCTTGGTT
* * * * * *
28200319 TTTCTTAAAATGAAAAGACTAAAGTACTCTCAAATAATATAACTTA-TTTAATTAAGGAATGGT-
189 TTTGTTAAAATGAAAAGACTAAAATACTCTCGAATAATA-GACTTATTTTAATT-ACGAA-AGTA
* * * * * *
28200382 ACTT-CGTAATTTTCCTAAGCAAGTTGGTGCCCAGTTGACT
251 ATTTCCATAATTTT-CTAA-CAAGTTGGTACCGA-TTAACC
* * * * * *
28200422 CATGATACCAACTCAGTCATGGACTTTATTAATGGTAT-AGATATACAACTGAT-TGAGATAATA
1 CATGACACCAACTCAGTTAGGGATTTTATTAATAGTATAATATATACAACTGATGTGAGATAATA
* * *
28200485 AATTGTGCATATTAAAAAATGTATAAAGGAAATTAAAATAAATCTTTGGTTGAATTGTAAATTTA
66 AATTGTGCATATTAAAAAATGTATAAAAGAAATTAAAATAAAT-TTT-GTTGAGTGGTAAATTTA
* * * ** * * *
28200550 A-GATTTACTACTCCAATTGATGCAGGTTCAAGTCTCACCATATACATATTTTTCTTGGTTTTAT
129 AGGTTTTACTA-TTCAATTGGTGTGGGTTCAAATCTTATCATATACATATTTTTCTTGGTTTT-T
* *
28200614 GTTAAAATGAAAAGACTAAAATACTATCGAATAATAGGACTTATTTTTAATTATGAAAGTAAATT
192 GTTAAAATGAAAAGACTAAAATACTCTCGAATAATA-GACTTA-TTTTAATTACGAAAGT-AATT
*
28200679 TCCATAATTTTCTAACTGAGTTGGTATCCGATTAACC
254 TCCATAATTTTCTAAC-AAGTTGGTA-CCGATTAACC
* * * * * * *
28200716 CTTCACACCAACTCAGTTAGGGGTTTTATTAATAGTATAAATATATATAAGTGGTGTGTGATAAT
1 CATGACACCAACTCAGTTAGGGATTTTATTAATAGTAT-AATATATACAACTGATGTGAGATAAT
* *
28200781 AAATTGTGCATATTAAAAAATGTATAAAAGACATTAAAATAAAATTTTAGTTGAGTGGCAAATTT
65 AAATTGTGCATATTAAAAAATGTATAAAAGAAATTAAAAT-AAATTTT-GTTGAGTGGTAAATTT
28200846 AAGGTTTTACTATTCTAATTGGTGTGGGTTCAAATCTTATCATATACATATTTTTCTTGGTTTTT
128 AAGGTTTTACTATTC-AATTGGTGTGGGTTCAAATCTTATCATATACATATTTTTCTTGGTTTTT
* * * * * * *
28200911 GTTAAAATGAAAAAACTAAAATACCCTTGAATAAT-GACTTGTTTTAGTTACGGAAGGACATTTC
192 GTTAAAATGAAAAGACTAAAATACTCTCGAATAATAGACTTATTTTAATTACGAAAGTA-ATTTC
* * *
28200975 TATAATTTTCTAACCAAGTTGATACATGATTAACC
256 CATAATTTTCTAA-CAAGTTGGTAC-CGATTAACC
*
28201010 CGTGACACCAACTCAGTT
1 CATGACACCAACTCAGTT
28201028 TGGGGTTTAT
Statistics
Matches: 495, Mismatches: 86, Indels: 49
0.79 0.14 0.08
Matches are distributed among these distances:
287 2 0.00
288 25 0.05
289 43 0.09
290 2 0.00
291 45 0.09
292 43 0.09
293 40 0.08
294 115 0.23
295 17 0.03
296 11 0.02
297 98 0.20
298 54 0.11
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (288 bp):
CATGACACCAACTCAGTTAGGGATTTTATTAATAGTATAATATATACAACTGATGTGAGATAATA
AATTGTGCATATTAAAAAATGTATAAAAGAAATTAAAATAAATTTTGTTGAGTGGTAAATTTAAG
GTTTTACTATTCAATTGGTGTGGGTTCAAATCTTATCATATACATATTTTTCTTGGTTTTTGTTA
AAATGAAAAGACTAAAATACTCTCGAATAATAGACTTATTTTAATTACGAAAGTAATTTCCATAA
TTTTCTAACAAGTTGGTACCGATTAACC
Found at i:28203770 original size:24 final size:24
Alignment explanation
Indices: 28203713--28203773 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
28203703 AAAGAGCCTA
* * *
28203713 TAACAAGTAGCTCCGAAGAGCAAT
1 TAACGAGTAGCTCCAAAAAGCAAT
28203737 TAACGAGTAGCTCCAAAAAGCAAT
1 TAACGAGTAGCTCCAAAAAGCAAT
* *
28203761 TAATGGGTAGCTC
1 TAACGAGTAGCTC
28203774 TGAAGAATAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (24 bp):
TAACGAGTAGCTCCAAAAAGCAAT
Found at i:28203868 original size:26 final size:26
Alignment explanation
Indices: 28203833--28203898 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
28203823 AAACGAGCAC
* * * *
28203833 TAACGAGAAGCTCACAAAGAGCC-TT
1 TAACGGGAAGCTCAAAAAAAGCCATA
28203858 TAATCGGGAAGCTCAAAAAAAGCCATA
1 TAA-CGGGAAGCTCAAAAAAAGCCATA
*
28203885 TAACGGGACGCTCA
1 TAACGGGAAGCTCA
28203899 TAAGAGTTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 3 0.09
26 27 0.79
27 4 0.12
ACGTcount: A:0.41, C:0.23, G:0.21, T:0.15
Consensus pattern (26 bp):
TAACGGGAAGCTCAAAAAAAGCCATA
Found at i:28206277 original size:26 final size:26
Alignment explanation
Indices: 28206248--28206350 Score: 91
Period size: 26 Copynumber: 4.0 Consensus size: 26
28206238 ACACCAATAT
* * *
28206248 TGCAGCAAAGTTGCCAGTAATAGTGA
1 TGCAGCAAAGCTGCCAGTAACAGTAA
* *
28206274 TGCAGTAAAGCTGCCAGTAGCAGTAA
1 TGCAGCAAAGCTGCCAGTAACAGTAA
* *
28206300 CGTAGCAAAGCTGCCAGTAACAGTATA
1 TGCAGCAAAGCTGCCAGTAACAGTA-A
** **
28206327 TGTGGCAAAGCCACCAGT-ACAGTA
1 TGCAGCAAAGCTGCCAGTAACAGTA
28206351 CACTTCTCCT
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
26 48 0.76
27 15 0.24
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.19
Consensus pattern (26 bp):
TGCAGCAAAGCTGCCAGTAACAGTAA
Found at i:28206519 original size:27 final size:26
Alignment explanation
Indices: 28206497--28206860 Score: 347
Period size: 27 Copynumber: 13.5 Consensus size: 26
28206487 AGGGGTATAA
28206497 CAGTCATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCT-TGAGGGTATTT
*
28206524 CAGTCATTTTACCCTTTAGGGGTATTT
1 CAGTCATTTTACCCTTGA-GGGTATTT
* *
28206551 CGGTCATTTTACCCTTCGATGGTATTT
1 CAGTCATTTTACCCTT-GAGGGTATTT
*
28206578 C-GATCCTTTTACCCTTCGAGGGTATTT
1 CAG-TCATTTTACCCTT-GAGGGTATTT
* *
28206605 TAGTCATTTTACCCTTCGGGGGTATTT
1 CAGTCATTTTACCCTT-GAGGGTATTT
* *
28206632 C-GATGATTTTACCCTTTAGGGGTATTT
1 CAG-TCATTTTACCCTTGA-GGGTATTT
*
28206659 CAATCATTTTACCCTTTGAGGGTATTT
1 CAGTCATTTTACCC-TTGAGGGTATTT
*
28206686 CAGTCATTTTACCCTTTAGGGGTATTT
1 CAGTCATTTTACCCTTGA-GGGTATTT
*
