Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 55 of 373
Found at i:16466122 original size:5 final size:5
Alignment explanation
Indices: 16466102--16466138 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
16466092 TGTATAATAT
16466102 AATTA AA-T- AATATA AATTA AATTA AATTA AATTA AAT
1 AATTA AATTA AAT-TA AATTA AATTA AATTA AATTA AAT
16466139 AATTTAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
3 2 0.07
4 1 0.03
5 23 0.79
6 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTA
Found at i:16466134 original size:15 final size:15
Alignment explanation
Indices: 16466096--16466138 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
16466086 TTAAAATGTA
16466096 TAATAT-AATTAAA-
1 TAATATAAATTAAAT
16466109 TAATATAAATTAAAT
1 TAATATAAATTAAAT
16466124 TAA-ATTAAATTAAAT
1 TAATA-TAAATTAAAT
16466139 AATTTAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 6 0.22
14 8 0.30
15 13 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAATATAAATTAAAT
Found at i:16467612 original size:13 final size:13
Alignment explanation
Indices: 16467594--16467618 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16467584 AAATGCAGGG
16467594 GTCACACGGCCAA
1 GTCACACGGCCAA
16467607 GTCACACGGCCA
1 GTCACACGGCCA
16467619 TGTGCTGGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.40, G:0.24, T:0.08
Consensus pattern (13 bp):
GTCACACGGCCAA
Found at i:16476538 original size:40 final size:40
Alignment explanation
Indices: 16476483--16476567 Score: 161
Period size: 40 Copynumber: 2.1 Consensus size: 40
16476473 CCCCCCAACC
*
16476483 AGTGCTATTTATAGCCGAAGCTATCTTGAAATGCACACTA
1 AGTGCTATTTATAGCCGAAGCTATCTTGAAACGCACACTA
16476523 AGTGCTATTTATAGCCGAAGCTATCTTGAAACGCACACTA
1 AGTGCTATTTATAGCCGAAGCTATCTTGAAACGCACACTA
16476563 AGTGC
1 AGTGC
16476568 CAAACATAGT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (40 bp):
AGTGCTATTTATAGCCGAAGCTATCTTGAAACGCACACTA
Found at i:16492648 original size:88 final size:87
Alignment explanation
Indices: 16492481--16492669 Score: 247
Period size: 88 Copynumber: 2.1 Consensus size: 87
16492471 CTTGAAAAGA
* ** * * * *
16492481 TTATGTGATGTATGAACATTGATGAAATTTAGAAGTTTAATAAGACATATTTATGATGAGGCATA
1 TTATGTGATGTATGAACATCGAAAAAAGTTAAAAATTCAATAAGACATATTTATGATGAGGCATA
16492546 ACATACTAGCAACTCTTGAATT
66 ACATACTAGCAACTCTTGAATT
16492568 TTATGTGATGTATGAACATCGAAAAAAGTTAAAAATTCAATCAA-ACATATTTTATGATGAGGCA
1 TTATGTGATGTATGAACATCGAAAAAAGTTAAAAATTCAAT-AAGACATA-TTTATGATGAGGCA
*
16492632 TAACTTGA-TAGCAACTCTTGAATT
64 TAACAT-ACTAGCAACTCTTGAATT
*
16492656 TTATGGTGAAGTAT
1 TTAT-GTGATGTAT
16492670 CATGTGTCAC
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
87 39 0.44
88 41 0.46
89 9 0.10
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.35
Consensus pattern (87 bp):
TTATGTGATGTATGAACATCGAAAAAAGTTAAAAATTCAATAAGACATATTTATGATGAGGCATA
ACATACTAGCAACTCTTGAATT
Found at i:16494306 original size:69 final size:69
Alignment explanation
Indices: 16494168--16494850 Score: 546
Period size: 69 Copynumber: 9.9 Consensus size: 69
16494158 ACATTTTTGC
* * * * *
16494168 CATACTAAGGCTCGCAGGTGAAGAGCCACAGCCTCTAACACAGTTAGC-ATGAGTAAAGGTCTCA
1 CATACTAAGGCTCGCAGGCGAAGAGCCACAGCCTCCAACACAGTTAGCGA-GAGCAAAGCTCCCA
*
16494232 GCTAT
65 ACTAT
* * * ** *
16494237 CATACTAAAGCTTGCAGGCTAAGAGCCGTAGCCTCCAACACAGTTAGCGAGAACAAAGCTCCCAA
1 CATACTAAGGCTCGCAGGCGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAA
16494302 CTAT
66 CTAT
* * * * * * * *
16494306 CATGCTATGGCTCGCAAGTGAAGAGCCGCAGCCTTCAACACAATTAGGGAGAGCAAAGCTCCCAA
1 CATACTAAGGCTCGCAGGCGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAA
**
16494371 CTGC
66 CTAT
* * * * ** * *
16494375 CACACTAAGGTTCGCAGGCGAAGAGTCACAGCCTCCAACATAGTTAGTTAGAGCCAAGCTCCCAG
1 CATACTAAGGCTCGCAGGCGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAA
*
16494440 CTGT
66 CTAT
* * * *** * *
16494444 CAAACTAAGGATTGCAGGCGAAGAGCTGTAGCCTCCAACACAGTTAGCGAAAGCAAAGCTCACAA
1 CATACTAAGGCTCGCAGGCGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAA
16494509 CTATT
66 CTA-T
* * * * * * * * *
16494514 C-CACTAGGGCTCGTAGGTGAAGAACCGCAGCCTCCAACACAATTAGTGAGAGCAAAGCT-TCAA
1 CATACTAAGGCTCGCAGGCGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAA
*
16494577 GCTGT
66 -CTAT
* **** * *
16494582 CATAGTAAGGCTCGCATTTAAAGAGCCACAGCCTCCAACATAGTTAGTGAGAGCAAAGCTCCCAA
1 CATACTAAGGCTCGCAGGCGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAA
*
16494647 CTGT
66 CTAT
* * * * * * * *
16494651 CATACTGAGGCTCGCAGGCGAAAAGTCACAGCCTCTAACATAGTTAGCGGGATCAAAGCT-CCTA
1 CATACTAAGGCTCGCAGGCGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAA
*
16494715 GTAGT
66 CTA-T
* * * * * * * * * *
16494720 TACACTAAGGCTCGGAGGCGAAGAGTCACAGCTTCTAACATATTTAGCGATAGCAAAGCTTCCAA
1 CATACTAAGGCTCGCAGGCGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAA
16494785 CTAT
66 CTAT
* ** * ** * *
16494789 CACACTAAATCTCGCAGACGAAGAGCCACAGCCTCCAACGTAGTTAGCAAGAACAAAGCTCC
1 CATACTAAGGCTCGCAGGCGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCC
16494851 TGACTACCAT
Statistics
Matches: 483, Mismatches: 124, Indels: 14
0.78 0.20 0.02
Matches are distributed among these distances:
68 9 0.02
69 463 0.96
70 11 0.02
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (69 bp):
CATACTAAGGCTCGCAGGCGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAA
CTAT
Found at i:16494536 original size:207 final size:203
Alignment explanation
Indices: 16494165--16494850 Score: 644
Period size: 207 Copynumber: 3.3 Consensus size: 203
16494155 ATAACATTTT
* * * * * *
16494165 TGCCATACTAAGGCTCGCAGGTGAAGAGCCACAGCCTCTAACACAGTTAG-CATGAGTAAAGGTC
1 TGCCACACTAAGGCTCGCAGGCGAAGAGCCACAGCCTCCAACATAGTTAGTCA-GAGCAAAGCTC
* * * * *
16494229 TCAGCTATCATACTAAAGCTTGCAGGCTAAGAGCCGTAGCCTCCAACACAGTTAGCGAGAACAAA
65 CCAGCTGTCATACTAAGGCTTGCAGGCGAAGAGCTGTAGCCTCCAACACAGTTAGCGA-AACAAA
* * *
16494294 GCTCCCAACTA-TCATGCTATGGCTCGCAAGTGAAGAGCCGCAGCCTTCAACACAATTAGGGAGA
129 GCT-CCAACTATTCA--CTAAGGCTCGCAGGTGAAGAGCCGCAGCCTTCAACACAATTAGCGAGA
16494358 GCAAAGCTCCCAAC
191 GCAAAGCT-CCAAC
* * * *
16494372 TGCCACACTAAGGTTCGCAGGCGAAGAGTCACAGCCTCCAACATAGTTAGTTAGAGCCAAGCTCC
1 TGCCACACTAAGGCTCGCAGGCGAAGAGCCACAGCCTCCAACATAGTTAGTCAGAGCAAAGCTCC
* *
16494437 CAGCTGTCAAACTAAGGATTGCAGGCGAAGAGCTGTAGCCTCCAACACAGTTAGCGAAAGCAAAG
66 CAGCTGTCATACTAAGGCTTGCAGGCGAAGAGCTGTAGCCTCCAACACAGTTAGCGAAA-CAAAG
* * * * *
16494502 CTCACAACTATTCCACTAGGGCTCGTAGGTGAAGAACCGCAGCCTCCAACACAATTAGTGAGAGC
130 CTC-CAACTATT-CACTAAGGCTCGCAGGTGAAGAGCCGCAGCCTTCAACACAATTAGCGAGAGC
*
16494567 AAAGCTTCAAGC
193 AAAGCTCCAA-C
* * * **** *
16494579 TGTCATAGTAAGGCTCGCATTTAAAGAGCCACAGCCTCCAACATAGTTAGTGAGAGCAAAGCTCC
1 TGCCACACTAAGGCTCGCAGGCGAAGAGCCACAGCCTCCAACATAGTTAGTCAGAGCAAAGCTCC
* * * * ** * * * *
16494644 CAACTGTCATACTGAGGCTCGCAGGCGAAAAG-TCACAGCCTCTAACATAGTTAGCGGGATCAAA
66 CAGCTGTCATACTAAGGCTTGCAGGCGAAGAGCT-GTAGCCTCCAACACAGTTAGC-GAAACAAA
* * * * * * * * *
16494708 GCTCCTAGTAGTTACACTAAGGCTCGGAGGCGAAGAGTCACAG-CTTCTAACATATTTAGCGATA
129 GCTCCAACTA-TT-CACTAAGGCTCGCAGGTGAAGAGCCGCAGCCTTC-AACACAATTAGCGAGA
16494772 GCAAAGCTTCCAAC
191 GCAAAGC-TCCAAC
** ** * * *
16494786 TATCACACTAAATCTCGCAGACGAAGAGCCACAGCCTCCAACGTAGTTAG-CAAGAACAAAGCTC
1 TGCCACACTAAGGCTCGCAGGCGAAGAGCCACAGCCTCCAACATAGTTAGTC-AGAGCAAAGCTC
16494850 C
65 C
16494851 TGACTACCAT
Statistics
Matches: 393, Mismatches: 74, Indels: 24
0.80 0.15 0.05
Matches are distributed among these distances:
206 14 0.04
207 369 0.94
208 8 0.02
209 2 0.01
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.19
Consensus pattern (203 bp):
TGCCACACTAAGGCTCGCAGGCGAAGAGCCACAGCCTCCAACATAGTTAGTCAGAGCAAAGCTCC
CAGCTGTCATACTAAGGCTTGCAGGCGAAGAGCTGTAGCCTCCAACACAGTTAGCGAAACAAAGC
TCCAACTATTCACTAAGGCTCGCAGGTGAAGAGCCGCAGCCTTCAACACAATTAGCGAGAGCAAA
GCTCCAAC
Found at i:16499490 original size:27 final size:27
Alignment explanation
Indices: 16499448--16499584 Score: 174
Period size: 27 Copynumber: 5.1 Consensus size: 27
16499438 AGGAAGCGTC
*
16499448 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
16499475 CTGGTGGCTCTACCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
16499501 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
16499529 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
16499556 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
16499583 CT
1 CT
16499585 AGTGACTTTG
Statistics
Matches: 96, Mismatches: 7, Indels: 14
0.82 0.06 0.12
Matches are distributed among these distances:
26 11 0.11
27 81 0.84
28 4 0.04
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:16499527 original size:54 final size:54
Alignment explanation
Indices: 16499445--16499584 Score: 237
Period size: 54 Copynumber: 2.6 Consensus size: 54
16499435 TGGAGGAAGC
16499445 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCT
*
16499499 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCT
* *
16499553 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCT
16499585 AGTGACTTTG
Statistics
Matches: 82, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 6 0.07
54 76 0.93
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCT
Found at i:16506859 original size:20 final size:21
Alignment explanation
Indices: 16506809--16506850 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
16506799 CAATCAATTA
16506809 CAAAAAGTATCGATACCTTTT
1 CAAAAAGTATCGATACCTTTT
*
16506830 CAAAAAGTATCGATGCCTTTT
1 CAAAAAGTATCGATACCTTTT
16506851 ACCAAGTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (21 bp):
CAAAAAGTATCGATACCTTTT
Found at i:16511280 original size:590 final size:591
Alignment explanation
Indices: 16510156--16511317 Score: 1963
Period size: 590 Copynumber: 2.0 Consensus size: 591
16510146 AATGTATATG
* *
16510156 ATCCTCAGACTTGATAACATCATTATCCCAACATCATGAGTCATATATTTTGATACAATTAAATG
1 ATCCTCAGACTTGAGAACATCATTATCCCAACATCATAAGTCATATATTTTGATACAATTAAATG
* ** * * *
16510221 TTTACCGTAACAGGTTATACTATGAAGACTGATGTTAGGTATGCCATAATCTGTGTAATGAGATA
66 TCTACCGTAACAAATTATACTATAAAGACTAATGTTAGGTATGCCACAATCTGTGTAATGAGATA
*
16510286 TGATTGATCAAGATAAGGTTCGTACCTCCTACATAATGAGTGCAATATCTCAGGCCACTTGATGG
131 TGATTGATCAAGATAAGGTTCGTACCTCCTACATAATGAGAGCAATATCTCAGGCCACTTGATGG
16510351 AGTGAGACTAGAAATGCATAACCATGCTCAAATAAGTTGATATGAGATAGCACATTTATTTGTTT
196 AGTGAGACTAGAAATGCATAACCATGCTCAAATAAGTTGATATGAGATAGCACATTTATTTGTTT
16510416 ATTATAGCCTACTCGAAATATCAAGAAATATGAGATTGGACTATACAAGTGTGACTATTCCATGA
261 ATTATAGCCTACTCGAAATATCAAGAAATATGAGATTGGACTATACAAGTGTGACTATTCCATGA
* *
16510481 CTTGTGTCCAATCTAGATATAAAGGATAAAATGATATAATACATGAAAAATTTATCATAGAAAAG
326 CTTGTGTCCAATCTAGATATAAAGGATAAAAGGATATAATACATGAAAAATTTATCACAGAAAAG
*
16510546 TTATGTCAAATCATGACTTTTTGTAACTTGAGTAGCAATGATGCATTGCTAGATGCCACACATTT
391 TTATGTCAAATCATGACTTTTTGTAACTTGAGTAGCAATGATACATTGCTAGATGCCACACATTT
* *
16510611 CTTGTAATATTAGAAATGTTCTAGTATTACTACTAGCATTACAAGAGCCTACAGGGTCATACTAT
456 CTTGTAATATTAGAAATGTTCTAGTATTACTACTAGCATTACAAAAGCCTACAGGGTCACACTAT
*
16510676 AACAGCCTATTTTTTA-GTGGTGTAAGAAACAGTGGTTTTGGAGCCACCAAATCCAGCGAGTAAA
521 AACAGCCTATTTTTTAGGT-GTGTAAGAAACAGTGGTTTCGGAGCCACCAAATCCAGCGAGTAAA
16510740 TTCATAA
585 TTCATAA
* *
16510747 ATCCTCAGACTTGAGATCATCATTATCCCAACATCTTAAGTCATATATTTTGATACAATTAAATG
1 ATCCTCAGACTTGAGAACATCATTATCCCAACATCATAAGTCATATATTTTGATACAATTAAATG
