Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 183 of 279
Found at i:60033252 original size:4 final size:4
Alignment explanation
Indices: 60033243--60033268 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
60033233 ACCCAAACAC
60033243 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
60033269 AACCTTGGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:60033454 original size:23 final size:22
Alignment explanation
Indices: 60033427--60033472 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
60033417 TTGGTTTTTA
60033427 TGGAGAAGGATTGTTCTTTGTTT
1 TGGAGAAGG-TTGTTCTTTGTTT
* * *
60033450 TGGAGGAGGTTTTTTTTTGTTT
1 TGGAGAAGGTTGTTCTTTGTTT
60033472 T
1 T
60033473 TTTGGAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.13, C:0.02, G:0.30, T:0.54
Consensus pattern (22 bp):
TGGAGAAGGTTGTTCTTTGTTT
Found at i:60033822 original size:3 final size:3
Alignment explanation
Indices: 60033808--60033893 Score: 60
Period size: 3 Copynumber: 29.3 Consensus size: 3
60033798 GAGCTTTGTT
* *
60033808 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
60033852 TT- TCTCA TGTA TATA TTA TT- TT- TTA -TA TTA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
60033894 ATATGCCCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 12 0.18
3 48 0.71
4 6 0.09
5 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:60033850 original size:18 final size:18
Alignment explanation
Indices: 60033808--60033897 Score: 83
Period size: 18 Copynumber: 4.7 Consensus size: 18
60033798 GAGCTTTGTT
*
60033808 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
60033828 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
60033846 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
*
60033867 TTATTTTTTATATTATTA
1 TTATTATTTATATTATTA
60033885 TTA-TATTATATAT
1 TTATTATT-TATAT
60033898 GCCCTCTCCA
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
17 3 0.05
18 26 0.44
19 9 0.15
20 10 0.17
21 11 0.19
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:60034135 original size:18 final size:19
Alignment explanation
Indices: 60034099--60034155 Score: 66
Period size: 17 Copynumber: 3.1 Consensus size: 19
60034089 ACTATTACTA
*
60034099 TTATATATTAGTGTATATTT
1 TTATATA-TAGTATATATTT
*
60034119 TTATGTATA-TATATA-TT
1 TTATATATAGTATATATTT
60034136 TTATATATAGTAT-TATTT
1 TTATATATAGTATATATTT
60034154 TT
1 TT
60034156 TATTACTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 12 0.38
18 12 0.38
19 2 0.06
20 6 0.19
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (19 bp):
TTATATATAGTATATATTT
Found at i:60034257 original size:12 final size:12
Alignment explanation
Indices: 60034240--60034269 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
60034230 GTATTTCTAT
60034240 TATATACATATA
1 TATATACATATA
*
60034252 TATATACATTTA
1 TATATACATATA
60034264 TATATA
1 TATATA
60034270 GTATTATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (12 bp):
TATATACATATA
Found at i:60038131 original size:33 final size:33
Alignment explanation
Indices: 60038094--60038162 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
60038084 ATCAGATAGA
60038094 AGAGCGGGTGGAAAAGATTCAGCGAGAGATGCG
1 AGAGCGGGTGGAAAAGATTCAGCGAGAGATGCG
*
60038127 AGAGCGGTTGGAAAAGATTCAGCGAGAGATGCG
1 AGAGCGGGTGGAAAAGATTCAGCGAGAGATGCG
60038160 AGA
1 AGA
60038163 ATCCCAAGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.35, C:0.12, G:0.41, T:0.13
Consensus pattern (33 bp):
AGAGCGGGTGGAAAAGATTCAGCGAGAGATGCG
Found at i:60046638 original size:44 final size:45
Alignment explanation
Indices: 60046458--60046998 Score: 390
Period size: 44 Copynumber: 12.3 Consensus size: 45
60046448 TCATTAAAGT
* * *
60046458 AGATCTTGTCTTCATGTATTGG-CATGAAGCAGATCGAAGATAGC
1 AGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCGAAGATAGC
* * * * * * * * *
60046502 AGGTCCTATCTTCCTATATTGATAG-GAAGTGGATCCAGGAT-GC
1 AGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCGAAGATAGC
** * * * *
60046545 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGC
1 AGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCGAAGATAGC
* * *
60046590 AGATCTTGTCTTCATGTATTGG-CGTGAAATAGATCGAAGGTAGC
1 AGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCGAAGATAGC
* * * *
60046634 AGATCCTATCTTTC-TATATTGGTAG-GAAGTGGATCGAAGAT-GC
1 AGATCTTGTC-TTCATATATTGGTCGTGAAGTAGATCGAAGATAGC
* ** * * * * *
60046677 AGATCTTGGCTTCCCATATTGGTGGCGAAGCAGATCGCAGAAAGC
1 AGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCGAAGATAGC
* * *
60046722 AGATCTTGTCTTCATGTATTGG-CGTGAAATAGATCGAAGGTAGC
1 AGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCGAAGATAGC
* * * *
60046766 AGATCCTATCTTTC-TATATTGGTAG-GAAGTGGATCGAAGAT-GC
1 AGATCTTGTC-TTCATATATTGGTCGTGAAGTAGATCGAAGATAGC
* ** * * * * *
60046809 AGATCTTGGCTTCCCATATTGGTGGCGAAGCAGATCGCAGAAAGC
1 AGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCGAAGATAGC
*
60046854 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGC
1 AGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCGAAGATAGC
* * * * * * * *
60046898 AGGTCCTATCTTCCTATATTGATAG-GAAGTCGATCCAAGAT-GC
1 AGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCGAAGATAGC
** * * * *
60046941 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATTGAAGATTGC
1 AGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCGAAGATAGC
*
60046986 AGATCTTGCCTTC
1 AGATCTTGTCTTC
60046999 CTGTATTTGG
Statistics
Matches: 377, Mismatches: 104, Indels: 31
0.74 0.20 0.06
Matches are distributed among these distances:
42 6 0.02
43 77 0.20
44 210 0.56
45 84 0.22
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (45 bp):
AGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCGAAGATAGC
Found at i:60046695 original size:132 final size:132
Alignment explanation
Indices: 60046453--60047005 Score: 845
Period size: 132 Copynumber: 4.2 Consensus size: 132
60046443 TGAAGTCATT
* * ** *
60046453 AAAGTAGATCTTGTCTTCATGTATTGGCATGAAGCAGATCGAAGATAGCAGGTCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGATAGCAGATCCTATCTTCCTA
* * *
60046518 TATTGATAGGAAGTGGATCCAGGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
66 TATTGATAGGAAGTGGATCCAAGATGCAGATCTTGGCTTCCCATATTGGTGGCGAAGCAGATCGC
60046583 AG
131 AG
* *
60046585 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGGTAGCAGATCCTATCTTTCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGATAGCAGATCCTATCTTCCTA
* *
60046650 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGGCTTCCCATATTGGTGGCGAAGCAGATCGC
66 TATTGATAGGAAGTGGATCCAAGATGCAGATCTTGGCTTCCCATATTGGTGGCGAAGCAGATCGC
60046715 AG
131 AG
* *
60046717 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGGTAGCAGATCCTATCTTTCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGATAGCAGATCCTATCTTCCTA
* *
60046782 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGGCTTCCCATATTGGTGGCGAAGCAGATCGC
66 TATTGATAGGAAGTGGATCCAAGATGCAGATCTTGGCTTCCCATATTGGTGGCGAAGCAGATCGC
60046847 AG
131 AG
* *
60046849 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGATAGCAGATCCTATCTTCCTA
* * * * * * *
60046914 TATTGATAGGAAGTCGATCCAAGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATTGA
66 TATTGATAGGAAGTGGATCCAAGATGCAGATCTTGGCTTCCCATATTGGTGGCGAAGCAGATCGC
60046979 AG
131 AG
** * *
60046981 ATTGCAGATCTTGCCTTCCTGTATT
1 AAAGCAGATCTTGTCTTCATGTATT
60047006 TGGCAGCGAA
Statistics
Matches: 392, Mismatches: 29, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 392 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (132 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGATAGCAGATCCTATCTTCCTA
TATTGATAGGAAGTGGATCCAAGATGCAGATCTTGGCTTCCCATATTGGTGGCGAAGCAGATCGC
AG
Found at i:60047045 original size:46 final size:46
Alignment explanation
Indices: 60046978--60047181 Score: 114
Period size: 46 Copynumber: 4.5 Consensus size: 46
60046968 AAGTAGATTG
* * *
60046978 AAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCA
1 AAGATGGCAGATTTTACCTTCCTGTATTTGGCAGCGAAGCAGATCA
*** * * * * *
60047024 AAGATGGCAGATTTTACCTTCCTG-A--CCACAGTGGAGTACA-CTG
1 AAGATGGCAGATTTTACCTTCCTGTATTTGGCAGCGAAGCAGATC-A
** ** * * * * **
60047067 AAGCCGATA-ATTCTATCTTCCTGTATTTGGCAGTGGAA-TAGATTG
1 AAGATGGCAGATTTTACCTTCCTGTATTTGGCAG-CGAAGCAGATCA
* * * *
60047112 AAGATTGCAGATCTTGCCTTCCTGTATTTGGCAACGAAGCAGATCA
1 AAGATGGCAGATTTTACCTTCCTGTATTTGGCAGCGAAGCAGATCA
*
60047158 AAGATGGCAGATTTTACCTCCCTG
1 AAGATGGCAGATTTTACCTTCCTG
60047182 ACCACAGTGG
Statistics
Matches: 108, Mismatches: 42, Indels: 16
0.65 0.25 0.10
Matches are distributed among these distances:
42 13 0.12
43 14 0.13
45 15 0.14
46 66 0.61
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (46 bp):
AAGATGGCAGATTTTACCTTCCTGTATTTGGCAGCGAAGCAGATCA
Found at i:60047109 original size:134 final size:134
Alignment explanation
Indices: 60046971--60047543 Score: 968
Period size: 134 Copynumber: 4.3 Consensus size: 134
60046961 GGTGGTGAAG
60046971 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGAT
1 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGAT
* * * * *
60047036 TTTACCTTCCTGACCACAGTGGAGTACACTGAAGCCGATAATTCTATCTTCCTGTATTTGGCAGT
66 TTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGT
60047101 GGAA
131 GGAA
*
60047105 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAACGAAGCAGATCAAAGATGGCAGAT
1 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGAT
60047170 TTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGT
66 TTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGT
60047235 GGAA
131 GGAA
* * *
60047239 TAGATTGAATATTGCAGATCTTGCCTTCCTGTATTCGGCAGCGAAGCAGATCGAAGATGGCAGAT
1 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGAT
* *
60047304 TTTACCTCCCT-AGCTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCACTGTATCTGGCAG
66 TTTACCTCCCTGA-CCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAG
60047368 TGGAA
130 TGGAA
* *
60047373 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGGCAGAT
1 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGAT
*
60047438 TTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCA
66 TTTACCTCCC--TGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCA
60047503 GTGGAA
129 GTGGAA
* *
60047509 TAGATTGAAGATTGCAGATCCTGCCTTCCTATATT
1 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATT
60047544 GGTAGGAAGT
Statistics
Matches: 418, Mismatches: 17, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
133 1 0.00
134 327 0.78
136 89 0.21
137 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (134 bp):
TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGAT
TTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGT
GGAA
Found at i:60047729 original size:43 final size:40
Alignment explanation
Indices: 60047682--60047852 Score: 137
Period size: 40 Copynumber: 4.2 Consensus size: 40
60047672 CTTGGGCAAC
*
60047682 AGTGGAATAGATCGAAGATTACAATCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATCG--CATTA-AATCTTATCTCCCTAAGCAGT
* *
60047725 AGTGGAGTAGATCGCATTAAGTCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATCGCATTAAATCTTATCTCCCTAAGCAGT
** *** ** * *
60047765 AGTGGAGCAGATAAAACCACAGATCTTATTTCCCTAAGCAAT
1 AGTGGAATAGATCGCATTA-A-ATCTTATCTCCCTAAGCAGT
* * * *
60047807 AGT-GAAGCAGATCGCATCAAGTCTTATCTCCCTAAGTAGT
1 AGTGGAA-TAGATCGCATTAAATCTTATCTCCCTAAGCAGT