28206713 TAGTCATTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTT-GAGGGTATTT
* * **
28206740 CGGTTA-TTTACCCTTCGAGCATATTT
1 CAGTCATTTTACCCTT-GAGGGTATTT
* * *
28206766 TAATCATTTTACCCTTCGGGGGTATTT
1 CAGTCATTTTACCCTT-GAGGGTATTT
* * ** *
28206793 CGGTTATTTTACTGTTTGAGTGTATTT
1 CAGTCATTTTAC-CCTTGAGGGTATTT
* *
28206820 CGGTCATTTTACCCTTCGGGGGTATTT
1 CAGTCATTTTACCCTT-GAGGGTATTT
28206847 CAGTCATTTTACCC
1 CAGTCATTTTACCC
28206861 ATGAATTGCA
Statistics
Matches: 278, Mismatches: 46, Indels: 26
0.79 0.13 0.07
Matches are distributed among these distances:
26 29 0.10
27 241 0.87
28 8 0.03
ACGTcount: A:0.18, C:0.20, G:0.19, T:0.44
Consensus pattern (26 bp):
CAGTCATTTTACCCTTGAGGGTATTT
Found at i:28206557 original size:54 final size:55
Alignment explanation
Indices: 28206497--28206860 Score: 406
Period size: 54 Copynumber: 6.7 Consensus size: 55
28206487 AGGGGTATAA
28206497 CAGTCATTTTACCCTAT-GAGGGTATTTCAGTCATTTTACCCTTTAG-GGGTATTT
1 CAGTCATTTTACCCT-TCGAGGGTATTTCAGTCATTTTACCCTTTAGAGGGTATTT
* * * *
28206551 CGGTCATTTTACCCTTCGATGGTATTTC-GATCCTTTTACCC-TTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTTCAG-TCATTTTACCCTTTAGAGGGTATTT
* * *
28206605 TAGTCATTTTACCCTTCGGGGGTATTTC-GATGATTTTACCCTTTAG-GGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTTCAG-TCATTTTACCCTTTAGAGGGTATTT
* *
28206659 CAATCATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCCTTTAG-GGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTTAGAGGGTATTT
* * * * **
28206713 TAGTCATTTTACCCTTCGAGGGTATTTCGGTTA-TTTACCC-TTCGAGCATATTT
1 CAGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTTAGAGGGTATTT
* * * * * ** *
28206766 TAATCATTTTACCCTTCGGGGGTATTTCGGTTATTTTACTGTTT-GAGTGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTTAGAGGGTATTT
* *
28206820 CGGTCATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCC
1 CAGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCC
28206861 ATGAATTGCA
Statistics
Matches: 265, Mismatches: 37, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
52 3 0.01
53 49 0.18
54 207 0.78
55 6 0.02
ACGTcount: A:0.18, C:0.20, G:0.19, T:0.44
Consensus pattern (55 bp):
CAGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTTAGAGGGTATTT
Found at i:28206610 original size:81 final size:81
Alignment explanation
Indices: 28206500--28206860 Score: 440
Period size: 81 Copynumber: 4.5 Consensus size: 81
28206490 GGTATAACAG
*
28206500 TCATTTTACCCTAT-GAGGGTATTTCAGTCATTTTACCCTTTAGGGGTATTTCGGTCATTTTACC
1 TCATTTTACCCT-TCGAGGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCGGTCATTTTACC
*
28206564 CTTCGATGGTATTTCGA
65 CTTCGAGGGTATTTCGA
* * * * *
28206581 TCCTTTTACCCTTCGAGGGTATTTTAGTCATTTTACCCTTCGGGGGTATTTCGATGATTTTACCC
1 TCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCGGTCATTTTACCC
* *
28206646 TT-TAGGGGTATTTCAA
66 TTCGA-GGGTATTTCGA
* * **
28206662 TCATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCCTTTAGGGGTATTTTAGTCATTTTACCC
1 TCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCGGTCATTTTACCC
*
28206727 TTCGAGGGTATTTCGG
66 TTCGAGGGTATTTCGA
* ** * * * * **
28206743 TTA-TTTACCCTTCGAGCATATTTTAATCATTTTACCCTTCGGGGGTATTTCGGTTATTTTACTG
1 TCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCGGTCATTTTACCC
* * *
28206807 TTTGAGTGTATTTCGG
66 TTCGAGGGTATTTCGA
*
28206823 TCATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCC
1 TCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCC
28206861 ATGAATTGCA
Statistics
Matches: 234, Mismatches: 42, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
80 67 0.29
81 166 0.71
82 1 0.00
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.44
Consensus pattern (81 bp):
TCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCGGTCATTTTACCC
TTCGAGGGTATTTCGA
Found at i:28212576 original size:17 final size:17
Alignment explanation
Indices: 28212554--28212592 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
28212544 CTGAAGCTTG
28212554 AACATTATTATATGAAA
1 AACATTATTATATGAAA
28212571 AACATTATTATATGAAA
1 AACATTATTATATGAAA
28212588 AACAT
1 AACAT
28212593 ATTTAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (17 bp):
AACATTATTATATGAAA
Found at i:28214240 original size:24 final size:24
Alignment explanation
Indices: 28214213--28214263 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
28214203 AAAGAGCCTA
*
28214213 TAACGGGTAGCTCTGAAGAGCAAT
1 TAACGGGTAGCTCCGAAGAGCAAT
*
28214237 TAACGGGTAGCTCCGAAGAGCACT
1 TAACGGGTAGCTCCGAAGAGCAAT
28214261 TAA
1 TAA
28214264 TTAGGAAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (24 bp):
TAACGGGTAGCTCCGAAGAGCAAT
Found at i:28219365 original size:37 final size:38
Alignment explanation
Indices: 28219314--28219398 Score: 127
Period size: 37 Copynumber: 2.3 Consensus size: 38
28219304 AATAAACTCT
* *
28219314 TAATCCTAGCCCTAGATTTAAA-CCTAAAGATATCTCA
1 TAATCCTAGCCCTAGATTTAAATCCTAAAGATAACTAA
* *
28219351 TAATCCTAGTCCTAGATTTAAATCCTAAAGGTAACTAA
1 TAATCCTAGCCCTAGATTTAAATCCTAAAGATAACTAA
28219389 TAATCCTAGC
1 TAATCCTAGC