* *
16510812 TCTACCGTAACAAATTGTACTATAAAGACTAATGTTGGGTATGCCACAATCTGTGTAATGAGATA
66 TCTACCGTAACAAATTATACTATAAAGACTAATGTTAGGTATGCCACAATCTGTGTAATGAGATA
* * *
16510877 TGATTGATCAAGATAGGGTT-GTACCTCCTACATAATGAGAGTAATATCTTAGGCCACTTGATGG
131 TGATTGATCAAGATAAGGTTCGTACCTCCTACATAATGAGAGCAATATCTCAGGCCACTTGATGG
* * *
16510941 AGTGAGACTAGAAATGCATGACCATGCTCAAATACGTTGATATGAGATATCACATTTATTTGTTT
196 AGTGAGACTAGAAATGCATAACCATGCTCAAATAAGTTGATATGAGATAGCACATTTATTTGTTT
*
16511006 ATTATAGCCTACTCAGAAA-ATCAAGAAATATGATATTGGACTATACAAGTGTGACTATTCCATG
261 ATTATAGCCTACTC-GAAATATCAAGAAATATGAGATTGGACTATACAAGTGTGACTATTCCATG
16511070 ACTTGTGTCCAATCTAGATATAAAGGATAAAAGGATATAATACATGAAAAATTTATCACAGAAAA
325 ACTTGTGTCCAATCTAGATATAAAGGATAAAAGGATATAATACATGAAAAATTTATCACAGAAAA
* * *
16511135 GTTATGTCGAATCATGACTTTTTGTAACTTGGGTAGCAATGATACATTGCTAGATGCCACTCATT
390 GTTATGTCAAATCATGACTTTTTGTAACTTGAGTAGCAATGATACATTGCTAGATGCCACACATT
*
16511200 TCTTGTAATATTAGAAATGTTCTAGTATTACTACTAGCATTACAAAAGCCTACAGGGTCACACTG
455 TCTTGTAATATTAGAAATGTTCTAGTATTACTACTAGCATTACAAAAGCCTACAGGGTCACACTA
* ** *
16511265 TAATAGGCC-ATTTTTTAGGTGTGTCGGAAACAGTGGTTTCGGGGCCACCAAAT
520 TAACA-GCCTATTTTTTAGGTGTGTAAGAAACAGTGGTTTCGGAGCCACCAAAT
16511318 GTAATAATTT
Statistics
Matches: 534, Mismatches: 34, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
590 388 0.73
591 146 0.27
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.32
Consensus pattern (591 bp):
ATCCTCAGACTTGAGAACATCATTATCCCAACATCATAAGTCATATATTTTGATACAATTAAATG
TCTACCGTAACAAATTATACTATAAAGACTAATGTTAGGTATGCCACAATCTGTGTAATGAGATA
TGATTGATCAAGATAAGGTTCGTACCTCCTACATAATGAGAGCAATATCTCAGGCCACTTGATGG
AGTGAGACTAGAAATGCATAACCATGCTCAAATAAGTTGATATGAGATAGCACATTTATTTGTTT
ATTATAGCCTACTCGAAATATCAAGAAATATGAGATTGGACTATACAAGTGTGACTATTCCATGA
CTTGTGTCCAATCTAGATATAAAGGATAAAAGGATATAATACATGAAAAATTTATCACAGAAAAG
TTATGTCAAATCATGACTTTTTGTAACTTGAGTAGCAATGATACATTGCTAGATGCCACACATTT
CTTGTAATATTAGAAATGTTCTAGTATTACTACTAGCATTACAAAAGCCTACAGGGTCACACTAT
AACAGCCTATTTTTTAGGTGTGTAAGAAACAGTGGTTTCGGAGCCACCAAATCCAGCGAGTAAAT
TCATAA
Found at i:16518028 original size:14 final size:14
Alignment explanation
Indices: 16518009--16518036 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16517999 TCAGCTGTGT
16518009 GAGGGACACAGCCC
1 GAGGGACACAGCCC
16518023 GAGGGACACAGCCC
1 GAGGGACACAGCCC
16518037 CAGACATGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.36, G:0.36, T:0.00
Consensus pattern (14 bp):
GAGGGACACAGCCC
Found at i:16519363 original size:18 final size:18
Alignment explanation
Indices: 16519302--16519357 Score: 103
Period size: 18 Copynumber: 3.1 Consensus size: 18
16519292 TGGTATGTTT
16519302 ATAATTTGGATTAACATG
1 ATAATTTGGATTAACATG
16519320 ATAATTTGGATTAACATG
1 ATAATTTGGATTAACATG
*
16519338 ATAATTTGGATTAAAATG
1 ATAATTTGGATTAACATG
16519356 AT
1 AT
16519358 GCTTTGATGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.41, C:0.04, G:0.16, T:0.39
Consensus pattern (18 bp):
ATAATTTGGATTAACATG
Found at i:16524399 original size:24 final size:24
Alignment explanation
Indices: 16524365--16524416 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
16524355 TTTCTAGAAG
* * *
16524365 ATTTAGTATTTGTGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
16524389 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
16524413 ATTT
1 ATTT
16524417 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:16528751 original size:24 final size:24
Alignment explanation
Indices: 16528723--16528774 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
16528713 TTTCTATAAA
* *
16528723 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
16528747 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
16528771 ATTT
1 ATTT
16528775 GAATTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:16528785 original size:24 final size:24
Alignment explanation
Indices: 16528723--16528786 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
16528713 TTTCTATAAA
* * *
16528723 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGAATTTATTAGCATAATAT
*
16528747 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGAATTTATTAGCATAATAT
16528771 ATTT-GAATTTGATTAG
1 ATTTAGAATTT-ATTAG
16528787 AATTAGGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 5 0.14
24 30 0.86
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.48
Consensus pattern (24 bp):
ATTTAGAATTTATTAGCATAATAT
Found at i:16529108 original size:28 final size:29
Alignment explanation
Indices: 16529077--16529183 Score: 103
Period size: 28 Copynumber: 3.7 Consensus size: 29
16529067 AATTTTTTCT
* *
16529077 TAAAAATTA-TAAAAATAATT-AAATCTA
1 TAAAAATTAGTAAAAATAATTAAAAACCA
* * *
16529104 TTAAAAATTATTAGAAACTAATTGAAAACCA
1 -TAAAAATTAGTA-AAAATAATTAAAAACCA
* *
16529135 TAAAAATTA-TAAAAAAAATTAAAACCCA
1 TAAAAATTAGTAAAAATAATTAAAAACCA
*
16529163 TAAAAATTAGAAAAAATAATT
1 TAAAAATTAGTAAAAATAATT
16529184 TATAAAATTG
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
28 31 0.47
29 13 0.20
30 17 0.26
31 5 0.08
ACGTcount: A:0.63, C:0.07, G:0.03, T:0.28
Consensus pattern (29 bp):
TAAAAATTAGTAAAAATAATTAAAAACCA
Found at i:16529230 original size:19 final size:19
Alignment explanation
Indices: 16529201--16529252 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
16529191 TTGTTAGAAA
16529201 TTAATTAAGAATCATAAATT
1 TTAA-TAAGAATCATAAATT
16529221 TTAATAAGAATCATAAATT
1 TTAATAAGAATCATAAATT
16529240 TTAATAAGAATCA
1 TTAATAAGAATCA
16529253 ATTTATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 28 0.88
20 4 0.12
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.37
Consensus pattern (19 bp):
TTAATAAGAATCATAAATT
Found at i:16532053 original size:3 final size:3
Alignment explanation
Indices: 16532041--16532194 Score: 88
Period size: 3 Copynumber: 51.3 Consensus size: 3
16532031 AATATACTAT
* * * * *
16532041 ATA A-A ATA ATA ATA TTA ATA GAAA ATA ATA ATA GTA CTA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
16532086 ATA ATA ATG ATA ACA ATA ATA AAA AAA ATA ATA A-A AAA ATA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
16532133 TTA ATA CATAA ATA GA-A ATA GA-A AT- ATA ATA CATA GA-A AT- ATA
1 ATA ATA -AT-A ATA -ATA ATA -ATA ATA ATA ATA -ATA -ATA ATA ATA
16532176 ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
16532195 AAGTTTTAAA
Statistics
Matches: 117, Mismatches: 21, Indels: 26
0.71 0.13 0.16
Matches are distributed among these distances:
2 11 0.09
3 93 0.79
4 12 0.10
5 1 0.01
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:16532123 original size:11 final size:12
Alignment explanation
Indices: 16532100--16532128 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
16532090 TAATGATAAC
16532100 AATAATAAAAAA
1 AATAATAAAAAA
16532112 AATAAT-AAAAA
1 AATAATAAAAAA
16532123 AATAAT
1 AATAAT
16532129 GATATTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AATAATAAAAAA
Found at i:16532351 original size:15 final size:15
Alignment explanation
Indices: 16532317--16532351 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
16532307 TAGTAGAGAG
*
16532317 ATAAATAGATAAATA
1 ATAATTAGATAAATA
16532332 ATAATTAGATAAATA
1 ATAATTAGATAAATA
16532347 ATAAT
1 ATAAT
16532352 AGTATTAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (15 bp):
ATAATTAGATAAATA
Found at i:16534143 original size:45 final size:45
Alignment explanation
Indices: 16534080--16534173 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 45
16534070 AAGGTTTGTA
* * *
16534080 ATTTG-TAGCTTTAATCTGCTCCATTGCAACTTCAGGGAGATAAG
1 ATTTGCTATCTTTAATCTGCTACACTGCAACTTCAGGGAGATAAG
* *
16534124 GTTTGCTATCTTTATTCTGCTACACTGCAACTTCAGGGAGATAAG
1 ATTTGCTATCTTTAATCTGCTACACTGCAACTTCAGGGAGATAAG
16534169 ATTTG
1 ATTTG
16534174 TGATTCACCA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 4 0.09
45 39 0.91
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (45 bp):
ATTTGCTATCTTTAATCTGCTACACTGCAACTTCAGGGAGATAAG
Found at i:16535036 original size:53 final size:54
Alignment explanation
Indices: 16534959--16535063 Score: 140
Period size: 53 Copynumber: 2.0 Consensus size: 54
16534949 AACCCATTTT
* * *
16534959 GGTCTTAAAGCACCATTTATGGGTTTTCGCCTT-GACTCTCCATTTTTTTAGAA
1 GGTCTCAAAGCACCATTTACGGGTTTTCGCCTTAGACTCTCCACTTTTTTAGAA
* * * *
16535012 GGTCTCAAAGCGCCCTTTACGGGTTTTCGCCTTAGCCTCTCCCCTTTTTTAG
1 GGTCTCAAAGCACCATTTACGGGTTTTCGCCTTAGACTCTCCACTTTTTTAG
16535064 GCGAAGCACC
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 29 0.66
54 15 0.34
ACGTcount: A:0.16, C:0.27, G:0.18, T:0.39
Consensus pattern (54 bp):
GGTCTCAAAGCACCATTTACGGGTTTTCGCCTTAGACTCTCCACTTTTTTAGAA
Found at i:16546010 original size:3 final size:3
Alignment explanation
Indices: 16545998--16546176 Score: 105
Period size: 3 Copynumber: 60.3 Consensus size: 3
16545988 AATATACTAT
* * * *
16545998 ATA A-A ATA ATA ATA GTA CTA ATA GTA ATA ATA ATG ATA ATA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
16546044 ATA A-A AAA ATA ATG ATA TTA ATA CATAA ATA GA-A ATA GA-A ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA -AT-A ATA -ATA ATA -ATA ATA ATA
16546089 ATA CATA GA-A AT- ATA ATA ATA ATA ATA ATA ATAA ATA GA-A ATA GA-A
1 ATA -ATA -ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA -ATA ATA -ATA
16546135 ATA A-A ATA CATA GA-A AT- ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA -ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
16546177 AAGTTTTAAA
Statistics
Matches: 140, Mismatches: 14, Indels: 44
0.71 0.07 0.22
Matches are distributed among these distances:
2 20 0.14
3 100 0.71
4 19 0.14
5 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:16546102 original size:57 final size:54
Alignment explanation
Indices: 16546041--16546177 Score: 201
Period size: 51 Copynumber: 2.5 Consensus size: 54
16546031 TGATAATAAT
*
16546041 AATATAAAAAAATAATGATATTAATACATAAATAGAAATAGAAATAAAATACATAGA
1 AATATAAAATAATAAT-ATA-TAATA-ATAAATAGAAATAGAAATAAAATACATAGA
16546098 AATAT--AATAATAATA-ATAATAATAAATAGAAATAGAAATAAAATACATAGA
1 AATATAAAATAATAATATATAATAATAAATAGAAATAGAAATAAAATACATAGA
16546149 AATATAATAATAATAATA-ATAATAATAAA
1 AATATAA-AATAATAATATATAATAATAAA
16546178 AGTTTTAAAA
Statistics
Matches: 76, Mismatches: 1, Indels: 9
0.88 0.01 0.10
Matches are distributed among these distances:
51 35 0.46
52 5 0.07
53 1 0.01
54 22 0.29
55 8 0.11
57 5 0.07
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.26
Consensus pattern (54 bp):
AATATAAAATAATAATATATAATAATAAATAGAAATAGAAATAAAATACATAGA
Found at i:16546129 original size:51 final size:51
Alignment explanation
Indices: 16546051--16546173 Score: 219
Period size: 51 Copynumber: 2.4 Consensus size: 51
16546041 AATATAAAAA
* *
16546051 AATAATGATATTAATACATAAATAGAAATAGAAATAAAATACATAGAAATAT
1 AATAATAATAATAATA-ATAAATAGAAATAGAAATAAAATACATAGAAATAT
16546103 AATAATAATAATAATAATAAATAGAAATAGAAATAAAATACATAGAAATAT
1 AATAATAATAATAATAATAAATAGAAATAGAAATAAAATACATAGAAATAT
16546154 AATAATAATAATAATAATAA
1 AATAATAATAATAATAATAA
16546174 TAAAAGTTTT
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
51 55 0.80
52 14 0.20
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (51 bp):
AATAATAATAATAATAATAAATAGAAATAGAAATAAAATACATAGAAATAT
Found at i:16546338 original size:15 final size:15
Alignment explanation