60047847 AGTGGA
1 AGTGGA
60047853 GCAAACTAAA
Statistics
Matches: 103, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
40 52 0.50
41 10 0.10
42 28 0.27
43 13 0.13
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (40 bp):
AGTGGAATAGATCGCATTAAATCTTATCTCCCTAAGCAGT
Found at i:60047758 original size:40 final size:40
Alignment explanation
Indices: 60047706--60047855 Score: 192
Period size: 40 Copynumber: 3.7 Consensus size: 40
60047696 AAGATTACAA
* *
60047706 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATTAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
*** *
60047746 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATAAAACCACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCA-AG
* * *
60047787 ATCTTATTTCCCTAAGCAATAGTGAAGCAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
*
60047828 TCTTATCTCCCTAAGTAGTAGTGGAGCA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCA
60047856 AACTAAAAAC
Statistics
Matches: 91, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 56 0.62
41 4 0.04
42 31 0.34
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
Found at i:60047800 original size:82 final size:83
Alignment explanation
Indices: 60047704--60047873 Score: 252
Period size: 82 Copynumber: 2.1 Consensus size: 83
60047694 CGAAGATTAC
* * * *
60047704 AATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATTAAGTCTTATCTCCCTAAGCAGTAGTG
1 AATCTTATCTCCCTAAGCAATAGTGAAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTG
* *
60047769 GAGCAGA-TAAAACCACA
66 GAGCAAACTAAAAACACA
* * *
60047786 GATCTTATTTCCCTAAGCAATAGTGAAGCAGATCGCATCAAGTCTTATCTCCCTAAGTAGTAGTG
1 AATCTTATCTCCCTAAGCAATAGTGAAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTG
60047851 GAGCAAACTAAAAACACA
66 GAGCAAACTAAAAACACA
60047869 AATCT
1 AATCT
60047874 CATCCCCATG
Statistics
Matches: 77, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
82 64 0.83
83 13 0.17
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.26
Consensus pattern (83 bp):
AATCTTATCTCCCTAAGCAATAGTGAAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTG
GAGCAAACTAAAAACACA
Found at i:60048321 original size:18 final size:19
Alignment explanation
Indices: 60048285--60048341 Score: 66
Period size: 17 Copynumber: 3.1 Consensus size: 19
60048275 ACTATTACTA
*
60048285 TTATATATTAGTGTATATTT
1 TTATATA-TAGTATATATTT
*
60048305 TTATGTATA-TATATA-TT
1 TTATATATAGTATATATTT
60048322 TTATATATAGTAT-TATTT
1 TTATATATAGTATATATTT
60048340 TT
1 TT
60048342 TATTACTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 12 0.38
18 12 0.38
19 2 0.06
20 6 0.19
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (19 bp):
TTATATATAGTATATATTT
Found at i:60048442 original size:14 final size:14
Alignment explanation
Indices: 60048423--60048454 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
60048413 GTATTTCTAT
60048423 TATATACATATATA
1 TATATACATATATA
*
60048437 TATATACATTTATA
1 TATATACATATATA
60048451 TATA
1 TATA
60048455 GTATTATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (14 bp):
TATATACATATATA
Found at i:60049758 original size:18 final size:17
Alignment explanation
Indices: 60049735--60049773 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
60049725 AATCTTACTA
*
60049735 ATATATTACTTTTATTAT
1 ATATATTACATTTATT-T
*
60049753 ATATATTAGATTTATTT
1 ATATATTACATTTATTT
60049770 ATAT
1 ATAT
60049774 TTTTTAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (17 bp):
ATATATTACATTTATTT
Found at i:60050819 original size:19 final size:21
Alignment explanation
Indices: 60050795--60050841 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
60050785 TTTTTTCATT
*
60050795 AATTATAG-AACATTAT-AAA
1 AATTATAGAAAAATTATAAAA
60050814 AATTATAGAAAAATTATAAAA
1 AATTATAGAAAAATTATAAAA
60050835 AATTATA
1 AATTATA
60050842 AAAGTTCCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 8 0.32
20 7 0.28
21 10 0.40
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (21 bp):
AATTATAGAAAAATTATAAAA
Found at i:60050842 original size:10 final size:10
Alignment explanation
Indices: 60050795--60050844 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
60050785 TTTTTTCATT
*
60050795 AATTATAGAA
1 AATTATAAAA
*
60050805 CATTAT-AAA
1 AATTATAAAA
60050814 AATTATAGAAA
1 AATTATA-AAA
60050825 AATTATAAAA
1 AATTATAAAA
60050835 AATTATAAAA
1 AATTATAAAA
60050845 GTTCCCCAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 7 0.20
10 18 0.51
11 10 0.29
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (10 bp):
AATTATAAAA
Found at i:60053594 original size:48 final size:48
Alignment explanation
Indices: 60053423--60053764 Score: 328
Period size: 48 Copynumber: 7.1 Consensus size: 48
60053413 CCATGGCAAC
* * * **
60053423 ATGTGATATGTGATTTCCGTATAAGACCATAGGTGGGCTATGACATCGGAGAG
1 ATGTGATATGTGA--TCCGTGTAAGACCATAGTTGGGCTATGGCATC---GTT
* * *
60053476 ATGTGATTATGTGCTTCCGTATAAGACCATA-TCTGGGATATGGCA---TT
1 ATGTGA-TATGTG-ATCCGTGTAAGACCATAGT-TGGGCTATGGCATCGTT
* *
60053523 AGTGAGATATGTGATTCGTGTAAGACCATAGTTGGGCTATGGCATCGTT
1 A-TGTGATATGTGATCCGTGTAAGACCATAGTTGGGCTATGGCATCGTT
*
60053572 ATGTGATATGTGATCCGTGTAAGACCATAGTTGGTCTATGGCATCGATT
1 ATGTGATATGTGATCCGTGTAAGACCATAGTTGGGCTATGGCATCG-TT
* * * *
60053621 -TGTGATATGTGATCTGTGTAAGACCATAGCTAGGCTATGGCATCGAT
1 ATGTGATATGTGATCCGTGTAAGACCATAGTTGGGCTATGGCATCGTT
* * * *
60053668 ATGTGATATGTGATTACGTGTAAGACTATAGCTGGGCTATGGCATCGAT
1 ATGTGATATGTGA-TCCGTGTAAGACCATAGTTGGGCTATGGCATCGTT
*
60053717 ATGTGA-A--T-AT--GTGTAAGACCATAGTTGGGCTATGGCATCATT
1 ATGTGATATGTGATCCGTGTAAGACCATAGTTGGGCTATGGCATCGTT
60053759 ATGTGA
1 ATGTGA
60053765 AGATGTGTAA
Statistics
Matches: 251, Mismatches: 27, Indels: 33
0.81 0.09 0.11
Matches are distributed among these distances:
42 34 0.14
44 1 0.00
45 1 0.00
46 26 0.10
47 9 0.04
48 100 0.40
49 42 0.17
53 32 0.13
54 6 0.02
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (48 bp):
ATGTGATATGTGATCCGTGTAAGACCATAGTTGGGCTATGGCATCGTT
Found at i:60053643 original size:96 final size:94
Alignment explanation
Indices: 60053528--60053799 Score: 330
Period size: 96 Copynumber: 2.9 Consensus size: 94
60053518 GCATTAGTGA
60053528 GATATGTGATTCGTGTAAGACCATAGTTGGGCTATGGCATCGTTATGTGATATGTGATCCGTGTA
1 GATATGTGATT-GTGTAAGACCATAGTTGGGCTATGGCATCGTTATGTGATATGTGAT-CGTGTA
* *
60053593 AGACCATAGTTGGTCTATGGCATCGATTTGT
64 AGACCATAGTTGGACTATGGCATCGATATGT
* * *
60053624 GATATGTGATCTGTGTAAGACCATAGCTAGGCTATGGCATCGATATGTGATATGTGATTACGTGT
1 GATATGTGAT-TGTGTAAGACCATAGTTGGGCTATGGCATCGTTATGTGATATGTGA-T-CGTGT
* * *
60053689 AAGACTATAGCTGGGCTATGGCATCGATATGT
63 AAGACCATAGTTGGACTATGGCATCGATATGT
*
60053721 GA-A--T-A-TGTGTAAGACCATAGTTGGGCTATGGCATCATTATGTGA-A---GAT-GTGTAAG
1 GATATGTGATTGTGTAAGACCATAGTTGGGCTATGGCATCGTTATGTGATATGTGATCGTGTAAG
* *
60053776 ACCAAAGTTGAACTATGGCATCGA
66 ACCATAGTTGGACTATGGCATCGA
60053800 GAAAACGAAG
Statistics
Matches: 157, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
84 26 0.17
86 1 0.01
87 2 0.01
90 1 0.01
91 35 0.22
93 1 0.01
94 1 0.01
96 53 0.34
97 37 0.24
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (94 bp):
GATATGTGATTGTGTAAGACCATAGTTGGGCTATGGCATCGTTATGTGATATGTGATCGTGTAAG
ACCATAGTTGGACTATGGCATCGATATGT
Found at i:60053731 original size:42 final size:42
Alignment explanation
Indices: 60053672--60053799 Score: 159
Period size: 42 Copynumber: 3.0 Consensus size: 42
60053662 ATCGATATGT
* * *
60053672 GATATGTGATTACGTGTAAGACTATAGCTGGGCTATGGCATC
1 GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
*
60053714 GATATGTGAATATGTGTAAGACCATAGTTGGGCTATGGCATC
1 GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
* * * **
60053756 -ATTATGTGAAGATGTGTAAGACCAAAGTTGAACTATGGCATC
1 GA-TATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
60053798 GA
1 GA
60053800 GAAAACGAAG
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
41 1 0.01
42 74 0.97
43 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.30
Consensus pattern (42 bp):
GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
Found at i:60058241 original size:46 final size:46
Alignment explanation
Indices: 60058158--60058326 Score: 151
Period size: 46 Copynumber: 3.5 Consensus size: 46
60058148 TTGCACATAG
* * *
60058158 TCACATATCACATACCGAGGCCATAGCCCAGCCATGGTCTTATACGGA
1 TCACATATCAC--ACTGATGCCATAGCCCAGCTATGGTCTTATACGGA
* * *
60058206 TCACATATCACACTGATGCCATATCCCAGATATGGTCTTATACAGTA
1 TCACATATCACACTGATGCCATAGCCCAGCTATGGTCTTATAC-GGA
* *
60058253 GCACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAA
1 TCACATATCACA---CT--GATGCCATAGCCCAGCTATGGTCTTATACGG--A
* *
60058306 TCACATTTCACA-TGCTGCCAT
1 TCACATATCACACTGATGCCAT
60058327 GGTCCAACCA
Statistics
Matches: 98, Mismatches: 15, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
46 27 0.28
47 19 0.19
48 11 0.11
49 1 0.01
50 2 0.02
51 1 0.01
52 26 0.27
53 11 0.11
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (46 bp):
TCACATATCACACTGATGCCATAGCCCAGCTATGGTCTTATACGGA
Found at i:60058286 original size:52 final size:48
Alignment explanation
Indices: 60058159--60058303 Score: 161
Period size: 52 Copynumber: 3.0 Consensus size: 48
60058149 TGCACATAGT
* * *
60058159 CACATATCACA-TACCGAGGCCATAGCCCAGCCATGGTCTTATACGGAT
1 CACATATCACACT-CCGAAGCCATAGCCCAGCTATGGTCTTATACGGAG
* * * *
60058207 CACATATCACACT--GATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACACTCCGAAGCCATAGCCCAGCTATGGTCTTATAC-GGAG
60058254 CACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGA
1 CACATATCACA---CTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGA
60058304 AATCACATTT
Statistics
Matches: 80, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
46 25 0.31
47 13 0.16
48 11 0.14
49 1 0.01
50 2 0.03
51 2 0.03
52 26 0.32
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (48 bp):
CACATATCACACTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAG
Found at i:60063676 original size:26 final size:26
Alignment explanation
Indices: 60063640--60063723 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
60063630 CATGAAATTC
60063640 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
60063666 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
60063692 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
60063718 TTATCA
1 TTATCA
60063724 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:60069480 original size:26 final size:26
Alignment explanation
Indices: 60069444--60069553 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
60069434 CATGAAATTC
60069444 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
60069470 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
60069496 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
60069522 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
60069548 TTATCA
1 TTATCA
60069554 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:60069973 original size:20 final size:20
Alignment explanation
Indices: 60069931--60069980 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
60069921 ATTATTAAAT
60069931 TTAATTT-ATAAATATTTTA
1 TTAATTTAATAAATATTTTA
*
60069950 TTAATTTAATAGAT-TTTATA
1 TTAATTTAATAAATATTT-TA
60069970 TTAAATTTAAT
1 TT-AATTTAAT
60069981 CTAAAACTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 10 0.37
20 9 0.33
21 8 0.30