28219399 TATCTATCTA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 21 0.50
38 21 0.50
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (38 bp):
TAATCCTAGCCCTAGATTTAAATCCTAAAGATAACTAA
Found at i:28222988 original size:25 final size:26
Alignment explanation
Indices: 28222954--28223018 Score: 98
Period size: 25 Copynumber: 2.5 Consensus size: 26
28222944 CTCAATTACC
28222954 AATTGGAAAAAACAGTTTA-GTATCA
1 AATTGGAAAAAACAGTTTAGGTATCA
28222979 AATTGGAAAAAACAGTTTAGGTGTATCA
1 AATTGGAAAAAACAGTTTA-G-GTATCA
28223007 AATT-GAAAAAAC
1 AATTGGAAAAAAC
28223019 GTAAGCATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
25 19 0.51
27 8 0.22
28 10 0.27
ACGTcount: A:0.49, C:0.08, G:0.17, T:0.26
Consensus pattern (26 bp):
AATTGGAAAAAACAGTTTAGGTATCA
Found at i:28223144 original size:18 final size:19
Alignment explanation
Indices: 28223121--28223156 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
28223111 TTTAGGAAAC
28223121 TTTATAAAT-ATTTTGAAT
1 TTTATAAATAATTTTGAAT
28223139 TTTATAAATAATTTTGAA
1 TTTATAAATAATTTTGAA
28223157 ATTTGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (19 bp):
TTTATAAATAATTTTGAAT
Found at i:28223166 original size:19 final size:18
Alignment explanation
Indices: 28223124--28223166 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
28223114 AGGAAACTTT
*
28223124 ATAAATATTTTGAATTTT
1 ATAAATATTTTGAATTTG
28223142 ATAAATAATTTTGAAATTTG
1 ATAAAT-ATTTTG-AATTTG
28223162 A-AAAT
1 ATAAAT
28223167 TGTCTTGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 6 0.27
19 10 0.45
20 6 0.27
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (18 bp):
ATAAATATTTTGAATTTG
Found at i:28228319 original size:22 final size:23
Alignment explanation
Indices: 28228285--28228327 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
28228275 TTTTTTTTTC
28228285 TTTTTAAGTTTTTATTTATTTAG
1 TTTTTAAGTTTTTATTTATTTAG
28228308 TTTTTAAGTTTTT-TTTATTT
1 TTTTTAAGTTTTTATTTATTT
28228328 GTCCTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (23 bp):
TTTTTAAGTTTTTATTTATTTAG
Found at i:28228452 original size:22 final size:22
Alignment explanation
Indices: 28228436--28228491 Score: 87
Period size: 22 Copynumber: 2.5 Consensus size: 22
28228426 TATTTTTTAA
*
28228436 ATTATTTTTTAAAATTTGAAAT
1 ATTATTTTTTAAAATTTTAAAT
28228458 ATTATTTTTT-AAATTTTAAAT
1 ATTATTTTTTAAAATTTTAAAT
28228479 ATATATTTTTTAA
1 AT-TATTTTTTAA
28228492 TAATATAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 12 0.39
22 18 0.58
23 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
ATTATTTTTTAAAATTTTAAAT
Found at i:28228469 original size:34 final size:36
Alignment explanation
Indices: 28228394--28228472 Score: 119
Period size: 35 Copynumber: 2.2 Consensus size: 36
28228384 ATTTGAAATG
*
28228394 TTTTATAA-TATTTTTTAAAAATTTTAAATATATATT
1 TTTTA-AATTATTTTTTAAAAATTTGAAATATATATT
28228430 TTTTAAATTATTTTTT-AAAATTTGAAATAT-TATT
1 TTTTAAATTATTTTTTAAAAATTTGAAATATATATT
28228464 TTTTAAATT
1 TTTTAAATT
28228473 TTAAATATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
34 13 0.32
35 15 0.37
36 13 0.32
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (36 bp):
TTTTAAATTATTTTTTAAAAATTTGAAATATATATT
Found at i:28228500 original size:23 final size:21
Alignment explanation
Indices: 28228436--28228500 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 21
28228426 TATTTTTTAA
28228436 ATTATTTTTTAAAATTTGAAAT
1 ATTATTTTTTAAAATTT-AAAT
*
28228458 ATTATTTTTTAAATTTTAAAT
1 ATTATTTTTTAAAATTTAAAT
*
28228479 ATATATTTTTTAATAATATAAA
1 AT-TATTTTTTAA-AATTTAAA
28228501 ACATTTAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 6 0.16
22 26 0.68
23 6 0.16
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
ATTATTTTTTAAAATTTAAAT
Found at i:28228591 original size:31 final size:32
Alignment explanation
Indices: 28228556--28228629 Score: 77
Period size: 31 Copynumber: 2.4 Consensus size: 32
28228546 TTCTTATAAT
28228556 ATTTTAAATATATATT-TTAA-TTTTAAATCTA
1 ATTTTAAATATATATTATTAATTTTTAAAT-TA
*
28228587 ATTTT---TATAAATTATTAATTTTTTAAATTA
1 ATTTTAAATATATATTATTAA-TTTTTAAATTA
*
28228617 ATTTTAAAGATAT
1 ATTTTAAATATAT
28228630 TCAAACGTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
28 7 0.21
29 4 0.12
30 7 0.21
31 13 0.38
33 3 0.09
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (32 bp):
ATTTTAAATATATATTATTAATTTTTAAATTA
Found at i:28228613 original size:16 final size:17
Alignment explanation
Indices: 28228585--28228616 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
28228575 ATTTTAAATC
28228585 TAATTTTTATAAATTAT
1 TAATTTTTATAAATTAT
28228602 TAATTTTT-TAAATTA
1 TAATTTTTATAAATTA
28228617 ATTTTAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TAATTTTTATAAATTAT
Found at i:28232796 original size:21 final size:21
Alignment explanation
Indices: 28232772--28232826 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
28232762 TGACCAATTA
28232772 TAATATATATTTTTAATTTTC
1 TAATATATATTTTTAATTTTC
* * * *
28232793 TAATTTAAATTTTTACTTTTT
1 TAATATATATTTTTAATTTTC