Indices: 16546318--16546363 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
16546308 ATATAAATAG
16546318 AAATAGAAATATAAT
1 AAATAGAAATATAAT
*
16546333 AAATAGAAAAATAAT
1 AAATAGAAATATAAT
16546348 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
16546364 ATAGATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 16 0.59
16 1 0.04
17 10 0.37
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:16546378 original size:15 final size:14
Alignment explanation
Indices: 16546318--16546378 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 14
16546308 ATATAAATAG
16546318 AAATAGAAATATAAT
1 AAATAGAAA-ATAAT
16546333 AAATAGAAAAATAAT
1 AAATAG-AAAATAAT
16546348 -AATAGTAGAAAT-AT
1 AAATAG-A-AAATAAT
16546362 AAATAGATAAATAAT
1 AAATAGA-AAATAAT
16546377 AA
1 AA
16546379 TAGTATTAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 13 0.32
15 24 0.60
16 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (14 bp):
AAATAGAAAATAAT
Found at i:16550875 original size:7 final size:7
Alignment explanation
Indices: 16550863--16550903 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
16550853 CCGCTTTGGT
16550863 TAATGAG
1 TAATGAG
16550870 TAATGAG
1 TAATGAG
*
16550877 TGATGAG
1 TAATGAG
*
16550884 TGATGAG
1 TAATGAG
*
16550891 TGATGAG
1 TAATGAG
16550898 TAATGA
1 TAATGA
16550904 TTGACTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.37, C:0.00, G:0.34, T:0.29
Consensus pattern (7 bp):
TAATGAG
Found at i:16550884 original size:14 final size:14
Alignment explanation
Indices: 16550865--16550903 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
16550855 GCTTTGGTTA
16550865 ATGAGTAATGAGTG
1 ATGAGTAATGAGTG
*
16550879 ATGAGTGATGAGTG
1 ATGAGTAATGAGTG
16550893 ATGAGTAATGA
1 ATGAGTAATGA
16550904 TTGACTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.28
Consensus pattern (14 bp):
ATGAGTAATGAGTG
Found at i:16551089 original size:15 final size:15
Alignment explanation
Indices: 16551051--16551090 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
16551041 TAATTGGCTA
16551051 ATTATATTAATC-AT
1 ATTATATTAATCAAT
16551065 -TTA-A-TAATCAAT
1 ATTATATTAATCAAT
16551077 ATTATATTAATCAA
1 ATTATATTAATCAA
16551091 ATTTTTTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
11 5 0.23
12 3 0.14
13 6 0.27
14 1 0.05
15 7 0.32
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATATTAATCAAT
Found at i:16559148 original size:17 final size:15
Alignment explanation
Indices: 16559111--16559155 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 15
16559101 ATGAGAGTGA
16559111 AATTTTAAAAATAAT
1 AATTTTAAAAATAAT
* *
16559126 ATTTTTAAGATAATAGT
1 AATTTTAA-A-AATAAT
16559143 AATTTTAAAAATA
1 AATTTTAAAAATA
16559156 GAGATGACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 11 0.44
16 2 0.08
17 12 0.48
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (15 bp):
AATTTTAAAAATAAT
Found at i:16563756 original size:21 final size:21
Alignment explanation
Indices: 16563730--16563771 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
16563720 CAACGTGGCA
16563730 AGTTAACTGGCCACATCAGCT
1 AGTTAACTGGCCACATCAGCT
*
16563751 AGTTAACTTGCCACATCAGCT
1 AGTTAACTGGCCACATCAGCT
16563772 GTTTTGTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:16563870 original size:30 final size:31
Alignment explanation
Indices: 16563805--16563873 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
16563795 ACTGTTAGTC
* *
16563805 AGTGACTGTTTTGTCACTTTTTTATAACGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
*
16563836 AGTGACTGTTTTGTTA-TTTTTCA-AAAGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
16563865 GAGTGACTG
1 -AGTGACTG
16563874 AAATGAAACC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 5 0.15
30 14 0.41
31 15 0.44
ACGTcount: A:0.22, C:0.10, G:0.20, T:0.48
Consensus pattern (31 bp):
AGTGACTGTTTTGTCACTTTTTCATAAAGTT
Found at i:16565938 original size:21 final size:21
Alignment explanation
Indices: 16565912--16565955 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
16565902 TTCATCATTC
* *
16565912 TTTTATTTTCTTTTATATTAT
1 TTTTATCTTCTATTATATTAT
*
16565933 TTTTATCTTCTATTATTTTAT
1 TTTTATCTTCTATTATATTAT
16565954 TT
1 TT
16565956 CATGAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTATCTTCTATTATATTAT
Found at i:16572449 original size:8 final size:8
Alignment explanation
Indices: 16572407--16572431 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
16572397 ATATAGACTA
16572407 AATAAAAT
1 AATAAAAT
16572415 AATAAAAT
1 AATAAAAT
16572423 AATAAAAT
1 AATAAAAT
16572431 A
1 A
16572432 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:16572455 original size:29 final size:31
Alignment explanation
Indices: 16572404--16572476 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 31
16572394 TATATATAGA
*
16572404 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
16572433 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
16572464 CTAATT-AAATAAT
1 CTAATTAAAATAAT
16572477 TATAAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 6 0.17
29 14 0.39
30 6 0.17
31 10 0.28
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:16572481 original size:29 final size:30
Alignment explanation
Indices: 16572411--16572482 Score: 71
Period size: 31 Copynumber: 2.4 Consensus size: 30
16572401 AGACTAAATA
*
16572411 AAATAA-TA-AAATAATAAAATATCTTATT
1 AAATAATTATAAATAATAAAATATCTAATT
*
16572439 AAA-ATATTAAATAAATAAT-AATTATCTAATT
1 AAATA-ATT--ATAAATAATAAAATATCTAATT
16572470 AAATAATTATAAA
1 AAATAATTATAAA
16572483 ATATCACCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
27 1 0.03
28 4 0.11
29 6 0.17
31 17 0.47
32 8 0.22
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (30 bp):
AAATAATTATAAATAATAAAATATCTAATT
Found at i:16580326 original size:32 final size:32
Alignment explanation
Indices: 16580265--16580355 Score: 87
Period size: 32 Copynumber: 2.8 Consensus size: 32
16580255 ACTAAGTGTG
**
16580265 TATATATGTGTAGTTGGATAAAGTTGAATGTC
1 TATATATGTGTAGTTGGATAAAGCCGAATGTC
*
16580297 TATATATGTGT-GATTGGATATAA-CCGAATGTG
1 TATATATGTGTAG-TTGGATA-AAGCCGAATGTC
* * * *
16580329 TATCTAGGTGTAGTTTGATATAGCCGA
1 TATATATGTGTAGTTGGATAAAGCCGA
16580356 TTGAGATGTA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
31 2 0.04
32 43 0.90
33 3 0.06
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (32 bp):
TATATATGTGTAGTTGGATAAAGCCGAATGTC
Found at i:16580523 original size:27 final size:26
Alignment explanation
Indices: 16580492--16580637 Score: 114
Period size: 27 Copynumber: 5.5 Consensus size: 26
16580482 TTTGAGGGAT
16580492 GCACTAAGTGTGCGAATTTGATACTGA
1 GCACTAAGTGTGCGAATTTGAT-CTGA
* * * * *
16580519 GCACTAATTGTGCGAGTTGGATTTAA
1 GCACTAAGTGTGCGAATTTGATCTGA
* *
16580545 GCACTATGTGTACGAATTTGATACTGA
1 GCACTAAGTGTGCGAATTTGAT-CTGA
* * * * *
16580572 GCACTAAGTTTGCGAGTTGGATTTAA
1 GCACTAAGTGTGCGAATTTGATCTGA
* * *
16580598 GCACTATGTGTGTGAATTAAT-TTCTGA
1 GCACTAAGTGTGCGAATT--TGATCTGA
16580625 GCACTAAGTGTGC
1 GCACTAAGTGTGC
16580638 AAAATCAGTT
Statistics
Matches: 87, Mismatches: 29, Indels: 6
0.71 0.24 0.05
Matches are distributed among these distances:
26 35 0.40
27 52 0.60
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (26 bp):
GCACTAAGTGTGCGAATTTGATCTGA
Found at i:16580603 original size:26 final size:26
Alignment explanation
Indices: 16580518--16580603 Score: 84
Period size: 26 Copynumber: 3.3 Consensus size: 26
16580508 TTTGATACTG
16580518 AGCACTAA-TTGTGCGAGTTGGATTTA
1 AGCACTAAGTT-TGCGAGTTGGATTTA
* * * * * * *
16580544 AGCACTATGTGTACGAATTTGATACTG
1 AGCACTAAGTTTGCGAGTTGGAT-TTA
16580571 AGCACTAAGTTTGCGAGTTGGATTTA
1 AGCACTAAGTTTGCGAGTTGGATTTA
16580597 AGCACTA
1 AGCACTA
16580604 TGTGTGTGAA
Statistics
Matches: 44, Mismatches: 14, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
26 24 0.55
27 20 0.45
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (26 bp):
AGCACTAAGTTTGCGAGTTGGATTTA
Found at i:16580615 original size:53 final size:54
Alignment explanation
Indices: 16580492--16580637 Score: 210
Period size: 53 Copynumber: 2.8 Consensus size: 54
16580482 TTTGAGGGAT
*
16580492 GCACTAAGTGTGCGAATTTGATACTGAGCACTAA-TTGTGCGAGTTGGATTTAA
1 GCACTATGTGTGCGAATTTGATACTGAGCACTAAGTTGTGCGAGTTGGATTTAA
*
16580545 GCACTATGTGTACGAATTTGATACTGAGCACTAAGTT-TGCGAGTTGGATTTAA
1 GCACTATGTGTGCGAATTTGATACTGAGCACTAAGTTGTGCGAGTTGGATTTAA
* * *
16580598 GCACTATGTGTGTGAA-TTAATTTCTGAGCACTAAG-TGTGC
1 GCACTATGTGTGCGAATTTGA-TACTGAGCACTAAGTTGTGC
16580638 AAAATCAGTT
Statistics
Matches: 84, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
52 4 0.05
53 78 0.93
54 2 0.02
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (54 bp):
GCACTATGTGTGCGAATTTGATACTGAGCACTAAGTTGTGCGAGTTGGATTTAA
Found at i:16584643 original size:8 final size:8
Alignment explanation
Indices: 16584630--16584839 Score: 74
Period size: 8 Copynumber: 26.5 Consensus size: 8
16584620 ACATTTTTCT
16584630 AGGGAGGG
1 AGGGAGGG
16584638 AGGGAGGG
1 AGGGAGGG
16584646 AGGGA--G
1 AGGGAGGG
16584652 AGGGAGAGG
1 AGGGAG-GG
*
16584661 -GAGAGGG
1 AGGGAGGG
16584668 AGAGG-GGG
1 AG-GGAGGG
16584676 A-GG-GGG
1 AGGGAGGG
16584682 AGGG-GAGG
1 AGGGAG-GG
16584690 -GGGAGGG
1 AGGGAGGG
*
16584697 -GGGGGGAG
1 AGGGAGG-G
*
16584705 AGGGAGAG
1 AGGGAGGG
*
16584713 AGAGAGGG
1 AGGGAGGG
16584721 AGGGA--G
1 AGGGAGGG
16584727 AGGGAGAGG
1 AGGGAG-GG
*
16584736 -GAGAGGG
1 AGGGAGGG
16584743 AGAGG-GGAG
1 AG-GGAGG-G
*
16584752 AGGGAGAG
1 AGGGAGGG
16584760 AGGGAGAGAG
1 AGGGAG-G-G
*
16584770 AGAGAGGG
1 AGGGAGGG
**
16584778 ATAGAGGG
1 AGGGAGGG
16584786 A--GAGGG
1 AGGGAGGG
16584792 AGAGAGAGGG
1 AG-G-GAGGG
*
16584802 AGAGAGGG
1 AGGGAGGG
16584810 AGAGG-GGG
1 AG-GGAGGG
*
16584818 AGTGAGAGAG
1 AG-G-GAGGG
*
16584828 AGGAAGGG
1 AGGGAGGG
16584836 AGGG
1 AGGG
16584840 GGAGAGAGAG
Statistics
Matches: 155, Mismatches: 21, Indels: 52
0.68 0.09 0.23
Matches are distributed among these distances:
6 24 0.15
7 17 0.11
8 81 0.52
9 16 0.10
10 17 0.11
ACGTcount: A:0.31, C:0.00, G:0.68, T:0.01
Consensus pattern (8 bp):
AGGGAGGG
Found at i:16584656 original size:6 final size:6
Alignment explanation
Indices: 16584645--16585027 Score: 237
Period size: 6 Copynumber: 62.5 Consensus size: 6
16584635 GGGAGGGAGG
* * *
16584645 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGG GAGGGG GAGGG- GAGGGG
1 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA
* * *
16584692 GAGGGG GGGGGA GAGGGA GAGAGA GA-GG- GAGGGA GAGGGA GAGGGA
1 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA
16584738 GAGGGA GAGGGGA GAGGGAGA GAGGGA GAGAGAGA GAGGGATA GAGGGA
1 GAGGGA GA-GGGA GA-GG-GA GAGGGA GAG-G-GA GAGGG--A GAGGGA
* *
16584787 GAGGGA GAGAGA G-GGAGA GAGGGA GAGGGG GAGTGAGA GAGAGGA -AGGGA
1 GAGGGA GAGGGA GAGG-GA GAGGGA GAGGGA GAG-G-GA GAG-GGA GAGGGA
* * * * * *
16584837 G-GGG- GAGAGA GAGAGA TAGAGA GAGAGA GAGGGA GAGTGAGA GAGAGA
1 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAG-G-GA GAGGGA
* * ** ** *
16584885 GAGAGA GAGAGA GAGGG- G-GGGA G-GGAGA GAGATA GAGACA GAGAGA
1 GAGGGA GAGGGA GAGGGA GAGGGA GAGG-GA GAGGGA GAGGGA GAGGGA
** * * *
16584931 GATAGA GAGGGA GAGGGA GAGAGA AAGGAAGA GAGGGA GAGAGAGA GAGGAA
1 GAGGGA GAGGGA GAGGGA GAGGGA GAGG--GA GAGGGA GAG-G-GA GAGGGA
* * * * * * *