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TTAATTTAATAAATATTTTA
Found at i:60074735 original size:15 final size:16
Alignment explanation
Indices: 60074703--60074737 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
60074693 CCACAACATC
60074703 ATTTATAAACATTTAA
1 ATTTATAAACATTTAA
*
60074719 ATTTATCAACA-TTAA
1 ATTTATAAACATTTAA
60074734 ATTT
1 ATTT
60074738 CTAATGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTTATAAACATTTAA
Found at i:60074905 original size:9 final size:9
Alignment explanation
Indices: 60074893--60074965 Score: 69
Period size: 9 Copynumber: 7.9 Consensus size: 9
60074883 ATTTGGAAAA
60074893 TTTTATAAT
1 TTTTATAAT
60074902 TTTT-TAAT
1 TTTTATAAT
60074910 TATTCTATAAT
1 T-TT-TATAAT
60074921 TTTT-TAACT
1 TTTTATAA-T
*
60074930 TTTAATAAAT
1 TTTTAT-AAT
*
60074940 TTTTGTAAT
1 TTTTATAAT
*
60074949 TTTTATAGT
1 TTTTATAAT
60074958 TTTTATAA
1 TTTTATAA
60074966 AATAAAAAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
8 8 0.15
9 28 0.54
10 9 0.17
11 7 0.13
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:60076231 original size:13 final size:14
Alignment explanation
Indices: 60076207--60076247 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
60076197 TTTTATTTAA
*
60076207 AATAATTAAATATT
1 AATAAATAAATATT
*
60076221 AAT-TATAAATATT
1 AATAAATAAATATT
60076234 -ATAAATAAATATT
1 AATAAATAAATATT
60076247 A
1 A
60076248 CTAAGGTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
12 2 0.09
13 17 0.77
14 3 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATAAATAAATATT
Found at i:60084375 original size:23 final size:24
Alignment explanation
Indices: 60084323--60084376 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
60084313 AAGATGATAG
* * *
60084323 TATTTTATTTTTTTTTTTTACTTA
1 TATTTTATTTTTTCTTTTAACATA
60084347 -AGTTTTA-TTTTTCTTTTAACATA
1 TA-TTTTATTTTTTCTTTTAACATA
60084370 TATTTTA
1 TATTTTA
60084377 ATATTATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (24 bp):
TATTTTATTTTTTCTTTTAACATA
Found at i:60086204 original size:3 final size:3
Alignment explanation
Indices: 60086196--60086220 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
60086186 AAATTTGAAG
60086196 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
60086221 ATTTTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:60094439 original size:23 final size:24
Alignment explanation
Indices: 60094394--60094444 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
60094384 GGTATAACAT
*
60094394 ATATATATATTTGAAAATATAAAA
1 ATATATATATTTAAAAATATAAAA
60094418 ATATAT-TATTTAATAAAT-TAAAA
1 ATATATATATTTAA-AAATATAAAA
60094441 ATAT
1 ATAT
60094445 GTAAATTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
ATATATATATTTAAAAATATAAAA
Found at i:60096038 original size:15 final size:15
Alignment explanation
Indices: 60096018--60096051 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
60096008 ATTTAATTAC
60096018 AATTGATTAAATAAT
1 AATTGATTAAATAAT
60096033 AATTGATTAAATAAT
1 AATTGATTAAATAAT
60096048 AATT
1 AATT
60096052 TGAAGAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (15 bp):
AATTGATTAAATAAT
Found at i:60097214 original size:38 final size:38
Alignment explanation
Indices: 60097172--60097271 Score: 119
Period size: 40 Copynumber: 2.6 Consensus size: 38
60097162 CACACCAACT
* * * *
60097172 CCATCCAACCCAACATACCATGTAGGGATAAAATTGAC
1 CCATCCAACCCTACACACCATATAGGGATAAAATCGAC
* *
60097210 CCATCCATCCCTACACACCAAATATGGGGATAAAATCGAC
1 CCATCCAACCCTACACACC--ATATAGGGATAAAATCGAC
*
60097250 CCATCTAACCCTACACACCATA
1 CCATCCAACCCTACACACCATA
60097272 AAGTACCATA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
38 19 0.37
40 33 0.63
ACGTcount: A:0.38, C:0.34, G:0.10, T:0.18
Consensus pattern (38 bp):
CCATCCAACCCTACACACCATATAGGGATAAAATCGAC
Found at i:60097724 original size:17 final size:18
Alignment explanation
Indices: 60097685--60097725 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
60097675 GCCCAAAATT
*
60097685 CCACACGCCCATGTGTGC
1 CCACACACCCATGTGTGC
*
60097703 CCACACACCCGTGTGT-C
1 CCACACACCCATGTGTGC
60097720 CCACAC
1 CCACAC
60097726 GGCCTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.20, C:0.49, G:0.17, T:0.15
Consensus pattern (18 bp):
CCACACACCCATGTGTGC
Found at i:60106800 original size:22 final size:23
Alignment explanation
Indices: 60106774--60106819 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
60106764 CAACCAAACC
60106774 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
60106796 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
60106819 A
1 A
60106820 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:60106825 original size:23 final size:23
Alignment explanation
Indices: 60106781--60106825 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
60106771 ACCAATTCAA
*
60106781 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
60106804 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
60106826 CACATACTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:60112660 original size:29 final size:30
Alignment explanation
Indices: 60112623--60112680 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
60112613 GTAAATACAA
* * *
60112623 AAAATTTGAAGGATTAA-AGTGTAAATATG
1 AAAAGTTGAAGGACTAATAGTGCAAATATG
60112652 AAAAGTTGAAGGACTAATAGTGCAAATAT
1 AAAAGTTGAAGGACTAATAGTGCAAATAT
60112681 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.48, C:0.03, G:0.21, T:0.28
Consensus pattern (30 bp):
AAAAGTTGAAGGACTAATAGTGCAAATATG
Found at i:60113661 original size:54 final size:54
Alignment explanation
Indices: 60113588--60113778 Score: 382
Period size: 54 Copynumber: 3.5 Consensus size: 54
60113578 ATTGTCGTTG
60113588 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
60113642 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
60113696 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
60113750 CAGGGGATTTAGCCTGGACTGGTAATCCC
1 CAGGGGATTTAGCCTGGACTGGTAATCCC
60113779 ATTGTAAGGA
Statistics
Matches: 137, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 137 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (54 bp):
CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
Found at i:60113864 original size:46 final size:46
Alignment explanation
Indices: 60113812--60114729 Score: 1739
Period size: 46 Copynumber: 20.0 Consensus size: 46
60113802 AGTGTGCTCT
*
60113812 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
60113858 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
60113904 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
60113950 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
60113996 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
60114042 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
60114088 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
60114134 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
60114180 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
60114226 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
60114272 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
60114318 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
60114364 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
60114410 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
60114456 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
60114502 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
60114548 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
60114594 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
* *
60114640 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
* * * * * *
60114686 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACAATGGCA
60114730 TCATGTCAAA
Statistics
Matches: 862, Mismatches: 9, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
45 1 0.00
46 861 1.00
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAGC
Found at i:60118880 original size:27 final size:28
Alignment explanation
Indices: 60118843--60118982 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
60118833 AGCGTGGCTG
* *
60118843 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
60118869 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
60118897 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
60118924 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
60118951 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
60118978 CCAGA
1 CCAGA
60118983 ACACTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:60120528 original size:26 final size:26
Alignment explanation
Indices: 60120491--60120547 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
60120481 ATGAAATTCC
60120491 TATCATGAAACATTTACCTAACCCAT
1 TATCATGAAACATTTACCTAACCCAT
* *
60120517 TATCATGGAACATTTACCTAACCTAT
1 TATCATGAAACATTTACCTAACCCAT
60120543 TATCA
1 TATCA
60120548 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TATCATGAAACATTTACCTAACCCAT
Found at i:60121492 original size:83 final size:83
Alignment explanation
Indices: 60121281--60121550 Score: 450
Period size: 83 Copynumber: 3.2 Consensus size: 83
60121271 TTCGATTTGT
* * * *
60121281 AAGGATGTCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATCTGTAAGGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
* *
60121346 CTTGTTCCTTGTAAGAAC
66 TTTGTTCCTTGTAAGCAC
*
60121364 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATGTCTGCAAGGTCCTCG
1 AAGGATGCC-AAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCG
60121429 ATTTGTTCCTTGTAAGCAC
65 ATTTGTTCCTTGTAAGCAC
* *
60121448 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
60121513 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
60121531 AAGGATGCCAAACCATCTTG
1 AAGGATGCCAAACCATCTTG
60121551 GATCTGCTTC
Statistics
Matches: 176, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
83 99 0.56
84 77 0.44
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.32
Consensus pattern (83 bp):
AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
TTTGTTCCTTGTAAGCAC
Found at i:60121951 original size:119 final size:119
Alignment explanation
Indices: 60121474--60121948 Score: 833
Period size: 119 Copynumber: 4.0 Consensus size: 119
60121464 CTTGAGTCTG
* * * * * * *
60121474 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
60121539 CAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
60121593 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
60121658 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
60121712 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
60121777 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
60121831 TTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
60121896 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGGAGGTTAGATCTGCTAT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
60121949 CTTCGATCTG
Statistics
Matches: 341, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
119 341 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:60121988 original size:44 final size:44
Alignment explanation
Indices: 60121940--60122119 Score: 195
Period size: 44 Copynumber: 4.1 Consensus size: 44
60121930 TGGAGGTTAG
60121940 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
* *