28232814 TAATATATATTTT
1 TAATATATATTTT
28232827 AAAATAAAGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (21 bp):
TAATATATATTTTTAATTTTC
Found at i:28232865 original size:20 final size:20
Alignment explanation
Indices: 28232828--28232889 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 20
28232818 ATATATTTTA
28232828 AAATAAAGTCATAATTTTTTAAC
1 AAATAAA-TCAT--TTTTTTAAC
28232851 AAATAAATTC-TTTTTTTAAC
1 AAATAAA-TCATTTTTTTAAC
28232871 AAATAAATCATTTTTTTAA
1 AAATAAATCATTTTTTTAA
28232890 AATTCTTTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
19 2 0.05
20 25 0.68
22 1 0.03
23 9 0.24
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (20 bp):
AAATAAATCATTTTTTTAAC
Found at i:28233022 original size:18 final size:18
Alignment explanation
Indices: 28232989--28233052 Score: 65
Period size: 18 Copynumber: 3.2 Consensus size: 18
28232979 CTTTAAAAAT
28232989 AATTAAAAAATTATATTTAA
1 AATTAAAAAA--ATATTTAA
28233009 AATTAAAAAAATATTTAA
1 AATTAAAAAAATATTTAA
28233027 AATATACATATAAAATATTATAA
1 AAT-TA-A-A-AAAATATT-TAA
28233050 AAT
1 AAT
28233053 AAATAATAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
18 11 0.28
19 2 0.05
20 11 0.28
21 1 0.03
22 8 0.21
23 6 0.15
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTAAAAAAATATTTAA
Found at i:28233041 original size:31 final size:32
Alignment explanation
Indices: 28232983--28233042 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
28232973 GAATATCTTT
* *
28232983 AAAAATAATTAAAAAATTATATTTAAAATTAA
1 AAAAATAATTAAAAAATTACATATAAAATTAA
* *
28233015 AAAAATATTTAAAATA-TACATATAAAAT
1 AAAAATAATTAAAAAATTACATATAAAAT
28233043 ATTATAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 10 0.42
32 14 0.58
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (32 bp):
AAAAATAATTAAAAAATTACATATAAAATTAA
Found at i:28233062 original size:22 final size:22
Alignment explanation
Indices: 28233001--28233053 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 22
28232991 TTAAAAAATT
28233001 ATATTTAAAAT-TA-A-A-AAA
1 ATATTTAAAATATACATATAAA
28233019 ATATTTAAAATATACATATAAA
1 ATATTTAAAATATACATATAAA
28233041 ATATTATAAAATA
1 ATATT-TAAAATA
28233054 AATAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.37
19 2 0.07
20 1 0.03
21 1 0.03
22 8 0.27
23 7 0.23
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
ATATTTAAAATATACATATAAA
Found at i:28233138 original size:21 final size:20
Alignment explanation
Indices: 28233112--28233150 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
28233102 ATTATTAAAA
28233112 AATATTTAAAATTTAAAAAGT
1 AATATTT-AAATTTAAAAAGT
28233133 AATATTTAAATTTAAAAA
1 AATATTTAAATTTAAAAA
28233151 CAAATAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
AATATTTAAATTTAAAAAGT
Found at i:28233160 original size:21 final size:21
Alignment explanation
Indices: 28233111--28233165 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
28233101 TATTATTAAA
*
28233111 AAATATTTAAAATTTAAAAAG
1 AAATATTTAAAATTTAAAAAC
*
28233132 TAATATTT-AAATTTAAAAAC
1 AAATATTTAAAATTTAAAAAC
28233152 AAATAATTTTAAAA
1 AAAT-A-TTTAAAA
28233166 AATATATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 14 0.50
21 8 0.29
22 3 0.11
23 3 0.11
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
AAATATTTAAAATTTAAAAAC
Found at i:28233160 original size:35 final size:32
Alignment explanation
Indices: 28233121--28233200 Score: 90
Period size: 35 Copynumber: 2.4 Consensus size: 32
28233111 AAATATTTAA
*
28233121 AATTTAAAAAGTAATATTTAAATTTAAAAACAAAT
1 AATTTAAAAAGT-ATATTTAAAATT-AAAA-AAAT
*
28233156 AATTTTAAAAAATATATTTAAAATTAAAAAAAT
1 AA-TTTAAAAAGTATATTTAAAATTAAAAAAAT
28233189 -ATTATAAAAAGT
1 AATT-TAAAAAGT
28233201 TTCAAATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
31 2 0.05
32 8 0.20
33 4 0.10
34 4 0.10
35 13 0.32
36 9 0.22
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (32 bp):
AATTTAAAAAGTATATTTAAAATTAAAAAAAT
Found at i:28233180 original size:21 final size:21
Alignment explanation
Indices: 28233156--28233229 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 21
28233146 AAAAACAAAT
28233156 AATTTTAAAAAATATATTTAA
1 AATTTTAAAAAATATATTTAA
28233177 AA--TTAAAAAA-ATATTATAAA
1 AATTTTAAAAAATATATT-T-AA
* * * * *
28233197 AAGTTTCAAATATACATTTTA
1 AATTTTAAAAAATATATTTAA
*
28233218 AATTTTATAAAA
1 AATTTTAAAAAA
28233230 CCAATAATAA
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
18 5 0.12
19 9 0.22
20 4 0.10
21 11 0.28
22 7 0.17
23 4 0.10
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (21 bp):
AATTTTAAAAAATATATTTAA
Found at i:28233187 original size:20 final size:20
Alignment explanation
Indices: 28233108--28233190 Score: 63
Period size: 21 Copynumber: 4.4 Consensus size: 20
28233098 TTATATTATT
*
28233108 AAAAA-ATATTTAAAATTTA
1 AAAAATATATTTAAAATTAA
* *
28233127 AAAAGTAATATTTAAATTTAA
1 AAAAAT-ATATTTAAAATTAA
*
28233148 AAACAA-ATAATT----TT-A
1 AAA-AATATATTTAAAATTAA
28233163 AAAAATATATTTAAAATTAA
1 AAAAATATATTTAAAATTAA
28233183 AAAAATAT
1 AAAAATAT