16584983 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAG
1 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAG
16585028 AGAAACCTAT
Statistics
Matches: 321, Mismatches: 31, Indels: 50
0.80 0.08 0.12
Matches are distributed among these distances:
4 6 0.02
5 21 0.07
6 237 0.74
7 22 0.07
8 35 0.11
ACGTcount: A:0.38, C:0.00, G:0.60, T:0.02
Consensus pattern (6 bp):
GAGGGA
Found at i:16584713 original size:2 final size:2
Alignment explanation
Indices: 16584702--16585030 Score: 294
Period size: 2 Copynumber: 168.0 Consensus size: 2
16584692 GAGGGGGGGG
* * * * * *
16584702 GA GA GG GA GA GA GA GA GG GA GG GA GA GG GA GA GG GA GA GG GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * * *
16584744 GA G- GG GA GA GG GA GA GA GG GA GA GA GA GA GA GG GA TA GA GG
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * * *
16584785 GA GA GG GA GA GA GA GG GA GA GA GG GA GA GG GG GA GT GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * *
16584827 GA G- GA -A GG GA GG GG GA GA GA GA GA GA TA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * * *
16584867 GG GA GA GT GA GA GA GA GA GA GA GA GA GA GA GA GG GG GG GA GG
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * *
16584909 GA GA GA GA TA GA GA CA GA GA GA GA TA GA GA GG GA GA GG GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* *
16584951 GA GA AA G- GA -A GA GA GG GA GA GA GA GA GA G- GA -A GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
16584989 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
16585031 AACCTATAAT
Statistics
Matches: 259, Mismatches: 61, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
1 7 0.03
2 252 0.97
ACGTcount: A:0.41, C:0.00, G:0.57, T:0.02
Consensus pattern (2 bp):
GA
Found at i:16585646 original size:27 final size:27
Alignment explanation
Indices: 16585616--16585675 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
16585606 AATGTTTAAA
16585616 AAATAAATATA-ATGATTA-ATGATATTT
1 AAATAAATATATATG--TAGATGATATTT
*
16585643 AAATAAATATATTTGTAGATGATATTT
1 AAATAAATATATATGTAGATGATATTT
16585670 AAATAA
1 AAATAA
16585676 TTAAATACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 2 0.07
27 26 0.87
28 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (27 bp):
AAATAAATATATATGTAGATGATATTT
Found at i:16594036 original size:22 final size:22
Alignment explanation
Indices: 16594010--16594052 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
16594000 TAACGTGTGT
16594010 CACATATA-TCATAAGCTCAGAC
1 CACATA-ACTCATAAGCTCAGAC
16594032 CACATAACTCATAAGCTCAGA
1 CACATAACTCATAAGCTCAGA
16594053 TCGCTTAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.42, C:0.28, G:0.09, T:0.21
Consensus pattern (22 bp):
CACATAACTCATAAGCTCAGAC
Found at i:16594434 original size:26 final size:26
Alignment explanation
Indices: 16594405--16594486 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
16594395 TGGTACAAAT
*
16594405 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
16594431 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
16594457 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
16594483 TGAT
1 TGAT
16594487 GGGCATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:16595677 original size:8 final size:8
Alignment explanation
Indices: 16595664--16595693 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
16595654 AGATCGGCAC
16595664 AAGCCGAA
1 AAGCCGAA
16595672 AAGCCGAA
1 AAGCCGAA
*
16595680 ATGCCGAA
1 AAGCCGAA
16595688 AAGCCG
1 AAGCCG
16595694 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:16596161 original size:54 final size:54
Alignment explanation
Indices: 16596079--16596222 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
16596069 TGGAGGAAGC
*
16596079 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCATATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
16596133 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
16596187 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
16596223 ACTTCGTCAC
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 6 0.07
54 80 0.93
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:16596233 original size:27 final size:27
Alignment explanation
Indices: 16596082--16596239 Score: 182
Period size: 27 Copynumber: 5.9 Consensus size: 27
16596072 AGGAAGCGTC
*
16596082 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
* *
16596109 CTGGTGGCTCTGCCATATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
16596136 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
16596163 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
16596190 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
16596217 CTGGTGACT-TCGTCACAATATCT
1 CTGGTGGCTCT-GCCACAATATCT
16596240 AGCAGCCTCG
Statistics
Matches: 114, Mismatches: 9, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
26 10 0.09
27 102 0.89
28 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:16596234 original size:81 final size:80
Alignment explanation
Indices: 16596082--16596239 Score: 205
Period size: 81 Copynumber: 2.0 Consensus size: 80
16596072 AGGAAGCGTC
* *
16596082 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCATATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
16596147 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * *
16596163 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
*
16596226 -TCGTCACAATATCT
64 AT-GCCACAATATCT
16596240 AGCAGCCTCG
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
80 16 0.24
81 52 0.76
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGAT
Found at i:16607916 original size:51 final size:50
Alignment explanation
Indices: 16607830--16608181 Score: 449
Period size: 51 Copynumber: 6.9 Consensus size: 50
16607820 ACAGATACCC
* * * *
16607830 AGTGGCCTGCACATAGTACCACCCTTGTAGT-CAAAGCTACCTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTA-TTTATTCACAA
* * *
16607881 AGTGGCCTTCACATAGTACCACACTTCTAG-CCAAAGCTATCTTTCTTGACAA
1 AGTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTA--TTTATTCACAA
* * ** * *
16607933 AGTGGCCTTCACATGGTACCACACTTGTGACC-AAGCTAGCTCTTCTCAA
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTATTCACAA
16607982 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTA-TTTATTCACAA
16608033 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATT-TATTCACAA
* *
16608084 AGTGGCCTTTACATAGTACCACACTTGTGTCCAAAGCTATTATATTCAAAA
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATT-TATTCACAA
* *
16608135 AATGGCCTTCACATAGTACCATACTTGTGTCCAAAGCTATTTTATTC
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTA-TTTATTC
16608182 TTAAGGTTCA
Statistics
Matches: 272, Mismatches: 22, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
49 37 0.14
50 8 0.03
51 187 0.69
52 40 0.15
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (50 bp):
AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTATTCACAA
Found at i:16608121 original size:152 final size:153
Alignment explanation
Indices: 16607830--16608181 Score: 478
Period size: 152 Copynumber: 2.3 Consensus size: 153
16607820 ACAGATACCC
* * ** *
16607830 AGTGGCCTGCACATAGTACCACCCTTGTAGT-CAAAGCTACCTTCTTCACAAAGTGGCCTTCACA
1 AGTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAAGTGGCCTTCACA
* * * *
16607894 TAGTACCACACTTCTAGCCAAAGCTATCTTTCTTGACAAAGTGGCCTTCACATGGTACCACACTT
65 TAGTACCACACTTCTAGCCAAAGCTATCTATATTCACAAAGTGGCCTTCACATAGTACCACACTT
* * **
16607959 GTGACCAAGCTA-GCTCTTCTCAA
130 GTGACCAAGCTATGATATTCAAAA
16607982 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAGTGGCCTTCACAT
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAGTGGCCTTCACAT
* *
16608047 AGTACCACACTTGT-GTCCAAAGCTAT-TATATTCACAAAGTGGCCTTTACATAGTACCACACTT
66 AGTACCACACTTCTAG-CCAAAGCTATCTATATTCACAAAGTGGCCTTCACATAGTACCACACTT
* *
16608110 GTGTCCAAAGCTATTATATTCAAAA
130 GTGACC-AAGCTATGATATTCAAAA
* *
16608135 AATGGCCTTCACATAGTACCATACTTGTGTCCAAAGCTATTTTATTC
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
16608182 TTAAGGTTCA
Statistics
Matches: 177, Mismatches: 19, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
151 40 0.23
152 86 0.49
153 51 0.29
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (153 bp):
AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAGTGGCCTTCACAT
AGTACCACACTTCTAGCCAAAGCTATCTATATTCACAAAGTGGCCTTCACATAGTACCACACTTG
TGACCAAGCTATGATATTCAAAA
Found at i:16608237 original size:28 final size:28
Alignment explanation
Indices: 16608205--16608299 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
16608195 GGGAAATTTC
16608205 TCACTTAGCACAATGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
* *
16608233 TCACTTAGCACATTCCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
*
16608261 TCACTTAG----ATGCCATGGTCTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
*
16608285 TCACTTAGTACAATG
1 TCACTTAGCACAATG
16608300 TCATATCCTA
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
24 21 0.36
28 37 0.64
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (28 bp):
TCACTTAGCACAATGCCATGGACTTATT
Found at i:16609619 original size:20 final size:22
Alignment explanation
Indices: 16609596--16609650 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
16609586 CTAATACTTG
16609596 CAAACATAT-ACCAA-CCAATT
1 CAAACATATAACCAAGCCAATT
*
16609616 CAAACATTATAACTAAGCCAATT
1 CAAACA-TATAACCAAGCCAATT
* *
16609639 CTAACATCTAAC
1 CAAACATATAAC
16609651 ATGATATATC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 6 0.21
21 3 0.10
22 9 0.31
23 11 0.38
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.24
Consensus pattern (22 bp):
CAAACATATAACCAAGCCAATT
Found at i:16618348 original size:57 final size:58
Alignment explanation
Indices: 16618259--16618376 Score: 229
Period size: 57 Copynumber: 2.1 Consensus size: 58
16618249 ATCAAAGCAT
16618259 ATTAAAGTCACATTCTAAACATTACCAAATTCCCAACCATGAACATACCAAAATGACC
1 ATTAAAGTCACATTCTAAACATTACCAAATTCCCAACCATGAACATACCAAAATGACC
16618317 ATTAAA-TCACATTCTAAACATTACCAAATTCCCAACCATGAACATACCAAAATGACC
1 ATTAAAGTCACATTCTAAACATTACCAAATTCCCAACCATGAACATACCAAAATGACC
16618374 ATT
1 ATT
16618377 TCACTTGGTC
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 54 0.90
58 6 0.10
ACGTcount: A:0.45, C:0.27, G:0.04, T:0.24
Consensus pattern (58 bp):
ATTAAAGTCACATTCTAAACATTACCAAATTCCCAACCATGAACATACCAAAATGACC
Found at i:16619567 original size:44 final size:43
Alignment explanation
Indices: 16619457--16619571 Score: 142
Period size: 44 Copynumber: 2.7 Consensus size: 43
16619447 AGCTCGTACA
16619457 ATGCCAACGTCCTAAACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCTAAACGTGGTCTTACATGTAATCAAATATCG
* * ** * *
16619500 ATGCCAATGTCCTAGACAAGGTCTTAGATGTAAATCACCA-ATCG
1 ATGCCAACGTCCTAAACGTGGTCTTACATGT-AATCA-AATATCG
*
16619544 ATGCCAACGTCCCAAACGTGGTCTTACA
1 ATGCCAACGTCCTAAACGTGGTCTTACA
16619572 CGATAATACA
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
43 26 0.45
44 31 0.53
45 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCTAAACGTGGTCTTACATGTAATCAAATATCG
Found at i:16621478 original size:79 final size:80
Alignment explanation
Indices: 16621322--16621546 Score: 246
Period size: 79 Copynumber: 2.8 Consensus size: 80
16621312 TTGAATGATG
* * * * * *