60121984 ATCTGCTCTCTTC-AACTTGTTCCCTATAAACACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAACACAGGGATGCCAA
** * * * * * * *
60122026 ATGCTGAAATCTTCAATCTGCTTCGCTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAACACAGGGATGCCAA
* *
60122072 ATCTACTATCTTCGATCTGTTCCCTATAAACATAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
60122116 ATCT
1 ATCT
60122120 TGTTTCTTTG
Statistics
Matches: 108, Mismatches: 22, Indels: 12
0.76 0.15 0.08
Matches are distributed among these distances:
42 2 0.02
43 12 0.11
44 79 0.73
45 13 0.12
46 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
Found at i:60123035 original size:10 final size:10
Alignment explanation
Indices: 60123020--60123055 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
60123010 TCTATTTATT
60123020 TTTTTTTCTC
1 TTTTTTTCTC
*
60123030 TTTTTTTTTC
1 TTTTTTTCTC
60123040 TTTTTTTCT-
1 TTTTTTTCTC
60123049 TTTTTTT
1 TTTTTTT
60123056 AAAATAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 7 0.29
10 17 0.71
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (10 bp):
TTTTTTTCTC
Found at i:60123049 original size:18 final size:18
Alignment explanation
Indices: 60122997--60123055 Score: 77
Period size: 18 Copynumber: 3.3 Consensus size: 18
60122987 GGCCTCTCCA
60122997 TTTTTTTC-TTTTTTCTAT
1 TTTTTTTCTTTTTTTCT-T
* *
60123015 TTATTTT-TTTTTCTCTT
1 TTTTTTTCTTTTTTTCTT
60123032 TTTTTTTCTTTTTTTCTT
1 TTTTTTTCTTTTTTTCTT
60123050 TTTTTT
1 TTTTTT
60123056 AAAATAGAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
17 7 0.20
18 28 0.80
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.86
Consensus pattern (18 bp):
TTTTTTTCTTTTTTTCTT
Found at i:60125565 original size:2 final size:2
Alignment explanation
Indices: 60125558--60125588 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
60125548 GACCCTCTTT
60125558 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
60125589 TTTTCTTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:60126087 original size:54 final size:54
Alignment explanation
Indices: 60126005--60126108 Score: 181
Period size: 54 Copynumber: 1.9 Consensus size: 54
60125995 GTGGGCATTT
*
60126005 CTGCTTAACATACTACCTTAAAATGATATCCAAGACCTTTAGGGTTTCTTAATC
1 CTGCTTAACATACTACCTTAAAATGATATCCAACACCTTTAGGGTTTCTTAATC
* *
60126059 CTGCTTAACATGCTACTTTAAAATGATATCCAACACCTTTAGGGTTTCTT
1 CTGCTTAACATACTACCTTAAAATGATATCCAACACCTTTAGGGTTTCTT
60126109 GAGAACTTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.37
Consensus pattern (54 bp):
CTGCTTAACATACTACCTTAAAATGATATCCAACACCTTTAGGGTTTCTTAATC
Found at i:60128819 original size:19 final size:19
Alignment explanation
Indices: 60128795--60128866 Score: 105
Period size: 19 Copynumber: 3.9 Consensus size: 19
60128785 AATCATATCT
*
60128795 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
60128814 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
60128832 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
60128849 TATAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
60128867 TGAAGATTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
17 15 0.31
18 16 0.33
19 17 0.35
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:60128855 original size:35 final size:37
Alignment explanation
Indices: 60128788--60128866 Score: 112
Period size: 35 Copynumber: 2.2 Consensus size: 37
60128778 ATTACAAAAT
*
60128788 CATATC-T-TCTAAGATTGTATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATATAAGATTG
60128824 CA-ATCATATCTAAGATTG-TATCATATATAAGATTG
1 CATATCATATCTAAGATTGATATCATATATAAGATTG
60128859 CATATCAT
1 CATATCAT
60128867 TGAAGATTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
35 21 0.54
36 8 0.21
37 10 0.26
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATATAAGATTG
Found at i:60129877 original size:29 final size:30
Alignment explanation
Indices: 60129830--60129897 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
60129820 TGGCCTAAGA
* *
60129830 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
60129860 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
60129890 GAAAATAT
1 GTAAATAT
60129898 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.49, C:0.04, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:60134957 original size:26 final size:26
Alignment explanation
Indices: 60134919--60135002 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
60134909 CATGAAATTC
* *
60134919 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
60134945 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
60134971 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
60134997 TTATCA
1 TTATCA
60135003 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:60135431 original size:46 final size:46
Alignment explanation
Indices: 60135379--60135603 Score: 362
Period size: 46 Copynumber: 4.9 Consensus size: 46
60135369 GTGCTCTCTT
*
60135379 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
60135425 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
60135471 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
60135517 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* * * * *
60135563 ACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
60135604 TCATGTCAAA
Statistics
Matches: 171, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
45 1 0.01
46 170 0.99
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:60141546 original size:30 final size:30
Alignment explanation
Indices: 60141488--60141548 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
60141478 ACAGTGAGTT
* *
60141488 ACACAGCCTGGCGATATGACCGTATAACCC
1 ACACAGCCTGGCGACACGACCGTATAACCC
* *
60141518 ACACAGCCTGGCGACACGGCCGTGTAACCC
1 ACACAGCCTGGCGACACGACCGTATAACCC
60141548 A
1 A
60141549 TACGGCCTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.36, G:0.23, T:0.13
Consensus pattern (30 bp):
ACACAGCCTGGCGACACGACCGTATAACCC
Found at i:60142510 original size:8 final size:8
Alignment explanation
Indices: 60142465--60142551 Score: 54
Period size: 8 Copynumber: 10.6 Consensus size: 8
60142455 CCCTTTTACC
60142465 TTATTATT
1 TTATTATT
60142473 ATTATTATT
1 -TTATTATT
60142482 TTA-TATT
1 TTATTATT
* *
60142489 CT-TTCTT
1 TTATTATT
60142496 TCT-TTATT
1 T-TATTATT
60142504 TTATTATT
1 TTATTATT
*
60142512 TTATTCCTT
1 TTATT-ATT
*
60142521 TAATTTATT
1 TTA-TTATT
60142530 TTATTATT
1 TTATTATT
* *
60142538 CTATATATG
1 TTAT-TATT
60142547 TTATT
1 TTATT
60142552 TCCTTTCTTT
Statistics
Matches: 61, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
7 9 0.15
8 28 0.46
9 22 0.36
10 2 0.03
ACGTcount: A:0.23, C:0.07, G:0.01, T:0.69
Consensus pattern (8 bp):
TTATTATT
Found at i:60142527 original size:21 final size:21
Alignment explanation
Indices: 60142497--60142538 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
60142487 TTCTTTCTTT
*
60142497 CTTTATTTTATTATT-TTATTC
1 CTTTAATTTATT-TTATTATTC
60142518 CTTTAATTTATTTTATTATTC
1 CTTTAATTTATTTTATTATTC
60142539 TATATATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (21 bp):
CTTTAATTTATTTTATTATTC
Found at i:60142552 original size:26 final size:26
Alignment explanation
Indices: 60142477--60142541 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 26
60142467 ATTATTATTA
*
60142477 TTATTTTA-TATTCT-TTC-TTT-CT
1 TTATTTTATTATTCTATTCATTTAAT
* *
60142499 TTATTTTATTATTTTATTCCTTTAAT
1 TTATTTTATTATTCTATTCATTTAAT
60142525 TTATTTTATTATTCTAT
1 TTATTTTATTATTCTAT
60142542 ATATGTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 8 0.22
23 5 0.14
24 3 0.08
25 3 0.08
26 17 0.47
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (26 bp):
TTATTTTATTATTCTATTCATTTAAT
Found at i:60144537 original size:17 final size:17
Alignment explanation
Indices: 60144504--60144537 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
60144494 ATTAGAATGA
*
60144504 ATTTTTATCGATTTGTT
1 ATTTTTATCGATGTGTT
*
60144521 ATTTTTATTGATGTGTT
1 ATTTTTATCGATGTGTT
60144538 TTGGATTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.03, G:0.15, T:0.65
Consensus pattern (17 bp):
ATTTTTATCGATGTGTT
Found at i:60152564 original size:6 final size:6
Alignment explanation
Indices: 60152538--60152615 Score: 79
Period size: 6 Copynumber: 13.0 Consensus size: 6
60152528 AATAAAATTG
* * * *
60152538 AAATGA AAATAA AAATAA AAAGAA AAATAA AACT-A AAATAA ATAAAATA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA A-AATA-A
*
60152587 AAATAA AAATAA GAATAA AAA-AA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA
60152616 GAAGGTTCAA
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
5 9 0.15
6 42 0.71
7 6 0.10
8 2 0.03
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:60152577 original size:49 final size:47
Alignment explanation
Indices: 60152518--60152615 Score: 135
Period size: 49 Copynumber: 2.0 Consensus size: 47
60152508 TATGTTTTTC
* *
60152518 AAAATAAAAT-AATAAAATTGAAATGAAAATAAAAATAAAAAGAAAAAT
1 AAAATAAAATAAATAAAA-TAAAATAAAAATAAAAATAAAAA-AAAAAT
*
60152566 AAAACTAAAATAAATAAAATAAAATAAAAATAAGAATAAAAAAAAAAT
1 AAAA-TAAAATAAATAAAATAAAATAAAAATAAAAATAAAAAAAAAAT
60152614 AA
1 AA
60152616 GAAGGTTCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
48 12 0.27
49 26 0.58
50 7 0.16
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.17
Consensus pattern (47 bp):
AAAATAAAATAAATAAAATAAAATAAAAATAAAAATAAAAAAAAAAT
Found at i:60152582 original size:4 final size:5
Alignment explanation
Indices: 60152518--60152610 Score: 68
Period size: 6 Copynumber: 17.8 Consensus size: 5
60152508 TATGTTTTTC
* *
60152518 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAAAT AAAAAGA AAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT -AAAAT -AAAA-T AAAAT
60152566 AAAACT AAAAT -AAAT AAAAT AAAAT AAAAAT AAGAAT AAAA- AAAA
1 AAAA-T AAAAT AAAAT AAAAT AAAAT -AAAAT AA-AAT AAAAT AAAA
60152611 AATAAGAAGG
Statistics
Matches: 74, Mismatches: 5, Indels: 19
0.76 0.05 0.19
Matches are distributed among these distances:
3 3 0.04
4 8 0.11
5 26 0.35
6 37 0.50
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:60161734 original size:24 final size:26
Alignment explanation
Indices: 60161680--60161736 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 26
60161670 ATGAAAATCT
*
60161680 AATGCAAATGATGCAATGATGCAATGC
1 AATGCAAATGATG-AATGATGCAATGA
60161707 AATGCAAATGTATG-A-GATG-AATGA
1 AATGCAAATG-ATGAATGATGCAATGA
60161731 AATGCA
1 AATGCA
60161737 GTTATAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 10 0.36
25 4 0.14
26 1 0.04
27 10 0.36
28 3 0.11
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.23
Consensus pattern (26 bp):
AATGCAAATGATGAATGATGCAATGA
Found at i:60170666 original size:24 final size:25
Alignment explanation
Indices: 60170639--60170685 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
60170629 ATAAGAATGT
* *
60170639 AAATGATT-TCTGAAATTAAATATC
1 AAATGATTATATGAAATCAAATATC
60170663 AAATGATTATATGAAATCAAATA
1 AAATGATTATATGAAATCAAATA
60170686 CAAGAAGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (25 bp):
AAATGATTATATGAAATCAAATATC
Found at i:60176323 original size:57 final size:57
Alignment explanation
Indices: 60176262--60176432 Score: 315
Period size: 57 Copynumber: 3.0 Consensus size: 57
60176252 TGCGTTTTTG
60176262 ATCCTTAGTCTTAGGATTCATTTTTCATTTTTTTTAGAATACTCTAATTCTTGATTA