28233191 TATAAAAAGT
Statistics
Matches: 49, Mismatches: 6, Indels: 17
0.68 0.08 0.24
Matches are distributed among these distances:
14 2 0.04
15 9 0.18
16 2 0.04
19 6 0.12
20 14 0.29
21 15 0.31
22 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (20 bp):
AAAAATATATTTAAAATTAA
Found at i:28233198 original size:20 final size:19
Alignment explanation
Indices: 28233108--28233197 Score: 66
Period size: 19 Copynumber: 4.8 Consensus size: 19
28233098 TTATATTATT
28233108 AAAAA-ATATTTAAAATTTA
1 AAAAATATATTTAAAA-TTA
* *
28233127 AAAAGTAATATTTAAATTTA
1 AAAAAT-ATATTTAAAATTA
**
28233147 AAAACA-A-A--TAATTTTA
1 AAAA-ATATATTTAAAATTA
28233163 AAAAATATATTTAAAATTA
1 AAAAATATATTTAAAATTA
28233182 AAAAA-ATATTATAAAA
1 AAAAATATATT-TAAAA
28233198 AGTTTCAAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
15 1 0.02
16 12 0.21
17 1 0.02
18 6 0.11
19 21 0.37
20 7 0.12
21 9 0.16
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (19 bp):
AAAAATATATTTAAAATTA
Found at i:28233307 original size:23 final size:23
Alignment explanation
Indices: 28233263--28233322 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 23
28233253 ATAAATAAGG
28233263 AAAAATAAAAATACTTAAAAAGCAA
1 AAAAATAAAAATA-TTAAAAAG-AA
*
28233288 ATAAATAAAAAT-TTAAAAAGAA
1 AAAAATAAAAATATTAAAAAGAA
28233310 AAAAATGAAAAAT
1 AAAAAT-AAAAAT
28233323 GACAAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 7 0.22
23 14 0.44
25 11 0.34
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.18
Consensus pattern (23 bp):
AAAAATAAAAATATTAAAAAGAA
Found at i:28236209 original size:15 final size:15
Alignment explanation
Indices: 28236185--28236217 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
28236175 CTGTTTTTAG
28236185 TAAAAAAAATAATAA
1 TAAAAAAAATAATAA
*
28236200 TAAAAGAAATAATAA
1 TAAAAAAAATAATAA
28236215 TAA
1 TAA
28236218 TATCCCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
TAAAAAAAATAATAA
Found at i:28246740 original size:53 final size:54
Alignment explanation
Indices: 28246683--28246795 Score: 131
Period size: 53 Copynumber: 2.1 Consensus size: 54
28246673 CCCTAAAACA
* * * **
28246683 TTTTTCTTTTACTTTTCC-CCAAAACTTTTACTTCCTCCAAACCTTTAAAAC-TT
1 TTTTTCCTTTAC-CTTCCTCCAAAACTTTTACTTCCCCCAAACCTCAAAAACATT
* * *
28246736 TTTTTCCTTTGCCTTCCTCCAAAACTTTTATTTCCCCCAAATCTCAAAAACATT
1 TTTTTCCTTTACCTTCCTCCAAAACTTTTACTTCCCCCAAACCTCAAAAACATT
28246790 TTTTTC
1 TTTTTC
28246796 GAATTTATAT
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
52 4 0.08
53 38 0.76
54 8 0.16
ACGTcount: A:0.24, C:0.29, G:0.01, T:0.46
Consensus pattern (54 bp):
TTTTTCCTTTACCTTCCTCCAAAACTTTTACTTCCCCCAAACCTCAAAAACATT
Found at i:28247994 original size:12 final size:12
Alignment explanation
Indices: 28247969--28248002 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
28247959 TCATTAATCG
*
28247969 ATAAACGAGTCA
1 ATAAACGAGCCA
*
28247981 ATAAATGAGCCA
1 ATAAACGAGCCA
28247993 ATAAACGAGC
1 ATAAACGAGC
28248003 TTTTAAACAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.18, G:0.18, T:0.15
Consensus pattern (12 bp):
ATAAACGAGCCA
Found at i:28252691 original size:73 final size:71
Alignment explanation
Indices: 28252545--28252715 Score: 243
Period size: 73 Copynumber: 2.4 Consensus size: 71
28252535 AAAATAAGCA
* ** * *
28252545 TTAGTGGCGTTTTCCAGAAAGCGCCGCAAAAACTTAAGCCCAACGACGTCGTTTTCTGAGCTTTC
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAACATAAGCCCAACGACGCCGTTTTCTGAGCTTTC
28252610 GGGAAT
66 GGGAAT
*
28252616 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAGACATAAGCCCAATGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGC-AAAA-ACATAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
28252681 TTGGGGAT
64 TCGGGAAT
*
28252689 TTAGCGGCGTTTTTGAGAAAGCACCGC
1 TTAGCGGCGTTTTTGAGAAAGCGCCGC
28252716 TAATGCTCAG
Statistics
Matches: 89, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
71 24 0.27
72 4 0.04
73 61 0.69
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (71 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAACATAAGCCCAACGACGCCGTTTTCTGAGCTTTC
GGGAAT
Found at i:28252922 original size:229 final size:227
Alignment explanation
Indices: 28252615--28253038 Score: 677
Period size: 229 Copynumber: 1.9 Consensus size: 227
28252605 CTTTCGGGAA
* * * *
28252615 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAGACATAAGCCCAATGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGAAAAAAAACATAAGCACAACGACGCCGTTTTCTGAGCT
* *
28252680 TTTGGGGATTTAGCGGCGTTTTTGAGAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
66 TTTGGGGATTTAGCGGCGTTTCTAAGAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
*
28252745 AGAAAGCGCCGCAAAAAAACATAAGCCCAACAACGCCGTTTTGTGAGCTTTCGGGGATTTAGCGG
131 AGAAAGCGCCGC-AAAAAACATAAGCACAACAACGCCGTTTTGTGAGCTTTCGGGGATTTAGCGG
28252810 CGTTTTTAGGAAAGCGCCGCTAATGCTCAGGGC
195 CGTTTTTAGGAAAGCGCCGCTAATGCTCAGGGC
* * *
28252843 TTTAGCGGTGTTTTTGAGAAAGCGCCGTAAAAAAAACCTAAGCACAACGACGCTGTTTTCTGAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCG-AAAAAAAACATAAGCACAACGACGCCGTTTTCTGAGC