16621322 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCAGACTAAGAT-CCGAAGGCA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATAACCGGGCTAAG-TCCCGAAGGCA
16621384 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGATACTAAA
*
16621402 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-ACCGGGCTAAGTCCCGAAGGCAT
*
16621464 TTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAA
** * * *
16621481 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCAAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
16621546 G
66 G
16621547 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
78 1 0.01
79 69 0.55
80 44 0.35
81 10 0.08
82 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:16621541 original size:119 final size:120
Alignment explanation
Indices: 16621322--16621546 Score: 280
Period size: 119 Copynumber: 1.9 Consensus size: 120
16621312 TTGAATGATG
*
16621322 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCAGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCAGACTAAGATCCGAAGGCATTT
*
16621387 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
66 GTGCGAGATACTAAATCCGGACTAAGATCCAAAGGCATTTGTGCGAGATACTAAT
* * * * **
16621442 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCAGACTAAGAT-CCGAAGGCAT
* * *
16621504 TTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCAAAGGCATTTG
64 TTGTGCGAGATACTA-AATCCGGACTAAGAT-CCAAAGGCATTTG
16621547 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
118 2 0.02
119 68 0.76
120 20 0.22
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCAGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGATCCAAAGGCATTTGTGCGAGATACTAAT
Found at i:16621553 original size:40 final size:40
Alignment explanation
Indices: 16621322--16621546 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
16621312 TTGAATGATG
* * * *
16621322 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
16621362 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
16621402 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
16621442 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
16621481 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
16621522 -CCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
16621547 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
39 35 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:16621568 original size:79 final size:79
Alignment explanation
Indices: 16621378--16621579 Score: 214
Period size: 79 Copynumber: 2.6 Consensus size: 79
16621368 CTAAGATCCG
** * **
16621378 AAGGCATTTGTGCGAGATACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 AAGGCATTTGAACGAGTTACTAAATCCGGGTTAA-ATCCCGAAGGCATTTGTGCGAGATACTAAT
* *
16621442 TCCGGGCTAAGCCCG
65 ACCGGGCTAAGCCCA
** * *
16621457 AAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATA
1 AAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTAAT-
*
16621521 ACCGGGCTATGTCCCA
65 ACCGGGCTAAG-CCCA
* *
16621537 AAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 AAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
16621580 TACGTGATTT
Statistics
Matches: 106, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
78 3 0.03
79 79 0.75
80 24 0.23
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (79 bp):
AAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTAATA
CCGGGCTAAGCCCA
Found at i:16629492 original size:119 final size:120
Alignment explanation
Indices: 16629275--16629499 Score: 282
Period size: 119 Copynumber: 1.9 Consensus size: 120
16629265 TTGAATGATG
*
16629275 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
16629340 GTGCGAGATACTAAATCCGGACTAAGATTCGAAGGCATTTGTGCGAGATATTAAT
66 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATATTAAT
* * * *
16629395 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCAGG-TTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCC-GGACTAAGAT-CCGAAGGCA
* * *
16629456 TTTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
63 TTTGTGCGAGATACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
16629500 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
118 2 0.02
119 67 0.74
120 22 0.24
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATATTAAT
Found at i:16629506 original size:40 final size:40
Alignment explanation
Indices: 16629275--16629499 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
16629265 TTGAATGATG
* * * *
16629275 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
16629315 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * * *
16629355 TCCGGACTAAGAT-TCGAAGGCATTTGTGCGAGATATTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
16629395 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
16629434 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
16629475 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
16629500 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 32 0.20
40 119 0.74
41 10 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:16629521 original size:79 final size:79
Alignment explanation
Indices: 16629282--16629522 Score: 244
Period size: 79 Copynumber: 3.0 Consensus size: 79
16629272 ATGTCCGGGC
* * * * *
16629282 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATTTGTGCG
*
16629345 AGATACTAAATCCGGAC
64 AGATACTAAATCCGG-T
* *
16629362 TAAGAT-TCGAAGGCATTTGTGCGAGATA-T-TAATTCCGGGCTAAG-CCCGAAGGCATTTGTGC
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA--CCGGGCTAAGTCCCGAAGGCATTTGTGC
*
16629423 GAGTTACTAAATCCAGGT
63 GAGATACTAAATCC-GGT
* **
16629441 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
16629506 -TAGCTATATCCGGT
66 ATA-CTAAATCCGGT
16629520 TAA
1 TAA
16629523 ATTCTGAAGG
Statistics
Matches: 135, Mismatches: 15, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
78 3 0.02
79 70 0.52
80 51 0.38
81 11 0.08
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
ATACTAAATCCGGT
Found at i:16634575 original size:15 final size:14
Alignment explanation
Indices: 16634549--16634635 Score: 79
Period size: 15 Copynumber: 6.0 Consensus size: 14
16634539 TATTCTAATA
*
16634549 CTATTATTATTTAT
1 CTATTTTTATTTAT
16634563 CTAATTTTTATTTAT
1 CT-ATTTTTATTTAT
*
16634578 CTATTTATATTTAT
1 CTATTTTTATTTAT
*
16634592 ACTATTATTATATT-T
1 -CTATTTTTAT-TTAT
16634607 CTATTTATTATATT-T
1 CTATTT-TTAT-TTAT
*
16634622 CTATTTCTATTTAT
1 CTATTTTTATTTAT
16634636 TTACTAATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
13 2 0.03
14 22 0.35
15 36 0.58
16 2 0.03
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (14 bp):
CTATTTTTATTTAT
Found at i:16634581 original size:29 final size:28
Alignment explanation
Indices: 16634549--16634635 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 28
16634539 TATTCTAATA
16634549 CTATTATTATTTATCTAATTTTTATTTAT
1 CTATTATTATTTATCT-ATTTTTATTTAT
*
16634578 CTATT-TATATTTATACTATTATTATATT-T
1 CTATTAT-TATTTAT-CTATTTTTAT-TTAT
*
16634607 CTATTTATTATATT-TCTATTTCTATTTAT
1 CTA-TTATTAT-TTATCTATTTTTATTTAT
16634636 TTACTAATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
28 3 0.06
29 32 0.67
30 10 0.21
31 3 0.06
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (28 bp):
CTATTATTATTTATCTATTTTTATTTAT
Found at i:16634594 original size:44 final size:43
Alignment explanation
Indices: 16634546--16634666 Score: 133
Period size: 44 Copynumber: 2.8 Consensus size: 43
16634536 TGTTATTCTA
16634546 ATACTATTATTATTTATCTAATTT-TTAT-TTATCTATTTATATTT
1 ATACTATTATTATTT-TCT-ATTTATTATATT-TCTATTTATATTT
*
16634590 ATACTATTATTATATTTCTATTTATTATATTTCTATTTCTATTT
1 ATACTATTATTAT-TTTCTATTTATTATATTTCTATTTATATTT
* *
16634634 ATTTACTAATATTATTTTC-A-TTATTATTTTTCT
1 A--TACTATTATTATTTTCTATTTATTATATTTCT
16634667 TATATATGTT
Statistics
Matches: 69, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
43 16 0.23
44 34 0.49
45 8 0.12
46 11 0.16
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (43 bp):
ATACTATTATTATTTTCTATTTATTATATTTCTATTTATATTT
Found at i:16634661 original size:29 final size:31
Alignment explanation
Indices: 16634569--16634662 Score: 81
Period size: 31 Copynumber: 3.1 Consensus size: 31
16634559 TTATCTAATT
* * * *
16634569 TTTATTTATCTAT-TTATATTTATACTATTA
1 TTTATTTCTATATATTATATTTCTATTATTA
*
16634599 TTATATTTCTATTTATTATATTTCTATT-TCTA
1 TT-TATTTCTATATATTATATTTCTATTAT-TA
16634631 TTTATTTACTA-ATATTAT-TTTC-ATTATTA
1 TTTATTT-CTATATATTATATTTCTATTATTA
16634660 TTT
1 TTT
16634663 TTCTTATATA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
29 8 0.15
30 7 0.13
31 20 0.38
32 18 0.34
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (31 bp):
TTTATTTCTATATATTATATTTCTATTATTA
Found at i:16634774 original size:3 final size:3
Alignment explanation
Indices: 16634766--16634934 Score: 127
Period size: 3 Copynumber: 56.7 Consensus size: 3
16634756 TTTAAAACTT
16634766 TTA TTA TTA TTA TTA TTA TTA TTA -TA TT- TCTA TGTA TTA -TA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA TTA TTA -TTA
** * *
16634811 TGTA TTA GCA TCA TTA TT- TT- TTA TTC TT- TTA -TA TTA TTA TTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
16634853 TTA TTA TTA TTA TTA TCA TTC TTA TTA CTA TTA GTA CTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* * *
16634899 TTA TTA TTA TTA TTA TTTA TAA TAA TAA TTA TTA TT
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TT
16634935 TTTTAAAACC
Statistics
Matches: 138, Mismatches: 17, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
2 13 0.09
3 110 0.80
4 15 0.11
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:16635094 original size:4 final size:4
Alignment explanation
Indices: 16635080--16635109 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
16635070 TATTATTCCG
*
16635080 TTAT ATAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
16635110 TTAATACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:16635285 original size:3 final size:3
Alignment explanation
Indices: 16635249--16635297 Score: 55
Period size: 3 Copynumber: 16.0 Consensus size: 3
16635239 TAAGCTTTAG
* *
16635249 ATT ACTT ATT ATT -TAT ATT AAT ATT ATC ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
16635295 ATT
1 ATT
16635298 TAGACTATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 1 0.03
3 34 0.87
4 4 0.10
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:16641457 original size:44 final size:44
Alignment explanation
Indices: 16641409--16641595 Score: 162
Period size: 44 Copynumber: 4.2 Consensus size: 44
16641399 ATGATTGCAG
* *
16641409 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGA
* * * * * ** *
16641453 ATCTTATCTCCATGTAGCAGCAATGGAGCAGATTTAAG-CCACTA
1 ATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATTGAAGACGGCGA
** * * ** **
16641497 GCCTTATCTCCCTAAGCAGTAGTGGAACGGGCTGAAGATTGC-A
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGA
* *
16641540 GATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGA
16641585 ATCTTATCTCC
1 ATCTTATCTCC
16641596 ATATAGTAAC
Statistics
Matches: 105, Mismatches: 34, Indels: 8
0.71 0.23 0.05
Matches are distributed among these distances:
43 17 0.16
44 68 0.65
45 20 0.19
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGA
Found at i:16641617 original size:132 final size:132
Alignment explanation
Indices: 16641361--16642037 Score: 1009