1 ATCCTTAGTCTTAGGATTCATTTTTCATTTTTTTTAGAATACTCTAATTCTTGATTA
* * *
60176319 ATCCTTAGTGTTAGGATTCATTTTTCAATTTTTTTAGATTACTCTAATTCTTGATTA
1 ATCCTTAGTCTTAGGATTCATTTTTCATTTTTTTTAGAATACTCTAATTCTTGATTA
60176376 ATCCTTAGTCTTAGGATTCATTTTTCATTTTTTTTAGAATACTCTAATTCTTGATTA
1 ATCCTTAGTCTTAGGATTCATTTTTCATTTTTTTTAGAATACTCTAATTCTTGATTA
60176433 TTTTAACAGC
Statistics
Matches: 108, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 108 1.00
ACGTcount: A:0.25, C:0.13, G:0.09, T:0.53
Consensus pattern (57 bp):
ATCCTTAGTCTTAGGATTCATTTTTCATTTTTTTTAGAATACTCTAATTCTTGATTA
Found at i:60180935 original size:9 final size:9
Alignment explanation
Indices: 60180921--60180945 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
60180911 GATGCATAAT
60180921 GATAATCAA
1 GATAATCAA
60180930 GATAATCAA
1 GATAATCAA
60180939 GATAATC
1 GATAATC
60180946 GAGTAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (9 bp):
GATAATCAA
Found at i:60188728 original size:25 final size:25
Alignment explanation
Indices: 60188694--60188743 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
60188684 ACTCGTTAAG
60188694 ATAGCCAAATTGAGGAATGATATCT
1 ATAGCCAAATTGAGGAATGATATCT
60188719 ATAGCCAAATTGAGGAATGATATCT
1 ATAGCCAAATTGAGGAATGATATCT
60188744 CTTCCTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (25 bp):
ATAGCCAAATTGAGGAATGATATCT
Found at i:60204542 original size:15 final size:15
Alignment explanation
Indices: 60204522--60204565 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
60204512 AAGAAATGTA
60204522 AATAAATAAA-AGAT
1 AATAAATAAAGAGAT
60204536 GAATAAA-AAAGAGAT
1 -AATAAATAAAGAGAT
60204551 AA-AAATAAAGA-AT
1 AATAAATAAAGAGAT
60204564 AA
1 AA
60204566 AAGAAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 7 0.26
14 10 0.37
15 10 0.37
ACGTcount: A:0.73, C:0.00, G:0.11, T:0.16
Consensus pattern (15 bp):
AATAAATAAAGAGAT
Found at i:60204584 original size:16 final size:17
Alignment explanation
Indices: 60204552--60204588 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
60204542 AAAAGAGATA
60204552 AAAATAAAGAATAAAAG
1 AAAATAAAGAATAAAAG
*
60204569 AAAATAAA-AGTAAAAG
1 AAAATAAAGAATAAAAG
60204585 AAAA
1 AAAA
60204589 CAACGAATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (17 bp):
AAAATAAAGAATAAAAG
Found at i:60231844 original size:33 final size:33
Alignment explanation
Indices: 60231802--60231866 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
60231792 CCCTGGTCGG
60231802 GAAGTGGTTTCGGGACCACTAAACCGAGTCACT
1 GAAGTGGTTTCGGGACCACTAAACCGAGTCACT
* *
60231835 GAAGTGGTTTCGGGACCGCTAAACTGAGTCAC
1 GAAGTGGTTTCGGGACCACTAAACCGAGTCAC
60231867 CGAAATGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (33 bp):
GAAGTGGTTTCGGGACCACTAAACCGAGTCACT
Found at i:60243315 original size:6 final size:6
Alignment explanation
Indices: 60243301--60243380 Score: 90
Period size: 6 Copynumber: 13.3 Consensus size: 6
60243291 TTGAGTCTGA
* * * *
60243301 TTATTT TTATGT TTATGT TTATGT TTATGT TTATTT TTATTT TTATCTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTAT-TT
* *
60243350 TTA-TT TTATTT TTATTT TGAGTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TT
60243381 CCTTTTATGT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
5 5 0.08
6 56 0.85
7 5 0.08
ACGTcount: A:0.16, C:0.01, G:0.07, T:0.75
Consensus pattern (6 bp):
TTATTT
Found at i:60243321 original size:12 final size:12
Alignment explanation
Indices: 60243301--60243397 Score: 81
Period size: 12 Copynumber: 8.1 Consensus size: 12
60243291 TTGAGTCTGA
* *
60243301 TTATTTTTATGT
1 TTATGTTTATTT
*
60243313 TTATGTTTATGT
1 TTATGTTTATTT
60243325 TTATGTTTATTT
1 TTATGTTTATTT
*
60243337 TTATTTTTATCTT
1 TTATGTTTAT-TT
60243350 TTAT-TTTATTT
1 TTATGTTTATTT
*
60243361 TTAT-TTTGAGTT
1 TTATGTTT-ATTT
* **
60243373 TTATTTTTCCTT
1 TTATGTTTATTT
*
60243385 TTATGTCTATTT
1 TTATGTTTATTT
60243397 T
1 T
60243398 GTTATCCTAT
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
11 9 0.12
12 54 0.75
13 9 0.12
ACGTcount: A:0.15, C:0.04, G:0.07, T:0.73
Consensus pattern (12 bp):
TTATGTTTATTT
Found at i:60244697 original size:222 final size:222
Alignment explanation
Indices: 60244311--60244754 Score: 888
Period size: 222 Copynumber: 2.0 Consensus size: 222
60244301 CTTTTATTTT
60244311 AGTTGTATCTTATTACTCATTCATTCATTCAAAAAAAAAGAGTTGAAAAAAAATATAAATACATA
1 AGTTGTATCTTATTACTCATTCATTCATTCAAAAAAAAAGAGTTGAAAAAAAATATAAATACATA
60244376 CATGTTGATTATTATTAGTTCTTCGTCTTGAGCTTAAGTAGCTAATTTCATATTCTGGGAAGAAG
66 CATGTTGATTATTATTAGTTCTTCGTCTTGAGCTTAAGTAGCTAATTTCATATTCTGGGAAGAAG
60244441 CTCATGTTTTTCTTTAATAAATTCGATTGATTTAATTATATAGTGTTAGTTTATTTTTCTAGTTA
131 CTCATGTTTTTCTTTAATAAATTCGATTGATTTAATTATATAGTGTTAGTTTATTTTTCTAGTTA
60244506 GGAAATTTTTCAATCTAATCTCGATTC
196 GGAAATTTTTCAATCTAATCTCGATTC
60244533 AGTTGTATCTTATTACTCATTCATTCATTCAAAAAAAAAGAGTTGAAAAAAAATATAAATACATA
1 AGTTGTATCTTATTACTCATTCATTCATTCAAAAAAAAAGAGTTGAAAAAAAATATAAATACATA
60244598 CATGTTGATTATTATTAGTTCTTCGTCTTGAGCTTAAGTAGCTAATTTCATATTCTGGGAAGAAG
66 CATGTTGATTATTATTAGTTCTTCGTCTTGAGCTTAAGTAGCTAATTTCATATTCTGGGAAGAAG
60244663 CTCATGTTTTTCTTTAATAAATTCGATTGATTTAATTATATAGTGTTAGTTTATTTTTCTAGTTA
131 CTCATGTTTTTCTTTAATAAATTCGATTGATTTAATTATATAGTGTTAGTTTATTTTTCTAGTTA
60244728 GGAAATTTTTCAATCTAATCTCGATTC
196 GGAAATTTTTCAATCTAATCTCGATTC
60244755 CATGTTTTTC
Statistics
Matches: 222, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
222 222 1.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (222 bp):
AGTTGTATCTTATTACTCATTCATTCATTCAAAAAAAAAGAGTTGAAAAAAAATATAAATACATA
CATGTTGATTATTATTAGTTCTTCGTCTTGAGCTTAAGTAGCTAATTTCATATTCTGGGAAGAAG
CTCATGTTTTTCTTTAATAAATTCGATTGATTTAATTATATAGTGTTAGTTTATTTTTCTAGTTA
GGAAATTTTTCAATCTAATCTCGATTC
Found at i:60244765 original size:90 final size:90
Alignment explanation
Indices: 60244665--60244844 Score: 342
Period size: 90 Copynumber: 2.0 Consensus size: 90
60244655 GGAAGAAGCT
60244665 CATGTTTTTCTTTAATAAATTCGATTGATTTAATTATATAGTGTTAGTTTATTTTTCTAGTTAGG
1 CATGTTTTTCTTTAATAAATTCGATTGATTTAATTATATAGTGTTAGTTTATTTTTCTAGTTAGG
* *
60244730 AAATTTTTCAATCTAATCTCGATTC
66 AAATTTGTCAATCCAATCTCGATTC
60244755 CATGTTTTTCTTTAATAAATTCGATTGATTTAATTATATAGTGTTAGTTTATTTTTCTAGTTAGG
1 CATGTTTTTCTTTAATAAATTCGATTGATTTAATTATATAGTGTTAGTTTATTTTTCTAGTTAGG
60244820 AAATTTGTCAATCCAATCTCGATTC
66 AAATTTGTCAATCCAATCTCGATTC
60244845 TAACTTTCTT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 88 1.00
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.50
Consensus pattern (90 bp):
CATGTTTTTCTTTAATAAATTCGATTGATTTAATTATATAGTGTTAGTTTATTTTTCTAGTTAGG
AAATTTGTCAATCCAATCTCGATTC
Found at i:60278992 original size:27 final size:27
Alignment explanation
Indices: 60278922--60279022 Score: 103
Period size: 28 Copynumber: 3.6 Consensus size: 27
60278912 ATACAGAAAA
* *
60278922 TGTGACAGAGTCACCAGATACAGATATTT
1 TGTGGCAGAGCCACCAGA-ACAGATA-TT
* * * *
60278951 TATGGCAGTGTCACCAGAACAGATATA
1 TGTGGCAGAGCCACCAGAACAGATATT
*
60278978 TGTGGCAGGGCCACCAGAACAGATAATT
1 TGTGGCAGAGCCACCAGAACAGAT-ATT
*
60279006 TGTGGCATAGCCACCAG
1 TGTGGCAGAGCCACCAG
60279023 GACGCTTCCT
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
27 22 0.36
28 24 0.39
29 15 0.25
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.22
Consensus pattern (27 bp):
TGTGGCAGAGCCACCAGAACAGATATT
Found at i:60279175 original size:28 final size:28
Alignment explanation
Indices: 60279128--60279192 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
60279118 AAATTAACCC
*
60279128 TAGGGGTATAAAGGTCATTTTGCACACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
* *
60279156 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
60279184 TAGGGGTAT
1 TAGGGGTAT
60279193 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCACACA
Found at i:60291641 original size:17 final size:17
Alignment explanation
Indices: 60291619--60291652 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
60291609 AATGAGGGGG
60291619 GTTAGAATATGGACATT
1 GTTAGAATATGGACATT
60291636 GTTAGAATATGGACATT
1 GTTAGAATATGGACATT
60291653 CACATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (17 bp):
GTTAGAATATGGACATT
Found at i:60294085 original size:15 final size:16
Alignment explanation
Indices: 60294054--60294087 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
60294044 AATGACAATC
*
60294054 AATAAATCGTGCAGTT
1 AATAAATCGTCCAGTT
60294070 AATAAATC-TCCAGTT
1 AATAAATCGTCCAGTT
60294085 AAT
1 AAT
60294088 GGTCCAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (16 bp):
AATAAATCGTCCAGTT
Found at i:60309767 original size:247 final size:247
Alignment explanation
Indices: 60309328--60309826 Score: 935
Period size: 247 Copynumber: 2.0 Consensus size: 247
60309318 GGTACGGTGG
*
60309328 AGGTGAGTCATCCCAAGTACGGCACTTTTAAGGTAAACAACACCCGCTTAAAACCTTATTTTGAT
1 AGGTGAGTCATCCCAAGTACGGCACTTTTAAGGTAAACAACACCCACTTAAAACCTTATTTTGAT
*
60309393 GAGATTAATAGCAGGAATTAGGAGTATAAACTCCTTAAACCACCATGACCATTCACTGAAGAGGT
66 GAGATTAATAGCAGGAATGAGGAGTATAAACTCCTTAAACCACCATGACCATTCACTGAAGAGGT
* *
60309458 AAGTCGAGCTTAGACTATAAATAAGCGCTTCTTGGGAGGCAACCCGAGCACTAACCATATTAATT
131 AAGTCGAGCTTAGACTATAAATAAGCGCTTCTTGAGAGGCAACCCGAGCACTAACAATATTAATT
60309523 TCTTTAAATTTTGGTATTTAACTCCTAACTTACTAATAGAAATCTTGAATAC
196 TCTTTAAATTTTGGTATTTAACTCCTAACTTACTAATAGAAATCTTGAATAC
*
60309575 AGGTGAGTCATCCCAAGTTCGGCACTTTTAAGGTAAACAACACCCACTTAAAACCTTATTTTGAT
1 AGGTGAGTCATCCCAAGTACGGCACTTTTAAGGTAAACAACACCCACTTAAAACCTTATTTTGAT
*
60309640 GAGATTAATAGCAGGCATGAGGAGTATAAACTCCTTAAACCACCATGACCATTCACTGAAGAGGT
66 GAGATTAATAGCAGGAATGAGGAGTATAAACTCCTTAAACCACCATGACCATTCACTGAAGAGGT
*
60309705 AAGTCGAGCTTAGACTATAAATAAGCGTTTCTTGAGAGGCAACCCGAGCACTAACAATATTAATT
131 AAGTCGAGCTTAGACTATAAATAAGCGCTTCTTGAGAGGCAACCCGAGCACTAACAATATTAATT
60309770 TCTTTAAATTTTGGTATTTAACTCCTAACTTACTAATAGAAATCTTGAATAC
196 TCTTTAAATTTTGGTATTTAACTCCTAACTTACTAATAGAAATCTTGAATAC
60309822 AGGTG
1 AGGTG
60309827 TTTTCACAGA
Statistics
Matches: 245, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
247 245 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (247 bp):
AGGTGAGTCATCCCAAGTACGGCACTTTTAAGGTAAACAACACCCACTTAAAACCTTATTTTGAT
GAGATTAATAGCAGGAATGAGGAGTATAAACTCCTTAAACCACCATGACCATTCACTGAAGAGGT
AAGTCGAGCTTAGACTATAAATAAGCGCTTCTTGAGAGGCAACCCGAGCACTAACAATATTAATT
TCTTTAAATTTTGGTATTTAACTCCTAACTTACTAATAGAAATCTTGAATAC
Found at i:60310078 original size:55 final size:55
Alignment explanation
Indices: 60309955--60310080 Score: 128
Period size: 55 Copynumber: 2.3 Consensus size: 55
60309945 AAGCCTTCCA
* * * * * *
60309955 AAAC-AACACGGGCGTGCGACACGCCCGTGTGGAAGACCCGTGGTTGAAACTGAG
1 AAACTAACACGGGCGTGAGACACGCCCATGTCGAACACCCATGGTCGAAACTGAG
* * * * **
60310009 AAACTACCATGGGCGTGAGACACGCCCATGTCTAACACCCATGGTCGAACCTGTT
1 AAACTAACACGGGCGTGAGACACGCCCATGTCGAACACCCATGGTCGAAACTGAG
*
60310064 AAATTAACACGGGCGTG
1 AAACTAACACGGGCGTG
60310081 GGGCTTGCAC
Statistics
Matches: 56, Mismatches: 15, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
54 4 0.07
55 52 0.93
ACGTcount: A:0.29, C:0.27, G:0.28, T:0.17
Consensus pattern (55 bp):
AAACTAACACGGGCGTGAGACACGCCCATGTCGAACACCCATGGTCGAAACTGAG
Found at i:60317902 original size:49 final size:49
Alignment explanation
Indices: 60317845--60317989 Score: 191
Period size: 51 Copynumber: 2.9 Consensus size: 49
60317835 AGCTGAAGCT
*