* *
28252908 TTTTGGGGATTTAGCGGCGTTTCTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGTGTTTTT
65 TTTTGGGGATTTAGCGGCGTTTCTAAGAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCGTTTTT
* * * * *
28252973 GAGAAAGCGCCGCAAAAAACCTAAGCAGAACGACGCCGTTTTTTGAGCTTTTGGGGATTTAGCGG
130 GAGAAAGCGCCGCAAAAAACATAAGCACAACAACGCCGTTTTGTGAGCTTTCGGGGATTTAGCGG
28253038 C
195 C
28253039 AAAAAATTTG
Statistics
Matches: 178, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
228 73 0.41
229 105 0.59
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (227 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGAAAAAAAACATAAGCACAACGACGCCGTTTTCTGAGCT
TTTGGGGATTTAGCGGCGTTTCTAAGAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
AGAAAGCGCCGCAAAAAACATAAGCACAACAACGCCGTTTTGTGAGCTTTCGGGGATTTAGCGGC
GTTTTTAGGAAAGCGCCGCTAATGCTCAGGGC
Found at i:28252939 original size:115 final size:114
Alignment explanation
Indices: 28252615--28253038 Score: 661
Period size: 114 Copynumber: 3.7 Consensus size: 114
28252605 CTTTCGGGAA
* * *
28252615 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAGACATAAGCCCAATGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCACAACGACGCCGTTTTCTGAGCT
* *
28252680 TTTGGGGATTTAGCGGCGTTTTTGAGAAAGCACCGCTAATGCTCAGGGC
66 TTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * *
28252729 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACAACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCACAACGACGCCGTTTTCTGAGCT
* *
28252794 TTCGGGGATTTAGCGGCGTTTTTAGGAAAGCGCCGCTAATGCTCAGGGC
66 TTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * * *
28252843 TTTAGCGGTGTTTTTGAGAAAGCGCCGTAAAAAAAACCTAAGCACAACGACGCTGTTTTCTGAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCG-CAAAAAAACATAAGCACAACGACGCCGTTTTCTGAGC
*
28252908 TTTTGGGGATTTAGCGGCGTTTCTAAGAAAGCGCCGCTAATGCTCAGGGC
65 TTTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * * *
28252958 TTTAGCGGTGTTTTTGAGAAAGCGCCGC-AAAAAACCTAAGCAGAACGACGCCGTTTTTTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCACAACGACGCCGTTTTCTGAGCT
28253022 TTTGGGGATTTAGCGGC
66 TTTGGGGATTTAGCGGC
28253039 AAAAAATTTG
Statistics
Matches: 287, Mismatches: 22, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
113 50 0.17
114 132 0.46
115 105 0.37
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCACAACGACGCCGTTTTCTGAGCT
TTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:28253092 original size:41 final size:41
Alignment explanation
Indices: 28253047--28253125 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
28253037 GCAAAAAATT
* * *
28253047 TGGGGGCTTTGGCGGTGTTTTTGATAAAGCGCCGCTAATGC
1 TGGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
28253088 TGGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
1 TGGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
28253126 AAATACTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.18, C:0.18, G:0.35, T:0.29
Consensus pattern (41 bp):
TGGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:28253393 original size:15 final size:15
Alignment explanation
Indices: 28253373--28253417 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
28253363 CATATTTTAA
*
28253373 GGTTTAGGGAGTATG
1 GGTTTAGGGATTATG
28253388 GGTTTAGGGATTAT-
1 GGTTTAGGGATTATG
*
28253402 GGATTAGGGATTATG
1 GGTTTAGGGATTATG
28253417 G
1 G
28253418 ATTAAGGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 13 0.48
15 14 0.52
ACGTcount: A:0.22, C:0.00, G:0.42, T:0.36
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:28253410 original size:14 final size:14
Alignment explanation
Indices: 28253376--28253421 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
28253366 ATTTTAAGGT
* *
28253376 TTAGGGAGTATGGGT
1 TTAGGGATTAT-GGA
28253391 TTAGGGATTATGGA
1 TTAGGGATTATGGA
28253405 TTAGGGATTATGGA
1 TTAGGGATTATGGA
28253419 TTA
1 TTA
28253422 AGGGTTGGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 19 0.66
15 10 0.34
ACGTcount: A:0.26, C:0.00, G:0.37, T:0.37
Consensus pattern (14 bp):
TTAGGGATTATGGA
Found at i:28253692 original size:15 final size:15
Alignment explanation
Indices: 28253672--28253703 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
28253662 TATTTTAAGG
28253672 TTTAGGGAGTATAGA
1 TTTAGGGAGTATAGA
*
28253687 TTTAGGGATTATAGA
1 TTTAGGGAGTATAGA
28253702 TT
1 TT
28253704 AAGGATTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.28, T:0.41
Consensus pattern (15 bp):
TTTAGGGAGTATAGA
Found at i:28253783 original size:22 final size:22
Alignment explanation
Indices: 28253742--28253817 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 22
28253732 TGAGATTTAA
* *
28253742 GGTTTAGGGGTTAGGGGTTAGG
1 GGTTTAGAGGTTAGAGGTTAGG
* *
28253764 GGTTTAGAGGTTAGATGTTAGT
1 GGTTTAGAGGTTAGAGGTTAGG
* *
28253786 GGTTAAGA-GTTAGAGATTTA-G
1 GGTTTAGAGGTTAGAG-GTTAGG
28253807 GGTTTAG-GGTT
1 GGTTTAGAGGTT
28253818 TCAAAGGTCG
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