Period size: 132 Copynumber: 5.1 Consensus size: 132
16641351 ACAAATTTCG
* *
16641361 ACTAGCCTTATCTCCCTAAGCAGTAGTGGAACGGGCGGATGATTGCAGATCTTATCTCCCTAAGC
1 ACTAGCCTTATCTCCCTAAGCAGTAGTGGAACGGGCTGAAGATTGCAGATCTTATCTCCCTAAGC
* *
16641426 AGTAGTGGAGTAGATTGAAGATGGCGAATCTTATCTCCATGTAGC-AGCAATGGAGCAGATTTAA
66 AGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTAGCGA-CAATGGAGCAGATTTAA
16641490 GCC
130 GCC
16641493 ACTAGCCTTATCTCCCTAAGCAGTAGTGGAACGGGCTGAAGATTGCAGATCTTATCTCCCTAAGC
1 ACTAGCCTTATCTCCCTAAGCAGTAGTGGAACGGGCTGAAGATTGCAGATCTTATCTCCCTAAGC
* * * ** * *
16641558 AGTAGTGGAGCAAATCGAAGACGGCGAATCTTATCTCCATATAGTAACAATTGAACAGATTTAAG
66 AGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTAGCGACAATGGAGCAGATTTAAG
16641623 CC
131 CC
* * * ** *
16641625 ACTAGCCTTATCTCCCTAAGCAATAGTGGAATGGGCTGAAGATTGCAGATTTTATCTCTTTACGC
1 ACTAGCCTTATCTCCCTAAGCAGTAGTGGAACGGGCTGAAGATTGCAGATCTTATCTCCCTAAGC
* * * * *
16641690 AATAGTGGAGCAAATCGAATATGGCGAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAT
66 AGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTAGCGACAATGGAGCAGATTTAAG
16641755 CC
131 CC
* * *
16641757 ACTAGCCTTATCTCCCTAAGCAGTAGTGGAACGGGCTAAAAATTGCAGATCTTATCTCCATAAGC
1 ACTAGCCTTATCTCCCTAAGCAGTAGTGGAACGGGCTGAAGATTGCAGATCTTATCTCCCTAAGC
* *
16641822 AGTAGTGGA-CTAGATCAAAGATGGTGAATCTTATCTCCATGTAGCGACAATGGAGCAGATTTAA
66 AGTAGTGGAGC-AGATCGAAGATGGCGAATCTTATCTCCATGTAGCGACAATGGAGCAGATTTAA
16641886 GCC
130 GCC
* * * *
16641889 ACTAGCCTTATCTCCTTAAGCAGTAGTGGAACGGGCTAAAAATTGCAGATCTTATCTCCCTAAGT
1 ACTAGCCTTATCTCCCTAAGCAGTAGTGGAACGGGCTGAAGATTGCAGATCTTATCTCCCTAAGC
*
16641954 AGTAGTGGAGTAGATCGAAGATGGCGAATCTTATCTCCATGTAGCGGA-AATGGAGCAGATTTAA
66 AGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTAGC-GACAATGGAGCAGATTTAA
16642018 GCC
130 GCC
*
16642021 ACCAGCCTTATCTCCCT
1 ACTAGCCTTATCTCCCT
16642038 GAAGTTGCAG
Statistics
Matches: 492, Mismatches: 49, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
131 1 0.00
132 488 0.99
133 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (132 bp):
ACTAGCCTTATCTCCCTAAGCAGTAGTGGAACGGGCTGAAGATTGCAGATCTTATCTCCCTAAGC
AGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTAGCGACAATGGAGCAGATTTAAG
CC
Found at i:16642075 original size:44 final size:44
Alignment explanation
Indices: 16641938--16642313 Score: 194
Period size: 44 Copynumber: 8.5 Consensus size: 44
16641928 AAATTGCAGA
* * * * *
16641938 TCTTATCTCCCT-AAGTAGTAGTGGAGTAGATCGAAGATGGCGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-AC-AAG
* * ** * * * ** *
16641982 TCTTATCTCCATGTAGCGGAAATGGAGCAGATTTAAGCCACCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAG
* * * *
16642026 CCTTATCTCCCTGAAGTTGCAGTGGAACAGGTTCAAGATACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAG
* * * * *
16642070 TCTTATCTCCCTGAAGTTGTAGTGGAGCTGACTGAAAAGTGCATA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TACA-AG
* ** * * * *
16642115 TCTTATCTCTCT-AAGCAGTAGTGGAGTAGATTGAAGACGAGGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TA-CAAG
* * * * * *
16642159 TATTATCTCCAT-ATAG-TGACAATGGAGCAAATTTAAG-TCACCAG
1 TCTTATCTCCCTGA-AGTTG-CAGTGGAGCAGATTGAAGAT-ACAAG
* * *
16642203 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTCAAGATACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAG
* * * *
16642247 TCTTATCTTCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGC-AG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAG
16642291 ATCTTATCTCCCTGAAGTTGCAG
1 -TCTTATCTCCCTGAAGTTGCAG
16642314 CAGAGTAGAT
Statistics
Matches: 242, Mismatches: 76, Indels: 27
0.70 0.22 0.08
Matches are distributed among these distances:
43 2 0.01
44 169 0.70
45 70 0.29
46 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAG
Found at i:16642143 original size:177 final size:176
Alignment explanation
Indices: 16641927--16642303 Score: 560
Period size: 177 Copynumber: 2.1 Consensus size: 176
16641917 GAACGGGCTA
* * *
16641927 AAAATTGCAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGATCGAAGATG-GCGAATCTTATCTC
1 AAAA-TGCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGAG-GAATATTATCTC
* *
16641991 CATGTAGCGGA-AATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTGGAACA
64 CATATAG-GGACAATGGAGCAAATTTAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTGGAACA
* *
16642055 GGTTCAAGATACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCTGACTG
128 GGTTCAAGATACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTG
* * *
16642104 AAAAGTGCATATCTTATCTCTCTAAGCAGTAGTGGAGTAGATTGAAGACGAGGAATATTATCTCC
1 AAAA-TGCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGAGGAATATTATCTCC
* * *
16642169 ATATAGTGACAATGGAGCAAATTTAAGTCACCAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGG
65 ATATAGGGACAATGGAGCAAATTTAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTGGAACAGG
*
16642234 TTCAAGATACAAGTCTTATCTTCCTAAAGTTGTAGTGGAGCAGACTG
130 TTCAAGATACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTG
*
16642281 AAGATAGCAGATCTTATCTCCCT
1 AAAAT-GCAGATCTTATCTCCCT
16642304 GAAGTTGCAG
Statistics
Matches: 179, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
176 3 0.02
177 175 0.98
178 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (176 bp):
AAAATGCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGAGGAATATTATCTCCA
TATAGGGACAATGGAGCAAATTTAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTGGAACAGGT
TCAAGATACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTG
Found at i:16643320 original size:15 final size:15
Alignment explanation
Indices: 16643302--16643330 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
16643292 ATTTATCTAT
16643302 TTATATTTCTATTTA
1 TTATATTTCTATTTA
16643317 TTATATTTCTATTT
1 TTATATTTCTATTT
16643331 CTATTAACAT
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:0.07, G:0.00, T:0.69
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:16643329 original size:21 final size:20
Alignment explanation
Indices: 16643291--16643335 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
16643281 ACACTATTAT
*
16643291 TATTTATCTATTTATATTTC
1 TATTTATATATTTATATTTC
*
16643311 TATTTATTATATTTCTATTTC
1 TATTTA-TATATTTATATTTC
16643332 TATT
1 TATT
16643336 AACATTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (20 bp):
TATTTATATATTTATATTTC
Found at i:16643342 original size:27 final size:28
Alignment explanation
Indices: 16643273--16643359 Score: 69
Period size: 27 Copynumber: 3.2 Consensus size: 28
16643263 ATTTATTTTG
*
16643273 TTATTTTAACACTATTATTAT-TTATCTAT
1 TTATATTAACACT-TTATTATATT-TCTAT
*
16643302 TTATATT-TCTA-TTTATTATATTTCTAT
1 TTATATTAAC-ACTTTATTATATTTCTAT
* *
16643329 TTCTATTAACATTTTATT-TA-TT-TAT
1 TTATATTAACACTTTATTATATTTCTAT
16643354 TTATAT
1 TTATAT
16643360 CGTGTTGTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
25 8 0.16
26 2 0.04
27 21 0.43
28 11 0.22
29 7 0.14
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (28 bp):
TTATATTAACACTTTATTATATTTCTAT
Found at i:16643416 original size:3 final size:3
Alignment explanation
Indices: 16643408--16643577 Score: 165
Period size: 3 Copynumber: 56.7 Consensus size: 3
16643398 TTTAAAACTT
16643408 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TT- TCTA TGTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA TTA TTA
* * *
16643452 TTTA TATA TTA GTA TCA TTA CTT- TT- TTA TTC TT- TTA -TA TTA TTA
1 -TTA T-TA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
16643496 TCA TTA TTA TTA CTA TTA TTA CTA TTA TTA TTTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
*
16643542 CTA TTA TTA TTA TTA CTTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TT
16643578 TAAAAGCATT
Statistics
Matches: 141, Mismatches: 14, Indels: 24
0.79 0.08 0.13
Matches are distributed among these distances:
2 13 0.09
3 111 0.79
4 17 0.12
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:16643922 original size:3 final size:3
Alignment explanation
Indices: 16643882--16643939 Score: 55
Period size: 3 Copynumber: 19.0 Consensus size: 3
16643872 TAAGCTTTAG
* * * *
16643882 ATT ACTT ATT ATT -TAT ATT AAT ATT ATC ATC ATC ATT ATT ATT ATT
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
16643928 ATT ATT ATT ATT
1 ATT ATT ATT ATT
16643940 TAGACTATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 1 0.02
3 43 0.90
4 4 0.08
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:16644853 original size:23 final size:23
Alignment explanation
Indices: 16644823--16644874 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
16644813 ACACATGCCA
16644823 TTATACCAAAACGAGTTTACTAT
1 TTATACCAAAACGAGTTTACTAT
*
16644846 TTATACCAAAATGAGTTTACTAT
1 TTATACCAAAACGAGTTTACTAT
16644869 TTATAC
1 TTATAC
16644875 TAAGACGAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (23 bp):
TTATACCAAAACGAGTTTACTAT
Found at i:16647020 original size:57 final size:57
Alignment explanation
Indices: 16646912--16647051 Score: 151
Period size: 57 Copynumber: 2.5 Consensus size: 57
16646902 CTCATTACTG
* * * * * *
16646912 AAAGGATTTAGCCCAGACGGGTAATCCTGATATAAGTCCTCTTGAGCTATGTTATAG
1 AAAGGATTTAGCCCTGACGGGTAATCCAGATACAAGTCCTCTAGAGCTATGTCATAA
**
16646969 ATTGGATTTAGCCCTGACGGGTAATCCAGAT-CAAGCTCCT-TAGAGCATATGTCATAA
1 AAAGGATTTAGCCCTGACGGGTAATCCAGATACAAG-TCCTCTAGAGC-TATGTCATAA
*
16647026 AAAGGATTTAG-CCTGGACTGGTAATC
1 AAAGGATTTAGCCCT-GACGGGTAATC
16647052 ATGTTGTATA
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
56 11 0.16
57 58 0.84
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (57 bp):
AAAGGATTTAGCCCTGACGGGTAATCCAGATACAAGTCCTCTAGAGCTATGTCATAA
Found at i:16648541 original size:14 final size:14
Alignment explanation
Indices: 16648522--16648551 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16648512 CACGGCTTGA
16648522 CCATACGGGCGTGT
1 CCATACGGGCGTGT
*
16648536 CCATACGGGTGTGT
1 CCATACGGGCGTGT
16648550 CC
1 CC
16648552 CTAGACCACA
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:0.13, C:0.30, G:0.33, T:0.23
Consensus pattern (14 bp):
CCATACGGGCGTGT
Found at i:16652372 original size:23 final size:22
Alignment explanation
Indices: 16652342--16652384 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
16652332 AAAGCAACTA
*
16652342 AAATAAAATTAAAAAGAAAGGT
1 AAATAAAAATAAAAAGAAAGGT
*
16652364 AAATAAAAAATAAAATGAAAG
1 AAAT-AAAAATAAAAAGAAAG
16652385 AAAGAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (22 bp):
AAATAAAAATAAAAAGAAAGGT
Found at i:16652563 original size:15 final size:14
Alignment explanation
Indices: 16652543--16652588 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
16652533 AAAATTAGGA
16652543 AAATAAAAATAAAT
1 AAATAAAAATAAAT
16652557 AATATAAAAA-ATAAT
1 AA-ATAAAAATA-AAT
16652572 AAAT-AAAATAAAAT
1 AAATAAAAAT-AAAT
16652586 AAA
1 AAA
16652589 AGGGGTAGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 4 0.14
14 11 0.39
15 13 0.46
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:16652566 original size:16 final size:14
Alignment explanation
Indices: 16652543--16652588 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
16652533 AAAATTAGGA
16652543 AAAT-AAAAATAAAT
1 AAATAAAAAAT-AAT
16652557 AATATAAAAAATAAT
1 AA-ATAAAAAATAAT
16652572 AAATAAAATAA-AAT
1 AAATAAAA-AATAAT
16652586 AAA
1 AAA