60317845 ATCTGGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCAATA
1 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATA
* * * * * *
60317894 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTT
1 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATA
* *
60317945 TTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
60317990 TCACAATAGA
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
49 39 0.48
50 2 0.02
51 40 0.49
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (49 bp):
ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATA
Found at i:60325350 original size:68 final size:67
Alignment explanation
Indices: 60325278--60325427 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
60325268 CATCATGTGT
* * * *
60325278 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
60325340 ATGTAG
62 ATGTAG
** * *
60325346 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
60325411 AG
66 AG
60325413 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
60325428 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:60325383 original size:64 final size:64
Alignment explanation
Indices: 60325302--60325485 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
60325292 AGACATTATG
* *
60325302 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
60325366 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
60325431 AA
63 AA
* * * *
60325433 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
60325486 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:60329544 original size:31 final size:31
Alignment explanation
Indices: 60329506--60329568 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
60329496 ACATAACTTA
*
60329506 AACCATAGTTGCCTTTTCTATATATTCTCAT
1 AACCATAGTTGCCTTTTCTATATATGCTCAT
60329537 AACCATAGTTGCCTTTTCTATATATGCTCAT
1 AACCATAGTTGCCTTTTCTATATATGCTCAT
60329568 A
1 A
60329569 TGTCGAAACC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.27, C:0.22, G:0.08, T:0.43
Consensus pattern (31 bp):
AACCATAGTTGCCTTTTCTATATATGCTCAT
Found at i:60330545 original size:3 final size:3
Alignment explanation
Indices: 60330517--60330590 Score: 96
Period size: 3 Copynumber: 24.3 Consensus size: 3
60330507 ATGCATGAAC
* * *
60330517 AAT AAT GAT AAT GAT GAA- AAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
60330562 AAT AAT AAT AAT AAT AAT AAT GAAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT A
60330591 CAAGAATTGA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.03
3 56 0.90
4 4 0.06
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:60332132 original size:19 final size:19
Alignment explanation
Indices: 60332093--60332133 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
60332083 ACTTTTTTTT
*
60332093 TAATTTGTATTTGGGCTTG
1 TAATTTGTATTTGGACTTG
60332112 TAATTTGTAATTTGGAC-TG
1 TAATTTGT-ATTTGGACTTG
60332131 TAA
1 TAA
60332134 ACAAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.24, C:0.05, G:0.22, T:0.49
Consensus pattern (19 bp):
TAATTTGTATTTGGACTTG
Found at i:60332902 original size:44 final size:44
Alignment explanation
Indices: 60332394--60333378 Score: 285
Period size: 44 Copynumber: 22.1 Consensus size: 44
60332384 AGGGAAAAGA
* * * * *
60332394 TTTGTAGCTTCAATCTACTCC-CTTGAAACTTCAAAGAGATAAGAA
1 TTTGTGGCTTCAATCTGCTCCAC-TGCAACTTCAGAGAGATAAG-G
* *** * * * *
60332439 TTGGTAATTTCAACCTGCTTCACTGCGACTTCAGGGAGATAAGG
1 TTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGG
** ** * *
60332483 TTTGTGTATTTTATCCTGCTCTACTACAACTTCAGAGAGATAAGG
1 TTTGTGGCTTCAAT-CTGCTCCACTGCAACTTCAGAGAGATAAGG
* * ** * * * *
60332528 ATTGTAGCTTTGATCTGCTCCAATGTAATTTCA-AGGAGA-AGAGA
1 TTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGA-GAGATA-AGG
* * ** * * * *
60332572 TTTGTAGTTTTGATCTACTCCACTGGAACTTCA-ATGAGGTAAGAA
1 TTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGA-GAGATAAG-G
* *** ** *
60332617 TTGGTAATTTCAGCCTGCTCCACTGTAACTTCAGAGAGATAAGG
1 TTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGG
* * * * * *
60332661 CTGGTGGTTTCAATCTGCTCCATTACAACTTCA-AGGAGATAGGG
1 TTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGA-GAGATAAGG
** ** * *
60332705 TTTGTGTATTTTTATCCTGCTCTACTGCAACTTCAGAGAGATAA-A
1 TTTGTG-GCTTCAAT-CTGCTCCACTGCAACTTCAGAGAGATAAGG
** * * ** * *
60332750 TATTGTGGCTTTGATCTGCTCTAATATAATTTCA-AGGAGA-AGAGA
1 T-TTGTGGCTTCAATCTGCTCCACTGCAACTTCAGA-GAGATA-AGG
* * * * ** * * *
60332795 TTTGTAGCTTCGATCTACTTCGTTGGAACTTCA-AGGAGGTAAGAA
1 TTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGA-GAGATAAG-G
* *** *
60332840 TTGGTAATTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGG
1 TTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGG
* *
60332884 CTGGTGGCTTCAATCTGCTCCACTGCAACTTCAG-GAAGATAAGG
1 TTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGAG-AGATAAGG
*** ** * *
60332928 TTTATGTATTTTTTATCCTACTCTACTGCAACTTCAGAGAGATAAGG
1 -TT-TGTGGCTTCAAT-CTGCTCCACTGCAACTTCAGAGAGATAAGG
* * * * * *
60332975 ATTGTGGCTCCAATCTGCTCTAATGCAATTTCAG-G-GAAAAGAG
1 TTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAG-G
* * * * * * *
60333018 ATTTGTAGCTTCGATCTACTCCGCTGAAACTTCA-AGGAGATGAGAA
1 -TTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGA-GAGATAAG-G
* *** *
60333064 TTGGTAATTTCAA-CTTGCTCCACTGTAACTTCAGAGAGATAAGG
1 TTTGTGGCTTCAATC-TGCTCCACTGCAACTTCAGAGAGATAAGG
* * * ** * *
60333108 TTGGTGGCTTGAATCTACTTTATTGCAACTTCAGGGAGATAAGG
1 TTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGG
** ** *
60333152 TTTTGTGTATTTTTATCCTGCTCTACTGCAACTTCAGAGAGATAAGG
1 -TTTGTG-GCTTCAAT-CTGCTCCACTGCAACTTCAGAGAGATAAGG
* * * ** * * * * *
60333199 ATTGTGGCTTCGATCTTCTATAATGTAATTTCAGGGAGA-AGAGA
1 TTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATA-AGG
* * * * * * *
60333243 TTTGTAGCTTCGATCTACTCCGCTGAAACTTCA-AGGAGGTAAGAA
1 TTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGA-GAGATAAG-G
* *** * * * *
60333288 TTGGTAATTTGAACCTGCTCCACTACAACTTTAGAGAGATAAGG
1 TTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGG
* * *
60333332 CTGGTGGCTTCAATCTGCTCCATTGCAACTTCAG-GAGGATAAGG
1 TTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGAGA-GATAAGG
60333376 TTT
1 TTT
60333379 ATGTATTTTT
Statistics
Matches: 686, Mismatches: 214, Indels: 81
0.70 0.22 0.08
Matches are distributed among these distances:
42 5 0.01
43 11 0.02
44 339 0.49
45 224 0.33
46 53 0.08
47 53 0.08
48 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (44 bp):
TTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGG
Found at i:60333051 original size:224 final size:224
Alignment explanation
Indices: 60332447--60333598 Score: 1612
Period size: 224 Copynumber: 5.2 Consensus size: 224
60332437 AATTGGTAAT
* * * * * *
60332447 TTCAACCTGCTTCACTGCGACTTCAGGGAGATAAGGTTTGTGTA--TTTTATCCTGCTCTACTAC
1 TTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGGTTTATGTATTTTTTATCCTGCTCTACTGC
* * * *
60332510 AACTTCAGAGAGATAAGGATTGTAGCTTTGATCTGCTCCAATGTAATTTCAAGGAGAAGAGATTT
66 AACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCTAATGTAATTTCAGGGAGAAGAGATTT
* * * * * *
60332575 GTAGTTTTGATCTACTCCACTGGAACTTCAATGAGGTAAGAATTGGTAATTTCAGCCTGCTCCAC
131 GTAGCTTCGATCTACTCCGCTGAAACTTCAAGGAGGTAAGAATTGGTAATTTCAACCTGCTCCAC
* *
60332640 TGTAACTTCAGAGAGATAAGGCTGGTGGT
196 TGCAACTTCAGAGAGATAAGGCTGGTGGC
* * * *
60332669 TTCAATCTGCTCCATTACAACTTCAAGG-AGATAGGGTTTGTGTA-TTTTTATCCTGCTCTACTG
1 TTCAATCTGCTCCACTGCAACTTC-AGGAAGATAAGGTTTATGTATTTTTTATCCTGCTCTACTG
** * * *
60332732 CAACTTCAGAGAGATAAATATTGTGGCTTTGATCTGCTCTAATATAATTTCAAGGAGAAGAGATT
65 CAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCTAATGTAATTTCAGGGAGAAGAGATT
* * *
60332797 TGTAGCTTCGATCTACTTCGTTGGAACTTCAAGGAGGTAAGAATTGGTAATTTCAACCTGCTCCA
130 TGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGAGGTAAGAATTGGTAATTTCAACCTGCTCCA
60332862 CTGCAACTTCAGAGAGATAAGGCTGGTGGC
195 CTGCAACTTCAGAGAGATAAGGCTGGTGGC
*
60332892 TTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGGTTTATGTATTTTTTATCCTACTCTACTGC
1 TTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGGTTTATGTATTTTTTATCCTGCTCTACTGC
* * * *
60332957 AACTTCAGAGAGATAAGGATTGTGGCTCCAATCTGCTCTAATGCAATTTCAGGGAAAAGAGATTT
66 AACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCTAATGTAATTTCAGGGAGAAGAGATTT
* * *
60333022 GTAGCTTCGATCTACTCCGCTGAAACTTCAAGGAGATGAGAATTGGTAATTTCAACTTGCTCCAC
131 GTAGCTTCGATCTACTCCGCTGAAACTTCAAGGAGGTAAGAATTGGTAATTTCAACCTGCTCCAC
* *
60333087 TGTAACTTCAGAGAGATAAGGTTGGTGGC
196 TGCAACTTCAGAGAGATAAGGCTGGTGGC
* * ** * * *
60333116 TTGAATCTACTTTATTGCAACTTCAGGGAGATAAGGTTT-TGTGTATTTTTATCCTGCTCTACTG
1 TTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGGTTTATGTAT-TTTTTATCCTGCTCTACTG
* *
60333180 CAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTTCTATAATGTAATTTCAGGGAGAAGAGATT
65 CAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCTAATGTAATTTCAGGGAGAAGAGATT
*
60333245 TGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGAGGTAAGAATTGGTAATTTGAACCTGCTCCA
130 TGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGAGGTAAGAATTGGTAATTTCAACCTGCTCCA
* *
60333310 CTACAACTTTAGAGAGATAAGGCTGGTGGC
195 CTGCAACTTCAGAGAGATAAGGCTGGTGGC
* * ** *
60333340 TTCAATCTGCTCCATTGCAACTTCAGGAGGATAAGGTTTATGTATTTTTTATCCAACTCTACTGT
1 TTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGGTTTATGTATTTTTTATCCTGCTCTACTGC
* * * *
60333405 AACTTTAAAGAGATAAGGATTGTGGCTCCGATCTGCTCTAATGTAATTTCAGAGAGAAGAGATTT
66 AACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCTAATGTAATTTCAGGGAGAAGAGATTT
* * *
60333470 GCAGCTTCGATCTACTCCGCTGAAACTTCAAGGAGGTGACAATTGGTAATTTCAACCTGCTCCAC
131 GTAGCTTCGATCTACTCCGCTGAAACTTCAAGGAGGTAAGAATTGGTAATTTCAACCTGCTCCAC
* *
60333535 TACAACTTCAGAGAGATAAGGTTGGTGGC
196 TGCAACTTCAGAGAGATAAGGCTGGTGGC
* * ** *
60333564 TTGAATCTACTTTACTGCAACTTTAGGAAGATAAG
1 TTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
60333599 ATTCGCCATA
Statistics
Matches: 830, Mismatches: 94, Indels: 10
0.89 0.10 0.01
Matches are distributed among these distances:
222 37 0.04
223 206 0.25
224 583 0.70
225 4 0.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (224 bp):
TTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGGTTTATGTATTTTTTATCCTGCTCTACTGC
AACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCTAATGTAATTTCAGGGAGAAGAGATTT
GTAGCTTCGATCTACTCCGCTGAAACTTCAAGGAGGTAAGAATTGGTAATTTCAACCTGCTCCAC
TGCAACTTCAGAGAGATAAGGCTGGTGGC
Found at i:60335063 original size:26 final size:27
Alignment explanation
Indices: 60335033--60335083 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
60335023 CCTTGGCCTC
60335033 TCCTTTTTCTT-TTCTTTTTGTTTTCT
1 TCCTTTTTCTTGTTCTTTTTGTTTTCT
* *
60335059 TCCTTTTTTTTGTTTTTTTTGTTTT
1 TCCTTTTTCTTGTTCTTTTTGTTTT
60335084 TTTTAGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.80
Consensus pattern (27 bp):
TCCTTTTTCTTGTTCTTTTTGTTTTCT
Found at i:60335076 original size:8 final size:9
Alignment explanation
Indices: 60335047--60335087 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
60335037 TTTTCTTTTC
60335047 TTTTTGTTT
1 TTTTTGTTT
* **
60335056 TCTTCCTTT
1 TTTTTGTTT
60335065 TTTTTGTTT
1 TTTTTGTTT
60335074 TTTTTGTTT
1 TTTTTGTTT
60335083 TTTTT
1 TTTTT
60335088 AGAAAACTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.85