21 15 0.35
22 28 0.65
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (22 bp):
GGTTTAGAGGTTAGAGGTTAGG
Found at i:28253816 original size:297 final size:293
Alignment explanation
Indices: 28253273--28253818 Score: 769
Period size: 297 Copynumber: 1.8 Consensus size: 293
28253263 ATTATTTAAA
* * *
28253273 ATAATTGTAAAAGGGATAATAATAAATTTGTTTAGGGTTTTTGGTTTAGGGTATATGATTTATTT
1 ATAATTGTAAAAGAGATAATAATAAATTTGTTTAGGGTTTTTAGTTTAGGGTATATGATTAATTT
* * * * *
28253338 AAGATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGGGTTTAGGGATTATG
66 AAGATTTAAAGCCAGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATAGATTTAGGGATTATA
* *
28253403 GATTAGGGATTATGGATTAAGGGTTGGGATTTAAAGTTTAGGGGTTAAAGGGTTAGAGGTTGAGG
131 GATTAAGGATTATGGATTAAGGGTTGGGATTTAAAGTTTAGGGGTTAAAGGGTTAGAGGTTGAGA
*
28253468 GGTTAGATGTGCTATGGGTTAAAAGTTAGGGATTCAGGGGTCGAGTTAGGGTTTTGGGTTTAGAT
196 GGTTAGATGT-CTATGGGTTAAAAGTTAGAGATTCAGGGGT---GTTAGGGTTTTGGGTTTAGAT
28253533 TAATTATTTTTAATTTATATTTTAAATATGTTCTTAT
257 TAATTATTTTTAATTTATATTTTAAATATGTTCTTAT
28253570 ATAATTGTAAAAGAGATAATAATAAATTTGTTTAGGGTTTTTAGTTTAGGGTATATGATTAATTT
1 ATAATTGTAAAAGAGATAATAATAAATTTGTTTAGGGTTTTTAGTTTAGGGTATATGATTAATTT
**
28253635 AAGATTTAAAGTTAGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATAGATTTAGGGATTATA
66 AAGATTTAAAGCCAGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATAGATTTAGGGATTATA
* * *
28253700 GATTAAGGATTATGGTTTAATTAAGGGTTGGCTGAGATTTAAGGTTTAGGGGTT-AGGGGTTAGG
131 GATTAAGGATTATGG----ATTAAGGGTT-G--G-GATTTAAAGTTTAGGGGTTAAAGGGTTAGA
* * *
28253764 GGTTTAGAGGTTAGATGT-TA-GTGGTTAAGAGTTAGAGATTTA-GGGT-TTAGGGTTT
188 GGTTGAGAGGTTAGATGTCTATG-GGTTAAAAGTTAGAGATTCAGGGGTGTTAGGGTTT
28253819 CAAAGGTCGA
Statistics
Matches: 221, Mismatches: 19, Indels: 18
0.86 0.07 0.07
Matches are distributed among these distances:
297 143 0.65
301 15 0.07
302 20 0.09
304 25 0.11
305 18 0.08
ACGTcount: A:0.29, C:0.02, G:0.29, T:0.40
Consensus pattern (293 bp):
ATAATTGTAAAAGAGATAATAATAAATTTGTTTAGGGTTTTTAGTTTAGGGTATATGATTAATTT
AAGATTTAAAGCCAGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATAGATTTAGGGATTATA
GATTAAGGATTATGGATTAAGGGTTGGGATTTAAAGTTTAGGGGTTAAAGGGTTAGAGGTTGAGA
GGTTAGATGTCTATGGGTTAAAAGTTAGAGATTCAGGGGTGTTAGGGTTTTGGGTTTAGATTAAT
TATTTTTAATTTATATTTTAAATATGTTCTTAT
Found at i:28254326 original size:18 final size:18
Alignment explanation
Indices: 28254305--28254341 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
28254295 TAACAAATGG
*
28254305 AATTAAATTAAAATAAAA
1 AATTAAAATAAAATAAAA
*
28254323 AATTAAAATGAAATAAAA
1 AATTAAAATAAAATAAAA
28254341 A
1 A
28254342 CACTAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (18 bp):
AATTAAAATAAAATAAAA
Found at i:28254348 original size:19 final size:18
Alignment explanation
Indices: 28254315--28254350 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
28254305 AATTAAATTA
*
28254315 AAATAAAAAATTAAAATG
1 AAATAAAAAACTAAAATG
28254333 AAATAAAAACACTAAAAT
1 AAATAAAAA-ACTAAAAT
28254351 TTATAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.72, C:0.06, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATAAAAAACTAAAATG
Found at i:28256930 original size:22 final size:22
Alignment explanation
Indices: 28256899--28256941 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
28256889 ATTTGATCAA
28256899 TTGTTGTAGCCAAGGCAAATTG
1 TTGTTGTAGCCAAGGCAAATTG
* *
28256921 TTGTTTTAGCCAATGCAAATT
1 TTGTTGTAGCCAAGGCAAATT
28256942 TTATTATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (22 bp):
TTGTTGTAGCCAAGGCAAATTG
Found at i:28257526 original size:19 final size:20
Alignment explanation
Indices: 28257494--28257531 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
28257484 ACATTACTTA
* *
28257494 TTAATATTTTTATA-ATTTT
1 TTAATATATATATATATTTT
28257513 TTAATATATATATATATTT
1 TTAATATATATATATATTT
28257532 AAAATTTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTAATATATATATATATTTT
Found at i:28257554 original size:19 final size:18
Alignment explanation
Indices: 28257502--28257560 Score: 59
Period size: 17 Copynumber: 3.3 Consensus size: 18
28257492 TATTAATATT
*
28257502 TTTATA-ATTTTTTAATA
1 TTTATATATTTTTTAAAA
* *
28257519 TATATATA-TATTTAAAA
1 TTTATATATTTTTTAAAA
28257536 TTTATATATTTTTTCAAAA
1 TTTATATATTTTTT-AAAA
*
28257555 CTTATA
1 TTTATA
28257561 AATCATATCA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 19 0.58
18 5 0.15
19 9 0.27
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTATATATTTTTTAAAA
Found at i:28257709 original size:12 final size:12
Alignment explanation
Indices: 28257694--28257727 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
28257684 TAACCTACAT
28257694 AACTTACATAGA
1 AACTTACATAGA
*
28257706 AACTTATATAGA
1 AACTTACATAGA
*
28257718 AACTTGCATA
1 AACTTACATA
28257728 ACTTACATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (12 bp):
AACTTACATAGA
Found at i:28257736 original size:9 final size:9
Alignment explanation
Indices: 28257718--28257924 Score: 82
Period size: 9 Copynumber: 23.7 Consensus size: 9