16652589 AGGGGTAGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 14 0.48
15 9 0.31
16 6 0.21
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AAATAAAAAATAAT
Found at i:16652587 original size:24 final size:23
Alignment explanation
Indices: 16652519--16652589 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 23
16652509 TAAGAAGAAC
* *
16652519 AAATAAAAAATAAAA-AAATTAGGA
1 AAAT-AAAAATAAAATAAAATA-AA
*
16652543 AAATAAAAAT-AAATAATATAAA
1 AAATAAAAATAAAATAAAATAAA
16652565 AAATAATAAATAAAATAAAATAAA
1 AAATAA-AAATAAAATAAAATAAA
16652589 A
1 A
16652590 GGGGTAGCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 10 0.25
23 14 0.35
24 16 0.40
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (23 bp):
AAATAAAAATAAAATAAAATAAA
Found at i:16656991 original size:19 final size:19
Alignment explanation
Indices: 16656967--16657006 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
16656957 TCCTCTCCAC
16656967 AGGGATTGTATTTGTGCTA
1 AGGGATTGTATTTGTGCTA
16656986 AGGGATTGTATTTGTGCTA
1 AGGGATTGTATTTGTGCTA
16657005 AG
1 AG
16657007 TCACTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.05, G:0.33, T:0.40
Consensus pattern (19 bp):
AGGGATTGTATTTGTGCTA
Found at i:16659362 original size:39 final size:39
Alignment explanation
Indices: 16659308--16659564 Score: 419
Period size: 39 Copynumber: 6.5 Consensus size: 39
16659298 TAATGGAGAA
*
16659308 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
16659347 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
16659386 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
16659425 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
16659464 TTATATCCGGGTTAAG-CCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCC-GAAGGCATTCGTGCTGGTG
* * *
16659503 TTATATCCGGGCTAAAGTCCCGTAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
16659542 TTATATCCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
16659565 CATGCTTTGT
Statistics
Matches: 208, Mismatches: 6, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
38 3 0.01
39 184 0.88
40 18 0.09
41 3 0.01
ACGTcount: A:0.18, C:0.22, G:0.30, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:16671091 original size:86 final size:85
Alignment explanation
Indices: 16670966--16671122 Score: 203
Period size: 85 Copynumber: 1.8 Consensus size: 85
16670956 TGTGTTATCA
* * * *
16670966 TGTAAGACCACGTCTGGGATGTTGGCATCAATTTGTGATTTACGTGTAAGACCATGTTTGGGACA
1 TGTAAGACCACGTCAGGGATGTTGGCATCAATTTGTGA-TTACATGTAAGACCACGTCTGGGACA
16671031 TTGGCATCGTATATGATTTTG
65 TTGGCATCGTATATGATTTTG
*
16671052 TGTAAGACC-CTGTCAGGGATAG-TGGCATCGATATT-TGATTACATGTAAGACCACGTCTGGGA
1 TGTAAGACCAC-GTCAGGGAT-GTTGGCATCAAT-TTGTGATTACATGTAAGACCACGTCTGGGA
*
16671114 CGTTGGCAT
63 CATTGGCAT
16671123 TGTACGAGCT
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
85 30 0.48
86 29 0.47
87 3 0.05
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (85 bp):
TGTAAGACCACGTCAGGGATGTTGGCATCAATTTGTGATTACATGTAAGACCACGTCTGGGACAT
TGGCATCGTATATGATTTTG
Found at i:16671121 original size:43 final size:43
Alignment explanation
Indices: 16670951--16671122 Score: 147
Period size: 43 Copynumber: 4.0 Consensus size: 43
16670941 CATAGGATTC
* *
16670951 CGATATGTG-TTATCATGTAAGACCACGTCTGGGATGTTGGCAT
1 CGATATTTGATTA-CATGTAAGACCACGTCTGGGACGTTGGCAT
* * * * *
16670994 CAAT-TTGTGATTTACGTGTAAGACCATGTTTGGGACATTGGCAT
1 CGATATT-TGA-TTACATGTAAGACCACGTCTGGGACGTTGGCAT
* *** * *
16671038 CG-TATATGATTTTGTGTAAGACC-CTGTCAGGGATAG-TGGCAT
1 CGATATTTGATTACATGTAAGACCAC-GTCTGGGA-CGTTGGCAT
16671080 CGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
16671123 TGTACGAGCT
Statistics
Matches: 98, Mismatches: 22, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
42 28 0.29
43 39 0.40
44 28 0.29
45 3 0.03
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
CGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:16671779 original size:52 final size:52
Alignment explanation
Indices: 16671717--16671823 Score: 205
Period size: 52 Copynumber: 2.1 Consensus size: 52
16671707 AGAACATGGT
16671717 TTGGATGTTTTATTTGTTATGGTTATTCAGGTTTTGAAATGCATAAAAAAAA
1 TTGGATGTTTTATTTGTTATGGTTATTCAGGTTTTGAAATGCATAAAAAAAA
*
16671769 TTGGATGTTTTATTTGTTATGGTTATTCGGGTTTTGAAATGCATAAAAAAAA
1 TTGGATGTTTTATTTGTTATGGTTATTCAGGTTTTGAAATGCATAAAAAAAA
16671821 TTG
1 TTG
16671824 ATATACTTCT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.45
Consensus pattern (52 bp):
TTGGATGTTTTATTTGTTATGGTTATTCAGGTTTTGAAATGCATAAAAAAAA
Found at i:16674077 original size:46 final size:46
Alignment explanation
Indices: 16674010--16674182 Score: 213
Period size: 46 Copynumber: 3.7 Consensus size: 46
16674000 TTGGGCATCA
16674010 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCC
*** * * * *
16674056 GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-GCGTCC
* * * *
16674103 GAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCC
*
16674149 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16674183 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
46 69 0.66
47 36 0.34
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCC
Found at i:16674162 original size:93 final size:93
Alignment explanation
Indices: 16674003--16674174 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
16673993 GGGATATTTG
* *
16674003 GGCATCAGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCAGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
16674068 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
16674096 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCAGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
16674161 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
16674175 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCAGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:16679633 original size:21 final size:21
Alignment explanation
Indices: 16679609--16679648 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
16679599 AGTATTACGA
16679609 TTATT-AATATTATTTTTTACC
1 TTATTGAATATT-TTTTTTACC
*
16679630 TTATTGATTATTTTTTTTA
1 TTATTGAATATTTTTTTTA
16679649 TTTTTTGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (21 bp):
TTATTGAATATTTTTTTTACC
Found at i:16682829 original size:42 final size:42
Alignment explanation
Indices: 16682758--16682896 Score: 154
Period size: 44 Copynumber: 3.2 Consensus size: 42
16682748 TCTTACATGT
* * *
16682758 AATCAAATATCGATGCCACTGTCCTAGACAGGGTCTTACACAA
1 AATCAAATAT-GATGCCAATGTCCCAGACATGGTCTTACACAA
*
16682801 AATCAAATATGATGCCAATGTCCCAGACATGGTCTTACACGTA
1 AATCAAATATGATGCCAATGTCCCAGACATGGTCTTACAC-AA
* * * *
16682844 AATCTAAA-ATTGATGCCAACGTCCCAGATATGGTGTTACACGA
1 AATC-AAATA-TGATGCCAATGTCCCAGACATGGTCTTACACAA
*
16682887 AATCACATAT
1 AATCAAATAT
16682897 CGGAATCCTT
Statistics
Matches: 83, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
42 30 0.36
43 22 0.27
44 31 0.37
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (42 bp):
AATCAAATATGATGCCAATGTCCCAGACATGGTCTTACACAA
Found at i:16682869 original size:44 final size:43
Alignment explanation
Indices: 16682727--16682891 Score: 160
Period size: 43 Copynumber: 3.9 Consensus size: 43
16682717 AGCTCGTACA
* ** * *
16682727 ATGCCAACGTCTCAGATGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAA-ATTG
* * *
16682770 ATGCC-ACTGTCCTAGACAGGGTCTTACAC-AAAATC-AAATATG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAATCAAAAT-TG
*
16682812 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTAAAATTG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATC-AAAATTG
* *
16682856 ATGCCAACGTCCCAGATATGGTGTTACACG-AAATCA
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCA
16682892 CATATCGGAA
Statistics
Matches: 100, Mismatches: 15, Indels: 15
0.77 0.12 0.12
Matches are distributed among these distances:
41 2 0.02
42 30 0.30
43 35 0.35
44 29 0.29
45 4 0.04
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAAATTG
Found at i:16682890 original size:86 final size:85
Alignment explanation
Indices: 16682727--16682896 Score: 191
Period size: 86 Copynumber: 2.0 Consensus size: 85
16682717 AGCTCGTACA
* ** * *
16682727 ATGCCAACGTCTCAGATGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCTAGACAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAGGGT
16682792 CTTACACAAAATCAAATATG
66 CTTACACAAAATCAAATATG
* * * *
16682812 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTAAA-ATTGATGCCAAC-GTCCCAGATAT
1 ATGCCAACGTCCCAGACATGGTCTTACACGT-AATC-AAATATCGATGCC-ACTGTCCCAGACAG
* * *
16682875 GGTGTTACACGAAATCACATAT
63 GGTCTTACACAAAATCAAATAT
16682897 CGGAATCCTT
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
85 26 0.37
86 39 0.56
87 5 0.07
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (85 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAGGGT
CTTACACAAAATCAAATATG
Found at i:16711916 original size:34 final size:35
Alignment explanation
Indices: 16711862--16711933 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 35
16711852 CAGGTATGTG
16711862 ATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTGAGATTGATCTGACGAGA
16711897 ATATATATTA-TTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTGAGATTGATCTGACGAGA
16711931 ATA
1 ATA
16711934 AAGAATGTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 27 0.73
35 10 0.27
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (35 bp):
ATATATATTATTTATGTGAGATTGATCTGACGAGA
Found at i:16729243 original size:28 final size:28
Alignment explanation
Indices: 16729203--16729258 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
16729193 AGTTACATTC
16729203 CGGGCTAAGTCCCGAA-GCATTTGTGCGA
1 CGGGCTAAGTCCCGAAGGC-TTTGTGCGA
16729231 CGGGCTAAGTCCCGAAGGCTTTGTGCGA
1 CGGGCTAAGTCCCGAAGGCTTTGTGCGA
16729259 GTTACTTTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 25 0.93
29 2 0.07
ACGTcount: A:0.20, C:0.25, G:0.34, T:0.21
Consensus pattern (28 bp):
CGGGCTAAGTCCCGAAGGCTTTGTGCGA
Found at i:16729272 original size:65 final size:66
Alignment explanation
Indices: 16729167--16729362 Score: 228
Period size: 65 Copynumber: 3.0 Consensus size: 66
16729157 AGTGATATTC
16729167 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACATTCCGGGCTAAGTCCCGAA-GCATTTGTGCGA
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGA
16729231 CG
65 CG
*
16729233 GGCTAAGTCCCGAAGGC-TTTGTGCGAGTTACTTTCCGGGCTAAGCCCGAAGGCATTTGTGCAGT
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACATTCCGGGCTAAGCCCGAAGGCATTTGTGC-G-
16729297 TATATTCG
64 ---A--CG
* * *
16729305 GGCTAAGTCCCG-AGGCATCTGTGC-AG-TACATACCGGACTAAGCCCG-AGGC--TTGTGCGA
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACATTCCGGGCTAAGCCCGAAGGCATTTGTGCGA
16729363 GTGGTATATC
Statistics
Matches: 116, Mismatches: 5, Indels: 22
0.81 0.03 0.15
Matches are distributed among these distances:
62 1 0.01
64 6 0.05
65 36 0.31
66 19 0.16
67 6 0.05
69 4 0.03
70 18 0.16
71 6 0.05
72 20 0.17
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.24
Consensus pattern (66 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAC
G
Found at i:16729285 original size:36 final size:36
Alignment explanation
Indices: 16729231--16729354 Score: 134
Period size: 35 Copynumber: 3.5 Consensus size: 36