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:60340727 original size:7 final size:7
Alignment explanation
Indices: 60340715--60340745 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
60340705 GACATACGTA
60340715 ATAAAAT
1 ATAAAAT
60340722 ATAAAAT
1 ATAAAAT
60340729 ATAAAAT
1 ATAAAAT
60340736 ATAAAAT
1 ATAAAAT
60340743 ATA
1 ATA
60340746 TAACATTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
ATAAAAT
Found at i:60340832 original size:3 final size:3
Alignment explanation
Indices: 60340824--60340858 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
60340814 TATAAGTGGA
*
60340824 AAT AAT AAT AAT AAT AAC AAT AAT AAT GAAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT A
60340859 CAAGAATTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:60341179 original size:21 final size:20
Alignment explanation
Indices: 60341136--60341186 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
60341126 AAATAATATT
60341136 AATATATAAATAGAAATAGA
1 AATATATAAATAGAAATAGA
60341156 AATATAATAAATAGAAAT-GTA
1 AATAT-ATAAATAGAAATAG-A
*
60341177 AATAGATAAA
1 AATATATAAA
60341187 AAAATTAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.25
Consensus pattern (20 bp):
AATATATAAATAGAAATAGA
Found at i:60345002 original size:19 final size:18
Alignment explanation
Indices: 60344978--60345026 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
60344968 AATGTATAAT
60344978 ATATAAATAATTAATAAAG
1 ATATAAATAATTAA-AAAG
* * *
60344997 ATATAATACAAGTAAAAAT
1 ATATAA-ATAATTAAAAAG
60345016 ATATAAATAAT
1 ATATAAATAAT
60345027 AATGTAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
18 3 0.12
19 15 0.62
20 6 0.25
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (18 bp):
ATATAAATAATTAAAAAG
Found at i:60345022 original size:38 final size:36
Alignment explanation
Indices: 60344975--60345074 Score: 105
Period size: 38 Copynumber: 2.6 Consensus size: 36
60344965 AATAATGTAT
60344975 AATATATAAATAATTAATAAAGAT-ATAATACAAGTAAA
1 AATATATAAATAA-TAATAAA-ATAATAATA-AAGTAAA
**
60345013 AATATATAAATAATAATGTAAAATAATAATAATTTAAA
1 AATATATAAATAATAA--TAAAATAATAATAAAGTAAA
60345051 AATATAT-AATAAATAATAATAATA
1 AATATATAAAT-AATAATAA-AATA
60345075 TGAAATAATA
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
36 3 0.05
37 10 0.18
38 32 0.58
39 10 0.18
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (36 bp):
AATATATAAATAATAATAAAATAATAATAAAGTAAA
Found at i:60345042 original size:16 final size:17
Alignment explanation
Indices: 60345021--60345062 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
60345011 AAAATATATA
60345021 AATAATAATGT-AAAAT
1 AATAATAATGTAAAAAT
*
60345037 AATAATAATTTAAAAAT
1 AATAATAATGTAAAAAT
60345054 ATATAATAA
1 A-ATAATAA
60345063 ATAATAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.43
17 6 0.26
18 7 0.30
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AATAATAATGTAAAAAT
Found at i:60345082 original size:16 final size:15
Alignment explanation
Indices: 60345016--60345084 Score: 67
Period size: 13 Copynumber: 4.8 Consensus size: 15
60345006 AAGTAAAAAT
60345016 ATATAAATAATAAT-
1 ATATAAATAATAATA
*
60345030 GTA-AAATAATAATA
1 ATATAAATAATAATA
*
60345044 ATTTAAA-AAT-AT-
1 ATATAAATAATAATA
60345056 ATAATAAATAATAATA
1 AT-ATAAATAATAATA
60345072 ATATGAAATAATA
1 ATAT-AAATAATA
60345085 CATGGTTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
12 2 0.05
13 16 0.36
14 9 0.20
15 7 0.16
16 10 0.23
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
ATATAAATAATAATA
Found at i:60345230 original size:20 final size:19
Alignment explanation
Indices: 60345198--60345243 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
60345188 TAATAGGAAG
60345198 ATATCAAGTAAT-ATAATAAA
1 ATAT-AAGTAATAAT-ATAAA
60345218 ATATAAGTAAATAATATAAA
1 ATATAAGT-AATAATATAAA
60345238 ATATAA
1 ATATAA
60345244 TACATATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.17
20 18 0.75
21 2 0.08
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (19 bp):
ATATAAGTAATAATATAAA
Found at i:60347243 original size:204 final size:205
Alignment explanation
Indices: 60346882--60347434 Score: 784
Period size: 204 Copynumber: 2.7 Consensus size: 205
60346872 AAATCTGCTT
* * ** * * *
60346882 CTTCGATTTGTTCTTTGACAATACAAAGATGGCAAATCATCTTAGATTTGCTTTAGTGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATA-AGAGATACCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
** * * * * *
60346947 GCAAAAACCAAAGCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGGTACCAAACCATCTT
65 GTGAAAGCCAAATCATCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* ** * * *
60347012 GGATCTTGCTTCAGTGAAATTATCTGAAGGTGAGATCTGCTATGTATCTACTCTCCATCAAAGTG
130 GGATCTTGCTTCAATGAAAACATCTGAAAGTGAGATCTGCTATGTATCTACCCCCCATCAAAGTG
60347077 GAGATGCCAGA
195 GAGATGCCAGA
60347088 CTTCGATTTGTTCTCTGACAAT-AGAGATACCAAATCATCTTAGATTTGCTTCAGCGTAAACACG
1 CTTCGATTTGTTCTCTGACAATAAGAGATACCAAATCATCTTAGATTTGCTTCAGCGTAAACACG
* * *
60347152 TGAAAGCCAAATCATCTATGTCTTCGATTTGTTCTTTGTAAGCACAATGATGCCAAATCATCTTG
66 TGAAAGCCAAATCATCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
* * *
60347217 GATCTTGCTTCAATGAAAACATCTGAAAGTGAGATCTGCTATGTATCTGCCCCCCGTCGAAGTGG
131 GATCTTGCTTCAATGAAAACATCTGAAAGTGAGATCTGCTATGTATCTACCCCCCATCAAAGTGG
60347282 AGATGCCAGA
196 AGATGCCAGA
* * ** *
60347292 CTTCGATTTGTTCTCTAACAATACAGAGATACTAAATCATCTTAGATTTTTTTCAGCGTAAACAG
1 CTTCGATTTGTTCTCTGACAATA-AGAGATACCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
* *
60347357 GTGAAAGCCAAATCATCTATGTCTTCGGTTTGTTCCTTGTAAGCATAAGGATGCCAAACCATCTT
65 GTGAAAGCCAAATCATCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
60347422 GGATCTTGCTTCA
130 GGATCTTGCTTCA
60347435 GCTGGATCTG
Statistics
Matches: 309, Mismatches: 36, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
204 178 0.58
206 131 0.42
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATAAGAGATACCAAATCATCTTAGATTTGCTTCAGCGTAAACACG
TGAAAGCCAAATCATCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
GATCTTGCTTCAATGAAAACATCTGAAAGTGAGATCTGCTATGTATCTACCCCCCATCAAAGTGG
AGATGCCAGA
Found at i:60355536 original size:14 final size:16
Alignment explanation
Indices: 60355501--60355537 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
60355491 CAAACGATGC
60355501 GATG-AAATGCTATGA
1 GATGCAAATGCTATGA
60355516 GATGCAAATGC-ATGA
1 GATGCAAATGCTATGA
60355531 -ATGCAAA
1 GATGCAAA
60355538 AGGATATCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (16 bp):
GATGCAAATGCTATGA
Found at i:60355580 original size:14 final size:14
Alignment explanation
Indices: 60355557--60355586 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
60355547 ATTCTGGTTC
60355557 AACTTCATTTAGAA
1 AACTTCATTTAGAA
*
60355571 AACTTTATTTAGAA
1 AACTTCATTTAGAA
60355585 AA
1 AA
60355587 AGAATATCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.37
Consensus pattern (14 bp):
AACTTCATTTAGAA
Found at i:60359571 original size:20 final size:19
Alignment explanation
Indices: 60359527--60359583 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
60359517 ATAAAAAATG
* *
60359527 ACATAATATAAAATAATTAT
1 ACAT-ATATAAAAAAATAAT
60359547 A-ATATATAAAAAACATAAT
1 ACATATATAAAAAA-ATAAT
*
60359566 ACATATTTAAAAAGAATA
1 ACATATATAAAAA-AATA
60359584 GGTAAAATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 9 0.29
19 7 0.23
20 14 0.45
21 1 0.03
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (19 bp):
ACATATATAAAAAAATAAT
Found at i:60359832 original size:20 final size:19
Alignment explanation
Indices: 60359800--60359845 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
60359790 TAATAGGAAG
60359800 ATATCAAGTAAT-ATAATAAA
1 ATAT-AAGTAATAAT-ATAAA
60359820 ATATAAGTAAATAATATAAA
1 ATATAAGT-AATAATATAAA
60359840 ATATAA
1 ATATAA
60359846 TACATATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.17
20 18 0.75
21 2 0.08
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (19 bp):
ATATAAGTAATAATATAAA
Found at i:60360178 original size:683 final size:683
Alignment explanation
Indices: 60358859--60360642 Score: 2215
Period size: 683 Copynumber: 2.6 Consensus size: 683
60358849 GAGATAACAT
60358859 AAAACATAATACATATTTAAAAAGAATAGGTAAAATTCCTAAACACATAATTCAACATATATTTA
1 AAAACATAATACATATTTAAAAAGAATAGGTAAAATTCCTAAACACATAATTCAACATATATTTA
60358924 AACACAAATGATGTATGATATACAATTTTAACACATATGTAAAAAAATGCATTTGAAAATAAATT
66 AACACAAATGATGTATGATATACAATTTTAACACATATGTAAAAAAATGCATTTGAAAATAAATT
60358989 ATAAAAGTCCAAGATATTACATAACATATAAAAAACATAACATAGCAATAATACATTAATTCTAA
131 ATAAAAGTCCAAGATATTACATAACATATAAAAAACATAACATAGCAATAATACATTAATTCTAA
* * * ** ** ** * *
60359054 AGTAAAAGCAAGTAT-TGTATAATAATAAAAACATAAGT-TTTTTTTAAAAAAATAT-ATGTATA
196 AGTAAAAGCAAGTATATGT-TAA-AATATATA-TTAA-TATGATAATAGGAAGATATCAAG--TA
* * * * ** *
60359116 ATATAA-ACAATTGATAAATAGAATGAGCATATAAAATGTGATATTTA-ATGATAG-ATTTAAAA
255 ATATAATA-AAAT-ATAAGTA-AAT-A--ATATAAAATATAATACATATAT--TCGTA-TTAAAA
* * * * * * *
60359178 TATAATA-TATA-ATAAAAAATATATTTATAAGAATAATA-CTTATATAA-AAATATAAAA--TA
311 TATAATAGTATATGTATAAAGT-T-TTTA-AA-TA-AATAGGTTATA-AATAGAT-TAAAAGGGA
** * ** * *
60359237 T-ATTGGTTTAGAAAAATAATGTATAAAATATCAAATATGTAAAAGAATTTATATTTATAATAAT
369 TAAAAGG---GGCTAAAT--TGAACAAAATATCAAATATGTAAAAGAATTTATATTTATAATAAT
60359301 TATATAATATATATAAATATAAGTTTAGAATAATGTGAAATAAGTAATTAATGCTTAAATATACG
429 TATATAATATATATAAATATAAGTTTAGAATAATGTGAAATAAGTAATTAATGCTTAAATATACG
60359366 TATTATACAAATTACAATATTATAATATCTTCAAAATGTGTAATAATTAAATATAAGTGAAGTAA
494 TATTATACAAATTACAATATTATAATATCTTCAAAATGTGTAATAATTAAATATAAGTGAAGTAA
60359431 TTATTAACATATAAATAAAAATAAGTATATAATATAAGTTAAAACCTTTAATGATAATAATGTAT
559 TTATTAACATATAAATAAAAATAAGTATATAATATAAGTTAAAACCTTTAATGATAATAATGTAT
60359496 AAATAAAAAACATATAAGAGTATAAAAAATGACATAATATAAAATAATTATAATATATAA
624 AAATAAAAAACATATAAGAGTATAAAAAATGACATAATATAAAATAATTATAATATATAA
60359556 AAAACATAATACATATTTAAAAAGAATAGGTAAAATTCCTAAACACATAATTCAACATATATTTA
1 AAAACATAATACATATTTAAAAAGAATAGGTAAAATTCCTAAACACATAATTCAACATATATTTA
60359621 AACACAAATGATGTATGATATACAATTTTAACACATATGTAAAAAAATGCATTTGAAAATAAATT
66 AACACAAATGATGTATGATATACAATTTTAACACATATGTAAAAAAATGCATTTGAAAATAAATT
60359686 ATAAAAGTCCAAGATATTACATAACATATAAAAAACATAACATAGCAATAATACATTAATTCTAA
131 ATAAAAGTCCAAGATATTACATAACATATAAAAAACATAACATAGCAATAATACATTAATTCTAA
60359751 AGTAAAAGCAAGTATATGTTAAAATATATATTAATATGATAATAGGAAGATATCAAGTAATATAA
196 AGTAAAAGCAAGTATATGTTAAAATATATATTAATATGATAATAGGAAGATATCAAGTAATATAA
60359816 TAAAATATAAGTAAATAATATAAAATATAATACATATATTCGTATTAAAATATAATAGTATATGT
261 TAAAATATAAGTAAATAATATAAAATATAATACATATATTCGTATTAAAATATAATAGTATATGT
60359881 ATAAAGTTTTTAAATAAATAGGTTATAAATAGATTAAAAGGGATAAAAGGGGCTAAATTGAACAA
326 ATAAAGTTTTTAAATAAATAGGTTATAAATAGATTAAAAGGGATAAAAGGGGCTAAATTGAACAA
60359946 AATATCAAATATGTAAAAGAATTTATATTTATAATAATTATATAATATATATAAATATAAGTTTA
391 AATATCAAATATGTAAAAGAATTTATATTTATAATAATTATATAATATATATAAATATAAGTTTA
60360011 GAATAATGTGAAATAAGTAATTAATGCTTAAATATACGTATTATACAAATTACAATATTATAATA
456 GAATAATGTGAAATAAGTAATTAATGCTTAAATATACGTATTATACAAATTACAATATTATAATA
60360076 TCTTCAAAATGTGTAATAATTAAATATAAGTGAAGTAATTATTAACATATAAATAAAAATAAGTA
521 TCTTCAAAATGTGTAATAATTAAATATAAGTGAAGTAATTATTAACATATAAATAAAAATAAGTA
60360141 TATAATATAAGTTAAAACCTTTAATGATAATAATGTATAAATAAAAAACATATAAGAGTATAAAA
586 TATAATATAAGTTAAAACCTTTAATGATAATAATGTATAAATAAAAAACATATAAGAGTATAAAA