28257708 CTTATATAGA
*
28257718 AACTTGCAT
1 AACTTACAT
28257727 AACTTACAT
1 AACTTACAT
*
28257736 AA-TAACAT
1 AACTTACAT
*
28257744 AAAAACTTAGAT
1 ---AACTTACAT
28257756 AA--TACAT
1 AACTTACAT
* *
28257763 AGCCTACAT
1 AACTTACAT
28257772 AACTTACAT
1 AACTTACAT
28257781 AACTTACAT
1 AACTTACAT
*
28257790 AA--TACAC
1 AACTTACAT
*
28257797 CACTTACAT
1 AACTTACAT
*
28257806 AAATAACTAGCAT
1 AACT---TA-CAT
*
28257819 AA--TACGT
1 AACTTACAT
* *
28257826 AGCCTACAT
1 AACTTACAT
*
28257835 AACTTACTT
1 AACTTACAT
28257844 AACTTACAT
1 AACTTACAT
*
28257853 AA--TACAC
1 AACTTACAT
*
28257860 CACTTACAT
1 AACTTACAT
*
28257869 AACTTAAAT
1 AACTTACAT
28257878 AACTTACAT
1 AACTTACAT
*
28257887 AA--TACTT
1 AACTTACAT
*
28257894 AAATTTA-AT
1 -AACTTACAT
*
28257903 AA--TACAC
1 AACTTACAT
28257910 AACTTACAT
1 AACTTACAT
28257919 AACTTA
1 AACTTA
28257925 ATTACATTAT
Statistics
Matches: 146, Mismatches: 30, Indels: 44
0.66 0.14 0.20
Matches are distributed among these distances:
6 2 0.01
7 25 0.17
8 11 0.08
9 93 0.64
10 2 0.01
11 2 0.01
12 6 0.04
13 5 0.03
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.30
Consensus pattern (9 bp):
AACTTACAT
Found at i:28257785 original size:63 final size:63
Alignment explanation
Indices: 28257736--28257870 Score: 193
Period size: 63 Copynumber: 2.2 Consensus size: 63
28257726 TAACTTACAT
28257736 AATAACATAAA-AACTTAG-ATAATACATAGCCTACATAACTTACATAACTTACATAATACACC
1 AATAACATAAATAAC-TAGCATAATACATAGCCTACATAACTTACATAACTTACATAATACACC
* * * *
28257798 ACTTACATAAATAACTAGCATAATACGTAGCCTACATAACTTACTTAACTTACATAATACACC
1 AATAACATAAATAACTAGCATAATACATAGCCTACATAACTTACATAACTTACATAATACACC
* *
28257861 ACTTACATAA
1 AATAACATAA
28257871 CTTAAATAAC
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
62 12 0.18
63 55 0.82
ACGTcount: A:0.47, C:0.22, G:0.04, T:0.27
Consensus pattern (63 bp):
AATAACATAAATAACTAGCATAATACATAGCCTACATAACTTACATAACTTACATAATACACC
Found at i:28257792 original size:34 final size:33
Alignment explanation
Indices: 28257737--28257891 Score: 142
Period size: 34 Copynumber: 4.8 Consensus size: 33
28257727 AACTTACATA
* *
28257737 ATAACATAAA-AACTTAGATAATACATAGCCTAC
1 ATAACTTAAATAACTTACATAATACATA-CCTAC
*
28257770 ATAACTTACATAACTTACATAATAC--ACC-AC
1 ATAACTTAAATAACTTACATAATACATACCTAC
* * *
28257800 -TTACATAAATAAC-TAGCATAATACGTAGCCTAC
1 ATAACTTAAATAACTTA-CATAATACATA-CCTAC
** * *
28257833 ATAACTTACTTAACTTACATAATACACCACTTAC
1 ATAACTTAAATAACTTACATAATACA-TACCTAC
28257867 ATAACTTAAATAACTTACATAATAC
1 ATAACTTAAATAACTTACATAATAC
28257892 TTAAATTTAA
Statistics
Matches: 98, Mismatches: 15, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
28 2 0.02
29 18 0.18
30 2 0.02
31 3 0.03
32 3 0.03
33 10 0.10
34 57 0.58
35 3 0.03
ACGTcount: A:0.46, C:0.22, G:0.03, T:0.28
Consensus pattern (33 bp):
ATAACTTAAATAACTTACATAATACATACCTAC
Found at i:28257937 original size:29 final size:31
Alignment explanation
Indices: 28257878--28257950 Score: 89
Period size: 29 Copynumber: 2.4 Consensus size: 31
28257868 TAACTTAAAT
28257878 AACTTACATAATACTTAAATTTAATAATACAC
1 AACTTACAT-ATACTTAAATTTAATAATACAC
*
28257910 AACTTACATA-ACTT-AA-TTACATTATACAC
1 AACTTACATATACTTAAATTTA-ATAATACAC
*
28257939 AACATACATATA
1 AACTTACATATA
28257951 TCATAATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
28 3 0.08
29 19 0.51
30 5 0.14
31 1 0.03
32 9 0.24
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (31 bp):
AACTTACATATACTTAAATTTAATAATACAC
Found at i:28260102 original size:43 final size:43
Alignment explanation
Indices: 28260048--28260275 Score: 341
Period size: 43 Copynumber: 5.3 Consensus size: 43
28260038 CGTTTTAAAA
* *
28260048 AAAAGCGCCGCTAAAGGTAATGGTTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGG
* * *
28260091 AAAAGCTCCGCTAAAGTTCATGGTCTTTAGCGGCG-TTGTTGG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGG
* * *
28260133 AAAAGTGCCGCTAGAGGTTATGGTCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGTC-TTTAGCGGCGTTTGTGGG
* *
28260177 AAAAGCGCCGCTAAAGGTCTTGGCCTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGG
*
28260220 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGTGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGG
28260263 AAAAGCGCCGCTA
1 AAAAGCGCCGCTA
28260276 GAAGCCTGTT
Statistics
Matches: 164, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
42 26 0.16
43 112 0.68
44 26 0.16
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGG
Found at i:28262568 original size:19 final size:21
Alignment explanation
Indices: 28262516--28262570 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 21
28262506 AAAACTTTAT
* *
28262516 TTATATTAATTTAATCATTTT
1 TTATTTTAATTTAATCATTTC
*
28262537 TTATTTTATTTTAAT-A-TTC
1 TTATTTTAATTTAATCATTTC
*
28262556 TTGTTTTAATTTAAT
1 TTATTTTAATTTAAT
28262571 TTTTACATTC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 15 0.52
20 1 0.03
21 13 0.45
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (21 bp):
TTATTTTAATTTAATCATTTC
Done.