16729221 ATTTGTGCGA
16729231 CGGGCTAAGTCCCGAAGGC-TTTGTGCGAGTTACTTTC
1 CGGGCTAAGTCCCG-AGGCATTTGTGC-AGTTACTTTC
16729268 CGGGCTAAG-CCCGAAGGCATTTGTGCAGTTA-TATT-
1 CGGGCTAAGTCCCG-AGGCATTTGTGCAGTTACT-TTC
* * *
16729303 CGGGCTAAGTCCCGAGGCATCTGTGCAG-TACATAC
1 CGGGCTAAGTCCCGAGGCATTTGTGCAGTTACTTTC
*
16729338 CGGACTAAG-CCCGAGGC
1 CGGGCTAAGTCCCGAGGC
16729355 TTGTGCGAGT
Statistics
Matches: 78, Mismatches: 4, Indels: 13
0.82 0.04 0.14
Matches are distributed among these distances:
34 11 0.14
35 31 0.40
36 20 0.26
37 16 0.21
ACGTcount: A:0.21, C:0.26, G:0.30, T:0.23
Consensus pattern (36 bp):
CGGGCTAAGTCCCGAGGCATTTGTGCAGTTACTTTC
Found at i:16729329 original size:35 final size:37
Alignment explanation
Indices: 16729231--16729331 Score: 140
Period size: 35 Copynumber: 2.8 Consensus size: 37
16729221 ATTTGTGCGA
16729231 CGGGCTAAGTCCCGAAGGC-TTTGTGCGAGTTACTTTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-AGTTACTTTC
16729268 CGGGCTAAG-CCCGAAGGCATTTGTGCAGTTA-TATT-
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAGTTACT-TTC
*
16729303 CGGGCTAAGTCCCG-AGGCATCTGTGCAGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAGT
16729332 ACATACCGGA
Statistics
Matches: 60, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
35 24 0.40
36 20 0.33
37 16 0.27
ACGTcount: A:0.19, C:0.24, G:0.31, T:0.27
Consensus pattern (37 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCAGTTACTTTC
Found at i:16734771 original size:21 final size:21
Alignment explanation
Indices: 16734747--16734814 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
16734737 CTAGGAACTA
16734747 TGTGATCTGAAATCATTGAGT
1 TGTGATCTGAAATCATTGAGT
* * *
16734768 TGTGGTCT-AAGTTCA-TGATAT
1 TGTGATCTGAA-ATCATTGA-GT
* *
16734789 ATGTGATCTGAACTCATTAAGT
1 -TGTGATCTGAAATCATTGAGT
16734811 TGTG
1 TGTG
16734815 GTTTGACTTC
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
20 5 0.14
21 15 0.43
22 11 0.31
23 4 0.11
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (21 bp):
TGTGATCTGAAATCATTGAGT
Found at i:16734806 original size:43 final size:43
Alignment explanation
Indices: 16734745--16734882 Score: 195
Period size: 43 Copynumber: 3.2 Consensus size: 43
16734735 CACTAGGAAC
* *
16734745 TATGTGATCTGAAATCATTGAGTTGTGGTCTAAGTTCATGATA
1 TATGTGATCTGAACTCATTGAGTTGTGGTCTAACTTCATGATA
* * *
16734788 TATGTGATCTGAACTCATTAAGTTGTGGTTTGACTTCATGATA
1 TATGTGATCTGAACTCATTGAGTTGTGGTCTAACTTCATGATA
* *
16734831 TATGTGACATCTGAACTCATTGAGTTGTGGTCTAATTTCATGATG
1 TATGTG--ATCTGAACTCATTGAGTTGTGGTCTAACTTCATGATA
16734876 TATGTGA
1 TATGTGA
16734883 CACATGTTTT
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
43 45 0.54
45 38 0.46
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.41
Consensus pattern (43 bp):
TATGTGATCTGAACTCATTGAGTTGTGGTCTAACTTCATGATA
Found at i:16734858 original size:45 final size:45
Alignment explanation
Indices: 16734751--16734884 Score: 191
Period size: 45 Copynumber: 3.0 Consensus size: 45
16734741 GAACTATGTG
* *
16734751 ATCTGAAATCATTGAGTTGTGGTCTAAGTTCATGATATATGTG--
1 ATCTGAACTCATTGAGTTGTGGTCTAACTTCATGATATATGTGAC
* * *
16734794 ATCTGAACTCATTAAGTTGTGGTTTGACTTCATGATATATGTGAC
1 ATCTGAACTCATTGAGTTGTGGTCTAACTTCATGATATATGTGAC
* *
16734839 ATCTGAACTCATTGAGTTGTGGTCTAATTTCATGATGTATGTGAC
1 ATCTGAACTCATTGAGTTGTGGTCTAACTTCATGATATATGTGAC
16734884 A
1 A
16734885 CATGTTTTAG
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
43 38 0.48
45 41 0.52
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.40
Consensus pattern (45 bp):
ATCTGAACTCATTGAGTTGTGGTCTAACTTCATGATATATGTGAC
Found at i:16741751 original size:16 final size:17
Alignment explanation
Indices: 16741720--16741754 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
16741710 CGACGGTGGA
16741720 TTTTGTTTGATGTTTAT
1 TTTTGTTTGATGTTTAT
*
16741737 TTTTGTTTG-TTTTTAT
1 TTTTGTTTGATGTTTAT
16741753 TT
1 TT
16741755 CAAAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.09, C:0.00, G:0.14, T:0.77
Consensus pattern (17 bp):
TTTTGTTTGATGTTTAT
Found at i:16744435 original size:32 final size:32
Alignment explanation
Indices: 16744394--16744458 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
16744384 GGAGTTGTTG
16744394 GAGATCTCATCACACTAGCCAACTATAGTTTT
1 GAGATCTCATCACACTAGCCAACTATAGTTTT
*
16744426 GAGATCTCATCACACTATCCAACTATAGTTTT
1 GAGATCTCATCACACTAGCCAACTATAGTTTT
16744458 G
1 G
16744459 GTACTTATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (32 bp):
GAGATCTCATCACACTAGCCAACTATAGTTTT
Found at i:16753057 original size:41 final size:41
Alignment explanation
Indices: 16752974--16753057 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 41
16752964 ATAATGATAT
* *
16752974 TCGGGCTTTAAGCCTAGCAAGCCTTGTGCTGGTGAATTAAA
1 TCGGGCTTTAAGCCTAGCAAGCCTTGTGCCGGTGAATAAAA
* * * *
16753015 TCGGGCTTTATGCCTAGC-AGGCTTATTGCCGGTGTATAAAA
1 TCGGGCTTTAAGCCTAGCAAGCCTT-GTGCCGGTGAATAAAA
16753056 TC
1 TC
16753058 AAACCTTGAG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
40 5 0.14
41 31 0.86
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (41 bp):
TCGGGCTTTAAGCCTAGCAAGCCTTGTGCCGGTGAATAAAA
Found at i:16762900 original size:39 final size:40
Alignment explanation
Indices: 16762738--16762962 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
16762728 GCTCCTCGTT
* *
16762738 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
16762778 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
16762818 CAAATGCCTTCGGGAGTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * * *
16762858 CAAATGCCTTCGGG-CTTAGCTCGGAATTAGTATCTCGTA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * * *
16762897 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
16762938 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
16762963 CATCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 117 0.73
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:16762946 original size:119 final size:120
Alignment explanation
Indices: 16762738--16762962 Score: 269
Period size: 119 Copynumber: 1.9 Consensus size: 120
16762728 GCTCCTCGTT
*
16762738 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
16762803 ATTTAGTAACTCGCACAAATGCCTTCGGGAGTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * * **
16762858 CAAATGCCTTCGGG-CTTAGCTCGGA-ATTAGTATCTCGTACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * * *
16762920 GGATATGGTCACTTAGCCCAAA-GCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCGGA
16762963 CATCATTCAA
Statistics
Matches: 88, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
118 4 0.05
119 63 0.72
120 21 0.24
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:16765600 original size:43 final size:44
Alignment explanation
Indices: 16765551--16765710 Score: 184
Period size: 43 Copynumber: 3.7 Consensus size: 44
16765541 GTACAATGAC
* * *
16765551 ATATCCCAGATATGGTCTTACATGTTATCACATAT-CGATGCCA
1 ATATCCCAGACATGGTCTTACACGTAATCACATATACGATGCCA
* *
16765594 CTATCCCAGACAGGGTCTTACACG-AATCA-ATATACGATGCCA
1 ATATCCCAGACATGGTCTTACACGTAATCACATATACGATGCCA
* * * *
16765636 ATGTCCCAGGCATGGTCTTACACATAATCACA-ATACAATGCCA
1 ATATCCCAGACATGGTCTTACACGTAATCACATATACGATGCCA
* * *
16765679 ATGTCCCAGATATGGTCTTACATGTAATCACA
1 ATATCCCAGACATGGTCTTACACGTAATCACA
16765711 ACTCAATAAC
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
41 4 0.04
42 31 0.31
43 63 0.64
44 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.27
Consensus pattern (44 bp):
ATATCCCAGACATGGTCTTACACGTAATCACATATACGATGCCA
Found at i:16768084 original size:24 final size:24
Alignment explanation
Indices: 16768025--16768121 Score: 133
Period size: 24 Copynumber: 4.0 Consensus size: 24
16768015 GGAGGAAGTG
*
16768025 TAAAAGGGCTTATGCCCCTGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
16768049 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
16768074 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
16768098 TAAAAGAGGC-TAGGCCTCCAGTTA
1 TAAAAG-GGCTTATGCC-CCAGTTA
16768122 AATGATAAAG
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
24 34 0.52
25 32 0.48
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:16768119 original size:49 final size:49
Alignment explanation
Indices: 16768025--16768121 Score: 135
Period size: 49 Copynumber: 2.0 Consensus size: 49
16768015 GGAGGAAGTG
* *
16768025 TAAAAGGGCTTATGCCCCTGTTATGATAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTAGGCCCCAGTTAT
*
16768074 TAAAAGGGCTTATGCCCCAGTTATTA-AAAGAGGC-TAGGCCTCCAGTTA
1 TAAAAGGGCTTATGCCCCAGTTATGATAAAG-GGCTTAGGCC-CCAGTTA
16768122 AATGATAAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
48 9 0.21
49 34 0.79
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (49 bp):
TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTAGGCCCCAGTTAT
Found at i:16768351 original size:31 final size:31
Alignment explanation
Indices: 16768316--16768378 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
16768306 CGTTTACAGT
* *
16768316 AAAGGCTTCGGCCTAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATACGAAATATGA
**
16768347 AAAGGCTTCGGCCCAGTGTTACGAAATATGA
1 AAAGGCTTCGGCCCAGTAATACGAAATATGA
16768378 A
1 A
16768379 GTGTGAAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATACGAAATATGA
Found at i:16773632 original size:42 final size:42
Alignment explanation
Indices: 16773561--16773643 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
16773551 TCAATTCGTT
* * *
16773561 TTACTTTACCCTATTTCCCCTCAATGCCCTGCCAGCCCCACC
1 TTACTTTACCCTATTTCACCTCAAAGCCCTACCAGCCCCACC
** *
16773603 TTACTTTACCCTATTTCATTTCAAAGCCCTATCAGCCCCAC
1 TTACTTTACCCTATTTCACCTCAAAGCCCTACCAGCCCCAC
16773644 TATTTTCCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.20, C:0.42, G:0.06, T:0.31
Consensus pattern (42 bp):
TTACTTTACCCTATTTCACCTCAAAGCCCTACCAGCCCCACC
Found at i:16774599 original size:35 final size:35
Alignment explanation
Indices: 16774553--16774622 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
16774543 GATTTATACG
16774553 TTAATTACTAAGGGTAATTATGTAAATTAGTAAAT
1 TTAATTACTAAGGGTAATTATGTAAATTAGTAAAT
16774588 TTAATTACTAAGGGTAATTATGTAAATTAGTAAAT
1 TTAATTACTAAGGGTAATTATGTAAATTAGTAAAT
16774623 AAGTTAAAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.43, C:0.03, G:0.14, T:0.40
Consensus pattern (35 bp):
TTAATTACTAAGGGTAATTATGTAAATTAGTAAAT
Found at i:16781362 original size:17 final size:19
Alignment explanation
Indices: 16781322--16781363 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
16781312 GCATATGCAT
16781322 ATGT-AAAGAGTTGTGACCA
1 ATGTCAAAGAGTTGTGA-CA
16781341 ATGTCAAAGAGTTG-GA-A
1 ATGTCAAAGAGTTGTGACA
16781358 ATGTCA
1 ATGTCA
16781364 CCAACAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.32
19 6 0.27
20 9 0.41
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (19 bp):
ATGTCAAAGAGTTGTGACA
Found at i:16788456 original size:7 final size:7
Alignment explanation
Indices: 16788439--16788470 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
16788429 TTGTCTATAT
16788439 GATACATA
1 GATA-ATA
16788447 GATAATA
1 GATAATA
16788454 GATAATA
1 GATAATA
16788461 GATAATA
1 GATAATA
16788468 GAT
1 GAT
16788471 TCATTGTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.53, C:0.03, G:0.16, T:0.28
Consensus pattern (7 bp):
GATAATA
Done.