60360206 AATGACATAATATAAAATAATTATAATATATAA
651 AATGACATAATATAAAATAATTATAATATATAA
* * * ** ** * ** ** * * * *
60360239 ATTGAAAGTATATATGCAAAAATAATGTATAATATATAAATAATTAATAAAGATATAATACAAGT
1 A---AAA-CATA-ATACATATTTAA-AAAGAATAGGT-AA-AATTCCTAAACACATAATTCAA-C
* * * * * ** * * * * * *
60360304 AAAAATATATAA-A-TAATAATGTAAAATAATAATAATTTAAAAATATATAATAAATAATAAT-A
57 ATATATTTA-AACACAAATGATGTATGAT-AT-ACAATTTTAACACATAT-GTAAA-AA-AATGC
* * ** * ** *
60360366 ATATGAAATAATACATGGTTAATACAATAGTGTAAAGATA-TATA-AACATTATGTGATAA-A-A
116 ATTTG-AA-AATA-A--ATT-ATA-AA-AGT-CCAAGATATTACATAACA-TAT-AAAAAACATA
* * * *
60360427 ATATA-CTATAATA-AATAA---T-AAGT-AATG--A-TATATGTTAAAATATATATTAATATGA
170 ACATAGCAATAATACATTAATTCTAAAGTAAAAGCAAGTATATGTTAAAATATATATTAATATGA
60360482 TAATAGGAAGATATCAAGTAATATAATAAAATATAAGTAAATAATATAAAATATAATACATATAT
235 TAATAGGAAGATATCAAGTAATATAATAAAATATAAGTAAATAATATAAAATATAATACATATAT
60360547 TCGTATTAAAATATAATAGTATATGTATAAAGTTTTTAAATAAATAGGTTATAAATAGATTAAAA
300 TCGTATTAAAATATAATAGTATATGTATAAAGTTTTTAAATAAATAGGTTATAAATAGATTAAAA
60360612 GGGATAAAAGGGGCTAAATTGAACATAAATA
365 GGGATAAAAGGGGCTAAATTGAACA-AAATA
60360643 AAAAGTCAGA
Statistics
Matches: 974, Mismatches: 73, Indels: 84
0.86 0.06 0.07
Matches are distributed among these distances:
683 299 0.31
685 16 0.02
686 12 0.01
687 7 0.01
688 30 0.03
689 27 0.03
690 10 0.01
691 28 0.03
692 194 0.20
693 27 0.03
694 16 0.02
695 23 0.02
696 17 0.02
697 218 0.22
698 4 0.00
700 6 0.01
701 10 0.01
702 11 0.01
703 10 0.01
704 9 0.01
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (683 bp):
AAAACATAATACATATTTAAAAAGAATAGGTAAAATTCCTAAACACATAATTCAACATATATTTA
AACACAAATGATGTATGATATACAATTTTAACACATATGTAAAAAAATGCATTTGAAAATAAATT
ATAAAAGTCCAAGATATTACATAACATATAAAAAACATAACATAGCAATAATACATTAATTCTAA
AGTAAAAGCAAGTATATGTTAAAATATATATTAATATGATAATAGGAAGATATCAAGTAATATAA
TAAAATATAAGTAAATAATATAAAATATAATACATATATTCGTATTAAAATATAATAGTATATGT
ATAAAGTTTTTAAATAAATAGGTTATAAATAGATTAAAAGGGATAAAAGGGGCTAAATTGAACAA
AATATCAAATATGTAAAAGAATTTATATTTATAATAATTATATAATATATATAAATATAAGTTTA
GAATAATGTGAAATAAGTAATTAATGCTTAAATATACGTATTATACAAATTACAATATTATAATA
TCTTCAAAATGTGTAATAATTAAATATAAGTGAAGTAATTATTAACATATAAATAAAAATAAGTA
TATAATATAAGTTAAAACCTTTAATGATAATAATGTATAAATAAAAAACATATAAGAGTATAAAA
AATGACATAATATAAAATAATTATAATATATAA
Found at i:60360238 original size:18 final size:18
Alignment explanation
Indices: 60360215--60360284 Score: 56
Period size: 18 Copynumber: 3.8 Consensus size: 18
60360205 AAATGACATA
60360215 ATATAAAATAATTATAAT
1 ATATAAAATAATTATAAT
* *
60360233 ATATAAATTGAAAGTAT-AT
1 ATATAAAAT--AATTATAAT
60360252 ATGCA-AAAATAATGTATAAT
1 AT--ATAAAATAAT-TATAAT
60360272 ATAT-AAATAATTA
1 ATATAAAATAATTA
60360285 ATAAAGATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 15
0.68 0.07 0.25
Matches are distributed among these distances:
17 2 0.05
18 18 0.44
19 7 0.17
20 13 0.32
21 1 0.02
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.36
Consensus pattern (18 bp):
ATATAAAATAATTATAAT
Found at i:60360296 original size:19 final size:18
Alignment explanation
Indices: 60360272--60360320 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
60360262 AATGTATAAT
60360272 ATATAAATAATTAATAAAG
1 ATATAAATAATTAA-AAAG
* * *
60360291 ATATAATACAAGTAAAAAT
1 ATATAA-ATAATTAAAAAG
60360310 ATATAAATAAT
1 ATATAAATAAT
60360321 AATGTAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
18 3 0.12
19 15 0.62
20 6 0.25
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (18 bp):
ATATAAATAATTAAAAAG
Found at i:60360320 original size:38 final size:36
Alignment explanation
Indices: 60360269--60360368 Score: 105
Period size: 38 Copynumber: 2.6 Consensus size: 36
60360259 AATAATGTAT
60360269 AATATATAAATAATTAATAAAGAT-ATAATACAAGTAAA
1 AATATATAAATAA-TAATAAA-ATAATAATA-AAGTAAA
**
60360307 AATATATAAATAATAATGTAAAATAATAATAATTTAAA
1 AATATATAAATAATAA--TAAAATAATAATAAAGTAAA
60360345 AATATAT-AATAAATAATAATAATA
1 AATATATAAAT-AATAATAA-AATA
60360369 TGAAATAATA
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
36 3 0.05
37 10 0.18
38 32 0.58
39 10 0.18
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (36 bp):
AATATATAAATAATAATAAAATAATAATAAAGTAAA
Found at i:60360336 original size:16 final size:17
Alignment explanation
Indices: 60360315--60360356 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
60360305 AAAATATATA
60360315 AATAATAATGT-AAAAT
1 AATAATAATGTAAAAAT
*
60360331 AATAATAATTTAAAAAT
1 AATAATAATGTAAAAAT
60360348 ATATAATAA
1 A-ATAATAA
60360357 ATAATAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.43
17 6 0.26
18 7 0.30
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AATAATAATGTAAAAAT
Found at i:60360376 original size:16 final size:15
Alignment explanation
Indices: 60360310--60360378 Score: 67
Period size: 13 Copynumber: 4.8 Consensus size: 15
60360300 AAGTAAAAAT
60360310 ATATAAATAATAAT-
1 ATATAAATAATAATA
*
60360324 GTA-AAATAATAATA
1 ATATAAATAATAATA
*
60360338 ATTTAAA-AAT-AT-
1 ATATAAATAATAATA
60360350 ATAATAAATAATAATA
1 AT-ATAAATAATAATA
60360366 ATATGAAATAATA
1 ATAT-AAATAATA
60360379 CATGGTTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
12 2 0.05
13 16 0.36
14 9 0.20
15 7 0.16
16 10 0.23
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
ATATAAATAATAATA
Found at i:60360524 original size:20 final size:19
Alignment explanation
Indices: 60360492--60360537 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
60360482 TAATAGGAAG
60360492 ATATCAAGTAAT-ATAATAAA
1 ATAT-AAGTAATAAT-ATAAA
60360512 ATATAAGTAAATAATATAAA
1 ATATAAGT-AATAATATAAA
60360532 ATATAA
1 ATATAA
60360538 TACATATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.17
20 18 0.75
21 2 0.08
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (19 bp):
ATATAAGTAATAATATAAA
Found at i:60363003 original size:31 final size:31
Alignment explanation
Indices: 60362944--60363003 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
60362934 TGAATTACAC
* *
60362944 AAATCAAAAGGACTCAATTAAAATAAAATCA
1 AAATCAAAAGGACTAAATTAAAACAAAATCA
*
60362975 AAATGAAAAGGAC-AAATTATAAACAAAAT
1 AAATCAAAAGGACTAAATTA-AAACAAAAT
60363004 GAACTTGTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.63, C:0.10, G:0.08, T:0.18
Consensus pattern (31 bp):
AAATCAAAAGGACTAAATTAAAACAAAATCA
Found at i:60365552 original size:23 final size:22
Alignment explanation
Indices: 60365510--60365552 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
60365500 AATTAAACTG
* *
60365510 TTTTGTTTCTTTTTACCCTTAT
1 TTTTGTTTCTTCTTAACCTTAT
60365532 TTTTGTATTCTTCTTAACCTT
1 TTTTGT-TTCTTCTTAACCTT
60365553 TGCTATGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.12, C:0.19, G:0.05, T:0.65
Consensus pattern (22 bp):
TTTTGTTTCTTCTTAACCTTAT
Found at i:60366611 original size:18 final size:18
Alignment explanation
Indices: 60366588--60366705 Score: 69
Period size: 18 Copynumber: 6.6 Consensus size: 18
60366578 TTTATCAGTT
60366588 TCATTCAGTAACATTCAA
1 TCATTCAGTAACATTCAA
* *
60366606 TCATTCAATAACAATT-AG
1 TCATTCAGTAAC-ATTCAA
* * * *
60366624 TCTTTCAATAATATTCAG
1 TCATTCAGTAACATTCAA
* ** *
60366642 TCACTCTTTAACAGTCAA
1 TCATTCAGTAACATTCAA
* *
60366660 TTATTCAGTAACGA-TAAA
1 TCATTCAGTAAC-ATTCAA
* *
60366678 TTATTCAGTAACAGTCAA
1 TCATTCAGTAACATTCAA
*
60366696 TTATTCAGTA
1 TCATTCAGTA
60366706 GCAGTCAGTT
Statistics
Matches: 79, Mismatches: 17, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
17 4 0.05
18 71 0.90
19 4 0.05
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (18 bp):
TCATTCAGTAACATTCAA
Found at i:60366710 original size:18 final size:18
Alignment explanation
Indices: 60366650--60366758 Score: 132
Period size: 18 Copynumber: 6.1 Consensus size: 18
60366640 AGTCACTCTT
60366650 TAACAGTCAATTATTCAG
1 TAACAGTCAATTATTCAG
*
60366668 TAAC-GATAAATTATTCAG
1 TAACAG-TCAATTATTCAG
60366686 TAACAGTCAATTATTCAG
1 TAACAGTCAATTATTCAG
* * *
60366704 TAGCAGTCAGTTATCCAG
1 TAACAGTCAATTATTCAG
*
60366722 TAACAGTCAGTTATTCAG
1 TAACAGTCAATTATTCAG
* *
60366740 TAGCAGT-AGTTATTCAG
1 TAACAGTCAATTATTCAG
60366757 TA
1 TA
60366759 CCTTTATTTA
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.16
18 67 0.83
19 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (18 bp):
TAACAGTCAATTATTCAG
Found at i:60369848 original size:27 final size:26
Alignment explanation
Indices: 60369800--60369877 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 26
60369790 GCGAGGCTGC
* *
60369800 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGA-A
60369827 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
60369853 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
60369878 GACGCTTCCT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
26 6 0.13
27 39 0.85
28 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:60371132 original size:15 final size:15
Alignment explanation
Indices: 60371114--60371142 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
60371104 CATATTTATT
60371114 TTATTATTATTTTTA
1 TTATTATTATTTTTA
60371129 TTATTATTATTTTT
1 TTATTATTATTTTT
60371143 TGAACTCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATTATTATTTTTA
Found at i:60371134 original size:12 final size:12
Alignment explanation
Indices: 60371112--60371136 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60371102 TTCATATTTA
60371112 TTTTATTATTAT
1 TTTTATTATTAT
60371124 TTTTATTATTAT
1 TTTTATTATTAT
60371136 T
1 T
60371137 ATTTTTTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:60373055 original size:13 final size:13
Alignment explanation
Indices: 60373023--60373056 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
60373013 AAACTCTAAA
*
60373023 TTTCTTCTTTTCT
1 TTTCTTTTTTTCT
60373036 TTTCTTTTTTTCT
1 TTTCTTTTTTTCT
60373049 TTTCTTTT
1 TTTCTTTT
60373057 AGTTTCTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTCTTTTTTTCT
Found at i:60373974 original size:131 final size:128
Alignment explanation
Indices: 60373645--60373972 Score: 415
Period size: 131 Copynumber: 2.5 Consensus size: 128
60373635 GAGAAACCGA
* * * * ** *
60373645 AACCCAGCACAATAGGGCACGATTCCTCGAATTTCTAGCCATTGAACATTTCCTT-GTTTTAAAA
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTACCAAACATCGAACATTTCCTTCGTTTTAAAA
** * ** *
60373709 TTTAGAAAACATGAGTGAAATTTTAAAGGGATATTCAATTATTTTGAACAAACGGGAAATTGC
66 TTTTTAAAACATGAGTAAAATTCCAAAGGGATATTCAATTATTTTGAACAAACAGGAAATTGC
* * * *
60373772 AACCCAGCACGATAGCGCACGATTCACCGAATTGCCAAACATCGAACATTTCCTTCATTTTAAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTACCAAACATCGAACATTTCCTTCGTTTT-AA-
* * *
60373837 AATTTTTAAAGATATGAGTAAAATTCCAAAGGGATATTCGATTATTTTGAACAAATAGGAAATTG
64 AATTTTTAAA-ACATGAGTAAAATTCCAAAGGGATATTCAATTATTTTGAACAAACAGGAAATTG
60373902 C
128 C
** *
60373903 AACCCAGCACGATAGGGCACGATTCCCCGAATTACCAAACATCGAACATCGCCTTCGGTTTAAAA
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTACCAAACATCGAACATTTCCTTCGTTTTAAAA
60373968 TTTTT
66 TTTTT
60373973 TTTTTAAACA
Statistics
Matches: 171, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
127 46 0.27
128 4 0.02
129 9 0.05
130 10 0.06
131 102 0.60
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (128 bp):
AACCCAGCACGATAGGGCACGATTCCCCGAATTACCAAACATCGAACATTTCCTTCGTTTTAAAA
TTTTTAAAACATGAGTAAAATTCCAAAGGGATATTCAATTATTTTGAACAAACAGGAAATTGC
Done.